diff --git a/README.md b/README.md
index 76beed753..11cef50a5 100644
--- a/README.md
+++ b/README.md
@@ -4,6 +4,8 @@
 
 For complete documentation of this software, please consult <a href="https://baileylab.ucdavis.edu/software/helios">https://baileylab.ucdavis.edu/software/helios, or open the file doc/html/index.html in a web browser.
 
-Helios is a C++ API for 3D physical simulation of plant and environmental systems. In order to build and compile the core library, you will need to install a C/C++ compiler (recommended are the GNU C compilers version 5.5+), and CMake. In order to run many of the model plug-ins, you will need to install NVIDIA CUDA 9.0+, and a GPU with compute capability 3.5+. The software has been tested on Linux, Mac, and Windows platforms.
+Helios is a C++ library for 3D physical simulation of plant and environmental systems. It can generate and manipulate plant and other geometric objects, which can feed into biophysical model plug-ins such as radiation transfer, photosynthesis, and evapotranspiration, among others. 
+
+In order to build and compile the core library, you will need to install a C/C++ compiler (recommended are the GNU C compilers version 7.0+), and CMake. In order to run many of the model plug-ins, you will need to install NVIDIA CUDA 10.2+, and a GPU with compute capability 5.0+. The software has been tested on Linux, Mac, and Windows platforms. The YouTube channel linked above has a number of tutorials for getting started.
 
 ![Almond Reconstruction](doc/images/AlmondVarietyReconstruction.png)
\ No newline at end of file
diff --git a/core/include/global.h b/core/include/global.h
index 996410dd5..e8acd8393 100755
--- a/core/include/global.h
+++ b/core/include/global.h
@@ -1047,6 +1047,14 @@ namespace helios{
  */
     std::string getFilePath( const std::string &filepath, bool trailingslash = true );
 
+//! Check whether output file and/or directory is valid. Add a trailing slash if it is a directory.
+/**
+ * \param[inout] output_path
+ * \param[in] allowable_file_extensions
+ * \return True if directory/file was valid, false otherwise
+ */
+    bool validateOutputPath(std::string &output_directory, const std::vector<std::string> &allowable_file_extensions = {});
+
 //! Read values contained in a text file into a one-dimensional vector of floats
 /**
   * \param[in] filepath Path to text file
diff --git a/core/src/Context_fileIO.cpp b/core/src/Context_fileIO.cpp
index 1e6d9e826..b1e9ae705 100644
--- a/core/src/Context_fileIO.cpp
+++ b/core/src/Context_fileIO.cpp
@@ -2676,6 +2676,14 @@ void Context::writeXML( const char* filename, const std::vector<uint> &UUIDs, bo
 
   std::string xmlfilename = filename;
 
+  if( !validateOutputPath(xmlfilename) ){
+      helios_runtime_error("ERROR (Context::writeXML): Invalid output file " + xmlfilename + ".");
+  }
+
+  if( getFileName(xmlfilename).empty() ){
+    helios_runtime_error("ERROR (Context::writeXML): Invalid output file " + xmlfilename + ". No file name was provided.");
+  }
+
   auto file_extension = getFileExtension(filename);
   if( file_extension != ".xml" && file_extension != ".XML" ) { // append xml to file name
     xmlfilename.append(".xml");
@@ -4160,7 +4168,7 @@ void Context::writeOBJ( const std::string &filename, const std::vector<uint> &UU
     }
   }
 
-  if( !std::filesystem::exists(file_path) ){
+  if( !file_path.empty() && !std::filesystem::exists(file_path) ){
     if( !std::filesystem::create_directory(file_path) ){
         std::cout << "failed. Directory " << file_path << " does not exist and it could not be created - OBJ file will not be written." << std::endl;
         return;
diff --git a/core/src/global.cpp b/core/src/global.cpp
index 383407e3d..320c87837 100755
--- a/core/src/global.cpp
+++ b/core/src/global.cpp
@@ -2991,73 +2991,78 @@ float helios::point_distance( const helios::vec3 &p1 , const helios::vec3 &p2){
 }
 
 std::string helios::getFileExtension( const std::string &filepath ){
-  std::string ext;
-
-  if( filepath.find_last_of('.')<filepath.size() ){
-    ext = filepath.substr(filepath.find_last_of('.'));
-  }else { // does not contain any .'s
-    return "";
-  }
+    std::filesystem::path output_path_fs = filepath;
+    return output_path_fs.extension().string();
+}
 
-  //edge case when filepath starts with '.' and there is no file extension (e.g., './myfile')
-  if( filepath.find_last_of('.')==0 ){
-    ext = "";
+std::string helios::getFileStem( const std::string &filepath ){
+    std::filesystem::path output_path_fs = filepath;
+    return output_path_fs.stem().string();
+}
 
-  //edge case when file is in a hidden directory AND there is no file extension (return empty string)
-  }else if( filepath.find_last_of('/')<filepath.size() && filepath.at(filepath.find_last_of('.')-1)=='/' ){
-    ext = "";
-  }
+std::string helios::getFileName( const std::string &filepath ){
+    std::filesystem::path output_path_fs = filepath;
+    return output_path_fs.filename().string();
+}
 
-  //edge case when file is in a hidden directory AND there is no file extension AND file path starts with '.' (return empty string)
-  if( filepath.find_last_of('.')==0 ){
-    ext = "";
-  }
+std::string helios::getFilePath( const std::string &filepath, bool trailingslash ){
+    std::filesystem::path output_path_fs = filepath;
+    std::string output_path = output_path_fs.parent_path().string();
+    if( trailingslash ) {
+        if (output_path.find_last_of('/') != output_path.length() - 1) {
+            output_path += "/";
+        }
+    }
 
-  return ext;
+    return output_path;
 }
 
-std::string helios::getFileStem( const std::string &filepath ){
-  std::string fn = filepath;
-  if( filepath.find('/')<filepath.size() ) {
-    fn = filepath.substr(filepath.find_last_of('/') + 1);
-  }else if( filepath.find('\\')<filepath.size() ){
-    fn = filepath.substr(filepath.find_last_of('\\') + 1);
-  }
+bool helios::validateOutputPath(std::string &output_path, const std::vector<std::string> &allowable_file_extensions){
 
-  if( fn.find('.')<fn.size() ) {
-    fn = fn.substr( 0, fn.find_last_of('.') );
-  }
+    if( output_path.empty() ){ //path was empty
+        return false;
+    }
 
-  return fn;
-}
+    std::filesystem::path output_path_fs = output_path;
 
-std::string helios::getFileName( const std::string &filepath ){
-  if( filepath.find('/')<filepath.size() ) {
-    return filepath.substr(filepath.find_last_of('/') + 1);
-  }else if( filepath.find('\\')==filepath.size() ) {
-    return filepath.substr(filepath.find_last_of('\\') + 1);
-  }else{
-    return filepath;
-  }
+    std::string output_file = output_path_fs.filename().string();
+    std::string output_file_ext = output_path_fs.extension().string();
+    std::string output_dir = output_path_fs.parent_path().string();
 
-}
+    if( output_file.empty() ) { //path was a directory without a file
+
+        // Make sure directory has a trailing slash
+        if (output_dir.find_last_of('/') != output_dir.length() - 1) {
+            output_path += "/";
+        }
 
-std::string helios::getFilePath( const std::string &filepath, bool trailingslash ){
-  if( filepath.find('/')==filepath.size() ){
-    if( trailingslash ){
-      std::string str = "/";
-      return str;
-    }else {
-      std::string str;
-      return str;
     }
-  }else{
-    if( trailingslash ) {
-      return filepath.substr(0, filepath.find_last_of('/') + 1);
-    }else{
-      return filepath.substr(0, filepath.find_last_of('/'));
+
+    // Create the output directory if it does not exist
+    if ( !output_dir.empty() && !std::filesystem::exists(output_dir)) {
+        if (!std::filesystem::create_directory(output_dir)) {
+            return false;
+        }
     }
-  }
+
+    if( !output_file.empty() && !allowable_file_extensions.empty() ){
+
+        //validate file extension
+        bool valid_extension = false;
+        for( const auto &ext : allowable_file_extensions ){
+            if( output_file_ext == ext ){
+                valid_extension = true;
+                break;
+            }
+        }
+        if( !valid_extension ){
+            return false;
+        }
+
+    }
+
+    return true;
+
 }
 
 std::vector<float> helios::importVectorFromFile(const std::string &filepath){
diff --git a/doc/CHANGELOG b/doc/CHANGELOG
index b22af9cf6..8446a4767 100644
--- a/doc/CHANGELOG
+++ b/doc/CHANGELOG
@@ -1890,4 +1890,20 @@ The radiation model has been re-designed, with the following primary additions:
 - Addition of variable range parameters for grapevine canopies
 - Addition of parameters to create dead plants or to have missing plants (holes) in grapevine canopies
 - Addition of parameters to set the cordon length independently from the plant spacing for grapevine canopies. Until now, the plant spacing was used so that there was no discontinuity between neighbor vine stocks. These new parameters allow to potentially have gaps between vine stocks, or even have them overlap with each other (if the cordon length is greater than the plant spacing).
-- Addition of a sample project to demonstrate how one could build realistic vineyards based on CanopyGenerator XML configuration.
\ No newline at end of file
+- Addition of a sample project to demonstrate how one could build realistic vineyards based on CanopyGenerator XML configuration.
+
+[1.3.21] 2024-10-24
+
+*Context*
+- There was an error introduced in the previous version for writing OBJ files. If no output directory was explicitly specified, the write would fail.
+- Added validateOutputPath() function to global.cpp to validate output files and directory paths.
+- Replaced getFile*() functions in global.cpp with more robust std::filesystem functions.
+- Added improved file validation to Context::writeXML().
+
+*Radiation*
+- There was an error introduced in the previous version for writing image output files. If no output directory was explicitly specified, the write would fail. Removed the validateOutputPath() function implemented in the previous version, and replaced it with a better version implemented in global.cpp.
+
+*Plant Architecture*
+- The 'tortuosity' shoot parameter was multiplied by a hard-coded factor of 5.0. This was removed, and all tortuosity values in the plant library were scaled by a factor of 5.
+- There were some errors with the parameters of some plants introduced in the previous version.
+- Added file validation to PlantArchitecture::writePlantStructureXML().
diff --git a/doc/Helios_ThirdPartyLicenses.txt b/doc/Helios_ThirdPartyLicenses.txt
new file mode 100644
index 000000000..5aeb80046
--- /dev/null
+++ b/doc/Helios_ThirdPartyLicenses.txt
@@ -0,0 +1,258 @@
+Third Party Licenses as used in Helios
+
+This software may use parts or all of the following thirdparty software:
+
+a. Zlib
+
+  Copyright (C) 1995-2004 Jean-loup Gailly and Mark Adler
+
+This software is provided 'as-is', without any express or implied warranty.  In no event will the authors be held liable for any damages arising from the use of this software.
+Permission is granted to anyone to use this software for any purpose, including commercial applications, and to alter it and redistribute it freely, subject to the following restrictions:
+1. The origin of this software must not be misrepresented; you must not claim that you wrote the original software. If you use this software in a product, an acknowledgment in the product documentation would be appreciated but is not required.
+2. Altered source versions must be plainly marked as such, and must not be misrepresented as being the original software.
+3. This notice may not be removed or altered from any source distribution.
+
+b. libpng
+
+ * Copyright (c) 1995-2019 The PNG Reference Library Authors.
+ * Copyright (c) 2018-2019 Cosmin Truta.
+ * Copyright (c) 2000-2002, 2004, 2006-2018 Glenn Randers-Pehrson.
+ * Copyright (c) 1996-1997 Andreas Dilger.
+ * Copyright (c) 1995-1996 Guy Eric Schalnat, Group 42, Inc.
+
+The software is supplied "as is", without warranty of any kind,
+express or implied, including, without limitation, the warranties
+of merchantability, fitness for a particular purpose, title, and
+non-infringement.  In no event shall the Copyright owners, or
+anyone distributing the software, be liable for any damages or
+other liability, whether in contract, tort or otherwise, arising
+from, out of, or in connection with the software, or the use or
+other dealings in the software, even if advised of the possibility
+of such damage.
+
+Permission is hereby granted to use, copy, modify, and distribute
+this software, or portions hereof, for any purpose, without fee,
+subject to the following restrictions:
+
+ 1. The origin of this software must not be misrepresented; you
+    must not claim that you wrote the original software.  If you
+    use this software in a product, an acknowledgment in the product
+    documentation would be appreciated, but is not required.
+
+ 2. Altered source versions must be plainly marked as such, and must
+    not be misrepresented as being the original software.
+
+ 3. This Copyright notice may not be removed or altered from any
+    source or altered source distribution.
+
+c. pugixml
+
+This library is available to anybody free of charge, under the terms of MIT License:
+
+Copyright (c) 2006-2018 Arseny Kapoulkine
+
+Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the “Software”), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED “AS IS”, WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.
+
+d. Glew
+
+The OpenGL Extension Wrangler Library
+Copyright (C) 2008-2016, Nigel Stewart <nigels[]users sourceforge net>
+Copyright (C) 2002-2008, Milan Ikits <milan ikits[]ieee org>
+Copyright (C) 2002-2008, Marcelo E. Magallon <mmagallo[]debian org>
+Copyright (C) 2002, Lev Povalahev
+All rights reserved.
+
+Redistribution and use in source and binary forms, with or without 
+modification, are permitted provided that the following conditions are met:
+
+Redistributions of source code must retain the above copyright notice, 
+this list of conditions and the following disclaimer.
+Redistributions in binary form must reproduce the above copyright notice, 
+this list of conditions and the following disclaimer in the documentation 
+and/or other materials provided with the distribution.
+The name of the author may be used to endorse or promote products 
+derived from this software without specific prior written permission.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" 
+AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE 
+IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
+ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE 
+LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR 
+CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF 
+SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS
+INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN
+CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
+ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF
+THE POSSIBILITY OF SUCH DAMAGE.
+
+e. freetype
+
+Copyright 1996-2002, 2006 by
+David Turner, Robert Wilhelm, and Werner Lemberg
+
+THE FREETYPE PROJECT  IS PROVIDED `AS IS' WITHOUT  WARRANTY OF ANY
+  KIND, EITHER  EXPRESS OR IMPLIED,  INCLUDING, BUT NOT  LIMITED TO,
+  WARRANTIES  OF  MERCHANTABILITY   AND  FITNESS  FOR  A  PARTICULAR
+  PURPOSE.  IN NO EVENT WILL ANY OF THE AUTHORS OR COPYRIGHT HOLDERS
+  BE LIABLE  FOR ANY DAMAGES CAUSED  BY THE USE OR  THE INABILITY TO
+  USE, OF THE FREETYPE PROJECT.
+
+This  license  grants  a  worldwide, royalty-free,  perpetual  and
+  irrevocable right  and license to use,  execute, perform, compile,
+  display,  copy,   create  derivative  works   of,  distribute  and
+  sublicense the  FreeType Project (in  both source and  object code
+  forms)  and  derivative works  thereof  for  any  purpose; and  to
+  authorize others  to exercise  some or all  of the  rights granted
+  herein, subject to the following conditions:
+
+    o Redistribution of  source code  must retain this  license file
+      (`FTL.TXT') unaltered; any  additions, deletions or changes to
+      the original  files must be clearly  indicated in accompanying
+      documentation.   The  copyright   notices  of  the  unaltered,
+      original  files must  be  preserved in  all  copies of  source
+      files.
+
+    o Redistribution in binary form must provide a  disclaimer  that
+      states  that  the software is based in part of the work of the
+      FreeType Team,  in  the  distribution  documentation.  We also
+      encourage you to put an URL to the FreeType web page  in  your
+      documentation, though this isn't mandatory.
+
+  These conditions  apply to any  software derived from or  based on
+  the FreeType Project,  not just the unmodified files.   If you use
+  our work, you  must acknowledge us.  However, no  fee need be paid
+  to us.
+
+f. GLFW
+
+Copyright © 2002-2006 Marcus Geelnard
+
+Copyright © 2006-2019 Camilla Löwy
+
+This software is provided ‘as-is’, without any express or implied warranty. In no event will the authors be held liable for any damages arising from the use of this software.
+
+Permission is granted to anyone to use this software for any purpose, including commercial applications, and to alter it and redistribute it freely, subject to the following restrictions:
+
+The origin of this software must not be misrepresented; you must not claim that you wrote the original software. If you use this software in a product, an acknowledgment in the product documentation would be appreciated but is not required.
+
+Altered source versions must be plainly marked as such, and must not be misrepresented as being the original software.
+
+This notice may not be removed or altered from any source distribution.
+
+g. glm
+
+================================================================================
+OpenGL Mathematics (GLM)
+--------------------------------------------------------------------------------
+GLM is licensed under The Happy Bunny License and MIT License
+
+================================================================================
+The Happy Bunny License (Modified MIT License)
+--------------------------------------------------------------------------------
+Copyright (c) 2005 - 2014 G-Truc Creation
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in
+all copies or substantial portions of the Software.
+
+Restrictions:
+ By making use of the Software for military purposes, you choose to make a
+ Bunny unhappy.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
+THE SOFTWARE.
+
+================================================================================
+The MIT License
+--------------------------------------------------------------------------------
+Copyright (c) 2005 - 2014 G-Truc Creation
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in
+all copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
+THE SOFTWARE.
+
+h. libjpeg
+
+This software is copyright (C) 1991-2016, Thomas G. Lane, Guido Vollbeding.
+All Rights Reserved except as specified below.
+
+LICENSE TERMS (ships as a part of the libjpeg package in the README file)
+=============
+
+1. We don't promise that this software works.  (But if you find any bugs,
+   please let us know!)
+2. You can use this software for whatever you want.  You don't have to pay us.
+3. You may not pretend that you wrote this software.  If you use it in a
+   program, you must acknowledge somewhere in your documentation that
+   you've used the IJG code.
+
+In legalese:
+
+The authors make NO WARRANTY or representation, either express or implied,
+with respect to this software, its quality, accuracy, merchantability, or
+fitness for a particular purpose.  This software is provided "AS IS", and you,
+its user, assume the entire risk as to its quality and accuracy.
+
+Permission is hereby granted to use, copy, modify, and distribute this
+software (or portions thereof) for any purpose, without fee, subject to these
+conditions:
+(1) If any part of the source code for this software is distributed, then this
+README file must be included, with this copyright and no-warranty notice
+unaltered; and any additions, deletions, or changes to the original files
+must be clearly indicated in accompanying documentation.
+(2) If only executable code is distributed, then the accompanying
+documentation must state that "this software is based in part on the work of
+the Independent JPEG Group".
+(3) Permission for use of this software is granted only if the user accepts
+full responsibility for any undesirable consequences; the authors accept
+NO LIABILITY for damages of any kind.
+
+These conditions apply to any software derived from or based on the IJG code,
+not just to the unmodified library.  If you use our work, you ought to
+acknowledge us.
+
+Permission is NOT granted for the use of any IJG author's name or company name
+in advertising or publicity relating to this software or products derived from
+it.  This software may be referred to only as "the Independent JPEG Group's
+software".
+
+We specifically permit and encourage the use of this software as the basis of
+commercial products, provided that all warranty or liability claims are
+assumed by the product vendor.
+
+i. NVIDIA OpTiX
+
+Copyright (c) 2008 - 2009 NVIDIA Corporation.  All rights reserved.
+
+License Grant. Subject to the terms of this Agreement, NVIDIA hereby grants you a nonexclusive, non-transferable, worldwide, revocable, limited, royalty-free, fully paid-up license to during the term of this Agreement:
+(i) install, use and reproduce the software delivered by NVIDIA, make modifications and create derivative works of sample source code software delivered by NVIDIA and use documentation delivered by NVIDIA, provided that the software is executed only in supported NVIDIA GPU hardware products (as specified in the accompanying documentation, such as release notes) that you separately obtain from NVIDIA or its affiliates, all to develop, test and service your products (each, a “Customer Product”) that are interoperable with supported NVIDIA GPU hardware products; and
+(ii) sub-license and distribute in binary format the API library software and header files as delivered by NVIDIA and sample source code as delivered by NVIDIA or as modified by you, all as incorporated into a Customer Product for use by your recipients only in the supported NVIDIA GPU hardware products separately obtained, provided that: (a) all such distributions by you or your distribution channels are consistent with the terms of this Agreement; and (b) you must enter into enforceable agreements with your recipients that binds them to terms that are consistent with the terms set forth in this Agreement for their use of the software binaries, including (without limitation) terms relating to the license grant and license restrictions, confidentiality and protection of NVIDIA’s intellectual property rights in and to the software you distributed. You are liable for the distribution and the use of distributed software if you failed to comply or enforce the distribution requirements of this Agreement. You agree to notify NVIDIA in writing of any known or suspected use or distribution of the Licensed Software that are not in compliance with the terms of this Agreement.
diff --git a/doc/UserGuide.dox b/doc/UserGuide.dox
index 326d035f7..b1f1bc422 100755
--- a/doc/UserGuide.dox
+++ b/doc/UserGuide.dox
@@ -1,4 +1,4 @@
-/*! \mainpage Helios Documentation v1.3.20
+/*! \mainpage Helios Documentation v1.3.21
 
   <p> <br> </p>
 
diff --git a/doc/header.html b/doc/header.html
index 0a9323908..b5ff30ed7 100644
--- a/doc/header.html
+++ b/doc/header.html
@@ -40,7 +40,7 @@
  <tr id="projectrow">
   <td id="projectlogo"><img alt="Logo" src="Helios_logo_small.png"/></td>
   <td id="projectalign">
-   <div id="projectname"><span id="projectnumber">&#160;v1.3.20</span>
+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
    </div>
   </td>
  </tr>
diff --git a/doc/html/_a_p_i.html b/doc/html/_a_p_i.html
index 84312fcd5..44d5aeb9b 100644
--- a/doc/html/_a_p_i.html
+++ b/doc/html/_a_p_i.html
@@ -38,7 +38,7 @@
  <tr id="projectrow">
   <td id="projectlogo"><img alt="Logo" src="Helios_logo_small.png"/></td>
   <td id="projectalign">
-   <div id="projectname"><span id="projectnumber">&#160;v1.3.20</span>
+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
    </div>
   </td>
  </tr>
diff --git a/doc/html/_aerial_li_d_a_r_8cpp.html b/doc/html/_aerial_li_d_a_r_8cpp.html
index dac6ecbad..682eb3386 100644
--- a/doc/html/_aerial_li_d_a_r_8cpp.html
+++ b/doc/html/_aerial_li_d_a_r_8cpp.html
@@ -38,7 +38,7 @@
  <tr id="projectrow">
   <td id="projectlogo"><img alt="Logo" src="Helios_logo_small.png"/></td>
   <td id="projectalign">
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 <div class="ttc" id="aglobal_8h_html_a876dc18d1da8ace50c131f428f8883be"><div class="ttname"><a href="global_8h.html#a876dc18d1da8ace50c131f428f8883be">helios::nullorigin</a></div><div class="ttdeci">vec3 nullorigin</div><div class="ttdoc">Default null vec3 that gives the origin (0,0,0)</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l00058">global.cpp:58</a></div></div>
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+<div class="ttc" id="aglobal_8h_html_a9fff8cb6c3474de479f81c12f173d3ed"><div class="ttname"><a href="global_8h.html#a9fff8cb6c3474de479f81c12f173d3ed">helios::getFileStem</a></div><div class="ttdeci">std::string getFileStem(const std::string &amp;filepath)</div><div class="ttdoc">Parse a file string to get the filename without extension.</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l02998">global.cpp:2998</a></div></div>
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 <div class="ttc" id="aglobal_8h_html_ade5b9b8370f50d8c2002ba48d47521f5"><div class="ttname"><a href="global_8h.html#ade5b9b8370f50d8c2002ba48d47521f5">helios::readPNGAlpha</a></div><div class="ttdeci">std::vector&lt; std::vector&lt; bool &gt; &gt; readPNGAlpha(const std::string &amp;filename)</div><div class="ttdoc">Function to read the alpha channel from a PNG image.</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l01406">global.cpp:1406</a></div></div>
diff --git a/doc/html/_context_8h.html b/doc/html/_context_8h.html
index 4757716db..270700f05 100644
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 <div class="ttc" id="aclasshelios_1_1_context_html_a0860253c22d51b274a8f63b806ff08c7"><div class="ttname"><a href="classhelios_1_1_context.html#a0860253c22d51b274a8f63b806ff08c7">helios::Context::scalePrimitiveData</a></div><div class="ttdeci">void scalePrimitiveData(const std::vector&lt; uint &gt; &amp;UUIDs, const std::string &amp;label, float scaling_factor)</div><div class="ttdoc">Multiply primitive data values by a constant scaling factor for a subset of primitives.</div><div class="ttdef"><b>Definition</b> <a href="_context__data_8cpp_source.html#l01747">Context_data.cpp:1747</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a0c84572898729e1a1d40415ad633066d"><div class="ttname"><a href="classhelios_1_1_context.html#a0c84572898729e1a1d40415ad633066d">helios::Context::scaleObjectAboutPoint</a></div><div class="ttdeci">void scaleObjectAboutPoint(uint ObjID, const helios::vec3 &amp;scalefact, const helios::vec3 &amp;point)</div><div class="ttdoc">Method to scale a compound object in the x-, y- and z-directions.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l02877">Context.cpp:2877</a></div></div>
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+<div class="ttc" id="aclasshelios_1_1_context_html_a116724929091eabd6324047ed66cef85"><div class="ttname"><a href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">helios::Context::loadPLY</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadPLY(const char *filename, bool silent=false)</div><div class="ttdoc">Load geometry contained in a Stanford polygon file (.ply). Model will be placed at the origin with no...</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l03378">Context_fileIO.cpp:3378</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a1223205f1080b0b7024b8f97950779b8"><div class="ttname"><a href="classhelios_1_1_context.html#a1223205f1080b0b7024b8f97950779b8">helios::Context::getPrimitiveColor</a></div><div class="ttdeci">helios::RGBcolor getPrimitiveColor(uint UUID) const</div><div class="ttdoc">Method to return the diffuse color of a Primitive.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l07071">Context.cpp:7071</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a129516a8fce035705a541e7b877eba2f"><div class="ttname"><a href="classhelios_1_1_context.html#a129516a8fce035705a541e7b877eba2f">helios::Context::loadXML</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadXML(const char *filename, bool quiet=false)</div><div class="ttdoc">Load inputs specified in an XML file.</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l01217">Context_fileIO.cpp:1217</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a14f83860167c061e537f29f7754c12c3"><div class="ttname"><a href="classhelios_1_1_context.html#a14f83860167c061e537f29f7754c12c3">helios::Context::copyObject</a></div><div class="ttdeci">uint copyObject(uint ObjID)</div><div class="ttdoc">Make a copy of a Compound Objects from the context.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l02622">Context.cpp:2622</a></div></div>
@@ -2972,7 +2972,7 @@
 <div class="ttc" id="aclasshelios_1_1_context_html_a1ae827c4e0c90a883430bd1db95993e1"><div class="ttname"><a href="classhelios_1_1_context.html#a1ae827c4e0c90a883430bd1db95993e1">helios::Context::translatePrimitive</a></div><div class="ttdeci">void translatePrimitive(uint UUID, const vec3 &amp;shift)</div><div class="ttdoc">Translate a primitive using its UUID.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l01396">Context.cpp:1396</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a1b9871bf670404adc1d952e59429ec38"><div class="ttname"><a href="classhelios_1_1_context.html#a1b9871bf670404adc1d952e59429ec38">helios::Context::getObjectBoundingBox</a></div><div class="ttdeci">void getObjectBoundingBox(uint ObjID, vec3 &amp;min_corner, vec3 &amp;max_corner) const</div><div class="ttdoc">Get the axis-aligned bounding box for a single object.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l07942">Context.cpp:7942</a></div></div>
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+<div class="ttc" id="aclasshelios_1_1_context_html_a1dc9a0f79be2477c4873755586744e51"><div class="ttname"><a href="classhelios_1_1_context.html#a1dc9a0f79be2477c4873755586744e51">helios::Context::loadTabularTimeseriesData</a></div><div class="ttdeci">void loadTabularTimeseriesData(const std::string &amp;data_file, const std::vector&lt; std::string &gt; &amp;column_labels, const std::string &amp;delimiter, const std::string &amp;date_string_format=&quot;YYYYMMDD&quot;, uint headerlines=0)</div><div class="ttdoc">Load tabular weather data from text file into timeseries.</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l04552">Context_fileIO.cpp:4552</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a1ecbb5a8cfa6764bade6e0650d2f6990"><div class="ttname"><a href="classhelios_1_1_context.html#a1ecbb5a8cfa6764bade6e0650d2f6990">helios::Context::getBoxObjectPointer</a></div><div class="ttdeci">Box * getBoxObjectPointer(uint ObjID) const</div><div class="ttdoc">Get a pointer to a Box Compound Object.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l03916">Context.cpp:3916</a></div></div>
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 <div class="ttc" id="aclasshelios_1_1_context_html_a1ff97eb95d5896e096156320f5bd5ff0"><div class="ttname"><a href="classhelios_1_1_context.html#a1ff97eb95d5896e096156320f5bd5ff0">helios::Context::getConeObjectSubdivisionCount</a></div><div class="ttdeci">uint getConeObjectSubdivisionCount(uint ObjID) const</div><div class="ttdoc">get the subdivision count of a Cone object from the context</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l08194">Context.cpp:8194</a></div></div>
@@ -3051,13 +3051,13 @@
 <div class="ttc" id="aclasshelios_1_1_context_html_a7d0b3a6ca36b02702b06208a735a3b03"><div class="ttname"><a href="classhelios_1_1_context.html#a7d0b3a6ca36b02702b06208a735a3b03">helios::Context::getObjectPrimitiveUUIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getObjectPrimitiveUUIDs(uint ObjID) const</div><div class="ttdoc">Get primitive UUIDs associated with compound object (single object ID input)</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l02887">Context.cpp:2887</a></div></div>
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 <div class="ttc" id="aclasshelios_1_1_context_html_a7fec62cbf2c2d56603b2750cbb4a4d9f"><div class="ttname"><a href="classhelios_1_1_context.html#a7fec62cbf2c2d56603b2750cbb4a4d9f">helios::Context::getPrimitiveTextureSize</a></div><div class="ttdeci">helios::int2 getPrimitiveTextureSize(uint UUID) const</div><div class="ttdoc">Get the size (number of pixels) of primitive texture map image.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l07111">Context.cpp:7111</a></div></div>
-<div class="ttc" id="aclasshelios_1_1_context_html_a8249b03fa781c9382863b7cf2caf0dd8"><div class="ttname"><a href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">helios::Context::writeOBJ</a></div><div class="ttdeci">void writeOBJ(const std::string &amp;filename) const</div><div class="ttdoc">Write geometry in the Context to a Wavefront file (.obj)</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l04123">Context_fileIO.cpp:4123</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_a8249b03fa781c9382863b7cf2caf0dd8"><div class="ttname"><a href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">helios::Context::writeOBJ</a></div><div class="ttdeci">void writeOBJ(const std::string &amp;filename) const</div><div class="ttdoc">Write geometry in the Context to a Wavefront file (.obj)</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l04131">Context_fileIO.cpp:4131</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a842cfdcdce20fb9fef8dc8703f12f1fa"><div class="ttname"><a href="classhelios_1_1_context.html#a842cfdcdce20fb9fef8dc8703f12f1fa">helios::Context::renameGlobalData</a></div><div class="ttdeci">void renameGlobalData(const char *old_label, const char *new_label)</div><div class="ttdoc">Rename global data.</div><div class="ttdef"><b>Definition</b> <a href="_context__data_8cpp_source.html#l03976">Context_data.cpp:3976</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a846f93175f8b45f44237e88155af8fde"><div class="ttname"><a href="classhelios_1_1_context.html#a846f93175f8b45f44237e88155af8fde">helios::Context::getTriangleVertex</a></div><div class="ttdeci">helios::vec3 getTriangleVertex(uint UUID, uint number) const</div><div class="ttdoc">Get a single vertex of a Triangle based on an index.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l01701">Context.cpp:1701</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a847ecbb2297e60220a23b67c39b0f6e2"><div class="ttname"><a href="classhelios_1_1_context.html#a847ecbb2297e60220a23b67c39b0f6e2">helios::Context::getTime</a></div><div class="ttdeci">helios::Time getTime() const</div><div class="ttdoc">Get the simulation time.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l01164">Context.cpp:1164</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a8550633570ee91e4f09ec1464810bd7b"><div class="ttname"><a href="classhelios_1_1_context.html#a8550633570ee91e4f09ec1464810bd7b">helios::Context::getPrimitiveColorRGB</a></div><div class="ttdeci">helios::RGBcolor getPrimitiveColorRGB(uint UUID) const</div><div class="ttdoc">Method to return the diffuse color of a Primitive.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l07075">Context.cpp:7075</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a859979bfe3d7d03b07d3c640ccbc0efa"><div class="ttname"><a href="classhelios_1_1_context.html#a859979bfe3d7d03b07d3c640ccbc0efa">helios::Context::Context</a></div><div class="ttdeci">Context(const Context &amp;)=delete</div><div class="ttdoc">Deleted copy constructor to prevent copying of Context.</div></div>
-<div class="ttc" id="aclasshelios_1_1_context_html_a8657240a0b2926e8c73b083f0fdc339d"><div class="ttname"><a href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">helios::Context::loadOBJ</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadOBJ(const char *filename, bool silent=false)</div><div class="ttdoc">Load geometry contained in a Wavefront OBJ file (.obj). Model will be placed at the origin without an...</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l03734">Context_fileIO.cpp:3734</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_a8657240a0b2926e8c73b083f0fdc339d"><div class="ttname"><a href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">helios::Context::loadOBJ</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadOBJ(const char *filename, bool silent=false)</div><div class="ttdoc">Load geometry contained in a Wavefront OBJ file (.obj). Model will be placed at the origin without an...</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l03742">Context_fileIO.cpp:3742</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a8690412a63d1eff69e679e48d03c9838"><div class="ttname"><a href="classhelios_1_1_context.html#a8690412a63d1eff69e679e48d03c9838">helios::Context::getDomainBoundingBox</a></div><div class="ttdeci">void getDomainBoundingBox(helios::vec2 &amp;xbounds, helios::vec2 &amp;ybounds, helios::vec2 &amp;zbounds) const</div><div class="ttdoc">Get a box that bounds all primitives in the domain.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l02026">Context.cpp:2026</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a86be37149a98b13141175da5793d053e"><div class="ttname"><a href="classhelios_1_1_context.html#a86be37149a98b13141175da5793d053e">helios::Context::duplicatePrimitiveData</a></div><div class="ttdeci">void duplicatePrimitiveData(uint UUID, const char *old_label, const char *new_label)</div><div class="ttdoc">Duplicate/copy primitive data.</div><div class="ttdef"><b>Definition</b> <a href="_context__data_8cpp_source.html#l01229">Context_data.cpp:1229</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a86ffc9a6cdcd3851231c64dcc152123c"><div class="ttname"><a href="classhelios_1_1_context.html#a86ffc9a6cdcd3851231c64dcc152123c">helios::Context::getDiskObjectSubdivisionCount</a></div><div class="ttdeci">uint getDiskObjectSubdivisionCount(uint ObjID) const</div><div class="ttdoc">get the subdivision count of a Disk object from the context</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l08190">Context.cpp:8190</a></div></div>
@@ -3084,7 +3084,7 @@
 <div class="ttc" id="aclasshelios_1_1_context_html_aa2facabc7384ac82a0e51acd59486ae8"><div class="ttname"><a href="classhelios_1_1_context.html#aa2facabc7384ac82a0e51acd59486ae8">helios::Context::clearGlobalData</a></div><div class="ttdeci">void clearGlobalData(const char *label)</div><div class="ttdoc">Delete/clear global data.</div><div class="ttdef"><b>Definition</b> <a href="_context__data_8cpp_source.html#l04045">Context_data.cpp:4045</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_aa34c4f240d760708cf845546cb6bdb93"><div class="ttname"><a href="classhelios_1_1_context.html#aa34c4f240d760708cf845546cb6bdb93">helios::Context::renameObjectData</a></div><div class="ttdeci">void renameObjectData(uint objID, const char *old_label, const char *new_label)</div><div class="ttdoc">Rename existing object data.</div><div class="ttdef"><b>Definition</b> <a href="_context__data_8cpp_source.html#l02979">Context_data.cpp:2979</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_aa4650e7a0a16be12615870ff9a567ae3"><div class="ttname"><a href="classhelios_1_1_context.html#aa4650e7a0a16be12615870ff9a567ae3">helios::Context::getTubeObjectNodes</a></div><div class="ttdeci">std::vector&lt; helios::vec3 &gt; getTubeObjectNodes(uint ObjID) const</div><div class="ttdoc">get the nodes of a Tube object from the context</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l08104">Context.cpp:8104</a></div></div>
-<div class="ttc" id="aclasshelios_1_1_context_html_aa47b8b6f8cefb3c9d55a3cda10d851d7"><div class="ttname"><a href="classhelios_1_1_context.html#aa47b8b6f8cefb3c9d55a3cda10d851d7">helios::Context::writePLY</a></div><div class="ttdeci">void writePLY(const char *filename) const</div><div class="ttdoc">Write geometry in the Context to a Stanford polygon file (.ply)</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l03670">Context_fileIO.cpp:3670</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_aa47b8b6f8cefb3c9d55a3cda10d851d7"><div class="ttname"><a href="classhelios_1_1_context.html#aa47b8b6f8cefb3c9d55a3cda10d851d7">helios::Context::writePLY</a></div><div class="ttdeci">void writePLY(const char *filename) const</div><div class="ttdoc">Write geometry in the Context to a Stanford polygon file (.ply)</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l03678">Context_fileIO.cpp:3678</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_aa60f87c9bc771e613f60db73188a149d"><div class="ttname"><a href="classhelios_1_1_context.html#aa60f87c9bc771e613f60db73188a149d">helios::Context::getTileObjectCenter</a></div><div class="ttdeci">helios::vec3 getTileObjectCenter(uint ObjID) const</div><div class="ttdoc">Get the Cartesian (x,y,z) center position of a tile object.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l08060">Context.cpp:8060</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_aa77f3e51de5230a69bdd70c26c7173e6"><div class="ttname"><a href="classhelios_1_1_context.html#aa77f3e51de5230a69bdd70c26c7173e6">helios::Context::scaleTubeGirth</a></div><div class="ttdeci">void scaleTubeGirth(uint ObjID, float scale_factor)</div><div class="ttdoc">Scale the girth for all nodes of a tube object.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l08138">Context.cpp:8138</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_aa92b28a9c26bbff7e5621e1c9dd48086"><div class="ttname"><a href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">helios::Context::setGlobalData</a></div><div class="ttdeci">void setGlobalData(const char *label, const int &amp;data)</div><div class="ttdoc">Add global data value (int)</div><div class="ttdef"><b>Definition</b> <a href="_context__data_8cpp_source.html#l03769">Context_data.cpp:3769</a></div></div>
@@ -3097,7 +3097,7 @@
 <div class="ttc" id="aclasshelios_1_1_context_html_aaeafd65954d09be5773fbdaba35c694e"><div class="ttname"><a href="classhelios_1_1_context.html#aaeafd65954d09be5773fbdaba35c694e">helios::Context::scalePrimitive</a></div><div class="ttdeci">void scalePrimitive(uint UUID, const helios::vec3 &amp;S)</div><div class="ttdoc">Scale a primitive using its UUID relative to the origin (0,0,0)</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l01481">Context.cpp:1481</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_ab26f963c75aa99d797a43860479910b0"><div class="ttname"><a href="classhelios_1_1_context.html#ab26f963c75aa99d797a43860479910b0">helios::Context::getTubeObjectPointer</a></div><div class="ttdeci">Tube * getTubeObjectPointer(uint ObjID) const</div><div class="ttdoc">Get a pointer to a Tube Compound Object.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l03466">Context.cpp:3466</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_ab3f802aca8dd1930127d9f76358e71cf"><div class="ttname"><a href="classhelios_1_1_context.html#ab3f802aca8dd1930127d9f76358e71cf">helios::Context::getPatchSize</a></div><div class="ttdeci">helios::vec2 getPatchSize(uint UUID) const</div><div class="ttdoc">Get the size of a patch element.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l01674">Context.cpp:1674</a></div></div>
-<div class="ttc" id="aclasshelios_1_1_context_html_ab643fc787ea7b1a215605c369f446844"><div class="ttname"><a href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844">helios::Context::writePrimitiveData</a></div><div class="ttdeci">void writePrimitiveData(std::string filename, const std::vector&lt; std::string &gt; &amp;column_format, bool print_header=false) const</div><div class="ttdoc">Write primitive data to an ASCII text file for all primitives in the Context.</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l04465">Context_fileIO.cpp:4465</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_ab643fc787ea7b1a215605c369f446844"><div class="ttname"><a href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844">helios::Context::writePrimitiveData</a></div><div class="ttdeci">void writePrimitiveData(std::string filename, const std::vector&lt; std::string &gt; &amp;column_format, bool print_header=false) const</div><div class="ttdoc">Write primitive data to an ASCII text file for all primitives in the Context.</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l04473">Context_fileIO.cpp:4473</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_ab77b708ac6b39c1c5e8ecaa4988403b0"><div class="ttname"><a href="classhelios_1_1_context.html#ab77b708ac6b39c1c5e8ecaa4988403b0">helios::Context::getTileObjectVertices</a></div><div class="ttdeci">std::vector&lt; helios::vec3 &gt; getTileObjectVertices(uint ObjID) const</div><div class="ttdoc">get the vertices of a tile object from the context</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l08080">Context.cpp:8080</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_aba4b1c6f469953791017770fd8c18fa1"><div class="ttname"><a href="classhelios_1_1_context.html#aba4b1c6f469953791017770fd8c18fa1">helios::Context::markGeometryDirty</a></div><div class="ttdeci">void markGeometryDirty()</div><div class="ttdoc">Mark the Context geometry as &quot;dirty&quot;, meaning that the geometry has been modified since last set as c...</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l00151">Context.cpp:151</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_abf2e26ac2b32556878be6626a8876569"><div class="ttname"><a href="classhelios_1_1_context.html#abf2e26ac2b32556878be6626a8876569">helios::Context::getPrimitiveBoundingBox</a></div><div class="ttdeci">void getPrimitiveBoundingBox(uint UUID, vec3 &amp;min_corner, vec3 &amp;max_corner) const</div><div class="ttdoc">Get the axis-aligned bounding box for a single primitive.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l07001">Context.cpp:7001</a></div></div>
diff --git a/doc/html/_context__data_8cpp.html b/doc/html/_context__data_8cpp.html
index 7f1d747b2..425f2e0ad 100644
--- a/doc/html/_context__data_8cpp.html
+++ b/doc/html/_context__data_8cpp.html
@@ -38,7 +38,7 @@
  <tr id="projectrow">
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   <td id="projectalign">
-   <div id="projectname"><span id="projectnumber">&#160;v1.3.20</span>
+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
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diff --git a/doc/html/_context__data_8cpp_source.html b/doc/html/_context__data_8cpp_source.html
index 1b1bc06ad..cd0d4a315 100644
--- a/doc/html/_context__data_8cpp_source.html
+++ b/doc/html/_context__data_8cpp_source.html
@@ -38,7 +38,7 @@
  <tr id="projectrow">
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   <td id="projectalign">
-   <div id="projectname"><span id="projectnumber">&#160;v1.3.20</span>
+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
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diff --git a/doc/html/_context__file_i_o_8cpp.html b/doc/html/_context__file_i_o_8cpp.html
index b24b6591e..16d148034 100644
--- a/doc/html/_context__file_i_o_8cpp.html
+++ b/doc/html/_context__file_i_o_8cpp.html
@@ -38,7 +38,7 @@
  <tr id="projectrow">
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   <td id="projectalign">
-   <div id="projectname"><span id="projectnumber">&#160;v1.3.20</span>
+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
    </div>
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diff --git a/doc/html/_context__file_i_o_8cpp_source.html b/doc/html/_context__file_i_o_8cpp_source.html
index a8376fb75..14f0f7b4d 100644
--- a/doc/html/_context__file_i_o_8cpp_source.html
+++ b/doc/html/_context__file_i_o_8cpp_source.html
@@ -38,7 +38,7 @@
  <tr id="projectrow">
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   <td id="projectalign">
-   <div id="projectname"><span id="projectnumber">&#160;v1.3.20</span>
+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
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@@ -2823,2186 +2823,2194 @@
 <div class="line"><a id="l02676" name="l02676"></a><span class="lineno"> 2676</span> </div>
 <div class="line"><a id="l02677" name="l02677"></a><span class="lineno"> 2677</span>  std::string xmlfilename = filename;</div>
 <div class="line"><a id="l02678" name="l02678"></a><span class="lineno"> 2678</span> </div>
-<div class="line"><a id="l02679" name="l02679"></a><span class="lineno"> 2679</span>  <span class="keyword">auto</span> file_extension = <a class="code hl_function" href="global_8h.html#a58e660bb08e1ce13466825ae666467ef">getFileExtension</a>(filename);</div>
-<div class="line"><a id="l02680" name="l02680"></a><span class="lineno"> 2680</span>  <span class="keywordflow">if</span>( file_extension != <span class="stringliteral">&quot;.xml&quot;</span> &amp;&amp; file_extension != <span class="stringliteral">&quot;.XML&quot;</span> ) { <span class="comment">// append xml to file name</span></div>
-<div class="line"><a id="l02681" name="l02681"></a><span class="lineno"> 2681</span>    xmlfilename.append(<span class="stringliteral">&quot;.xml&quot;</span>);</div>
-<div class="line"><a id="l02682" name="l02682"></a><span class="lineno"> 2682</span>  }</div>
-<div class="line"><a id="l02683" name="l02683"></a><span class="lineno"> 2683</span> </div>
-<div class="line"><a id="l02684" name="l02684"></a><span class="lineno"> 2684</span>  std::vector&lt;uint&gt; objectIDs = <a class="code hl_function" href="classhelios_1_1_context.html#a18a276db8d3c1d754bbd1ca475deec82">getUniquePrimitiveParentObjectIDs</a>( UUIDs, <span class="keyword">false</span> );</div>
-<div class="line"><a id="l02685" name="l02685"></a><span class="lineno"> 2685</span> </div>
-<div class="line"><a id="l02686" name="l02686"></a><span class="lineno"> 2686</span>  std::ofstream outfile;</div>
-<div class="line"><a id="l02687" name="l02687"></a><span class="lineno"> 2687</span>  outfile.open(xmlfilename);</div>
-<div class="line"><a id="l02688" name="l02688"></a><span class="lineno"> 2688</span> </div>
-<div class="line"><a id="l02689" name="l02689"></a><span class="lineno"> 2689</span>  outfile &lt;&lt; <span class="stringliteral">&quot;&lt;?xml version=\&quot;1.0\&quot;?&gt;\n\n&quot;</span>;</div>
-<div class="line"><a id="l02690" name="l02690"></a><span class="lineno"> 2690</span> </div>
-<div class="line"><a id="l02691" name="l02691"></a><span class="lineno"> 2691</span>  outfile &lt;&lt; <span class="stringliteral">&quot;&lt;helios&gt;\n\n&quot;</span>;</div>
-<div class="line"><a id="l02692" name="l02692"></a><span class="lineno"> 2692</span> </div>
-<div class="line"><a id="l02693" name="l02693"></a><span class="lineno"> 2693</span>  <span class="comment">// -- time/date -- //</span></div>
-<div class="line"><a id="l02694" name="l02694"></a><span class="lineno"> 2694</span> </div>
-<div class="line"><a id="l02695" name="l02695"></a><span class="lineno"> 2695</span>  <a class="code hl_struct" href="structhelios_1_1_date.html">Date</a> date = <a class="code hl_function" href="classhelios_1_1_context.html#a95dd5bc221cd8bcb4efabd0122d59b4f">getDate</a>();</div>
+<div class="line"><a id="l02679" name="l02679"></a><span class="lineno"> 2679</span>  <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9">validateOutputPath</a>(xmlfilename) ){</div>
+<div class="line"><a id="l02680" name="l02680"></a><span class="lineno"> 2680</span>      <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::writeXML): Invalid output file &quot;</span> + xmlfilename + <span class="stringliteral">&quot;.&quot;</span>);</div>
+<div class="line"><a id="l02681" name="l02681"></a><span class="lineno"> 2681</span>  }</div>
+<div class="line"><a id="l02682" name="l02682"></a><span class="lineno"> 2682</span> </div>
+<div class="line"><a id="l02683" name="l02683"></a><span class="lineno"> 2683</span>  <span class="keywordflow">if</span>( <a class="code hl_function" href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902">getFileName</a>(xmlfilename).empty() ){</div>
+<div class="line"><a id="l02684" name="l02684"></a><span class="lineno"> 2684</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::writeXML): Invalid output file &quot;</span> + xmlfilename + <span class="stringliteral">&quot;. No file name was provided.&quot;</span>);</div>
+<div class="line"><a id="l02685" name="l02685"></a><span class="lineno"> 2685</span>  }</div>
+<div class="line"><a id="l02686" name="l02686"></a><span class="lineno"> 2686</span> </div>
+<div class="line"><a id="l02687" name="l02687"></a><span class="lineno"> 2687</span>  <span class="keyword">auto</span> file_extension = <a class="code hl_function" href="global_8h.html#a58e660bb08e1ce13466825ae666467ef">getFileExtension</a>(filename);</div>
+<div class="line"><a id="l02688" name="l02688"></a><span class="lineno"> 2688</span>  <span class="keywordflow">if</span>( file_extension != <span class="stringliteral">&quot;.xml&quot;</span> &amp;&amp; file_extension != <span class="stringliteral">&quot;.XML&quot;</span> ) { <span class="comment">// append xml to file name</span></div>
+<div class="line"><a id="l02689" name="l02689"></a><span class="lineno"> 2689</span>    xmlfilename.append(<span class="stringliteral">&quot;.xml&quot;</span>);</div>
+<div class="line"><a id="l02690" name="l02690"></a><span class="lineno"> 2690</span>  }</div>
+<div class="line"><a id="l02691" name="l02691"></a><span class="lineno"> 2691</span> </div>
+<div class="line"><a id="l02692" name="l02692"></a><span class="lineno"> 2692</span>  std::vector&lt;uint&gt; objectIDs = <a class="code hl_function" href="classhelios_1_1_context.html#a18a276db8d3c1d754bbd1ca475deec82">getUniquePrimitiveParentObjectIDs</a>( UUIDs, <span class="keyword">false</span> );</div>
+<div class="line"><a id="l02693" name="l02693"></a><span class="lineno"> 2693</span> </div>
+<div class="line"><a id="l02694" name="l02694"></a><span class="lineno"> 2694</span>  std::ofstream outfile;</div>
+<div class="line"><a id="l02695" name="l02695"></a><span class="lineno"> 2695</span>  outfile.open(xmlfilename);</div>
 <div class="line"><a id="l02696" name="l02696"></a><span class="lineno"> 2696</span> </div>
-<div class="line"><a id="l02697" name="l02697"></a><span class="lineno"> 2697</span>  outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;date&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02697" name="l02697"></a><span class="lineno"> 2697</span>  outfile &lt;&lt; <span class="stringliteral">&quot;&lt;?xml version=\&quot;1.0\&quot;?&gt;\n\n&quot;</span>;</div>
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-<div class="line"><a id="l02699" name="l02699"></a><span class="lineno"> 2699</span>  outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;day&gt;&quot;</span> &lt;&lt; date.<a class="code hl_variable" href="structhelios_1_1_date.html#a876b0513daf0bcf0ab305029be3377d8">day</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/day&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02700" name="l02700"></a><span class="lineno"> 2700</span>  outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;month&gt;&quot;</span> &lt;&lt; date.<a class="code hl_variable" href="structhelios_1_1_date.html#a5d75f8c8616d778e470a59e0b3e890a3">month</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/month&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02701" name="l02701"></a><span class="lineno"> 2701</span>  outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;year&gt;&quot;</span> &lt;&lt; date.<a class="code hl_variable" href="structhelios_1_1_date.html#aee4be32c2bd722143658b4771fe96253">year</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/year&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02699" name="l02699"></a><span class="lineno"> 2699</span>  outfile &lt;&lt; <span class="stringliteral">&quot;&lt;helios&gt;\n\n&quot;</span>;</div>
+<div class="line"><a id="l02700" name="l02700"></a><span class="lineno"> 2700</span> </div>
+<div class="line"><a id="l02701" name="l02701"></a><span class="lineno"> 2701</span>  <span class="comment">// -- time/date -- //</span></div>
 <div class="line"><a id="l02702" name="l02702"></a><span class="lineno"> 2702</span> </div>
-<div class="line"><a id="l02703" name="l02703"></a><span class="lineno"> 2703</span>  outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/date&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02703" name="l02703"></a><span class="lineno"> 2703</span>  <a class="code hl_struct" href="structhelios_1_1_date.html">Date</a> date = <a class="code hl_function" href="classhelios_1_1_context.html#a95dd5bc221cd8bcb4efabd0122d59b4f">getDate</a>();</div>
 <div class="line"><a id="l02704" name="l02704"></a><span class="lineno"> 2704</span> </div>
-<div class="line"><a id="l02705" name="l02705"></a><span class="lineno"> 2705</span>  <a class="code hl_struct" href="structhelios_1_1_time.html">Time</a> time = <a class="code hl_function" href="classhelios_1_1_context.html#a847ecbb2297e60220a23b67c39b0f6e2">getTime</a>();</div>
+<div class="line"><a id="l02705" name="l02705"></a><span class="lineno"> 2705</span>  outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;date&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l02706" name="l02706"></a><span class="lineno"> 2706</span> </div>
-<div class="line"><a id="l02707" name="l02707"></a><span class="lineno"> 2707</span>  outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;time&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02708" name="l02708"></a><span class="lineno"> 2708</span> </div>
-<div class="line"><a id="l02709" name="l02709"></a><span class="lineno"> 2709</span>  outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;hour&gt;&quot;</span> &lt;&lt; time.<a class="code hl_variable" href="structhelios_1_1_time.html#a6ec639cf61cf283c5e999d152d27839f">hour</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/hour&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02710" name="l02710"></a><span class="lineno"> 2710</span>  outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;minute&gt;&quot;</span> &lt;&lt; time.<a class="code hl_variable" href="structhelios_1_1_time.html#a744b90da076192b90a3ee4ce2ff3743a">minute</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/minute&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02711" name="l02711"></a><span class="lineno"> 2711</span>  outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;second&gt;&quot;</span> &lt;&lt; time.<a class="code hl_variable" href="structhelios_1_1_time.html#a627acedd68e0228600727b867db537dd">second</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/second&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02707" name="l02707"></a><span class="lineno"> 2707</span>  outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;day&gt;&quot;</span> &lt;&lt; date.<a class="code hl_variable" href="structhelios_1_1_date.html#a876b0513daf0bcf0ab305029be3377d8">day</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/day&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02708" name="l02708"></a><span class="lineno"> 2708</span>  outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;month&gt;&quot;</span> &lt;&lt; date.<a class="code hl_variable" href="structhelios_1_1_date.html#a5d75f8c8616d778e470a59e0b3e890a3">month</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/month&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02709" name="l02709"></a><span class="lineno"> 2709</span>  outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;year&gt;&quot;</span> &lt;&lt; date.<a class="code hl_variable" href="structhelios_1_1_date.html#aee4be32c2bd722143658b4771fe96253">year</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/year&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02710" name="l02710"></a><span class="lineno"> 2710</span> </div>
+<div class="line"><a id="l02711" name="l02711"></a><span class="lineno"> 2711</span>  outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/date&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l02712" name="l02712"></a><span class="lineno"> 2712</span> </div>
-<div class="line"><a id="l02713" name="l02713"></a><span class="lineno"> 2713</span>  outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/time&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02713" name="l02713"></a><span class="lineno"> 2713</span>  <a class="code hl_struct" href="structhelios_1_1_time.html">Time</a> time = <a class="code hl_function" href="classhelios_1_1_context.html#a847ecbb2297e60220a23b67c39b0f6e2">getTime</a>();</div>
 <div class="line"><a id="l02714" name="l02714"></a><span class="lineno"> 2714</span> </div>
-<div class="line"><a id="l02715" name="l02715"></a><span class="lineno"> 2715</span>  <span class="comment">// -- primitives -- //</span></div>
+<div class="line"><a id="l02715" name="l02715"></a><span class="lineno"> 2715</span>  outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;time&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l02716" name="l02716"></a><span class="lineno"> 2716</span> </div>
-<div class="line"><a id="l02717" name="l02717"></a><span class="lineno"> 2717</span>  <span class="keywordflow">for</span>( uint UUID : UUIDs ){</div>
-<div class="line"><a id="l02718" name="l02718"></a><span class="lineno"> 2718</span> </div>
-<div class="line"><a id="l02719" name="l02719"></a><span class="lineno"> 2719</span>    uint p = UUID;</div>
+<div class="line"><a id="l02717" name="l02717"></a><span class="lineno"> 2717</span>  outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;hour&gt;&quot;</span> &lt;&lt; time.<a class="code hl_variable" href="structhelios_1_1_time.html#a6ec639cf61cf283c5e999d152d27839f">hour</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/hour&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02718" name="l02718"></a><span class="lineno"> 2718</span>  outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;minute&gt;&quot;</span> &lt;&lt; time.<a class="code hl_variable" href="structhelios_1_1_time.html#a744b90da076192b90a3ee4ce2ff3743a">minute</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/minute&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02719" name="l02719"></a><span class="lineno"> 2719</span>  outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;second&gt;&quot;</span> &lt;&lt; time.<a class="code hl_variable" href="structhelios_1_1_time.html#a627acedd68e0228600727b867db537dd">second</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/second&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l02720" name="l02720"></a><span class="lineno"> 2720</span> </div>
-<div class="line"><a id="l02721" name="l02721"></a><span class="lineno"> 2721</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(p) ){</div>
-<div class="line"><a id="l02722" name="l02722"></a><span class="lineno"> 2722</span>        <span class="keywordflow">if</span>( <a class="code hl_function" href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">doesObjectExist</a>(p) ){</div>
-<div class="line"><a id="l02723" name="l02723"></a><span class="lineno"> 2723</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::writeXML): Primitive with UUID of &quot;</span> + std::to_string(p) + <span class="stringliteral">&quot; does not exist. There is a compound object with this ID - did you mean to call Context::writeXML_byobject()?&quot;</span>);</div>
-<div class="line"><a id="l02724" name="l02724"></a><span class="lineno"> 2724</span>        }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l02725" name="l02725"></a><span class="lineno"> 2725</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::writeXML): Primitive with UUID of &quot;</span> + std::to_string(p) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02726" name="l02726"></a><span class="lineno"> 2726</span>        }</div>
-<div class="line"><a id="l02727" name="l02727"></a><span class="lineno"> 2727</span>    }</div>
+<div class="line"><a id="l02721" name="l02721"></a><span class="lineno"> 2721</span>  outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/time&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02722" name="l02722"></a><span class="lineno"> 2722</span> </div>
+<div class="line"><a id="l02723" name="l02723"></a><span class="lineno"> 2723</span>  <span class="comment">// -- primitives -- //</span></div>
+<div class="line"><a id="l02724" name="l02724"></a><span class="lineno"> 2724</span> </div>
+<div class="line"><a id="l02725" name="l02725"></a><span class="lineno"> 2725</span>  <span class="keywordflow">for</span>( uint UUID : UUIDs ){</div>
+<div class="line"><a id="l02726" name="l02726"></a><span class="lineno"> 2726</span> </div>
+<div class="line"><a id="l02727" name="l02727"></a><span class="lineno"> 2727</span>    uint p = UUID;</div>
 <div class="line"><a id="l02728" name="l02728"></a><span class="lineno"> 2728</span> </div>
-<div class="line"><a id="l02729" name="l02729"></a><span class="lineno"> 2729</span>    Primitive* prim = getPrimitivePointer_private(p);</div>
-<div class="line"><a id="l02730" name="l02730"></a><span class="lineno"> 2730</span> </div>
-<div class="line"><a id="l02731" name="l02731"></a><span class="lineno"> 2731</span>    uint parent_objID = prim-&gt;getParentObjectID();</div>
-<div class="line"><a id="l02732" name="l02732"></a><span class="lineno"> 2732</span> </div>
-<div class="line"><a id="l02733" name="l02733"></a><span class="lineno"> 2733</span>    <a class="code hl_struct" href="structhelios_1_1_r_g_b_acolor.html">RGBAcolor</a> color = prim-&gt;getColorRGBA();</div>
-<div class="line"><a id="l02734" name="l02734"></a><span class="lineno"> 2734</span> </div>
-<div class="line"><a id="l02735" name="l02735"></a><span class="lineno"> 2735</span>    std::string texture_file = prim-&gt;getTextureFile();</div>
+<div class="line"><a id="l02729" name="l02729"></a><span class="lineno"> 2729</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(p) ){</div>
+<div class="line"><a id="l02730" name="l02730"></a><span class="lineno"> 2730</span>        <span class="keywordflow">if</span>( <a class="code hl_function" href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">doesObjectExist</a>(p) ){</div>
+<div class="line"><a id="l02731" name="l02731"></a><span class="lineno"> 2731</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::writeXML): Primitive with UUID of &quot;</span> + std::to_string(p) + <span class="stringliteral">&quot; does not exist. There is a compound object with this ID - did you mean to call Context::writeXML_byobject()?&quot;</span>);</div>
+<div class="line"><a id="l02732" name="l02732"></a><span class="lineno"> 2732</span>        }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l02733" name="l02733"></a><span class="lineno"> 2733</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::writeXML): Primitive with UUID of &quot;</span> + std::to_string(p) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02734" name="l02734"></a><span class="lineno"> 2734</span>        }</div>
+<div class="line"><a id="l02735" name="l02735"></a><span class="lineno"> 2735</span>    }</div>
 <div class="line"><a id="l02736" name="l02736"></a><span class="lineno"> 2736</span> </div>
-<div class="line"><a id="l02737" name="l02737"></a><span class="lineno"> 2737</span>    std::vector&lt;std::string&gt; pdata = prim-&gt;listPrimitiveData();</div>
+<div class="line"><a id="l02737" name="l02737"></a><span class="lineno"> 2737</span>    Primitive* prim = getPrimitivePointer_private(p);</div>
 <div class="line"><a id="l02738" name="l02738"></a><span class="lineno"> 2738</span> </div>
-<div class="line"><a id="l02739" name="l02739"></a><span class="lineno"> 2739</span>    <span class="comment">//if this primitive is a member of a compound object that is &quot;complete&quot;, don&#39;t write it to XML</span></div>
-<div class="line"><a id="l02740" name="l02740"></a><span class="lineno"> 2740</span>    <span class="comment">//\todo This was included to make the XML files more efficient and avoid writing all object primitives to file. However, it doesn&#39;t work in some cases because it makes it hard to figure out the primitive transformations.</span></div>
-<div class="line"><a id="l02741" name="l02741"></a><span class="lineno"> 2741</span><span class="comment">//    if( parent_objID&gt;0 &amp;&amp; areObjectPrimitivesComplete(parent_objID) ){</span></div>
-<div class="line"><a id="l02742" name="l02742"></a><span class="lineno"> 2742</span><span class="comment">//      continue;</span></div>
-<div class="line"><a id="l02743" name="l02743"></a><span class="lineno"> 2743</span><span class="comment">//    }</span></div>
+<div class="line"><a id="l02739" name="l02739"></a><span class="lineno"> 2739</span>    uint parent_objID = prim-&gt;getParentObjectID();</div>
+<div class="line"><a id="l02740" name="l02740"></a><span class="lineno"> 2740</span> </div>
+<div class="line"><a id="l02741" name="l02741"></a><span class="lineno"> 2741</span>    <a class="code hl_struct" href="structhelios_1_1_r_g_b_acolor.html">RGBAcolor</a> color = prim-&gt;getColorRGBA();</div>
+<div class="line"><a id="l02742" name="l02742"></a><span class="lineno"> 2742</span> </div>
+<div class="line"><a id="l02743" name="l02743"></a><span class="lineno"> 2743</span>    std::string texture_file = prim-&gt;getTextureFile();</div>
 <div class="line"><a id="l02744" name="l02744"></a><span class="lineno"> 2744</span> </div>
-<div class="line"><a id="l02745" name="l02745"></a><span class="lineno"> 2745</span>    <span class="keywordflow">if</span>( prim-&gt;getType()==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a6fcd29f0c812849b3eb5bedec52cd744">PRIMITIVE_TYPE_PATCH</a> ){</div>
-<div class="line"><a id="l02746" name="l02746"></a><span class="lineno"> 2746</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;patch&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02747" name="l02747"></a><span class="lineno"> 2747</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( prim-&gt;getType()==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601aeed8005c1692d92beefcbafe8147207c">PRIMITIVE_TYPE_TRIANGLE</a> ){</div>
-<div class="line"><a id="l02748" name="l02748"></a><span class="lineno"> 2748</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;triangle&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02749" name="l02749"></a><span class="lineno"> 2749</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( prim-&gt;getType()==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a963e2e943d9bd4d5c4648473802cf78c">PRIMITIVE_TYPE_VOXEL</a> ){</div>
-<div class="line"><a id="l02750" name="l02750"></a><span class="lineno"> 2750</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;voxel&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02751" name="l02751"></a><span class="lineno"> 2751</span>    }</div>
+<div class="line"><a id="l02745" name="l02745"></a><span class="lineno"> 2745</span>    std::vector&lt;std::string&gt; pdata = prim-&gt;listPrimitiveData();</div>
+<div class="line"><a id="l02746" name="l02746"></a><span class="lineno"> 2746</span> </div>
+<div class="line"><a id="l02747" name="l02747"></a><span class="lineno"> 2747</span>    <span class="comment">//if this primitive is a member of a compound object that is &quot;complete&quot;, don&#39;t write it to XML</span></div>
+<div class="line"><a id="l02748" name="l02748"></a><span class="lineno"> 2748</span>    <span class="comment">//\todo This was included to make the XML files more efficient and avoid writing all object primitives to file. However, it doesn&#39;t work in some cases because it makes it hard to figure out the primitive transformations.</span></div>
+<div class="line"><a id="l02749" name="l02749"></a><span class="lineno"> 2749</span><span class="comment">//    if( parent_objID&gt;0 &amp;&amp; areObjectPrimitivesComplete(parent_objID) ){</span></div>
+<div class="line"><a id="l02750" name="l02750"></a><span class="lineno"> 2750</span><span class="comment">//      continue;</span></div>
+<div class="line"><a id="l02751" name="l02751"></a><span class="lineno"> 2751</span><span class="comment">//    }</span></div>
 <div class="line"><a id="l02752" name="l02752"></a><span class="lineno"> 2752</span> </div>
-<div class="line"><a id="l02753" name="l02753"></a><span class="lineno"> 2753</span>    outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;UUID&gt;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;&lt;/UUID&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02754" name="l02754"></a><span class="lineno"> 2754</span> </div>
-<div class="line"><a id="l02755" name="l02755"></a><span class="lineno"> 2755</span>    <span class="keywordflow">if</span>( parent_objID&gt;0 ){</div>
-<div class="line"><a id="l02756" name="l02756"></a><span class="lineno"> 2756</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;objID&gt;&quot;</span> &lt;&lt; parent_objID &lt;&lt; <span class="stringliteral">&quot;&lt;/objID&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02757" name="l02757"></a><span class="lineno"> 2757</span>    }</div>
-<div class="line"><a id="l02758" name="l02758"></a><span class="lineno"> 2758</span> </div>
-<div class="line"><a id="l02759" name="l02759"></a><span class="lineno"> 2759</span>    outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;color&gt;&quot;</span> &lt;&lt; color.<a class="code hl_variable" href="structhelios_1_1_r_g_b_acolor.html#a15af7f1c4d0e5e23a7ec2488fe0964df">r</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; color.<a class="code hl_variable" href="structhelios_1_1_r_g_b_acolor.html#ac018f8ed01b4d4128a68ebe42e1e6a00">g</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; color.<a class="code hl_variable" href="structhelios_1_1_r_g_b_acolor.html#aaa86bd3e17f03ffdc182c5c9b67587e3">b</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; color.<a class="code hl_variable" href="structhelios_1_1_r_g_b_acolor.html#a1941a63762f40fe1aabc5bb863a7aa1e">a</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/color&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02760" name="l02760"></a><span class="lineno"> 2760</span>    <span class="keywordflow">if</span>( prim-&gt;hasTexture() ){</div>
-<div class="line"><a id="l02761" name="l02761"></a><span class="lineno"> 2761</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;texture&gt;&quot;</span> &lt;&lt; texture_file &lt;&lt; <span class="stringliteral">&quot;&lt;/texture&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02762" name="l02762"></a><span class="lineno"> 2762</span>    }</div>
-<div class="line"><a id="l02763" name="l02763"></a><span class="lineno"> 2763</span> </div>
-<div class="line"><a id="l02764" name="l02764"></a><span class="lineno"> 2764</span>    <span class="keywordflow">if</span>( !pdata.empty() ){</div>
-<div class="line"><a id="l02765" name="l02765"></a><span class="lineno"> 2765</span>      writeDataToXMLstream( <span class="stringliteral">&quot;primitive&quot;</span>, pdata, prim, outfile );</div>
-<div class="line"><a id="l02766" name="l02766"></a><span class="lineno"> 2766</span>    }</div>
-<div class="line"><a id="l02767" name="l02767"></a><span class="lineno"> 2767</span> </div>
-<div class="line"><a id="l02768" name="l02768"></a><span class="lineno"> 2768</span>    <span class="comment">//Patches</span></div>
-<div class="line"><a id="l02769" name="l02769"></a><span class="lineno"> 2769</span>    <span class="keywordflow">if</span>( prim-&gt;getType()==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a6fcd29f0c812849b3eb5bedec52cd744">PRIMITIVE_TYPE_PATCH</a>  ){</div>
-<div class="line"><a id="l02770" name="l02770"></a><span class="lineno"> 2770</span> </div>
-<div class="line"><a id="l02771" name="l02771"></a><span class="lineno"> 2771</span>      Patch* patch = getPatchPointer_private(p);</div>
-<div class="line"><a id="l02772" name="l02772"></a><span class="lineno"> 2772</span>      <span class="keywordtype">float</span> transform[16];</div>
-<div class="line"><a id="l02773" name="l02773"></a><span class="lineno"> 2773</span>      prim-&gt;getTransformationMatrix(transform);</div>
-<div class="line"><a id="l02774" name="l02774"></a><span class="lineno"> 2774</span> </div>
-<div class="line"><a id="l02775" name="l02775"></a><span class="lineno"> 2775</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt;&quot;</span>;</div>
-<div class="line"><a id="l02776" name="l02776"></a><span class="lineno"> 2776</span>      <span class="keywordflow">for</span>(<span class="keywordtype">float</span> i : transform){</div>
-<div class="line"><a id="l02777" name="l02777"></a><span class="lineno"> 2777</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l02778" name="l02778"></a><span class="lineno"> 2778</span>      }</div>
-<div class="line"><a id="l02779" name="l02779"></a><span class="lineno"> 2779</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02780" name="l02780"></a><span class="lineno"> 2780</span>      std::vector&lt;vec2&gt; uv = patch-&gt;getTextureUV();</div>
-<div class="line"><a id="l02781" name="l02781"></a><span class="lineno"> 2781</span>      <span class="keywordflow">if</span>( !uv.empty() ){</div>
-<div class="line"><a id="l02782" name="l02782"></a><span class="lineno"> 2782</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;textureUV&gt;&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02783" name="l02783"></a><span class="lineno"> 2783</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;uv.size(); i++ ){</div>
-<div class="line"><a id="l02784" name="l02784"></a><span class="lineno"> 2784</span>          outfile &lt;&lt; uv.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; uv.at(i).y &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02785" name="l02785"></a><span class="lineno"> 2785</span>          <span class="keywordflow">if</span>( i!=uv.size()-1 ){</div>
-<div class="line"><a id="l02786" name="l02786"></a><span class="lineno"> 2786</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02787" name="l02787"></a><span class="lineno"> 2787</span>          }</div>
-<div class="line"><a id="l02788" name="l02788"></a><span class="lineno"> 2788</span>        }</div>
-<div class="line"><a id="l02789" name="l02789"></a><span class="lineno"> 2789</span>        outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/textureUV&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02790" name="l02790"></a><span class="lineno"> 2790</span>      }</div>
-<div class="line"><a id="l02791" name="l02791"></a><span class="lineno"> 2791</span>      <span class="keywordflow">if</span>( <a class="code hl_function" href="classhelios_1_1_context.html#a5e10a8afe134f4a55f65c81a9398c69c">primitiveTextureHasTransparencyChannel</a>(p) ){</div>
-<div class="line"><a id="l02792" name="l02792"></a><span class="lineno"> 2792</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;solid_fraction&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="classhelios_1_1_context.html#a6e8a5e2044331158d69d6f9bd88fc0f7">getPrimitiveSolidFraction</a>(p) &lt;&lt; <span class="stringliteral">&quot;&lt;/solid_fraction&gt;\n&quot;</span>;</div>
-<div class="line"><a id="l02793" name="l02793"></a><span class="lineno"> 2793</span>      }</div>
-<div class="line"><a id="l02794" name="l02794"></a><span class="lineno"> 2794</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/patch&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02795" name="l02795"></a><span class="lineno"> 2795</span> </div>
-<div class="line"><a id="l02796" name="l02796"></a><span class="lineno"> 2796</span>      <span class="comment">//Triangles</span></div>
-<div class="line"><a id="l02797" name="l02797"></a><span class="lineno"> 2797</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( prim-&gt;getType()==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601aeed8005c1692d92beefcbafe8147207c">PRIMITIVE_TYPE_TRIANGLE</a> ){</div>
-<div class="line"><a id="l02798" name="l02798"></a><span class="lineno"> 2798</span> </div>
-<div class="line"><a id="l02799" name="l02799"></a><span class="lineno"> 2799</span>      <span class="keywordtype">float</span> transform[16];</div>
-<div class="line"><a id="l02800" name="l02800"></a><span class="lineno"> 2800</span>      prim-&gt;getTransformationMatrix(transform);</div>
-<div class="line"><a id="l02801" name="l02801"></a><span class="lineno"> 2801</span> </div>
-<div class="line"><a id="l02802" name="l02802"></a><span class="lineno"> 2802</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt;&quot;</span>;</div>
-<div class="line"><a id="l02803" name="l02803"></a><span class="lineno"> 2803</span>      <span class="keywordflow">for</span>(<span class="keywordtype">float</span> i : transform){</div>
-<div class="line"><a id="l02804" name="l02804"></a><span class="lineno"> 2804</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l02805" name="l02805"></a><span class="lineno"> 2805</span>      }</div>
-<div class="line"><a id="l02806" name="l02806"></a><span class="lineno"> 2806</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02807" name="l02807"></a><span class="lineno"> 2807</span> </div>
-<div class="line"><a id="l02808" name="l02808"></a><span class="lineno"> 2808</span>      std::vector&lt;vec2&gt; uv = getTrianglePointer_private(p)-&gt;getTextureUV();</div>
-<div class="line"><a id="l02809" name="l02809"></a><span class="lineno"> 2809</span>      <span class="keywordflow">if</span>( !uv.empty() ){</div>
-<div class="line"><a id="l02810" name="l02810"></a><span class="lineno"> 2810</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;textureUV&gt;&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02811" name="l02811"></a><span class="lineno"> 2811</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;uv.size(); i++ ){</div>
-<div class="line"><a id="l02812" name="l02812"></a><span class="lineno"> 2812</span>          outfile &lt;&lt; uv.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; uv.at(i).y &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02813" name="l02813"></a><span class="lineno"> 2813</span>          <span class="keywordflow">if</span>( i!=uv.size()-1 ){</div>
-<div class="line"><a id="l02814" name="l02814"></a><span class="lineno"> 2814</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02815" name="l02815"></a><span class="lineno"> 2815</span>          }</div>
-<div class="line"><a id="l02816" name="l02816"></a><span class="lineno"> 2816</span>        }</div>
-<div class="line"><a id="l02817" name="l02817"></a><span class="lineno"> 2817</span>        outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/textureUV&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02818" name="l02818"></a><span class="lineno"> 2818</span>      }</div>
-<div class="line"><a id="l02819" name="l02819"></a><span class="lineno"> 2819</span>      <span class="keywordflow">if</span>( <a class="code hl_function" href="classhelios_1_1_context.html#a5e10a8afe134f4a55f65c81a9398c69c">primitiveTextureHasTransparencyChannel</a>(p) ){</div>
-<div class="line"><a id="l02820" name="l02820"></a><span class="lineno"> 2820</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;solid_fraction&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="classhelios_1_1_context.html#a6e8a5e2044331158d69d6f9bd88fc0f7">getPrimitiveSolidFraction</a>(p) &lt;&lt; <span class="stringliteral">&quot;&lt;/solid_fraction&gt;\n&quot;</span>;</div>
-<div class="line"><a id="l02821" name="l02821"></a><span class="lineno"> 2821</span>      }</div>
-<div class="line"><a id="l02822" name="l02822"></a><span class="lineno"> 2822</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/triangle&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02823" name="l02823"></a><span class="lineno"> 2823</span> </div>
-<div class="line"><a id="l02824" name="l02824"></a><span class="lineno"> 2824</span>      <span class="comment">//Voxels</span></div>
-<div class="line"><a id="l02825" name="l02825"></a><span class="lineno"> 2825</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( prim-&gt;getType()==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a963e2e943d9bd4d5c4648473802cf78c">PRIMITIVE_TYPE_VOXEL</a> ){</div>
-<div class="line"><a id="l02826" name="l02826"></a><span class="lineno"> 2826</span> </div>
-<div class="line"><a id="l02827" name="l02827"></a><span class="lineno"> 2827</span>      <span class="keywordtype">float</span> transform[16];</div>
-<div class="line"><a id="l02828" name="l02828"></a><span class="lineno"> 2828</span>      prim-&gt;getTransformationMatrix(transform);</div>
-<div class="line"><a id="l02829" name="l02829"></a><span class="lineno"> 2829</span> </div>
-<div class="line"><a id="l02830" name="l02830"></a><span class="lineno"> 2830</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt;&quot;</span>;</div>
-<div class="line"><a id="l02831" name="l02831"></a><span class="lineno"> 2831</span>      <span class="keywordflow">for</span>(<span class="keywordtype">float</span> i : transform){</div>
-<div class="line"><a id="l02832" name="l02832"></a><span class="lineno"> 2832</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l02833" name="l02833"></a><span class="lineno"> 2833</span>      }</div>
-<div class="line"><a id="l02834" name="l02834"></a><span class="lineno"> 2834</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02835" name="l02835"></a><span class="lineno"> 2835</span>      <span class="keywordflow">if</span>( <a class="code hl_function" href="classhelios_1_1_context.html#a5e10a8afe134f4a55f65c81a9398c69c">primitiveTextureHasTransparencyChannel</a>(p) ){</div>
-<div class="line"><a id="l02836" name="l02836"></a><span class="lineno"> 2836</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;solid_fraction&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="classhelios_1_1_context.html#a6e8a5e2044331158d69d6f9bd88fc0f7">getPrimitiveSolidFraction</a>(p) &lt;&lt; <span class="stringliteral">&quot;&lt;/solid_fraction&gt;\n&quot;</span>;</div>
-<div class="line"><a id="l02837" name="l02837"></a><span class="lineno"> 2837</span>      }</div>
-<div class="line"><a id="l02838" name="l02838"></a><span class="lineno"> 2838</span> </div>
-<div class="line"><a id="l02839" name="l02839"></a><span class="lineno"> 2839</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/voxel&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02840" name="l02840"></a><span class="lineno"> 2840</span> </div>
-<div class="line"><a id="l02841" name="l02841"></a><span class="lineno"> 2841</span>    }</div>
-<div class="line"><a id="l02842" name="l02842"></a><span class="lineno"> 2842</span> </div>
-<div class="line"><a id="l02843" name="l02843"></a><span class="lineno"> 2843</span>  }</div>
-<div class="line"><a id="l02844" name="l02844"></a><span class="lineno"> 2844</span> </div>
-<div class="line"><a id="l02845" name="l02845"></a><span class="lineno"> 2845</span>  <span class="comment">// -- objects -- //</span></div>
+<div class="line"><a id="l02753" name="l02753"></a><span class="lineno"> 2753</span>    <span class="keywordflow">if</span>( prim-&gt;getType()==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a6fcd29f0c812849b3eb5bedec52cd744">PRIMITIVE_TYPE_PATCH</a> ){</div>
+<div class="line"><a id="l02754" name="l02754"></a><span class="lineno"> 2754</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;patch&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02755" name="l02755"></a><span class="lineno"> 2755</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( prim-&gt;getType()==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601aeed8005c1692d92beefcbafe8147207c">PRIMITIVE_TYPE_TRIANGLE</a> ){</div>
+<div class="line"><a id="l02756" name="l02756"></a><span class="lineno"> 2756</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;triangle&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02757" name="l02757"></a><span class="lineno"> 2757</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( prim-&gt;getType()==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a963e2e943d9bd4d5c4648473802cf78c">PRIMITIVE_TYPE_VOXEL</a> ){</div>
+<div class="line"><a id="l02758" name="l02758"></a><span class="lineno"> 2758</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;voxel&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02759" name="l02759"></a><span class="lineno"> 2759</span>    }</div>
+<div class="line"><a id="l02760" name="l02760"></a><span class="lineno"> 2760</span> </div>
+<div class="line"><a id="l02761" name="l02761"></a><span class="lineno"> 2761</span>    outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;UUID&gt;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;&lt;/UUID&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02762" name="l02762"></a><span class="lineno"> 2762</span> </div>
+<div class="line"><a id="l02763" name="l02763"></a><span class="lineno"> 2763</span>    <span class="keywordflow">if</span>( parent_objID&gt;0 ){</div>
+<div class="line"><a id="l02764" name="l02764"></a><span class="lineno"> 2764</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;objID&gt;&quot;</span> &lt;&lt; parent_objID &lt;&lt; <span class="stringliteral">&quot;&lt;/objID&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02765" name="l02765"></a><span class="lineno"> 2765</span>    }</div>
+<div class="line"><a id="l02766" name="l02766"></a><span class="lineno"> 2766</span> </div>
+<div class="line"><a id="l02767" name="l02767"></a><span class="lineno"> 2767</span>    outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;color&gt;&quot;</span> &lt;&lt; color.<a class="code hl_variable" href="structhelios_1_1_r_g_b_acolor.html#a15af7f1c4d0e5e23a7ec2488fe0964df">r</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; color.<a class="code hl_variable" href="structhelios_1_1_r_g_b_acolor.html#ac018f8ed01b4d4128a68ebe42e1e6a00">g</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; color.<a class="code hl_variable" href="structhelios_1_1_r_g_b_acolor.html#aaa86bd3e17f03ffdc182c5c9b67587e3">b</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; color.<a class="code hl_variable" href="structhelios_1_1_r_g_b_acolor.html#a1941a63762f40fe1aabc5bb863a7aa1e">a</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/color&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02768" name="l02768"></a><span class="lineno"> 2768</span>    <span class="keywordflow">if</span>( prim-&gt;hasTexture() ){</div>
+<div class="line"><a id="l02769" name="l02769"></a><span class="lineno"> 2769</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;texture&gt;&quot;</span> &lt;&lt; texture_file &lt;&lt; <span class="stringliteral">&quot;&lt;/texture&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02770" name="l02770"></a><span class="lineno"> 2770</span>    }</div>
+<div class="line"><a id="l02771" name="l02771"></a><span class="lineno"> 2771</span> </div>
+<div class="line"><a id="l02772" name="l02772"></a><span class="lineno"> 2772</span>    <span class="keywordflow">if</span>( !pdata.empty() ){</div>
+<div class="line"><a id="l02773" name="l02773"></a><span class="lineno"> 2773</span>      writeDataToXMLstream( <span class="stringliteral">&quot;primitive&quot;</span>, pdata, prim, outfile );</div>
+<div class="line"><a id="l02774" name="l02774"></a><span class="lineno"> 2774</span>    }</div>
+<div class="line"><a id="l02775" name="l02775"></a><span class="lineno"> 2775</span> </div>
+<div class="line"><a id="l02776" name="l02776"></a><span class="lineno"> 2776</span>    <span class="comment">//Patches</span></div>
+<div class="line"><a id="l02777" name="l02777"></a><span class="lineno"> 2777</span>    <span class="keywordflow">if</span>( prim-&gt;getType()==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a6fcd29f0c812849b3eb5bedec52cd744">PRIMITIVE_TYPE_PATCH</a>  ){</div>
+<div class="line"><a id="l02778" name="l02778"></a><span class="lineno"> 2778</span> </div>
+<div class="line"><a id="l02779" name="l02779"></a><span class="lineno"> 2779</span>      Patch* patch = getPatchPointer_private(p);</div>
+<div class="line"><a id="l02780" name="l02780"></a><span class="lineno"> 2780</span>      <span class="keywordtype">float</span> transform[16];</div>
+<div class="line"><a id="l02781" name="l02781"></a><span class="lineno"> 2781</span>      prim-&gt;getTransformationMatrix(transform);</div>
+<div class="line"><a id="l02782" name="l02782"></a><span class="lineno"> 2782</span> </div>
+<div class="line"><a id="l02783" name="l02783"></a><span class="lineno"> 2783</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt;&quot;</span>;</div>
+<div class="line"><a id="l02784" name="l02784"></a><span class="lineno"> 2784</span>      <span class="keywordflow">for</span>(<span class="keywordtype">float</span> i : transform){</div>
+<div class="line"><a id="l02785" name="l02785"></a><span class="lineno"> 2785</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l02786" name="l02786"></a><span class="lineno"> 2786</span>      }</div>
+<div class="line"><a id="l02787" name="l02787"></a><span class="lineno"> 2787</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02788" name="l02788"></a><span class="lineno"> 2788</span>      std::vector&lt;vec2&gt; uv = patch-&gt;getTextureUV();</div>
+<div class="line"><a id="l02789" name="l02789"></a><span class="lineno"> 2789</span>      <span class="keywordflow">if</span>( !uv.empty() ){</div>
+<div class="line"><a id="l02790" name="l02790"></a><span class="lineno"> 2790</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;textureUV&gt;&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02791" name="l02791"></a><span class="lineno"> 2791</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;uv.size(); i++ ){</div>
+<div class="line"><a id="l02792" name="l02792"></a><span class="lineno"> 2792</span>          outfile &lt;&lt; uv.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; uv.at(i).y &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02793" name="l02793"></a><span class="lineno"> 2793</span>          <span class="keywordflow">if</span>( i!=uv.size()-1 ){</div>
+<div class="line"><a id="l02794" name="l02794"></a><span class="lineno"> 2794</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02795" name="l02795"></a><span class="lineno"> 2795</span>          }</div>
+<div class="line"><a id="l02796" name="l02796"></a><span class="lineno"> 2796</span>        }</div>
+<div class="line"><a id="l02797" name="l02797"></a><span class="lineno"> 2797</span>        outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/textureUV&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02798" name="l02798"></a><span class="lineno"> 2798</span>      }</div>
+<div class="line"><a id="l02799" name="l02799"></a><span class="lineno"> 2799</span>      <span class="keywordflow">if</span>( <a class="code hl_function" href="classhelios_1_1_context.html#a5e10a8afe134f4a55f65c81a9398c69c">primitiveTextureHasTransparencyChannel</a>(p) ){</div>
+<div class="line"><a id="l02800" name="l02800"></a><span class="lineno"> 2800</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;solid_fraction&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="classhelios_1_1_context.html#a6e8a5e2044331158d69d6f9bd88fc0f7">getPrimitiveSolidFraction</a>(p) &lt;&lt; <span class="stringliteral">&quot;&lt;/solid_fraction&gt;\n&quot;</span>;</div>
+<div class="line"><a id="l02801" name="l02801"></a><span class="lineno"> 2801</span>      }</div>
+<div class="line"><a id="l02802" name="l02802"></a><span class="lineno"> 2802</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/patch&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02803" name="l02803"></a><span class="lineno"> 2803</span> </div>
+<div class="line"><a id="l02804" name="l02804"></a><span class="lineno"> 2804</span>      <span class="comment">//Triangles</span></div>
+<div class="line"><a id="l02805" name="l02805"></a><span class="lineno"> 2805</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( prim-&gt;getType()==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601aeed8005c1692d92beefcbafe8147207c">PRIMITIVE_TYPE_TRIANGLE</a> ){</div>
+<div class="line"><a id="l02806" name="l02806"></a><span class="lineno"> 2806</span> </div>
+<div class="line"><a id="l02807" name="l02807"></a><span class="lineno"> 2807</span>      <span class="keywordtype">float</span> transform[16];</div>
+<div class="line"><a id="l02808" name="l02808"></a><span class="lineno"> 2808</span>      prim-&gt;getTransformationMatrix(transform);</div>
+<div class="line"><a id="l02809" name="l02809"></a><span class="lineno"> 2809</span> </div>
+<div class="line"><a id="l02810" name="l02810"></a><span class="lineno"> 2810</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt;&quot;</span>;</div>
+<div class="line"><a id="l02811" name="l02811"></a><span class="lineno"> 2811</span>      <span class="keywordflow">for</span>(<span class="keywordtype">float</span> i : transform){</div>
+<div class="line"><a id="l02812" name="l02812"></a><span class="lineno"> 2812</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l02813" name="l02813"></a><span class="lineno"> 2813</span>      }</div>
+<div class="line"><a id="l02814" name="l02814"></a><span class="lineno"> 2814</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02815" name="l02815"></a><span class="lineno"> 2815</span> </div>
+<div class="line"><a id="l02816" name="l02816"></a><span class="lineno"> 2816</span>      std::vector&lt;vec2&gt; uv = getTrianglePointer_private(p)-&gt;getTextureUV();</div>
+<div class="line"><a id="l02817" name="l02817"></a><span class="lineno"> 2817</span>      <span class="keywordflow">if</span>( !uv.empty() ){</div>
+<div class="line"><a id="l02818" name="l02818"></a><span class="lineno"> 2818</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;textureUV&gt;&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02819" name="l02819"></a><span class="lineno"> 2819</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;uv.size(); i++ ){</div>
+<div class="line"><a id="l02820" name="l02820"></a><span class="lineno"> 2820</span>          outfile &lt;&lt; uv.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; uv.at(i).y &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02821" name="l02821"></a><span class="lineno"> 2821</span>          <span class="keywordflow">if</span>( i!=uv.size()-1 ){</div>
+<div class="line"><a id="l02822" name="l02822"></a><span class="lineno"> 2822</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02823" name="l02823"></a><span class="lineno"> 2823</span>          }</div>
+<div class="line"><a id="l02824" name="l02824"></a><span class="lineno"> 2824</span>        }</div>
+<div class="line"><a id="l02825" name="l02825"></a><span class="lineno"> 2825</span>        outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/textureUV&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02826" name="l02826"></a><span class="lineno"> 2826</span>      }</div>
+<div class="line"><a id="l02827" name="l02827"></a><span class="lineno"> 2827</span>      <span class="keywordflow">if</span>( <a class="code hl_function" href="classhelios_1_1_context.html#a5e10a8afe134f4a55f65c81a9398c69c">primitiveTextureHasTransparencyChannel</a>(p) ){</div>
+<div class="line"><a id="l02828" name="l02828"></a><span class="lineno"> 2828</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;solid_fraction&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="classhelios_1_1_context.html#a6e8a5e2044331158d69d6f9bd88fc0f7">getPrimitiveSolidFraction</a>(p) &lt;&lt; <span class="stringliteral">&quot;&lt;/solid_fraction&gt;\n&quot;</span>;</div>
+<div class="line"><a id="l02829" name="l02829"></a><span class="lineno"> 2829</span>      }</div>
+<div class="line"><a id="l02830" name="l02830"></a><span class="lineno"> 2830</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/triangle&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02831" name="l02831"></a><span class="lineno"> 2831</span> </div>
+<div class="line"><a id="l02832" name="l02832"></a><span class="lineno"> 2832</span>      <span class="comment">//Voxels</span></div>
+<div class="line"><a id="l02833" name="l02833"></a><span class="lineno"> 2833</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( prim-&gt;getType()==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a963e2e943d9bd4d5c4648473802cf78c">PRIMITIVE_TYPE_VOXEL</a> ){</div>
+<div class="line"><a id="l02834" name="l02834"></a><span class="lineno"> 2834</span> </div>
+<div class="line"><a id="l02835" name="l02835"></a><span class="lineno"> 2835</span>      <span class="keywordtype">float</span> transform[16];</div>
+<div class="line"><a id="l02836" name="l02836"></a><span class="lineno"> 2836</span>      prim-&gt;getTransformationMatrix(transform);</div>
+<div class="line"><a id="l02837" name="l02837"></a><span class="lineno"> 2837</span> </div>
+<div class="line"><a id="l02838" name="l02838"></a><span class="lineno"> 2838</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt;&quot;</span>;</div>
+<div class="line"><a id="l02839" name="l02839"></a><span class="lineno"> 2839</span>      <span class="keywordflow">for</span>(<span class="keywordtype">float</span> i : transform){</div>
+<div class="line"><a id="l02840" name="l02840"></a><span class="lineno"> 2840</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l02841" name="l02841"></a><span class="lineno"> 2841</span>      }</div>
+<div class="line"><a id="l02842" name="l02842"></a><span class="lineno"> 2842</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02843" name="l02843"></a><span class="lineno"> 2843</span>      <span class="keywordflow">if</span>( <a class="code hl_function" href="classhelios_1_1_context.html#a5e10a8afe134f4a55f65c81a9398c69c">primitiveTextureHasTransparencyChannel</a>(p) ){</div>
+<div class="line"><a id="l02844" name="l02844"></a><span class="lineno"> 2844</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;solid_fraction&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="classhelios_1_1_context.html#a6e8a5e2044331158d69d6f9bd88fc0f7">getPrimitiveSolidFraction</a>(p) &lt;&lt; <span class="stringliteral">&quot;&lt;/solid_fraction&gt;\n&quot;</span>;</div>
+<div class="line"><a id="l02845" name="l02845"></a><span class="lineno"> 2845</span>      }</div>
 <div class="line"><a id="l02846" name="l02846"></a><span class="lineno"> 2846</span> </div>
-<div class="line"><a id="l02847" name="l02847"></a><span class="lineno"> 2847</span>  <span class="keywordflow">for</span>( <span class="keyword">auto</span> o : objectIDs ){</div>
+<div class="line"><a id="l02847" name="l02847"></a><span class="lineno"> 2847</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/voxel&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l02848" name="l02848"></a><span class="lineno"> 2848</span> </div>
-<div class="line"><a id="l02849" name="l02849"></a><span class="lineno"> 2849</span>    <a class="code hl_class" href="classhelios_1_1_compound_object.html">CompoundObject</a>* obj = objects.at(o);</div>
+<div class="line"><a id="l02849" name="l02849"></a><span class="lineno"> 2849</span>    }</div>
 <div class="line"><a id="l02850" name="l02850"></a><span class="lineno"> 2850</span> </div>
-<div class="line"><a id="l02851" name="l02851"></a><span class="lineno"> 2851</span>    std::string texture_file = obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#a3e43ebd386e7a6663fa877613b9d27fa">getTextureFile</a>();</div>
+<div class="line"><a id="l02851" name="l02851"></a><span class="lineno"> 2851</span>  }</div>
 <div class="line"><a id="l02852" name="l02852"></a><span class="lineno"> 2852</span> </div>
-<div class="line"><a id="l02853" name="l02853"></a><span class="lineno"> 2853</span>    std::vector&lt;std::string&gt; odata = obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#a4750278bd9c519d57c3f27891dcf666d">listObjectData</a>();</div>
+<div class="line"><a id="l02853" name="l02853"></a><span class="lineno"> 2853</span>  <span class="comment">// -- objects -- //</span></div>
 <div class="line"><a id="l02854" name="l02854"></a><span class="lineno"> 2854</span> </div>
-<div class="line"><a id="l02855" name="l02855"></a><span class="lineno"> 2855</span>    <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682aed347b5fb08bc5551b61310a964f0bde">OBJECT_TYPE_TILE</a> ){</div>
-<div class="line"><a id="l02856" name="l02856"></a><span class="lineno"> 2856</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;tile&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02857" name="l02857"></a><span class="lineno"> 2857</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a2f065407387865d0564746c763c78d66">OBJECT_TYPE_BOX</a> ){</div>
-<div class="line"><a id="l02858" name="l02858"></a><span class="lineno"> 2858</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;box&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02859" name="l02859"></a><span class="lineno"> 2859</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a6bcd175267f2f6d4f4a75b8e1e520def">OBJECT_TYPE_CONE</a> ){</div>
-<div class="line"><a id="l02860" name="l02860"></a><span class="lineno"> 2860</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;cone&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02861" name="l02861"></a><span class="lineno"> 2861</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a7d26aca591c366d41bca9d184a07ee51">OBJECT_TYPE_DISK</a> ){</div>
-<div class="line"><a id="l02862" name="l02862"></a><span class="lineno"> 2862</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;disk&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02863" name="l02863"></a><span class="lineno"> 2863</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682af4e336a18e47e54ca6e9a7f57e665175">OBJECT_TYPE_SPHERE</a> ){</div>
-<div class="line"><a id="l02864" name="l02864"></a><span class="lineno"> 2864</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;sphere&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02865" name="l02865"></a><span class="lineno"> 2865</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a4c8545d7bc5d79cd8d150eca0624b623">OBJECT_TYPE_TUBE</a> ){</div>
-<div class="line"><a id="l02866" name="l02866"></a><span class="lineno"> 2866</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;tube&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02867" name="l02867"></a><span class="lineno"> 2867</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a40bb0200100d500b738a6c3efc70df38">OBJECT_TYPE_POLYMESH</a> ){</div>
-<div class="line"><a id="l02868" name="l02868"></a><span class="lineno"> 2868</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;polymesh&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02869" name="l02869"></a><span class="lineno"> 2869</span>    }</div>
-<div class="line"><a id="l02870" name="l02870"></a><span class="lineno"> 2870</span> </div>
-<div class="line"><a id="l02871" name="l02871"></a><span class="lineno"> 2871</span>    outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;objID&gt;&quot;</span> &lt;&lt; o &lt;&lt; <span class="stringliteral">&quot;&lt;/objID&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02872" name="l02872"></a><span class="lineno"> 2872</span>    <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#a547a3a56f24fdaf541d12dc74776318e">hasTexture</a>() ){</div>
-<div class="line"><a id="l02873" name="l02873"></a><span class="lineno"> 2873</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;texture&gt;&quot;</span> &lt;&lt; texture_file &lt;&lt; <span class="stringliteral">&quot;&lt;/texture&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02874" name="l02874"></a><span class="lineno"> 2874</span>    }</div>
-<div class="line"><a id="l02875" name="l02875"></a><span class="lineno"> 2875</span> </div>
-<div class="line"><a id="l02876" name="l02876"></a><span class="lineno"> 2876</span>    <span class="keywordflow">if</span>( !odata.empty() ){</div>
-<div class="line"><a id="l02877" name="l02877"></a><span class="lineno"> 2877</span>      writeDataToXMLstream( <span class="stringliteral">&quot;object&quot;</span>, odata, obj, outfile );</div>
-<div class="line"><a id="l02878" name="l02878"></a><span class="lineno"> 2878</span>    }</div>
-<div class="line"><a id="l02879" name="l02879"></a><span class="lineno"> 2879</span> </div>
-<div class="line"><a id="l02880" name="l02880"></a><span class="lineno"> 2880</span>    std::vector&lt;std::string&gt; pdata_labels;</div>
-<div class="line"><a id="l02881" name="l02881"></a><span class="lineno"> 2881</span>    std::vector&lt;HeliosDataType&gt; pdata_types;</div>
-<div class="line"><a id="l02882" name="l02882"></a><span class="lineno"> 2882</span>    std::vector&lt;uint&gt; primitiveUUIDs = obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab3973a7c8ccb1aa0ce3f21ffe461ef7b">getPrimitiveUUIDs</a>();</div>
-<div class="line"><a id="l02883" name="l02883"></a><span class="lineno"> 2883</span>    <span class="keywordflow">for</span>( uint UUID : primitiveUUIDs ){</div>
-<div class="line"><a id="l02884" name="l02884"></a><span class="lineno"> 2884</span>      std::vector&lt;std::string&gt; labels = getPrimitivePointer_private(UUID)-&gt;listPrimitiveData();</div>
-<div class="line"><a id="l02885" name="l02885"></a><span class="lineno"> 2885</span>      <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;labels.size(); i++ ){</div>
-<div class="line"><a id="l02886" name="l02886"></a><span class="lineno"> 2886</span>        <span class="keywordflow">if</span>( find(pdata_labels.begin(),pdata_labels.end(),labels.at(i)) == pdata_labels.end() ){</div>
-<div class="line"><a id="l02887" name="l02887"></a><span class="lineno"> 2887</span>          pdata_labels.push_back(labels.at(i));</div>
-<div class="line"><a id="l02888" name="l02888"></a><span class="lineno"> 2888</span>          pdata_types.push_back(<a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID,labels.at(i).c_str()));</div>
-<div class="line"><a id="l02889" name="l02889"></a><span class="lineno"> 2889</span>        }</div>
-<div class="line"><a id="l02890" name="l02890"></a><span class="lineno"> 2890</span>      }</div>
-<div class="line"><a id="l02891" name="l02891"></a><span class="lineno"> 2891</span>    }</div>
-<div class="line"><a id="l02892" name="l02892"></a><span class="lineno"> 2892</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> l=0; l&lt;pdata_labels.size(); l++ ) {</div>
-<div class="line"><a id="l02893" name="l02893"></a><span class="lineno"> 2893</span>      <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a> ) {</div>
-<div class="line"><a id="l02894" name="l02894"></a><span class="lineno"> 2894</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_float &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02895" name="l02895"></a><span class="lineno"> 2895</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
-<div class="line"><a id="l02896" name="l02896"></a><span class="lineno"> 2896</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
-<div class="line"><a id="l02897" name="l02897"></a><span class="lineno"> 2897</span>            std::vector&lt;float&gt; data;</div>
-<div class="line"><a id="l02898" name="l02898"></a><span class="lineno"> 2898</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
-<div class="line"><a id="l02899" name="l02899"></a><span class="lineno"> 2899</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02900" name="l02900"></a><span class="lineno"> 2900</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
-<div class="line"><a id="l02901" name="l02901"></a><span class="lineno"> 2901</span>              outfile &lt;&lt; data.at(i) &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02902" name="l02902"></a><span class="lineno"> 2902</span>            }</div>
-<div class="line"><a id="l02903" name="l02903"></a><span class="lineno"> 2903</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02904" name="l02904"></a><span class="lineno"> 2904</span>          }</div>
-<div class="line"><a id="l02905" name="l02905"></a><span class="lineno"> 2905</span>        }</div>
-<div class="line"><a id="l02906" name="l02906"></a><span class="lineno"> 2906</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_float&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02907" name="l02907"></a><span class="lineno"> 2907</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a520daf05a1b3086aabd6cbe6a712c1c3">HELIOS_TYPE_DOUBLE</a> ) {</div>
-<div class="line"><a id="l02908" name="l02908"></a><span class="lineno"> 2908</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_double &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02909" name="l02909"></a><span class="lineno"> 2909</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
-<div class="line"><a id="l02910" name="l02910"></a><span class="lineno"> 2910</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
-<div class="line"><a id="l02911" name="l02911"></a><span class="lineno"> 2911</span>            std::vector&lt;double&gt; data;</div>
-<div class="line"><a id="l02912" name="l02912"></a><span class="lineno"> 2912</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
-<div class="line"><a id="l02913" name="l02913"></a><span class="lineno"> 2913</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02914" name="l02914"></a><span class="lineno"> 2914</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
-<div class="line"><a id="l02915" name="l02915"></a><span class="lineno"> 2915</span>              outfile &lt;&lt; data.at(i) &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02916" name="l02916"></a><span class="lineno"> 2916</span>            }</div>
-<div class="line"><a id="l02917" name="l02917"></a><span class="lineno"> 2917</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02918" name="l02918"></a><span class="lineno"> 2918</span>          }</div>
-<div class="line"><a id="l02919" name="l02919"></a><span class="lineno"> 2919</span>        }</div>
-<div class="line"><a id="l02920" name="l02920"></a><span class="lineno"> 2920</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_double&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02921" name="l02921"></a><span class="lineno"> 2921</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a> ) {</div>
-<div class="line"><a id="l02922" name="l02922"></a><span class="lineno"> 2922</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_uint &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02923" name="l02923"></a><span class="lineno"> 2923</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
-<div class="line"><a id="l02924" name="l02924"></a><span class="lineno"> 2924</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
-<div class="line"><a id="l02925" name="l02925"></a><span class="lineno"> 2925</span>            std::vector&lt;uint&gt; data;</div>
-<div class="line"><a id="l02926" name="l02926"></a><span class="lineno"> 2926</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
-<div class="line"><a id="l02927" name="l02927"></a><span class="lineno"> 2927</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02928" name="l02928"></a><span class="lineno"> 2928</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
-<div class="line"><a id="l02929" name="l02929"></a><span class="lineno"> 2929</span>              outfile &lt;&lt; data.at(i) &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02930" name="l02930"></a><span class="lineno"> 2930</span>            }</div>
-<div class="line"><a id="l02931" name="l02931"></a><span class="lineno"> 2931</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02932" name="l02932"></a><span class="lineno"> 2932</span>          }</div>
-<div class="line"><a id="l02933" name="l02933"></a><span class="lineno"> 2933</span>        }</div>
-<div class="line"><a id="l02934" name="l02934"></a><span class="lineno"> 2934</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_uint&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02935" name="l02935"></a><span class="lineno"> 2935</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a> ) {</div>
-<div class="line"><a id="l02936" name="l02936"></a><span class="lineno"> 2936</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_int &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02937" name="l02937"></a><span class="lineno"> 2937</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
-<div class="line"><a id="l02938" name="l02938"></a><span class="lineno"> 2938</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
-<div class="line"><a id="l02939" name="l02939"></a><span class="lineno"> 2939</span>            std::vector&lt;int&gt; data;</div>
-<div class="line"><a id="l02940" name="l02940"></a><span class="lineno"> 2940</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
-<div class="line"><a id="l02941" name="l02941"></a><span class="lineno"> 2941</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02942" name="l02942"></a><span class="lineno"> 2942</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
-<div class="line"><a id="l02943" name="l02943"></a><span class="lineno"> 2943</span>              outfile &lt;&lt; data.at(i) &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02944" name="l02944"></a><span class="lineno"> 2944</span>            }</div>
-<div class="line"><a id="l02945" name="l02945"></a><span class="lineno"> 2945</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02946" name="l02946"></a><span class="lineno"> 2946</span>          }</div>
-<div class="line"><a id="l02947" name="l02947"></a><span class="lineno"> 2947</span>        }</div>
-<div class="line"><a id="l02948" name="l02948"></a><span class="lineno"> 2948</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_int&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02949" name="l02949"></a><span class="lineno"> 2949</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ad586d734313fa5492db5b8cc84d9eabd">HELIOS_TYPE_INT2</a> ) {</div>
-<div class="line"><a id="l02950" name="l02950"></a><span class="lineno"> 2950</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_int2 &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02951" name="l02951"></a><span class="lineno"> 2951</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
-<div class="line"><a id="l02952" name="l02952"></a><span class="lineno"> 2952</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
-<div class="line"><a id="l02953" name="l02953"></a><span class="lineno"> 2953</span>            std::vector&lt;int2&gt; data;</div>
-<div class="line"><a id="l02954" name="l02954"></a><span class="lineno"> 2954</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
-<div class="line"><a id="l02955" name="l02955"></a><span class="lineno"> 2955</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02956" name="l02956"></a><span class="lineno"> 2956</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
-<div class="line"><a id="l02957" name="l02957"></a><span class="lineno"> 2957</span>              outfile &lt;&lt; data.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).y &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02958" name="l02958"></a><span class="lineno"> 2958</span>            }</div>
-<div class="line"><a id="l02959" name="l02959"></a><span class="lineno"> 2959</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02960" name="l02960"></a><span class="lineno"> 2960</span>          }</div>
-<div class="line"><a id="l02961" name="l02961"></a><span class="lineno"> 2961</span>        }</div>
-<div class="line"><a id="l02962" name="l02962"></a><span class="lineno"> 2962</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_int2&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02963" name="l02963"></a><span class="lineno"> 2963</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a28e69c60e380496c8c35892e76ee4ad3">HELIOS_TYPE_INT3</a> ) {</div>
-<div class="line"><a id="l02964" name="l02964"></a><span class="lineno"> 2964</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_int3 &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02965" name="l02965"></a><span class="lineno"> 2965</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
-<div class="line"><a id="l02966" name="l02966"></a><span class="lineno"> 2966</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
-<div class="line"><a id="l02967" name="l02967"></a><span class="lineno"> 2967</span>            std::vector&lt;int3&gt; data;</div>
-<div class="line"><a id="l02968" name="l02968"></a><span class="lineno"> 2968</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
-<div class="line"><a id="l02969" name="l02969"></a><span class="lineno"> 2969</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02970" name="l02970"></a><span class="lineno"> 2970</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
-<div class="line"><a id="l02971" name="l02971"></a><span class="lineno"> 2971</span>              outfile &lt;&lt; data.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).z &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02972" name="l02972"></a><span class="lineno"> 2972</span>            }</div>
-<div class="line"><a id="l02973" name="l02973"></a><span class="lineno"> 2973</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02974" name="l02974"></a><span class="lineno"> 2974</span>          }</div>
-<div class="line"><a id="l02975" name="l02975"></a><span class="lineno"> 2975</span>        }</div>
-<div class="line"><a id="l02976" name="l02976"></a><span class="lineno"> 2976</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_int3&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02977" name="l02977"></a><span class="lineno"> 2977</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa6e12ea3a9160f59a1208f7cbb6c1ce7">HELIOS_TYPE_INT4</a> ) {</div>
-<div class="line"><a id="l02978" name="l02978"></a><span class="lineno"> 2978</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_int4 &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02979" name="l02979"></a><span class="lineno"> 2979</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
-<div class="line"><a id="l02980" name="l02980"></a><span class="lineno"> 2980</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
-<div class="line"><a id="l02981" name="l02981"></a><span class="lineno"> 2981</span>            std::vector&lt;int4&gt; data;</div>
-<div class="line"><a id="l02982" name="l02982"></a><span class="lineno"> 2982</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
-<div class="line"><a id="l02983" name="l02983"></a><span class="lineno"> 2983</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02984" name="l02984"></a><span class="lineno"> 2984</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
-<div class="line"><a id="l02985" name="l02985"></a><span class="lineno"> 2985</span>              outfile &lt;&lt; data.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).z &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).w &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02986" name="l02986"></a><span class="lineno"> 2986</span>            }</div>
-<div class="line"><a id="l02987" name="l02987"></a><span class="lineno"> 2987</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02988" name="l02988"></a><span class="lineno"> 2988</span>          }</div>
-<div class="line"><a id="l02989" name="l02989"></a><span class="lineno"> 2989</span>        }</div>
-<div class="line"><a id="l02990" name="l02990"></a><span class="lineno"> 2990</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_int4&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02991" name="l02991"></a><span class="lineno"> 2991</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a6269d91d936a3d60a8a763ec122ba233">HELIOS_TYPE_VEC2</a> ) {</div>
-<div class="line"><a id="l02992" name="l02992"></a><span class="lineno"> 2992</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_vec2 &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02993" name="l02993"></a><span class="lineno"> 2993</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
-<div class="line"><a id="l02994" name="l02994"></a><span class="lineno"> 2994</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
-<div class="line"><a id="l02995" name="l02995"></a><span class="lineno"> 2995</span>            std::vector&lt;vec2&gt; data;</div>
-<div class="line"><a id="l02996" name="l02996"></a><span class="lineno"> 2996</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
-<div class="line"><a id="l02997" name="l02997"></a><span class="lineno"> 2997</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02998" name="l02998"></a><span class="lineno"> 2998</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
-<div class="line"><a id="l02999" name="l02999"></a><span class="lineno"> 2999</span>              outfile &lt;&lt; data.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).y &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03000" name="l03000"></a><span class="lineno"> 3000</span>            }</div>
-<div class="line"><a id="l03001" name="l03001"></a><span class="lineno"> 3001</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03002" name="l03002"></a><span class="lineno"> 3002</span>          }</div>
-<div class="line"><a id="l03003" name="l03003"></a><span class="lineno"> 3003</span>        }</div>
-<div class="line"><a id="l03004" name="l03004"></a><span class="lineno"> 3004</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_vec2&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03005" name="l03005"></a><span class="lineno"> 3005</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a8da4db5333fb4d726d17ad82300c9d6c">HELIOS_TYPE_VEC3</a> ) {</div>
-<div class="line"><a id="l03006" name="l03006"></a><span class="lineno"> 3006</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_vec3 &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03007" name="l03007"></a><span class="lineno"> 3007</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
-<div class="line"><a id="l03008" name="l03008"></a><span class="lineno"> 3008</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
-<div class="line"><a id="l03009" name="l03009"></a><span class="lineno"> 3009</span>            std::vector&lt;vec3&gt; data;</div>
-<div class="line"><a id="l03010" name="l03010"></a><span class="lineno"> 3010</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
-<div class="line"><a id="l03011" name="l03011"></a><span class="lineno"> 3011</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03012" name="l03012"></a><span class="lineno"> 3012</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
-<div class="line"><a id="l03013" name="l03013"></a><span class="lineno"> 3013</span>              outfile &lt;&lt; data.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).z &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03014" name="l03014"></a><span class="lineno"> 3014</span>            }</div>
-<div class="line"><a id="l03015" name="l03015"></a><span class="lineno"> 3015</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03016" name="l03016"></a><span class="lineno"> 3016</span>          }</div>
-<div class="line"><a id="l03017" name="l03017"></a><span class="lineno"> 3017</span>        }</div>
-<div class="line"><a id="l03018" name="l03018"></a><span class="lineno"> 3018</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_vec3&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03019" name="l03019"></a><span class="lineno"> 3019</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ade0fe2a24f299ca147b95a0eebe43e5d">HELIOS_TYPE_VEC4</a> ) {</div>
-<div class="line"><a id="l03020" name="l03020"></a><span class="lineno"> 3020</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_vec4 &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03021" name="l03021"></a><span class="lineno"> 3021</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
-<div class="line"><a id="l03022" name="l03022"></a><span class="lineno"> 3022</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
-<div class="line"><a id="l03023" name="l03023"></a><span class="lineno"> 3023</span>            std::vector&lt;vec4&gt; data;</div>
-<div class="line"><a id="l03024" name="l03024"></a><span class="lineno"> 3024</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
-<div class="line"><a id="l03025" name="l03025"></a><span class="lineno"> 3025</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03026" name="l03026"></a><span class="lineno"> 3026</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
-<div class="line"><a id="l03027" name="l03027"></a><span class="lineno"> 3027</span>              outfile &lt;&lt; data.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).z &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).w &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03028" name="l03028"></a><span class="lineno"> 3028</span>            }</div>
-<div class="line"><a id="l03029" name="l03029"></a><span class="lineno"> 3029</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03030" name="l03030"></a><span class="lineno"> 3030</span>          }</div>
-<div class="line"><a id="l03031" name="l03031"></a><span class="lineno"> 3031</span>        }</div>
-<div class="line"><a id="l03032" name="l03032"></a><span class="lineno"> 3032</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_vec4&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03033" name="l03033"></a><span class="lineno"> 3033</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7c1f526f519f173e5931fd73b78ccbb3">HELIOS_TYPE_STRING</a> ) {</div>
-<div class="line"><a id="l03034" name="l03034"></a><span class="lineno"> 3034</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_string &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03035" name="l03035"></a><span class="lineno"> 3035</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
-<div class="line"><a id="l03036" name="l03036"></a><span class="lineno"> 3036</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
-<div class="line"><a id="l03037" name="l03037"></a><span class="lineno"> 3037</span>            std::vector&lt;std::string&gt; data;</div>
-<div class="line"><a id="l03038" name="l03038"></a><span class="lineno"> 3038</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
-<div class="line"><a id="l03039" name="l03039"></a><span class="lineno"> 3039</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03040" name="l03040"></a><span class="lineno"> 3040</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
-<div class="line"><a id="l03041" name="l03041"></a><span class="lineno"> 3041</span>              outfile &lt;&lt; data.at(i) &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03042" name="l03042"></a><span class="lineno"> 3042</span>            }</div>
-<div class="line"><a id="l03043" name="l03043"></a><span class="lineno"> 3043</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03044" name="l03044"></a><span class="lineno"> 3044</span>          }</div>
-<div class="line"><a id="l03045" name="l03045"></a><span class="lineno"> 3045</span>        }</div>
-<div class="line"><a id="l03046" name="l03046"></a><span class="lineno"> 3046</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_string&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03047" name="l03047"></a><span class="lineno"> 3047</span>      }</div>
-<div class="line"><a id="l03048" name="l03048"></a><span class="lineno"> 3048</span> </div>
-<div class="line"><a id="l03049" name="l03049"></a><span class="lineno"> 3049</span> </div>
-<div class="line"><a id="l03050" name="l03050"></a><span class="lineno"> 3050</span>    }</div>
-<div class="line"><a id="l03051" name="l03051"></a><span class="lineno"> 3051</span> </div>
-<div class="line"><a id="l03052" name="l03052"></a><span class="lineno"> 3052</span>    <span class="comment">//Tiles</span></div>
-<div class="line"><a id="l03053" name="l03053"></a><span class="lineno"> 3053</span>    <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682aed347b5fb08bc5551b61310a964f0bde">OBJECT_TYPE_TILE</a> ){</div>
-<div class="line"><a id="l03054" name="l03054"></a><span class="lineno"> 3054</span> </div>
-<div class="line"><a id="l03055" name="l03055"></a><span class="lineno"> 3055</span>      <a class="code hl_class" href="classhelios_1_1_tile.html">Tile</a>* tile = <a class="code hl_function" href="classhelios_1_1_context.html#ad2b762dd7b31126150c6e6dc350a3914">getTileObjectPointer</a>(o);</div>
+<div class="line"><a id="l02855" name="l02855"></a><span class="lineno"> 2855</span>  <span class="keywordflow">for</span>( <span class="keyword">auto</span> o : objectIDs ){</div>
+<div class="line"><a id="l02856" name="l02856"></a><span class="lineno"> 2856</span> </div>
+<div class="line"><a id="l02857" name="l02857"></a><span class="lineno"> 2857</span>    <a class="code hl_class" href="classhelios_1_1_compound_object.html">CompoundObject</a>* obj = objects.at(o);</div>
+<div class="line"><a id="l02858" name="l02858"></a><span class="lineno"> 2858</span> </div>
+<div class="line"><a id="l02859" name="l02859"></a><span class="lineno"> 2859</span>    std::string texture_file = obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#a3e43ebd386e7a6663fa877613b9d27fa">getTextureFile</a>();</div>
+<div class="line"><a id="l02860" name="l02860"></a><span class="lineno"> 2860</span> </div>
+<div class="line"><a id="l02861" name="l02861"></a><span class="lineno"> 2861</span>    std::vector&lt;std::string&gt; odata = obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#a4750278bd9c519d57c3f27891dcf666d">listObjectData</a>();</div>
+<div class="line"><a id="l02862" name="l02862"></a><span class="lineno"> 2862</span> </div>
+<div class="line"><a id="l02863" name="l02863"></a><span class="lineno"> 2863</span>    <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682aed347b5fb08bc5551b61310a964f0bde">OBJECT_TYPE_TILE</a> ){</div>
+<div class="line"><a id="l02864" name="l02864"></a><span class="lineno"> 2864</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;tile&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02865" name="l02865"></a><span class="lineno"> 2865</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a2f065407387865d0564746c763c78d66">OBJECT_TYPE_BOX</a> ){</div>
+<div class="line"><a id="l02866" name="l02866"></a><span class="lineno"> 2866</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;box&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02867" name="l02867"></a><span class="lineno"> 2867</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a6bcd175267f2f6d4f4a75b8e1e520def">OBJECT_TYPE_CONE</a> ){</div>
+<div class="line"><a id="l02868" name="l02868"></a><span class="lineno"> 2868</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;cone&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02869" name="l02869"></a><span class="lineno"> 2869</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a7d26aca591c366d41bca9d184a07ee51">OBJECT_TYPE_DISK</a> ){</div>
+<div class="line"><a id="l02870" name="l02870"></a><span class="lineno"> 2870</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;disk&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02871" name="l02871"></a><span class="lineno"> 2871</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682af4e336a18e47e54ca6e9a7f57e665175">OBJECT_TYPE_SPHERE</a> ){</div>
+<div class="line"><a id="l02872" name="l02872"></a><span class="lineno"> 2872</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;sphere&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02873" name="l02873"></a><span class="lineno"> 2873</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a4c8545d7bc5d79cd8d150eca0624b623">OBJECT_TYPE_TUBE</a> ){</div>
+<div class="line"><a id="l02874" name="l02874"></a><span class="lineno"> 2874</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;tube&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02875" name="l02875"></a><span class="lineno"> 2875</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a40bb0200100d500b738a6c3efc70df38">OBJECT_TYPE_POLYMESH</a> ){</div>
+<div class="line"><a id="l02876" name="l02876"></a><span class="lineno"> 2876</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;polymesh&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02877" name="l02877"></a><span class="lineno"> 2877</span>    }</div>
+<div class="line"><a id="l02878" name="l02878"></a><span class="lineno"> 2878</span> </div>
+<div class="line"><a id="l02879" name="l02879"></a><span class="lineno"> 2879</span>    outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;objID&gt;&quot;</span> &lt;&lt; o &lt;&lt; <span class="stringliteral">&quot;&lt;/objID&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02880" name="l02880"></a><span class="lineno"> 2880</span>    <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#a547a3a56f24fdaf541d12dc74776318e">hasTexture</a>() ){</div>
+<div class="line"><a id="l02881" name="l02881"></a><span class="lineno"> 2881</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;texture&gt;&quot;</span> &lt;&lt; texture_file &lt;&lt; <span class="stringliteral">&quot;&lt;/texture&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02882" name="l02882"></a><span class="lineno"> 2882</span>    }</div>
+<div class="line"><a id="l02883" name="l02883"></a><span class="lineno"> 2883</span> </div>
+<div class="line"><a id="l02884" name="l02884"></a><span class="lineno"> 2884</span>    <span class="keywordflow">if</span>( !odata.empty() ){</div>
+<div class="line"><a id="l02885" name="l02885"></a><span class="lineno"> 2885</span>      writeDataToXMLstream( <span class="stringliteral">&quot;object&quot;</span>, odata, obj, outfile );</div>
+<div class="line"><a id="l02886" name="l02886"></a><span class="lineno"> 2886</span>    }</div>
+<div class="line"><a id="l02887" name="l02887"></a><span class="lineno"> 2887</span> </div>
+<div class="line"><a id="l02888" name="l02888"></a><span class="lineno"> 2888</span>    std::vector&lt;std::string&gt; pdata_labels;</div>
+<div class="line"><a id="l02889" name="l02889"></a><span class="lineno"> 2889</span>    std::vector&lt;HeliosDataType&gt; pdata_types;</div>
+<div class="line"><a id="l02890" name="l02890"></a><span class="lineno"> 2890</span>    std::vector&lt;uint&gt; primitiveUUIDs = obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab3973a7c8ccb1aa0ce3f21ffe461ef7b">getPrimitiveUUIDs</a>();</div>
+<div class="line"><a id="l02891" name="l02891"></a><span class="lineno"> 2891</span>    <span class="keywordflow">for</span>( uint UUID : primitiveUUIDs ){</div>
+<div class="line"><a id="l02892" name="l02892"></a><span class="lineno"> 2892</span>      std::vector&lt;std::string&gt; labels = getPrimitivePointer_private(UUID)-&gt;listPrimitiveData();</div>
+<div class="line"><a id="l02893" name="l02893"></a><span class="lineno"> 2893</span>      <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;labels.size(); i++ ){</div>
+<div class="line"><a id="l02894" name="l02894"></a><span class="lineno"> 2894</span>        <span class="keywordflow">if</span>( find(pdata_labels.begin(),pdata_labels.end(),labels.at(i)) == pdata_labels.end() ){</div>
+<div class="line"><a id="l02895" name="l02895"></a><span class="lineno"> 2895</span>          pdata_labels.push_back(labels.at(i));</div>
+<div class="line"><a id="l02896" name="l02896"></a><span class="lineno"> 2896</span>          pdata_types.push_back(<a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID,labels.at(i).c_str()));</div>
+<div class="line"><a id="l02897" name="l02897"></a><span class="lineno"> 2897</span>        }</div>
+<div class="line"><a id="l02898" name="l02898"></a><span class="lineno"> 2898</span>      }</div>
+<div class="line"><a id="l02899" name="l02899"></a><span class="lineno"> 2899</span>    }</div>
+<div class="line"><a id="l02900" name="l02900"></a><span class="lineno"> 2900</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> l=0; l&lt;pdata_labels.size(); l++ ) {</div>
+<div class="line"><a id="l02901" name="l02901"></a><span class="lineno"> 2901</span>      <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a> ) {</div>
+<div class="line"><a id="l02902" name="l02902"></a><span class="lineno"> 2902</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_float &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02903" name="l02903"></a><span class="lineno"> 2903</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
+<div class="line"><a id="l02904" name="l02904"></a><span class="lineno"> 2904</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
+<div class="line"><a id="l02905" name="l02905"></a><span class="lineno"> 2905</span>            std::vector&lt;float&gt; data;</div>
+<div class="line"><a id="l02906" name="l02906"></a><span class="lineno"> 2906</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
+<div class="line"><a id="l02907" name="l02907"></a><span class="lineno"> 2907</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02908" name="l02908"></a><span class="lineno"> 2908</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
+<div class="line"><a id="l02909" name="l02909"></a><span class="lineno"> 2909</span>              outfile &lt;&lt; data.at(i) &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02910" name="l02910"></a><span class="lineno"> 2910</span>            }</div>
+<div class="line"><a id="l02911" name="l02911"></a><span class="lineno"> 2911</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02912" name="l02912"></a><span class="lineno"> 2912</span>          }</div>
+<div class="line"><a id="l02913" name="l02913"></a><span class="lineno"> 2913</span>        }</div>
+<div class="line"><a id="l02914" name="l02914"></a><span class="lineno"> 2914</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_float&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02915" name="l02915"></a><span class="lineno"> 2915</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a520daf05a1b3086aabd6cbe6a712c1c3">HELIOS_TYPE_DOUBLE</a> ) {</div>
+<div class="line"><a id="l02916" name="l02916"></a><span class="lineno"> 2916</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_double &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02917" name="l02917"></a><span class="lineno"> 2917</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
+<div class="line"><a id="l02918" name="l02918"></a><span class="lineno"> 2918</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
+<div class="line"><a id="l02919" name="l02919"></a><span class="lineno"> 2919</span>            std::vector&lt;double&gt; data;</div>
+<div class="line"><a id="l02920" name="l02920"></a><span class="lineno"> 2920</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
+<div class="line"><a id="l02921" name="l02921"></a><span class="lineno"> 2921</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02922" name="l02922"></a><span class="lineno"> 2922</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
+<div class="line"><a id="l02923" name="l02923"></a><span class="lineno"> 2923</span>              outfile &lt;&lt; data.at(i) &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02924" name="l02924"></a><span class="lineno"> 2924</span>            }</div>
+<div class="line"><a id="l02925" name="l02925"></a><span class="lineno"> 2925</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02926" name="l02926"></a><span class="lineno"> 2926</span>          }</div>
+<div class="line"><a id="l02927" name="l02927"></a><span class="lineno"> 2927</span>        }</div>
+<div class="line"><a id="l02928" name="l02928"></a><span class="lineno"> 2928</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_double&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02929" name="l02929"></a><span class="lineno"> 2929</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a> ) {</div>
+<div class="line"><a id="l02930" name="l02930"></a><span class="lineno"> 2930</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_uint &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02931" name="l02931"></a><span class="lineno"> 2931</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
+<div class="line"><a id="l02932" name="l02932"></a><span class="lineno"> 2932</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
+<div class="line"><a id="l02933" name="l02933"></a><span class="lineno"> 2933</span>            std::vector&lt;uint&gt; data;</div>
+<div class="line"><a id="l02934" name="l02934"></a><span class="lineno"> 2934</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
+<div class="line"><a id="l02935" name="l02935"></a><span class="lineno"> 2935</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02936" name="l02936"></a><span class="lineno"> 2936</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
+<div class="line"><a id="l02937" name="l02937"></a><span class="lineno"> 2937</span>              outfile &lt;&lt; data.at(i) &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02938" name="l02938"></a><span class="lineno"> 2938</span>            }</div>
+<div class="line"><a id="l02939" name="l02939"></a><span class="lineno"> 2939</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02940" name="l02940"></a><span class="lineno"> 2940</span>          }</div>
+<div class="line"><a id="l02941" name="l02941"></a><span class="lineno"> 2941</span>        }</div>
+<div class="line"><a id="l02942" name="l02942"></a><span class="lineno"> 2942</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_uint&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02943" name="l02943"></a><span class="lineno"> 2943</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a> ) {</div>
+<div class="line"><a id="l02944" name="l02944"></a><span class="lineno"> 2944</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_int &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02945" name="l02945"></a><span class="lineno"> 2945</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
+<div class="line"><a id="l02946" name="l02946"></a><span class="lineno"> 2946</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
+<div class="line"><a id="l02947" name="l02947"></a><span class="lineno"> 2947</span>            std::vector&lt;int&gt; data;</div>
+<div class="line"><a id="l02948" name="l02948"></a><span class="lineno"> 2948</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
+<div class="line"><a id="l02949" name="l02949"></a><span class="lineno"> 2949</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02950" name="l02950"></a><span class="lineno"> 2950</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
+<div class="line"><a id="l02951" name="l02951"></a><span class="lineno"> 2951</span>              outfile &lt;&lt; data.at(i) &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02952" name="l02952"></a><span class="lineno"> 2952</span>            }</div>
+<div class="line"><a id="l02953" name="l02953"></a><span class="lineno"> 2953</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02954" name="l02954"></a><span class="lineno"> 2954</span>          }</div>
+<div class="line"><a id="l02955" name="l02955"></a><span class="lineno"> 2955</span>        }</div>
+<div class="line"><a id="l02956" name="l02956"></a><span class="lineno"> 2956</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_int&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02957" name="l02957"></a><span class="lineno"> 2957</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ad586d734313fa5492db5b8cc84d9eabd">HELIOS_TYPE_INT2</a> ) {</div>
+<div class="line"><a id="l02958" name="l02958"></a><span class="lineno"> 2958</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_int2 &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02959" name="l02959"></a><span class="lineno"> 2959</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
+<div class="line"><a id="l02960" name="l02960"></a><span class="lineno"> 2960</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
+<div class="line"><a id="l02961" name="l02961"></a><span class="lineno"> 2961</span>            std::vector&lt;int2&gt; data;</div>
+<div class="line"><a id="l02962" name="l02962"></a><span class="lineno"> 2962</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
+<div class="line"><a id="l02963" name="l02963"></a><span class="lineno"> 2963</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02964" name="l02964"></a><span class="lineno"> 2964</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
+<div class="line"><a id="l02965" name="l02965"></a><span class="lineno"> 2965</span>              outfile &lt;&lt; data.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).y &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02966" name="l02966"></a><span class="lineno"> 2966</span>            }</div>
+<div class="line"><a id="l02967" name="l02967"></a><span class="lineno"> 2967</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02968" name="l02968"></a><span class="lineno"> 2968</span>          }</div>
+<div class="line"><a id="l02969" name="l02969"></a><span class="lineno"> 2969</span>        }</div>
+<div class="line"><a id="l02970" name="l02970"></a><span class="lineno"> 2970</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_int2&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02971" name="l02971"></a><span class="lineno"> 2971</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a28e69c60e380496c8c35892e76ee4ad3">HELIOS_TYPE_INT3</a> ) {</div>
+<div class="line"><a id="l02972" name="l02972"></a><span class="lineno"> 2972</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_int3 &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02973" name="l02973"></a><span class="lineno"> 2973</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
+<div class="line"><a id="l02974" name="l02974"></a><span class="lineno"> 2974</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
+<div class="line"><a id="l02975" name="l02975"></a><span class="lineno"> 2975</span>            std::vector&lt;int3&gt; data;</div>
+<div class="line"><a id="l02976" name="l02976"></a><span class="lineno"> 2976</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
+<div class="line"><a id="l02977" name="l02977"></a><span class="lineno"> 2977</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02978" name="l02978"></a><span class="lineno"> 2978</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
+<div class="line"><a id="l02979" name="l02979"></a><span class="lineno"> 2979</span>              outfile &lt;&lt; data.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).z &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02980" name="l02980"></a><span class="lineno"> 2980</span>            }</div>
+<div class="line"><a id="l02981" name="l02981"></a><span class="lineno"> 2981</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02982" name="l02982"></a><span class="lineno"> 2982</span>          }</div>
+<div class="line"><a id="l02983" name="l02983"></a><span class="lineno"> 2983</span>        }</div>
+<div class="line"><a id="l02984" name="l02984"></a><span class="lineno"> 2984</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_int3&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02985" name="l02985"></a><span class="lineno"> 2985</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa6e12ea3a9160f59a1208f7cbb6c1ce7">HELIOS_TYPE_INT4</a> ) {</div>
+<div class="line"><a id="l02986" name="l02986"></a><span class="lineno"> 2986</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_int4 &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02987" name="l02987"></a><span class="lineno"> 2987</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
+<div class="line"><a id="l02988" name="l02988"></a><span class="lineno"> 2988</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
+<div class="line"><a id="l02989" name="l02989"></a><span class="lineno"> 2989</span>            std::vector&lt;int4&gt; data;</div>
+<div class="line"><a id="l02990" name="l02990"></a><span class="lineno"> 2990</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
+<div class="line"><a id="l02991" name="l02991"></a><span class="lineno"> 2991</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02992" name="l02992"></a><span class="lineno"> 2992</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
+<div class="line"><a id="l02993" name="l02993"></a><span class="lineno"> 2993</span>              outfile &lt;&lt; data.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).z &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).w &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02994" name="l02994"></a><span class="lineno"> 2994</span>            }</div>
+<div class="line"><a id="l02995" name="l02995"></a><span class="lineno"> 2995</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02996" name="l02996"></a><span class="lineno"> 2996</span>          }</div>
+<div class="line"><a id="l02997" name="l02997"></a><span class="lineno"> 2997</span>        }</div>
+<div class="line"><a id="l02998" name="l02998"></a><span class="lineno"> 2998</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_int4&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02999" name="l02999"></a><span class="lineno"> 2999</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a6269d91d936a3d60a8a763ec122ba233">HELIOS_TYPE_VEC2</a> ) {</div>
+<div class="line"><a id="l03000" name="l03000"></a><span class="lineno"> 3000</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_vec2 &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03001" name="l03001"></a><span class="lineno"> 3001</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
+<div class="line"><a id="l03002" name="l03002"></a><span class="lineno"> 3002</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
+<div class="line"><a id="l03003" name="l03003"></a><span class="lineno"> 3003</span>            std::vector&lt;vec2&gt; data;</div>
+<div class="line"><a id="l03004" name="l03004"></a><span class="lineno"> 3004</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
+<div class="line"><a id="l03005" name="l03005"></a><span class="lineno"> 3005</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03006" name="l03006"></a><span class="lineno"> 3006</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
+<div class="line"><a id="l03007" name="l03007"></a><span class="lineno"> 3007</span>              outfile &lt;&lt; data.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).y &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03008" name="l03008"></a><span class="lineno"> 3008</span>            }</div>
+<div class="line"><a id="l03009" name="l03009"></a><span class="lineno"> 3009</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03010" name="l03010"></a><span class="lineno"> 3010</span>          }</div>
+<div class="line"><a id="l03011" name="l03011"></a><span class="lineno"> 3011</span>        }</div>
+<div class="line"><a id="l03012" name="l03012"></a><span class="lineno"> 3012</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_vec2&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03013" name="l03013"></a><span class="lineno"> 3013</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a8da4db5333fb4d726d17ad82300c9d6c">HELIOS_TYPE_VEC3</a> ) {</div>
+<div class="line"><a id="l03014" name="l03014"></a><span class="lineno"> 3014</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_vec3 &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03015" name="l03015"></a><span class="lineno"> 3015</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
+<div class="line"><a id="l03016" name="l03016"></a><span class="lineno"> 3016</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
+<div class="line"><a id="l03017" name="l03017"></a><span class="lineno"> 3017</span>            std::vector&lt;vec3&gt; data;</div>
+<div class="line"><a id="l03018" name="l03018"></a><span class="lineno"> 3018</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
+<div class="line"><a id="l03019" name="l03019"></a><span class="lineno"> 3019</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03020" name="l03020"></a><span class="lineno"> 3020</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
+<div class="line"><a id="l03021" name="l03021"></a><span class="lineno"> 3021</span>              outfile &lt;&lt; data.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).z &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03022" name="l03022"></a><span class="lineno"> 3022</span>            }</div>
+<div class="line"><a id="l03023" name="l03023"></a><span class="lineno"> 3023</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03024" name="l03024"></a><span class="lineno"> 3024</span>          }</div>
+<div class="line"><a id="l03025" name="l03025"></a><span class="lineno"> 3025</span>        }</div>
+<div class="line"><a id="l03026" name="l03026"></a><span class="lineno"> 3026</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_vec3&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03027" name="l03027"></a><span class="lineno"> 3027</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ade0fe2a24f299ca147b95a0eebe43e5d">HELIOS_TYPE_VEC4</a> ) {</div>
+<div class="line"><a id="l03028" name="l03028"></a><span class="lineno"> 3028</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_vec4 &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03029" name="l03029"></a><span class="lineno"> 3029</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
+<div class="line"><a id="l03030" name="l03030"></a><span class="lineno"> 3030</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
+<div class="line"><a id="l03031" name="l03031"></a><span class="lineno"> 3031</span>            std::vector&lt;vec4&gt; data;</div>
+<div class="line"><a id="l03032" name="l03032"></a><span class="lineno"> 3032</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
+<div class="line"><a id="l03033" name="l03033"></a><span class="lineno"> 3033</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03034" name="l03034"></a><span class="lineno"> 3034</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
+<div class="line"><a id="l03035" name="l03035"></a><span class="lineno"> 3035</span>              outfile &lt;&lt; data.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).z &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.at(i).w &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03036" name="l03036"></a><span class="lineno"> 3036</span>            }</div>
+<div class="line"><a id="l03037" name="l03037"></a><span class="lineno"> 3037</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03038" name="l03038"></a><span class="lineno"> 3038</span>          }</div>
+<div class="line"><a id="l03039" name="l03039"></a><span class="lineno"> 3039</span>        }</div>
+<div class="line"><a id="l03040" name="l03040"></a><span class="lineno"> 3040</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_vec4&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03041" name="l03041"></a><span class="lineno"> 3041</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( pdata_types.at(l)==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7c1f526f519f173e5931fd73b78ccbb3">HELIOS_TYPE_STRING</a> ) {</div>
+<div class="line"><a id="l03042" name="l03042"></a><span class="lineno"> 3042</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;primitive_data_string &quot;</span> &lt;&lt; <span class="stringliteral">&quot;label=\&quot;&quot;</span> &lt;&lt; pdata_labels.at(l) &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03043" name="l03043"></a><span class="lineno"> 3043</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; primitiveUUIDs.size(); p++) {</div>
+<div class="line"><a id="l03044" name="l03044"></a><span class="lineno"> 3044</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str())) {</div>
+<div class="line"><a id="l03045" name="l03045"></a><span class="lineno"> 3045</span>            std::vector&lt;std::string&gt; data;</div>
+<div class="line"><a id="l03046" name="l03046"></a><span class="lineno"> 3046</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(primitiveUUIDs.at(p), pdata_labels.at(l).c_str(), data);</div>
+<div class="line"><a id="l03047" name="l03047"></a><span class="lineno"> 3047</span>            outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;data label=\&quot;&quot;</span> &lt;&lt; p &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03048" name="l03048"></a><span class="lineno"> 3048</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; data.size(); i++) {</div>
+<div class="line"><a id="l03049" name="l03049"></a><span class="lineno"> 3049</span>              outfile &lt;&lt; data.at(i) &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03050" name="l03050"></a><span class="lineno"> 3050</span>            }</div>
+<div class="line"><a id="l03051" name="l03051"></a><span class="lineno"> 3051</span>            outfile &lt;&lt; <span class="stringliteral">&quot; &lt;/data&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03052" name="l03052"></a><span class="lineno"> 3052</span>          }</div>
+<div class="line"><a id="l03053" name="l03053"></a><span class="lineno"> 3053</span>        }</div>
+<div class="line"><a id="l03054" name="l03054"></a><span class="lineno"> 3054</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/primitive_data_string&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03055" name="l03055"></a><span class="lineno"> 3055</span>      }</div>
 <div class="line"><a id="l03056" name="l03056"></a><span class="lineno"> 3056</span> </div>
-<div class="line"><a id="l03057" name="l03057"></a><span class="lineno"> 3057</span>      <span class="keywordtype">float</span> transform[16];</div>
-<div class="line"><a id="l03058" name="l03058"></a><span class="lineno"> 3058</span>      tile-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ac1e98d4f8098dadda345f9dc6dae73ca">getTransformationMatrix</a>(transform);</div>
+<div class="line"><a id="l03057" name="l03057"></a><span class="lineno"> 3057</span> </div>
+<div class="line"><a id="l03058" name="l03058"></a><span class="lineno"> 3058</span>    }</div>
 <div class="line"><a id="l03059" name="l03059"></a><span class="lineno"> 3059</span> </div>
-<div class="line"><a id="l03060" name="l03060"></a><span class="lineno"> 3060</span>      <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> subdiv = tile-&gt;<a class="code hl_function" href="classhelios_1_1_tile.html#a4f4198becfe3cafd989b5aa6cd21d5cf">getSubdivisionCount</a>();</div>
-<div class="line"><a id="l03061" name="l03061"></a><span class="lineno"> 3061</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;subdivisions&gt;&quot;</span> &lt;&lt; subdiv.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; subdiv.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/subdivisions&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03060" name="l03060"></a><span class="lineno"> 3060</span>    <span class="comment">//Tiles</span></div>
+<div class="line"><a id="l03061" name="l03061"></a><span class="lineno"> 3061</span>    <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682aed347b5fb08bc5551b61310a964f0bde">OBJECT_TYPE_TILE</a> ){</div>
 <div class="line"><a id="l03062" name="l03062"></a><span class="lineno"> 3062</span> </div>
-<div class="line"><a id="l03063" name="l03063"></a><span class="lineno"> 3063</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt; &quot;</span>;</div>
-<div class="line"><a id="l03064" name="l03064"></a><span class="lineno"> 3064</span>      <span class="keywordflow">for</span>(<span class="keywordtype">float</span> i : transform){</div>
-<div class="line"><a id="l03065" name="l03065"></a><span class="lineno"> 3065</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l03066" name="l03066"></a><span class="lineno"> 3066</span>      }</div>
-<div class="line"><a id="l03067" name="l03067"></a><span class="lineno"> 3067</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03068" name="l03068"></a><span class="lineno"> 3068</span> </div>
-<div class="line"><a id="l03069" name="l03069"></a><span class="lineno"> 3069</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/tile&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03063" name="l03063"></a><span class="lineno"> 3063</span>      <a class="code hl_class" href="classhelios_1_1_tile.html">Tile</a>* tile = <a class="code hl_function" href="classhelios_1_1_context.html#ad2b762dd7b31126150c6e6dc350a3914">getTileObjectPointer</a>(o);</div>
+<div class="line"><a id="l03064" name="l03064"></a><span class="lineno"> 3064</span> </div>
+<div class="line"><a id="l03065" name="l03065"></a><span class="lineno"> 3065</span>      <span class="keywordtype">float</span> transform[16];</div>
+<div class="line"><a id="l03066" name="l03066"></a><span class="lineno"> 3066</span>      tile-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ac1e98d4f8098dadda345f9dc6dae73ca">getTransformationMatrix</a>(transform);</div>
+<div class="line"><a id="l03067" name="l03067"></a><span class="lineno"> 3067</span> </div>
+<div class="line"><a id="l03068" name="l03068"></a><span class="lineno"> 3068</span>      <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> subdiv = tile-&gt;<a class="code hl_function" href="classhelios_1_1_tile.html#a4f4198becfe3cafd989b5aa6cd21d5cf">getSubdivisionCount</a>();</div>
+<div class="line"><a id="l03069" name="l03069"></a><span class="lineno"> 3069</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;subdivisions&gt;&quot;</span> &lt;&lt; subdiv.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; subdiv.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/subdivisions&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l03070" name="l03070"></a><span class="lineno"> 3070</span> </div>
-<div class="line"><a id="l03071" name="l03071"></a><span class="lineno"> 3071</span>      <span class="comment">//Spheres</span></div>
-<div class="line"><a id="l03072" name="l03072"></a><span class="lineno"> 3072</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682af4e336a18e47e54ca6e9a7f57e665175">OBJECT_TYPE_SPHERE</a> ){</div>
-<div class="line"><a id="l03073" name="l03073"></a><span class="lineno"> 3073</span> </div>
-<div class="line"><a id="l03074" name="l03074"></a><span class="lineno"> 3074</span>      <a class="code hl_class" href="classhelios_1_1_sphere.html">Sphere</a>* sphere = <a class="code hl_function" href="classhelios_1_1_context.html#a8ed7580efa323c0f5e53e97d00e16c85">getSphereObjectPointer</a>(o);</div>
-<div class="line"><a id="l03075" name="l03075"></a><span class="lineno"> 3075</span> </div>
-<div class="line"><a id="l03076" name="l03076"></a><span class="lineno"> 3076</span>      <span class="keywordtype">float</span> transform[16];</div>
-<div class="line"><a id="l03077" name="l03077"></a><span class="lineno"> 3077</span>      sphere-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ac1e98d4f8098dadda345f9dc6dae73ca">getTransformationMatrix</a>(transform);</div>
+<div class="line"><a id="l03071" name="l03071"></a><span class="lineno"> 3071</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt; &quot;</span>;</div>
+<div class="line"><a id="l03072" name="l03072"></a><span class="lineno"> 3072</span>      <span class="keywordflow">for</span>(<span class="keywordtype">float</span> i : transform){</div>
+<div class="line"><a id="l03073" name="l03073"></a><span class="lineno"> 3073</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l03074" name="l03074"></a><span class="lineno"> 3074</span>      }</div>
+<div class="line"><a id="l03075" name="l03075"></a><span class="lineno"> 3075</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03076" name="l03076"></a><span class="lineno"> 3076</span> </div>
+<div class="line"><a id="l03077" name="l03077"></a><span class="lineno"> 3077</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/tile&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l03078" name="l03078"></a><span class="lineno"> 3078</span> </div>
-<div class="line"><a id="l03079" name="l03079"></a><span class="lineno"> 3079</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt; &quot;</span>;</div>
-<div class="line"><a id="l03080" name="l03080"></a><span class="lineno"> 3080</span>      <span class="keywordflow">for</span>(<span class="keywordtype">float</span> i : transform){</div>
-<div class="line"><a id="l03081" name="l03081"></a><span class="lineno"> 3081</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l03082" name="l03082"></a><span class="lineno"> 3082</span>      }</div>
-<div class="line"><a id="l03083" name="l03083"></a><span class="lineno"> 3083</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03084" name="l03084"></a><span class="lineno"> 3084</span> </div>
-<div class="line"><a id="l03085" name="l03085"></a><span class="lineno"> 3085</span>      uint subdiv = sphere-&gt;<a class="code hl_function" href="classhelios_1_1_sphere.html#a152107e463d6765ba27ff8f3ab737711">getSubdivisionCount</a>();</div>
-<div class="line"><a id="l03086" name="l03086"></a><span class="lineno"> 3086</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;subdivisions&gt; &quot;</span> &lt;&lt; subdiv &lt;&lt; <span class="stringliteral">&quot; &lt;/subdivisions&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03087" name="l03087"></a><span class="lineno"> 3087</span> </div>
-<div class="line"><a id="l03088" name="l03088"></a><span class="lineno"> 3088</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/sphere&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03089" name="l03089"></a><span class="lineno"> 3089</span> </div>
-<div class="line"><a id="l03090" name="l03090"></a><span class="lineno"> 3090</span>      <span class="comment">//Tubes</span></div>
-<div class="line"><a id="l03091" name="l03091"></a><span class="lineno"> 3091</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a4c8545d7bc5d79cd8d150eca0624b623">OBJECT_TYPE_TUBE</a> ) {</div>
+<div class="line"><a id="l03079" name="l03079"></a><span class="lineno"> 3079</span>      <span class="comment">//Spheres</span></div>
+<div class="line"><a id="l03080" name="l03080"></a><span class="lineno"> 3080</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682af4e336a18e47e54ca6e9a7f57e665175">OBJECT_TYPE_SPHERE</a> ){</div>
+<div class="line"><a id="l03081" name="l03081"></a><span class="lineno"> 3081</span> </div>
+<div class="line"><a id="l03082" name="l03082"></a><span class="lineno"> 3082</span>      <a class="code hl_class" href="classhelios_1_1_sphere.html">Sphere</a>* sphere = <a class="code hl_function" href="classhelios_1_1_context.html#a8ed7580efa323c0f5e53e97d00e16c85">getSphereObjectPointer</a>(o);</div>
+<div class="line"><a id="l03083" name="l03083"></a><span class="lineno"> 3083</span> </div>
+<div class="line"><a id="l03084" name="l03084"></a><span class="lineno"> 3084</span>      <span class="keywordtype">float</span> transform[16];</div>
+<div class="line"><a id="l03085" name="l03085"></a><span class="lineno"> 3085</span>      sphere-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ac1e98d4f8098dadda345f9dc6dae73ca">getTransformationMatrix</a>(transform);</div>
+<div class="line"><a id="l03086" name="l03086"></a><span class="lineno"> 3086</span> </div>
+<div class="line"><a id="l03087" name="l03087"></a><span class="lineno"> 3087</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt; &quot;</span>;</div>
+<div class="line"><a id="l03088" name="l03088"></a><span class="lineno"> 3088</span>      <span class="keywordflow">for</span>(<span class="keywordtype">float</span> i : transform){</div>
+<div class="line"><a id="l03089" name="l03089"></a><span class="lineno"> 3089</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l03090" name="l03090"></a><span class="lineno"> 3090</span>      }</div>
+<div class="line"><a id="l03091" name="l03091"></a><span class="lineno"> 3091</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l03092" name="l03092"></a><span class="lineno"> 3092</span> </div>
-<div class="line"><a id="l03093" name="l03093"></a><span class="lineno"> 3093</span>      <a class="code hl_class" href="classhelios_1_1_tube.html">Tube</a> *tube = <a class="code hl_function" href="classhelios_1_1_context.html#ab26f963c75aa99d797a43860479910b0">getTubeObjectPointer</a>(o);</div>
-<div class="line"><a id="l03094" name="l03094"></a><span class="lineno"> 3094</span> </div>
-<div class="line"><a id="l03095" name="l03095"></a><span class="lineno"> 3095</span>      <span class="keywordtype">float</span> transform[16];</div>
-<div class="line"><a id="l03096" name="l03096"></a><span class="lineno"> 3096</span>      tube-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ac1e98d4f8098dadda345f9dc6dae73ca">getTransformationMatrix</a>(transform);</div>
+<div class="line"><a id="l03093" name="l03093"></a><span class="lineno"> 3093</span>      uint subdiv = sphere-&gt;<a class="code hl_function" href="classhelios_1_1_sphere.html#a152107e463d6765ba27ff8f3ab737711">getSubdivisionCount</a>();</div>
+<div class="line"><a id="l03094" name="l03094"></a><span class="lineno"> 3094</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;subdivisions&gt; &quot;</span> &lt;&lt; subdiv &lt;&lt; <span class="stringliteral">&quot; &lt;/subdivisions&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03095" name="l03095"></a><span class="lineno"> 3095</span> </div>
+<div class="line"><a id="l03096" name="l03096"></a><span class="lineno"> 3096</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/sphere&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l03097" name="l03097"></a><span class="lineno"> 3097</span> </div>
-<div class="line"><a id="l03098" name="l03098"></a><span class="lineno"> 3098</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt; &quot;</span>;</div>
-<div class="line"><a id="l03099" name="l03099"></a><span class="lineno"> 3099</span>      <span class="keywordflow">for</span> (<span class="keywordtype">float</span> i: transform) {</div>
-<div class="line"><a id="l03100" name="l03100"></a><span class="lineno"> 3100</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l03101" name="l03101"></a><span class="lineno"> 3101</span>      }</div>
-<div class="line"><a id="l03102" name="l03102"></a><span class="lineno"> 3102</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03103" name="l03103"></a><span class="lineno"> 3103</span> </div>
-<div class="line"><a id="l03104" name="l03104"></a><span class="lineno"> 3104</span>      uint subdiv = tube-&gt;<a class="code hl_function" href="classhelios_1_1_tube.html#abf9bb1153b3607a5d616aafeee06e43e">getSubdivisionCount</a>();</div>
-<div class="line"><a id="l03105" name="l03105"></a><span class="lineno"> 3105</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;subdivisions&gt; &quot;</span> &lt;&lt; subdiv &lt;&lt; <span class="stringliteral">&quot; &lt;/subdivisions&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03106" name="l03106"></a><span class="lineno"> 3106</span> </div>
-<div class="line"><a id="l03107" name="l03107"></a><span class="lineno"> 3107</span>      std::vector&lt;vec3&gt; nodes = tube-&gt;<a class="code hl_function" href="classhelios_1_1_tube.html#ab55e8f7d7a948941027f169d714e365b">getNodes</a>();</div>
-<div class="line"><a id="l03108" name="l03108"></a><span class="lineno"> 3108</span>      std::vector&lt;float&gt; radius = tube-&gt;<a class="code hl_function" href="classhelios_1_1_tube.html#a29823b956371d22b35add97fc6831cab">getNodeRadii</a>();</div>
-<div class="line"><a id="l03109" name="l03109"></a><span class="lineno"> 3109</span> </div>
-<div class="line"><a id="l03110" name="l03110"></a><span class="lineno"> 3110</span>      assert(nodes.size() == radius.size());</div>
-<div class="line"><a id="l03111" name="l03111"></a><span class="lineno"> 3111</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;nodes&gt; &quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03112" name="l03112"></a><span class="lineno"> 3112</span>      <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; nodes.size(); i++) {</div>
-<div class="line"><a id="l03113" name="l03113"></a><span class="lineno"> 3113</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&quot;</span> &lt;&lt; nodes.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; nodes.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; nodes.at(i).z &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03114" name="l03114"></a><span class="lineno"> 3114</span>      }</div>
-<div class="line"><a id="l03115" name="l03115"></a><span class="lineno"> 3115</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/nodes&gt; &quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03116" name="l03116"></a><span class="lineno"> 3116</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;radius&gt; &quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03117" name="l03117"></a><span class="lineno"> 3117</span>      <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; radius.size(); i++) {</div>
-<div class="line"><a id="l03118" name="l03118"></a><span class="lineno"> 3118</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&quot;</span> &lt;&lt; radius.at(i) &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03119" name="l03119"></a><span class="lineno"> 3119</span>      }</div>
-<div class="line"><a id="l03120" name="l03120"></a><span class="lineno"> 3120</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/radius&gt; &quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03121" name="l03121"></a><span class="lineno"> 3121</span> </div>
-<div class="line"><a id="l03122" name="l03122"></a><span class="lineno"> 3122</span>      <span class="keywordflow">if</span>( texture_file.empty() ) {</div>
-<div class="line"><a id="l03123" name="l03123"></a><span class="lineno"> 3123</span>        std::vector&lt;RGBcolor&gt; colors = tube-&gt;<a class="code hl_function" href="classhelios_1_1_tube.html#aae753418cb304e97c296240dc9919388">getNodeColors</a>();</div>
-<div class="line"><a id="l03124" name="l03124"></a><span class="lineno"> 3124</span> </div>
-<div class="line"><a id="l03125" name="l03125"></a><span class="lineno"> 3125</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;color&gt; &quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03126" name="l03126"></a><span class="lineno"> 3126</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; colors.size(); i++) {</div>
-<div class="line"><a id="l03127" name="l03127"></a><span class="lineno"> 3127</span>          outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&quot;</span> &lt;&lt; colors.at(i).r &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; colors.at(i).g &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; colors.at(i).b &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03128" name="l03128"></a><span class="lineno"> 3128</span>        }</div>
-<div class="line"><a id="l03129" name="l03129"></a><span class="lineno"> 3129</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/color&gt; &quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03130" name="l03130"></a><span class="lineno"> 3130</span> </div>
-<div class="line"><a id="l03131" name="l03131"></a><span class="lineno"> 3131</span>      }</div>
+<div class="line"><a id="l03098" name="l03098"></a><span class="lineno"> 3098</span>      <span class="comment">//Tubes</span></div>
+<div class="line"><a id="l03099" name="l03099"></a><span class="lineno"> 3099</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a4c8545d7bc5d79cd8d150eca0624b623">OBJECT_TYPE_TUBE</a> ) {</div>
+<div class="line"><a id="l03100" name="l03100"></a><span class="lineno"> 3100</span> </div>
+<div class="line"><a id="l03101" name="l03101"></a><span class="lineno"> 3101</span>      <a class="code hl_class" href="classhelios_1_1_tube.html">Tube</a> *tube = <a class="code hl_function" href="classhelios_1_1_context.html#ab26f963c75aa99d797a43860479910b0">getTubeObjectPointer</a>(o);</div>
+<div class="line"><a id="l03102" name="l03102"></a><span class="lineno"> 3102</span> </div>
+<div class="line"><a id="l03103" name="l03103"></a><span class="lineno"> 3103</span>      <span class="keywordtype">float</span> transform[16];</div>
+<div class="line"><a id="l03104" name="l03104"></a><span class="lineno"> 3104</span>      tube-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ac1e98d4f8098dadda345f9dc6dae73ca">getTransformationMatrix</a>(transform);</div>
+<div class="line"><a id="l03105" name="l03105"></a><span class="lineno"> 3105</span> </div>
+<div class="line"><a id="l03106" name="l03106"></a><span class="lineno"> 3106</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt; &quot;</span>;</div>
+<div class="line"><a id="l03107" name="l03107"></a><span class="lineno"> 3107</span>      <span class="keywordflow">for</span> (<span class="keywordtype">float</span> i: transform) {</div>
+<div class="line"><a id="l03108" name="l03108"></a><span class="lineno"> 3108</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l03109" name="l03109"></a><span class="lineno"> 3109</span>      }</div>
+<div class="line"><a id="l03110" name="l03110"></a><span class="lineno"> 3110</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03111" name="l03111"></a><span class="lineno"> 3111</span> </div>
+<div class="line"><a id="l03112" name="l03112"></a><span class="lineno"> 3112</span>      uint subdiv = tube-&gt;<a class="code hl_function" href="classhelios_1_1_tube.html#abf9bb1153b3607a5d616aafeee06e43e">getSubdivisionCount</a>();</div>
+<div class="line"><a id="l03113" name="l03113"></a><span class="lineno"> 3113</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;subdivisions&gt; &quot;</span> &lt;&lt; subdiv &lt;&lt; <span class="stringliteral">&quot; &lt;/subdivisions&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03114" name="l03114"></a><span class="lineno"> 3114</span> </div>
+<div class="line"><a id="l03115" name="l03115"></a><span class="lineno"> 3115</span>      std::vector&lt;vec3&gt; nodes = tube-&gt;<a class="code hl_function" href="classhelios_1_1_tube.html#ab55e8f7d7a948941027f169d714e365b">getNodes</a>();</div>
+<div class="line"><a id="l03116" name="l03116"></a><span class="lineno"> 3116</span>      std::vector&lt;float&gt; radius = tube-&gt;<a class="code hl_function" href="classhelios_1_1_tube.html#a29823b956371d22b35add97fc6831cab">getNodeRadii</a>();</div>
+<div class="line"><a id="l03117" name="l03117"></a><span class="lineno"> 3117</span> </div>
+<div class="line"><a id="l03118" name="l03118"></a><span class="lineno"> 3118</span>      assert(nodes.size() == radius.size());</div>
+<div class="line"><a id="l03119" name="l03119"></a><span class="lineno"> 3119</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;nodes&gt; &quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03120" name="l03120"></a><span class="lineno"> 3120</span>      <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; nodes.size(); i++) {</div>
+<div class="line"><a id="l03121" name="l03121"></a><span class="lineno"> 3121</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&quot;</span> &lt;&lt; nodes.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; nodes.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; nodes.at(i).z &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03122" name="l03122"></a><span class="lineno"> 3122</span>      }</div>
+<div class="line"><a id="l03123" name="l03123"></a><span class="lineno"> 3123</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/nodes&gt; &quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03124" name="l03124"></a><span class="lineno"> 3124</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;radius&gt; &quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03125" name="l03125"></a><span class="lineno"> 3125</span>      <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; radius.size(); i++) {</div>
+<div class="line"><a id="l03126" name="l03126"></a><span class="lineno"> 3126</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&quot;</span> &lt;&lt; radius.at(i) &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03127" name="l03127"></a><span class="lineno"> 3127</span>      }</div>
+<div class="line"><a id="l03128" name="l03128"></a><span class="lineno"> 3128</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/radius&gt; &quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03129" name="l03129"></a><span class="lineno"> 3129</span> </div>
+<div class="line"><a id="l03130" name="l03130"></a><span class="lineno"> 3130</span>      <span class="keywordflow">if</span>( texture_file.empty() ) {</div>
+<div class="line"><a id="l03131" name="l03131"></a><span class="lineno"> 3131</span>        std::vector&lt;RGBcolor&gt; colors = tube-&gt;<a class="code hl_function" href="classhelios_1_1_tube.html#aae753418cb304e97c296240dc9919388">getNodeColors</a>();</div>
 <div class="line"><a id="l03132" name="l03132"></a><span class="lineno"> 3132</span> </div>
-<div class="line"><a id="l03133" name="l03133"></a><span class="lineno"> 3133</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/tube&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03134" name="l03134"></a><span class="lineno"> 3134</span> </div>
-<div class="line"><a id="l03135" name="l03135"></a><span class="lineno"> 3135</span>      <span class="comment">//Boxes</span></div>
-<div class="line"><a id="l03136" name="l03136"></a><span class="lineno"> 3136</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a2f065407387865d0564746c763c78d66">OBJECT_TYPE_BOX</a> ) {</div>
-<div class="line"><a id="l03137" name="l03137"></a><span class="lineno"> 3137</span> </div>
-<div class="line"><a id="l03138" name="l03138"></a><span class="lineno"> 3138</span>      <a class="code hl_class" href="classhelios_1_1_box.html">Box</a> *box = <a class="code hl_function" href="classhelios_1_1_context.html#a1ecbb5a8cfa6764bade6e0650d2f6990">getBoxObjectPointer</a>(o);</div>
-<div class="line"><a id="l03139" name="l03139"></a><span class="lineno"> 3139</span> </div>
-<div class="line"><a id="l03140" name="l03140"></a><span class="lineno"> 3140</span>      <span class="keywordtype">float</span> transform[16];</div>
-<div class="line"><a id="l03141" name="l03141"></a><span class="lineno"> 3141</span>      box-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ac1e98d4f8098dadda345f9dc6dae73ca">getTransformationMatrix</a>(transform);</div>
+<div class="line"><a id="l03133" name="l03133"></a><span class="lineno"> 3133</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;color&gt; &quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03134" name="l03134"></a><span class="lineno"> 3134</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; colors.size(); i++) {</div>
+<div class="line"><a id="l03135" name="l03135"></a><span class="lineno"> 3135</span>          outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&quot;</span> &lt;&lt; colors.at(i).r &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; colors.at(i).g &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; colors.at(i).b &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03136" name="l03136"></a><span class="lineno"> 3136</span>        }</div>
+<div class="line"><a id="l03137" name="l03137"></a><span class="lineno"> 3137</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/color&gt; &quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03138" name="l03138"></a><span class="lineno"> 3138</span> </div>
+<div class="line"><a id="l03139" name="l03139"></a><span class="lineno"> 3139</span>      }</div>
+<div class="line"><a id="l03140" name="l03140"></a><span class="lineno"> 3140</span> </div>
+<div class="line"><a id="l03141" name="l03141"></a><span class="lineno"> 3141</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/tube&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l03142" name="l03142"></a><span class="lineno"> 3142</span> </div>
-<div class="line"><a id="l03143" name="l03143"></a><span class="lineno"> 3143</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt; &quot;</span>;</div>
-<div class="line"><a id="l03144" name="l03144"></a><span class="lineno"> 3144</span>      <span class="keywordflow">for</span> (<span class="keywordtype">float</span> i: transform) {</div>
-<div class="line"><a id="l03145" name="l03145"></a><span class="lineno"> 3145</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l03146" name="l03146"></a><span class="lineno"> 3146</span>      }</div>
-<div class="line"><a id="l03147" name="l03147"></a><span class="lineno"> 3147</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03148" name="l03148"></a><span class="lineno"> 3148</span> </div>
-<div class="line"><a id="l03149" name="l03149"></a><span class="lineno"> 3149</span>      <a class="code hl_struct" href="structhelios_1_1int3.html">int3</a> subdiv = box-&gt;<a class="code hl_function" href="classhelios_1_1_box.html#a6f25b211d8740257329f841cda737a4f">getSubdivisionCount</a>();</div>
-<div class="line"><a id="l03150" name="l03150"></a><span class="lineno"> 3150</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;subdivisions&gt; &quot;</span> &lt;&lt; subdiv.<a class="code hl_variable" href="structhelios_1_1int3.html#a1ce8c8391637ea6e33bb30b1d0adfc50">x</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; subdiv.<a class="code hl_variable" href="structhelios_1_1int3.html#aeba3aa4380ec4d9c216f98be95083d5c">y</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; subdiv.<a class="code hl_variable" href="structhelios_1_1int3.html#adb4b47bc05bdb62677200e025e4bf641">z</a> &lt;&lt; <span class="stringliteral">&quot; &lt;/subdivisions&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03151" name="l03151"></a><span class="lineno"> 3151</span> </div>
-<div class="line"><a id="l03152" name="l03152"></a><span class="lineno"> 3152</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/box&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03153" name="l03153"></a><span class="lineno"> 3153</span> </div>
-<div class="line"><a id="l03154" name="l03154"></a><span class="lineno"> 3154</span>      <span class="comment">//Disks</span></div>
-<div class="line"><a id="l03155" name="l03155"></a><span class="lineno"> 3155</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a7d26aca591c366d41bca9d184a07ee51">OBJECT_TYPE_DISK</a> ) {</div>
+<div class="line"><a id="l03143" name="l03143"></a><span class="lineno"> 3143</span>      <span class="comment">//Boxes</span></div>
+<div class="line"><a id="l03144" name="l03144"></a><span class="lineno"> 3144</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a2f065407387865d0564746c763c78d66">OBJECT_TYPE_BOX</a> ) {</div>
+<div class="line"><a id="l03145" name="l03145"></a><span class="lineno"> 3145</span> </div>
+<div class="line"><a id="l03146" name="l03146"></a><span class="lineno"> 3146</span>      <a class="code hl_class" href="classhelios_1_1_box.html">Box</a> *box = <a class="code hl_function" href="classhelios_1_1_context.html#a1ecbb5a8cfa6764bade6e0650d2f6990">getBoxObjectPointer</a>(o);</div>
+<div class="line"><a id="l03147" name="l03147"></a><span class="lineno"> 3147</span> </div>
+<div class="line"><a id="l03148" name="l03148"></a><span class="lineno"> 3148</span>      <span class="keywordtype">float</span> transform[16];</div>
+<div class="line"><a id="l03149" name="l03149"></a><span class="lineno"> 3149</span>      box-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ac1e98d4f8098dadda345f9dc6dae73ca">getTransformationMatrix</a>(transform);</div>
+<div class="line"><a id="l03150" name="l03150"></a><span class="lineno"> 3150</span> </div>
+<div class="line"><a id="l03151" name="l03151"></a><span class="lineno"> 3151</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt; &quot;</span>;</div>
+<div class="line"><a id="l03152" name="l03152"></a><span class="lineno"> 3152</span>      <span class="keywordflow">for</span> (<span class="keywordtype">float</span> i: transform) {</div>
+<div class="line"><a id="l03153" name="l03153"></a><span class="lineno"> 3153</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l03154" name="l03154"></a><span class="lineno"> 3154</span>      }</div>
+<div class="line"><a id="l03155" name="l03155"></a><span class="lineno"> 3155</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l03156" name="l03156"></a><span class="lineno"> 3156</span> </div>
-<div class="line"><a id="l03157" name="l03157"></a><span class="lineno"> 3157</span>      <a class="code hl_class" href="classhelios_1_1_disk.html">Disk</a> *disk = <a class="code hl_function" href="classhelios_1_1_context.html#a17c1256a1f57fbae1f34e04b66b76ca8">getDiskObjectPointer</a>(o);</div>
-<div class="line"><a id="l03158" name="l03158"></a><span class="lineno"> 3158</span> </div>
-<div class="line"><a id="l03159" name="l03159"></a><span class="lineno"> 3159</span>      <span class="keywordtype">float</span> transform[16];</div>
-<div class="line"><a id="l03160" name="l03160"></a><span class="lineno"> 3160</span>      disk-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ac1e98d4f8098dadda345f9dc6dae73ca">getTransformationMatrix</a>(transform);</div>
+<div class="line"><a id="l03157" name="l03157"></a><span class="lineno"> 3157</span>      <a class="code hl_struct" href="structhelios_1_1int3.html">int3</a> subdiv = box-&gt;<a class="code hl_function" href="classhelios_1_1_box.html#a6f25b211d8740257329f841cda737a4f">getSubdivisionCount</a>();</div>
+<div class="line"><a id="l03158" name="l03158"></a><span class="lineno"> 3158</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;subdivisions&gt; &quot;</span> &lt;&lt; subdiv.<a class="code hl_variable" href="structhelios_1_1int3.html#a1ce8c8391637ea6e33bb30b1d0adfc50">x</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; subdiv.<a class="code hl_variable" href="structhelios_1_1int3.html#aeba3aa4380ec4d9c216f98be95083d5c">y</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; subdiv.<a class="code hl_variable" href="structhelios_1_1int3.html#adb4b47bc05bdb62677200e025e4bf641">z</a> &lt;&lt; <span class="stringliteral">&quot; &lt;/subdivisions&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03159" name="l03159"></a><span class="lineno"> 3159</span> </div>
+<div class="line"><a id="l03160" name="l03160"></a><span class="lineno"> 3160</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/box&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l03161" name="l03161"></a><span class="lineno"> 3161</span> </div>
-<div class="line"><a id="l03162" name="l03162"></a><span class="lineno"> 3162</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt; &quot;</span>;</div>
-<div class="line"><a id="l03163" name="l03163"></a><span class="lineno"> 3163</span>      <span class="keywordflow">for</span> (<span class="keywordtype">float</span> i: transform) {</div>
-<div class="line"><a id="l03164" name="l03164"></a><span class="lineno"> 3164</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l03165" name="l03165"></a><span class="lineno"> 3165</span>      }</div>
-<div class="line"><a id="l03166" name="l03166"></a><span class="lineno"> 3166</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03167" name="l03167"></a><span class="lineno"> 3167</span> </div>
-<div class="line"><a id="l03168" name="l03168"></a><span class="lineno"> 3168</span>      <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> subdiv = disk-&gt;<a class="code hl_function" href="classhelios_1_1_disk.html#a8dc2a195735ee3321b274274e7e0352e">getSubdivisionCount</a>();</div>
-<div class="line"><a id="l03169" name="l03169"></a><span class="lineno"> 3169</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;subdivisions&gt; &quot;</span> &lt;&lt; subdiv.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; subdiv.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> &lt;&lt; <span class="stringliteral">&quot; &lt;/subdivisions&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03170" name="l03170"></a><span class="lineno"> 3170</span> </div>
-<div class="line"><a id="l03171" name="l03171"></a><span class="lineno"> 3171</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/disk&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03172" name="l03172"></a><span class="lineno"> 3172</span> </div>
-<div class="line"><a id="l03173" name="l03173"></a><span class="lineno"> 3173</span>      <span class="comment">//Cones</span></div>
-<div class="line"><a id="l03174" name="l03174"></a><span class="lineno"> 3174</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a6bcd175267f2f6d4f4a75b8e1e520def">OBJECT_TYPE_CONE</a> ) {</div>
+<div class="line"><a id="l03162" name="l03162"></a><span class="lineno"> 3162</span>      <span class="comment">//Disks</span></div>
+<div class="line"><a id="l03163" name="l03163"></a><span class="lineno"> 3163</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a7d26aca591c366d41bca9d184a07ee51">OBJECT_TYPE_DISK</a> ) {</div>
+<div class="line"><a id="l03164" name="l03164"></a><span class="lineno"> 3164</span> </div>
+<div class="line"><a id="l03165" name="l03165"></a><span class="lineno"> 3165</span>      <a class="code hl_class" href="classhelios_1_1_disk.html">Disk</a> *disk = <a class="code hl_function" href="classhelios_1_1_context.html#a17c1256a1f57fbae1f34e04b66b76ca8">getDiskObjectPointer</a>(o);</div>
+<div class="line"><a id="l03166" name="l03166"></a><span class="lineno"> 3166</span> </div>
+<div class="line"><a id="l03167" name="l03167"></a><span class="lineno"> 3167</span>      <span class="keywordtype">float</span> transform[16];</div>
+<div class="line"><a id="l03168" name="l03168"></a><span class="lineno"> 3168</span>      disk-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ac1e98d4f8098dadda345f9dc6dae73ca">getTransformationMatrix</a>(transform);</div>
+<div class="line"><a id="l03169" name="l03169"></a><span class="lineno"> 3169</span> </div>
+<div class="line"><a id="l03170" name="l03170"></a><span class="lineno"> 3170</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt; &quot;</span>;</div>
+<div class="line"><a id="l03171" name="l03171"></a><span class="lineno"> 3171</span>      <span class="keywordflow">for</span> (<span class="keywordtype">float</span> i: transform) {</div>
+<div class="line"><a id="l03172" name="l03172"></a><span class="lineno"> 3172</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l03173" name="l03173"></a><span class="lineno"> 3173</span>      }</div>
+<div class="line"><a id="l03174" name="l03174"></a><span class="lineno"> 3174</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l03175" name="l03175"></a><span class="lineno"> 3175</span> </div>
-<div class="line"><a id="l03176" name="l03176"></a><span class="lineno"> 3176</span>      <a class="code hl_class" href="classhelios_1_1_cone.html">Cone</a> *cone = <a class="code hl_function" href="classhelios_1_1_context.html#a3221051ea9c1025e8fb00d9dec01839f">getConeObjectPointer</a>(o);</div>
-<div class="line"><a id="l03177" name="l03177"></a><span class="lineno"> 3177</span> </div>
-<div class="line"><a id="l03178" name="l03178"></a><span class="lineno"> 3178</span>      <span class="keywordtype">float</span> transform[16];</div>
-<div class="line"><a id="l03179" name="l03179"></a><span class="lineno"> 3179</span>      cone-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ac1e98d4f8098dadda345f9dc6dae73ca">getTransformationMatrix</a>(transform);</div>
+<div class="line"><a id="l03176" name="l03176"></a><span class="lineno"> 3176</span>      <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> subdiv = disk-&gt;<a class="code hl_function" href="classhelios_1_1_disk.html#a8dc2a195735ee3321b274274e7e0352e">getSubdivisionCount</a>();</div>
+<div class="line"><a id="l03177" name="l03177"></a><span class="lineno"> 3177</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;subdivisions&gt; &quot;</span> &lt;&lt; subdiv.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; subdiv.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> &lt;&lt; <span class="stringliteral">&quot; &lt;/subdivisions&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03178" name="l03178"></a><span class="lineno"> 3178</span> </div>
+<div class="line"><a id="l03179" name="l03179"></a><span class="lineno"> 3179</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/disk&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l03180" name="l03180"></a><span class="lineno"> 3180</span> </div>
-<div class="line"><a id="l03181" name="l03181"></a><span class="lineno"> 3181</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt; &quot;</span>;</div>
-<div class="line"><a id="l03182" name="l03182"></a><span class="lineno"> 3182</span>      <span class="keywordflow">for</span> (<span class="keywordtype">float</span> i: transform) {</div>
-<div class="line"><a id="l03183" name="l03183"></a><span class="lineno"> 3183</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l03184" name="l03184"></a><span class="lineno"> 3184</span>      }</div>
-<div class="line"><a id="l03185" name="l03185"></a><span class="lineno"> 3185</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03186" name="l03186"></a><span class="lineno"> 3186</span> </div>
-<div class="line"><a id="l03187" name="l03187"></a><span class="lineno"> 3187</span>      uint subdiv = cone-&gt;<a class="code hl_function" href="classhelios_1_1_cone.html#a051a2c5760d53a6c0b95f66cab9cbf73">getSubdivisionCount</a>();</div>
-<div class="line"><a id="l03188" name="l03188"></a><span class="lineno"> 3188</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;subdivisions&gt; &quot;</span> &lt;&lt; subdiv &lt;&lt; <span class="stringliteral">&quot; &lt;/subdivisions&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03189" name="l03189"></a><span class="lineno"> 3189</span> </div>
-<div class="line"><a id="l03190" name="l03190"></a><span class="lineno"> 3190</span>      std::vector&lt;vec3&gt; nodes = cone-&gt;<a class="code hl_function" href="classhelios_1_1_cone.html#a9eaab4331e325c85ce9f4c101135c966">getNodeCoordinates</a>();</div>
-<div class="line"><a id="l03191" name="l03191"></a><span class="lineno"> 3191</span>      std::vector&lt;float&gt; radius = cone-&gt;<a class="code hl_function" href="classhelios_1_1_cone.html#adc5370734810e4b526bf0d42e143ecf8">getNodeRadii</a>();</div>
-<div class="line"><a id="l03192" name="l03192"></a><span class="lineno"> 3192</span> </div>
-<div class="line"><a id="l03193" name="l03193"></a><span class="lineno"> 3193</span>      assert(nodes.size() == radius.size());</div>
-<div class="line"><a id="l03194" name="l03194"></a><span class="lineno"> 3194</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;nodes&gt; &quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03195" name="l03195"></a><span class="lineno"> 3195</span>      <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; nodes.size(); i++) {</div>
-<div class="line"><a id="l03196" name="l03196"></a><span class="lineno"> 3196</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&quot;</span> &lt;&lt; nodes.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; nodes.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; nodes.at(i).z &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03197" name="l03197"></a><span class="lineno"> 3197</span>      }</div>
-<div class="line"><a id="l03198" name="l03198"></a><span class="lineno"> 3198</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/nodes&gt; &quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03199" name="l03199"></a><span class="lineno"> 3199</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;radius&gt; &quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03200" name="l03200"></a><span class="lineno"> 3200</span>      <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; radius.size(); i++) {</div>
-<div class="line"><a id="l03201" name="l03201"></a><span class="lineno"> 3201</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&quot;</span> &lt;&lt; radius.at(i) &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03202" name="l03202"></a><span class="lineno"> 3202</span>      }</div>
-<div class="line"><a id="l03203" name="l03203"></a><span class="lineno"> 3203</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/radius&gt; &quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03204" name="l03204"></a><span class="lineno"> 3204</span> </div>
-<div class="line"><a id="l03205" name="l03205"></a><span class="lineno"> 3205</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/cone&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03206" name="l03206"></a><span class="lineno"> 3206</span> </div>
-<div class="line"><a id="l03207" name="l03207"></a><span class="lineno"> 3207</span>      <span class="comment">//Polymesh</span></div>
-<div class="line"><a id="l03208" name="l03208"></a><span class="lineno"> 3208</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a40bb0200100d500b738a6c3efc70df38">OBJECT_TYPE_POLYMESH</a> ) {</div>
-<div class="line"><a id="l03209" name="l03209"></a><span class="lineno"> 3209</span> </div>
-<div class="line"><a id="l03210" name="l03210"></a><span class="lineno"> 3210</span>        outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/polymesh&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03211" name="l03211"></a><span class="lineno"> 3211</span> </div>
-<div class="line"><a id="l03212" name="l03212"></a><span class="lineno"> 3212</span>    }</div>
-<div class="line"><a id="l03213" name="l03213"></a><span class="lineno"> 3213</span> </div>
-<div class="line"><a id="l03214" name="l03214"></a><span class="lineno"> 3214</span>  }</div>
-<div class="line"><a id="l03215" name="l03215"></a><span class="lineno"> 3215</span> </div>
-<div class="line"><a id="l03216" name="l03216"></a><span class="lineno"> 3216</span> </div>
-<div class="line"><a id="l03217" name="l03217"></a><span class="lineno"> 3217</span>  <span class="comment">// -- global data -- //</span></div>
-<div class="line"><a id="l03218" name="l03218"></a><span class="lineno"> 3218</span> </div>
-<div class="line"><a id="l03219" name="l03219"></a><span class="lineno"> 3219</span>  <span class="keywordflow">for</span>(<span class="keyword">const</span> <span class="keyword">auto</span> &amp; iter : globaldata){</div>
-<div class="line"><a id="l03220" name="l03220"></a><span class="lineno"> 3220</span>    std::string label = iter.first;</div>
-<div class="line"><a id="l03221" name="l03221"></a><span class="lineno"> 3221</span>    <a class="code hl_struct" href="structhelios_1_1_global_data.html">GlobalData</a> data = iter.second;</div>
-<div class="line"><a id="l03222" name="l03222"></a><span class="lineno"> 3222</span>    <a class="code hl_enumeration" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">HeliosDataType</a> type = data.type;</div>
-<div class="line"><a id="l03223" name="l03223"></a><span class="lineno"> 3223</span>    <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a> ){</div>
-<div class="line"><a id="l03224" name="l03224"></a><span class="lineno"> 3224</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_uint label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03225" name="l03225"></a><span class="lineno"> 3225</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
-<div class="line"><a id="l03226" name="l03226"></a><span class="lineno"> 3226</span>        outfile &lt;&lt; data.global_data_uint.at(i) &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03227" name="l03227"></a><span class="lineno"> 3227</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
-<div class="line"><a id="l03228" name="l03228"></a><span class="lineno"> 3228</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03229" name="l03229"></a><span class="lineno"> 3229</span>        }</div>
-<div class="line"><a id="l03230" name="l03230"></a><span class="lineno"> 3230</span>      }</div>
-<div class="line"><a id="l03231" name="l03231"></a><span class="lineno"> 3231</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_uint&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03232" name="l03232"></a><span class="lineno"> 3232</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a> ){</div>
-<div class="line"><a id="l03233" name="l03233"></a><span class="lineno"> 3233</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_int label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03234" name="l03234"></a><span class="lineno"> 3234</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
-<div class="line"><a id="l03235" name="l03235"></a><span class="lineno"> 3235</span>        outfile &lt;&lt; data.global_data_int.at(i) &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03236" name="l03236"></a><span class="lineno"> 3236</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
-<div class="line"><a id="l03237" name="l03237"></a><span class="lineno"> 3237</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03238" name="l03238"></a><span class="lineno"> 3238</span>        }</div>
-<div class="line"><a id="l03239" name="l03239"></a><span class="lineno"> 3239</span>      }</div>
-<div class="line"><a id="l03240" name="l03240"></a><span class="lineno"> 3240</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_int&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03241" name="l03241"></a><span class="lineno"> 3241</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a> ){</div>
-<div class="line"><a id="l03242" name="l03242"></a><span class="lineno"> 3242</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_float label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03243" name="l03243"></a><span class="lineno"> 3243</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
-<div class="line"><a id="l03244" name="l03244"></a><span class="lineno"> 3244</span>        outfile &lt;&lt; data.global_data_float.at(i) &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03245" name="l03245"></a><span class="lineno"> 3245</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
-<div class="line"><a id="l03246" name="l03246"></a><span class="lineno"> 3246</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03247" name="l03247"></a><span class="lineno"> 3247</span>        }</div>
-<div class="line"><a id="l03248" name="l03248"></a><span class="lineno"> 3248</span>      }</div>
-<div class="line"><a id="l03249" name="l03249"></a><span class="lineno"> 3249</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_float&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03250" name="l03250"></a><span class="lineno"> 3250</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a520daf05a1b3086aabd6cbe6a712c1c3">HELIOS_TYPE_DOUBLE</a> ){</div>
-<div class="line"><a id="l03251" name="l03251"></a><span class="lineno"> 3251</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_double label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03252" name="l03252"></a><span class="lineno"> 3252</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
-<div class="line"><a id="l03253" name="l03253"></a><span class="lineno"> 3253</span>        outfile &lt;&lt; data.global_data_double.at(i) &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03254" name="l03254"></a><span class="lineno"> 3254</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
-<div class="line"><a id="l03255" name="l03255"></a><span class="lineno"> 3255</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03256" name="l03256"></a><span class="lineno"> 3256</span>        }</div>
-<div class="line"><a id="l03257" name="l03257"></a><span class="lineno"> 3257</span>      }</div>
-<div class="line"><a id="l03258" name="l03258"></a><span class="lineno"> 3258</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_double&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03259" name="l03259"></a><span class="lineno"> 3259</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a6269d91d936a3d60a8a763ec122ba233">HELIOS_TYPE_VEC2</a> ){</div>
-<div class="line"><a id="l03260" name="l03260"></a><span class="lineno"> 3260</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_vec2 label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03261" name="l03261"></a><span class="lineno"> 3261</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
-<div class="line"><a id="l03262" name="l03262"></a><span class="lineno"> 3262</span>        outfile &lt;&lt; data.global_data_vec2.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_vec2.at(i).y &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03263" name="l03263"></a><span class="lineno"> 3263</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
-<div class="line"><a id="l03264" name="l03264"></a><span class="lineno"> 3264</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03265" name="l03265"></a><span class="lineno"> 3265</span>        }</div>
-<div class="line"><a id="l03266" name="l03266"></a><span class="lineno"> 3266</span>      }</div>
-<div class="line"><a id="l03267" name="l03267"></a><span class="lineno"> 3267</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_vec2&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03268" name="l03268"></a><span class="lineno"> 3268</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a8da4db5333fb4d726d17ad82300c9d6c">HELIOS_TYPE_VEC3</a> ){</div>
-<div class="line"><a id="l03269" name="l03269"></a><span class="lineno"> 3269</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_vec3 label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03270" name="l03270"></a><span class="lineno"> 3270</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
-<div class="line"><a id="l03271" name="l03271"></a><span class="lineno"> 3271</span>        outfile &lt;&lt; data.global_data_vec3.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_vec3.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_vec3.at(i).z &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03272" name="l03272"></a><span class="lineno"> 3272</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
-<div class="line"><a id="l03273" name="l03273"></a><span class="lineno"> 3273</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03274" name="l03274"></a><span class="lineno"> 3274</span>        }</div>
-<div class="line"><a id="l03275" name="l03275"></a><span class="lineno"> 3275</span>      }</div>
-<div class="line"><a id="l03276" name="l03276"></a><span class="lineno"> 3276</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_vec3&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03277" name="l03277"></a><span class="lineno"> 3277</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ade0fe2a24f299ca147b95a0eebe43e5d">HELIOS_TYPE_VEC4</a> ){</div>
-<div class="line"><a id="l03278" name="l03278"></a><span class="lineno"> 3278</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_vec4 label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03279" name="l03279"></a><span class="lineno"> 3279</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
-<div class="line"><a id="l03280" name="l03280"></a><span class="lineno"> 3280</span>        outfile &lt;&lt; data.global_data_vec4.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_vec4.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_vec4.at(i).z &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_vec4.at(i).w &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03281" name="l03281"></a><span class="lineno"> 3281</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
-<div class="line"><a id="l03282" name="l03282"></a><span class="lineno"> 3282</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03283" name="l03283"></a><span class="lineno"> 3283</span>        }</div>
-<div class="line"><a id="l03284" name="l03284"></a><span class="lineno"> 3284</span>      }</div>
-<div class="line"><a id="l03285" name="l03285"></a><span class="lineno"> 3285</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_vec4&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03286" name="l03286"></a><span class="lineno"> 3286</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ad586d734313fa5492db5b8cc84d9eabd">HELIOS_TYPE_INT2</a> ){</div>
-<div class="line"><a id="l03287" name="l03287"></a><span class="lineno"> 3287</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_int2 label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03288" name="l03288"></a><span class="lineno"> 3288</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
-<div class="line"><a id="l03289" name="l03289"></a><span class="lineno"> 3289</span>        outfile &lt;&lt; data.global_data_int2.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span>  &lt;&lt; data.global_data_int2.at(i).y &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03290" name="l03290"></a><span class="lineno"> 3290</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
-<div class="line"><a id="l03291" name="l03291"></a><span class="lineno"> 3291</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03292" name="l03292"></a><span class="lineno"> 3292</span>        }</div>
-<div class="line"><a id="l03293" name="l03293"></a><span class="lineno"> 3293</span>      }</div>
-<div class="line"><a id="l03294" name="l03294"></a><span class="lineno"> 3294</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_int2&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03295" name="l03295"></a><span class="lineno"> 3295</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a28e69c60e380496c8c35892e76ee4ad3">HELIOS_TYPE_INT3</a> ){</div>
-<div class="line"><a id="l03296" name="l03296"></a><span class="lineno"> 3296</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_int3 label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03297" name="l03297"></a><span class="lineno"> 3297</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
-<div class="line"><a id="l03298" name="l03298"></a><span class="lineno"> 3298</span>        outfile &lt;&lt; data.global_data_int3.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_int3.at(i).y &lt;&lt; data.global_data_int3.at(i).z &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03299" name="l03299"></a><span class="lineno"> 3299</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
-<div class="line"><a id="l03300" name="l03300"></a><span class="lineno"> 3300</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03301" name="l03301"></a><span class="lineno"> 3301</span>        }</div>
-<div class="line"><a id="l03302" name="l03302"></a><span class="lineno"> 3302</span>      }</div>
-<div class="line"><a id="l03303" name="l03303"></a><span class="lineno"> 3303</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_int3&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03304" name="l03304"></a><span class="lineno"> 3304</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa6e12ea3a9160f59a1208f7cbb6c1ce7">HELIOS_TYPE_INT4</a> ){</div>
-<div class="line"><a id="l03305" name="l03305"></a><span class="lineno"> 3305</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_int4 label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03306" name="l03306"></a><span class="lineno"> 3306</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
-<div class="line"><a id="l03307" name="l03307"></a><span class="lineno"> 3307</span>        outfile &lt;&lt; data.global_data_int4.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_int4.at(i).y &lt;&lt; data.global_data_int4.at(i).z &lt;&lt; data.global_data_int4.at(i).w &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03308" name="l03308"></a><span class="lineno"> 3308</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
-<div class="line"><a id="l03309" name="l03309"></a><span class="lineno"> 3309</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03310" name="l03310"></a><span class="lineno"> 3310</span>        }</div>
-<div class="line"><a id="l03311" name="l03311"></a><span class="lineno"> 3311</span>      }</div>
-<div class="line"><a id="l03312" name="l03312"></a><span class="lineno"> 3312</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_int4&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03313" name="l03313"></a><span class="lineno"> 3313</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7c1f526f519f173e5931fd73b78ccbb3">HELIOS_TYPE_STRING</a> ){</div>
-<div class="line"><a id="l03314" name="l03314"></a><span class="lineno"> 3314</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_string label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03315" name="l03315"></a><span class="lineno"> 3315</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
-<div class="line"><a id="l03316" name="l03316"></a><span class="lineno"> 3316</span>        outfile &lt;&lt; data.global_data_string.at(i) &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03317" name="l03317"></a><span class="lineno"> 3317</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
-<div class="line"><a id="l03318" name="l03318"></a><span class="lineno"> 3318</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03319" name="l03319"></a><span class="lineno"> 3319</span>        }</div>
-<div class="line"><a id="l03320" name="l03320"></a><span class="lineno"> 3320</span>      }</div>
-<div class="line"><a id="l03321" name="l03321"></a><span class="lineno"> 3321</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_string&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03322" name="l03322"></a><span class="lineno"> 3322</span>    }</div>
-<div class="line"><a id="l03323" name="l03323"></a><span class="lineno"> 3323</span> </div>
-<div class="line"><a id="l03324" name="l03324"></a><span class="lineno"> 3324</span>  }</div>
-<div class="line"><a id="l03325" name="l03325"></a><span class="lineno"> 3325</span> </div>
-<div class="line"><a id="l03326" name="l03326"></a><span class="lineno"> 3326</span>  <span class="comment">// -- timeseries -- //</span></div>
-<div class="line"><a id="l03327" name="l03327"></a><span class="lineno"> 3327</span> </div>
-<div class="line"><a id="l03328" name="l03328"></a><span class="lineno"> 3328</span>  <span class="keywordflow">for</span>(<span class="keyword">const</span> <span class="keyword">auto</span> &amp; iter : timeseries_data){</div>
-<div class="line"><a id="l03329" name="l03329"></a><span class="lineno"> 3329</span> </div>
-<div class="line"><a id="l03330" name="l03330"></a><span class="lineno"> 3330</span>    std::string label = iter.first;</div>
+<div class="line"><a id="l03181" name="l03181"></a><span class="lineno"> 3181</span>      <span class="comment">//Cones</span></div>
+<div class="line"><a id="l03182" name="l03182"></a><span class="lineno"> 3182</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a6bcd175267f2f6d4f4a75b8e1e520def">OBJECT_TYPE_CONE</a> ) {</div>
+<div class="line"><a id="l03183" name="l03183"></a><span class="lineno"> 3183</span> </div>
+<div class="line"><a id="l03184" name="l03184"></a><span class="lineno"> 3184</span>      <a class="code hl_class" href="classhelios_1_1_cone.html">Cone</a> *cone = <a class="code hl_function" href="classhelios_1_1_context.html#a3221051ea9c1025e8fb00d9dec01839f">getConeObjectPointer</a>(o);</div>
+<div class="line"><a id="l03185" name="l03185"></a><span class="lineno"> 3185</span> </div>
+<div class="line"><a id="l03186" name="l03186"></a><span class="lineno"> 3186</span>      <span class="keywordtype">float</span> transform[16];</div>
+<div class="line"><a id="l03187" name="l03187"></a><span class="lineno"> 3187</span>      cone-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ac1e98d4f8098dadda345f9dc6dae73ca">getTransformationMatrix</a>(transform);</div>
+<div class="line"><a id="l03188" name="l03188"></a><span class="lineno"> 3188</span> </div>
+<div class="line"><a id="l03189" name="l03189"></a><span class="lineno"> 3189</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;transform&gt; &quot;</span>;</div>
+<div class="line"><a id="l03190" name="l03190"></a><span class="lineno"> 3190</span>      <span class="keywordflow">for</span> (<span class="keywordtype">float</span> i: transform) {</div>
+<div class="line"><a id="l03191" name="l03191"></a><span class="lineno"> 3191</span>        outfile &lt;&lt; i &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l03192" name="l03192"></a><span class="lineno"> 3192</span>      }</div>
+<div class="line"><a id="l03193" name="l03193"></a><span class="lineno"> 3193</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/transform&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03194" name="l03194"></a><span class="lineno"> 3194</span> </div>
+<div class="line"><a id="l03195" name="l03195"></a><span class="lineno"> 3195</span>      uint subdiv = cone-&gt;<a class="code hl_function" href="classhelios_1_1_cone.html#a051a2c5760d53a6c0b95f66cab9cbf73">getSubdivisionCount</a>();</div>
+<div class="line"><a id="l03196" name="l03196"></a><span class="lineno"> 3196</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;subdivisions&gt; &quot;</span> &lt;&lt; subdiv &lt;&lt; <span class="stringliteral">&quot; &lt;/subdivisions&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03197" name="l03197"></a><span class="lineno"> 3197</span> </div>
+<div class="line"><a id="l03198" name="l03198"></a><span class="lineno"> 3198</span>      std::vector&lt;vec3&gt; nodes = cone-&gt;<a class="code hl_function" href="classhelios_1_1_cone.html#a9eaab4331e325c85ce9f4c101135c966">getNodeCoordinates</a>();</div>
+<div class="line"><a id="l03199" name="l03199"></a><span class="lineno"> 3199</span>      std::vector&lt;float&gt; radius = cone-&gt;<a class="code hl_function" href="classhelios_1_1_cone.html#adc5370734810e4b526bf0d42e143ecf8">getNodeRadii</a>();</div>
+<div class="line"><a id="l03200" name="l03200"></a><span class="lineno"> 3200</span> </div>
+<div class="line"><a id="l03201" name="l03201"></a><span class="lineno"> 3201</span>      assert(nodes.size() == radius.size());</div>
+<div class="line"><a id="l03202" name="l03202"></a><span class="lineno"> 3202</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;nodes&gt; &quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03203" name="l03203"></a><span class="lineno"> 3203</span>      <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; nodes.size(); i++) {</div>
+<div class="line"><a id="l03204" name="l03204"></a><span class="lineno"> 3204</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&quot;</span> &lt;&lt; nodes.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; nodes.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; nodes.at(i).z &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03205" name="l03205"></a><span class="lineno"> 3205</span>      }</div>
+<div class="line"><a id="l03206" name="l03206"></a><span class="lineno"> 3206</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/nodes&gt; &quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03207" name="l03207"></a><span class="lineno"> 3207</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;radius&gt; &quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03208" name="l03208"></a><span class="lineno"> 3208</span>      <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; radius.size(); i++) {</div>
+<div class="line"><a id="l03209" name="l03209"></a><span class="lineno"> 3209</span>        outfile &lt;&lt; <span class="stringliteral">&quot;\t\t&quot;</span> &lt;&lt; radius.at(i) &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03210" name="l03210"></a><span class="lineno"> 3210</span>      }</div>
+<div class="line"><a id="l03211" name="l03211"></a><span class="lineno"> 3211</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/radius&gt; &quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03212" name="l03212"></a><span class="lineno"> 3212</span> </div>
+<div class="line"><a id="l03213" name="l03213"></a><span class="lineno"> 3213</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/cone&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03214" name="l03214"></a><span class="lineno"> 3214</span> </div>
+<div class="line"><a id="l03215" name="l03215"></a><span class="lineno"> 3215</span>      <span class="comment">//Polymesh</span></div>
+<div class="line"><a id="l03216" name="l03216"></a><span class="lineno"> 3216</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( obj-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682a40bb0200100d500b738a6c3efc70df38">OBJECT_TYPE_POLYMESH</a> ) {</div>
+<div class="line"><a id="l03217" name="l03217"></a><span class="lineno"> 3217</span> </div>
+<div class="line"><a id="l03218" name="l03218"></a><span class="lineno"> 3218</span>        outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/polymesh&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03219" name="l03219"></a><span class="lineno"> 3219</span> </div>
+<div class="line"><a id="l03220" name="l03220"></a><span class="lineno"> 3220</span>    }</div>
+<div class="line"><a id="l03221" name="l03221"></a><span class="lineno"> 3221</span> </div>
+<div class="line"><a id="l03222" name="l03222"></a><span class="lineno"> 3222</span>  }</div>
+<div class="line"><a id="l03223" name="l03223"></a><span class="lineno"> 3223</span> </div>
+<div class="line"><a id="l03224" name="l03224"></a><span class="lineno"> 3224</span> </div>
+<div class="line"><a id="l03225" name="l03225"></a><span class="lineno"> 3225</span>  <span class="comment">// -- global data -- //</span></div>
+<div class="line"><a id="l03226" name="l03226"></a><span class="lineno"> 3226</span> </div>
+<div class="line"><a id="l03227" name="l03227"></a><span class="lineno"> 3227</span>  <span class="keywordflow">for</span>(<span class="keyword">const</span> <span class="keyword">auto</span> &amp; iter : globaldata){</div>
+<div class="line"><a id="l03228" name="l03228"></a><span class="lineno"> 3228</span>    std::string label = iter.first;</div>
+<div class="line"><a id="l03229" name="l03229"></a><span class="lineno"> 3229</span>    <a class="code hl_struct" href="structhelios_1_1_global_data.html">GlobalData</a> data = iter.second;</div>
+<div class="line"><a id="l03230" name="l03230"></a><span class="lineno"> 3230</span>    <a class="code hl_enumeration" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">HeliosDataType</a> type = data.type;</div>
+<div class="line"><a id="l03231" name="l03231"></a><span class="lineno"> 3231</span>    <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a> ){</div>
+<div class="line"><a id="l03232" name="l03232"></a><span class="lineno"> 3232</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_uint label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03233" name="l03233"></a><span class="lineno"> 3233</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
+<div class="line"><a id="l03234" name="l03234"></a><span class="lineno"> 3234</span>        outfile &lt;&lt; data.global_data_uint.at(i) &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03235" name="l03235"></a><span class="lineno"> 3235</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
+<div class="line"><a id="l03236" name="l03236"></a><span class="lineno"> 3236</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03237" name="l03237"></a><span class="lineno"> 3237</span>        }</div>
+<div class="line"><a id="l03238" name="l03238"></a><span class="lineno"> 3238</span>      }</div>
+<div class="line"><a id="l03239" name="l03239"></a><span class="lineno"> 3239</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_uint&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03240" name="l03240"></a><span class="lineno"> 3240</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a> ){</div>
+<div class="line"><a id="l03241" name="l03241"></a><span class="lineno"> 3241</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_int label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03242" name="l03242"></a><span class="lineno"> 3242</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
+<div class="line"><a id="l03243" name="l03243"></a><span class="lineno"> 3243</span>        outfile &lt;&lt; data.global_data_int.at(i) &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03244" name="l03244"></a><span class="lineno"> 3244</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
+<div class="line"><a id="l03245" name="l03245"></a><span class="lineno"> 3245</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03246" name="l03246"></a><span class="lineno"> 3246</span>        }</div>
+<div class="line"><a id="l03247" name="l03247"></a><span class="lineno"> 3247</span>      }</div>
+<div class="line"><a id="l03248" name="l03248"></a><span class="lineno"> 3248</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_int&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03249" name="l03249"></a><span class="lineno"> 3249</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a> ){</div>
+<div class="line"><a id="l03250" name="l03250"></a><span class="lineno"> 3250</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_float label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03251" name="l03251"></a><span class="lineno"> 3251</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
+<div class="line"><a id="l03252" name="l03252"></a><span class="lineno"> 3252</span>        outfile &lt;&lt; data.global_data_float.at(i) &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03253" name="l03253"></a><span class="lineno"> 3253</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
+<div class="line"><a id="l03254" name="l03254"></a><span class="lineno"> 3254</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03255" name="l03255"></a><span class="lineno"> 3255</span>        }</div>
+<div class="line"><a id="l03256" name="l03256"></a><span class="lineno"> 3256</span>      }</div>
+<div class="line"><a id="l03257" name="l03257"></a><span class="lineno"> 3257</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_float&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03258" name="l03258"></a><span class="lineno"> 3258</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a520daf05a1b3086aabd6cbe6a712c1c3">HELIOS_TYPE_DOUBLE</a> ){</div>
+<div class="line"><a id="l03259" name="l03259"></a><span class="lineno"> 3259</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_double label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03260" name="l03260"></a><span class="lineno"> 3260</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
+<div class="line"><a id="l03261" name="l03261"></a><span class="lineno"> 3261</span>        outfile &lt;&lt; data.global_data_double.at(i) &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03262" name="l03262"></a><span class="lineno"> 3262</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
+<div class="line"><a id="l03263" name="l03263"></a><span class="lineno"> 3263</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03264" name="l03264"></a><span class="lineno"> 3264</span>        }</div>
+<div class="line"><a id="l03265" name="l03265"></a><span class="lineno"> 3265</span>      }</div>
+<div class="line"><a id="l03266" name="l03266"></a><span class="lineno"> 3266</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_double&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03267" name="l03267"></a><span class="lineno"> 3267</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a6269d91d936a3d60a8a763ec122ba233">HELIOS_TYPE_VEC2</a> ){</div>
+<div class="line"><a id="l03268" name="l03268"></a><span class="lineno"> 3268</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_vec2 label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03269" name="l03269"></a><span class="lineno"> 3269</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
+<div class="line"><a id="l03270" name="l03270"></a><span class="lineno"> 3270</span>        outfile &lt;&lt; data.global_data_vec2.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_vec2.at(i).y &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03271" name="l03271"></a><span class="lineno"> 3271</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
+<div class="line"><a id="l03272" name="l03272"></a><span class="lineno"> 3272</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03273" name="l03273"></a><span class="lineno"> 3273</span>        }</div>
+<div class="line"><a id="l03274" name="l03274"></a><span class="lineno"> 3274</span>      }</div>
+<div class="line"><a id="l03275" name="l03275"></a><span class="lineno"> 3275</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_vec2&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03276" name="l03276"></a><span class="lineno"> 3276</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a8da4db5333fb4d726d17ad82300c9d6c">HELIOS_TYPE_VEC3</a> ){</div>
+<div class="line"><a id="l03277" name="l03277"></a><span class="lineno"> 3277</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_vec3 label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03278" name="l03278"></a><span class="lineno"> 3278</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
+<div class="line"><a id="l03279" name="l03279"></a><span class="lineno"> 3279</span>        outfile &lt;&lt; data.global_data_vec3.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_vec3.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_vec3.at(i).z &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03280" name="l03280"></a><span class="lineno"> 3280</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
+<div class="line"><a id="l03281" name="l03281"></a><span class="lineno"> 3281</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03282" name="l03282"></a><span class="lineno"> 3282</span>        }</div>
+<div class="line"><a id="l03283" name="l03283"></a><span class="lineno"> 3283</span>      }</div>
+<div class="line"><a id="l03284" name="l03284"></a><span class="lineno"> 3284</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_vec3&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03285" name="l03285"></a><span class="lineno"> 3285</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ade0fe2a24f299ca147b95a0eebe43e5d">HELIOS_TYPE_VEC4</a> ){</div>
+<div class="line"><a id="l03286" name="l03286"></a><span class="lineno"> 3286</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_vec4 label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03287" name="l03287"></a><span class="lineno"> 3287</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
+<div class="line"><a id="l03288" name="l03288"></a><span class="lineno"> 3288</span>        outfile &lt;&lt; data.global_data_vec4.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_vec4.at(i).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_vec4.at(i).z &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_vec4.at(i).w &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03289" name="l03289"></a><span class="lineno"> 3289</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
+<div class="line"><a id="l03290" name="l03290"></a><span class="lineno"> 3290</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03291" name="l03291"></a><span class="lineno"> 3291</span>        }</div>
+<div class="line"><a id="l03292" name="l03292"></a><span class="lineno"> 3292</span>      }</div>
+<div class="line"><a id="l03293" name="l03293"></a><span class="lineno"> 3293</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_vec4&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03294" name="l03294"></a><span class="lineno"> 3294</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ad586d734313fa5492db5b8cc84d9eabd">HELIOS_TYPE_INT2</a> ){</div>
+<div class="line"><a id="l03295" name="l03295"></a><span class="lineno"> 3295</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_int2 label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03296" name="l03296"></a><span class="lineno"> 3296</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
+<div class="line"><a id="l03297" name="l03297"></a><span class="lineno"> 3297</span>        outfile &lt;&lt; data.global_data_int2.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span>  &lt;&lt; data.global_data_int2.at(i).y &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03298" name="l03298"></a><span class="lineno"> 3298</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
+<div class="line"><a id="l03299" name="l03299"></a><span class="lineno"> 3299</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03300" name="l03300"></a><span class="lineno"> 3300</span>        }</div>
+<div class="line"><a id="l03301" name="l03301"></a><span class="lineno"> 3301</span>      }</div>
+<div class="line"><a id="l03302" name="l03302"></a><span class="lineno"> 3302</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_int2&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03303" name="l03303"></a><span class="lineno"> 3303</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a28e69c60e380496c8c35892e76ee4ad3">HELIOS_TYPE_INT3</a> ){</div>
+<div class="line"><a id="l03304" name="l03304"></a><span class="lineno"> 3304</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_int3 label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03305" name="l03305"></a><span class="lineno"> 3305</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
+<div class="line"><a id="l03306" name="l03306"></a><span class="lineno"> 3306</span>        outfile &lt;&lt; data.global_data_int3.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_int3.at(i).y &lt;&lt; data.global_data_int3.at(i).z &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03307" name="l03307"></a><span class="lineno"> 3307</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
+<div class="line"><a id="l03308" name="l03308"></a><span class="lineno"> 3308</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03309" name="l03309"></a><span class="lineno"> 3309</span>        }</div>
+<div class="line"><a id="l03310" name="l03310"></a><span class="lineno"> 3310</span>      }</div>
+<div class="line"><a id="l03311" name="l03311"></a><span class="lineno"> 3311</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_int3&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03312" name="l03312"></a><span class="lineno"> 3312</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa6e12ea3a9160f59a1208f7cbb6c1ce7">HELIOS_TYPE_INT4</a> ){</div>
+<div class="line"><a id="l03313" name="l03313"></a><span class="lineno"> 3313</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_int4 label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03314" name="l03314"></a><span class="lineno"> 3314</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
+<div class="line"><a id="l03315" name="l03315"></a><span class="lineno"> 3315</span>        outfile &lt;&lt; data.global_data_int4.at(i).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; data.global_data_int4.at(i).y &lt;&lt; data.global_data_int4.at(i).z &lt;&lt; data.global_data_int4.at(i).w &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03316" name="l03316"></a><span class="lineno"> 3316</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
+<div class="line"><a id="l03317" name="l03317"></a><span class="lineno"> 3317</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03318" name="l03318"></a><span class="lineno"> 3318</span>        }</div>
+<div class="line"><a id="l03319" name="l03319"></a><span class="lineno"> 3319</span>      }</div>
+<div class="line"><a id="l03320" name="l03320"></a><span class="lineno"> 3320</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_int4&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03321" name="l03321"></a><span class="lineno"> 3321</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7c1f526f519f173e5931fd73b78ccbb3">HELIOS_TYPE_STRING</a> ){</div>
+<div class="line"><a id="l03322" name="l03322"></a><span class="lineno"> 3322</span>      outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;globaldata_string label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03323" name="l03323"></a><span class="lineno"> 3323</span>      <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size; i++ ){</div>
+<div class="line"><a id="l03324" name="l03324"></a><span class="lineno"> 3324</span>        outfile &lt;&lt; data.global_data_string.at(i) &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03325" name="l03325"></a><span class="lineno"> 3325</span>        <span class="keywordflow">if</span>( i!=data.size-1 ){</div>
+<div class="line"><a id="l03326" name="l03326"></a><span class="lineno"> 3326</span>          outfile &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03327" name="l03327"></a><span class="lineno"> 3327</span>        }</div>
+<div class="line"><a id="l03328" name="l03328"></a><span class="lineno"> 3328</span>      }</div>
+<div class="line"><a id="l03329" name="l03329"></a><span class="lineno"> 3329</span>      outfile &lt;&lt; <span class="stringliteral">&quot;&lt;/globaldata_string&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03330" name="l03330"></a><span class="lineno"> 3330</span>    }</div>
 <div class="line"><a id="l03331" name="l03331"></a><span class="lineno"> 3331</span> </div>
-<div class="line"><a id="l03332" name="l03332"></a><span class="lineno"> 3332</span>    std::vector&lt;float&gt; data = iter.second;</div>
-<div class="line"><a id="l03333" name="l03333"></a><span class="lineno"> 3333</span>    std::vector&lt;double&gt; dateval = timeseries_datevalue.at(label);</div>
-<div class="line"><a id="l03334" name="l03334"></a><span class="lineno"> 3334</span> </div>
-<div class="line"><a id="l03335" name="l03335"></a><span class="lineno"> 3335</span>    assert( data.size()==dateval.size() );</div>
-<div class="line"><a id="l03336" name="l03336"></a><span class="lineno"> 3336</span> </div>
-<div class="line"><a id="l03337" name="l03337"></a><span class="lineno"> 3337</span>    outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;timeseries label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03338" name="l03338"></a><span class="lineno"> 3338</span> </div>
-<div class="line"><a id="l03339" name="l03339"></a><span class="lineno"> 3339</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size(); i++ ){</div>
-<div class="line"><a id="l03340" name="l03340"></a><span class="lineno"> 3340</span> </div>
-<div class="line"><a id="l03341" name="l03341"></a><span class="lineno"> 3341</span>      <a class="code hl_struct" href="structhelios_1_1_date.html">Date</a> a_date = <a class="code hl_function" href="group__timeseries.html#gae15d53565b2a699d212de636318290b8">queryTimeseriesDate</a>( label.c_str(), i );</div>
-<div class="line"><a id="l03342" name="l03342"></a><span class="lineno"> 3342</span>      <a class="code hl_struct" href="structhelios_1_1_time.html">Time</a> a_time = <a class="code hl_function" href="group__timeseries.html#ga520b33fad86d1514ceb5eeafa52c81ef">queryTimeseriesTime</a>( label.c_str(), i );</div>
-<div class="line"><a id="l03343" name="l03343"></a><span class="lineno"> 3343</span> </div>
-<div class="line"><a id="l03344" name="l03344"></a><span class="lineno"> 3344</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;datapoint&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03345" name="l03345"></a><span class="lineno"> 3345</span> </div>
-<div class="line"><a id="l03346" name="l03346"></a><span class="lineno"> 3346</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t   &lt;date&gt;&quot;</span> &lt;&lt; a_date.<a class="code hl_variable" href="structhelios_1_1_date.html#a876b0513daf0bcf0ab305029be3377d8">day</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; a_date.<a class="code hl_variable" href="structhelios_1_1_date.html#a5d75f8c8616d778e470a59e0b3e890a3">month</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; a_date.<a class="code hl_variable" href="structhelios_1_1_date.html#aee4be32c2bd722143658b4771fe96253">year</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/date&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03347" name="l03347"></a><span class="lineno"> 3347</span> </div>
-<div class="line"><a id="l03348" name="l03348"></a><span class="lineno"> 3348</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t   &lt;time&gt;&quot;</span> &lt;&lt; a_time.<a class="code hl_variable" href="structhelios_1_1_time.html#a6ec639cf61cf283c5e999d152d27839f">hour</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; a_time.<a class="code hl_variable" href="structhelios_1_1_time.html#a744b90da076192b90a3ee4ce2ff3743a">minute</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; a_time.<a class="code hl_variable" href="structhelios_1_1_time.html#a627acedd68e0228600727b867db537dd">second</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/time&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03349" name="l03349"></a><span class="lineno"> 3349</span> </div>
-<div class="line"><a id="l03350" name="l03350"></a><span class="lineno"> 3350</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t   &lt;value&gt;&quot;</span> &lt;&lt; data.at(i) &lt;&lt; <span class="stringliteral">&quot;&lt;/value&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03332" name="l03332"></a><span class="lineno"> 3332</span>  }</div>
+<div class="line"><a id="l03333" name="l03333"></a><span class="lineno"> 3333</span> </div>
+<div class="line"><a id="l03334" name="l03334"></a><span class="lineno"> 3334</span>  <span class="comment">// -- timeseries -- //</span></div>
+<div class="line"><a id="l03335" name="l03335"></a><span class="lineno"> 3335</span> </div>
+<div class="line"><a id="l03336" name="l03336"></a><span class="lineno"> 3336</span>  <span class="keywordflow">for</span>(<span class="keyword">const</span> <span class="keyword">auto</span> &amp; iter : timeseries_data){</div>
+<div class="line"><a id="l03337" name="l03337"></a><span class="lineno"> 3337</span> </div>
+<div class="line"><a id="l03338" name="l03338"></a><span class="lineno"> 3338</span>    std::string label = iter.first;</div>
+<div class="line"><a id="l03339" name="l03339"></a><span class="lineno"> 3339</span> </div>
+<div class="line"><a id="l03340" name="l03340"></a><span class="lineno"> 3340</span>    std::vector&lt;float&gt; data = iter.second;</div>
+<div class="line"><a id="l03341" name="l03341"></a><span class="lineno"> 3341</span>    std::vector&lt;double&gt; dateval = timeseries_datevalue.at(label);</div>
+<div class="line"><a id="l03342" name="l03342"></a><span class="lineno"> 3342</span> </div>
+<div class="line"><a id="l03343" name="l03343"></a><span class="lineno"> 3343</span>    assert( data.size()==dateval.size() );</div>
+<div class="line"><a id="l03344" name="l03344"></a><span class="lineno"> 3344</span> </div>
+<div class="line"><a id="l03345" name="l03345"></a><span class="lineno"> 3345</span>    outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;timeseries label=\&quot;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03346" name="l03346"></a><span class="lineno"> 3346</span> </div>
+<div class="line"><a id="l03347" name="l03347"></a><span class="lineno"> 3347</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;data.size(); i++ ){</div>
+<div class="line"><a id="l03348" name="l03348"></a><span class="lineno"> 3348</span> </div>
+<div class="line"><a id="l03349" name="l03349"></a><span class="lineno"> 3349</span>      <a class="code hl_struct" href="structhelios_1_1_date.html">Date</a> a_date = <a class="code hl_function" href="group__timeseries.html#gae15d53565b2a699d212de636318290b8">queryTimeseriesDate</a>( label.c_str(), i );</div>
+<div class="line"><a id="l03350" name="l03350"></a><span class="lineno"> 3350</span>      <a class="code hl_struct" href="structhelios_1_1_time.html">Time</a> a_time = <a class="code hl_function" href="group__timeseries.html#ga520b33fad86d1514ceb5eeafa52c81ef">queryTimeseriesTime</a>( label.c_str(), i );</div>
 <div class="line"><a id="l03351" name="l03351"></a><span class="lineno"> 3351</span> </div>
-<div class="line"><a id="l03352" name="l03352"></a><span class="lineno"> 3352</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/datapoint&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03353" name="l03353"></a><span class="lineno"> 3353</span>    }</div>
-<div class="line"><a id="l03354" name="l03354"></a><span class="lineno"> 3354</span> </div>
-<div class="line"><a id="l03355" name="l03355"></a><span class="lineno"> 3355</span>    outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/timeseries&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03356" name="l03356"></a><span class="lineno"> 3356</span> </div>
-<div class="line"><a id="l03357" name="l03357"></a><span class="lineno"> 3357</span>  }</div>
-<div class="line"><a id="l03358" name="l03358"></a><span class="lineno"> 3358</span> </div>
-<div class="line"><a id="l03359" name="l03359"></a><span class="lineno"> 3359</span>  <span class="comment">// ----------------- //</span></div>
-<div class="line"><a id="l03360" name="l03360"></a><span class="lineno"> 3360</span> </div>
-<div class="line"><a id="l03361" name="l03361"></a><span class="lineno"> 3361</span>  outfile &lt;&lt; <span class="stringliteral">&quot;\n&lt;/helios&gt;\n&quot;</span>;</div>
+<div class="line"><a id="l03352" name="l03352"></a><span class="lineno"> 3352</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;datapoint&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03353" name="l03353"></a><span class="lineno"> 3353</span> </div>
+<div class="line"><a id="l03354" name="l03354"></a><span class="lineno"> 3354</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t   &lt;date&gt;&quot;</span> &lt;&lt; a_date.<a class="code hl_variable" href="structhelios_1_1_date.html#a876b0513daf0bcf0ab305029be3377d8">day</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; a_date.<a class="code hl_variable" href="structhelios_1_1_date.html#a5d75f8c8616d778e470a59e0b3e890a3">month</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; a_date.<a class="code hl_variable" href="structhelios_1_1_date.html#aee4be32c2bd722143658b4771fe96253">year</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/date&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03355" name="l03355"></a><span class="lineno"> 3355</span> </div>
+<div class="line"><a id="l03356" name="l03356"></a><span class="lineno"> 3356</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t   &lt;time&gt;&quot;</span> &lt;&lt; a_time.<a class="code hl_variable" href="structhelios_1_1_time.html#a6ec639cf61cf283c5e999d152d27839f">hour</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; a_time.<a class="code hl_variable" href="structhelios_1_1_time.html#a744b90da076192b90a3ee4ce2ff3743a">minute</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; a_time.<a class="code hl_variable" href="structhelios_1_1_time.html#a627acedd68e0228600727b867db537dd">second</a> &lt;&lt; <span class="stringliteral">&quot;&lt;/time&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03357" name="l03357"></a><span class="lineno"> 3357</span> </div>
+<div class="line"><a id="l03358" name="l03358"></a><span class="lineno"> 3358</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t   &lt;value&gt;&quot;</span> &lt;&lt; data.at(i) &lt;&lt; <span class="stringliteral">&quot;&lt;/value&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03359" name="l03359"></a><span class="lineno"> 3359</span> </div>
+<div class="line"><a id="l03360" name="l03360"></a><span class="lineno"> 3360</span>      outfile &lt;&lt; <span class="stringliteral">&quot;\t&lt;/datapoint&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03361" name="l03361"></a><span class="lineno"> 3361</span>    }</div>
 <div class="line"><a id="l03362" name="l03362"></a><span class="lineno"> 3362</span> </div>
-<div class="line"><a id="l03363" name="l03363"></a><span class="lineno"> 3363</span>  outfile.close();</div>
+<div class="line"><a id="l03363" name="l03363"></a><span class="lineno"> 3363</span>    outfile &lt;&lt; <span class="stringliteral">&quot;   &lt;/timeseries&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l03364" name="l03364"></a><span class="lineno"> 3364</span> </div>
-<div class="line"><a id="l03365" name="l03365"></a><span class="lineno"> 3365</span>  <span class="keywordflow">if</span>( !quiet ) {</div>
-<div class="line"><a id="l03366" name="l03366"></a><span class="lineno"> 3366</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03367" name="l03367"></a><span class="lineno"> 3367</span>  }</div>
-<div class="line"><a id="l03368" name="l03368"></a><span class="lineno"> 3368</span>}</div>
-</div>
-<div class="line"><a id="l03369" name="l03369"></a><span class="lineno"> 3369</span> </div>
-<div class="foldopen" id="foldopen03370" data-start="{" data-end="}">
-<div class="line"><a id="l03370" name="l03370"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85"> 3370</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">Context::loadPLY</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keywordtype">bool</span> silent ){</div>
-<div class="line"><a id="l03371" name="l03371"></a><span class="lineno"> 3371</span>    <span class="keywordflow">return</span> <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">loadPLY</a>( filename, <a class="code hl_variable" href="global_8h.html#a876dc18d1da8ace50c131f428f8883be">nullorigin</a>, 0, <a class="code hl_variable" href="global_8h.html#adcd5a98ec7c45292736ec8e19ce9de51">nullrotation</a>, RGB::blue, <span class="stringliteral">&quot;YUP&quot;</span>, silent );</div>
-<div class="line"><a id="l03372" name="l03372"></a><span class="lineno"> 3372</span>}</div>
-</div>
-<div class="line"><a id="l03373" name="l03373"></a><span class="lineno"> 3373</span> </div>
-<div class="foldopen" id="foldopen03374" data-start="{" data-end="}">
-<div class="line"><a id="l03374" name="l03374"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a99cda26e82d56d9241b10346ce097010"> 3374</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">Context::loadPLY</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;origin, <span class="keywordtype">float</span> height, <span class="keyword">const</span> std::string &amp;upaxis, <span class="keywordtype">bool</span> silent ){</div>
-<div class="line"><a id="l03375" name="l03375"></a><span class="lineno"> 3375</span>  <span class="keywordflow">return</span> <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">loadPLY</a>( filename, origin, height, <a class="code hl_function" href="helios__vector__types_8h.html#ad89212892cf1bdc45eeae189e6d490a1">make_SphericalCoord</a>(0,0), RGB::blue, upaxis, silent );</div>
+<div class="line"><a id="l03365" name="l03365"></a><span class="lineno"> 3365</span>  }</div>
+<div class="line"><a id="l03366" name="l03366"></a><span class="lineno"> 3366</span> </div>
+<div class="line"><a id="l03367" name="l03367"></a><span class="lineno"> 3367</span>  <span class="comment">// ----------------- //</span></div>
+<div class="line"><a id="l03368" name="l03368"></a><span class="lineno"> 3368</span> </div>
+<div class="line"><a id="l03369" name="l03369"></a><span class="lineno"> 3369</span>  outfile &lt;&lt; <span class="stringliteral">&quot;\n&lt;/helios&gt;\n&quot;</span>;</div>
+<div class="line"><a id="l03370" name="l03370"></a><span class="lineno"> 3370</span> </div>
+<div class="line"><a id="l03371" name="l03371"></a><span class="lineno"> 3371</span>  outfile.close();</div>
+<div class="line"><a id="l03372" name="l03372"></a><span class="lineno"> 3372</span> </div>
+<div class="line"><a id="l03373" name="l03373"></a><span class="lineno"> 3373</span>  <span class="keywordflow">if</span>( !quiet ) {</div>
+<div class="line"><a id="l03374" name="l03374"></a><span class="lineno"> 3374</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03375" name="l03375"></a><span class="lineno"> 3375</span>  }</div>
 <div class="line"><a id="l03376" name="l03376"></a><span class="lineno"> 3376</span>}</div>
 </div>
 <div class="line"><a id="l03377" name="l03377"></a><span class="lineno"> 3377</span> </div>
 <div class="foldopen" id="foldopen03378" data-start="{" data-end="}">
-<div class="line"><a id="l03378" name="l03378"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a2748413487ea587e30b9d7be3ef61350"> 3378</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">Context::loadPLY</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;origin, <span class="keywordtype">float</span> height, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_spherical_coord.html">SphericalCoord</a> &amp;rotation, <span class="keyword">const</span> std::string &amp;upaxis, <span class="keywordtype">bool</span> silent ){</div>
-<div class="line"><a id="l03379" name="l03379"></a><span class="lineno"> 3379</span>  <span class="keywordflow">return</span> <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">loadPLY</a>( filename, origin, height, rotation, RGB::blue, upaxis, silent );</div>
+<div class="line"><a id="l03378" name="l03378"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85"> 3378</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">Context::loadPLY</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keywordtype">bool</span> silent ){</div>
+<div class="line"><a id="l03379" name="l03379"></a><span class="lineno"> 3379</span>    <span class="keywordflow">return</span> <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">loadPLY</a>( filename, <a class="code hl_variable" href="global_8h.html#a876dc18d1da8ace50c131f428f8883be">nullorigin</a>, 0, <a class="code hl_variable" href="global_8h.html#adcd5a98ec7c45292736ec8e19ce9de51">nullrotation</a>, RGB::blue, <span class="stringliteral">&quot;YUP&quot;</span>, silent );</div>
 <div class="line"><a id="l03380" name="l03380"></a><span class="lineno"> 3380</span>}</div>
 </div>
 <div class="line"><a id="l03381" name="l03381"></a><span class="lineno"> 3381</span> </div>
 <div class="foldopen" id="foldopen03382" data-start="{" data-end="}">
-<div class="line"><a id="l03382" name="l03382"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a8f1777b7f07ddfedaafac1c6d781c1d0"> 3382</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">Context::loadPLY</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;origin, <span class="keywordtype">float</span> height, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> &amp;default_color, <span class="keyword">const</span> std::string &amp;upaxis, <span class="keywordtype">bool</span> silent ){</div>
-<div class="line"><a id="l03383" name="l03383"></a><span class="lineno"> 3383</span>  <span class="keywordflow">return</span> <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">loadPLY</a>( filename, origin, height, <a class="code hl_function" href="helios__vector__types_8h.html#ad89212892cf1bdc45eeae189e6d490a1">make_SphericalCoord</a>(0,0), default_color, upaxis, silent );</div>
+<div class="line"><a id="l03382" name="l03382"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a99cda26e82d56d9241b10346ce097010"> 3382</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">Context::loadPLY</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;origin, <span class="keywordtype">float</span> height, <span class="keyword">const</span> std::string &amp;upaxis, <span class="keywordtype">bool</span> silent ){</div>
+<div class="line"><a id="l03383" name="l03383"></a><span class="lineno"> 3383</span>  <span class="keywordflow">return</span> <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">loadPLY</a>( filename, origin, height, <a class="code hl_function" href="helios__vector__types_8h.html#ad89212892cf1bdc45eeae189e6d490a1">make_SphericalCoord</a>(0,0), RGB::blue, upaxis, silent );</div>
 <div class="line"><a id="l03384" name="l03384"></a><span class="lineno"> 3384</span>}</div>
 </div>
 <div class="line"><a id="l03385" name="l03385"></a><span class="lineno"> 3385</span> </div>
 <div class="foldopen" id="foldopen03386" data-start="{" data-end="}">
-<div class="line"><a id="l03386" name="l03386"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a7965b2ac5e884fbbf067a2355aca497e"> 3386</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">Context::loadPLY</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;origin, <span class="keywordtype">float</span> height, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_spherical_coord.html">SphericalCoord</a> &amp;rotation, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> &amp;default_color, <span class="keyword">const</span> std::string &amp;upaxis, <span class="keywordtype">bool</span> silent ){</div>
-<div class="line"><a id="l03387" name="l03387"></a><span class="lineno"> 3387</span> </div>
-<div class="line"><a id="l03388" name="l03388"></a><span class="lineno"> 3388</span>  <span class="keywordflow">if</span>( !silent ) {</div>
-<div class="line"><a id="l03389" name="l03389"></a><span class="lineno"> 3389</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;Reading PLY file &quot;</span> &lt;&lt; filename &lt;&lt; <span class="stringliteral">&quot;...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03390" name="l03390"></a><span class="lineno"> 3390</span>  }</div>
-<div class="line"><a id="l03391" name="l03391"></a><span class="lineno"> 3391</span> </div>
-<div class="line"><a id="l03392" name="l03392"></a><span class="lineno"> 3392</span>  std::string fn = filename;</div>
-<div class="line"><a id="l03393" name="l03393"></a><span class="lineno"> 3393</span>  std::string ext = <a class="code hl_function" href="global_8h.html#a58e660bb08e1ce13466825ae666467ef">getFileExtension</a>(filename);</div>
-<div class="line"><a id="l03394" name="l03394"></a><span class="lineno"> 3394</span>  <span class="keywordflow">if</span>( ext != <span class="stringliteral">&quot;.ply&quot;</span> &amp;&amp; ext != <span class="stringliteral">&quot;.PLY&quot;</span> ) {</div>
-<div class="line"><a id="l03395" name="l03395"></a><span class="lineno"> 3395</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): File &quot;</span> + fn + <span class="stringliteral">&quot; is not PLY format.&quot;</span>);</div>
-<div class="line"><a id="l03396" name="l03396"></a><span class="lineno"> 3396</span>  }</div>
-<div class="line"><a id="l03397" name="l03397"></a><span class="lineno"> 3397</span> </div>
-<div class="line"><a id="l03398" name="l03398"></a><span class="lineno"> 3398</span>  <span class="keywordflow">if</span>( upaxis!=<span class="stringliteral">&quot;XUP&quot;</span> &amp;&amp; upaxis!=<span class="stringliteral">&quot;YUP&quot;</span> &amp;&amp; upaxis!=<span class="stringliteral">&quot;ZUP&quot;</span> ){</div>
-<div class="line"><a id="l03399" name="l03399"></a><span class="lineno"> 3399</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): &quot;</span> + upaxis + <span class="stringliteral">&quot; is not a valid up-axis. Please specify a value of XUP, YUP, or ZUP.&quot;</span>);</div>
-<div class="line"><a id="l03400" name="l03400"></a><span class="lineno"> 3400</span>  }</div>
-<div class="line"><a id="l03401" name="l03401"></a><span class="lineno"> 3401</span> </div>
-<div class="line"><a id="l03402" name="l03402"></a><span class="lineno"> 3402</span>  std::string line, prop;</div>
-<div class="line"><a id="l03403" name="l03403"></a><span class="lineno"> 3403</span> </div>
-<div class="line"><a id="l03404" name="l03404"></a><span class="lineno"> 3404</span>  uint vertexCount=0, faceCount=0;</div>
+<div class="line"><a id="l03386" name="l03386"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a2748413487ea587e30b9d7be3ef61350"> 3386</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">Context::loadPLY</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;origin, <span class="keywordtype">float</span> height, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_spherical_coord.html">SphericalCoord</a> &amp;rotation, <span class="keyword">const</span> std::string &amp;upaxis, <span class="keywordtype">bool</span> silent ){</div>
+<div class="line"><a id="l03387" name="l03387"></a><span class="lineno"> 3387</span>  <span class="keywordflow">return</span> <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">loadPLY</a>( filename, origin, height, rotation, RGB::blue, upaxis, silent );</div>
+<div class="line"><a id="l03388" name="l03388"></a><span class="lineno"> 3388</span>}</div>
+</div>
+<div class="line"><a id="l03389" name="l03389"></a><span class="lineno"> 3389</span> </div>
+<div class="foldopen" id="foldopen03390" data-start="{" data-end="}">
+<div class="line"><a id="l03390" name="l03390"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a8f1777b7f07ddfedaafac1c6d781c1d0"> 3390</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">Context::loadPLY</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;origin, <span class="keywordtype">float</span> height, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> &amp;default_color, <span class="keyword">const</span> std::string &amp;upaxis, <span class="keywordtype">bool</span> silent ){</div>
+<div class="line"><a id="l03391" name="l03391"></a><span class="lineno"> 3391</span>  <span class="keywordflow">return</span> <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">loadPLY</a>( filename, origin, height, <a class="code hl_function" href="helios__vector__types_8h.html#ad89212892cf1bdc45eeae189e6d490a1">make_SphericalCoord</a>(0,0), default_color, upaxis, silent );</div>
+<div class="line"><a id="l03392" name="l03392"></a><span class="lineno"> 3392</span>}</div>
+</div>
+<div class="line"><a id="l03393" name="l03393"></a><span class="lineno"> 3393</span> </div>
+<div class="foldopen" id="foldopen03394" data-start="{" data-end="}">
+<div class="line"><a id="l03394" name="l03394"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a7965b2ac5e884fbbf067a2355aca497e"> 3394</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">Context::loadPLY</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;origin, <span class="keywordtype">float</span> height, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_spherical_coord.html">SphericalCoord</a> &amp;rotation, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> &amp;default_color, <span class="keyword">const</span> std::string &amp;upaxis, <span class="keywordtype">bool</span> silent ){</div>
+<div class="line"><a id="l03395" name="l03395"></a><span class="lineno"> 3395</span> </div>
+<div class="line"><a id="l03396" name="l03396"></a><span class="lineno"> 3396</span>  <span class="keywordflow">if</span>( !silent ) {</div>
+<div class="line"><a id="l03397" name="l03397"></a><span class="lineno"> 3397</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;Reading PLY file &quot;</span> &lt;&lt; filename &lt;&lt; <span class="stringliteral">&quot;...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03398" name="l03398"></a><span class="lineno"> 3398</span>  }</div>
+<div class="line"><a id="l03399" name="l03399"></a><span class="lineno"> 3399</span> </div>
+<div class="line"><a id="l03400" name="l03400"></a><span class="lineno"> 3400</span>  std::string fn = filename;</div>
+<div class="line"><a id="l03401" name="l03401"></a><span class="lineno"> 3401</span>  std::string ext = <a class="code hl_function" href="global_8h.html#a58e660bb08e1ce13466825ae666467ef">getFileExtension</a>(filename);</div>
+<div class="line"><a id="l03402" name="l03402"></a><span class="lineno"> 3402</span>  <span class="keywordflow">if</span>( ext != <span class="stringliteral">&quot;.ply&quot;</span> &amp;&amp; ext != <span class="stringliteral">&quot;.PLY&quot;</span> ) {</div>
+<div class="line"><a id="l03403" name="l03403"></a><span class="lineno"> 3403</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): File &quot;</span> + fn + <span class="stringliteral">&quot; is not PLY format.&quot;</span>);</div>
+<div class="line"><a id="l03404" name="l03404"></a><span class="lineno"> 3404</span>  }</div>
 <div class="line"><a id="l03405" name="l03405"></a><span class="lineno"> 3405</span> </div>
-<div class="line"><a id="l03406" name="l03406"></a><span class="lineno"> 3406</span>  std::vector&lt;vec3&gt; vertices;</div>
-<div class="line"><a id="l03407" name="l03407"></a><span class="lineno"> 3407</span>  std::vector&lt;std::vector&lt;int&gt; &gt; faces;</div>
-<div class="line"><a id="l03408" name="l03408"></a><span class="lineno"> 3408</span>  std::vector&lt;RGBcolor&gt; colors;</div>
-<div class="line"><a id="l03409" name="l03409"></a><span class="lineno"> 3409</span>  std::vector&lt;std::string&gt; properties;</div>
-<div class="line"><a id="l03410" name="l03410"></a><span class="lineno"> 3410</span> </div>
-<div class="line"><a id="l03411" name="l03411"></a><span class="lineno"> 3411</span>  <span class="keywordtype">bool</span> ifColor=<span class="keyword">false</span>;</div>
-<div class="line"><a id="l03412" name="l03412"></a><span class="lineno"> 3412</span> </div>
-<div class="line"><a id="l03413" name="l03413"></a><span class="lineno"> 3413</span>  std::ifstream inputPly;</div>
-<div class="line"><a id="l03414" name="l03414"></a><span class="lineno"> 3414</span>  inputPly.open(filename);</div>
-<div class="line"><a id="l03415" name="l03415"></a><span class="lineno"> 3415</span> </div>
-<div class="line"><a id="l03416" name="l03416"></a><span class="lineno"> 3416</span>  <span class="keywordflow">if</span> (!inputPly.is_open()) {</div>
-<div class="line"><a id="l03417" name="l03417"></a><span class="lineno"> 3417</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Couldn&#39;t open &quot;</span> + std::string(filename) );</div>
-<div class="line"><a id="l03418" name="l03418"></a><span class="lineno"> 3418</span>  }</div>
-<div class="line"><a id="l03419" name="l03419"></a><span class="lineno"> 3419</span> </div>
-<div class="line"><a id="l03420" name="l03420"></a><span class="lineno"> 3420</span>  <span class="comment">//--- read header info -----//</span></div>
-<div class="line"><a id="l03421" name="l03421"></a><span class="lineno"> 3421</span> </div>
-<div class="line"><a id="l03422" name="l03422"></a><span class="lineno"> 3422</span>  <span class="comment">//first line should always be &#39;ply&#39;</span></div>
-<div class="line"><a id="l03423" name="l03423"></a><span class="lineno"> 3423</span>  inputPly&gt;&gt;line;</div>
-<div class="line"><a id="l03424" name="l03424"></a><span class="lineno"> 3424</span>  <span class="keywordflow">if</span>( <span class="stringliteral">&quot;ply&quot;</span>!=line ){</div>
-<div class="line"><a id="l03425" name="l03425"></a><span class="lineno"> 3425</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): &quot;</span> + std::string(filename) + <span class="stringliteral">&quot; is not a PLY file.&quot;</span>);</div>
+<div class="line"><a id="l03406" name="l03406"></a><span class="lineno"> 3406</span>  <span class="keywordflow">if</span>( upaxis!=<span class="stringliteral">&quot;XUP&quot;</span> &amp;&amp; upaxis!=<span class="stringliteral">&quot;YUP&quot;</span> &amp;&amp; upaxis!=<span class="stringliteral">&quot;ZUP&quot;</span> ){</div>
+<div class="line"><a id="l03407" name="l03407"></a><span class="lineno"> 3407</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): &quot;</span> + upaxis + <span class="stringliteral">&quot; is not a valid up-axis. Please specify a value of XUP, YUP, or ZUP.&quot;</span>);</div>
+<div class="line"><a id="l03408" name="l03408"></a><span class="lineno"> 3408</span>  }</div>
+<div class="line"><a id="l03409" name="l03409"></a><span class="lineno"> 3409</span> </div>
+<div class="line"><a id="l03410" name="l03410"></a><span class="lineno"> 3410</span>  std::string line, prop;</div>
+<div class="line"><a id="l03411" name="l03411"></a><span class="lineno"> 3411</span> </div>
+<div class="line"><a id="l03412" name="l03412"></a><span class="lineno"> 3412</span>  uint vertexCount=0, faceCount=0;</div>
+<div class="line"><a id="l03413" name="l03413"></a><span class="lineno"> 3413</span> </div>
+<div class="line"><a id="l03414" name="l03414"></a><span class="lineno"> 3414</span>  std::vector&lt;vec3&gt; vertices;</div>
+<div class="line"><a id="l03415" name="l03415"></a><span class="lineno"> 3415</span>  std::vector&lt;std::vector&lt;int&gt; &gt; faces;</div>
+<div class="line"><a id="l03416" name="l03416"></a><span class="lineno"> 3416</span>  std::vector&lt;RGBcolor&gt; colors;</div>
+<div class="line"><a id="l03417" name="l03417"></a><span class="lineno"> 3417</span>  std::vector&lt;std::string&gt; properties;</div>
+<div class="line"><a id="l03418" name="l03418"></a><span class="lineno"> 3418</span> </div>
+<div class="line"><a id="l03419" name="l03419"></a><span class="lineno"> 3419</span>  <span class="keywordtype">bool</span> ifColor=<span class="keyword">false</span>;</div>
+<div class="line"><a id="l03420" name="l03420"></a><span class="lineno"> 3420</span> </div>
+<div class="line"><a id="l03421" name="l03421"></a><span class="lineno"> 3421</span>  std::ifstream inputPly;</div>
+<div class="line"><a id="l03422" name="l03422"></a><span class="lineno"> 3422</span>  inputPly.open(filename);</div>
+<div class="line"><a id="l03423" name="l03423"></a><span class="lineno"> 3423</span> </div>
+<div class="line"><a id="l03424" name="l03424"></a><span class="lineno"> 3424</span>  <span class="keywordflow">if</span> (!inputPly.is_open()) {</div>
+<div class="line"><a id="l03425" name="l03425"></a><span class="lineno"> 3425</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Couldn&#39;t open &quot;</span> + std::string(filename) );</div>
 <div class="line"><a id="l03426" name="l03426"></a><span class="lineno"> 3426</span>  }</div>
 <div class="line"><a id="l03427" name="l03427"></a><span class="lineno"> 3427</span> </div>
-<div class="line"><a id="l03428" name="l03428"></a><span class="lineno"> 3428</span>  <span class="comment">//read format</span></div>
-<div class="line"><a id="l03429" name="l03429"></a><span class="lineno"> 3429</span>  inputPly&gt;&gt;line;</div>
-<div class="line"><a id="l03430" name="l03430"></a><span class="lineno"> 3430</span>  <span class="keywordflow">if</span>( <span class="stringliteral">&quot;format&quot;</span>!=line ){</div>
-<div class="line"><a id="l03431" name="l03431"></a><span class="lineno"> 3431</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): could not determine data format of &quot;</span> + std::string(filename) );</div>
-<div class="line"><a id="l03432" name="l03432"></a><span class="lineno"> 3432</span>  }</div>
-<div class="line"><a id="l03433" name="l03433"></a><span class="lineno"> 3433</span> </div>
-<div class="line"><a id="l03434" name="l03434"></a><span class="lineno"> 3434</span>  inputPly&gt;&gt;line;</div>
-<div class="line"><a id="l03435" name="l03435"></a><span class="lineno"> 3435</span>  <span class="keywordflow">if</span>( <span class="stringliteral">&quot;ascii&quot;</span>!=line ){</div>
-<div class="line"><a id="l03436" name="l03436"></a><span class="lineno"> 3436</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Only ASCII data types are supported.&quot;</span>);</div>
-<div class="line"><a id="l03437" name="l03437"></a><span class="lineno"> 3437</span>  }</div>
-<div class="line"><a id="l03438" name="l03438"></a><span class="lineno"> 3438</span> </div>
-<div class="line"><a id="l03439" name="l03439"></a><span class="lineno"> 3439</span>  std::string temp_string;</div>
-<div class="line"><a id="l03440" name="l03440"></a><span class="lineno"> 3440</span> </div>
-<div class="line"><a id="l03441" name="l03441"></a><span class="lineno"> 3441</span>  <span class="keywordflow">while</span>( <span class="stringliteral">&quot;end_header&quot;</span>!=line ){</div>
-<div class="line"><a id="l03442" name="l03442"></a><span class="lineno"> 3442</span> </div>
-<div class="line"><a id="l03443" name="l03443"></a><span class="lineno"> 3443</span>    inputPly&gt;&gt;line;</div>
-<div class="line"><a id="l03444" name="l03444"></a><span class="lineno"> 3444</span> </div>
-<div class="line"><a id="l03445" name="l03445"></a><span class="lineno"> 3445</span>    <span class="keywordflow">if</span>( <span class="stringliteral">&quot;comment&quot;</span>==line ){</div>
-<div class="line"><a id="l03446" name="l03446"></a><span class="lineno"> 3446</span>      getline(inputPly, line);</div>
-<div class="line"><a id="l03447" name="l03447"></a><span class="lineno"> 3447</span>    }</div>
-<div class="line"><a id="l03448" name="l03448"></a><span class="lineno"> 3448</span>    <span class="keywordflow">else</span> <span class="keywordflow">if</span>( <span class="stringliteral">&quot;element&quot;</span>==line ){</div>
-<div class="line"><a id="l03449" name="l03449"></a><span class="lineno"> 3449</span> </div>
-<div class="line"><a id="l03450" name="l03450"></a><span class="lineno"> 3450</span>      inputPly&gt;&gt;line;</div>
-<div class="line"><a id="l03451" name="l03451"></a><span class="lineno"> 3451</span> </div>
-<div class="line"><a id="l03452" name="l03452"></a><span class="lineno"> 3452</span>      <span class="keywordflow">if</span>( <span class="stringliteral">&quot;vertex&quot;</span>==line ){</div>
-<div class="line"><a id="l03453" name="l03453"></a><span class="lineno"> 3453</span>        inputPly&gt;&gt;temp_string;</div>
-<div class="line"><a id="l03454" name="l03454"></a><span class="lineno"> 3454</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a51430e9e359c2aad9d22d41650b2221a">parse_uint</a>(temp_string,vertexCount) ){</div>
-<div class="line"><a id="l03455" name="l03455"></a><span class="lineno"> 3455</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): PLY file read failed. Vertex count value should be a non-negative integer.&quot;</span>);</div>
-<div class="line"><a id="l03456" name="l03456"></a><span class="lineno"> 3456</span>        }</div>
-<div class="line"><a id="l03457" name="l03457"></a><span class="lineno"> 3457</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( <span class="stringliteral">&quot;face&quot;</span>==line ){</div>
-<div class="line"><a id="l03458" name="l03458"></a><span class="lineno"> 3458</span>        inputPly&gt;&gt;temp_string;</div>
-<div class="line"><a id="l03459" name="l03459"></a><span class="lineno"> 3459</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a51430e9e359c2aad9d22d41650b2221a">parse_uint</a>(temp_string,faceCount) ){</div>
-<div class="line"><a id="l03460" name="l03460"></a><span class="lineno"> 3460</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): PLY file read failed. Face count value should be a non-negative integer.&quot;</span>);</div>
-<div class="line"><a id="l03461" name="l03461"></a><span class="lineno"> 3461</span>        }</div>
-<div class="line"><a id="l03462" name="l03462"></a><span class="lineno"> 3462</span>      }</div>
-<div class="line"><a id="l03463" name="l03463"></a><span class="lineno"> 3463</span> </div>
-<div class="line"><a id="l03464" name="l03464"></a><span class="lineno"> 3464</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( <span class="stringliteral">&quot;property&quot;</span>==line ){</div>
-<div class="line"><a id="l03465" name="l03465"></a><span class="lineno"> 3465</span> </div>
-<div class="line"><a id="l03466" name="l03466"></a><span class="lineno"> 3466</span>      inputPly&gt;&gt;line; <span class="comment">//type</span></div>
-<div class="line"><a id="l03467" name="l03467"></a><span class="lineno"> 3467</span> </div>
-<div class="line"><a id="l03468" name="l03468"></a><span class="lineno"> 3468</span>      <span class="keywordflow">if</span>( <span class="stringliteral">&quot;list&quot;</span>!=line ){</div>
-<div class="line"><a id="l03469" name="l03469"></a><span class="lineno"> 3469</span> </div>
-<div class="line"><a id="l03470" name="l03470"></a><span class="lineno"> 3470</span>        inputPly&gt;&gt;prop; <span class="comment">//value</span></div>
-<div class="line"><a id="l03471" name="l03471"></a><span class="lineno"> 3471</span>        properties.push_back(prop);</div>
-<div class="line"><a id="l03472" name="l03472"></a><span class="lineno"> 3472</span> </div>
-<div class="line"><a id="l03473" name="l03473"></a><span class="lineno"> 3473</span>      }</div>
-<div class="line"><a id="l03474" name="l03474"></a><span class="lineno"> 3474</span> </div>
-<div class="line"><a id="l03475" name="l03475"></a><span class="lineno"> 3475</span>    }</div>
-<div class="line"><a id="l03476" name="l03476"></a><span class="lineno"> 3476</span> </div>
-<div class="line"><a id="l03477" name="l03477"></a><span class="lineno"> 3477</span>  }</div>
-<div class="line"><a id="l03478" name="l03478"></a><span class="lineno"> 3478</span> </div>
-<div class="line"><a id="l03479" name="l03479"></a><span class="lineno"> 3479</span>  <span class="keywordflow">for</span>(<span class="keyword">auto</span> &amp; property : properties){</div>
-<div class="line"><a id="l03480" name="l03480"></a><span class="lineno"> 3480</span>    <span class="keywordflow">if</span>( property==<span class="stringliteral">&quot;red&quot;</span> ){</div>
-<div class="line"><a id="l03481" name="l03481"></a><span class="lineno"> 3481</span>      ifColor = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l03482" name="l03482"></a><span class="lineno"> 3482</span>    }</div>
-<div class="line"><a id="l03483" name="l03483"></a><span class="lineno"> 3483</span>  }</div>
-<div class="line"><a id="l03484" name="l03484"></a><span class="lineno"> 3484</span>  <span class="keywordflow">if</span>( !silent ) {</div>
-<div class="line"><a id="l03485" name="l03485"></a><span class="lineno"> 3485</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;forming &quot;</span> &lt;&lt; faceCount &lt;&lt; <span class="stringliteral">&quot; triangles...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03486" name="l03486"></a><span class="lineno"> 3486</span>  }</div>
-<div class="line"><a id="l03487" name="l03487"></a><span class="lineno"> 3487</span> </div>
-<div class="line"><a id="l03488" name="l03488"></a><span class="lineno"> 3488</span>  vertices.resize(vertexCount);</div>
-<div class="line"><a id="l03489" name="l03489"></a><span class="lineno"> 3489</span>  colors.resize(vertexCount);</div>
-<div class="line"><a id="l03490" name="l03490"></a><span class="lineno"> 3490</span>  faces.resize(faceCount);</div>
-<div class="line"><a id="l03491" name="l03491"></a><span class="lineno"> 3491</span> </div>
-<div class="line"><a id="l03492" name="l03492"></a><span class="lineno"> 3492</span> </div>
-<div class="line"><a id="l03493" name="l03493"></a><span class="lineno"> 3493</span>  <span class="comment">//--- read vertices ----//</span></div>
-<div class="line"><a id="l03494" name="l03494"></a><span class="lineno"> 3494</span> </div>
-<div class="line"><a id="l03495" name="l03495"></a><span class="lineno"> 3495</span>  <span class="keywordflow">for</span>( uint row=0; row&lt;vertexCount; row++ ){</div>
-<div class="line"><a id="l03496" name="l03496"></a><span class="lineno"> 3496</span> </div>
-<div class="line"><a id="l03497" name="l03497"></a><span class="lineno"> 3497</span>    <span class="keywordflow">for</span>(<span class="keyword">auto</span> &amp; property : properties){</div>
-<div class="line"><a id="l03498" name="l03498"></a><span class="lineno"> 3498</span>      <span class="keywordflow">if</span>( property==<span class="stringliteral">&quot;x&quot;</span> ){</div>
-<div class="line"><a id="l03499" name="l03499"></a><span class="lineno"> 3499</span>        inputPly &gt;&gt; temp_string;</div>
-<div class="line"><a id="l03500" name="l03500"></a><span class="lineno"> 3500</span>        <span class="keywordtype">float</span> x;</div>
-<div class="line"><a id="l03501" name="l03501"></a><span class="lineno"> 3501</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a162c3d8c139c75bac9607b512768b937">parse_float</a>(temp_string,x) ){</div>
-<div class="line"><a id="l03502" name="l03502"></a><span class="lineno"> 3502</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): X value for vertex &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; is invalid and could not be read.&quot;</span>);</div>
-<div class="line"><a id="l03503" name="l03503"></a><span class="lineno"> 3503</span>        }</div>
-<div class="line"><a id="l03504" name="l03504"></a><span class="lineno"> 3504</span>        <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;XUP&quot;</span>){</div>
-<div class="line"><a id="l03505" name="l03505"></a><span class="lineno"> 3505</span>          vertices.at(row).z = x;</div>
-<div class="line"><a id="l03506" name="l03506"></a><span class="lineno"> 3506</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;YUP&quot;</span> ){</div>
-<div class="line"><a id="l03507" name="l03507"></a><span class="lineno"> 3507</span>          vertices.at(row).y = x;</div>
-<div class="line"><a id="l03508" name="l03508"></a><span class="lineno"> 3508</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;ZUP&quot;</span> ){</div>
-<div class="line"><a id="l03509" name="l03509"></a><span class="lineno"> 3509</span>          vertices.at(row).x = x;</div>
-<div class="line"><a id="l03510" name="l03510"></a><span class="lineno"> 3510</span>        }</div>
-<div class="line"><a id="l03511" name="l03511"></a><span class="lineno"> 3511</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( property==<span class="stringliteral">&quot;y&quot;</span> ){</div>
-<div class="line"><a id="l03512" name="l03512"></a><span class="lineno"> 3512</span>        inputPly &gt;&gt; temp_string;</div>
-<div class="line"><a id="l03513" name="l03513"></a><span class="lineno"> 3513</span>        <span class="keywordtype">float</span> y;</div>
-<div class="line"><a id="l03514" name="l03514"></a><span class="lineno"> 3514</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a162c3d8c139c75bac9607b512768b937">parse_float</a>(temp_string,y) ){</div>
-<div class="line"><a id="l03515" name="l03515"></a><span class="lineno"> 3515</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Y value for vertex &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; is invalid and could not be read.&quot;</span>);</div>
-<div class="line"><a id="l03516" name="l03516"></a><span class="lineno"> 3516</span>        }</div>
-<div class="line"><a id="l03517" name="l03517"></a><span class="lineno"> 3517</span>        <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;XUP&quot;</span>){</div>
-<div class="line"><a id="l03518" name="l03518"></a><span class="lineno"> 3518</span>          vertices.at(row).x = y;</div>
-<div class="line"><a id="l03519" name="l03519"></a><span class="lineno"> 3519</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;YUP&quot;</span> ){</div>
-<div class="line"><a id="l03520" name="l03520"></a><span class="lineno"> 3520</span>          vertices.at(row).z = y;</div>
-<div class="line"><a id="l03521" name="l03521"></a><span class="lineno"> 3521</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;ZUP&quot;</span> ){</div>
-<div class="line"><a id="l03522" name="l03522"></a><span class="lineno"> 3522</span>          vertices.at(row).y = y;</div>
-<div class="line"><a id="l03523" name="l03523"></a><span class="lineno"> 3523</span>        }</div>
-<div class="line"><a id="l03524" name="l03524"></a><span class="lineno"> 3524</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( property==<span class="stringliteral">&quot;z&quot;</span> ){</div>
-<div class="line"><a id="l03525" name="l03525"></a><span class="lineno"> 3525</span>        inputPly &gt;&gt; temp_string;</div>
-<div class="line"><a id="l03526" name="l03526"></a><span class="lineno"> 3526</span>        <span class="keywordtype">float</span> z;</div>
-<div class="line"><a id="l03527" name="l03527"></a><span class="lineno"> 3527</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a162c3d8c139c75bac9607b512768b937">parse_float</a>(temp_string,z) ){</div>
-<div class="line"><a id="l03528" name="l03528"></a><span class="lineno"> 3528</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Z value for vertex &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; is invalid and could not be read.&quot;</span>);</div>
-<div class="line"><a id="l03529" name="l03529"></a><span class="lineno"> 3529</span>        }</div>
-<div class="line"><a id="l03530" name="l03530"></a><span class="lineno"> 3530</span>        <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;XUP&quot;</span>){</div>
-<div class="line"><a id="l03531" name="l03531"></a><span class="lineno"> 3531</span>          vertices.at(row).y = z;</div>
-<div class="line"><a id="l03532" name="l03532"></a><span class="lineno"> 3532</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;YUP&quot;</span> ){</div>
-<div class="line"><a id="l03533" name="l03533"></a><span class="lineno"> 3533</span>          vertices.at(row).x = z;</div>
-<div class="line"><a id="l03534" name="l03534"></a><span class="lineno"> 3534</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;ZUP&quot;</span> ){</div>
-<div class="line"><a id="l03535" name="l03535"></a><span class="lineno"> 3535</span>          vertices.at(row).z = z;</div>
-<div class="line"><a id="l03536" name="l03536"></a><span class="lineno"> 3536</span>        }</div>
-<div class="line"><a id="l03537" name="l03537"></a><span class="lineno"> 3537</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( property==<span class="stringliteral">&quot;red&quot;</span> ){</div>
-<div class="line"><a id="l03538" name="l03538"></a><span class="lineno"> 3538</span>        inputPly &gt;&gt; temp_string;</div>
-<div class="line"><a id="l03539" name="l03539"></a><span class="lineno"> 3539</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a162c3d8c139c75bac9607b512768b937">parse_float</a>(temp_string,colors.at(row).r) ){</div>
-<div class="line"><a id="l03540" name="l03540"></a><span class="lineno"> 3540</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): red color value for vertex &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; is invalid and could not be read.&quot;</span>);</div>
-<div class="line"><a id="l03541" name="l03541"></a><span class="lineno"> 3541</span>        }</div>
-<div class="line"><a id="l03542" name="l03542"></a><span class="lineno"> 3542</span>        colors.at(row).r /= 255.f;</div>
-<div class="line"><a id="l03543" name="l03543"></a><span class="lineno"> 3543</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( property==<span class="stringliteral">&quot;green&quot;</span> ){</div>
-<div class="line"><a id="l03544" name="l03544"></a><span class="lineno"> 3544</span>        inputPly &gt;&gt; temp_string;</div>
-<div class="line"><a id="l03545" name="l03545"></a><span class="lineno"> 3545</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a162c3d8c139c75bac9607b512768b937">parse_float</a>(temp_string,colors.at(row).g) ){</div>
-<div class="line"><a id="l03546" name="l03546"></a><span class="lineno"> 3546</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): green color value for vertex &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; is invalid and could not be read.&quot;</span>);</div>
-<div class="line"><a id="l03547" name="l03547"></a><span class="lineno"> 3547</span>        }</div>
-<div class="line"><a id="l03548" name="l03548"></a><span class="lineno"> 3548</span>        colors.at(row).g /= 255.f;</div>
-<div class="line"><a id="l03549" name="l03549"></a><span class="lineno"> 3549</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( property==<span class="stringliteral">&quot;blue&quot;</span> ){</div>
-<div class="line"><a id="l03550" name="l03550"></a><span class="lineno"> 3550</span>        inputPly &gt;&gt; temp_string;</div>
-<div class="line"><a id="l03551" name="l03551"></a><span class="lineno"> 3551</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a162c3d8c139c75bac9607b512768b937">parse_float</a>(temp_string,colors.at(row).b) ){</div>
-<div class="line"><a id="l03552" name="l03552"></a><span class="lineno"> 3552</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): blue color value for vertex &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; is invalid and could not be read.&quot;</span>);</div>
-<div class="line"><a id="l03553" name="l03553"></a><span class="lineno"> 3553</span>        }</div>
-<div class="line"><a id="l03554" name="l03554"></a><span class="lineno"> 3554</span>        colors.at(row).b /= 255.f;</div>
-<div class="line"><a id="l03555" name="l03555"></a><span class="lineno"> 3555</span>      }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03556" name="l03556"></a><span class="lineno"> 3556</span>        inputPly &gt;&gt; line;</div>
-<div class="line"><a id="l03557" name="l03557"></a><span class="lineno"> 3557</span>      }</div>
-<div class="line"><a id="l03558" name="l03558"></a><span class="lineno"> 3558</span>    }</div>
-<div class="line"><a id="l03559" name="l03559"></a><span class="lineno"> 3559</span> </div>
-<div class="line"><a id="l03560" name="l03560"></a><span class="lineno"> 3560</span>    <span class="keywordflow">if</span>( inputPly.eof() ){</div>
-<div class="line"><a id="l03561" name="l03561"></a><span class="lineno"> 3561</span>      <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Read past end of file while reading vertices. Vertex count specified in header may be incorrect.&quot;</span>);</div>
-<div class="line"><a id="l03562" name="l03562"></a><span class="lineno"> 3562</span>    }</div>
-<div class="line"><a id="l03563" name="l03563"></a><span class="lineno"> 3563</span> </div>
-<div class="line"><a id="l03564" name="l03564"></a><span class="lineno"> 3564</span>  }</div>
-<div class="line"><a id="l03565" name="l03565"></a><span class="lineno"> 3565</span> </div>
-<div class="line"><a id="l03566" name="l03566"></a><span class="lineno"> 3566</span>  <span class="comment">//determine bounding box</span></div>
+<div class="line"><a id="l03428" name="l03428"></a><span class="lineno"> 3428</span>  <span class="comment">//--- read header info -----//</span></div>
+<div class="line"><a id="l03429" name="l03429"></a><span class="lineno"> 3429</span> </div>
+<div class="line"><a id="l03430" name="l03430"></a><span class="lineno"> 3430</span>  <span class="comment">//first line should always be &#39;ply&#39;</span></div>
+<div class="line"><a id="l03431" name="l03431"></a><span class="lineno"> 3431</span>  inputPly&gt;&gt;line;</div>
+<div class="line"><a id="l03432" name="l03432"></a><span class="lineno"> 3432</span>  <span class="keywordflow">if</span>( <span class="stringliteral">&quot;ply&quot;</span>!=line ){</div>
+<div class="line"><a id="l03433" name="l03433"></a><span class="lineno"> 3433</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): &quot;</span> + std::string(filename) + <span class="stringliteral">&quot; is not a PLY file.&quot;</span>);</div>
+<div class="line"><a id="l03434" name="l03434"></a><span class="lineno"> 3434</span>  }</div>
+<div class="line"><a id="l03435" name="l03435"></a><span class="lineno"> 3435</span> </div>
+<div class="line"><a id="l03436" name="l03436"></a><span class="lineno"> 3436</span>  <span class="comment">//read format</span></div>
+<div class="line"><a id="l03437" name="l03437"></a><span class="lineno"> 3437</span>  inputPly&gt;&gt;line;</div>
+<div class="line"><a id="l03438" name="l03438"></a><span class="lineno"> 3438</span>  <span class="keywordflow">if</span>( <span class="stringliteral">&quot;format&quot;</span>!=line ){</div>
+<div class="line"><a id="l03439" name="l03439"></a><span class="lineno"> 3439</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): could not determine data format of &quot;</span> + std::string(filename) );</div>
+<div class="line"><a id="l03440" name="l03440"></a><span class="lineno"> 3440</span>  }</div>
+<div class="line"><a id="l03441" name="l03441"></a><span class="lineno"> 3441</span> </div>
+<div class="line"><a id="l03442" name="l03442"></a><span class="lineno"> 3442</span>  inputPly&gt;&gt;line;</div>
+<div class="line"><a id="l03443" name="l03443"></a><span class="lineno"> 3443</span>  <span class="keywordflow">if</span>( <span class="stringliteral">&quot;ascii&quot;</span>!=line ){</div>
+<div class="line"><a id="l03444" name="l03444"></a><span class="lineno"> 3444</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Only ASCII data types are supported.&quot;</span>);</div>
+<div class="line"><a id="l03445" name="l03445"></a><span class="lineno"> 3445</span>  }</div>
+<div class="line"><a id="l03446" name="l03446"></a><span class="lineno"> 3446</span> </div>
+<div class="line"><a id="l03447" name="l03447"></a><span class="lineno"> 3447</span>  std::string temp_string;</div>
+<div class="line"><a id="l03448" name="l03448"></a><span class="lineno"> 3448</span> </div>
+<div class="line"><a id="l03449" name="l03449"></a><span class="lineno"> 3449</span>  <span class="keywordflow">while</span>( <span class="stringliteral">&quot;end_header&quot;</span>!=line ){</div>
+<div class="line"><a id="l03450" name="l03450"></a><span class="lineno"> 3450</span> </div>
+<div class="line"><a id="l03451" name="l03451"></a><span class="lineno"> 3451</span>    inputPly&gt;&gt;line;</div>
+<div class="line"><a id="l03452" name="l03452"></a><span class="lineno"> 3452</span> </div>
+<div class="line"><a id="l03453" name="l03453"></a><span class="lineno"> 3453</span>    <span class="keywordflow">if</span>( <span class="stringliteral">&quot;comment&quot;</span>==line ){</div>
+<div class="line"><a id="l03454" name="l03454"></a><span class="lineno"> 3454</span>      getline(inputPly, line);</div>
+<div class="line"><a id="l03455" name="l03455"></a><span class="lineno"> 3455</span>    }</div>
+<div class="line"><a id="l03456" name="l03456"></a><span class="lineno"> 3456</span>    <span class="keywordflow">else</span> <span class="keywordflow">if</span>( <span class="stringliteral">&quot;element&quot;</span>==line ){</div>
+<div class="line"><a id="l03457" name="l03457"></a><span class="lineno"> 3457</span> </div>
+<div class="line"><a id="l03458" name="l03458"></a><span class="lineno"> 3458</span>      inputPly&gt;&gt;line;</div>
+<div class="line"><a id="l03459" name="l03459"></a><span class="lineno"> 3459</span> </div>
+<div class="line"><a id="l03460" name="l03460"></a><span class="lineno"> 3460</span>      <span class="keywordflow">if</span>( <span class="stringliteral">&quot;vertex&quot;</span>==line ){</div>
+<div class="line"><a id="l03461" name="l03461"></a><span class="lineno"> 3461</span>        inputPly&gt;&gt;temp_string;</div>
+<div class="line"><a id="l03462" name="l03462"></a><span class="lineno"> 3462</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a51430e9e359c2aad9d22d41650b2221a">parse_uint</a>(temp_string,vertexCount) ){</div>
+<div class="line"><a id="l03463" name="l03463"></a><span class="lineno"> 3463</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): PLY file read failed. Vertex count value should be a non-negative integer.&quot;</span>);</div>
+<div class="line"><a id="l03464" name="l03464"></a><span class="lineno"> 3464</span>        }</div>
+<div class="line"><a id="l03465" name="l03465"></a><span class="lineno"> 3465</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( <span class="stringliteral">&quot;face&quot;</span>==line ){</div>
+<div class="line"><a id="l03466" name="l03466"></a><span class="lineno"> 3466</span>        inputPly&gt;&gt;temp_string;</div>
+<div class="line"><a id="l03467" name="l03467"></a><span class="lineno"> 3467</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a51430e9e359c2aad9d22d41650b2221a">parse_uint</a>(temp_string,faceCount) ){</div>
+<div class="line"><a id="l03468" name="l03468"></a><span class="lineno"> 3468</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): PLY file read failed. Face count value should be a non-negative integer.&quot;</span>);</div>
+<div class="line"><a id="l03469" name="l03469"></a><span class="lineno"> 3469</span>        }</div>
+<div class="line"><a id="l03470" name="l03470"></a><span class="lineno"> 3470</span>      }</div>
+<div class="line"><a id="l03471" name="l03471"></a><span class="lineno"> 3471</span> </div>
+<div class="line"><a id="l03472" name="l03472"></a><span class="lineno"> 3472</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( <span class="stringliteral">&quot;property&quot;</span>==line ){</div>
+<div class="line"><a id="l03473" name="l03473"></a><span class="lineno"> 3473</span> </div>
+<div class="line"><a id="l03474" name="l03474"></a><span class="lineno"> 3474</span>      inputPly&gt;&gt;line; <span class="comment">//type</span></div>
+<div class="line"><a id="l03475" name="l03475"></a><span class="lineno"> 3475</span> </div>
+<div class="line"><a id="l03476" name="l03476"></a><span class="lineno"> 3476</span>      <span class="keywordflow">if</span>( <span class="stringliteral">&quot;list&quot;</span>!=line ){</div>
+<div class="line"><a id="l03477" name="l03477"></a><span class="lineno"> 3477</span> </div>
+<div class="line"><a id="l03478" name="l03478"></a><span class="lineno"> 3478</span>        inputPly&gt;&gt;prop; <span class="comment">//value</span></div>
+<div class="line"><a id="l03479" name="l03479"></a><span class="lineno"> 3479</span>        properties.push_back(prop);</div>
+<div class="line"><a id="l03480" name="l03480"></a><span class="lineno"> 3480</span> </div>
+<div class="line"><a id="l03481" name="l03481"></a><span class="lineno"> 3481</span>      }</div>
+<div class="line"><a id="l03482" name="l03482"></a><span class="lineno"> 3482</span> </div>
+<div class="line"><a id="l03483" name="l03483"></a><span class="lineno"> 3483</span>    }</div>
+<div class="line"><a id="l03484" name="l03484"></a><span class="lineno"> 3484</span> </div>
+<div class="line"><a id="l03485" name="l03485"></a><span class="lineno"> 3485</span>  }</div>
+<div class="line"><a id="l03486" name="l03486"></a><span class="lineno"> 3486</span> </div>
+<div class="line"><a id="l03487" name="l03487"></a><span class="lineno"> 3487</span>  <span class="keywordflow">for</span>(<span class="keyword">auto</span> &amp; property : properties){</div>
+<div class="line"><a id="l03488" name="l03488"></a><span class="lineno"> 3488</span>    <span class="keywordflow">if</span>( property==<span class="stringliteral">&quot;red&quot;</span> ){</div>
+<div class="line"><a id="l03489" name="l03489"></a><span class="lineno"> 3489</span>      ifColor = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l03490" name="l03490"></a><span class="lineno"> 3490</span>    }</div>
+<div class="line"><a id="l03491" name="l03491"></a><span class="lineno"> 3491</span>  }</div>
+<div class="line"><a id="l03492" name="l03492"></a><span class="lineno"> 3492</span>  <span class="keywordflow">if</span>( !silent ) {</div>
+<div class="line"><a id="l03493" name="l03493"></a><span class="lineno"> 3493</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;forming &quot;</span> &lt;&lt; faceCount &lt;&lt; <span class="stringliteral">&quot; triangles...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03494" name="l03494"></a><span class="lineno"> 3494</span>  }</div>
+<div class="line"><a id="l03495" name="l03495"></a><span class="lineno"> 3495</span> </div>
+<div class="line"><a id="l03496" name="l03496"></a><span class="lineno"> 3496</span>  vertices.resize(vertexCount);</div>
+<div class="line"><a id="l03497" name="l03497"></a><span class="lineno"> 3497</span>  colors.resize(vertexCount);</div>
+<div class="line"><a id="l03498" name="l03498"></a><span class="lineno"> 3498</span>  faces.resize(faceCount);</div>
+<div class="line"><a id="l03499" name="l03499"></a><span class="lineno"> 3499</span> </div>
+<div class="line"><a id="l03500" name="l03500"></a><span class="lineno"> 3500</span> </div>
+<div class="line"><a id="l03501" name="l03501"></a><span class="lineno"> 3501</span>  <span class="comment">//--- read vertices ----//</span></div>
+<div class="line"><a id="l03502" name="l03502"></a><span class="lineno"> 3502</span> </div>
+<div class="line"><a id="l03503" name="l03503"></a><span class="lineno"> 3503</span>  <span class="keywordflow">for</span>( uint row=0; row&lt;vertexCount; row++ ){</div>
+<div class="line"><a id="l03504" name="l03504"></a><span class="lineno"> 3504</span> </div>
+<div class="line"><a id="l03505" name="l03505"></a><span class="lineno"> 3505</span>    <span class="keywordflow">for</span>(<span class="keyword">auto</span> &amp; property : properties){</div>
+<div class="line"><a id="l03506" name="l03506"></a><span class="lineno"> 3506</span>      <span class="keywordflow">if</span>( property==<span class="stringliteral">&quot;x&quot;</span> ){</div>
+<div class="line"><a id="l03507" name="l03507"></a><span class="lineno"> 3507</span>        inputPly &gt;&gt; temp_string;</div>
+<div class="line"><a id="l03508" name="l03508"></a><span class="lineno"> 3508</span>        <span class="keywordtype">float</span> x;</div>
+<div class="line"><a id="l03509" name="l03509"></a><span class="lineno"> 3509</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a162c3d8c139c75bac9607b512768b937">parse_float</a>(temp_string,x) ){</div>
+<div class="line"><a id="l03510" name="l03510"></a><span class="lineno"> 3510</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): X value for vertex &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; is invalid and could not be read.&quot;</span>);</div>
+<div class="line"><a id="l03511" name="l03511"></a><span class="lineno"> 3511</span>        }</div>
+<div class="line"><a id="l03512" name="l03512"></a><span class="lineno"> 3512</span>        <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;XUP&quot;</span>){</div>
+<div class="line"><a id="l03513" name="l03513"></a><span class="lineno"> 3513</span>          vertices.at(row).z = x;</div>
+<div class="line"><a id="l03514" name="l03514"></a><span class="lineno"> 3514</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;YUP&quot;</span> ){</div>
+<div class="line"><a id="l03515" name="l03515"></a><span class="lineno"> 3515</span>          vertices.at(row).y = x;</div>
+<div class="line"><a id="l03516" name="l03516"></a><span class="lineno"> 3516</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;ZUP&quot;</span> ){</div>
+<div class="line"><a id="l03517" name="l03517"></a><span class="lineno"> 3517</span>          vertices.at(row).x = x;</div>
+<div class="line"><a id="l03518" name="l03518"></a><span class="lineno"> 3518</span>        }</div>
+<div class="line"><a id="l03519" name="l03519"></a><span class="lineno"> 3519</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( property==<span class="stringliteral">&quot;y&quot;</span> ){</div>
+<div class="line"><a id="l03520" name="l03520"></a><span class="lineno"> 3520</span>        inputPly &gt;&gt; temp_string;</div>
+<div class="line"><a id="l03521" name="l03521"></a><span class="lineno"> 3521</span>        <span class="keywordtype">float</span> y;</div>
+<div class="line"><a id="l03522" name="l03522"></a><span class="lineno"> 3522</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a162c3d8c139c75bac9607b512768b937">parse_float</a>(temp_string,y) ){</div>
+<div class="line"><a id="l03523" name="l03523"></a><span class="lineno"> 3523</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Y value for vertex &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; is invalid and could not be read.&quot;</span>);</div>
+<div class="line"><a id="l03524" name="l03524"></a><span class="lineno"> 3524</span>        }</div>
+<div class="line"><a id="l03525" name="l03525"></a><span class="lineno"> 3525</span>        <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;XUP&quot;</span>){</div>
+<div class="line"><a id="l03526" name="l03526"></a><span class="lineno"> 3526</span>          vertices.at(row).x = y;</div>
+<div class="line"><a id="l03527" name="l03527"></a><span class="lineno"> 3527</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;YUP&quot;</span> ){</div>
+<div class="line"><a id="l03528" name="l03528"></a><span class="lineno"> 3528</span>          vertices.at(row).z = y;</div>
+<div class="line"><a id="l03529" name="l03529"></a><span class="lineno"> 3529</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;ZUP&quot;</span> ){</div>
+<div class="line"><a id="l03530" name="l03530"></a><span class="lineno"> 3530</span>          vertices.at(row).y = y;</div>
+<div class="line"><a id="l03531" name="l03531"></a><span class="lineno"> 3531</span>        }</div>
+<div class="line"><a id="l03532" name="l03532"></a><span class="lineno"> 3532</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( property==<span class="stringliteral">&quot;z&quot;</span> ){</div>
+<div class="line"><a id="l03533" name="l03533"></a><span class="lineno"> 3533</span>        inputPly &gt;&gt; temp_string;</div>
+<div class="line"><a id="l03534" name="l03534"></a><span class="lineno"> 3534</span>        <span class="keywordtype">float</span> z;</div>
+<div class="line"><a id="l03535" name="l03535"></a><span class="lineno"> 3535</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a162c3d8c139c75bac9607b512768b937">parse_float</a>(temp_string,z) ){</div>
+<div class="line"><a id="l03536" name="l03536"></a><span class="lineno"> 3536</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Z value for vertex &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; is invalid and could not be read.&quot;</span>);</div>
+<div class="line"><a id="l03537" name="l03537"></a><span class="lineno"> 3537</span>        }</div>
+<div class="line"><a id="l03538" name="l03538"></a><span class="lineno"> 3538</span>        <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;XUP&quot;</span>){</div>
+<div class="line"><a id="l03539" name="l03539"></a><span class="lineno"> 3539</span>          vertices.at(row).y = z;</div>
+<div class="line"><a id="l03540" name="l03540"></a><span class="lineno"> 3540</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;YUP&quot;</span> ){</div>
+<div class="line"><a id="l03541" name="l03541"></a><span class="lineno"> 3541</span>          vertices.at(row).x = z;</div>
+<div class="line"><a id="l03542" name="l03542"></a><span class="lineno"> 3542</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( upaxis==<span class="stringliteral">&quot;ZUP&quot;</span> ){</div>
+<div class="line"><a id="l03543" name="l03543"></a><span class="lineno"> 3543</span>          vertices.at(row).z = z;</div>
+<div class="line"><a id="l03544" name="l03544"></a><span class="lineno"> 3544</span>        }</div>
+<div class="line"><a id="l03545" name="l03545"></a><span class="lineno"> 3545</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( property==<span class="stringliteral">&quot;red&quot;</span> ){</div>
+<div class="line"><a id="l03546" name="l03546"></a><span class="lineno"> 3546</span>        inputPly &gt;&gt; temp_string;</div>
+<div class="line"><a id="l03547" name="l03547"></a><span class="lineno"> 3547</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a162c3d8c139c75bac9607b512768b937">parse_float</a>(temp_string,colors.at(row).r) ){</div>
+<div class="line"><a id="l03548" name="l03548"></a><span class="lineno"> 3548</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): red color value for vertex &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; is invalid and could not be read.&quot;</span>);</div>
+<div class="line"><a id="l03549" name="l03549"></a><span class="lineno"> 3549</span>        }</div>
+<div class="line"><a id="l03550" name="l03550"></a><span class="lineno"> 3550</span>        colors.at(row).r /= 255.f;</div>
+<div class="line"><a id="l03551" name="l03551"></a><span class="lineno"> 3551</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( property==<span class="stringliteral">&quot;green&quot;</span> ){</div>
+<div class="line"><a id="l03552" name="l03552"></a><span class="lineno"> 3552</span>        inputPly &gt;&gt; temp_string;</div>
+<div class="line"><a id="l03553" name="l03553"></a><span class="lineno"> 3553</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a162c3d8c139c75bac9607b512768b937">parse_float</a>(temp_string,colors.at(row).g) ){</div>
+<div class="line"><a id="l03554" name="l03554"></a><span class="lineno"> 3554</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): green color value for vertex &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; is invalid and could not be read.&quot;</span>);</div>
+<div class="line"><a id="l03555" name="l03555"></a><span class="lineno"> 3555</span>        }</div>
+<div class="line"><a id="l03556" name="l03556"></a><span class="lineno"> 3556</span>        colors.at(row).g /= 255.f;</div>
+<div class="line"><a id="l03557" name="l03557"></a><span class="lineno"> 3557</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( property==<span class="stringliteral">&quot;blue&quot;</span> ){</div>
+<div class="line"><a id="l03558" name="l03558"></a><span class="lineno"> 3558</span>        inputPly &gt;&gt; temp_string;</div>
+<div class="line"><a id="l03559" name="l03559"></a><span class="lineno"> 3559</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a162c3d8c139c75bac9607b512768b937">parse_float</a>(temp_string,colors.at(row).b) ){</div>
+<div class="line"><a id="l03560" name="l03560"></a><span class="lineno"> 3560</span>          <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): blue color value for vertex &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; is invalid and could not be read.&quot;</span>);</div>
+<div class="line"><a id="l03561" name="l03561"></a><span class="lineno"> 3561</span>        }</div>
+<div class="line"><a id="l03562" name="l03562"></a><span class="lineno"> 3562</span>        colors.at(row).b /= 255.f;</div>
+<div class="line"><a id="l03563" name="l03563"></a><span class="lineno"> 3563</span>      }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l03564" name="l03564"></a><span class="lineno"> 3564</span>        inputPly &gt;&gt; line;</div>
+<div class="line"><a id="l03565" name="l03565"></a><span class="lineno"> 3565</span>      }</div>
+<div class="line"><a id="l03566" name="l03566"></a><span class="lineno"> 3566</span>    }</div>
 <div class="line"><a id="l03567" name="l03567"></a><span class="lineno"> 3567</span> </div>
-<div class="line"><a id="l03568" name="l03568"></a><span class="lineno"> 3568</span>  <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> boxmin = <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(10000,10000,10000);</div>
-<div class="line"><a id="l03569" name="l03569"></a><span class="lineno"> 3569</span>  <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> boxmax = <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(-10000,-10000,-10000);</div>
-<div class="line"><a id="l03570" name="l03570"></a><span class="lineno"> 3570</span> </div>
-<div class="line"><a id="l03571" name="l03571"></a><span class="lineno"> 3571</span>  <span class="keywordflow">for</span>( uint row=0; row&lt;vertexCount; row++ ){</div>
-<div class="line"><a id="l03572" name="l03572"></a><span class="lineno"> 3572</span> </div>
-<div class="line"><a id="l03573" name="l03573"></a><span class="lineno"> 3573</span>    <span class="keywordflow">if</span>(vertices.at(row).x &lt; boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> ){</div>
-<div class="line"><a id="l03574" name="l03574"></a><span class="lineno"> 3574</span>      boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> = vertices.at(row).x;</div>
-<div class="line"><a id="l03575" name="l03575"></a><span class="lineno"> 3575</span>    }</div>
-<div class="line"><a id="l03576" name="l03576"></a><span class="lineno"> 3576</span>    <span class="keywordflow">if</span>(vertices.at(row).y &lt; boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> ){</div>
-<div class="line"><a id="l03577" name="l03577"></a><span class="lineno"> 3577</span>      boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> = vertices.at(row).y;</div>
-<div class="line"><a id="l03578" name="l03578"></a><span class="lineno"> 3578</span>    }</div>
-<div class="line"><a id="l03579" name="l03579"></a><span class="lineno"> 3579</span>    <span class="keywordflow">if</span>(vertices.at(row).z &lt; boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> ){</div>
-<div class="line"><a id="l03580" name="l03580"></a><span class="lineno"> 3580</span>      boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> = vertices.at(row).z;</div>
-<div class="line"><a id="l03581" name="l03581"></a><span class="lineno"> 3581</span>    }</div>
-<div class="line"><a id="l03582" name="l03582"></a><span class="lineno"> 3582</span> </div>
-<div class="line"><a id="l03583" name="l03583"></a><span class="lineno"> 3583</span>    <span class="keywordflow">if</span>(vertices.at(row).x &gt; boxmax.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> ){</div>
-<div class="line"><a id="l03584" name="l03584"></a><span class="lineno"> 3584</span>      boxmax.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> = vertices.at(row).x;</div>
-<div class="line"><a id="l03585" name="l03585"></a><span class="lineno"> 3585</span>    }</div>
-<div class="line"><a id="l03586" name="l03586"></a><span class="lineno"> 3586</span>    <span class="keywordflow">if</span>(vertices.at(row).y &gt; boxmax.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> ){</div>
-<div class="line"><a id="l03587" name="l03587"></a><span class="lineno"> 3587</span>      boxmax.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> = vertices.at(row).y;</div>
-<div class="line"><a id="l03588" name="l03588"></a><span class="lineno"> 3588</span>    }</div>
-<div class="line"><a id="l03589" name="l03589"></a><span class="lineno"> 3589</span>    <span class="keywordflow">if</span>(vertices.at(row).z &gt; boxmax.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> ){</div>
-<div class="line"><a id="l03590" name="l03590"></a><span class="lineno"> 3590</span>      boxmax.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> = vertices.at(row).z;</div>
-<div class="line"><a id="l03591" name="l03591"></a><span class="lineno"> 3591</span>    }</div>
-<div class="line"><a id="l03592" name="l03592"></a><span class="lineno"> 3592</span> </div>
-<div class="line"><a id="l03593" name="l03593"></a><span class="lineno"> 3593</span>  }</div>
-<div class="line"><a id="l03594" name="l03594"></a><span class="lineno"> 3594</span> </div>
-<div class="line"><a id="l03595" name="l03595"></a><span class="lineno"> 3595</span>  <span class="comment">//center PLY object at `origin&#39; and scale to have height `height&#39;</span></div>
-<div class="line"><a id="l03596" name="l03596"></a><span class="lineno"> 3596</span>  <span class="keywordtype">float</span> scl = 1.f;</div>
-<div class="line"><a id="l03597" name="l03597"></a><span class="lineno"> 3597</span>  <span class="keywordflow">if</span>( height&gt;0.f ){</div>
-<div class="line"><a id="l03598" name="l03598"></a><span class="lineno"> 3598</span>    scl = height/(boxmax.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>-boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>);</div>
-<div class="line"><a id="l03599" name="l03599"></a><span class="lineno"> 3599</span>  }</div>
-<div class="line"><a id="l03600" name="l03600"></a><span class="lineno"> 3600</span>  <span class="keywordflow">for</span>( uint row=0; row&lt;vertexCount; row++ ){</div>
-<div class="line"><a id="l03601" name="l03601"></a><span class="lineno"> 3601</span>    vertices.at(row).z -= boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>;</div>
+<div class="line"><a id="l03568" name="l03568"></a><span class="lineno"> 3568</span>    <span class="keywordflow">if</span>( inputPly.eof() ){</div>
+<div class="line"><a id="l03569" name="l03569"></a><span class="lineno"> 3569</span>      <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Read past end of file while reading vertices. Vertex count specified in header may be incorrect.&quot;</span>);</div>
+<div class="line"><a id="l03570" name="l03570"></a><span class="lineno"> 3570</span>    }</div>
+<div class="line"><a id="l03571" name="l03571"></a><span class="lineno"> 3571</span> </div>
+<div class="line"><a id="l03572" name="l03572"></a><span class="lineno"> 3572</span>  }</div>
+<div class="line"><a id="l03573" name="l03573"></a><span class="lineno"> 3573</span> </div>
+<div class="line"><a id="l03574" name="l03574"></a><span class="lineno"> 3574</span>  <span class="comment">//determine bounding box</span></div>
+<div class="line"><a id="l03575" name="l03575"></a><span class="lineno"> 3575</span> </div>
+<div class="line"><a id="l03576" name="l03576"></a><span class="lineno"> 3576</span>  <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> boxmin = <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(10000,10000,10000);</div>
+<div class="line"><a id="l03577" name="l03577"></a><span class="lineno"> 3577</span>  <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> boxmax = <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(-10000,-10000,-10000);</div>
+<div class="line"><a id="l03578" name="l03578"></a><span class="lineno"> 3578</span> </div>
+<div class="line"><a id="l03579" name="l03579"></a><span class="lineno"> 3579</span>  <span class="keywordflow">for</span>( uint row=0; row&lt;vertexCount; row++ ){</div>
+<div class="line"><a id="l03580" name="l03580"></a><span class="lineno"> 3580</span> </div>
+<div class="line"><a id="l03581" name="l03581"></a><span class="lineno"> 3581</span>    <span class="keywordflow">if</span>(vertices.at(row).x &lt; boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> ){</div>
+<div class="line"><a id="l03582" name="l03582"></a><span class="lineno"> 3582</span>      boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> = vertices.at(row).x;</div>
+<div class="line"><a id="l03583" name="l03583"></a><span class="lineno"> 3583</span>    }</div>
+<div class="line"><a id="l03584" name="l03584"></a><span class="lineno"> 3584</span>    <span class="keywordflow">if</span>(vertices.at(row).y &lt; boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> ){</div>
+<div class="line"><a id="l03585" name="l03585"></a><span class="lineno"> 3585</span>      boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> = vertices.at(row).y;</div>
+<div class="line"><a id="l03586" name="l03586"></a><span class="lineno"> 3586</span>    }</div>
+<div class="line"><a id="l03587" name="l03587"></a><span class="lineno"> 3587</span>    <span class="keywordflow">if</span>(vertices.at(row).z &lt; boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> ){</div>
+<div class="line"><a id="l03588" name="l03588"></a><span class="lineno"> 3588</span>      boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> = vertices.at(row).z;</div>
+<div class="line"><a id="l03589" name="l03589"></a><span class="lineno"> 3589</span>    }</div>
+<div class="line"><a id="l03590" name="l03590"></a><span class="lineno"> 3590</span> </div>
+<div class="line"><a id="l03591" name="l03591"></a><span class="lineno"> 3591</span>    <span class="keywordflow">if</span>(vertices.at(row).x &gt; boxmax.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> ){</div>
+<div class="line"><a id="l03592" name="l03592"></a><span class="lineno"> 3592</span>      boxmax.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> = vertices.at(row).x;</div>
+<div class="line"><a id="l03593" name="l03593"></a><span class="lineno"> 3593</span>    }</div>
+<div class="line"><a id="l03594" name="l03594"></a><span class="lineno"> 3594</span>    <span class="keywordflow">if</span>(vertices.at(row).y &gt; boxmax.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> ){</div>
+<div class="line"><a id="l03595" name="l03595"></a><span class="lineno"> 3595</span>      boxmax.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> = vertices.at(row).y;</div>
+<div class="line"><a id="l03596" name="l03596"></a><span class="lineno"> 3596</span>    }</div>
+<div class="line"><a id="l03597" name="l03597"></a><span class="lineno"> 3597</span>    <span class="keywordflow">if</span>(vertices.at(row).z &gt; boxmax.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> ){</div>
+<div class="line"><a id="l03598" name="l03598"></a><span class="lineno"> 3598</span>      boxmax.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> = vertices.at(row).z;</div>
+<div class="line"><a id="l03599" name="l03599"></a><span class="lineno"> 3599</span>    }</div>
+<div class="line"><a id="l03600" name="l03600"></a><span class="lineno"> 3600</span> </div>
+<div class="line"><a id="l03601" name="l03601"></a><span class="lineno"> 3601</span>  }</div>
 <div class="line"><a id="l03602" name="l03602"></a><span class="lineno"> 3602</span> </div>
-<div class="line"><a id="l03603" name="l03603"></a><span class="lineno"> 3603</span>    vertices.at(row).x *= scl;</div>
-<div class="line"><a id="l03604" name="l03604"></a><span class="lineno"> 3604</span>    vertices.at(row).y *= scl;</div>
-<div class="line"><a id="l03605" name="l03605"></a><span class="lineno"> 3605</span>    vertices.at(row).z *= scl;</div>
-<div class="line"><a id="l03606" name="l03606"></a><span class="lineno"> 3606</span> </div>
-<div class="line"><a id="l03607" name="l03607"></a><span class="lineno"> 3607</span>    vertices.at(row) = <a class="code hl_function" href="group__functions.html#ga17de9e03f309dedcd648606653ddd05e">rotatePoint</a>(vertices.at(row),rotation) + origin;</div>
-<div class="line"><a id="l03608" name="l03608"></a><span class="lineno"> 3608</span>  }</div>
-<div class="line"><a id="l03609" name="l03609"></a><span class="lineno"> 3609</span> </div>
-<div class="line"><a id="l03610" name="l03610"></a><span class="lineno"> 3610</span>  <span class="comment">//--- read faces ----//</span></div>
-<div class="line"><a id="l03611" name="l03611"></a><span class="lineno"> 3611</span> </div>
-<div class="line"><a id="l03612" name="l03612"></a><span class="lineno"> 3612</span>  uint v,ID;</div>
-<div class="line"><a id="l03613" name="l03613"></a><span class="lineno"> 3613</span>  std::vector&lt;uint&gt; UUID;</div>
-<div class="line"><a id="l03614" name="l03614"></a><span class="lineno"> 3614</span>  <span class="keywordflow">for</span>( uint row=0; row&lt;faceCount; row++ ){</div>
-<div class="line"><a id="l03615" name="l03615"></a><span class="lineno"> 3615</span> </div>
-<div class="line"><a id="l03616" name="l03616"></a><span class="lineno"> 3616</span>    inputPly &gt;&gt; temp_string;</div>
+<div class="line"><a id="l03603" name="l03603"></a><span class="lineno"> 3603</span>  <span class="comment">//center PLY object at `origin&#39; and scale to have height `height&#39;</span></div>
+<div class="line"><a id="l03604" name="l03604"></a><span class="lineno"> 3604</span>  <span class="keywordtype">float</span> scl = 1.f;</div>
+<div class="line"><a id="l03605" name="l03605"></a><span class="lineno"> 3605</span>  <span class="keywordflow">if</span>( height&gt;0.f ){</div>
+<div class="line"><a id="l03606" name="l03606"></a><span class="lineno"> 3606</span>    scl = height/(boxmax.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>-boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>);</div>
+<div class="line"><a id="l03607" name="l03607"></a><span class="lineno"> 3607</span>  }</div>
+<div class="line"><a id="l03608" name="l03608"></a><span class="lineno"> 3608</span>  <span class="keywordflow">for</span>( uint row=0; row&lt;vertexCount; row++ ){</div>
+<div class="line"><a id="l03609" name="l03609"></a><span class="lineno"> 3609</span>    vertices.at(row).z -= boxmin.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>;</div>
+<div class="line"><a id="l03610" name="l03610"></a><span class="lineno"> 3610</span> </div>
+<div class="line"><a id="l03611" name="l03611"></a><span class="lineno"> 3611</span>    vertices.at(row).x *= scl;</div>
+<div class="line"><a id="l03612" name="l03612"></a><span class="lineno"> 3612</span>    vertices.at(row).y *= scl;</div>
+<div class="line"><a id="l03613" name="l03613"></a><span class="lineno"> 3613</span>    vertices.at(row).z *= scl;</div>
+<div class="line"><a id="l03614" name="l03614"></a><span class="lineno"> 3614</span> </div>
+<div class="line"><a id="l03615" name="l03615"></a><span class="lineno"> 3615</span>    vertices.at(row) = <a class="code hl_function" href="group__functions.html#ga17de9e03f309dedcd648606653ddd05e">rotatePoint</a>(vertices.at(row),rotation) + origin;</div>
+<div class="line"><a id="l03616" name="l03616"></a><span class="lineno"> 3616</span>  }</div>
 <div class="line"><a id="l03617" name="l03617"></a><span class="lineno"> 3617</span> </div>
-<div class="line"><a id="l03618" name="l03618"></a><span class="lineno"> 3618</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a51430e9e359c2aad9d22d41650b2221a">parse_uint</a>(temp_string,v) ){</div>
-<div class="line"><a id="l03619" name="l03619"></a><span class="lineno"> 3619</span>      <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Vertex count for face &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; should be a non-negative integer.&quot;</span>);</div>
-<div class="line"><a id="l03620" name="l03620"></a><span class="lineno"> 3620</span>    }</div>
-<div class="line"><a id="l03621" name="l03621"></a><span class="lineno"> 3621</span> </div>
-<div class="line"><a id="l03622" name="l03622"></a><span class="lineno"> 3622</span>    faces.at(row).resize(v);</div>
+<div class="line"><a id="l03618" name="l03618"></a><span class="lineno"> 3618</span>  <span class="comment">//--- read faces ----//</span></div>
+<div class="line"><a id="l03619" name="l03619"></a><span class="lineno"> 3619</span> </div>
+<div class="line"><a id="l03620" name="l03620"></a><span class="lineno"> 3620</span>  uint v,ID;</div>
+<div class="line"><a id="l03621" name="l03621"></a><span class="lineno"> 3621</span>  std::vector&lt;uint&gt; UUID;</div>
+<div class="line"><a id="l03622" name="l03622"></a><span class="lineno"> 3622</span>  <span class="keywordflow">for</span>( uint row=0; row&lt;faceCount; row++ ){</div>
 <div class="line"><a id="l03623" name="l03623"></a><span class="lineno"> 3623</span> </div>
-<div class="line"><a id="l03624" name="l03624"></a><span class="lineno"> 3624</span>    <span class="keywordflow">for</span>( uint i=0; i&lt;v; i++ ){</div>
-<div class="line"><a id="l03625" name="l03625"></a><span class="lineno"> 3625</span>      inputPly &gt;&gt; temp_string;</div>
-<div class="line"><a id="l03626" name="l03626"></a><span class="lineno"> 3626</span>      <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>(temp_string,faces.at(row).at(i)) ){</div>
-<div class="line"><a id="l03627" name="l03627"></a><span class="lineno"> 3627</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Vertex index for face &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; is invalid and could not be read.&quot;</span>);</div>
-<div class="line"><a id="l03628" name="l03628"></a><span class="lineno"> 3628</span>      }</div>
-<div class="line"><a id="l03629" name="l03629"></a><span class="lineno"> 3629</span>    }</div>
-<div class="line"><a id="l03630" name="l03630"></a><span class="lineno"> 3630</span> </div>
-<div class="line"><a id="l03631" name="l03631"></a><span class="lineno"> 3631</span>    <span class="comment">//Add triangles to context</span></div>
-<div class="line"><a id="l03632" name="l03632"></a><span class="lineno"> 3632</span> </div>
-<div class="line"><a id="l03633" name="l03633"></a><span class="lineno"> 3633</span>    <span class="keywordflow">for</span>( uint t=2; t&lt;v; t++ ){</div>
-<div class="line"><a id="l03634" name="l03634"></a><span class="lineno"> 3634</span> </div>
-<div class="line"><a id="l03635" name="l03635"></a><span class="lineno"> 3635</span>      <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> color;</div>
-<div class="line"><a id="l03636" name="l03636"></a><span class="lineno"> 3636</span>      <span class="keywordflow">if</span>( ifColor ){</div>
-<div class="line"><a id="l03637" name="l03637"></a><span class="lineno"> 3637</span>        color = colors.at(faces.at(row).front());</div>
-<div class="line"><a id="l03638" name="l03638"></a><span class="lineno"> 3638</span>      }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03639" name="l03639"></a><span class="lineno"> 3639</span>        color = default_color;</div>
-<div class="line"><a id="l03640" name="l03640"></a><span class="lineno"> 3640</span>      }</div>
-<div class="line"><a id="l03641" name="l03641"></a><span class="lineno"> 3641</span> </div>
-<div class="line"><a id="l03642" name="l03642"></a><span class="lineno"> 3642</span>      <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> v0 = vertices.at(faces.at(row).front());</div>
-<div class="line"><a id="l03643" name="l03643"></a><span class="lineno"> 3643</span>      <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> v1 = vertices.at(faces.at(row).at(t-1));</div>
-<div class="line"><a id="l03644" name="l03644"></a><span class="lineno"> 3644</span>      <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> v2 = vertices.at(faces.at(row).at(t));</div>
-<div class="line"><a id="l03645" name="l03645"></a><span class="lineno"> 3645</span> </div>
-<div class="line"><a id="l03646" name="l03646"></a><span class="lineno"> 3646</span>      <span class="keywordflow">if</span>( (v0-v1).magnitude()==0 || (v0-v2).magnitude()==0 || (v1-v2).magnitude()==0 ){</div>
-<div class="line"><a id="l03647" name="l03647"></a><span class="lineno"> 3647</span>        <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l03624" name="l03624"></a><span class="lineno"> 3624</span>    inputPly &gt;&gt; temp_string;</div>
+<div class="line"><a id="l03625" name="l03625"></a><span class="lineno"> 3625</span> </div>
+<div class="line"><a id="l03626" name="l03626"></a><span class="lineno"> 3626</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a51430e9e359c2aad9d22d41650b2221a">parse_uint</a>(temp_string,v) ){</div>
+<div class="line"><a id="l03627" name="l03627"></a><span class="lineno"> 3627</span>      <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Vertex count for face &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; should be a non-negative integer.&quot;</span>);</div>
+<div class="line"><a id="l03628" name="l03628"></a><span class="lineno"> 3628</span>    }</div>
+<div class="line"><a id="l03629" name="l03629"></a><span class="lineno"> 3629</span> </div>
+<div class="line"><a id="l03630" name="l03630"></a><span class="lineno"> 3630</span>    faces.at(row).resize(v);</div>
+<div class="line"><a id="l03631" name="l03631"></a><span class="lineno"> 3631</span> </div>
+<div class="line"><a id="l03632" name="l03632"></a><span class="lineno"> 3632</span>    <span class="keywordflow">for</span>( uint i=0; i&lt;v; i++ ){</div>
+<div class="line"><a id="l03633" name="l03633"></a><span class="lineno"> 3633</span>      inputPly &gt;&gt; temp_string;</div>
+<div class="line"><a id="l03634" name="l03634"></a><span class="lineno"> 3634</span>      <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>(temp_string,faces.at(row).at(i)) ){</div>
+<div class="line"><a id="l03635" name="l03635"></a><span class="lineno"> 3635</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Vertex index for face &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; is invalid and could not be read.&quot;</span>);</div>
+<div class="line"><a id="l03636" name="l03636"></a><span class="lineno"> 3636</span>      }</div>
+<div class="line"><a id="l03637" name="l03637"></a><span class="lineno"> 3637</span>    }</div>
+<div class="line"><a id="l03638" name="l03638"></a><span class="lineno"> 3638</span> </div>
+<div class="line"><a id="l03639" name="l03639"></a><span class="lineno"> 3639</span>    <span class="comment">//Add triangles to context</span></div>
+<div class="line"><a id="l03640" name="l03640"></a><span class="lineno"> 3640</span> </div>
+<div class="line"><a id="l03641" name="l03641"></a><span class="lineno"> 3641</span>    <span class="keywordflow">for</span>( uint t=2; t&lt;v; t++ ){</div>
+<div class="line"><a id="l03642" name="l03642"></a><span class="lineno"> 3642</span> </div>
+<div class="line"><a id="l03643" name="l03643"></a><span class="lineno"> 3643</span>      <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> color;</div>
+<div class="line"><a id="l03644" name="l03644"></a><span class="lineno"> 3644</span>      <span class="keywordflow">if</span>( ifColor ){</div>
+<div class="line"><a id="l03645" name="l03645"></a><span class="lineno"> 3645</span>        color = colors.at(faces.at(row).front());</div>
+<div class="line"><a id="l03646" name="l03646"></a><span class="lineno"> 3646</span>      }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l03647" name="l03647"></a><span class="lineno"> 3647</span>        color = default_color;</div>
 <div class="line"><a id="l03648" name="l03648"></a><span class="lineno"> 3648</span>      }</div>
 <div class="line"><a id="l03649" name="l03649"></a><span class="lineno"> 3649</span> </div>
-<div class="line"><a id="l03650" name="l03650"></a><span class="lineno"> 3650</span>      ID = <a class="code hl_function" href="group__primitives.html#ga2a78a464a4c7ef3375a0ced2f1005b77">addTriangle</a>( v0, v1, v2, color );</div>
-<div class="line"><a id="l03651" name="l03651"></a><span class="lineno"> 3651</span> </div>
-<div class="line"><a id="l03652" name="l03652"></a><span class="lineno"> 3652</span>      UUID.push_back(ID);</div>
+<div class="line"><a id="l03650" name="l03650"></a><span class="lineno"> 3650</span>      <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> v0 = vertices.at(faces.at(row).front());</div>
+<div class="line"><a id="l03651" name="l03651"></a><span class="lineno"> 3651</span>      <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> v1 = vertices.at(faces.at(row).at(t-1));</div>
+<div class="line"><a id="l03652" name="l03652"></a><span class="lineno"> 3652</span>      <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> v2 = vertices.at(faces.at(row).at(t));</div>
 <div class="line"><a id="l03653" name="l03653"></a><span class="lineno"> 3653</span> </div>
-<div class="line"><a id="l03654" name="l03654"></a><span class="lineno"> 3654</span>    }</div>
-<div class="line"><a id="l03655" name="l03655"></a><span class="lineno"> 3655</span> </div>
-<div class="line"><a id="l03656" name="l03656"></a><span class="lineno"> 3656</span>    <span class="keywordflow">if</span>( inputPly.eof() ){</div>
-<div class="line"><a id="l03657" name="l03657"></a><span class="lineno"> 3657</span>      <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Read past end of file while reading faces. Face count specified in header may be incorrect.&quot;</span>);</div>
-<div class="line"><a id="l03658" name="l03658"></a><span class="lineno"> 3658</span>    }</div>
+<div class="line"><a id="l03654" name="l03654"></a><span class="lineno"> 3654</span>      <span class="keywordflow">if</span>( (v0-v1).magnitude()==0 || (v0-v2).magnitude()==0 || (v1-v2).magnitude()==0 ){</div>
+<div class="line"><a id="l03655" name="l03655"></a><span class="lineno"> 3655</span>        <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l03656" name="l03656"></a><span class="lineno"> 3656</span>      }</div>
+<div class="line"><a id="l03657" name="l03657"></a><span class="lineno"> 3657</span> </div>
+<div class="line"><a id="l03658" name="l03658"></a><span class="lineno"> 3658</span>      ID = <a class="code hl_function" href="group__primitives.html#ga2a78a464a4c7ef3375a0ced2f1005b77">addTriangle</a>( v0, v1, v2, color );</div>
 <div class="line"><a id="l03659" name="l03659"></a><span class="lineno"> 3659</span> </div>
-<div class="line"><a id="l03660" name="l03660"></a><span class="lineno"> 3660</span>  }</div>
+<div class="line"><a id="l03660" name="l03660"></a><span class="lineno"> 3660</span>      UUID.push_back(ID);</div>
 <div class="line"><a id="l03661" name="l03661"></a><span class="lineno"> 3661</span> </div>
-<div class="line"><a id="l03662" name="l03662"></a><span class="lineno"> 3662</span>  <span class="keywordflow">if</span>( !silent ) {</div>
-<div class="line"><a id="l03663" name="l03663"></a><span class="lineno"> 3663</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03664" name="l03664"></a><span class="lineno"> 3664</span>  }</div>
-<div class="line"><a id="l03665" name="l03665"></a><span class="lineno"> 3665</span> </div>
-<div class="line"><a id="l03666" name="l03666"></a><span class="lineno"> 3666</span>  <span class="keywordflow">return</span> UUID;</div>
+<div class="line"><a id="l03662" name="l03662"></a><span class="lineno"> 3662</span>    }</div>
+<div class="line"><a id="l03663" name="l03663"></a><span class="lineno"> 3663</span> </div>
+<div class="line"><a id="l03664" name="l03664"></a><span class="lineno"> 3664</span>    <span class="keywordflow">if</span>( inputPly.eof() ){</div>
+<div class="line"><a id="l03665" name="l03665"></a><span class="lineno"> 3665</span>      <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadPLY): Read past end of file while reading faces. Face count specified in header may be incorrect.&quot;</span>);</div>
+<div class="line"><a id="l03666" name="l03666"></a><span class="lineno"> 3666</span>    }</div>
 <div class="line"><a id="l03667" name="l03667"></a><span class="lineno"> 3667</span> </div>
-<div class="line"><a id="l03668" name="l03668"></a><span class="lineno"> 3668</span>}</div>
-</div>
+<div class="line"><a id="l03668" name="l03668"></a><span class="lineno"> 3668</span>  }</div>
 <div class="line"><a id="l03669" name="l03669"></a><span class="lineno"> 3669</span> </div>
-<div class="foldopen" id="foldopen03670" data-start="{" data-end="}">
-<div class="line"><a id="l03670" name="l03670"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#aa47b8b6f8cefb3c9d55a3cda10d851d7"> 3670</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="classhelios_1_1_context.html#aa47b8b6f8cefb3c9d55a3cda10d851d7">Context::writePLY</a>( <span class="keyword">const</span> <span class="keywordtype">char</span>* filename )<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l03671" name="l03671"></a><span class="lineno"> 3671</span> </div>
-<div class="line"><a id="l03672" name="l03672"></a><span class="lineno"> 3672</span>  std::ofstream PLYfile;</div>
-<div class="line"><a id="l03673" name="l03673"></a><span class="lineno"> 3673</span>  PLYfile.open(filename);</div>
-<div class="line"><a id="l03674" name="l03674"></a><span class="lineno"> 3674</span> </div>
-<div class="line"><a id="l03675" name="l03675"></a><span class="lineno"> 3675</span>  PLYfile &lt;&lt; <span class="stringliteral">&quot;ply&quot;</span> &lt;&lt; std::endl &lt;&lt; <span class="stringliteral">&quot;format ascii 1.0&quot;</span> &lt;&lt; std::endl &lt;&lt; <span class="stringliteral">&quot;comment HELIOS generated&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03676" name="l03676"></a><span class="lineno"> 3676</span> </div>
-<div class="line"><a id="l03677" name="l03677"></a><span class="lineno"> 3677</span>  std::vector&lt;int3&gt; faces;</div>
-<div class="line"><a id="l03678" name="l03678"></a><span class="lineno"> 3678</span>  std::vector&lt;vec3&gt; verts;</div>
-<div class="line"><a id="l03679" name="l03679"></a><span class="lineno"> 3679</span>  std::vector&lt;RGBcolor&gt; colors;</div>
-<div class="line"><a id="l03680" name="l03680"></a><span class="lineno"> 3680</span> </div>
-<div class="line"><a id="l03681" name="l03681"></a><span class="lineno"> 3681</span>  <span class="keywordtype">size_t</span> vertex_count = 0;</div>
+<div class="line"><a id="l03670" name="l03670"></a><span class="lineno"> 3670</span>  <span class="keywordflow">if</span>( !silent ) {</div>
+<div class="line"><a id="l03671" name="l03671"></a><span class="lineno"> 3671</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03672" name="l03672"></a><span class="lineno"> 3672</span>  }</div>
+<div class="line"><a id="l03673" name="l03673"></a><span class="lineno"> 3673</span> </div>
+<div class="line"><a id="l03674" name="l03674"></a><span class="lineno"> 3674</span>  <span class="keywordflow">return</span> UUID;</div>
+<div class="line"><a id="l03675" name="l03675"></a><span class="lineno"> 3675</span> </div>
+<div class="line"><a id="l03676" name="l03676"></a><span class="lineno"> 3676</span>}</div>
+</div>
+<div class="line"><a id="l03677" name="l03677"></a><span class="lineno"> 3677</span> </div>
+<div class="foldopen" id="foldopen03678" data-start="{" data-end="}">
+<div class="line"><a id="l03678" name="l03678"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#aa47b8b6f8cefb3c9d55a3cda10d851d7"> 3678</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="classhelios_1_1_context.html#aa47b8b6f8cefb3c9d55a3cda10d851d7">Context::writePLY</a>( <span class="keyword">const</span> <span class="keywordtype">char</span>* filename )<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l03679" name="l03679"></a><span class="lineno"> 3679</span> </div>
+<div class="line"><a id="l03680" name="l03680"></a><span class="lineno"> 3680</span>  std::ofstream PLYfile;</div>
+<div class="line"><a id="l03681" name="l03681"></a><span class="lineno"> 3681</span>  PLYfile.open(filename);</div>
 <div class="line"><a id="l03682" name="l03682"></a><span class="lineno"> 3682</span> </div>
-<div class="line"><a id="l03683" name="l03683"></a><span class="lineno"> 3683</span>  <span class="keywordflow">for</span>(<span class="keyword">auto</span> primitive : primitives){</div>
+<div class="line"><a id="l03683" name="l03683"></a><span class="lineno"> 3683</span>  PLYfile &lt;&lt; <span class="stringliteral">&quot;ply&quot;</span> &lt;&lt; std::endl &lt;&lt; <span class="stringliteral">&quot;format ascii 1.0&quot;</span> &lt;&lt; std::endl &lt;&lt; <span class="stringliteral">&quot;comment HELIOS generated&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l03684" name="l03684"></a><span class="lineno"> 3684</span> </div>
-<div class="line"><a id="l03685" name="l03685"></a><span class="lineno"> 3685</span>    uint p = primitive.first;</div>
-<div class="line"><a id="l03686" name="l03686"></a><span class="lineno"> 3686</span> </div>
-<div class="line"><a id="l03687" name="l03687"></a><span class="lineno"> 3687</span>    std::vector&lt;vec3&gt; vertices = getPrimitivePointer_private(p)-&gt;getVertices();</div>
-<div class="line"><a id="l03688" name="l03688"></a><span class="lineno"> 3688</span>    <a class="code hl_enumeration" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601">PrimitiveType</a> type = getPrimitivePointer_private(p)-&gt;getType();</div>
-<div class="line"><a id="l03689" name="l03689"></a><span class="lineno"> 3689</span>    <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> C = getPrimitivePointer_private(p)-&gt;getColor();</div>
-<div class="line"><a id="l03690" name="l03690"></a><span class="lineno"> 3690</span>    C.<a class="code hl_function" href="structhelios_1_1_r_g_bcolor.html#a5b7b7b5734588bcf49444997b091f8b6">scale</a>(255.f);</div>
-<div class="line"><a id="l03691" name="l03691"></a><span class="lineno"> 3691</span> </div>
-<div class="line"><a id="l03692" name="l03692"></a><span class="lineno"> 3692</span>    <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601aeed8005c1692d92beefcbafe8147207c">PRIMITIVE_TYPE_TRIANGLE</a> ){</div>
-<div class="line"><a id="l03693" name="l03693"></a><span class="lineno"> 3693</span> </div>
-<div class="line"><a id="l03694" name="l03694"></a><span class="lineno"> 3694</span>      faces.push_back( <a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)vertex_count, (<span class="keywordtype">int</span>)vertex_count+1, (<span class="keywordtype">int</span>)vertex_count+2 ) );</div>
-<div class="line"><a id="l03695" name="l03695"></a><span class="lineno"> 3695</span>      <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;3; i++ ){</div>
-<div class="line"><a id="l03696" name="l03696"></a><span class="lineno"> 3696</span>        verts.push_back( vertices.at(i) );</div>
-<div class="line"><a id="l03697" name="l03697"></a><span class="lineno"> 3697</span>        colors.push_back( C );</div>
-<div class="line"><a id="l03698" name="l03698"></a><span class="lineno"> 3698</span>        vertex_count ++;</div>
-<div class="line"><a id="l03699" name="l03699"></a><span class="lineno"> 3699</span>      }</div>
-<div class="line"><a id="l03700" name="l03700"></a><span class="lineno"> 3700</span> </div>
-<div class="line"><a id="l03701" name="l03701"></a><span class="lineno"> 3701</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a6fcd29f0c812849b3eb5bedec52cd744">PRIMITIVE_TYPE_PATCH</a> ){</div>
-<div class="line"><a id="l03702" name="l03702"></a><span class="lineno"> 3702</span> </div>
-<div class="line"><a id="l03703" name="l03703"></a><span class="lineno"> 3703</span>      faces.push_back( <a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)vertex_count, (<span class="keywordtype">int</span>)vertex_count+1, (<span class="keywordtype">int</span>)vertex_count+2 ) );</div>
-<div class="line"><a id="l03704" name="l03704"></a><span class="lineno"> 3704</span>      faces.push_back( <a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)vertex_count, (<span class="keywordtype">int</span>)vertex_count+2, (<span class="keywordtype">int</span>)vertex_count+3 ) );</div>
-<div class="line"><a id="l03705" name="l03705"></a><span class="lineno"> 3705</span>      <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;4; i++ ){</div>
-<div class="line"><a id="l03706" name="l03706"></a><span class="lineno"> 3706</span>        verts.push_back( vertices.at(i) );</div>
-<div class="line"><a id="l03707" name="l03707"></a><span class="lineno"> 3707</span>        colors.push_back( C );</div>
-<div class="line"><a id="l03708" name="l03708"></a><span class="lineno"> 3708</span>        vertex_count ++;</div>
-<div class="line"><a id="l03709" name="l03709"></a><span class="lineno"> 3709</span>      }</div>
+<div class="line"><a id="l03685" name="l03685"></a><span class="lineno"> 3685</span>  std::vector&lt;int3&gt; faces;</div>
+<div class="line"><a id="l03686" name="l03686"></a><span class="lineno"> 3686</span>  std::vector&lt;vec3&gt; verts;</div>
+<div class="line"><a id="l03687" name="l03687"></a><span class="lineno"> 3687</span>  std::vector&lt;RGBcolor&gt; colors;</div>
+<div class="line"><a id="l03688" name="l03688"></a><span class="lineno"> 3688</span> </div>
+<div class="line"><a id="l03689" name="l03689"></a><span class="lineno"> 3689</span>  <span class="keywordtype">size_t</span> vertex_count = 0;</div>
+<div class="line"><a id="l03690" name="l03690"></a><span class="lineno"> 3690</span> </div>
+<div class="line"><a id="l03691" name="l03691"></a><span class="lineno"> 3691</span>  <span class="keywordflow">for</span>(<span class="keyword">auto</span> primitive : primitives){</div>
+<div class="line"><a id="l03692" name="l03692"></a><span class="lineno"> 3692</span> </div>
+<div class="line"><a id="l03693" name="l03693"></a><span class="lineno"> 3693</span>    uint p = primitive.first;</div>
+<div class="line"><a id="l03694" name="l03694"></a><span class="lineno"> 3694</span> </div>
+<div class="line"><a id="l03695" name="l03695"></a><span class="lineno"> 3695</span>    std::vector&lt;vec3&gt; vertices = getPrimitivePointer_private(p)-&gt;getVertices();</div>
+<div class="line"><a id="l03696" name="l03696"></a><span class="lineno"> 3696</span>    <a class="code hl_enumeration" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601">PrimitiveType</a> type = getPrimitivePointer_private(p)-&gt;getType();</div>
+<div class="line"><a id="l03697" name="l03697"></a><span class="lineno"> 3697</span>    <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> C = getPrimitivePointer_private(p)-&gt;getColor();</div>
+<div class="line"><a id="l03698" name="l03698"></a><span class="lineno"> 3698</span>    C.<a class="code hl_function" href="structhelios_1_1_r_g_bcolor.html#a5b7b7b5734588bcf49444997b091f8b6">scale</a>(255.f);</div>
+<div class="line"><a id="l03699" name="l03699"></a><span class="lineno"> 3699</span> </div>
+<div class="line"><a id="l03700" name="l03700"></a><span class="lineno"> 3700</span>    <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601aeed8005c1692d92beefcbafe8147207c">PRIMITIVE_TYPE_TRIANGLE</a> ){</div>
+<div class="line"><a id="l03701" name="l03701"></a><span class="lineno"> 3701</span> </div>
+<div class="line"><a id="l03702" name="l03702"></a><span class="lineno"> 3702</span>      faces.push_back( <a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)vertex_count, (<span class="keywordtype">int</span>)vertex_count+1, (<span class="keywordtype">int</span>)vertex_count+2 ) );</div>
+<div class="line"><a id="l03703" name="l03703"></a><span class="lineno"> 3703</span>      <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;3; i++ ){</div>
+<div class="line"><a id="l03704" name="l03704"></a><span class="lineno"> 3704</span>        verts.push_back( vertices.at(i) );</div>
+<div class="line"><a id="l03705" name="l03705"></a><span class="lineno"> 3705</span>        colors.push_back( C );</div>
+<div class="line"><a id="l03706" name="l03706"></a><span class="lineno"> 3706</span>        vertex_count ++;</div>
+<div class="line"><a id="l03707" name="l03707"></a><span class="lineno"> 3707</span>      }</div>
+<div class="line"><a id="l03708" name="l03708"></a><span class="lineno"> 3708</span> </div>
+<div class="line"><a id="l03709" name="l03709"></a><span class="lineno"> 3709</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a6fcd29f0c812849b3eb5bedec52cd744">PRIMITIVE_TYPE_PATCH</a> ){</div>
 <div class="line"><a id="l03710" name="l03710"></a><span class="lineno"> 3710</span> </div>
-<div class="line"><a id="l03711" name="l03711"></a><span class="lineno"> 3711</span>    }</div>
-<div class="line"><a id="l03712" name="l03712"></a><span class="lineno"> 3712</span> </div>
-<div class="line"><a id="l03713" name="l03713"></a><span class="lineno"> 3713</span>  }</div>
-<div class="line"><a id="l03714" name="l03714"></a><span class="lineno"> 3714</span> </div>
-<div class="line"><a id="l03715" name="l03715"></a><span class="lineno"> 3715</span>  PLYfile &lt;&lt; <span class="stringliteral">&quot;element vertex &quot;</span> &lt;&lt; verts.size() &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03716" name="l03716"></a><span class="lineno"> 3716</span>  PLYfile &lt;&lt; <span class="stringliteral">&quot;property float x&quot;</span> &lt;&lt; std::endl &lt;&lt; <span class="stringliteral">&quot;property float y&quot;</span> &lt;&lt; std::endl &lt;&lt; <span class="stringliteral">&quot;property float z&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03717" name="l03717"></a><span class="lineno"> 3717</span>  PLYfile &lt;&lt; <span class="stringliteral">&quot;property uchar red&quot;</span> &lt;&lt; std::endl &lt;&lt; <span class="stringliteral">&quot;property uchar green&quot;</span> &lt;&lt; std::endl &lt;&lt; <span class="stringliteral">&quot;property uchar blue&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03718" name="l03718"></a><span class="lineno"> 3718</span>  PLYfile &lt;&lt; <span class="stringliteral">&quot;element face &quot;</span> &lt;&lt; faces.size() &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03719" name="l03719"></a><span class="lineno"> 3719</span>  PLYfile &lt;&lt; <span class="stringliteral">&quot;property list uchar int vertex_indices&quot;</span> &lt;&lt; std::endl &lt;&lt; <span class="stringliteral">&quot;end_header&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03711" name="l03711"></a><span class="lineno"> 3711</span>      faces.push_back( <a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)vertex_count, (<span class="keywordtype">int</span>)vertex_count+1, (<span class="keywordtype">int</span>)vertex_count+2 ) );</div>
+<div class="line"><a id="l03712" name="l03712"></a><span class="lineno"> 3712</span>      faces.push_back( <a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)vertex_count, (<span class="keywordtype">int</span>)vertex_count+2, (<span class="keywordtype">int</span>)vertex_count+3 ) );</div>
+<div class="line"><a id="l03713" name="l03713"></a><span class="lineno"> 3713</span>      <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;4; i++ ){</div>
+<div class="line"><a id="l03714" name="l03714"></a><span class="lineno"> 3714</span>        verts.push_back( vertices.at(i) );</div>
+<div class="line"><a id="l03715" name="l03715"></a><span class="lineno"> 3715</span>        colors.push_back( C );</div>
+<div class="line"><a id="l03716" name="l03716"></a><span class="lineno"> 3716</span>        vertex_count ++;</div>
+<div class="line"><a id="l03717" name="l03717"></a><span class="lineno"> 3717</span>      }</div>
+<div class="line"><a id="l03718" name="l03718"></a><span class="lineno"> 3718</span> </div>
+<div class="line"><a id="l03719" name="l03719"></a><span class="lineno"> 3719</span>    }</div>
 <div class="line"><a id="l03720" name="l03720"></a><span class="lineno"> 3720</span> </div>
-<div class="line"><a id="l03721" name="l03721"></a><span class="lineno"> 3721</span>  <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> v=0; v&lt;verts.size(); v++ ){</div>
-<div class="line"><a id="l03722" name="l03722"></a><span class="lineno"> 3722</span>    PLYfile &lt;&lt; verts.at(v).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; verts.at(v).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; verts.at(v).z &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; round(colors.at(v).r) &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; round(colors.at(v).g) &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; round(colors.at(v).b) &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03723" name="l03723"></a><span class="lineno"> 3723</span>  }</div>
-<div class="line"><a id="l03724" name="l03724"></a><span class="lineno"> 3724</span> </div>
-<div class="line"><a id="l03725" name="l03725"></a><span class="lineno"> 3725</span>  <span class="keywordflow">for</span>(<span class="keyword">auto</span> &amp; face : faces){</div>
-<div class="line"><a id="l03726" name="l03726"></a><span class="lineno"> 3726</span>    PLYfile &lt;&lt; <span class="stringliteral">&quot;3 &quot;</span> &lt;&lt; face.x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; face.y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; face.z &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03727" name="l03727"></a><span class="lineno"> 3727</span>  }</div>
+<div class="line"><a id="l03721" name="l03721"></a><span class="lineno"> 3721</span>  }</div>
+<div class="line"><a id="l03722" name="l03722"></a><span class="lineno"> 3722</span> </div>
+<div class="line"><a id="l03723" name="l03723"></a><span class="lineno"> 3723</span>  PLYfile &lt;&lt; <span class="stringliteral">&quot;element vertex &quot;</span> &lt;&lt; verts.size() &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03724" name="l03724"></a><span class="lineno"> 3724</span>  PLYfile &lt;&lt; <span class="stringliteral">&quot;property float x&quot;</span> &lt;&lt; std::endl &lt;&lt; <span class="stringliteral">&quot;property float y&quot;</span> &lt;&lt; std::endl &lt;&lt; <span class="stringliteral">&quot;property float z&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03725" name="l03725"></a><span class="lineno"> 3725</span>  PLYfile &lt;&lt; <span class="stringliteral">&quot;property uchar red&quot;</span> &lt;&lt; std::endl &lt;&lt; <span class="stringliteral">&quot;property uchar green&quot;</span> &lt;&lt; std::endl &lt;&lt; <span class="stringliteral">&quot;property uchar blue&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03726" name="l03726"></a><span class="lineno"> 3726</span>  PLYfile &lt;&lt; <span class="stringliteral">&quot;element face &quot;</span> &lt;&lt; faces.size() &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03727" name="l03727"></a><span class="lineno"> 3727</span>  PLYfile &lt;&lt; <span class="stringliteral">&quot;property list uchar int vertex_indices&quot;</span> &lt;&lt; std::endl &lt;&lt; <span class="stringliteral">&quot;end_header&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l03728" name="l03728"></a><span class="lineno"> 3728</span> </div>
-<div class="line"><a id="l03729" name="l03729"></a><span class="lineno"> 3729</span>  PLYfile.close();</div>
-<div class="line"><a id="l03730" name="l03730"></a><span class="lineno"> 3730</span> </div>
-<div class="line"><a id="l03731" name="l03731"></a><span class="lineno"> 3731</span> </div>
-<div class="line"><a id="l03732" name="l03732"></a><span class="lineno"> 3732</span>}</div>
-</div>
-<div class="line"><a id="l03733" name="l03733"></a><span class="lineno"> 3733</span> </div>
-<div class="foldopen" id="foldopen03734" data-start="{" data-end="}">
-<div class="line"><a id="l03734" name="l03734"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d"> 3734</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">Context::loadOBJ</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keywordtype">bool</span> silent ){</div>
-<div class="line"><a id="l03735" name="l03735"></a><span class="lineno"> 3735</span>    <span class="keywordflow">return</span> <a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">loadOBJ</a>(filename,<a class="code hl_variable" href="global_8h.html#a876dc18d1da8ace50c131f428f8883be">nullorigin</a>,0,<a class="code hl_variable" href="global_8h.html#adcd5a98ec7c45292736ec8e19ce9de51">nullrotation</a>,RGB::blue,<span class="stringliteral">&quot;ZUP&quot;</span>,silent);</div>
-<div class="line"><a id="l03736" name="l03736"></a><span class="lineno"> 3736</span>}</div>
-</div>
-<div class="line"><a id="l03737" name="l03737"></a><span class="lineno"> 3737</span> </div>
-<div class="foldopen" id="foldopen03738" data-start="{" data-end="}">
-<div class="line"><a id="l03738" name="l03738"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a90fd1a67dd60550207b1f29bfcd385ca"> 3738</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">Context::loadOBJ</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;origin, <span class="keywordtype">float</span> height, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_spherical_coord.html">SphericalCoord</a> &amp;rotation, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> &amp;default_color, <span class="keywordtype">bool</span> silent ){</div>
-<div class="line"><a id="l03739" name="l03739"></a><span class="lineno"> 3739</span>  <span class="keywordflow">return</span> <a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">loadOBJ</a>(filename,origin,<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,height),rotation,default_color,<span class="stringliteral">&quot;ZUP&quot;</span>,silent);</div>
+<div class="line"><a id="l03729" name="l03729"></a><span class="lineno"> 3729</span>  <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> v=0; v&lt;verts.size(); v++ ){</div>
+<div class="line"><a id="l03730" name="l03730"></a><span class="lineno"> 3730</span>    PLYfile &lt;&lt; verts.at(v).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; verts.at(v).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; verts.at(v).z &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; round(colors.at(v).r) &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; round(colors.at(v).g) &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; round(colors.at(v).b) &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03731" name="l03731"></a><span class="lineno"> 3731</span>  }</div>
+<div class="line"><a id="l03732" name="l03732"></a><span class="lineno"> 3732</span> </div>
+<div class="line"><a id="l03733" name="l03733"></a><span class="lineno"> 3733</span>  <span class="keywordflow">for</span>(<span class="keyword">auto</span> &amp; face : faces){</div>
+<div class="line"><a id="l03734" name="l03734"></a><span class="lineno"> 3734</span>    PLYfile &lt;&lt; <span class="stringliteral">&quot;3 &quot;</span> &lt;&lt; face.x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; face.y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; face.z &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03735" name="l03735"></a><span class="lineno"> 3735</span>  }</div>
+<div class="line"><a id="l03736" name="l03736"></a><span class="lineno"> 3736</span> </div>
+<div class="line"><a id="l03737" name="l03737"></a><span class="lineno"> 3737</span>  PLYfile.close();</div>
+<div class="line"><a id="l03738" name="l03738"></a><span class="lineno"> 3738</span> </div>
+<div class="line"><a id="l03739" name="l03739"></a><span class="lineno"> 3739</span> </div>
 <div class="line"><a id="l03740" name="l03740"></a><span class="lineno"> 3740</span>}</div>
 </div>
 <div class="line"><a id="l03741" name="l03741"></a><span class="lineno"> 3741</span> </div>
 <div class="foldopen" id="foldopen03742" data-start="{" data-end="}">
-<div class="line"><a id="l03742" name="l03742"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#ae3014d59a9e1668cb84725a30fd8ef68"> 3742</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">Context::loadOBJ</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;origin, <span class="keywordtype">float</span> height, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_spherical_coord.html">SphericalCoord</a> &amp;rotation, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> &amp;default_color, <span class="keyword">const</span> <span class="keywordtype">char</span>* upaxis, <span class="keywordtype">bool</span> silent ) {</div>
-<div class="line"><a id="l03743" name="l03743"></a><span class="lineno"> 3743</span>  <span class="keywordflow">return</span> <a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">loadOBJ</a>(filename,origin,<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,height),rotation,default_color,upaxis,silent);</div>
+<div class="line"><a id="l03742" name="l03742"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d"> 3742</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">Context::loadOBJ</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keywordtype">bool</span> silent ){</div>
+<div class="line"><a id="l03743" name="l03743"></a><span class="lineno"> 3743</span>    <span class="keywordflow">return</span> <a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">loadOBJ</a>(filename,<a class="code hl_variable" href="global_8h.html#a876dc18d1da8ace50c131f428f8883be">nullorigin</a>,0,<a class="code hl_variable" href="global_8h.html#adcd5a98ec7c45292736ec8e19ce9de51">nullrotation</a>,RGB::blue,<span class="stringliteral">&quot;ZUP&quot;</span>,silent);</div>
 <div class="line"><a id="l03744" name="l03744"></a><span class="lineno"> 3744</span>}</div>
 </div>
 <div class="line"><a id="l03745" name="l03745"></a><span class="lineno"> 3745</span> </div>
 <div class="foldopen" id="foldopen03746" data-start="{" data-end="}">
-<div class="line"><a id="l03746" name="l03746"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a7455810db826dfed35a36eb452e817a9"> 3746</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">Context::loadOBJ</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;origin, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;scale, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_spherical_coord.html">SphericalCoord</a> &amp;rotation, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> &amp;default_color, <span class="keyword">const</span> <span class="keywordtype">char</span>* upaxis, <span class="keywordtype">bool</span> silent ){</div>
-<div class="line"><a id="l03747" name="l03747"></a><span class="lineno"> 3747</span> </div>
-<div class="line"><a id="l03748" name="l03748"></a><span class="lineno"> 3748</span>  <span class="keywordflow">if</span>( !silent ) {</div>
-<div class="line"><a id="l03749" name="l03749"></a><span class="lineno"> 3749</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;Reading OBJ file &quot;</span> &lt;&lt; filename &lt;&lt; <span class="stringliteral">&quot;...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03750" name="l03750"></a><span class="lineno"> 3750</span>  }</div>
-<div class="line"><a id="l03751" name="l03751"></a><span class="lineno"> 3751</span> </div>
-<div class="line"><a id="l03752" name="l03752"></a><span class="lineno"> 3752</span>  std::string fn = filename;</div>
-<div class="line"><a id="l03753" name="l03753"></a><span class="lineno"> 3753</span>  std::string ext = <a class="code hl_function" href="global_8h.html#a58e660bb08e1ce13466825ae666467ef">getFileExtension</a>(filename);</div>
-<div class="line"><a id="l03754" name="l03754"></a><span class="lineno"> 3754</span>  <span class="keywordflow">if</span>( ext != <span class="stringliteral">&quot;.obj&quot;</span> &amp;&amp; ext != <span class="stringliteral">&quot;.OBJ&quot;</span> ) {</div>
-<div class="line"><a id="l03755" name="l03755"></a><span class="lineno"> 3755</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadOBJ): File &quot;</span> + fn + <span class="stringliteral">&quot; is not OBJ format.&quot;</span>);</div>
-<div class="line"><a id="l03756" name="l03756"></a><span class="lineno"> 3756</span>  }</div>
-<div class="line"><a id="l03757" name="l03757"></a><span class="lineno"> 3757</span> </div>
-<div class="line"><a id="l03758" name="l03758"></a><span class="lineno"> 3758</span>  <span class="keywordflow">if</span>( strcmp(upaxis,<span class="stringliteral">&quot;XUP&quot;</span>) != 0 &amp;&amp; strcmp(upaxis,<span class="stringliteral">&quot;YUP&quot;</span>) != 0 &amp;&amp; strcmp(upaxis,<span class="stringliteral">&quot;ZUP&quot;</span>) != 0 ){</div>
-<div class="line"><a id="l03759" name="l03759"></a><span class="lineno"> 3759</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadOBJ): Up axis of &quot;</span> + std::string(upaxis) + <span class="stringliteral">&quot; is not valid.  Should be one of &#39;XUP&#39;, &#39;YUP&#39;, or &#39;ZUP&#39;.&quot;</span>);</div>
-<div class="line"><a id="l03760" name="l03760"></a><span class="lineno"> 3760</span>  }</div>
-<div class="line"><a id="l03761" name="l03761"></a><span class="lineno"> 3761</span> </div>
-<div class="line"><a id="l03762" name="l03762"></a><span class="lineno"> 3762</span>  std::string line, prop;</div>
-<div class="line"><a id="l03763" name="l03763"></a><span class="lineno"> 3763</span> </div>
-<div class="line"><a id="l03764" name="l03764"></a><span class="lineno"> 3764</span>  std::vector&lt;vec3&gt; vertices;</div>
-<div class="line"><a id="l03765" name="l03765"></a><span class="lineno"> 3765</span>  std::vector&lt;std::string&gt; objects;</div>
-<div class="line"><a id="l03766" name="l03766"></a><span class="lineno"> 3766</span>  std::vector&lt;vec2&gt; texture_uv;</div>
-<div class="line"><a id="l03767" name="l03767"></a><span class="lineno"> 3767</span>  std::map&lt;std::string,std::vector&lt;std::vector&lt;int&gt; &gt; &gt; face_inds, texture_inds;</div>
-<div class="line"><a id="l03768" name="l03768"></a><span class="lineno"> 3768</span> </div>
-<div class="line"><a id="l03769" name="l03769"></a><span class="lineno"> 3769</span>  std::map&lt;std::string,OBJmaterial&gt; materials;</div>
-<div class="line"><a id="l03770" name="l03770"></a><span class="lineno"> 3770</span> </div>
-<div class="line"><a id="l03771" name="l03771"></a><span class="lineno"> 3771</span>  std::vector&lt;uint&gt; UUID;</div>
-<div class="line"><a id="l03772" name="l03772"></a><span class="lineno"> 3772</span> </div>
-<div class="line"><a id="l03773" name="l03773"></a><span class="lineno"> 3773</span>  std::ifstream inputOBJ, inputMTL;</div>
-<div class="line"><a id="l03774" name="l03774"></a><span class="lineno"> 3774</span>  inputOBJ.open(filename);</div>
-<div class="line"><a id="l03775" name="l03775"></a><span class="lineno"> 3775</span> </div>
-<div class="line"><a id="l03776" name="l03776"></a><span class="lineno"> 3776</span>  <span class="keywordflow">if</span> (!inputOBJ.is_open()) {</div>
-<div class="line"><a id="l03777" name="l03777"></a><span class="lineno"> 3777</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadOBJ): Couldn&#39;t open &quot;</span> + std::string(filename) );</div>
-<div class="line"><a id="l03778" name="l03778"></a><span class="lineno"> 3778</span>  }</div>
-<div class="line"><a id="l03779" name="l03779"></a><span class="lineno"> 3779</span> </div>
-<div class="line"><a id="l03780" name="l03780"></a><span class="lineno"> 3780</span>  <span class="comment">//determine the base file path for &#39;filename&#39;</span></div>
-<div class="line"><a id="l03781" name="l03781"></a><span class="lineno"> 3781</span>  std::string fstring = filename;</div>
-<div class="line"><a id="l03782" name="l03782"></a><span class="lineno"> 3782</span>  std::string filebase = <a class="code hl_function" href="global_8h.html#ad76f15d03b511d1bf5123d64d804d6e8">getFilePath</a>(fstring);</div>
+<div class="line"><a id="l03746" name="l03746"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a90fd1a67dd60550207b1f29bfcd385ca"> 3746</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">Context::loadOBJ</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;origin, <span class="keywordtype">float</span> height, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_spherical_coord.html">SphericalCoord</a> &amp;rotation, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> &amp;default_color, <span class="keywordtype">bool</span> silent ){</div>
+<div class="line"><a id="l03747" name="l03747"></a><span class="lineno"> 3747</span>  <span class="keywordflow">return</span> <a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">loadOBJ</a>(filename,origin,<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,height),rotation,default_color,<span class="stringliteral">&quot;ZUP&quot;</span>,silent);</div>
+<div class="line"><a id="l03748" name="l03748"></a><span class="lineno"> 3748</span>}</div>
+</div>
+<div class="line"><a id="l03749" name="l03749"></a><span class="lineno"> 3749</span> </div>
+<div class="foldopen" id="foldopen03750" data-start="{" data-end="}">
+<div class="line"><a id="l03750" name="l03750"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#ae3014d59a9e1668cb84725a30fd8ef68"> 3750</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">Context::loadOBJ</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;origin, <span class="keywordtype">float</span> height, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_spherical_coord.html">SphericalCoord</a> &amp;rotation, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> &amp;default_color, <span class="keyword">const</span> <span class="keywordtype">char</span>* upaxis, <span class="keywordtype">bool</span> silent ) {</div>
+<div class="line"><a id="l03751" name="l03751"></a><span class="lineno"> 3751</span>  <span class="keywordflow">return</span> <a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">loadOBJ</a>(filename,origin,<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,height),rotation,default_color,upaxis,silent);</div>
+<div class="line"><a id="l03752" name="l03752"></a><span class="lineno"> 3752</span>}</div>
+</div>
+<div class="line"><a id="l03753" name="l03753"></a><span class="lineno"> 3753</span> </div>
+<div class="foldopen" id="foldopen03754" data-start="{" data-end="}">
+<div class="line"><a id="l03754" name="l03754"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a7455810db826dfed35a36eb452e817a9"> 3754</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">Context::loadOBJ</a>(<span class="keyword">const</span> <span class="keywordtype">char</span>* filename, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;origin, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;scale, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_spherical_coord.html">SphericalCoord</a> &amp;rotation, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> &amp;default_color, <span class="keyword">const</span> <span class="keywordtype">char</span>* upaxis, <span class="keywordtype">bool</span> silent ){</div>
+<div class="line"><a id="l03755" name="l03755"></a><span class="lineno"> 3755</span> </div>
+<div class="line"><a id="l03756" name="l03756"></a><span class="lineno"> 3756</span>  <span class="keywordflow">if</span>( !silent ) {</div>
+<div class="line"><a id="l03757" name="l03757"></a><span class="lineno"> 3757</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;Reading OBJ file &quot;</span> &lt;&lt; filename &lt;&lt; <span class="stringliteral">&quot;...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03758" name="l03758"></a><span class="lineno"> 3758</span>  }</div>
+<div class="line"><a id="l03759" name="l03759"></a><span class="lineno"> 3759</span> </div>
+<div class="line"><a id="l03760" name="l03760"></a><span class="lineno"> 3760</span>  std::string fn = filename;</div>
+<div class="line"><a id="l03761" name="l03761"></a><span class="lineno"> 3761</span>  std::string ext = <a class="code hl_function" href="global_8h.html#a58e660bb08e1ce13466825ae666467ef">getFileExtension</a>(filename);</div>
+<div class="line"><a id="l03762" name="l03762"></a><span class="lineno"> 3762</span>  <span class="keywordflow">if</span>( ext != <span class="stringliteral">&quot;.obj&quot;</span> &amp;&amp; ext != <span class="stringliteral">&quot;.OBJ&quot;</span> ) {</div>
+<div class="line"><a id="l03763" name="l03763"></a><span class="lineno"> 3763</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadOBJ): File &quot;</span> + fn + <span class="stringliteral">&quot; is not OBJ format.&quot;</span>);</div>
+<div class="line"><a id="l03764" name="l03764"></a><span class="lineno"> 3764</span>  }</div>
+<div class="line"><a id="l03765" name="l03765"></a><span class="lineno"> 3765</span> </div>
+<div class="line"><a id="l03766" name="l03766"></a><span class="lineno"> 3766</span>  <span class="keywordflow">if</span>( strcmp(upaxis,<span class="stringliteral">&quot;XUP&quot;</span>) != 0 &amp;&amp; strcmp(upaxis,<span class="stringliteral">&quot;YUP&quot;</span>) != 0 &amp;&amp; strcmp(upaxis,<span class="stringliteral">&quot;ZUP&quot;</span>) != 0 ){</div>
+<div class="line"><a id="l03767" name="l03767"></a><span class="lineno"> 3767</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadOBJ): Up axis of &quot;</span> + std::string(upaxis) + <span class="stringliteral">&quot; is not valid.  Should be one of &#39;XUP&#39;, &#39;YUP&#39;, or &#39;ZUP&#39;.&quot;</span>);</div>
+<div class="line"><a id="l03768" name="l03768"></a><span class="lineno"> 3768</span>  }</div>
+<div class="line"><a id="l03769" name="l03769"></a><span class="lineno"> 3769</span> </div>
+<div class="line"><a id="l03770" name="l03770"></a><span class="lineno"> 3770</span>  std::string line, prop;</div>
+<div class="line"><a id="l03771" name="l03771"></a><span class="lineno"> 3771</span> </div>
+<div class="line"><a id="l03772" name="l03772"></a><span class="lineno"> 3772</span>  std::vector&lt;vec3&gt; vertices;</div>
+<div class="line"><a id="l03773" name="l03773"></a><span class="lineno"> 3773</span>  std::vector&lt;std::string&gt; objects;</div>
+<div class="line"><a id="l03774" name="l03774"></a><span class="lineno"> 3774</span>  std::vector&lt;vec2&gt; texture_uv;</div>
+<div class="line"><a id="l03775" name="l03775"></a><span class="lineno"> 3775</span>  std::map&lt;std::string,std::vector&lt;std::vector&lt;int&gt; &gt; &gt; face_inds, texture_inds;</div>
+<div class="line"><a id="l03776" name="l03776"></a><span class="lineno"> 3776</span> </div>
+<div class="line"><a id="l03777" name="l03777"></a><span class="lineno"> 3777</span>  std::map&lt;std::string,OBJmaterial&gt; materials;</div>
+<div class="line"><a id="l03778" name="l03778"></a><span class="lineno"> 3778</span> </div>
+<div class="line"><a id="l03779" name="l03779"></a><span class="lineno"> 3779</span>  std::vector&lt;uint&gt; UUID;</div>
+<div class="line"><a id="l03780" name="l03780"></a><span class="lineno"> 3780</span> </div>
+<div class="line"><a id="l03781" name="l03781"></a><span class="lineno"> 3781</span>  std::ifstream inputOBJ, inputMTL;</div>
+<div class="line"><a id="l03782" name="l03782"></a><span class="lineno"> 3782</span>  inputOBJ.open(filename);</div>
 <div class="line"><a id="l03783" name="l03783"></a><span class="lineno"> 3783</span> </div>
-<div class="line"><a id="l03784" name="l03784"></a><span class="lineno"> 3784</span>  <span class="comment">//determine bounding box</span></div>
-<div class="line"><a id="l03785" name="l03785"></a><span class="lineno"> 3785</span>  <span class="keywordtype">float</span> boxmin = 100000;</div>
-<div class="line"><a id="l03786" name="l03786"></a><span class="lineno"> 3786</span>  <span class="keywordtype">float</span> boxmax = -100000;</div>
+<div class="line"><a id="l03784" name="l03784"></a><span class="lineno"> 3784</span>  <span class="keywordflow">if</span> (!inputOBJ.is_open()) {</div>
+<div class="line"><a id="l03785" name="l03785"></a><span class="lineno"> 3785</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadOBJ): Couldn&#39;t open &quot;</span> + std::string(filename) );</div>
+<div class="line"><a id="l03786" name="l03786"></a><span class="lineno"> 3786</span>  }</div>
 <div class="line"><a id="l03787" name="l03787"></a><span class="lineno"> 3787</span> </div>
-<div class="line"><a id="l03788" name="l03788"></a><span class="lineno"> 3788</span>  std::string current_material = <span class="stringliteral">&quot;none&quot;</span>;</div>
-<div class="line"><a id="l03789" name="l03789"></a><span class="lineno"> 3789</span>  std::string current_object = <span class="stringliteral">&quot;none&quot;</span>;</div>
-<div class="line"><a id="l03790" name="l03790"></a><span class="lineno"> 3790</span> </div>
-<div class="line"><a id="l03791" name="l03791"></a><span class="lineno"> 3791</span>  <span class="keywordtype">size_t</span> lineno = 0;</div>
-<div class="line"><a id="l03792" name="l03792"></a><span class="lineno"> 3792</span>  <span class="keywordflow">while</span>( inputOBJ.good() ){</div>
-<div class="line"><a id="l03793" name="l03793"></a><span class="lineno"> 3793</span> </div>
-<div class="line"><a id="l03794" name="l03794"></a><span class="lineno"> 3794</span>    lineno++;</div>
+<div class="line"><a id="l03788" name="l03788"></a><span class="lineno"> 3788</span>  <span class="comment">//determine the base file path for &#39;filename&#39;</span></div>
+<div class="line"><a id="l03789" name="l03789"></a><span class="lineno"> 3789</span>  std::string fstring = filename;</div>
+<div class="line"><a id="l03790" name="l03790"></a><span class="lineno"> 3790</span>  std::string filebase = <a class="code hl_function" href="global_8h.html#ad76f15d03b511d1bf5123d64d804d6e8">getFilePath</a>(fstring);</div>
+<div class="line"><a id="l03791" name="l03791"></a><span class="lineno"> 3791</span> </div>
+<div class="line"><a id="l03792" name="l03792"></a><span class="lineno"> 3792</span>  <span class="comment">//determine bounding box</span></div>
+<div class="line"><a id="l03793" name="l03793"></a><span class="lineno"> 3793</span>  <span class="keywordtype">float</span> boxmin = 100000;</div>
+<div class="line"><a id="l03794" name="l03794"></a><span class="lineno"> 3794</span>  <span class="keywordtype">float</span> boxmax = -100000;</div>
 <div class="line"><a id="l03795" name="l03795"></a><span class="lineno"> 3795</span> </div>
-<div class="line"><a id="l03796" name="l03796"></a><span class="lineno"> 3796</span>    inputOBJ&gt;&gt;line;</div>
-<div class="line"><a id="l03797" name="l03797"></a><span class="lineno"> 3797</span> </div>
-<div class="line"><a id="l03798" name="l03798"></a><span class="lineno"> 3798</span>    <span class="comment">// ------- COMMENTS --------- //</span></div>
-<div class="line"><a id="l03799" name="l03799"></a><span class="lineno"> 3799</span>    <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;#&quot;</span> ){</div>
-<div class="line"><a id="l03800" name="l03800"></a><span class="lineno"> 3800</span>      getline(inputOBJ, line);</div>
+<div class="line"><a id="l03796" name="l03796"></a><span class="lineno"> 3796</span>  std::string current_material = <span class="stringliteral">&quot;none&quot;</span>;</div>
+<div class="line"><a id="l03797" name="l03797"></a><span class="lineno"> 3797</span>  std::string current_object = <span class="stringliteral">&quot;none&quot;</span>;</div>
+<div class="line"><a id="l03798" name="l03798"></a><span class="lineno"> 3798</span> </div>
+<div class="line"><a id="l03799" name="l03799"></a><span class="lineno"> 3799</span>  <span class="keywordtype">size_t</span> lineno = 0;</div>
+<div class="line"><a id="l03800" name="l03800"></a><span class="lineno"> 3800</span>  <span class="keywordflow">while</span>( inputOBJ.good() ){</div>
 <div class="line"><a id="l03801" name="l03801"></a><span class="lineno"> 3801</span> </div>
-<div class="line"><a id="l03802" name="l03802"></a><span class="lineno"> 3802</span>      <span class="comment">// ------- MATERIAL LIBRARY ------- //</span></div>
-<div class="line"><a id="l03803" name="l03803"></a><span class="lineno"> 3803</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;mtllib&quot;</span> ){</div>
-<div class="line"><a id="l03804" name="l03804"></a><span class="lineno"> 3804</span>      getline(inputOBJ, line);</div>
-<div class="line"><a id="l03805" name="l03805"></a><span class="lineno"> 3805</span>      std::string material_file = <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line);</div>
-<div class="line"><a id="l03806" name="l03806"></a><span class="lineno"> 3806</span>      materials = loadMTL( filebase, material_file );</div>
-<div class="line"><a id="l03807" name="l03807"></a><span class="lineno"> 3807</span> </div>
-<div class="line"><a id="l03808" name="l03808"></a><span class="lineno"> 3808</span>      <span class="comment">// ------- OBJECT ------- //</span></div>
-<div class="line"><a id="l03809" name="l03809"></a><span class="lineno"> 3809</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;o&quot;</span> ){</div>
-<div class="line"><a id="l03810" name="l03810"></a><span class="lineno"> 3810</span>      getline(inputOBJ, line);</div>
-<div class="line"><a id="l03811" name="l03811"></a><span class="lineno"> 3811</span>      current_object = <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line);</div>
-<div class="line"><a id="l03812" name="l03812"></a><span class="lineno"> 3812</span> </div>
-<div class="line"><a id="l03813" name="l03813"></a><span class="lineno"> 3813</span>      <span class="comment">// ------- VERTICES --------- //</span></div>
-<div class="line"><a id="l03814" name="l03814"></a><span class="lineno"> 3814</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;v&quot;</span> ){</div>
-<div class="line"><a id="l03815" name="l03815"></a><span class="lineno"> 3815</span>      getline(inputOBJ, line);</div>
-<div class="line"><a id="l03816" name="l03816"></a><span class="lineno"> 3816</span>      <span class="comment">//parse vertices into points</span></div>
-<div class="line"><a id="l03817" name="l03817"></a><span class="lineno"> 3817</span>      <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> verts(<a class="code hl_function" href="group__functions.html#ga65954cbb0f79c3fd5032f2cc27ad3b4f">string2vec3</a>(line.c_str()));</div>
-<div class="line"><a id="l03818" name="l03818"></a><span class="lineno"> 3818</span>      vertices.emplace_back(verts);</div>
-<div class="line"><a id="l03819" name="l03819"></a><span class="lineno"> 3819</span>      objects.emplace_back(current_object);</div>
+<div class="line"><a id="l03802" name="l03802"></a><span class="lineno"> 3802</span>    lineno++;</div>
+<div class="line"><a id="l03803" name="l03803"></a><span class="lineno"> 3803</span> </div>
+<div class="line"><a id="l03804" name="l03804"></a><span class="lineno"> 3804</span>    inputOBJ&gt;&gt;line;</div>
+<div class="line"><a id="l03805" name="l03805"></a><span class="lineno"> 3805</span> </div>
+<div class="line"><a id="l03806" name="l03806"></a><span class="lineno"> 3806</span>    <span class="comment">// ------- COMMENTS --------- //</span></div>
+<div class="line"><a id="l03807" name="l03807"></a><span class="lineno"> 3807</span>    <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;#&quot;</span> ){</div>
+<div class="line"><a id="l03808" name="l03808"></a><span class="lineno"> 3808</span>      getline(inputOBJ, line);</div>
+<div class="line"><a id="l03809" name="l03809"></a><span class="lineno"> 3809</span> </div>
+<div class="line"><a id="l03810" name="l03810"></a><span class="lineno"> 3810</span>      <span class="comment">// ------- MATERIAL LIBRARY ------- //</span></div>
+<div class="line"><a id="l03811" name="l03811"></a><span class="lineno"> 3811</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;mtllib&quot;</span> ){</div>
+<div class="line"><a id="l03812" name="l03812"></a><span class="lineno"> 3812</span>      getline(inputOBJ, line);</div>
+<div class="line"><a id="l03813" name="l03813"></a><span class="lineno"> 3813</span>      std::string material_file = <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line);</div>
+<div class="line"><a id="l03814" name="l03814"></a><span class="lineno"> 3814</span>      materials = loadMTL( filebase, material_file );</div>
+<div class="line"><a id="l03815" name="l03815"></a><span class="lineno"> 3815</span> </div>
+<div class="line"><a id="l03816" name="l03816"></a><span class="lineno"> 3816</span>      <span class="comment">// ------- OBJECT ------- //</span></div>
+<div class="line"><a id="l03817" name="l03817"></a><span class="lineno"> 3817</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;o&quot;</span> ){</div>
+<div class="line"><a id="l03818" name="l03818"></a><span class="lineno"> 3818</span>      getline(inputOBJ, line);</div>
+<div class="line"><a id="l03819" name="l03819"></a><span class="lineno"> 3819</span>      current_object = <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line);</div>
 <div class="line"><a id="l03820" name="l03820"></a><span class="lineno"> 3820</span> </div>
-<div class="line"><a id="l03821" name="l03821"></a><span class="lineno"> 3821</span>      <span class="keywordflow">if</span>(verts.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> &lt; boxmin ){</div>
-<div class="line"><a id="l03822" name="l03822"></a><span class="lineno"> 3822</span>        boxmin = verts.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>;</div>
-<div class="line"><a id="l03823" name="l03823"></a><span class="lineno"> 3823</span>      }</div>
-<div class="line"><a id="l03824" name="l03824"></a><span class="lineno"> 3824</span>      <span class="keywordflow">if</span>(verts.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> &gt; boxmax ){</div>
-<div class="line"><a id="l03825" name="l03825"></a><span class="lineno"> 3825</span>        boxmax = verts.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>;</div>
-<div class="line"><a id="l03826" name="l03826"></a><span class="lineno"> 3826</span>      }</div>
-<div class="line"><a id="l03827" name="l03827"></a><span class="lineno"> 3827</span> </div>
-<div class="line"><a id="l03828" name="l03828"></a><span class="lineno"> 3828</span>      <span class="comment">// ------- TEXTURE COORDINATES --------- //</span></div>
-<div class="line"><a id="l03829" name="l03829"></a><span class="lineno"> 3829</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;vt&quot;</span> ){</div>
-<div class="line"><a id="l03830" name="l03830"></a><span class="lineno"> 3830</span>      getline(inputOBJ, line);</div>
-<div class="line"><a id="l03831" name="l03831"></a><span class="lineno"> 3831</span>      line = <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line);</div>
-<div class="line"><a id="l03832" name="l03832"></a><span class="lineno"> 3832</span>      <span class="comment">//parse coordinates into uv</span></div>
-<div class="line"><a id="l03833" name="l03833"></a><span class="lineno"> 3833</span>      <a class="code hl_struct" href="structhelios_1_1vec2.html">vec2</a> uv(<a class="code hl_function" href="group__functions.html#ga18616cd1df8b05b03eb6c2be0de54e3b">string2vec2</a>(line.c_str()));</div>
-<div class="line"><a id="l03834" name="l03834"></a><span class="lineno"> 3834</span>      texture_uv.emplace_back(uv);</div>
+<div class="line"><a id="l03821" name="l03821"></a><span class="lineno"> 3821</span>      <span class="comment">// ------- VERTICES --------- //</span></div>
+<div class="line"><a id="l03822" name="l03822"></a><span class="lineno"> 3822</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;v&quot;</span> ){</div>
+<div class="line"><a id="l03823" name="l03823"></a><span class="lineno"> 3823</span>      getline(inputOBJ, line);</div>
+<div class="line"><a id="l03824" name="l03824"></a><span class="lineno"> 3824</span>      <span class="comment">//parse vertices into points</span></div>
+<div class="line"><a id="l03825" name="l03825"></a><span class="lineno"> 3825</span>      <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> verts(<a class="code hl_function" href="group__functions.html#ga65954cbb0f79c3fd5032f2cc27ad3b4f">string2vec3</a>(line.c_str()));</div>
+<div class="line"><a id="l03826" name="l03826"></a><span class="lineno"> 3826</span>      vertices.emplace_back(verts);</div>
+<div class="line"><a id="l03827" name="l03827"></a><span class="lineno"> 3827</span>      objects.emplace_back(current_object);</div>
+<div class="line"><a id="l03828" name="l03828"></a><span class="lineno"> 3828</span> </div>
+<div class="line"><a id="l03829" name="l03829"></a><span class="lineno"> 3829</span>      <span class="keywordflow">if</span>(verts.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> &lt; boxmin ){</div>
+<div class="line"><a id="l03830" name="l03830"></a><span class="lineno"> 3830</span>        boxmin = verts.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>;</div>
+<div class="line"><a id="l03831" name="l03831"></a><span class="lineno"> 3831</span>      }</div>
+<div class="line"><a id="l03832" name="l03832"></a><span class="lineno"> 3832</span>      <span class="keywordflow">if</span>(verts.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> &gt; boxmax ){</div>
+<div class="line"><a id="l03833" name="l03833"></a><span class="lineno"> 3833</span>        boxmax = verts.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>;</div>
+<div class="line"><a id="l03834" name="l03834"></a><span class="lineno"> 3834</span>      }</div>
 <div class="line"><a id="l03835" name="l03835"></a><span class="lineno"> 3835</span> </div>
-<div class="line"><a id="l03836" name="l03836"></a><span class="lineno"> 3836</span>      <span class="comment">// ------- MATERIALS --------- //</span></div>
-<div class="line"><a id="l03837" name="l03837"></a><span class="lineno"> 3837</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;usemtl&quot;</span> ){</div>
+<div class="line"><a id="l03836" name="l03836"></a><span class="lineno"> 3836</span>      <span class="comment">// ------- TEXTURE COORDINATES --------- //</span></div>
+<div class="line"><a id="l03837" name="l03837"></a><span class="lineno"> 3837</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;vt&quot;</span> ){</div>
 <div class="line"><a id="l03838" name="l03838"></a><span class="lineno"> 3838</span>      getline(inputOBJ, line);</div>
-<div class="line"><a id="l03839" name="l03839"></a><span class="lineno"> 3839</span>      current_material = <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line);</div>
-<div class="line"><a id="l03840" name="l03840"></a><span class="lineno"> 3840</span> </div>
-<div class="line"><a id="l03841" name="l03841"></a><span class="lineno"> 3841</span>      <span class="comment">// ------- FACES --------- //</span></div>
-<div class="line"><a id="l03842" name="l03842"></a><span class="lineno"> 3842</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;f&quot;</span> ){</div>
-<div class="line"><a id="l03843" name="l03843"></a><span class="lineno"> 3843</span>      getline(inputOBJ, line);</div>
-<div class="line"><a id="l03844" name="l03844"></a><span class="lineno"> 3844</span>      <span class="comment">//parse face vertices</span></div>
-<div class="line"><a id="l03845" name="l03845"></a><span class="lineno"> 3845</span>      std::istringstream stream(line);</div>
-<div class="line"><a id="l03846" name="l03846"></a><span class="lineno"> 3846</span>      std::string tmp, digitf, digitu;</div>
-<div class="line"><a id="l03847" name="l03847"></a><span class="lineno"> 3847</span>      std::vector&lt;int&gt; f, u;</div>
-<div class="line"><a id="l03848" name="l03848"></a><span class="lineno"> 3848</span>      <span class="keywordflow">while</span>( stream.good() ){</div>
-<div class="line"><a id="l03849" name="l03849"></a><span class="lineno"> 3849</span> </div>
-<div class="line"><a id="l03850" name="l03850"></a><span class="lineno"> 3850</span>        stream &gt;&gt; tmp;</div>
-<div class="line"><a id="l03851" name="l03851"></a><span class="lineno"> 3851</span> </div>
-<div class="line"><a id="l03852" name="l03852"></a><span class="lineno"> 3852</span>        digitf=<span class="stringliteral">&quot;&quot;</span>;</div>
-<div class="line"><a id="l03853" name="l03853"></a><span class="lineno"> 3853</span>        <span class="keywordtype">int</span> ic = 0;</div>
-<div class="line"><a id="l03854" name="l03854"></a><span class="lineno"> 3854</span>        <span class="keywordflow">for</span>(<span class="keywordtype">char</span> i : tmp){</div>
-<div class="line"><a id="l03855" name="l03855"></a><span class="lineno"> 3855</span>          <span class="keywordflow">if</span>( isdigit(i) ){</div>
-<div class="line"><a id="l03856" name="l03856"></a><span class="lineno"> 3856</span>            digitf.push_back( i );</div>
-<div class="line"><a id="l03857" name="l03857"></a><span class="lineno"> 3857</span>            ic++;</div>
-<div class="line"><a id="l03858" name="l03858"></a><span class="lineno"> 3858</span>          }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03859" name="l03859"></a><span class="lineno"> 3859</span>            <span class="keywordflow">break</span>;</div>
-<div class="line"><a id="l03860" name="l03860"></a><span class="lineno"> 3860</span>          }</div>
-<div class="line"><a id="l03861" name="l03861"></a><span class="lineno"> 3861</span>        }</div>
-<div class="line"><a id="l03862" name="l03862"></a><span class="lineno"> 3862</span> </div>
-<div class="line"><a id="l03863" name="l03863"></a><span class="lineno"> 3863</span>        digitu=<span class="stringliteral">&quot;&quot;</span>;</div>
-<div class="line"><a id="l03864" name="l03864"></a><span class="lineno"> 3864</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=ic+1; i&lt;tmp.size(); i++ ){</div>
-<div class="line"><a id="l03865" name="l03865"></a><span class="lineno"> 3865</span>          <span class="keywordflow">if</span>( isdigit(tmp[i]) ){</div>
-<div class="line"><a id="l03866" name="l03866"></a><span class="lineno"> 3866</span>            digitu.push_back( tmp[i] );</div>
-<div class="line"><a id="l03867" name="l03867"></a><span class="lineno"> 3867</span>          }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03868" name="l03868"></a><span class="lineno"> 3868</span>            <span class="keywordflow">break</span>;</div>
-<div class="line"><a id="l03869" name="l03869"></a><span class="lineno"> 3869</span>          }</div>
-<div class="line"><a id="l03870" name="l03870"></a><span class="lineno"> 3870</span>        }</div>
-<div class="line"><a id="l03871" name="l03871"></a><span class="lineno"> 3871</span> </div>
-<div class="line"><a id="l03872" name="l03872"></a><span class="lineno"> 3872</span>        <span class="keywordflow">if</span>( !digitf.empty() ) {</div>
-<div class="line"><a id="l03873" name="l03873"></a><span class="lineno"> 3873</span>          <span class="keywordtype">int</span> face;</div>
-<div class="line"><a id="l03874" name="l03874"></a><span class="lineno"> 3874</span>          <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>( digitf, face ) ){</div>
-<div class="line"><a id="l03875" name="l03875"></a><span class="lineno"> 3875</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadOBJ): Face index on line &quot;</span> + std::to_string(lineno) + <span class="stringliteral">&quot; must be a non-negative integer value.&quot;</span>);</div>
-<div class="line"><a id="l03876" name="l03876"></a><span class="lineno"> 3876</span>          }</div>
-<div class="line"><a id="l03877" name="l03877"></a><span class="lineno"> 3877</span>          f.push_back(face);</div>
+<div class="line"><a id="l03839" name="l03839"></a><span class="lineno"> 3839</span>      line = <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line);</div>
+<div class="line"><a id="l03840" name="l03840"></a><span class="lineno"> 3840</span>      <span class="comment">//parse coordinates into uv</span></div>
+<div class="line"><a id="l03841" name="l03841"></a><span class="lineno"> 3841</span>      <a class="code hl_struct" href="structhelios_1_1vec2.html">vec2</a> uv(<a class="code hl_function" href="group__functions.html#ga18616cd1df8b05b03eb6c2be0de54e3b">string2vec2</a>(line.c_str()));</div>
+<div class="line"><a id="l03842" name="l03842"></a><span class="lineno"> 3842</span>      texture_uv.emplace_back(uv);</div>
+<div class="line"><a id="l03843" name="l03843"></a><span class="lineno"> 3843</span> </div>
+<div class="line"><a id="l03844" name="l03844"></a><span class="lineno"> 3844</span>      <span class="comment">// ------- MATERIALS --------- //</span></div>
+<div class="line"><a id="l03845" name="l03845"></a><span class="lineno"> 3845</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;usemtl&quot;</span> ){</div>
+<div class="line"><a id="l03846" name="l03846"></a><span class="lineno"> 3846</span>      getline(inputOBJ, line);</div>
+<div class="line"><a id="l03847" name="l03847"></a><span class="lineno"> 3847</span>      current_material = <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line);</div>
+<div class="line"><a id="l03848" name="l03848"></a><span class="lineno"> 3848</span> </div>
+<div class="line"><a id="l03849" name="l03849"></a><span class="lineno"> 3849</span>      <span class="comment">// ------- FACES --------- //</span></div>
+<div class="line"><a id="l03850" name="l03850"></a><span class="lineno"> 3850</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;f&quot;</span> ){</div>
+<div class="line"><a id="l03851" name="l03851"></a><span class="lineno"> 3851</span>      getline(inputOBJ, line);</div>
+<div class="line"><a id="l03852" name="l03852"></a><span class="lineno"> 3852</span>      <span class="comment">//parse face vertices</span></div>
+<div class="line"><a id="l03853" name="l03853"></a><span class="lineno"> 3853</span>      std::istringstream stream(line);</div>
+<div class="line"><a id="l03854" name="l03854"></a><span class="lineno"> 3854</span>      std::string tmp, digitf, digitu;</div>
+<div class="line"><a id="l03855" name="l03855"></a><span class="lineno"> 3855</span>      std::vector&lt;int&gt; f, u;</div>
+<div class="line"><a id="l03856" name="l03856"></a><span class="lineno"> 3856</span>      <span class="keywordflow">while</span>( stream.good() ){</div>
+<div class="line"><a id="l03857" name="l03857"></a><span class="lineno"> 3857</span> </div>
+<div class="line"><a id="l03858" name="l03858"></a><span class="lineno"> 3858</span>        stream &gt;&gt; tmp;</div>
+<div class="line"><a id="l03859" name="l03859"></a><span class="lineno"> 3859</span> </div>
+<div class="line"><a id="l03860" name="l03860"></a><span class="lineno"> 3860</span>        digitf=<span class="stringliteral">&quot;&quot;</span>;</div>
+<div class="line"><a id="l03861" name="l03861"></a><span class="lineno"> 3861</span>        <span class="keywordtype">int</span> ic = 0;</div>
+<div class="line"><a id="l03862" name="l03862"></a><span class="lineno"> 3862</span>        <span class="keywordflow">for</span>(<span class="keywordtype">char</span> i : tmp){</div>
+<div class="line"><a id="l03863" name="l03863"></a><span class="lineno"> 3863</span>          <span class="keywordflow">if</span>( isdigit(i) ){</div>
+<div class="line"><a id="l03864" name="l03864"></a><span class="lineno"> 3864</span>            digitf.push_back( i );</div>
+<div class="line"><a id="l03865" name="l03865"></a><span class="lineno"> 3865</span>            ic++;</div>
+<div class="line"><a id="l03866" name="l03866"></a><span class="lineno"> 3866</span>          }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l03867" name="l03867"></a><span class="lineno"> 3867</span>            <span class="keywordflow">break</span>;</div>
+<div class="line"><a id="l03868" name="l03868"></a><span class="lineno"> 3868</span>          }</div>
+<div class="line"><a id="l03869" name="l03869"></a><span class="lineno"> 3869</span>        }</div>
+<div class="line"><a id="l03870" name="l03870"></a><span class="lineno"> 3870</span> </div>
+<div class="line"><a id="l03871" name="l03871"></a><span class="lineno"> 3871</span>        digitu=<span class="stringliteral">&quot;&quot;</span>;</div>
+<div class="line"><a id="l03872" name="l03872"></a><span class="lineno"> 3872</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=ic+1; i&lt;tmp.size(); i++ ){</div>
+<div class="line"><a id="l03873" name="l03873"></a><span class="lineno"> 3873</span>          <span class="keywordflow">if</span>( isdigit(tmp[i]) ){</div>
+<div class="line"><a id="l03874" name="l03874"></a><span class="lineno"> 3874</span>            digitu.push_back( tmp[i] );</div>
+<div class="line"><a id="l03875" name="l03875"></a><span class="lineno"> 3875</span>          }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l03876" name="l03876"></a><span class="lineno"> 3876</span>            <span class="keywordflow">break</span>;</div>
+<div class="line"><a id="l03877" name="l03877"></a><span class="lineno"> 3877</span>          }</div>
 <div class="line"><a id="l03878" name="l03878"></a><span class="lineno"> 3878</span>        }</div>
-<div class="line"><a id="l03879" name="l03879"></a><span class="lineno"> 3879</span>        <span class="keywordflow">if</span>( !digitu.empty() ){</div>
-<div class="line"><a id="l03880" name="l03880"></a><span class="lineno"> 3880</span>          <span class="keywordtype">int</span> uv;</div>
-<div class="line"><a id="l03881" name="l03881"></a><span class="lineno"> 3881</span>          <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>( digitu, uv ) ){</div>
-<div class="line"><a id="l03882" name="l03882"></a><span class="lineno"> 3882</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadOBJ): u,v index on line &quot;</span> + std::to_string(lineno) + <span class="stringliteral">&quot; must be a non-negative integer value.&quot;</span>);</div>
-<div class="line"><a id="l03883" name="l03883"></a><span class="lineno"> 3883</span>          }</div>
-<div class="line"><a id="l03884" name="l03884"></a><span class="lineno"> 3884</span>          u.push_back( uv );</div>
-<div class="line"><a id="l03885" name="l03885"></a><span class="lineno"> 3885</span>        }</div>
-<div class="line"><a id="l03886" name="l03886"></a><span class="lineno"> 3886</span> </div>
-<div class="line"><a id="l03887" name="l03887"></a><span class="lineno"> 3887</span>      }</div>
-<div class="line"><a id="l03888" name="l03888"></a><span class="lineno"> 3888</span>      face_inds[current_material].push_back(f);</div>
-<div class="line"><a id="l03889" name="l03889"></a><span class="lineno"> 3889</span>      texture_inds[current_material].push_back(u);</div>
-<div class="line"><a id="l03890" name="l03890"></a><span class="lineno"> 3890</span> </div>
-<div class="line"><a id="l03891" name="l03891"></a><span class="lineno"> 3891</span>      <span class="comment">// ------ OTHER STUFF --------- //</span></div>
-<div class="line"><a id="l03892" name="l03892"></a><span class="lineno"> 3892</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03893" name="l03893"></a><span class="lineno"> 3893</span>      getline(inputOBJ, line);</div>
-<div class="line"><a id="l03894" name="l03894"></a><span class="lineno"> 3894</span>    }</div>
-<div class="line"><a id="l03895" name="l03895"></a><span class="lineno"> 3895</span>  }</div>
-<div class="line"><a id="l03896" name="l03896"></a><span class="lineno"> 3896</span> </div>
-<div class="line"><a id="l03897" name="l03897"></a><span class="lineno"> 3897</span>  <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> scl = scale;</div>
-<div class="line"><a id="l03898" name="l03898"></a><span class="lineno"> 3898</span>  <span class="keywordflow">if</span>( scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>==0 &amp;&amp; scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>==0 &amp;&amp; scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>&gt;0 ) {</div>
-<div class="line"><a id="l03899" name="l03899"></a><span class="lineno"> 3899</span>    scl = <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>( scale.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> / (boxmax - boxmin), scale.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> / (boxmax - boxmin), scale.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> / (boxmax - boxmin) );</div>
-<div class="line"><a id="l03900" name="l03900"></a><span class="lineno"> 3900</span>  }<span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l03901" name="l03901"></a><span class="lineno"> 3901</span> </div>
-<div class="line"><a id="l03902" name="l03902"></a><span class="lineno"> 3902</span>    <span class="keywordflow">if</span>( scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>==0 &amp;&amp; (scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>!=0 || scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>!=0) ) {</div>
-<div class="line"><a id="l03903" name="l03903"></a><span class="lineno"> 3903</span>      std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadOBJ): Scaling factor given for x-direction is zero. Setting scaling factor to 1&quot;</span>&lt;&lt; std::endl;</div>
-<div class="line"><a id="l03904" name="l03904"></a><span class="lineno"> 3904</span>    }</div>
-<div class="line"><a id="l03905" name="l03905"></a><span class="lineno"> 3905</span>    <span class="keywordflow">if</span>( scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>==0 &amp;&amp; (scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>!=0 || scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>!=0) ) {</div>
-<div class="line"><a id="l03906" name="l03906"></a><span class="lineno"> 3906</span>      std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadOBJ): Scaling factor given for y-direction is zero. Setting scaling factor to 1&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03907" name="l03907"></a><span class="lineno"> 3907</span>    }</div>
-<div class="line"><a id="l03908" name="l03908"></a><span class="lineno"> 3908</span>    <span class="keywordflow">if</span>( scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>==0 &amp;&amp; (scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>!=0 || scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>!=0) ) {</div>
-<div class="line"><a id="l03909" name="l03909"></a><span class="lineno"> 3909</span>      std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadOBJ): Scaling factor given for z-direction is zero. Setting scaling factor to 1&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03910" name="l03910"></a><span class="lineno"> 3910</span>    }</div>
-<div class="line"><a id="l03911" name="l03911"></a><span class="lineno"> 3911</span> </div>
-<div class="line"><a id="l03912" name="l03912"></a><span class="lineno"> 3912</span>    <span class="keywordflow">if</span> (scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> == 0) {</div>
-<div class="line"><a id="l03913" name="l03913"></a><span class="lineno"> 3913</span>      scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> = 1;</div>
-<div class="line"><a id="l03914" name="l03914"></a><span class="lineno"> 3914</span>    }</div>
-<div class="line"><a id="l03915" name="l03915"></a><span class="lineno"> 3915</span>    <span class="keywordflow">if</span> (scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> == 0) {</div>
-<div class="line"><a id="l03916" name="l03916"></a><span class="lineno"> 3916</span>      scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> = 1;</div>
-<div class="line"><a id="l03917" name="l03917"></a><span class="lineno"> 3917</span>    }</div>
-<div class="line"><a id="l03918" name="l03918"></a><span class="lineno"> 3918</span>    <span class="keywordflow">if</span> (scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> == 0) {</div>
-<div class="line"><a id="l03919" name="l03919"></a><span class="lineno"> 3919</span>      scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> = 1;</div>
-<div class="line"><a id="l03920" name="l03920"></a><span class="lineno"> 3920</span>    }</div>
-<div class="line"><a id="l03921" name="l03921"></a><span class="lineno"> 3921</span> </div>
-<div class="line"><a id="l03922" name="l03922"></a><span class="lineno"> 3922</span>  }</div>
-<div class="line"><a id="l03923" name="l03923"></a><span class="lineno"> 3923</span> </div>
-<div class="line"><a id="l03924" name="l03924"></a><span class="lineno"> 3924</span>  <span class="keywordflow">for</span>( <span class="keyword">auto</span> iter = face_inds.begin(); iter != face_inds.end(); ++iter){</div>
-<div class="line"><a id="l03925" name="l03925"></a><span class="lineno"> 3925</span> </div>
-<div class="line"><a id="l03926" name="l03926"></a><span class="lineno"> 3926</span>    std::string materialname = iter-&gt;first;</div>
-<div class="line"><a id="l03927" name="l03927"></a><span class="lineno"> 3927</span> </div>
-<div class="line"><a id="l03928" name="l03928"></a><span class="lineno"> 3928</span>      std::string texture;</div>
-<div class="line"><a id="l03929" name="l03929"></a><span class="lineno"> 3929</span>      <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> color = default_color;</div>
-<div class="line"><a id="l03930" name="l03930"></a><span class="lineno"> 3930</span>      <span class="keywordtype">bool</span> textureColorIsOverridden = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l03879" name="l03879"></a><span class="lineno"> 3879</span> </div>
+<div class="line"><a id="l03880" name="l03880"></a><span class="lineno"> 3880</span>        <span class="keywordflow">if</span>( !digitf.empty() ) {</div>
+<div class="line"><a id="l03881" name="l03881"></a><span class="lineno"> 3881</span>          <span class="keywordtype">int</span> face;</div>
+<div class="line"><a id="l03882" name="l03882"></a><span class="lineno"> 3882</span>          <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>( digitf, face ) ){</div>
+<div class="line"><a id="l03883" name="l03883"></a><span class="lineno"> 3883</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadOBJ): Face index on line &quot;</span> + std::to_string(lineno) + <span class="stringliteral">&quot; must be a non-negative integer value.&quot;</span>);</div>
+<div class="line"><a id="l03884" name="l03884"></a><span class="lineno"> 3884</span>          }</div>
+<div class="line"><a id="l03885" name="l03885"></a><span class="lineno"> 3885</span>          f.push_back(face);</div>
+<div class="line"><a id="l03886" name="l03886"></a><span class="lineno"> 3886</span>        }</div>
+<div class="line"><a id="l03887" name="l03887"></a><span class="lineno"> 3887</span>        <span class="keywordflow">if</span>( !digitu.empty() ){</div>
+<div class="line"><a id="l03888" name="l03888"></a><span class="lineno"> 3888</span>          <span class="keywordtype">int</span> uv;</div>
+<div class="line"><a id="l03889" name="l03889"></a><span class="lineno"> 3889</span>          <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>( digitu, uv ) ){</div>
+<div class="line"><a id="l03890" name="l03890"></a><span class="lineno"> 3890</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadOBJ): u,v index on line &quot;</span> + std::to_string(lineno) + <span class="stringliteral">&quot; must be a non-negative integer value.&quot;</span>);</div>
+<div class="line"><a id="l03891" name="l03891"></a><span class="lineno"> 3891</span>          }</div>
+<div class="line"><a id="l03892" name="l03892"></a><span class="lineno"> 3892</span>          u.push_back( uv );</div>
+<div class="line"><a id="l03893" name="l03893"></a><span class="lineno"> 3893</span>        }</div>
+<div class="line"><a id="l03894" name="l03894"></a><span class="lineno"> 3894</span> </div>
+<div class="line"><a id="l03895" name="l03895"></a><span class="lineno"> 3895</span>      }</div>
+<div class="line"><a id="l03896" name="l03896"></a><span class="lineno"> 3896</span>      face_inds[current_material].push_back(f);</div>
+<div class="line"><a id="l03897" name="l03897"></a><span class="lineno"> 3897</span>      texture_inds[current_material].push_back(u);</div>
+<div class="line"><a id="l03898" name="l03898"></a><span class="lineno"> 3898</span> </div>
+<div class="line"><a id="l03899" name="l03899"></a><span class="lineno"> 3899</span>      <span class="comment">// ------ OTHER STUFF --------- //</span></div>
+<div class="line"><a id="l03900" name="l03900"></a><span class="lineno"> 3900</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l03901" name="l03901"></a><span class="lineno"> 3901</span>      getline(inputOBJ, line);</div>
+<div class="line"><a id="l03902" name="l03902"></a><span class="lineno"> 3902</span>    }</div>
+<div class="line"><a id="l03903" name="l03903"></a><span class="lineno"> 3903</span>  }</div>
+<div class="line"><a id="l03904" name="l03904"></a><span class="lineno"> 3904</span> </div>
+<div class="line"><a id="l03905" name="l03905"></a><span class="lineno"> 3905</span>  <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> scl = scale;</div>
+<div class="line"><a id="l03906" name="l03906"></a><span class="lineno"> 3906</span>  <span class="keywordflow">if</span>( scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>==0 &amp;&amp; scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>==0 &amp;&amp; scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>&gt;0 ) {</div>
+<div class="line"><a id="l03907" name="l03907"></a><span class="lineno"> 3907</span>    scl = <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>( scale.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> / (boxmax - boxmin), scale.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> / (boxmax - boxmin), scale.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> / (boxmax - boxmin) );</div>
+<div class="line"><a id="l03908" name="l03908"></a><span class="lineno"> 3908</span>  }<span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l03909" name="l03909"></a><span class="lineno"> 3909</span> </div>
+<div class="line"><a id="l03910" name="l03910"></a><span class="lineno"> 3910</span>    <span class="keywordflow">if</span>( scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>==0 &amp;&amp; (scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>!=0 || scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>!=0) ) {</div>
+<div class="line"><a id="l03911" name="l03911"></a><span class="lineno"> 3911</span>      std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadOBJ): Scaling factor given for x-direction is zero. Setting scaling factor to 1&quot;</span>&lt;&lt; std::endl;</div>
+<div class="line"><a id="l03912" name="l03912"></a><span class="lineno"> 3912</span>    }</div>
+<div class="line"><a id="l03913" name="l03913"></a><span class="lineno"> 3913</span>    <span class="keywordflow">if</span>( scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>==0 &amp;&amp; (scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>!=0 || scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>!=0) ) {</div>
+<div class="line"><a id="l03914" name="l03914"></a><span class="lineno"> 3914</span>      std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadOBJ): Scaling factor given for y-direction is zero. Setting scaling factor to 1&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03915" name="l03915"></a><span class="lineno"> 3915</span>    }</div>
+<div class="line"><a id="l03916" name="l03916"></a><span class="lineno"> 3916</span>    <span class="keywordflow">if</span>( scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>==0 &amp;&amp; (scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>!=0 || scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>!=0) ) {</div>
+<div class="line"><a id="l03917" name="l03917"></a><span class="lineno"> 3917</span>      std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadOBJ): Scaling factor given for z-direction is zero. Setting scaling factor to 1&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03918" name="l03918"></a><span class="lineno"> 3918</span>    }</div>
+<div class="line"><a id="l03919" name="l03919"></a><span class="lineno"> 3919</span> </div>
+<div class="line"><a id="l03920" name="l03920"></a><span class="lineno"> 3920</span>    <span class="keywordflow">if</span> (scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> == 0) {</div>
+<div class="line"><a id="l03921" name="l03921"></a><span class="lineno"> 3921</span>      scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> = 1;</div>
+<div class="line"><a id="l03922" name="l03922"></a><span class="lineno"> 3922</span>    }</div>
+<div class="line"><a id="l03923" name="l03923"></a><span class="lineno"> 3923</span>    <span class="keywordflow">if</span> (scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> == 0) {</div>
+<div class="line"><a id="l03924" name="l03924"></a><span class="lineno"> 3924</span>      scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> = 1;</div>
+<div class="line"><a id="l03925" name="l03925"></a><span class="lineno"> 3925</span>    }</div>
+<div class="line"><a id="l03926" name="l03926"></a><span class="lineno"> 3926</span>    <span class="keywordflow">if</span> (scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> == 0) {</div>
+<div class="line"><a id="l03927" name="l03927"></a><span class="lineno"> 3927</span>      scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> = 1;</div>
+<div class="line"><a id="l03928" name="l03928"></a><span class="lineno"> 3928</span>    }</div>
+<div class="line"><a id="l03929" name="l03929"></a><span class="lineno"> 3929</span> </div>
+<div class="line"><a id="l03930" name="l03930"></a><span class="lineno"> 3930</span>  }</div>
 <div class="line"><a id="l03931" name="l03931"></a><span class="lineno"> 3931</span> </div>
-<div class="line"><a id="l03932" name="l03932"></a><span class="lineno"> 3932</span>      <span class="keywordflow">if</span>( materials.find(materialname)!=materials.end() ) {</div>
+<div class="line"><a id="l03932" name="l03932"></a><span class="lineno"> 3932</span>  <span class="keywordflow">for</span>( <span class="keyword">auto</span> iter = face_inds.begin(); iter != face_inds.end(); ++iter){</div>
 <div class="line"><a id="l03933" name="l03933"></a><span class="lineno"> 3933</span> </div>
-<div class="line"><a id="l03934" name="l03934"></a><span class="lineno"> 3934</span>          OBJmaterial mat = materials.at(materialname);</div>
+<div class="line"><a id="l03934" name="l03934"></a><span class="lineno"> 3934</span>    std::string materialname = iter-&gt;first;</div>
 <div class="line"><a id="l03935" name="l03935"></a><span class="lineno"> 3935</span> </div>
-<div class="line"><a id="l03936" name="l03936"></a><span class="lineno"> 3936</span>          texture = mat.texture;</div>
-<div class="line"><a id="l03937" name="l03937"></a><span class="lineno"> 3937</span>          color = mat.color;</div>
-<div class="line"><a id="l03938" name="l03938"></a><span class="lineno"> 3938</span>          textureColorIsOverridden = mat.textureColorIsOverridden;</div>
+<div class="line"><a id="l03936" name="l03936"></a><span class="lineno"> 3936</span>      std::string texture;</div>
+<div class="line"><a id="l03937" name="l03937"></a><span class="lineno"> 3937</span>      <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> color = default_color;</div>
+<div class="line"><a id="l03938" name="l03938"></a><span class="lineno"> 3938</span>      <span class="keywordtype">bool</span> textureColorIsOverridden = <span class="keyword">false</span>;</div>
 <div class="line"><a id="l03939" name="l03939"></a><span class="lineno"> 3939</span> </div>
-<div class="line"><a id="l03940" name="l03940"></a><span class="lineno"> 3940</span>      }</div>
+<div class="line"><a id="l03940" name="l03940"></a><span class="lineno"> 3940</span>      <span class="keywordflow">if</span>( materials.find(materialname)!=materials.end() ) {</div>
 <div class="line"><a id="l03941" name="l03941"></a><span class="lineno"> 3941</span> </div>
-<div class="line"><a id="l03942" name="l03942"></a><span class="lineno"> 3942</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;face_inds.at(materialname).size(); i++ ){</div>
+<div class="line"><a id="l03942" name="l03942"></a><span class="lineno"> 3942</span>          OBJmaterial mat = materials.at(materialname);</div>
 <div class="line"><a id="l03943" name="l03943"></a><span class="lineno"> 3943</span> </div>
-<div class="line"><a id="l03944" name="l03944"></a><span class="lineno"> 3944</span>      <span class="keywordflow">for</span>( uint t=2; t&lt;face_inds.at(materialname).at(i).size(); t++ ){</div>
-<div class="line"><a id="l03945" name="l03945"></a><span class="lineno"> 3945</span> </div>
-<div class="line"><a id="l03946" name="l03946"></a><span class="lineno"> 3946</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> v0 = vertices.at(face_inds.at(materialname).at(i).at(0)-1);</div>
-<div class="line"><a id="l03947" name="l03947"></a><span class="lineno"> 3947</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> v1 = vertices.at(face_inds.at(materialname).at(i).at(t-1)-1);</div>
-<div class="line"><a id="l03948" name="l03948"></a><span class="lineno"> 3948</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> v2 = vertices.at(face_inds.at(materialname).at(i).at(t)-1);</div>
+<div class="line"><a id="l03944" name="l03944"></a><span class="lineno"> 3944</span>          texture = mat.texture;</div>
+<div class="line"><a id="l03945" name="l03945"></a><span class="lineno"> 3945</span>          color = mat.color;</div>
+<div class="line"><a id="l03946" name="l03946"></a><span class="lineno"> 3946</span>          textureColorIsOverridden = mat.textureColorIsOverridden;</div>
+<div class="line"><a id="l03947" name="l03947"></a><span class="lineno"> 3947</span> </div>
+<div class="line"><a id="l03948" name="l03948"></a><span class="lineno"> 3948</span>      }</div>
 <div class="line"><a id="l03949" name="l03949"></a><span class="lineno"> 3949</span> </div>
-<div class="line"><a id="l03950" name="l03950"></a><span class="lineno"> 3950</span>        <span class="keywordflow">if</span>( (v0-v1).magnitude()==0 || (v0-v2).magnitude()==0 || (v1-v2).magnitude()==0 ){</div>
-<div class="line"><a id="l03951" name="l03951"></a><span class="lineno"> 3951</span>          <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l03952" name="l03952"></a><span class="lineno"> 3952</span>        }</div>
+<div class="line"><a id="l03950" name="l03950"></a><span class="lineno"> 3950</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;face_inds.at(materialname).size(); i++ ){</div>
+<div class="line"><a id="l03951" name="l03951"></a><span class="lineno"> 3951</span> </div>
+<div class="line"><a id="l03952" name="l03952"></a><span class="lineno"> 3952</span>      <span class="keywordflow">for</span>( uint t=2; t&lt;face_inds.at(materialname).at(i).size(); t++ ){</div>
 <div class="line"><a id="l03953" name="l03953"></a><span class="lineno"> 3953</span> </div>
-<div class="line"><a id="l03954" name="l03954"></a><span class="lineno"> 3954</span>        <span class="keywordflow">if</span>( strcmp(upaxis,<span class="stringliteral">&quot;YUP&quot;</span>)==0 ){</div>
-<div class="line"><a id="l03955" name="l03955"></a><span class="lineno"> 3955</span>          v0 = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(v0,<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,0),<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1,0,0),0.5*M_PI);</div>
-<div class="line"><a id="l03956" name="l03956"></a><span class="lineno"> 3956</span>          v1 = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(v1,<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,0),<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1,0,0),0.5*M_PI);</div>
-<div class="line"><a id="l03957" name="l03957"></a><span class="lineno"> 3957</span>          v2 = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(v2,<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,0),<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1,0,0),0.5*M_PI);</div>
-<div class="line"><a id="l03958" name="l03958"></a><span class="lineno"> 3958</span>        }</div>
-<div class="line"><a id="l03959" name="l03959"></a><span class="lineno"> 3959</span> </div>
-<div class="line"><a id="l03960" name="l03960"></a><span class="lineno"> 3960</span>        v0 = <a class="code hl_function" href="group__functions.html#ga17de9e03f309dedcd648606653ddd05e">rotatePoint</a>(v0,rotation);</div>
-<div class="line"><a id="l03961" name="l03961"></a><span class="lineno"> 3961</span>        v1 = <a class="code hl_function" href="group__functions.html#ga17de9e03f309dedcd648606653ddd05e">rotatePoint</a>(v1,rotation);</div>
-<div class="line"><a id="l03962" name="l03962"></a><span class="lineno"> 3962</span>        v2 = <a class="code hl_function" href="group__functions.html#ga17de9e03f309dedcd648606653ddd05e">rotatePoint</a>(v2,rotation);</div>
-<div class="line"><a id="l03963" name="l03963"></a><span class="lineno"> 3963</span> </div>
-<div class="line"><a id="l03964" name="l03964"></a><span class="lineno"> 3964</span>        uint ID;</div>
-<div class="line"><a id="l03965" name="l03965"></a><span class="lineno"> 3965</span>        <span class="keywordflow">if</span>( !texture.empty() &amp;&amp; !texture_inds.at(materialname).at(i).empty() ){<span class="comment">//has texture</span></div>
-<div class="line"><a id="l03966" name="l03966"></a><span class="lineno"> 3966</span> </div>
-<div class="line"><a id="l03967" name="l03967"></a><span class="lineno"> 3967</span>          <span class="keywordflow">if</span>( t&lt;texture_inds.at(materialname).at(i).size() ){</div>
-<div class="line"><a id="l03968" name="l03968"></a><span class="lineno"> 3968</span>            <span class="keywordtype">int</span> iuv0 = texture_inds.at(materialname).at(i).at(0)-1;</div>
-<div class="line"><a id="l03969" name="l03969"></a><span class="lineno"> 3969</span>            <span class="keywordtype">int</span> iuv1 = texture_inds.at(materialname).at(i).at(t-1)-1;</div>
-<div class="line"><a id="l03970" name="l03970"></a><span class="lineno"> 3970</span>            <span class="keywordtype">int</span> iuv2 = texture_inds.at(materialname).at(i).at(t)-1;</div>
+<div class="line"><a id="l03954" name="l03954"></a><span class="lineno"> 3954</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> v0 = vertices.at(face_inds.at(materialname).at(i).at(0)-1);</div>
+<div class="line"><a id="l03955" name="l03955"></a><span class="lineno"> 3955</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> v1 = vertices.at(face_inds.at(materialname).at(i).at(t-1)-1);</div>
+<div class="line"><a id="l03956" name="l03956"></a><span class="lineno"> 3956</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> v2 = vertices.at(face_inds.at(materialname).at(i).at(t)-1);</div>
+<div class="line"><a id="l03957" name="l03957"></a><span class="lineno"> 3957</span> </div>
+<div class="line"><a id="l03958" name="l03958"></a><span class="lineno"> 3958</span>        <span class="keywordflow">if</span>( (v0-v1).magnitude()==0 || (v0-v2).magnitude()==0 || (v1-v2).magnitude()==0 ){</div>
+<div class="line"><a id="l03959" name="l03959"></a><span class="lineno"> 3959</span>          <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l03960" name="l03960"></a><span class="lineno"> 3960</span>        }</div>
+<div class="line"><a id="l03961" name="l03961"></a><span class="lineno"> 3961</span> </div>
+<div class="line"><a id="l03962" name="l03962"></a><span class="lineno"> 3962</span>        <span class="keywordflow">if</span>( strcmp(upaxis,<span class="stringliteral">&quot;YUP&quot;</span>)==0 ){</div>
+<div class="line"><a id="l03963" name="l03963"></a><span class="lineno"> 3963</span>          v0 = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(v0,<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,0),<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1,0,0),0.5*M_PI);</div>
+<div class="line"><a id="l03964" name="l03964"></a><span class="lineno"> 3964</span>          v1 = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(v1,<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,0),<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1,0,0),0.5*M_PI);</div>
+<div class="line"><a id="l03965" name="l03965"></a><span class="lineno"> 3965</span>          v2 = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(v2,<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,0),<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1,0,0),0.5*M_PI);</div>
+<div class="line"><a id="l03966" name="l03966"></a><span class="lineno"> 3966</span>        }</div>
+<div class="line"><a id="l03967" name="l03967"></a><span class="lineno"> 3967</span> </div>
+<div class="line"><a id="l03968" name="l03968"></a><span class="lineno"> 3968</span>        v0 = <a class="code hl_function" href="group__functions.html#ga17de9e03f309dedcd648606653ddd05e">rotatePoint</a>(v0,rotation);</div>
+<div class="line"><a id="l03969" name="l03969"></a><span class="lineno"> 3969</span>        v1 = <a class="code hl_function" href="group__functions.html#ga17de9e03f309dedcd648606653ddd05e">rotatePoint</a>(v1,rotation);</div>
+<div class="line"><a id="l03970" name="l03970"></a><span class="lineno"> 3970</span>        v2 = <a class="code hl_function" href="group__functions.html#ga17de9e03f309dedcd648606653ddd05e">rotatePoint</a>(v2,rotation);</div>
 <div class="line"><a id="l03971" name="l03971"></a><span class="lineno"> 3971</span> </div>
-<div class="line"><a id="l03972" name="l03972"></a><span class="lineno"> 3972</span>            ID = <a class="code hl_function" href="group__primitives.html#ga2a78a464a4c7ef3375a0ced2f1005b77">addTriangle</a>( origin+v0*scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, origin+v1*scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, origin+v2*scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>, texture.c_str(), texture_uv.at(iuv0), texture_uv.at(iuv1), texture_uv.at(iuv2) );</div>
-<div class="line"><a id="l03973" name="l03973"></a><span class="lineno"> 3973</span> </div>
-<div class="line"><a id="l03974" name="l03974"></a><span class="lineno"> 3974</span>            <span class="keywordflow">if</span>( textureColorIsOverridden ){</div>
-<div class="line"><a id="l03975" name="l03975"></a><span class="lineno"> 3975</span>              <a class="code hl_function" href="classhelios_1_1_context.html#a029f95ee0056f027866f8bad2fe9e48e">setPrimitiveColor</a>( ID, color );</div>
-<div class="line"><a id="l03976" name="l03976"></a><span class="lineno"> 3976</span>              <a class="code hl_function" href="classhelios_1_1_context.html#a90df70161f5ded2f8a79e995464598e0">overridePrimitiveTextureColor</a>( ID );</div>
-<div class="line"><a id="l03977" name="l03977"></a><span class="lineno"> 3977</span>            }</div>
-<div class="line"><a id="l03978" name="l03978"></a><span class="lineno"> 3978</span> </div>
-<div class="line"><a id="l03979" name="l03979"></a><span class="lineno"> 3979</span>          }</div>
-<div class="line"><a id="l03980" name="l03980"></a><span class="lineno"> 3980</span>        }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03981" name="l03981"></a><span class="lineno"> 3981</span>          ID = <a class="code hl_function" href="group__primitives.html#ga2a78a464a4c7ef3375a0ced2f1005b77">addTriangle</a>( origin+v0*scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, origin+v1*scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, origin+v2*scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>, color );</div>
-<div class="line"><a id="l03982" name="l03982"></a><span class="lineno"> 3982</span>        }</div>
-<div class="line"><a id="l03983" name="l03983"></a><span class="lineno"> 3983</span> </div>
-<div class="line"><a id="l03984" name="l03984"></a><span class="lineno"> 3984</span>        std::string <span class="keywordtype">object</span> = objects.at(face_inds.at(materialname).at(i).at(0)-1);</div>
-<div class="line"><a id="l03985" name="l03985"></a><span class="lineno"> 3985</span> </div>
-<div class="line"><a id="l03986" name="l03986"></a><span class="lineno"> 3986</span>        <span class="keywordflow">if</span>( <span class="keywordtype">object</span>!=<span class="stringliteral">&quot;none&quot;</span> &amp;&amp; <a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(ID) ){</div>
-<div class="line"><a id="l03987" name="l03987"></a><span class="lineno"> 3987</span>          <a class="code hl_function" href="classhelios_1_1_context.html#ac7677094a3bbcb62506ce461d982af1d">setPrimitiveData</a>(ID,<span class="stringliteral">&quot;object_label&quot;</span>,<span class="keywordtype">object</span>);</div>
-<div class="line"><a id="l03988" name="l03988"></a><span class="lineno"> 3988</span>        }</div>
-<div class="line"><a id="l03989" name="l03989"></a><span class="lineno"> 3989</span> </div>
-<div class="line"><a id="l03990" name="l03990"></a><span class="lineno"> 3990</span>        UUID.push_back(ID);</div>
+<div class="line"><a id="l03972" name="l03972"></a><span class="lineno"> 3972</span>        uint ID;</div>
+<div class="line"><a id="l03973" name="l03973"></a><span class="lineno"> 3973</span>        <span class="keywordflow">if</span>( !texture.empty() &amp;&amp; !texture_inds.at(materialname).at(i).empty() ){<span class="comment">//has texture</span></div>
+<div class="line"><a id="l03974" name="l03974"></a><span class="lineno"> 3974</span> </div>
+<div class="line"><a id="l03975" name="l03975"></a><span class="lineno"> 3975</span>          <span class="keywordflow">if</span>( t&lt;texture_inds.at(materialname).at(i).size() ){</div>
+<div class="line"><a id="l03976" name="l03976"></a><span class="lineno"> 3976</span>            <span class="keywordtype">int</span> iuv0 = texture_inds.at(materialname).at(i).at(0)-1;</div>
+<div class="line"><a id="l03977" name="l03977"></a><span class="lineno"> 3977</span>            <span class="keywordtype">int</span> iuv1 = texture_inds.at(materialname).at(i).at(t-1)-1;</div>
+<div class="line"><a id="l03978" name="l03978"></a><span class="lineno"> 3978</span>            <span class="keywordtype">int</span> iuv2 = texture_inds.at(materialname).at(i).at(t)-1;</div>
+<div class="line"><a id="l03979" name="l03979"></a><span class="lineno"> 3979</span> </div>
+<div class="line"><a id="l03980" name="l03980"></a><span class="lineno"> 3980</span>            ID = <a class="code hl_function" href="group__primitives.html#ga2a78a464a4c7ef3375a0ced2f1005b77">addTriangle</a>( origin+v0*scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, origin+v1*scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, origin+v2*scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>, texture.c_str(), texture_uv.at(iuv0), texture_uv.at(iuv1), texture_uv.at(iuv2) );</div>
+<div class="line"><a id="l03981" name="l03981"></a><span class="lineno"> 3981</span> </div>
+<div class="line"><a id="l03982" name="l03982"></a><span class="lineno"> 3982</span>            <span class="keywordflow">if</span>( textureColorIsOverridden ){</div>
+<div class="line"><a id="l03983" name="l03983"></a><span class="lineno"> 3983</span>              <a class="code hl_function" href="classhelios_1_1_context.html#a029f95ee0056f027866f8bad2fe9e48e">setPrimitiveColor</a>( ID, color );</div>
+<div class="line"><a id="l03984" name="l03984"></a><span class="lineno"> 3984</span>              <a class="code hl_function" href="classhelios_1_1_context.html#a90df70161f5ded2f8a79e995464598e0">overridePrimitiveTextureColor</a>( ID );</div>
+<div class="line"><a id="l03985" name="l03985"></a><span class="lineno"> 3985</span>            }</div>
+<div class="line"><a id="l03986" name="l03986"></a><span class="lineno"> 3986</span> </div>
+<div class="line"><a id="l03987" name="l03987"></a><span class="lineno"> 3987</span>          }</div>
+<div class="line"><a id="l03988" name="l03988"></a><span class="lineno"> 3988</span>        }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l03989" name="l03989"></a><span class="lineno"> 3989</span>          ID = <a class="code hl_function" href="group__primitives.html#ga2a78a464a4c7ef3375a0ced2f1005b77">addTriangle</a>( origin+v0*scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, origin+v1*scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, origin+v2*scl.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>, color );</div>
+<div class="line"><a id="l03990" name="l03990"></a><span class="lineno"> 3990</span>        }</div>
 <div class="line"><a id="l03991" name="l03991"></a><span class="lineno"> 3991</span> </div>
-<div class="line"><a id="l03992" name="l03992"></a><span class="lineno"> 3992</span>      }</div>
-<div class="line"><a id="l03993" name="l03993"></a><span class="lineno"> 3993</span>    }</div>
-<div class="line"><a id="l03994" name="l03994"></a><span class="lineno"> 3994</span>  }</div>
-<div class="line"><a id="l03995" name="l03995"></a><span class="lineno"> 3995</span> </div>
-<div class="line"><a id="l03996" name="l03996"></a><span class="lineno"> 3996</span>  <span class="keywordflow">if</span>( !silent ) {</div>
-<div class="line"><a id="l03997" name="l03997"></a><span class="lineno"> 3997</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03998" name="l03998"></a><span class="lineno"> 3998</span>  }</div>
+<div class="line"><a id="l03992" name="l03992"></a><span class="lineno"> 3992</span>        std::string <span class="keywordtype">object</span> = objects.at(face_inds.at(materialname).at(i).at(0)-1);</div>
+<div class="line"><a id="l03993" name="l03993"></a><span class="lineno"> 3993</span> </div>
+<div class="line"><a id="l03994" name="l03994"></a><span class="lineno"> 3994</span>        <span class="keywordflow">if</span>( <span class="keywordtype">object</span>!=<span class="stringliteral">&quot;none&quot;</span> &amp;&amp; <a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(ID) ){</div>
+<div class="line"><a id="l03995" name="l03995"></a><span class="lineno"> 3995</span>          <a class="code hl_function" href="classhelios_1_1_context.html#ac7677094a3bbcb62506ce461d982af1d">setPrimitiveData</a>(ID,<span class="stringliteral">&quot;object_label&quot;</span>,<span class="keywordtype">object</span>);</div>
+<div class="line"><a id="l03996" name="l03996"></a><span class="lineno"> 3996</span>        }</div>
+<div class="line"><a id="l03997" name="l03997"></a><span class="lineno"> 3997</span> </div>
+<div class="line"><a id="l03998" name="l03998"></a><span class="lineno"> 3998</span>        UUID.push_back(ID);</div>
 <div class="line"><a id="l03999" name="l03999"></a><span class="lineno"> 3999</span> </div>
-<div class="line"><a id="l04000" name="l04000"></a><span class="lineno"> 4000</span>  <span class="keywordflow">return</span> UUID;</div>
-<div class="line"><a id="l04001" name="l04001"></a><span class="lineno"> 4001</span> </div>
-<div class="line"><a id="l04002" name="l04002"></a><span class="lineno"> 4002</span>}</div>
-</div>
+<div class="line"><a id="l04000" name="l04000"></a><span class="lineno"> 4000</span>      }</div>
+<div class="line"><a id="l04001" name="l04001"></a><span class="lineno"> 4001</span>    }</div>
+<div class="line"><a id="l04002" name="l04002"></a><span class="lineno"> 4002</span>  }</div>
 <div class="line"><a id="l04003" name="l04003"></a><span class="lineno"> 4003</span> </div>
-<div class="line"><a id="l04004" name="l04004"></a><span class="lineno"> 4004</span>std::map&lt;std::string, Context::OBJmaterial&gt; Context::loadMTL(<span class="keyword">const</span> std::string &amp;filebase, <span class="keyword">const</span> std::string &amp;material_file ){</div>
-<div class="line"><a id="l04005" name="l04005"></a><span class="lineno"> 4005</span> </div>
-<div class="line"><a id="l04006" name="l04006"></a><span class="lineno"> 4006</span>  std::ifstream inputMTL;</div>
+<div class="line"><a id="l04004" name="l04004"></a><span class="lineno"> 4004</span>  <span class="keywordflow">if</span>( !silent ) {</div>
+<div class="line"><a id="l04005" name="l04005"></a><span class="lineno"> 4005</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04006" name="l04006"></a><span class="lineno"> 4006</span>  }</div>
 <div class="line"><a id="l04007" name="l04007"></a><span class="lineno"> 4007</span> </div>
-<div class="line"><a id="l04008" name="l04008"></a><span class="lineno"> 4008</span>  std::string file = material_file;</div>
+<div class="line"><a id="l04008" name="l04008"></a><span class="lineno"> 4008</span>  <span class="keywordflow">return</span> UUID;</div>
 <div class="line"><a id="l04009" name="l04009"></a><span class="lineno"> 4009</span> </div>
-<div class="line"><a id="l04010" name="l04010"></a><span class="lineno"> 4010</span>  <span class="comment">//first look for mtl file using path given in obj file</span></div>
-<div class="line"><a id="l04011" name="l04011"></a><span class="lineno"> 4011</span>  inputMTL.open(file.c_str());</div>
-<div class="line"><a id="l04012" name="l04012"></a><span class="lineno"> 4012</span>  <span class="keywordflow">if</span>( !inputMTL.is_open() ){</div>
-<div class="line"><a id="l04013" name="l04013"></a><span class="lineno"> 4013</span>    <span class="comment">//if that doesn&#39;t work, try looking in the same directory where obj file is located</span></div>
-<div class="line"><a id="l04014" name="l04014"></a><span class="lineno"> 4014</span>    file = filebase+file;</div>
-<div class="line"><a id="l04015" name="l04015"></a><span class="lineno"> 4015</span>    file.erase( remove( file.begin(), file.end(), <span class="charliteral">&#39; &#39;</span> ), file.end() );</div>
-<div class="line"><a id="l04016" name="l04016"></a><span class="lineno"> 4016</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=file.size()-1; i&gt;=0; i-- ){</div>
-<div class="line"><a id="l04017" name="l04017"></a><span class="lineno"> 4017</span>      <span class="keywordflow">if</span>( strcmp(&amp;file.at(i),<span class="stringliteral">&quot;l&quot;</span>)==0 ){</div>
-<div class="line"><a id="l04018" name="l04018"></a><span class="lineno"> 4018</span>        <span class="keywordflow">break</span>;</div>
-<div class="line"><a id="l04019" name="l04019"></a><span class="lineno"> 4019</span>      }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04020" name="l04020"></a><span class="lineno"> 4020</span>        file.erase(file.begin()+(<span class="keywordtype">int</span>)i);</div>
-<div class="line"><a id="l04021" name="l04021"></a><span class="lineno"> 4021</span>      }</div>
-<div class="line"><a id="l04022" name="l04022"></a><span class="lineno"> 4022</span>    }</div>
-<div class="line"><a id="l04023" name="l04023"></a><span class="lineno"> 4023</span>    <span class="keywordflow">if</span>( file.empty() ){</div>
-<div class="line"><a id="l04024" name="l04024"></a><span class="lineno"> 4024</span>      <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadMTL): Material file does not have correct file extension (.mtl).&quot;</span>);</div>
-<div class="line"><a id="l04025" name="l04025"></a><span class="lineno"> 4025</span>    }</div>
-<div class="line"><a id="l04026" name="l04026"></a><span class="lineno"> 4026</span>    inputMTL.open( file.c_str() );</div>
-<div class="line"><a id="l04027" name="l04027"></a><span class="lineno"> 4027</span>    <span class="keywordflow">if</span>( !inputMTL.is_open() ){</div>
-<div class="line"><a id="l04028" name="l04028"></a><span class="lineno"> 4028</span>      <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadMTL): Material file &quot;</span> + std::string(file) + <span class="stringliteral">&quot; given in .obj file cannot be found.&quot;</span>);</div>
-<div class="line"><a id="l04029" name="l04029"></a><span class="lineno"> 4029</span>    }</div>
-<div class="line"><a id="l04030" name="l04030"></a><span class="lineno"> 4030</span>  }</div>
-<div class="line"><a id="l04031" name="l04031"></a><span class="lineno"> 4031</span> </div>
-<div class="line"><a id="l04032" name="l04032"></a><span class="lineno"> 4032</span>  std::map&lt;std::string, OBJmaterial&gt; materials;</div>
-<div class="line"><a id="l04033" name="l04033"></a><span class="lineno"> 4033</span> </div>
-<div class="line"><a id="l04034" name="l04034"></a><span class="lineno"> 4034</span>  std::string line;</div>
-<div class="line"><a id="l04035" name="l04035"></a><span class="lineno"> 4035</span> </div>
-<div class="line"><a id="l04036" name="l04036"></a><span class="lineno"> 4036</span>  inputMTL&gt;&gt;line;</div>
-<div class="line"><a id="l04037" name="l04037"></a><span class="lineno"> 4037</span> </div>
-<div class="line"><a id="l04038" name="l04038"></a><span class="lineno"> 4038</span>  <span class="keywordflow">while</span>( inputMTL.good() ){</div>
+<div class="line"><a id="l04010" name="l04010"></a><span class="lineno"> 4010</span>}</div>
+</div>
+<div class="line"><a id="l04011" name="l04011"></a><span class="lineno"> 4011</span> </div>
+<div class="line"><a id="l04012" name="l04012"></a><span class="lineno"> 4012</span>std::map&lt;std::string, Context::OBJmaterial&gt; Context::loadMTL(<span class="keyword">const</span> std::string &amp;filebase, <span class="keyword">const</span> std::string &amp;material_file ){</div>
+<div class="line"><a id="l04013" name="l04013"></a><span class="lineno"> 4013</span> </div>
+<div class="line"><a id="l04014" name="l04014"></a><span class="lineno"> 4014</span>  std::ifstream inputMTL;</div>
+<div class="line"><a id="l04015" name="l04015"></a><span class="lineno"> 4015</span> </div>
+<div class="line"><a id="l04016" name="l04016"></a><span class="lineno"> 4016</span>  std::string file = material_file;</div>
+<div class="line"><a id="l04017" name="l04017"></a><span class="lineno"> 4017</span> </div>
+<div class="line"><a id="l04018" name="l04018"></a><span class="lineno"> 4018</span>  <span class="comment">//first look for mtl file using path given in obj file</span></div>
+<div class="line"><a id="l04019" name="l04019"></a><span class="lineno"> 4019</span>  inputMTL.open(file.c_str());</div>
+<div class="line"><a id="l04020" name="l04020"></a><span class="lineno"> 4020</span>  <span class="keywordflow">if</span>( !inputMTL.is_open() ){</div>
+<div class="line"><a id="l04021" name="l04021"></a><span class="lineno"> 4021</span>    <span class="comment">//if that doesn&#39;t work, try looking in the same directory where obj file is located</span></div>
+<div class="line"><a id="l04022" name="l04022"></a><span class="lineno"> 4022</span>    file = filebase+file;</div>
+<div class="line"><a id="l04023" name="l04023"></a><span class="lineno"> 4023</span>    file.erase( remove( file.begin(), file.end(), <span class="charliteral">&#39; &#39;</span> ), file.end() );</div>
+<div class="line"><a id="l04024" name="l04024"></a><span class="lineno"> 4024</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=file.size()-1; i&gt;=0; i-- ){</div>
+<div class="line"><a id="l04025" name="l04025"></a><span class="lineno"> 4025</span>      <span class="keywordflow">if</span>( strcmp(&amp;file.at(i),<span class="stringliteral">&quot;l&quot;</span>)==0 ){</div>
+<div class="line"><a id="l04026" name="l04026"></a><span class="lineno"> 4026</span>        <span class="keywordflow">break</span>;</div>
+<div class="line"><a id="l04027" name="l04027"></a><span class="lineno"> 4027</span>      }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04028" name="l04028"></a><span class="lineno"> 4028</span>        file.erase(file.begin()+(<span class="keywordtype">int</span>)i);</div>
+<div class="line"><a id="l04029" name="l04029"></a><span class="lineno"> 4029</span>      }</div>
+<div class="line"><a id="l04030" name="l04030"></a><span class="lineno"> 4030</span>    }</div>
+<div class="line"><a id="l04031" name="l04031"></a><span class="lineno"> 4031</span>    <span class="keywordflow">if</span>( file.empty() ){</div>
+<div class="line"><a id="l04032" name="l04032"></a><span class="lineno"> 4032</span>      <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadMTL): Material file does not have correct file extension (.mtl).&quot;</span>);</div>
+<div class="line"><a id="l04033" name="l04033"></a><span class="lineno"> 4033</span>    }</div>
+<div class="line"><a id="l04034" name="l04034"></a><span class="lineno"> 4034</span>    inputMTL.open( file.c_str() );</div>
+<div class="line"><a id="l04035" name="l04035"></a><span class="lineno"> 4035</span>    <span class="keywordflow">if</span>( !inputMTL.is_open() ){</div>
+<div class="line"><a id="l04036" name="l04036"></a><span class="lineno"> 4036</span>      <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadMTL): Material file &quot;</span> + std::string(file) + <span class="stringliteral">&quot; given in .obj file cannot be found.&quot;</span>);</div>
+<div class="line"><a id="l04037" name="l04037"></a><span class="lineno"> 4037</span>    }</div>
+<div class="line"><a id="l04038" name="l04038"></a><span class="lineno"> 4038</span>  }</div>
 <div class="line"><a id="l04039" name="l04039"></a><span class="lineno"> 4039</span> </div>
-<div class="line"><a id="l04040" name="l04040"></a><span class="lineno"> 4040</span>    <span class="keywordflow">if</span>( strcmp(<span class="stringliteral">&quot;#&quot;</span>,line.c_str())==0 ){ <span class="comment">//comments</span></div>
-<div class="line"><a id="l04041" name="l04041"></a><span class="lineno"> 4041</span>      getline(inputMTL, line);</div>
-<div class="line"><a id="l04042" name="l04042"></a><span class="lineno"> 4042</span>      inputMTL&gt;&gt;line;</div>
-<div class="line"><a id="l04043" name="l04043"></a><span class="lineno"> 4043</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;newmtl&quot;</span> ){ <span class="comment">//material library</span></div>
-<div class="line"><a id="l04044" name="l04044"></a><span class="lineno"> 4044</span>      getline(inputMTL, line);</div>
-<div class="line"><a id="l04045" name="l04045"></a><span class="lineno"> 4045</span>      std::string material_name = <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line);</div>
-<div class="line"><a id="l04046" name="l04046"></a><span class="lineno"> 4046</span>      OBJmaterial mat(RGB::red,<span class="stringliteral">&quot;&quot;</span>,0);</div>
-<div class="line"><a id="l04047" name="l04047"></a><span class="lineno"> 4047</span>      materials.emplace( material_name,mat );</div>
-<div class="line"><a id="l04048" name="l04048"></a><span class="lineno"> 4048</span> </div>
-<div class="line"><a id="l04049" name="l04049"></a><span class="lineno"> 4049</span>      std::string map_Kd, map_d;</div>
-<div class="line"><a id="l04050" name="l04050"></a><span class="lineno"> 4050</span> </div>
-<div class="line"><a id="l04051" name="l04051"></a><span class="lineno"> 4051</span>      <span class="keywordflow">while</span>( line!=<span class="stringliteral">&quot;newmtl&quot;</span> &amp;&amp; inputMTL.good() ){</div>
-<div class="line"><a id="l04052" name="l04052"></a><span class="lineno"> 4052</span> </div>
-<div class="line"><a id="l04053" name="l04053"></a><span class="lineno"> 4053</span>        <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;map_a&quot;</span> ){</div>
-<div class="line"><a id="l04054" name="l04054"></a><span class="lineno"> 4054</span>          getline(inputMTL, line);</div>
-<div class="line"><a id="l04055" name="l04055"></a><span class="lineno"> 4055</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;map_Ka&quot;</span> ){</div>
-<div class="line"><a id="l04056" name="l04056"></a><span class="lineno"> 4056</span>          getline(inputMTL, line);</div>
-<div class="line"><a id="l04057" name="l04057"></a><span class="lineno"> 4057</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;map_Kd&quot;</span> || line==<span class="stringliteral">&quot;map_d&quot;</span> ){</div>
-<div class="line"><a id="l04058" name="l04058"></a><span class="lineno"> 4058</span>          std::string maptype = line;</div>
-<div class="line"><a id="l04059" name="l04059"></a><span class="lineno"> 4059</span>          getline(inputMTL, line);</div>
-<div class="line"><a id="l04060" name="l04060"></a><span class="lineno"> 4060</span>          line = <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line);</div>
-<div class="line"><a id="l04061" name="l04061"></a><span class="lineno"> 4061</span>          std::istringstream stream(line);</div>
-<div class="line"><a id="l04062" name="l04062"></a><span class="lineno"> 4062</span>          std::string tmp;</div>
-<div class="line"><a id="l04063" name="l04063"></a><span class="lineno"> 4063</span>          <span class="keywordflow">while</span>( stream.good() ){</div>
-<div class="line"><a id="l04064" name="l04064"></a><span class="lineno"> 4064</span>            stream &gt;&gt; tmp;</div>
-<div class="line"><a id="l04065" name="l04065"></a><span class="lineno"> 4065</span>            std::string ext = <a class="code hl_function" href="global_8h.html#a58e660bb08e1ce13466825ae666467ef">getFileExtension</a>(tmp);</div>
-<div class="line"><a id="l04066" name="l04066"></a><span class="lineno"> 4066</span>            <span class="keywordflow">if</span>( ext==<span class="stringliteral">&quot;.png&quot;</span> || ext==<span class="stringliteral">&quot;.PNG&quot;</span> || ext==<span class="stringliteral">&quot;.jpg&quot;</span> || ext==<span class="stringliteral">&quot;.JPG&quot;</span> || ext==<span class="stringliteral">&quot;.jpeg&quot;</span> || ext==<span class="stringliteral">&quot;.JPEG&quot;</span> ){</div>
-<div class="line"><a id="l04067" name="l04067"></a><span class="lineno"> 4067</span> </div>
-<div class="line"><a id="l04068" name="l04068"></a><span class="lineno"> 4068</span>              std::string texturefile = tmp;</div>
-<div class="line"><a id="l04069" name="l04069"></a><span class="lineno"> 4069</span>              std::ifstream tfile;</div>
-<div class="line"><a id="l04070" name="l04070"></a><span class="lineno"> 4070</span> </div>
-<div class="line"><a id="l04071" name="l04071"></a><span class="lineno"> 4071</span>              <span class="comment">//first look for texture file using path given in mtl file</span></div>
-<div class="line"><a id="l04072" name="l04072"></a><span class="lineno"> 4072</span>              tfile.open(texturefile.c_str());</div>
-<div class="line"><a id="l04073" name="l04073"></a><span class="lineno"> 4073</span>              <span class="keywordflow">if</span>( !tfile.is_open() ){</div>
-<div class="line"><a id="l04074" name="l04074"></a><span class="lineno"> 4074</span>                <span class="comment">//if that doesn&#39;t work, try looking in the same directory where obj file is located</span></div>
-<div class="line"><a id="l04075" name="l04075"></a><span class="lineno"> 4075</span>                tfile.close();</div>
-<div class="line"><a id="l04076" name="l04076"></a><span class="lineno"> 4076</span>                texturefile = filebase+texturefile;</div>
-<div class="line"><a id="l04077" name="l04077"></a><span class="lineno"> 4077</span>                tfile.open( texturefile.c_str() );</div>
-<div class="line"><a id="l04078" name="l04078"></a><span class="lineno"> 4078</span>                <span class="keywordflow">if</span>( !tfile.is_open() ){</div>
-<div class="line"><a id="l04079" name="l04079"></a><span class="lineno"> 4079</span>                  std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadOBJ): Texture file &quot;</span> &lt;&lt; texturefile &lt;&lt; <span class="stringliteral">&quot; given in .mtl file cannot be found.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04080" name="l04080"></a><span class="lineno"> 4080</span>                }</div>
-<div class="line"><a id="l04081" name="l04081"></a><span class="lineno"> 4081</span>              }</div>
-<div class="line"><a id="l04082" name="l04082"></a><span class="lineno"> 4082</span>              tfile.close();</div>
-<div class="line"><a id="l04083" name="l04083"></a><span class="lineno"> 4083</span> </div>
-<div class="line"><a id="l04084" name="l04084"></a><span class="lineno"> 4084</span>              materials.at(material_name).texture = texturefile;</div>
-<div class="line"><a id="l04085" name="l04085"></a><span class="lineno"> 4085</span> </div>
-<div class="line"><a id="l04086" name="l04086"></a><span class="lineno"> 4086</span>              <span class="keywordflow">if</span>( maptype==<span class="stringliteral">&quot;map_d&quot;</span> ) {</div>
-<div class="line"><a id="l04087" name="l04087"></a><span class="lineno"> 4087</span>                map_d = texturefile;</div>
-<div class="line"><a id="l04088" name="l04088"></a><span class="lineno"> 4088</span>              }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04089" name="l04089"></a><span class="lineno"> 4089</span>                map_Kd = texturefile;</div>
-<div class="line"><a id="l04090" name="l04090"></a><span class="lineno"> 4090</span>              }</div>
-<div class="line"><a id="l04091" name="l04091"></a><span class="lineno"> 4091</span>            }</div>
-<div class="line"><a id="l04092" name="l04092"></a><span class="lineno"> 4092</span>          }</div>
+<div class="line"><a id="l04040" name="l04040"></a><span class="lineno"> 4040</span>  std::map&lt;std::string, OBJmaterial&gt; materials;</div>
+<div class="line"><a id="l04041" name="l04041"></a><span class="lineno"> 4041</span> </div>
+<div class="line"><a id="l04042" name="l04042"></a><span class="lineno"> 4042</span>  std::string line;</div>
+<div class="line"><a id="l04043" name="l04043"></a><span class="lineno"> 4043</span> </div>
+<div class="line"><a id="l04044" name="l04044"></a><span class="lineno"> 4044</span>  inputMTL&gt;&gt;line;</div>
+<div class="line"><a id="l04045" name="l04045"></a><span class="lineno"> 4045</span> </div>
+<div class="line"><a id="l04046" name="l04046"></a><span class="lineno"> 4046</span>  <span class="keywordflow">while</span>( inputMTL.good() ){</div>
+<div class="line"><a id="l04047" name="l04047"></a><span class="lineno"> 4047</span> </div>
+<div class="line"><a id="l04048" name="l04048"></a><span class="lineno"> 4048</span>    <span class="keywordflow">if</span>( strcmp(<span class="stringliteral">&quot;#&quot;</span>,line.c_str())==0 ){ <span class="comment">//comments</span></div>
+<div class="line"><a id="l04049" name="l04049"></a><span class="lineno"> 4049</span>      getline(inputMTL, line);</div>
+<div class="line"><a id="l04050" name="l04050"></a><span class="lineno"> 4050</span>      inputMTL&gt;&gt;line;</div>
+<div class="line"><a id="l04051" name="l04051"></a><span class="lineno"> 4051</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;newmtl&quot;</span> ){ <span class="comment">//material library</span></div>
+<div class="line"><a id="l04052" name="l04052"></a><span class="lineno"> 4052</span>      getline(inputMTL, line);</div>
+<div class="line"><a id="l04053" name="l04053"></a><span class="lineno"> 4053</span>      std::string material_name = <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line);</div>
+<div class="line"><a id="l04054" name="l04054"></a><span class="lineno"> 4054</span>      OBJmaterial mat(RGB::red,<span class="stringliteral">&quot;&quot;</span>,0);</div>
+<div class="line"><a id="l04055" name="l04055"></a><span class="lineno"> 4055</span>      materials.emplace( material_name,mat );</div>
+<div class="line"><a id="l04056" name="l04056"></a><span class="lineno"> 4056</span> </div>
+<div class="line"><a id="l04057" name="l04057"></a><span class="lineno"> 4057</span>      std::string map_Kd, map_d;</div>
+<div class="line"><a id="l04058" name="l04058"></a><span class="lineno"> 4058</span> </div>
+<div class="line"><a id="l04059" name="l04059"></a><span class="lineno"> 4059</span>      <span class="keywordflow">while</span>( line!=<span class="stringliteral">&quot;newmtl&quot;</span> &amp;&amp; inputMTL.good() ){</div>
+<div class="line"><a id="l04060" name="l04060"></a><span class="lineno"> 4060</span> </div>
+<div class="line"><a id="l04061" name="l04061"></a><span class="lineno"> 4061</span>        <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;map_a&quot;</span> ){</div>
+<div class="line"><a id="l04062" name="l04062"></a><span class="lineno"> 4062</span>          getline(inputMTL, line);</div>
+<div class="line"><a id="l04063" name="l04063"></a><span class="lineno"> 4063</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;map_Ka&quot;</span> ){</div>
+<div class="line"><a id="l04064" name="l04064"></a><span class="lineno"> 4064</span>          getline(inputMTL, line);</div>
+<div class="line"><a id="l04065" name="l04065"></a><span class="lineno"> 4065</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;map_Kd&quot;</span> || line==<span class="stringliteral">&quot;map_d&quot;</span> ){</div>
+<div class="line"><a id="l04066" name="l04066"></a><span class="lineno"> 4066</span>          std::string maptype = line;</div>
+<div class="line"><a id="l04067" name="l04067"></a><span class="lineno"> 4067</span>          getline(inputMTL, line);</div>
+<div class="line"><a id="l04068" name="l04068"></a><span class="lineno"> 4068</span>          line = <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line);</div>
+<div class="line"><a id="l04069" name="l04069"></a><span class="lineno"> 4069</span>          std::istringstream stream(line);</div>
+<div class="line"><a id="l04070" name="l04070"></a><span class="lineno"> 4070</span>          std::string tmp;</div>
+<div class="line"><a id="l04071" name="l04071"></a><span class="lineno"> 4071</span>          <span class="keywordflow">while</span>( stream.good() ){</div>
+<div class="line"><a id="l04072" name="l04072"></a><span class="lineno"> 4072</span>            stream &gt;&gt; tmp;</div>
+<div class="line"><a id="l04073" name="l04073"></a><span class="lineno"> 4073</span>            std::string ext = <a class="code hl_function" href="global_8h.html#a58e660bb08e1ce13466825ae666467ef">getFileExtension</a>(tmp);</div>
+<div class="line"><a id="l04074" name="l04074"></a><span class="lineno"> 4074</span>            <span class="keywordflow">if</span>( ext==<span class="stringliteral">&quot;.png&quot;</span> || ext==<span class="stringliteral">&quot;.PNG&quot;</span> || ext==<span class="stringliteral">&quot;.jpg&quot;</span> || ext==<span class="stringliteral">&quot;.JPG&quot;</span> || ext==<span class="stringliteral">&quot;.jpeg&quot;</span> || ext==<span class="stringliteral">&quot;.JPEG&quot;</span> ){</div>
+<div class="line"><a id="l04075" name="l04075"></a><span class="lineno"> 4075</span> </div>
+<div class="line"><a id="l04076" name="l04076"></a><span class="lineno"> 4076</span>              std::string texturefile = tmp;</div>
+<div class="line"><a id="l04077" name="l04077"></a><span class="lineno"> 4077</span>              std::ifstream tfile;</div>
+<div class="line"><a id="l04078" name="l04078"></a><span class="lineno"> 4078</span> </div>
+<div class="line"><a id="l04079" name="l04079"></a><span class="lineno"> 4079</span>              <span class="comment">//first look for texture file using path given in mtl file</span></div>
+<div class="line"><a id="l04080" name="l04080"></a><span class="lineno"> 4080</span>              tfile.open(texturefile.c_str());</div>
+<div class="line"><a id="l04081" name="l04081"></a><span class="lineno"> 4081</span>              <span class="keywordflow">if</span>( !tfile.is_open() ){</div>
+<div class="line"><a id="l04082" name="l04082"></a><span class="lineno"> 4082</span>                <span class="comment">//if that doesn&#39;t work, try looking in the same directory where obj file is located</span></div>
+<div class="line"><a id="l04083" name="l04083"></a><span class="lineno"> 4083</span>                tfile.close();</div>
+<div class="line"><a id="l04084" name="l04084"></a><span class="lineno"> 4084</span>                texturefile = filebase+texturefile;</div>
+<div class="line"><a id="l04085" name="l04085"></a><span class="lineno"> 4085</span>                tfile.open( texturefile.c_str() );</div>
+<div class="line"><a id="l04086" name="l04086"></a><span class="lineno"> 4086</span>                <span class="keywordflow">if</span>( !tfile.is_open() ){</div>
+<div class="line"><a id="l04087" name="l04087"></a><span class="lineno"> 4087</span>                  std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadOBJ): Texture file &quot;</span> &lt;&lt; texturefile &lt;&lt; <span class="stringliteral">&quot; given in .mtl file cannot be found.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04088" name="l04088"></a><span class="lineno"> 4088</span>                }</div>
+<div class="line"><a id="l04089" name="l04089"></a><span class="lineno"> 4089</span>              }</div>
+<div class="line"><a id="l04090" name="l04090"></a><span class="lineno"> 4090</span>              tfile.close();</div>
+<div class="line"><a id="l04091" name="l04091"></a><span class="lineno"> 4091</span> </div>
+<div class="line"><a id="l04092" name="l04092"></a><span class="lineno"> 4092</span>              materials.at(material_name).texture = texturefile;</div>
 <div class="line"><a id="l04093" name="l04093"></a><span class="lineno"> 4093</span> </div>
-<div class="line"><a id="l04094" name="l04094"></a><span class="lineno"> 4094</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;map_Ks&quot;</span> ){</div>
-<div class="line"><a id="l04095" name="l04095"></a><span class="lineno"> 4095</span>          getline(inputMTL, line);</div>
-<div class="line"><a id="l04096" name="l04096"></a><span class="lineno"> 4096</span> </div>
-<div class="line"><a id="l04097" name="l04097"></a><span class="lineno"> 4097</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;Kd&quot;</span> ){</div>
-<div class="line"><a id="l04098" name="l04098"></a><span class="lineno"> 4098</span>          getline(inputMTL, line);</div>
-<div class="line"><a id="l04099" name="l04099"></a><span class="lineno"> 4099</span>          std::string color_str = <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line );</div>
-<div class="line"><a id="l04100" name="l04100"></a><span class="lineno"> 4100</span>          <a class="code hl_struct" href="structhelios_1_1_r_g_b_acolor.html">RGBAcolor</a> color = <a class="code hl_function" href="group__functions.html#ga8180158609698aae15da7574b085b817">string2RGBcolor</a>(color_str.c_str());</div>
-<div class="line"><a id="l04101" name="l04101"></a><span class="lineno"> 4101</span>          materials.at(material_name).color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(color.<a class="code hl_variable" href="structhelios_1_1_r_g_b_acolor.html#a15af7f1c4d0e5e23a7ec2488fe0964df">r</a>,color.<a class="code hl_variable" href="structhelios_1_1_r_g_b_acolor.html#ac018f8ed01b4d4128a68ebe42e1e6a00">g</a>,color.<a class="code hl_variable" href="structhelios_1_1_r_g_b_acolor.html#aaa86bd3e17f03ffdc182c5c9b67587e3">b</a>);</div>
-<div class="line"><a id="l04102" name="l04102"></a><span class="lineno"> 4102</span>        }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04094" name="l04094"></a><span class="lineno"> 4094</span>              <span class="keywordflow">if</span>( maptype==<span class="stringliteral">&quot;map_d&quot;</span> ) {</div>
+<div class="line"><a id="l04095" name="l04095"></a><span class="lineno"> 4095</span>                map_d = texturefile;</div>
+<div class="line"><a id="l04096" name="l04096"></a><span class="lineno"> 4096</span>              }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04097" name="l04097"></a><span class="lineno"> 4097</span>                map_Kd = texturefile;</div>
+<div class="line"><a id="l04098" name="l04098"></a><span class="lineno"> 4098</span>              }</div>
+<div class="line"><a id="l04099" name="l04099"></a><span class="lineno"> 4099</span>            }</div>
+<div class="line"><a id="l04100" name="l04100"></a><span class="lineno"> 4100</span>          }</div>
+<div class="line"><a id="l04101" name="l04101"></a><span class="lineno"> 4101</span> </div>
+<div class="line"><a id="l04102" name="l04102"></a><span class="lineno"> 4102</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;map_Ks&quot;</span> ){</div>
 <div class="line"><a id="l04103" name="l04103"></a><span class="lineno"> 4103</span>          getline(inputMTL, line);</div>
-<div class="line"><a id="l04104" name="l04104"></a><span class="lineno"> 4104</span>        }</div>
-<div class="line"><a id="l04105" name="l04105"></a><span class="lineno"> 4105</span> </div>
-<div class="line"><a id="l04106" name="l04106"></a><span class="lineno"> 4106</span>        inputMTL&gt;&gt;line;</div>
-<div class="line"><a id="l04107" name="l04107"></a><span class="lineno"> 4107</span>      }</div>
-<div class="line"><a id="l04108" name="l04108"></a><span class="lineno"> 4108</span> </div>
-<div class="line"><a id="l04109" name="l04109"></a><span class="lineno"> 4109</span>      <span class="keywordflow">if</span>( map_Kd.empty() &amp;&amp; !map_d.empty() ){</div>
-<div class="line"><a id="l04110" name="l04110"></a><span class="lineno"> 4110</span>        materials.at(material_name).textureColorIsOverridden=<span class="keyword">true</span>;</div>
-<div class="line"><a id="l04111" name="l04111"></a><span class="lineno"> 4111</span>      }</div>
-<div class="line"><a id="l04112" name="l04112"></a><span class="lineno"> 4112</span> </div>
-<div class="line"><a id="l04113" name="l04113"></a><span class="lineno"> 4113</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04114" name="l04114"></a><span class="lineno"> 4114</span>      getline(inputMTL, line);</div>
-<div class="line"><a id="l04115" name="l04115"></a><span class="lineno"> 4115</span>      inputMTL&gt;&gt;line;</div>
-<div class="line"><a id="l04116" name="l04116"></a><span class="lineno"> 4116</span>    }</div>
-<div class="line"><a id="l04117" name="l04117"></a><span class="lineno"> 4117</span>  }</div>
-<div class="line"><a id="l04118" name="l04118"></a><span class="lineno"> 4118</span> </div>
-<div class="line"><a id="l04119" name="l04119"></a><span class="lineno"> 4119</span>  <span class="keywordflow">return</span> materials;</div>
+<div class="line"><a id="l04104" name="l04104"></a><span class="lineno"> 4104</span> </div>
+<div class="line"><a id="l04105" name="l04105"></a><span class="lineno"> 4105</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( line==<span class="stringliteral">&quot;Kd&quot;</span> ){</div>
+<div class="line"><a id="l04106" name="l04106"></a><span class="lineno"> 4106</span>          getline(inputMTL, line);</div>
+<div class="line"><a id="l04107" name="l04107"></a><span class="lineno"> 4107</span>          std::string color_str = <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line );</div>
+<div class="line"><a id="l04108" name="l04108"></a><span class="lineno"> 4108</span>          <a class="code hl_struct" href="structhelios_1_1_r_g_b_acolor.html">RGBAcolor</a> color = <a class="code hl_function" href="group__functions.html#ga8180158609698aae15da7574b085b817">string2RGBcolor</a>(color_str.c_str());</div>
+<div class="line"><a id="l04109" name="l04109"></a><span class="lineno"> 4109</span>          materials.at(material_name).color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(color.<a class="code hl_variable" href="structhelios_1_1_r_g_b_acolor.html#a15af7f1c4d0e5e23a7ec2488fe0964df">r</a>,color.<a class="code hl_variable" href="structhelios_1_1_r_g_b_acolor.html#ac018f8ed01b4d4128a68ebe42e1e6a00">g</a>,color.<a class="code hl_variable" href="structhelios_1_1_r_g_b_acolor.html#aaa86bd3e17f03ffdc182c5c9b67587e3">b</a>);</div>
+<div class="line"><a id="l04110" name="l04110"></a><span class="lineno"> 4110</span>        }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04111" name="l04111"></a><span class="lineno"> 4111</span>          getline(inputMTL, line);</div>
+<div class="line"><a id="l04112" name="l04112"></a><span class="lineno"> 4112</span>        }</div>
+<div class="line"><a id="l04113" name="l04113"></a><span class="lineno"> 4113</span> </div>
+<div class="line"><a id="l04114" name="l04114"></a><span class="lineno"> 4114</span>        inputMTL&gt;&gt;line;</div>
+<div class="line"><a id="l04115" name="l04115"></a><span class="lineno"> 4115</span>      }</div>
+<div class="line"><a id="l04116" name="l04116"></a><span class="lineno"> 4116</span> </div>
+<div class="line"><a id="l04117" name="l04117"></a><span class="lineno"> 4117</span>      <span class="keywordflow">if</span>( map_Kd.empty() &amp;&amp; !map_d.empty() ){</div>
+<div class="line"><a id="l04118" name="l04118"></a><span class="lineno"> 4118</span>        materials.at(material_name).textureColorIsOverridden=<span class="keyword">true</span>;</div>
+<div class="line"><a id="l04119" name="l04119"></a><span class="lineno"> 4119</span>      }</div>
 <div class="line"><a id="l04120" name="l04120"></a><span class="lineno"> 4120</span> </div>
-<div class="line"><a id="l04121" name="l04121"></a><span class="lineno"> 4121</span>}</div>
-<div class="line"><a id="l04122" name="l04122"></a><span class="lineno"> 4122</span> </div>
-<div class="foldopen" id="foldopen04123" data-start="{" data-end="}">
-<div class="line"><a id="l04123" name="l04123"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8"> 4123</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">Context::writeOBJ</a>( <span class="keyword">const</span> std::string &amp;filename )<span class="keyword"> const </span>{</div>
-<div class="line"><a id="l04124" name="l04124"></a><span class="lineno"> 4124</span>  <a class="code hl_function" href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">writeOBJ</a>(filename, <a class="code hl_function" href="classhelios_1_1_context.html#a98516632daccf958cca6b5b6582310bb">getAllUUIDs</a>(),{});</div>
-<div class="line"><a id="l04125" name="l04125"></a><span class="lineno"> 4125</span>}</div>
-</div>
+<div class="line"><a id="l04121" name="l04121"></a><span class="lineno"> 4121</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04122" name="l04122"></a><span class="lineno"> 4122</span>      getline(inputMTL, line);</div>
+<div class="line"><a id="l04123" name="l04123"></a><span class="lineno"> 4123</span>      inputMTL&gt;&gt;line;</div>
+<div class="line"><a id="l04124" name="l04124"></a><span class="lineno"> 4124</span>    }</div>
+<div class="line"><a id="l04125" name="l04125"></a><span class="lineno"> 4125</span>  }</div>
 <div class="line"><a id="l04126" name="l04126"></a><span class="lineno"> 4126</span> </div>
-<div class="foldopen" id="foldopen04127" data-start="{" data-end="}">
-<div class="line"><a id="l04127" name="l04127"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a8a5040ff4aaa061eddabe881ac668a01"> 4127</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">Context::writeOBJ</a>( <span class="keyword">const</span> std::string &amp;filename, <span class="keyword">const</span> std::vector&lt;uint&gt; &amp;UUIDs )<span class="keyword"> const </span>{</div>
-<div class="line"><a id="l04128" name="l04128"></a><span class="lineno"> 4128</span>  <a class="code hl_function" href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">writeOBJ</a>(filename,UUIDs,{});</div>
+<div class="line"><a id="l04127" name="l04127"></a><span class="lineno"> 4127</span>  <span class="keywordflow">return</span> materials;</div>
+<div class="line"><a id="l04128" name="l04128"></a><span class="lineno"> 4128</span> </div>
 <div class="line"><a id="l04129" name="l04129"></a><span class="lineno"> 4129</span>}</div>
-</div>
 <div class="line"><a id="l04130" name="l04130"></a><span class="lineno"> 4130</span> </div>
 <div class="foldopen" id="foldopen04131" data-start="{" data-end="}">
-<div class="line"><a id="l04131" name="l04131"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#ae976f6626930c925c8fdacb543e1e923"> 4131</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">Context::writeOBJ</a>( <span class="keyword">const</span> std::string &amp;filename, <span class="keyword">const</span> std::vector&lt;uint&gt; &amp;UUIDs, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;primitive_dat_fields )<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l04132" name="l04132"></a><span class="lineno"> 4132</span> </div>
-<div class="line"><a id="l04133" name="l04133"></a><span class="lineno"> 4133</span>  <span class="comment">//To-Do list for OBJ writer</span></div>
-<div class="line"><a id="l04134" name="l04134"></a><span class="lineno"> 4134</span>  <span class="comment">// - it would make more sense to write patches  as quads rather than two triangles</span></div>
-<div class="line"><a id="l04135" name="l04135"></a><span class="lineno"> 4135</span> </div>
-<div class="line"><a id="l04136" name="l04136"></a><span class="lineno"> 4136</span>  <span class="keywordflow">if</span>( UUIDs.empty() ){</div>
-<div class="line"><a id="l04137" name="l04137"></a><span class="lineno"> 4137</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writeOBJ): No primitives found to write - OBJ file will not be written.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04138" name="l04138"></a><span class="lineno"> 4138</span>    <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l04139" name="l04139"></a><span class="lineno"> 4139</span>  }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( filename.empty() ){</div>
-<div class="line"><a id="l04140" name="l04140"></a><span class="lineno"> 4140</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writeOBJ): Filename was empty - OBJ file will not be written.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04141" name="l04141"></a><span class="lineno"> 4141</span>    <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l04142" name="l04142"></a><span class="lineno"> 4142</span>  }</div>
+<div class="line"><a id="l04131" name="l04131"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8"> 4131</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">Context::writeOBJ</a>( <span class="keyword">const</span> std::string &amp;filename )<span class="keyword"> const </span>{</div>
+<div class="line"><a id="l04132" name="l04132"></a><span class="lineno"> 4132</span>  <a class="code hl_function" href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">writeOBJ</a>(filename, <a class="code hl_function" href="classhelios_1_1_context.html#a98516632daccf958cca6b5b6582310bb">getAllUUIDs</a>(),{});</div>
+<div class="line"><a id="l04133" name="l04133"></a><span class="lineno"> 4133</span>}</div>
+</div>
+<div class="line"><a id="l04134" name="l04134"></a><span class="lineno"> 4134</span> </div>
+<div class="foldopen" id="foldopen04135" data-start="{" data-end="}">
+<div class="line"><a id="l04135" name="l04135"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a8a5040ff4aaa061eddabe881ac668a01"> 4135</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">Context::writeOBJ</a>( <span class="keyword">const</span> std::string &amp;filename, <span class="keyword">const</span> std::vector&lt;uint&gt; &amp;UUIDs )<span class="keyword"> const </span>{</div>
+<div class="line"><a id="l04136" name="l04136"></a><span class="lineno"> 4136</span>  <a class="code hl_function" href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">writeOBJ</a>(filename,UUIDs,{});</div>
+<div class="line"><a id="l04137" name="l04137"></a><span class="lineno"> 4137</span>}</div>
+</div>
+<div class="line"><a id="l04138" name="l04138"></a><span class="lineno"> 4138</span> </div>
+<div class="foldopen" id="foldopen04139" data-start="{" data-end="}">
+<div class="line"><a id="l04139" name="l04139"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#ae976f6626930c925c8fdacb543e1e923"> 4139</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">Context::writeOBJ</a>( <span class="keyword">const</span> std::string &amp;filename, <span class="keyword">const</span> std::vector&lt;uint&gt; &amp;UUIDs, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;primitive_dat_fields )<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l04140" name="l04140"></a><span class="lineno"> 4140</span> </div>
+<div class="line"><a id="l04141" name="l04141"></a><span class="lineno"> 4141</span>  <span class="comment">//To-Do list for OBJ writer</span></div>
+<div class="line"><a id="l04142" name="l04142"></a><span class="lineno"> 4142</span>  <span class="comment">// - it would make more sense to write patches  as quads rather than two triangles</span></div>
 <div class="line"><a id="l04143" name="l04143"></a><span class="lineno"> 4143</span> </div>
-<div class="line"><a id="l04144" name="l04144"></a><span class="lineno"> 4144</span>  std::string objfilename = filename;</div>
-<div class="line"><a id="l04145" name="l04145"></a><span class="lineno"> 4145</span>  std::string mtlfilename = filename;</div>
-<div class="line"><a id="l04146" name="l04146"></a><span class="lineno"> 4146</span> </div>
-<div class="line"><a id="l04147" name="l04147"></a><span class="lineno"> 4147</span>  <span class="keyword">auto</span> file_extension = <a class="code hl_function" href="global_8h.html#a58e660bb08e1ce13466825ae666467ef">getFileExtension</a>(filename);</div>
-<div class="line"><a id="l04148" name="l04148"></a><span class="lineno"> 4148</span>  <span class="keyword">auto</span> file_stem = <a class="code hl_function" href="global_8h.html#a9fff8cb6c3474de479f81c12f173d3ed">getFileStem</a>(filename);</div>
-<div class="line"><a id="l04149" name="l04149"></a><span class="lineno"> 4149</span>  <span class="keyword">auto</span> file_path = <a class="code hl_function" href="global_8h.html#ad76f15d03b511d1bf5123d64d804d6e8">getFilePath</a>(filename);</div>
-<div class="line"><a id="l04150" name="l04150"></a><span class="lineno"> 4150</span> </div>
-<div class="line"><a id="l04151" name="l04151"></a><span class="lineno"> 4151</span>  std::string fn = filename;</div>
-<div class="line"><a id="l04152" name="l04152"></a><span class="lineno"> 4152</span>  <span class="keywordflow">if</span>( file_extension != <span class="stringliteral">&quot;.obj&quot;</span> &amp;&amp; file_extension != <span class="stringliteral">&quot;.OBJ&quot;</span> ) { <span class="comment">// append obj to file name</span></div>
-<div class="line"><a id="l04153" name="l04153"></a><span class="lineno"> 4153</span>    objfilename.append(<span class="stringliteral">&quot;.obj&quot;</span>);</div>
-<div class="line"><a id="l04154" name="l04154"></a><span class="lineno"> 4154</span>    mtlfilename.append(<span class="stringliteral">&quot;.mtl&quot;</span>);</div>
-<div class="line"><a id="l04155" name="l04155"></a><span class="lineno"> 4155</span>  }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04156" name="l04156"></a><span class="lineno"> 4156</span>    <span class="keywordflow">if</span>( !file_path.empty() ){</div>
-<div class="line"><a id="l04157" name="l04157"></a><span class="lineno"> 4157</span>      mtlfilename = file_path + <span class="stringliteral">&quot;/&quot;</span> + file_stem + <span class="stringliteral">&quot;.mtl&quot;</span>;</div>
-<div class="line"><a id="l04158" name="l04158"></a><span class="lineno"> 4158</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04159" name="l04159"></a><span class="lineno"> 4159</span>      mtlfilename = file_stem + <span class="stringliteral">&quot;.mtl&quot;</span>;</div>
-<div class="line"><a id="l04160" name="l04160"></a><span class="lineno"> 4160</span>    }</div>
-<div class="line"><a id="l04161" name="l04161"></a><span class="lineno"> 4161</span>  }</div>
-<div class="line"><a id="l04162" name="l04162"></a><span class="lineno"> 4162</span> </div>
-<div class="line"><a id="l04163" name="l04163"></a><span class="lineno"> 4163</span>  <span class="keywordflow">if</span>( !std::filesystem::exists(file_path) ){</div>
-<div class="line"><a id="l04164" name="l04164"></a><span class="lineno"> 4164</span>    <span class="keywordflow">if</span>( !std::filesystem::create_directory(file_path) ){</div>
-<div class="line"><a id="l04165" name="l04165"></a><span class="lineno"> 4165</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;failed. Directory &quot;</span> &lt;&lt; file_path &lt;&lt; <span class="stringliteral">&quot; does not exist and it could not be created - OBJ file will not be written.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04166" name="l04166"></a><span class="lineno"> 4166</span>        <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l04167" name="l04167"></a><span class="lineno"> 4167</span>    }</div>
-<div class="line"><a id="l04168" name="l04168"></a><span class="lineno"> 4168</span>  }</div>
-<div class="line"><a id="l04169" name="l04169"></a><span class="lineno"> 4169</span> </div>
-<div class="line"><a id="l04170" name="l04170"></a><span class="lineno"> 4170</span>  std::cout &lt;&lt; <span class="stringliteral">&quot;Writing OBJ file &quot;</span> &lt;&lt; objfilename &lt;&lt; <span class="stringliteral">&quot;...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l04171" name="l04171"></a><span class="lineno"> 4171</span> </div>
-<div class="line"><a id="l04172" name="l04172"></a><span class="lineno"> 4172</span>  std::vector&lt;OBJmaterial&gt; materials;</div>
-<div class="line"><a id="l04173" name="l04173"></a><span class="lineno"> 4173</span> </div>
-<div class="line"><a id="l04174" name="l04174"></a><span class="lineno"> 4174</span>  <span class="keywordtype">bool</span> uuidexistswarning = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l04175" name="l04175"></a><span class="lineno"> 4175</span>  <span class="keywordtype">bool</span> voxelwarning = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l04176" name="l04176"></a><span class="lineno"> 4176</span> </div>
-<div class="line"><a id="l04177" name="l04177"></a><span class="lineno"> 4177</span>  std::vector&lt;vec3&gt; verts;</div>
-<div class="line"><a id="l04178" name="l04178"></a><span class="lineno"> 4178</span>  std::vector&lt;vec2&gt; uv;</div>
-<div class="line"><a id="l04179" name="l04179"></a><span class="lineno"> 4179</span>  std::map&lt; uint, std::vector&lt;int3&gt; &gt; faces;</div>
-<div class="line"><a id="l04180" name="l04180"></a><span class="lineno"> 4180</span>  std::map&lt; uint, std::vector&lt;int3&gt; &gt; uv_inds;</div>
-<div class="line"><a id="l04181" name="l04181"></a><span class="lineno"> 4181</span>  <span class="keywordtype">size_t</span> vertex_count = 1;  <span class="comment">//OBJ files start indices at 1</span></div>
-<div class="line"><a id="l04182" name="l04182"></a><span class="lineno"> 4182</span>  <span class="keywordtype">size_t</span> uv_count = 1;</div>
-<div class="line"><a id="l04183" name="l04183"></a><span class="lineno"> 4183</span>  std::map&lt;uint,std::vector&lt;uint&gt; &gt; UUIDs_write;</div>
+<div class="line"><a id="l04144" name="l04144"></a><span class="lineno"> 4144</span>  <span class="keywordflow">if</span>( UUIDs.empty() ){</div>
+<div class="line"><a id="l04145" name="l04145"></a><span class="lineno"> 4145</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writeOBJ): No primitives found to write - OBJ file will not be written.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04146" name="l04146"></a><span class="lineno"> 4146</span>    <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l04147" name="l04147"></a><span class="lineno"> 4147</span>  }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( filename.empty() ){</div>
+<div class="line"><a id="l04148" name="l04148"></a><span class="lineno"> 4148</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writeOBJ): Filename was empty - OBJ file will not be written.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04149" name="l04149"></a><span class="lineno"> 4149</span>    <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l04150" name="l04150"></a><span class="lineno"> 4150</span>  }</div>
+<div class="line"><a id="l04151" name="l04151"></a><span class="lineno"> 4151</span> </div>
+<div class="line"><a id="l04152" name="l04152"></a><span class="lineno"> 4152</span>  std::string objfilename = filename;</div>
+<div class="line"><a id="l04153" name="l04153"></a><span class="lineno"> 4153</span>  std::string mtlfilename = filename;</div>
+<div class="line"><a id="l04154" name="l04154"></a><span class="lineno"> 4154</span> </div>
+<div class="line"><a id="l04155" name="l04155"></a><span class="lineno"> 4155</span>  <span class="keyword">auto</span> file_extension = <a class="code hl_function" href="global_8h.html#a58e660bb08e1ce13466825ae666467ef">getFileExtension</a>(filename);</div>
+<div class="line"><a id="l04156" name="l04156"></a><span class="lineno"> 4156</span>  <span class="keyword">auto</span> file_stem = <a class="code hl_function" href="global_8h.html#a9fff8cb6c3474de479f81c12f173d3ed">getFileStem</a>(filename);</div>
+<div class="line"><a id="l04157" name="l04157"></a><span class="lineno"> 4157</span>  <span class="keyword">auto</span> file_path = <a class="code hl_function" href="global_8h.html#ad76f15d03b511d1bf5123d64d804d6e8">getFilePath</a>(filename);</div>
+<div class="line"><a id="l04158" name="l04158"></a><span class="lineno"> 4158</span> </div>
+<div class="line"><a id="l04159" name="l04159"></a><span class="lineno"> 4159</span>  std::string fn = filename;</div>
+<div class="line"><a id="l04160" name="l04160"></a><span class="lineno"> 4160</span>  <span class="keywordflow">if</span>( file_extension != <span class="stringliteral">&quot;.obj&quot;</span> &amp;&amp; file_extension != <span class="stringliteral">&quot;.OBJ&quot;</span> ) { <span class="comment">// append obj to file name</span></div>
+<div class="line"><a id="l04161" name="l04161"></a><span class="lineno"> 4161</span>    objfilename.append(<span class="stringliteral">&quot;.obj&quot;</span>);</div>
+<div class="line"><a id="l04162" name="l04162"></a><span class="lineno"> 4162</span>    mtlfilename.append(<span class="stringliteral">&quot;.mtl&quot;</span>);</div>
+<div class="line"><a id="l04163" name="l04163"></a><span class="lineno"> 4163</span>  }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04164" name="l04164"></a><span class="lineno"> 4164</span>    <span class="keywordflow">if</span>( !file_path.empty() ){</div>
+<div class="line"><a id="l04165" name="l04165"></a><span class="lineno"> 4165</span>      mtlfilename = file_path + <span class="stringliteral">&quot;/&quot;</span> + file_stem + <span class="stringliteral">&quot;.mtl&quot;</span>;</div>
+<div class="line"><a id="l04166" name="l04166"></a><span class="lineno"> 4166</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04167" name="l04167"></a><span class="lineno"> 4167</span>      mtlfilename = file_stem + <span class="stringliteral">&quot;.mtl&quot;</span>;</div>
+<div class="line"><a id="l04168" name="l04168"></a><span class="lineno"> 4168</span>    }</div>
+<div class="line"><a id="l04169" name="l04169"></a><span class="lineno"> 4169</span>  }</div>
+<div class="line"><a id="l04170" name="l04170"></a><span class="lineno"> 4170</span> </div>
+<div class="line"><a id="l04171" name="l04171"></a><span class="lineno"> 4171</span>  <span class="keywordflow">if</span>( !file_path.empty() &amp;&amp; !std::filesystem::exists(file_path) ){</div>
+<div class="line"><a id="l04172" name="l04172"></a><span class="lineno"> 4172</span>    <span class="keywordflow">if</span>( !std::filesystem::create_directory(file_path) ){</div>
+<div class="line"><a id="l04173" name="l04173"></a><span class="lineno"> 4173</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;failed. Directory &quot;</span> &lt;&lt; file_path &lt;&lt; <span class="stringliteral">&quot; does not exist and it could not be created - OBJ file will not be written.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04174" name="l04174"></a><span class="lineno"> 4174</span>        <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l04175" name="l04175"></a><span class="lineno"> 4175</span>    }</div>
+<div class="line"><a id="l04176" name="l04176"></a><span class="lineno"> 4176</span>  }</div>
+<div class="line"><a id="l04177" name="l04177"></a><span class="lineno"> 4177</span> </div>
+<div class="line"><a id="l04178" name="l04178"></a><span class="lineno"> 4178</span>  std::cout &lt;&lt; <span class="stringliteral">&quot;Writing OBJ file &quot;</span> &lt;&lt; objfilename &lt;&lt; <span class="stringliteral">&quot;...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l04179" name="l04179"></a><span class="lineno"> 4179</span> </div>
+<div class="line"><a id="l04180" name="l04180"></a><span class="lineno"> 4180</span>  std::vector&lt;OBJmaterial&gt; materials;</div>
+<div class="line"><a id="l04181" name="l04181"></a><span class="lineno"> 4181</span> </div>
+<div class="line"><a id="l04182" name="l04182"></a><span class="lineno"> 4182</span>  <span class="keywordtype">bool</span> uuidexistswarning = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l04183" name="l04183"></a><span class="lineno"> 4183</span>  <span class="keywordtype">bool</span> voxelwarning = <span class="keyword">false</span>;</div>
 <div class="line"><a id="l04184" name="l04184"></a><span class="lineno"> 4184</span> </div>
-<div class="line"><a id="l04185" name="l04185"></a><span class="lineno"> 4185</span>  <span class="keywordflow">for</span> ( <span class="keywordtype">size_t</span> p : UUIDs ) {</div>
-<div class="line"><a id="l04186" name="l04186"></a><span class="lineno"> 4186</span> </div>
-<div class="line"><a id="l04187" name="l04187"></a><span class="lineno"> 4187</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(p) ){</div>
-<div class="line"><a id="l04188" name="l04188"></a><span class="lineno"> 4188</span>      uuidexistswarning = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l04189" name="l04189"></a><span class="lineno"> 4189</span>      <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l04190" name="l04190"></a><span class="lineno"> 4190</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( getPrimitivePointer_private(p)-&gt;getType()==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a963e2e943d9bd4d5c4648473802cf78c">PRIMITIVE_TYPE_VOXEL</a> ){</div>
-<div class="line"><a id="l04191" name="l04191"></a><span class="lineno"> 4191</span>      voxelwarning = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l04192" name="l04192"></a><span class="lineno"> 4192</span>      <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l04193" name="l04193"></a><span class="lineno"> 4193</span>    }</div>
+<div class="line"><a id="l04185" name="l04185"></a><span class="lineno"> 4185</span>  std::vector&lt;vec3&gt; verts;</div>
+<div class="line"><a id="l04186" name="l04186"></a><span class="lineno"> 4186</span>  std::vector&lt;vec2&gt; uv;</div>
+<div class="line"><a id="l04187" name="l04187"></a><span class="lineno"> 4187</span>  std::map&lt; uint, std::vector&lt;int3&gt; &gt; faces;</div>
+<div class="line"><a id="l04188" name="l04188"></a><span class="lineno"> 4188</span>  std::map&lt; uint, std::vector&lt;int3&gt; &gt; uv_inds;</div>
+<div class="line"><a id="l04189" name="l04189"></a><span class="lineno"> 4189</span>  <span class="keywordtype">size_t</span> vertex_count = 1;  <span class="comment">//OBJ files start indices at 1</span></div>
+<div class="line"><a id="l04190" name="l04190"></a><span class="lineno"> 4190</span>  <span class="keywordtype">size_t</span> uv_count = 1;</div>
+<div class="line"><a id="l04191" name="l04191"></a><span class="lineno"> 4191</span>  std::map&lt;uint,std::vector&lt;uint&gt; &gt; UUIDs_write;</div>
+<div class="line"><a id="l04192" name="l04192"></a><span class="lineno"> 4192</span> </div>
+<div class="line"><a id="l04193" name="l04193"></a><span class="lineno"> 4193</span>  <span class="keywordflow">for</span> ( <span class="keywordtype">size_t</span> p : UUIDs ) {</div>
 <div class="line"><a id="l04194" name="l04194"></a><span class="lineno"> 4194</span> </div>
-<div class="line"><a id="l04195" name="l04195"></a><span class="lineno"> 4195</span>    std::vector &lt; vec3 &gt; vertices = getPrimitivePointer_private(p)-&gt;getVertices();</div>
-<div class="line"><a id="l04196" name="l04196"></a><span class="lineno"> 4196</span>    <a class="code hl_enumeration" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601">PrimitiveType</a> type = getPrimitivePointer_private(p)-&gt;getType();</div>
-<div class="line"><a id="l04197" name="l04197"></a><span class="lineno"> 4197</span>    <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> C = getPrimitivePointer_private(p)-&gt;getColor();</div>
-<div class="line"><a id="l04198" name="l04198"></a><span class="lineno"> 4198</span>    std::string texturefile = getPrimitivePointer_private(p)-&gt;getTextureFile();</div>
-<div class="line"><a id="l04199" name="l04199"></a><span class="lineno"> 4199</span> </div>
-<div class="line"><a id="l04200" name="l04200"></a><span class="lineno"> 4200</span>    <span class="keywordtype">bool</span> material_exists=<span class="keyword">false</span>;</div>
-<div class="line"><a id="l04201" name="l04201"></a><span class="lineno"> 4201</span>    uint material_ID = 99999;</div>
+<div class="line"><a id="l04195" name="l04195"></a><span class="lineno"> 4195</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(p) ){</div>
+<div class="line"><a id="l04196" name="l04196"></a><span class="lineno"> 4196</span>      uuidexistswarning = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l04197" name="l04197"></a><span class="lineno"> 4197</span>      <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l04198" name="l04198"></a><span class="lineno"> 4198</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( getPrimitivePointer_private(p)-&gt;getType()==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a963e2e943d9bd4d5c4648473802cf78c">PRIMITIVE_TYPE_VOXEL</a> ){</div>
+<div class="line"><a id="l04199" name="l04199"></a><span class="lineno"> 4199</span>      voxelwarning = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l04200" name="l04200"></a><span class="lineno"> 4200</span>      <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l04201" name="l04201"></a><span class="lineno"> 4201</span>    }</div>
 <div class="line"><a id="l04202" name="l04202"></a><span class="lineno"> 4202</span> </div>
-<div class="line"><a id="l04203" name="l04203"></a><span class="lineno"> 4203</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp; material : materials) {</div>
-<div class="line"><a id="l04204" name="l04204"></a><span class="lineno"> 4204</span> </div>
-<div class="line"><a id="l04205" name="l04205"></a><span class="lineno"> 4205</span>      <span class="keywordflow">if</span>( material.texture==texturefile &amp;&amp; material.color==C &amp;&amp; material.textureColorIsOverridden==getPrimitivePointer_private(p)-&gt;isTextureColorOverridden() ){</div>
-<div class="line"><a id="l04206" name="l04206"></a><span class="lineno"> 4206</span>        material_exists=<span class="keyword">true</span>;</div>
-<div class="line"><a id="l04207" name="l04207"></a><span class="lineno"> 4207</span>        material_ID = material.materialID;</div>
-<div class="line"><a id="l04208" name="l04208"></a><span class="lineno"> 4208</span>        <span class="keywordflow">break</span>;</div>
-<div class="line"><a id="l04209" name="l04209"></a><span class="lineno"> 4209</span>      }</div>
+<div class="line"><a id="l04203" name="l04203"></a><span class="lineno"> 4203</span>    std::vector &lt; vec3 &gt; vertices = getPrimitivePointer_private(p)-&gt;getVertices();</div>
+<div class="line"><a id="l04204" name="l04204"></a><span class="lineno"> 4204</span>    <a class="code hl_enumeration" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601">PrimitiveType</a> type = getPrimitivePointer_private(p)-&gt;getType();</div>
+<div class="line"><a id="l04205" name="l04205"></a><span class="lineno"> 4205</span>    <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> C = getPrimitivePointer_private(p)-&gt;getColor();</div>
+<div class="line"><a id="l04206" name="l04206"></a><span class="lineno"> 4206</span>    std::string texturefile = getPrimitivePointer_private(p)-&gt;getTextureFile();</div>
+<div class="line"><a id="l04207" name="l04207"></a><span class="lineno"> 4207</span> </div>
+<div class="line"><a id="l04208" name="l04208"></a><span class="lineno"> 4208</span>    <span class="keywordtype">bool</span> material_exists=<span class="keyword">false</span>;</div>
+<div class="line"><a id="l04209" name="l04209"></a><span class="lineno"> 4209</span>    uint material_ID = 99999;</div>
 <div class="line"><a id="l04210" name="l04210"></a><span class="lineno"> 4210</span> </div>
-<div class="line"><a id="l04211" name="l04211"></a><span class="lineno"> 4211</span>    }</div>
+<div class="line"><a id="l04211" name="l04211"></a><span class="lineno"> 4211</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp; material : materials) {</div>
 <div class="line"><a id="l04212" name="l04212"></a><span class="lineno"> 4212</span> </div>
-<div class="line"><a id="l04213" name="l04213"></a><span class="lineno"> 4213</span>    <span class="keywordflow">if</span>( !material_exists ){</div>
-<div class="line"><a id="l04214" name="l04214"></a><span class="lineno"> 4214</span>      OBJmaterial mat(C,texturefile, materials.size() );</div>
-<div class="line"><a id="l04215" name="l04215"></a><span class="lineno"> 4215</span>      materials.emplace_back(mat);</div>
-<div class="line"><a id="l04216" name="l04216"></a><span class="lineno"> 4216</span>      material_ID = mat.materialID;</div>
-<div class="line"><a id="l04217" name="l04217"></a><span class="lineno"> 4217</span>      <span class="keywordflow">if</span>( <a class="code hl_function" href="classhelios_1_1_context.html#a5e10a8afe134f4a55f65c81a9398c69c">primitiveTextureHasTransparencyChannel</a>(p) ){</div>
-<div class="line"><a id="l04218" name="l04218"></a><span class="lineno"> 4218</span>        materials.back().textureHasTransparency=<span class="keyword">true</span>;</div>
-<div class="line"><a id="l04219" name="l04219"></a><span class="lineno"> 4219</span>      }</div>
-<div class="line"><a id="l04220" name="l04220"></a><span class="lineno"> 4220</span>      <span class="keywordflow">if</span>( <a class="code hl_function" href="classhelios_1_1_context.html#aaaa6de8a55765b258d6e65c52bf5df69">isPrimitiveTextureColorOverridden</a>(p) ){</div>
-<div class="line"><a id="l04221" name="l04221"></a><span class="lineno"> 4221</span>        materials.back().textureColorIsOverridden=<span class="keyword">true</span>;</div>
-<div class="line"><a id="l04222" name="l04222"></a><span class="lineno"> 4222</span>      }</div>
-<div class="line"><a id="l04223" name="l04223"></a><span class="lineno"> 4223</span>    }</div>
-<div class="line"><a id="l04224" name="l04224"></a><span class="lineno"> 4224</span> </div>
-<div class="line"><a id="l04225" name="l04225"></a><span class="lineno"> 4225</span>    <span class="keywordflow">if</span>( !primitive_dat_fields.empty() ) {</div>
-<div class="line"><a id="l04226" name="l04226"></a><span class="lineno"> 4226</span>      UUIDs_write[material_ID].push_back(p);</div>
-<div class="line"><a id="l04227" name="l04227"></a><span class="lineno"> 4227</span>    }</div>
-<div class="line"><a id="l04228" name="l04228"></a><span class="lineno"> 4228</span> </div>
-<div class="line"><a id="l04229" name="l04229"></a><span class="lineno"> 4229</span>    <span class="keywordflow">if</span> (type == <a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601aeed8005c1692d92beefcbafe8147207c">PRIMITIVE_TYPE_TRIANGLE</a>) {</div>
-<div class="line"><a id="l04230" name="l04230"></a><span class="lineno"> 4230</span> </div>
-<div class="line"><a id="l04231" name="l04231"></a><span class="lineno"> 4231</span>      faces[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)vertex_count, (<span class="keywordtype">int</span>)vertex_count + 1, (<span class="keywordtype">int</span>)vertex_count + 2));</div>
-<div class="line"><a id="l04232" name="l04232"></a><span class="lineno"> 4232</span>      <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; 3; i++) {</div>
-<div class="line"><a id="l04233" name="l04233"></a><span class="lineno"> 4233</span>        verts.push_back(vertices.at(i));</div>
-<div class="line"><a id="l04234" name="l04234"></a><span class="lineno"> 4234</span>        vertex_count++;</div>
-<div class="line"><a id="l04235" name="l04235"></a><span class="lineno"> 4235</span>      }</div>
+<div class="line"><a id="l04213" name="l04213"></a><span class="lineno"> 4213</span>      <span class="keywordflow">if</span>( material.texture==texturefile &amp;&amp; material.color==C &amp;&amp; material.textureColorIsOverridden==getPrimitivePointer_private(p)-&gt;isTextureColorOverridden() ){</div>
+<div class="line"><a id="l04214" name="l04214"></a><span class="lineno"> 4214</span>        material_exists=<span class="keyword">true</span>;</div>
+<div class="line"><a id="l04215" name="l04215"></a><span class="lineno"> 4215</span>        material_ID = material.materialID;</div>
+<div class="line"><a id="l04216" name="l04216"></a><span class="lineno"> 4216</span>        <span class="keywordflow">break</span>;</div>
+<div class="line"><a id="l04217" name="l04217"></a><span class="lineno"> 4217</span>      }</div>
+<div class="line"><a id="l04218" name="l04218"></a><span class="lineno"> 4218</span> </div>
+<div class="line"><a id="l04219" name="l04219"></a><span class="lineno"> 4219</span>    }</div>
+<div class="line"><a id="l04220" name="l04220"></a><span class="lineno"> 4220</span> </div>
+<div class="line"><a id="l04221" name="l04221"></a><span class="lineno"> 4221</span>    <span class="keywordflow">if</span>( !material_exists ){</div>
+<div class="line"><a id="l04222" name="l04222"></a><span class="lineno"> 4222</span>      OBJmaterial mat(C,texturefile, materials.size() );</div>
+<div class="line"><a id="l04223" name="l04223"></a><span class="lineno"> 4223</span>      materials.emplace_back(mat);</div>
+<div class="line"><a id="l04224" name="l04224"></a><span class="lineno"> 4224</span>      material_ID = mat.materialID;</div>
+<div class="line"><a id="l04225" name="l04225"></a><span class="lineno"> 4225</span>      <span class="keywordflow">if</span>( <a class="code hl_function" href="classhelios_1_1_context.html#a5e10a8afe134f4a55f65c81a9398c69c">primitiveTextureHasTransparencyChannel</a>(p) ){</div>
+<div class="line"><a id="l04226" name="l04226"></a><span class="lineno"> 4226</span>        materials.back().textureHasTransparency=<span class="keyword">true</span>;</div>
+<div class="line"><a id="l04227" name="l04227"></a><span class="lineno"> 4227</span>      }</div>
+<div class="line"><a id="l04228" name="l04228"></a><span class="lineno"> 4228</span>      <span class="keywordflow">if</span>( <a class="code hl_function" href="classhelios_1_1_context.html#aaaa6de8a55765b258d6e65c52bf5df69">isPrimitiveTextureColorOverridden</a>(p) ){</div>
+<div class="line"><a id="l04229" name="l04229"></a><span class="lineno"> 4229</span>        materials.back().textureColorIsOverridden=<span class="keyword">true</span>;</div>
+<div class="line"><a id="l04230" name="l04230"></a><span class="lineno"> 4230</span>      }</div>
+<div class="line"><a id="l04231" name="l04231"></a><span class="lineno"> 4231</span>    }</div>
+<div class="line"><a id="l04232" name="l04232"></a><span class="lineno"> 4232</span> </div>
+<div class="line"><a id="l04233" name="l04233"></a><span class="lineno"> 4233</span>    <span class="keywordflow">if</span>( !primitive_dat_fields.empty() ) {</div>
+<div class="line"><a id="l04234" name="l04234"></a><span class="lineno"> 4234</span>      UUIDs_write[material_ID].push_back(p);</div>
+<div class="line"><a id="l04235" name="l04235"></a><span class="lineno"> 4235</span>    }</div>
 <div class="line"><a id="l04236" name="l04236"></a><span class="lineno"> 4236</span> </div>
-<div class="line"><a id="l04237" name="l04237"></a><span class="lineno"> 4237</span>      std::vector &lt; vec2 &gt; uv_v = getTrianglePointer_private(p)-&gt;getTextureUV();</div>
-<div class="line"><a id="l04238" name="l04238"></a><span class="lineno"> 4238</span>      <span class="keywordflow">if</span> (getTrianglePointer_private(p)-&gt;hasTexture() ) {</div>
-<div class="line"><a id="l04239" name="l04239"></a><span class="lineno"> 4239</span>        uv_inds[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)uv_count, (<span class="keywordtype">int</span>)uv_count + 1, (<span class="keywordtype">int</span>)uv_count + 2));</div>
-<div class="line"><a id="l04240" name="l04240"></a><span class="lineno"> 4240</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; 3; i++) {</div>
-<div class="line"><a id="l04241" name="l04241"></a><span class="lineno"> 4241</span>          uv.push_back( uv_v.at(i) );</div>
-<div class="line"><a id="l04242" name="l04242"></a><span class="lineno"> 4242</span>          uv_count++;</div>
-<div class="line"><a id="l04243" name="l04243"></a><span class="lineno"> 4243</span>        }</div>
-<div class="line"><a id="l04244" name="l04244"></a><span class="lineno"> 4244</span>      }</div>
-<div class="line"><a id="l04245" name="l04245"></a><span class="lineno"> 4245</span>      <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l04246" name="l04246"></a><span class="lineno"> 4246</span>        uv_inds[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>(-1, -1, -1));</div>
-<div class="line"><a id="l04247" name="l04247"></a><span class="lineno"> 4247</span>      }</div>
-<div class="line"><a id="l04248" name="l04248"></a><span class="lineno"> 4248</span> </div>
-<div class="line"><a id="l04249" name="l04249"></a><span class="lineno"> 4249</span>    } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (type == <a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a6fcd29f0c812849b3eb5bedec52cd744">PRIMITIVE_TYPE_PATCH</a>) {</div>
-<div class="line"><a id="l04250" name="l04250"></a><span class="lineno"> 4250</span> </div>
-<div class="line"><a id="l04251" name="l04251"></a><span class="lineno"> 4251</span>      faces[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)vertex_count, (<span class="keywordtype">int</span>)vertex_count + 1, (<span class="keywordtype">int</span>)vertex_count + 2));</div>
-<div class="line"><a id="l04252" name="l04252"></a><span class="lineno"> 4252</span>      faces[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)vertex_count, (<span class="keywordtype">int</span>)vertex_count + 2, (<span class="keywordtype">int</span>)vertex_count + 3));</div>
-<div class="line"><a id="l04253" name="l04253"></a><span class="lineno"> 4253</span>      <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; 4; i++) {</div>
-<div class="line"><a id="l04254" name="l04254"></a><span class="lineno"> 4254</span>        verts.push_back(vertices.at(i));</div>
-<div class="line"><a id="l04255" name="l04255"></a><span class="lineno"> 4255</span>        vertex_count++;</div>
-<div class="line"><a id="l04256" name="l04256"></a><span class="lineno"> 4256</span>      }</div>
-<div class="line"><a id="l04257" name="l04257"></a><span class="lineno"> 4257</span>      std::vector &lt; vec2 &gt; uv_v;</div>
-<div class="line"><a id="l04258" name="l04258"></a><span class="lineno"> 4258</span>      uv_v = getPatchPointer_private(p)-&gt;getTextureUV();</div>
-<div class="line"><a id="l04259" name="l04259"></a><span class="lineno"> 4259</span> </div>
-<div class="line"><a id="l04260" name="l04260"></a><span class="lineno"> 4260</span>      <span class="keywordflow">if</span> (getPatchPointer_private(p)-&gt;hasTexture() ) {</div>
-<div class="line"><a id="l04261" name="l04261"></a><span class="lineno"> 4261</span>        uv_inds[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)uv_count, (<span class="keywordtype">int</span>)uv_count + 1, (<span class="keywordtype">int</span>)uv_count + 2));</div>
-<div class="line"><a id="l04262" name="l04262"></a><span class="lineno"> 4262</span>        uv_inds[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)uv_count, (<span class="keywordtype">int</span>)uv_count + 2, (<span class="keywordtype">int</span>)uv_count + 3));</div>
-<div class="line"><a id="l04263" name="l04263"></a><span class="lineno"> 4263</span>        <span class="keywordflow">if</span> (uv_v.empty()) {  <span class="comment">//default (u,v)</span></div>
-<div class="line"><a id="l04264" name="l04264"></a><span class="lineno"> 4264</span>          uv.push_back( <a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(0, 1) );</div>
-<div class="line"><a id="l04265" name="l04265"></a><span class="lineno"> 4265</span>          uv.push_back( <a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(1, 1) );</div>
-<div class="line"><a id="l04266" name="l04266"></a><span class="lineno"> 4266</span>          uv.push_back( <a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(1, 0) );</div>
-<div class="line"><a id="l04267" name="l04267"></a><span class="lineno"> 4267</span>          uv.push_back( <a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(0, 0) );</div>
-<div class="line"><a id="l04268" name="l04268"></a><span class="lineno"> 4268</span>          uv_count += 4;</div>
-<div class="line"><a id="l04269" name="l04269"></a><span class="lineno"> 4269</span>        } <span class="keywordflow">else</span> {  <span class="comment">//custom (u,v)</span></div>
-<div class="line"><a id="l04270" name="l04270"></a><span class="lineno"> 4270</span>          <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; 4; i++) {</div>
-<div class="line"><a id="l04271" name="l04271"></a><span class="lineno"> 4271</span>            uv.push_back( uv_v.at(i) );</div>
-<div class="line"><a id="l04272" name="l04272"></a><span class="lineno"> 4272</span>            uv_count++;</div>
-<div class="line"><a id="l04273" name="l04273"></a><span class="lineno"> 4273</span>          }</div>
-<div class="line"><a id="l04274" name="l04274"></a><span class="lineno"> 4274</span>        }</div>
-<div class="line"><a id="l04275" name="l04275"></a><span class="lineno"> 4275</span>      } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l04276" name="l04276"></a><span class="lineno"> 4276</span>        uv_inds[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>(-1, -1, -1));</div>
-<div class="line"><a id="l04277" name="l04277"></a><span class="lineno"> 4277</span>        uv_inds[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>(-1, -1, -1));</div>
-<div class="line"><a id="l04278" name="l04278"></a><span class="lineno"> 4278</span>      }</div>
-<div class="line"><a id="l04279" name="l04279"></a><span class="lineno"> 4279</span> </div>
-<div class="line"><a id="l04280" name="l04280"></a><span class="lineno"> 4280</span>    }</div>
-<div class="line"><a id="l04281" name="l04281"></a><span class="lineno"> 4281</span>  }</div>
-<div class="line"><a id="l04282" name="l04282"></a><span class="lineno"> 4282</span> </div>
-<div class="line"><a id="l04283" name="l04283"></a><span class="lineno"> 4283</span>  <span class="comment">//  assert(verts.size() == faces.size());</span></div>
-<div class="line"><a id="l04284" name="l04284"></a><span class="lineno"> 4284</span>  assert(uv_inds.size() == faces.size());</div>
-<div class="line"><a id="l04285" name="l04285"></a><span class="lineno"> 4285</span>  <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;faces.size(); i++ ){</div>
-<div class="line"><a id="l04286" name="l04286"></a><span class="lineno"> 4286</span>    assert( uv_inds.at(i).size() == faces.at(i).size() );</div>
-<div class="line"><a id="l04287" name="l04287"></a><span class="lineno"> 4287</span>  }</div>
-<div class="line"><a id="l04288" name="l04288"></a><span class="lineno"> 4288</span> </div>
-<div class="line"><a id="l04289" name="l04289"></a><span class="lineno"> 4289</span>  <span class="comment">//copy material textures to new directory and edit old file paths</span></div>
-<div class="line"><a id="l04290" name="l04290"></a><span class="lineno"> 4290</span>  std::string texture_dir = std::string(file_path);</div>
-<div class="line"><a id="l04291" name="l04291"></a><span class="lineno"> 4291</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> mat = 0; mat &lt; materials.size(); mat++) {</div>
-<div class="line"><a id="l04292" name="l04292"></a><span class="lineno"> 4292</span>        std::string texture = materials.at(mat).texture;</div>
-<div class="line"><a id="l04293" name="l04293"></a><span class="lineno"> 4293</span>        <span class="keywordflow">if</span>( !texture.empty() &amp;&amp; std::filesystem::exists(texture) ) {</div>
-<div class="line"><a id="l04294" name="l04294"></a><span class="lineno"> 4294</span>            <span class="keyword">auto</span> file = std::filesystem::path(texture).filename();</div>
-<div class="line"><a id="l04295" name="l04295"></a><span class="lineno"> 4295</span>            std::filesystem::copy_file( texture, texture_dir + file.string(), std::filesystem::copy_options::overwrite_existing );</div>
-<div class="line"><a id="l04296" name="l04296"></a><span class="lineno"> 4296</span>            materials.at(mat).texture = file.string();</div>
-<div class="line"><a id="l04297" name="l04297"></a><span class="lineno"> 4297</span>        }</div>
-<div class="line"><a id="l04298" name="l04298"></a><span class="lineno"> 4298</span>    }</div>
-<div class="line"><a id="l04299" name="l04299"></a><span class="lineno"> 4299</span> </div>
-<div class="line"><a id="l04300" name="l04300"></a><span class="lineno"> 4300</span>  std::ofstream objfstream;</div>
-<div class="line"><a id="l04301" name="l04301"></a><span class="lineno"> 4301</span>  objfstream.open(objfilename);</div>
-<div class="line"><a id="l04302" name="l04302"></a><span class="lineno"> 4302</span>  std::ofstream mtlfstream;</div>
-<div class="line"><a id="l04303" name="l04303"></a><span class="lineno"> 4303</span>  mtlfstream.open(mtlfilename);</div>
-<div class="line"><a id="l04304" name="l04304"></a><span class="lineno"> 4304</span> </div>
-<div class="line"><a id="l04305" name="l04305"></a><span class="lineno"> 4305</span>  objfstream &lt;&lt; <span class="stringliteral">&quot;# Helios auto-generated OBJ File&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04306" name="l04306"></a><span class="lineno"> 4306</span>  objfstream &lt;&lt; <span class="stringliteral">&quot;# baileylab.ucdavis.edu/software/helios&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04307" name="l04307"></a><span class="lineno"> 4307</span>  objfstream &lt;&lt; <span class="stringliteral">&quot;mtllib &quot;</span> &lt;&lt; mtlfilename &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04308" name="l04308"></a><span class="lineno"> 4308</span> </div>
-<div class="line"><a id="l04309" name="l04309"></a><span class="lineno"> 4309</span>  <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;vert : verts) {</div>
-<div class="line"><a id="l04310" name="l04310"></a><span class="lineno"> 4310</span>    objfstream &lt;&lt; <span class="stringliteral">&quot;v &quot;</span> &lt;&lt; vert.x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; vert.y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; vert.z &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04311" name="l04311"></a><span class="lineno"> 4311</span>  }</div>
-<div class="line"><a id="l04312" name="l04312"></a><span class="lineno"> 4312</span>  <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;v : uv){</div>
-<div class="line"><a id="l04313" name="l04313"></a><span class="lineno"> 4313</span>    objfstream &lt;&lt; <span class="stringliteral">&quot;vt &quot;</span> &lt;&lt; v.x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; v.y &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04314" name="l04314"></a><span class="lineno"> 4314</span>  }</div>
-<div class="line"><a id="l04315" name="l04315"></a><span class="lineno"> 4315</span> </div>
-<div class="line"><a id="l04316" name="l04316"></a><span class="lineno"> 4316</span>  <span class="keywordflow">for</span>( <span class="keywordtype">int</span> mat=0; mat&lt;materials.size(); mat++ ) {</div>
-<div class="line"><a id="l04317" name="l04317"></a><span class="lineno"> 4317</span> </div>
-<div class="line"><a id="l04318" name="l04318"></a><span class="lineno"> 4318</span>    assert(materials.at(mat).materialID==mat);</div>
-<div class="line"><a id="l04319" name="l04319"></a><span class="lineno"> 4319</span> </div>
-<div class="line"><a id="l04320" name="l04320"></a><span class="lineno"> 4320</span>    objfstream &lt;&lt; <span class="stringliteral">&quot;usemtl material&quot;</span> &lt;&lt; mat &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04321" name="l04321"></a><span class="lineno"> 4321</span> </div>
-<div class="line"><a id="l04322" name="l04322"></a><span class="lineno"> 4322</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> f = 0; f &lt; faces.at(mat).size(); f++) {</div>
+<div class="line"><a id="l04237" name="l04237"></a><span class="lineno"> 4237</span>    <span class="keywordflow">if</span> (type == <a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601aeed8005c1692d92beefcbafe8147207c">PRIMITIVE_TYPE_TRIANGLE</a>) {</div>
+<div class="line"><a id="l04238" name="l04238"></a><span class="lineno"> 4238</span> </div>
+<div class="line"><a id="l04239" name="l04239"></a><span class="lineno"> 4239</span>      faces[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)vertex_count, (<span class="keywordtype">int</span>)vertex_count + 1, (<span class="keywordtype">int</span>)vertex_count + 2));</div>
+<div class="line"><a id="l04240" name="l04240"></a><span class="lineno"> 4240</span>      <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; 3; i++) {</div>
+<div class="line"><a id="l04241" name="l04241"></a><span class="lineno"> 4241</span>        verts.push_back(vertices.at(i));</div>
+<div class="line"><a id="l04242" name="l04242"></a><span class="lineno"> 4242</span>        vertex_count++;</div>
+<div class="line"><a id="l04243" name="l04243"></a><span class="lineno"> 4243</span>      }</div>
+<div class="line"><a id="l04244" name="l04244"></a><span class="lineno"> 4244</span> </div>
+<div class="line"><a id="l04245" name="l04245"></a><span class="lineno"> 4245</span>      std::vector &lt; vec2 &gt; uv_v = getTrianglePointer_private(p)-&gt;getTextureUV();</div>
+<div class="line"><a id="l04246" name="l04246"></a><span class="lineno"> 4246</span>      <span class="keywordflow">if</span> (getTrianglePointer_private(p)-&gt;hasTexture() ) {</div>
+<div class="line"><a id="l04247" name="l04247"></a><span class="lineno"> 4247</span>        uv_inds[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)uv_count, (<span class="keywordtype">int</span>)uv_count + 1, (<span class="keywordtype">int</span>)uv_count + 2));</div>
+<div class="line"><a id="l04248" name="l04248"></a><span class="lineno"> 4248</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; 3; i++) {</div>
+<div class="line"><a id="l04249" name="l04249"></a><span class="lineno"> 4249</span>          uv.push_back( uv_v.at(i) );</div>
+<div class="line"><a id="l04250" name="l04250"></a><span class="lineno"> 4250</span>          uv_count++;</div>
+<div class="line"><a id="l04251" name="l04251"></a><span class="lineno"> 4251</span>        }</div>
+<div class="line"><a id="l04252" name="l04252"></a><span class="lineno"> 4252</span>      }</div>
+<div class="line"><a id="l04253" name="l04253"></a><span class="lineno"> 4253</span>      <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l04254" name="l04254"></a><span class="lineno"> 4254</span>        uv_inds[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>(-1, -1, -1));</div>
+<div class="line"><a id="l04255" name="l04255"></a><span class="lineno"> 4255</span>      }</div>
+<div class="line"><a id="l04256" name="l04256"></a><span class="lineno"> 4256</span> </div>
+<div class="line"><a id="l04257" name="l04257"></a><span class="lineno"> 4257</span>    } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (type == <a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a6fcd29f0c812849b3eb5bedec52cd744">PRIMITIVE_TYPE_PATCH</a>) {</div>
+<div class="line"><a id="l04258" name="l04258"></a><span class="lineno"> 4258</span> </div>
+<div class="line"><a id="l04259" name="l04259"></a><span class="lineno"> 4259</span>      faces[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)vertex_count, (<span class="keywordtype">int</span>)vertex_count + 1, (<span class="keywordtype">int</span>)vertex_count + 2));</div>
+<div class="line"><a id="l04260" name="l04260"></a><span class="lineno"> 4260</span>      faces[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)vertex_count, (<span class="keywordtype">int</span>)vertex_count + 2, (<span class="keywordtype">int</span>)vertex_count + 3));</div>
+<div class="line"><a id="l04261" name="l04261"></a><span class="lineno"> 4261</span>      <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; 4; i++) {</div>
+<div class="line"><a id="l04262" name="l04262"></a><span class="lineno"> 4262</span>        verts.push_back(vertices.at(i));</div>
+<div class="line"><a id="l04263" name="l04263"></a><span class="lineno"> 4263</span>        vertex_count++;</div>
+<div class="line"><a id="l04264" name="l04264"></a><span class="lineno"> 4264</span>      }</div>
+<div class="line"><a id="l04265" name="l04265"></a><span class="lineno"> 4265</span>      std::vector &lt; vec2 &gt; uv_v;</div>
+<div class="line"><a id="l04266" name="l04266"></a><span class="lineno"> 4266</span>      uv_v = getPatchPointer_private(p)-&gt;getTextureUV();</div>
+<div class="line"><a id="l04267" name="l04267"></a><span class="lineno"> 4267</span> </div>
+<div class="line"><a id="l04268" name="l04268"></a><span class="lineno"> 4268</span>      <span class="keywordflow">if</span> (getPatchPointer_private(p)-&gt;hasTexture() ) {</div>
+<div class="line"><a id="l04269" name="l04269"></a><span class="lineno"> 4269</span>        uv_inds[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)uv_count, (<span class="keywordtype">int</span>)uv_count + 1, (<span class="keywordtype">int</span>)uv_count + 2));</div>
+<div class="line"><a id="l04270" name="l04270"></a><span class="lineno"> 4270</span>        uv_inds[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>( (<span class="keywordtype">int</span>)uv_count, (<span class="keywordtype">int</span>)uv_count + 2, (<span class="keywordtype">int</span>)uv_count + 3));</div>
+<div class="line"><a id="l04271" name="l04271"></a><span class="lineno"> 4271</span>        <span class="keywordflow">if</span> (uv_v.empty()) {  <span class="comment">//default (u,v)</span></div>
+<div class="line"><a id="l04272" name="l04272"></a><span class="lineno"> 4272</span>          uv.push_back( <a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(0, 1) );</div>
+<div class="line"><a id="l04273" name="l04273"></a><span class="lineno"> 4273</span>          uv.push_back( <a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(1, 1) );</div>
+<div class="line"><a id="l04274" name="l04274"></a><span class="lineno"> 4274</span>          uv.push_back( <a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(1, 0) );</div>
+<div class="line"><a id="l04275" name="l04275"></a><span class="lineno"> 4275</span>          uv.push_back( <a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(0, 0) );</div>
+<div class="line"><a id="l04276" name="l04276"></a><span class="lineno"> 4276</span>          uv_count += 4;</div>
+<div class="line"><a id="l04277" name="l04277"></a><span class="lineno"> 4277</span>        } <span class="keywordflow">else</span> {  <span class="comment">//custom (u,v)</span></div>
+<div class="line"><a id="l04278" name="l04278"></a><span class="lineno"> 4278</span>          <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; 4; i++) {</div>
+<div class="line"><a id="l04279" name="l04279"></a><span class="lineno"> 4279</span>            uv.push_back( uv_v.at(i) );</div>
+<div class="line"><a id="l04280" name="l04280"></a><span class="lineno"> 4280</span>            uv_count++;</div>
+<div class="line"><a id="l04281" name="l04281"></a><span class="lineno"> 4281</span>          }</div>
+<div class="line"><a id="l04282" name="l04282"></a><span class="lineno"> 4282</span>        }</div>
+<div class="line"><a id="l04283" name="l04283"></a><span class="lineno"> 4283</span>      } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l04284" name="l04284"></a><span class="lineno"> 4284</span>        uv_inds[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>(-1, -1, -1));</div>
+<div class="line"><a id="l04285" name="l04285"></a><span class="lineno"> 4285</span>        uv_inds[material_ID].push_back(<a class="code hl_function" href="helios__vector__types_8h.html#a88347513c8d7e764d5c820b61e5905e2">make_int3</a>(-1, -1, -1));</div>
+<div class="line"><a id="l04286" name="l04286"></a><span class="lineno"> 4286</span>      }</div>
+<div class="line"><a id="l04287" name="l04287"></a><span class="lineno"> 4287</span> </div>
+<div class="line"><a id="l04288" name="l04288"></a><span class="lineno"> 4288</span>    }</div>
+<div class="line"><a id="l04289" name="l04289"></a><span class="lineno"> 4289</span>  }</div>
+<div class="line"><a id="l04290" name="l04290"></a><span class="lineno"> 4290</span> </div>
+<div class="line"><a id="l04291" name="l04291"></a><span class="lineno"> 4291</span>  <span class="comment">//  assert(verts.size() == faces.size());</span></div>
+<div class="line"><a id="l04292" name="l04292"></a><span class="lineno"> 4292</span>  assert(uv_inds.size() == faces.size());</div>
+<div class="line"><a id="l04293" name="l04293"></a><span class="lineno"> 4293</span>  <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;faces.size(); i++ ){</div>
+<div class="line"><a id="l04294" name="l04294"></a><span class="lineno"> 4294</span>    assert( uv_inds.at(i).size() == faces.at(i).size() );</div>
+<div class="line"><a id="l04295" name="l04295"></a><span class="lineno"> 4295</span>  }</div>
+<div class="line"><a id="l04296" name="l04296"></a><span class="lineno"> 4296</span> </div>
+<div class="line"><a id="l04297" name="l04297"></a><span class="lineno"> 4297</span>  <span class="comment">//copy material textures to new directory and edit old file paths</span></div>
+<div class="line"><a id="l04298" name="l04298"></a><span class="lineno"> 4298</span>  std::string texture_dir = std::string(file_path);</div>
+<div class="line"><a id="l04299" name="l04299"></a><span class="lineno"> 4299</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> mat = 0; mat &lt; materials.size(); mat++) {</div>
+<div class="line"><a id="l04300" name="l04300"></a><span class="lineno"> 4300</span>        std::string texture = materials.at(mat).texture;</div>
+<div class="line"><a id="l04301" name="l04301"></a><span class="lineno"> 4301</span>        <span class="keywordflow">if</span>( !texture.empty() &amp;&amp; std::filesystem::exists(texture) ) {</div>
+<div class="line"><a id="l04302" name="l04302"></a><span class="lineno"> 4302</span>            <span class="keyword">auto</span> file = std::filesystem::path(texture).filename();</div>
+<div class="line"><a id="l04303" name="l04303"></a><span class="lineno"> 4303</span>            std::filesystem::copy_file( texture, texture_dir + file.string(), std::filesystem::copy_options::overwrite_existing );</div>
+<div class="line"><a id="l04304" name="l04304"></a><span class="lineno"> 4304</span>            materials.at(mat).texture = file.string();</div>
+<div class="line"><a id="l04305" name="l04305"></a><span class="lineno"> 4305</span>        }</div>
+<div class="line"><a id="l04306" name="l04306"></a><span class="lineno"> 4306</span>    }</div>
+<div class="line"><a id="l04307" name="l04307"></a><span class="lineno"> 4307</span> </div>
+<div class="line"><a id="l04308" name="l04308"></a><span class="lineno"> 4308</span>  std::ofstream objfstream;</div>
+<div class="line"><a id="l04309" name="l04309"></a><span class="lineno"> 4309</span>  objfstream.open(objfilename);</div>
+<div class="line"><a id="l04310" name="l04310"></a><span class="lineno"> 4310</span>  std::ofstream mtlfstream;</div>
+<div class="line"><a id="l04311" name="l04311"></a><span class="lineno"> 4311</span>  mtlfstream.open(mtlfilename);</div>
+<div class="line"><a id="l04312" name="l04312"></a><span class="lineno"> 4312</span> </div>
+<div class="line"><a id="l04313" name="l04313"></a><span class="lineno"> 4313</span>  objfstream &lt;&lt; <span class="stringliteral">&quot;# Helios auto-generated OBJ File&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04314" name="l04314"></a><span class="lineno"> 4314</span>  objfstream &lt;&lt; <span class="stringliteral">&quot;# baileylab.ucdavis.edu/software/helios&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04315" name="l04315"></a><span class="lineno"> 4315</span>  objfstream &lt;&lt; <span class="stringliteral">&quot;mtllib &quot;</span> &lt;&lt; mtlfilename &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04316" name="l04316"></a><span class="lineno"> 4316</span> </div>
+<div class="line"><a id="l04317" name="l04317"></a><span class="lineno"> 4317</span>  <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;vert : verts) {</div>
+<div class="line"><a id="l04318" name="l04318"></a><span class="lineno"> 4318</span>    objfstream &lt;&lt; <span class="stringliteral">&quot;v &quot;</span> &lt;&lt; vert.x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; vert.y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; vert.z &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04319" name="l04319"></a><span class="lineno"> 4319</span>  }</div>
+<div class="line"><a id="l04320" name="l04320"></a><span class="lineno"> 4320</span>  <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;v : uv){</div>
+<div class="line"><a id="l04321" name="l04321"></a><span class="lineno"> 4321</span>    objfstream &lt;&lt; <span class="stringliteral">&quot;vt &quot;</span> &lt;&lt; v.x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; v.y &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04322" name="l04322"></a><span class="lineno"> 4322</span>  }</div>
 <div class="line"><a id="l04323" name="l04323"></a><span class="lineno"> 4323</span> </div>
-<div class="line"><a id="l04324" name="l04324"></a><span class="lineno"> 4324</span>      <span class="keywordflow">if</span> ( uv.size()==0 ) {</div>
-<div class="line"><a id="l04325" name="l04325"></a><span class="lineno"> 4325</span>        objfstream &lt;&lt; <span class="stringliteral">&quot;f &quot;</span> &lt;&lt; faces.at(mat).at(f).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span></div>
-<div class="line"><a id="l04326" name="l04326"></a><span class="lineno"> 4326</span>                   &lt;&lt; faces.at(mat).at(f).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; faces.at(mat).at(f).z</div>
-<div class="line"><a id="l04327" name="l04327"></a><span class="lineno"> 4327</span>                   &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04328" name="l04328"></a><span class="lineno"> 4328</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span> (uv_inds.at(mat).at(f).x &lt; 0) {</div>
-<div class="line"><a id="l04329" name="l04329"></a><span class="lineno"> 4329</span>        objfstream &lt;&lt; <span class="stringliteral">&quot;f &quot;</span> &lt;&lt; faces.at(mat).at(f).x &lt;&lt; <span class="stringliteral">&quot;/1 &quot;</span> &lt;&lt; faces.at(mat).at(f).y</div>
-<div class="line"><a id="l04330" name="l04330"></a><span class="lineno"> 4330</span>                   &lt;&lt; <span class="stringliteral">&quot;/1 &quot;</span> &lt;&lt; faces.at(mat).at(f).z &lt;&lt; <span class="stringliteral">&quot;/1&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04331" name="l04331"></a><span class="lineno"> 4331</span>      } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l04332" name="l04332"></a><span class="lineno"> 4332</span>        objfstream &lt;&lt; <span class="stringliteral">&quot;f &quot;</span> &lt;&lt; faces.at(mat).at(f).x &lt;&lt; <span class="stringliteral">&quot;/&quot;</span></div>
-<div class="line"><a id="l04333" name="l04333"></a><span class="lineno"> 4333</span>                   &lt;&lt; uv_inds.at(mat).at(f).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; faces.at(mat).at(f).y</div>
-<div class="line"><a id="l04334" name="l04334"></a><span class="lineno"> 4334</span>                   &lt;&lt; <span class="stringliteral">&quot;/&quot;</span> &lt;&lt; uv_inds.at(mat).at(f).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span></div>
-<div class="line"><a id="l04335" name="l04335"></a><span class="lineno"> 4335</span>                   &lt;&lt; faces.at(mat).at(f).z &lt;&lt; <span class="stringliteral">&quot;/&quot;</span> &lt;&lt; uv_inds.at(mat).at(f).z</div>
-<div class="line"><a id="l04336" name="l04336"></a><span class="lineno"> 4336</span>                   &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04337" name="l04337"></a><span class="lineno"> 4337</span>      }</div>
-<div class="line"><a id="l04338" name="l04338"></a><span class="lineno"> 4338</span>    }</div>
-<div class="line"><a id="l04339" name="l04339"></a><span class="lineno"> 4339</span> </div>
-<div class="line"><a id="l04340" name="l04340"></a><span class="lineno"> 4340</span>    <span class="keywordflow">if</span>( materials.at(mat).texture.empty() ) {</div>
-<div class="line"><a id="l04341" name="l04341"></a><span class="lineno"> 4341</span>      <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> current_color = materials.at(mat).color;</div>
-<div class="line"><a id="l04342" name="l04342"></a><span class="lineno"> 4342</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;newmtl material&quot;</span> &lt;&lt; mat &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04343" name="l04343"></a><span class="lineno"> 4343</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;Ka &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a3e16659a90c69e6043c33c113b2fffe8">r</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#ae002d220d8695538760eee2a6c4e9023">g</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a1b3ba3f5b77ef3082088eff853d4c335">b</a> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04344" name="l04344"></a><span class="lineno"> 4344</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;Kd &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a3e16659a90c69e6043c33c113b2fffe8">r</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#ae002d220d8695538760eee2a6c4e9023">g</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a1b3ba3f5b77ef3082088eff853d4c335">b</a> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04345" name="l04345"></a><span class="lineno"> 4345</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;Ks 0.0 0.0 0.0&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04346" name="l04346"></a><span class="lineno"> 4346</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;illum 2 &quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04347" name="l04347"></a><span class="lineno"> 4347</span>    }<span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l04348" name="l04348"></a><span class="lineno"> 4348</span>      std::string current_texture = materials.at(mat).texture;</div>
-<div class="line"><a id="l04349" name="l04349"></a><span class="lineno"> 4349</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;newmtl material&quot;</span> &lt;&lt; mat &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04350" name="l04350"></a><span class="lineno"> 4350</span>      <span class="keywordflow">if</span>( materials.at(mat).textureColorIsOverridden ) {</div>
-<div class="line"><a id="l04351" name="l04351"></a><span class="lineno"> 4351</span>        <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> current_color = materials.at(mat).color;</div>
-<div class="line"><a id="l04352" name="l04352"></a><span class="lineno"> 4352</span>        mtlfstream &lt;&lt; <span class="stringliteral">&quot;Ka &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a3e16659a90c69e6043c33c113b2fffe8">r</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#ae002d220d8695538760eee2a6c4e9023">g</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a1b3ba3f5b77ef3082088eff853d4c335">b</a> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04353" name="l04353"></a><span class="lineno"> 4353</span>        mtlfstream &lt;&lt; <span class="stringliteral">&quot;Kd &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a3e16659a90c69e6043c33c113b2fffe8">r</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#ae002d220d8695538760eee2a6c4e9023">g</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a1b3ba3f5b77ef3082088eff853d4c335">b</a> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04354" name="l04354"></a><span class="lineno"> 4354</span>      }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04355" name="l04355"></a><span class="lineno"> 4355</span>        mtlfstream &lt;&lt; <span class="stringliteral">&quot;map_Kd &quot;</span> &lt;&lt; current_texture &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04356" name="l04356"></a><span class="lineno"> 4356</span>      }</div>
-<div class="line"><a id="l04357" name="l04357"></a><span class="lineno"> 4357</span>      <span class="keywordflow">if</span>( materials.at(mat).textureHasTransparency ){</div>
-<div class="line"><a id="l04358" name="l04358"></a><span class="lineno"> 4358</span>        mtlfstream &lt;&lt; <span class="stringliteral">&quot;map_d &quot;</span> &lt;&lt; current_texture &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04359" name="l04359"></a><span class="lineno"> 4359</span>      }</div>
-<div class="line"><a id="l04360" name="l04360"></a><span class="lineno"> 4360</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;Ks 0.0 0.0 0.0&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04361" name="l04361"></a><span class="lineno"> 4361</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;illum 2 &quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04362" name="l04362"></a><span class="lineno"> 4362</span>    }</div>
-<div class="line"><a id="l04363" name="l04363"></a><span class="lineno"> 4363</span> </div>
-<div class="line"><a id="l04364" name="l04364"></a><span class="lineno"> 4364</span>  }</div>
-<div class="line"><a id="l04365" name="l04365"></a><span class="lineno"> 4365</span> </div>
-<div class="line"><a id="l04366" name="l04366"></a><span class="lineno"> 4366</span>  objfstream.close();</div>
-<div class="line"><a id="l04367" name="l04367"></a><span class="lineno"> 4367</span>  mtlfstream.close();</div>
-<div class="line"><a id="l04368" name="l04368"></a><span class="lineno"> 4368</span> </div>
-<div class="line"><a id="l04369" name="l04369"></a><span class="lineno"> 4369</span>  <span class="keywordflow">if</span>( !primitive_dat_fields.empty() ){</div>
-<div class="line"><a id="l04370" name="l04370"></a><span class="lineno"> 4370</span> </div>
-<div class="line"><a id="l04371" name="l04371"></a><span class="lineno"> 4371</span>    <span class="keywordtype">bool</span> dataexistswarning = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l04372" name="l04372"></a><span class="lineno"> 4372</span>    <span class="keywordtype">bool</span> datatypewarning = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l04324" name="l04324"></a><span class="lineno"> 4324</span>  <span class="keywordflow">for</span>( <span class="keywordtype">int</span> mat=0; mat&lt;materials.size(); mat++ ) {</div>
+<div class="line"><a id="l04325" name="l04325"></a><span class="lineno"> 4325</span> </div>
+<div class="line"><a id="l04326" name="l04326"></a><span class="lineno"> 4326</span>    assert(materials.at(mat).materialID==mat);</div>
+<div class="line"><a id="l04327" name="l04327"></a><span class="lineno"> 4327</span> </div>
+<div class="line"><a id="l04328" name="l04328"></a><span class="lineno"> 4328</span>    objfstream &lt;&lt; <span class="stringliteral">&quot;usemtl material&quot;</span> &lt;&lt; mat &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04329" name="l04329"></a><span class="lineno"> 4329</span> </div>
+<div class="line"><a id="l04330" name="l04330"></a><span class="lineno"> 4330</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> f = 0; f &lt; faces.at(mat).size(); f++) {</div>
+<div class="line"><a id="l04331" name="l04331"></a><span class="lineno"> 4331</span> </div>
+<div class="line"><a id="l04332" name="l04332"></a><span class="lineno"> 4332</span>      <span class="keywordflow">if</span> ( uv.size()==0 ) {</div>
+<div class="line"><a id="l04333" name="l04333"></a><span class="lineno"> 4333</span>        objfstream &lt;&lt; <span class="stringliteral">&quot;f &quot;</span> &lt;&lt; faces.at(mat).at(f).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span></div>
+<div class="line"><a id="l04334" name="l04334"></a><span class="lineno"> 4334</span>                   &lt;&lt; faces.at(mat).at(f).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; faces.at(mat).at(f).z</div>
+<div class="line"><a id="l04335" name="l04335"></a><span class="lineno"> 4335</span>                   &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04336" name="l04336"></a><span class="lineno"> 4336</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span> (uv_inds.at(mat).at(f).x &lt; 0) {</div>
+<div class="line"><a id="l04337" name="l04337"></a><span class="lineno"> 4337</span>        objfstream &lt;&lt; <span class="stringliteral">&quot;f &quot;</span> &lt;&lt; faces.at(mat).at(f).x &lt;&lt; <span class="stringliteral">&quot;/1 &quot;</span> &lt;&lt; faces.at(mat).at(f).y</div>
+<div class="line"><a id="l04338" name="l04338"></a><span class="lineno"> 4338</span>                   &lt;&lt; <span class="stringliteral">&quot;/1 &quot;</span> &lt;&lt; faces.at(mat).at(f).z &lt;&lt; <span class="stringliteral">&quot;/1&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04339" name="l04339"></a><span class="lineno"> 4339</span>      } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l04340" name="l04340"></a><span class="lineno"> 4340</span>        objfstream &lt;&lt; <span class="stringliteral">&quot;f &quot;</span> &lt;&lt; faces.at(mat).at(f).x &lt;&lt; <span class="stringliteral">&quot;/&quot;</span></div>
+<div class="line"><a id="l04341" name="l04341"></a><span class="lineno"> 4341</span>                   &lt;&lt; uv_inds.at(mat).at(f).x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; faces.at(mat).at(f).y</div>
+<div class="line"><a id="l04342" name="l04342"></a><span class="lineno"> 4342</span>                   &lt;&lt; <span class="stringliteral">&quot;/&quot;</span> &lt;&lt; uv_inds.at(mat).at(f).y &lt;&lt; <span class="stringliteral">&quot; &quot;</span></div>
+<div class="line"><a id="l04343" name="l04343"></a><span class="lineno"> 4343</span>                   &lt;&lt; faces.at(mat).at(f).z &lt;&lt; <span class="stringliteral">&quot;/&quot;</span> &lt;&lt; uv_inds.at(mat).at(f).z</div>
+<div class="line"><a id="l04344" name="l04344"></a><span class="lineno"> 4344</span>                   &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04345" name="l04345"></a><span class="lineno"> 4345</span>      }</div>
+<div class="line"><a id="l04346" name="l04346"></a><span class="lineno"> 4346</span>    }</div>
+<div class="line"><a id="l04347" name="l04347"></a><span class="lineno"> 4347</span> </div>
+<div class="line"><a id="l04348" name="l04348"></a><span class="lineno"> 4348</span>    <span class="keywordflow">if</span>( materials.at(mat).texture.empty() ) {</div>
+<div class="line"><a id="l04349" name="l04349"></a><span class="lineno"> 4349</span>      <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> current_color = materials.at(mat).color;</div>
+<div class="line"><a id="l04350" name="l04350"></a><span class="lineno"> 4350</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;newmtl material&quot;</span> &lt;&lt; mat &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04351" name="l04351"></a><span class="lineno"> 4351</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;Ka &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a3e16659a90c69e6043c33c113b2fffe8">r</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#ae002d220d8695538760eee2a6c4e9023">g</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a1b3ba3f5b77ef3082088eff853d4c335">b</a> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04352" name="l04352"></a><span class="lineno"> 4352</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;Kd &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a3e16659a90c69e6043c33c113b2fffe8">r</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#ae002d220d8695538760eee2a6c4e9023">g</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a1b3ba3f5b77ef3082088eff853d4c335">b</a> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04353" name="l04353"></a><span class="lineno"> 4353</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;Ks 0.0 0.0 0.0&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04354" name="l04354"></a><span class="lineno"> 4354</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;illum 2 &quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04355" name="l04355"></a><span class="lineno"> 4355</span>    }<span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l04356" name="l04356"></a><span class="lineno"> 4356</span>      std::string current_texture = materials.at(mat).texture;</div>
+<div class="line"><a id="l04357" name="l04357"></a><span class="lineno"> 4357</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;newmtl material&quot;</span> &lt;&lt; mat &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04358" name="l04358"></a><span class="lineno"> 4358</span>      <span class="keywordflow">if</span>( materials.at(mat).textureColorIsOverridden ) {</div>
+<div class="line"><a id="l04359" name="l04359"></a><span class="lineno"> 4359</span>        <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> current_color = materials.at(mat).color;</div>
+<div class="line"><a id="l04360" name="l04360"></a><span class="lineno"> 4360</span>        mtlfstream &lt;&lt; <span class="stringliteral">&quot;Ka &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a3e16659a90c69e6043c33c113b2fffe8">r</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#ae002d220d8695538760eee2a6c4e9023">g</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a1b3ba3f5b77ef3082088eff853d4c335">b</a> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04361" name="l04361"></a><span class="lineno"> 4361</span>        mtlfstream &lt;&lt; <span class="stringliteral">&quot;Kd &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a3e16659a90c69e6043c33c113b2fffe8">r</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#ae002d220d8695538760eee2a6c4e9023">g</a> &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; current_color.<a class="code hl_variable" href="structhelios_1_1_r_g_bcolor.html#a1b3ba3f5b77ef3082088eff853d4c335">b</a> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04362" name="l04362"></a><span class="lineno"> 4362</span>      }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04363" name="l04363"></a><span class="lineno"> 4363</span>        mtlfstream &lt;&lt; <span class="stringliteral">&quot;map_Kd &quot;</span> &lt;&lt; current_texture &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04364" name="l04364"></a><span class="lineno"> 4364</span>      }</div>
+<div class="line"><a id="l04365" name="l04365"></a><span class="lineno"> 4365</span>      <span class="keywordflow">if</span>( materials.at(mat).textureHasTransparency ){</div>
+<div class="line"><a id="l04366" name="l04366"></a><span class="lineno"> 4366</span>        mtlfstream &lt;&lt; <span class="stringliteral">&quot;map_d &quot;</span> &lt;&lt; current_texture &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04367" name="l04367"></a><span class="lineno"> 4367</span>      }</div>
+<div class="line"><a id="l04368" name="l04368"></a><span class="lineno"> 4368</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;Ks 0.0 0.0 0.0&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04369" name="l04369"></a><span class="lineno"> 4369</span>      mtlfstream &lt;&lt; <span class="stringliteral">&quot;illum 2 &quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04370" name="l04370"></a><span class="lineno"> 4370</span>    }</div>
+<div class="line"><a id="l04371" name="l04371"></a><span class="lineno"> 4371</span> </div>
+<div class="line"><a id="l04372" name="l04372"></a><span class="lineno"> 4372</span>  }</div>
 <div class="line"><a id="l04373" name="l04373"></a><span class="lineno"> 4373</span> </div>
-<div class="line"><a id="l04374" name="l04374"></a><span class="lineno"> 4374</span> </div>
-<div class="line"><a id="l04375" name="l04375"></a><span class="lineno"> 4375</span>    <span class="keywordflow">for</span>( std::string label : primitive_dat_fields ){</div>
+<div class="line"><a id="l04374" name="l04374"></a><span class="lineno"> 4374</span>  objfstream.close();</div>
+<div class="line"><a id="l04375" name="l04375"></a><span class="lineno"> 4375</span>  mtlfstream.close();</div>
 <div class="line"><a id="l04376" name="l04376"></a><span class="lineno"> 4376</span> </div>
-<div class="line"><a id="l04377" name="l04377"></a><span class="lineno"> 4377</span>      std::string datfilename = file_path + file_stem + <span class="stringliteral">&quot;_&quot;</span> + std::string(label) + <span class="stringliteral">&quot;.dat&quot;</span>;</div>
-<div class="line"><a id="l04378" name="l04378"></a><span class="lineno"> 4378</span>      std::ofstream datout(datfilename);</div>
-<div class="line"><a id="l04379" name="l04379"></a><span class="lineno"> 4379</span> </div>
-<div class="line"><a id="l04380" name="l04380"></a><span class="lineno"> 4380</span>      <span class="keywordflow">for</span>( <span class="keywordtype">int</span> mat=0; mat&lt;materials.size(); mat++ ) {</div>
-<div class="line"><a id="l04381" name="l04381"></a><span class="lineno"> 4381</span>        <span class="keywordflow">for</span> (uint UUID : UUIDs_write.at(mat)) {</div>
+<div class="line"><a id="l04377" name="l04377"></a><span class="lineno"> 4377</span>  <span class="keywordflow">if</span>( !primitive_dat_fields.empty() ){</div>
+<div class="line"><a id="l04378" name="l04378"></a><span class="lineno"> 4378</span> </div>
+<div class="line"><a id="l04379" name="l04379"></a><span class="lineno"> 4379</span>    <span class="keywordtype">bool</span> dataexistswarning = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l04380" name="l04380"></a><span class="lineno"> 4380</span>    <span class="keywordtype">bool</span> datatypewarning = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l04381" name="l04381"></a><span class="lineno"> 4381</span> </div>
 <div class="line"><a id="l04382" name="l04382"></a><span class="lineno"> 4382</span> </div>
-<div class="line"><a id="l04383" name="l04383"></a><span class="lineno"> 4383</span>          <span class="keywordflow">if</span> (!<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(UUID)) {</div>
-<div class="line"><a id="l04384" name="l04384"></a><span class="lineno"> 4384</span>            uuidexistswarning = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l04385" name="l04385"></a><span class="lineno"> 4385</span>            <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l04386" name="l04386"></a><span class="lineno"> 4386</span>          }</div>
+<div class="line"><a id="l04383" name="l04383"></a><span class="lineno"> 4383</span>    <span class="keywordflow">for</span>( std::string label : primitive_dat_fields ){</div>
+<div class="line"><a id="l04384" name="l04384"></a><span class="lineno"> 4384</span> </div>
+<div class="line"><a id="l04385" name="l04385"></a><span class="lineno"> 4385</span>      std::string datfilename = file_path + file_stem + <span class="stringliteral">&quot;_&quot;</span> + std::string(label) + <span class="stringliteral">&quot;.dat&quot;</span>;</div>
+<div class="line"><a id="l04386" name="l04386"></a><span class="lineno"> 4386</span>      std::ofstream datout(datfilename);</div>
 <div class="line"><a id="l04387" name="l04387"></a><span class="lineno"> 4387</span> </div>
-<div class="line"><a id="l04388" name="l04388"></a><span class="lineno"> 4388</span>          <span class="comment">// a patch is converted to 2 triangles, so need to write 2 data values for patches</span></div>
-<div class="line"><a id="l04389" name="l04389"></a><span class="lineno"> 4389</span>          <span class="keywordtype">int</span> Nprims = 1;</div>
-<div class="line"><a id="l04390" name="l04390"></a><span class="lineno"> 4390</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a67bfd66f0a445f6485f1099f9eadc949">getPrimitiveType</a>(UUID) == <a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a6fcd29f0c812849b3eb5bedec52cd744">PRIMITIVE_TYPE_PATCH</a>) {</div>
-<div class="line"><a id="l04391" name="l04391"></a><span class="lineno"> 4391</span>            Nprims = 2;</div>
-<div class="line"><a id="l04392" name="l04392"></a><span class="lineno"> 4392</span>          }</div>
-<div class="line"><a id="l04393" name="l04393"></a><span class="lineno"> 4393</span> </div>
-<div class="line"><a id="l04394" name="l04394"></a><span class="lineno"> 4394</span>          <span class="keywordflow">if</span> (!<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, label.c_str())) {</div>
-<div class="line"><a id="l04395" name="l04395"></a><span class="lineno"> 4395</span>            dataexistswarning = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l04396" name="l04396"></a><span class="lineno"> 4396</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; Nprims; i++) {</div>
-<div class="line"><a id="l04397" name="l04397"></a><span class="lineno"> 4397</span>              datout &lt;&lt; 0 &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04398" name="l04398"></a><span class="lineno"> 4398</span>            }</div>
-<div class="line"><a id="l04399" name="l04399"></a><span class="lineno"> 4399</span>            <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l04388" name="l04388"></a><span class="lineno"> 4388</span>      <span class="keywordflow">for</span>( <span class="keywordtype">int</span> mat=0; mat&lt;materials.size(); mat++ ) {</div>
+<div class="line"><a id="l04389" name="l04389"></a><span class="lineno"> 4389</span>        <span class="keywordflow">for</span> (uint UUID : UUIDs_write.at(mat)) {</div>
+<div class="line"><a id="l04390" name="l04390"></a><span class="lineno"> 4390</span> </div>
+<div class="line"><a id="l04391" name="l04391"></a><span class="lineno"> 4391</span>          <span class="keywordflow">if</span> (!<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(UUID)) {</div>
+<div class="line"><a id="l04392" name="l04392"></a><span class="lineno"> 4392</span>            uuidexistswarning = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l04393" name="l04393"></a><span class="lineno"> 4393</span>            <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l04394" name="l04394"></a><span class="lineno"> 4394</span>          }</div>
+<div class="line"><a id="l04395" name="l04395"></a><span class="lineno"> 4395</span> </div>
+<div class="line"><a id="l04396" name="l04396"></a><span class="lineno"> 4396</span>          <span class="comment">// a patch is converted to 2 triangles, so need to write 2 data values for patches</span></div>
+<div class="line"><a id="l04397" name="l04397"></a><span class="lineno"> 4397</span>          <span class="keywordtype">int</span> Nprims = 1;</div>
+<div class="line"><a id="l04398" name="l04398"></a><span class="lineno"> 4398</span>          <span class="keywordflow">if</span> (<a class="code hl_function" href="classhelios_1_1_context.html#a67bfd66f0a445f6485f1099f9eadc949">getPrimitiveType</a>(UUID) == <a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a6fcd29f0c812849b3eb5bedec52cd744">PRIMITIVE_TYPE_PATCH</a>) {</div>
+<div class="line"><a id="l04399" name="l04399"></a><span class="lineno"> 4399</span>            Nprims = 2;</div>
 <div class="line"><a id="l04400" name="l04400"></a><span class="lineno"> 4400</span>          }</div>
 <div class="line"><a id="l04401" name="l04401"></a><span class="lineno"> 4401</span> </div>
-<div class="line"><a id="l04402" name="l04402"></a><span class="lineno"> 4402</span>          <a class="code hl_enumeration" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">HeliosDataType</a> type = <a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID, label.c_str());</div>
-<div class="line"><a id="l04403" name="l04403"></a><span class="lineno"> 4403</span>          <span class="keywordflow">if</span> (type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a>) {</div>
-<div class="line"><a id="l04404" name="l04404"></a><span class="lineno"> 4404</span>            <span class="keywordtype">int</span> data;</div>
-<div class="line"><a id="l04405" name="l04405"></a><span class="lineno"> 4405</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
-<div class="line"><a id="l04406" name="l04406"></a><span class="lineno"> 4406</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; Nprims; i++) {</div>
-<div class="line"><a id="l04407" name="l04407"></a><span class="lineno"> 4407</span>              datout &lt;&lt; data &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04408" name="l04408"></a><span class="lineno"> 4408</span>            }</div>
-<div class="line"><a id="l04409" name="l04409"></a><span class="lineno"> 4409</span>          } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a>) {</div>
-<div class="line"><a id="l04410" name="l04410"></a><span class="lineno"> 4410</span>            uint data;</div>
-<div class="line"><a id="l04411" name="l04411"></a><span class="lineno"> 4411</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
-<div class="line"><a id="l04412" name="l04412"></a><span class="lineno"> 4412</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; Nprims; i++) {</div>
-<div class="line"><a id="l04413" name="l04413"></a><span class="lineno"> 4413</span>              datout &lt;&lt; data &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04414" name="l04414"></a><span class="lineno"> 4414</span>            }</div>
-<div class="line"><a id="l04415" name="l04415"></a><span class="lineno"> 4415</span>          } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a>) {</div>
-<div class="line"><a id="l04416" name="l04416"></a><span class="lineno"> 4416</span>            <span class="keywordtype">float</span> data;</div>
-<div class="line"><a id="l04417" name="l04417"></a><span class="lineno"> 4417</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
-<div class="line"><a id="l04418" name="l04418"></a><span class="lineno"> 4418</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; Nprims; i++) {</div>
-<div class="line"><a id="l04419" name="l04419"></a><span class="lineno"> 4419</span>              datout &lt;&lt; data &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04420" name="l04420"></a><span class="lineno"> 4420</span>            }</div>
-<div class="line"><a id="l04421" name="l04421"></a><span class="lineno"> 4421</span>          } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a520daf05a1b3086aabd6cbe6a712c1c3">HELIOS_TYPE_DOUBLE</a>) {</div>
-<div class="line"><a id="l04422" name="l04422"></a><span class="lineno"> 4422</span>            <span class="keywordtype">double</span> data;</div>
-<div class="line"><a id="l04423" name="l04423"></a><span class="lineno"> 4423</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
-<div class="line"><a id="l04424" name="l04424"></a><span class="lineno"> 4424</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; Nprims; i++) {</div>
-<div class="line"><a id="l04425" name="l04425"></a><span class="lineno"> 4425</span>              datout &lt;&lt; data &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04426" name="l04426"></a><span class="lineno"> 4426</span>            }</div>
-<div class="line"><a id="l04427" name="l04427"></a><span class="lineno"> 4427</span>          } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7c1f526f519f173e5931fd73b78ccbb3">HELIOS_TYPE_STRING</a>) {</div>
-<div class="line"><a id="l04428" name="l04428"></a><span class="lineno"> 4428</span>            std::string data;</div>
-<div class="line"><a id="l04429" name="l04429"></a><span class="lineno"> 4429</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
-<div class="line"><a id="l04430" name="l04430"></a><span class="lineno"> 4430</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; Nprims; i++) {</div>
-<div class="line"><a id="l04431" name="l04431"></a><span class="lineno"> 4431</span>              datout &lt;&lt; data &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04432" name="l04432"></a><span class="lineno"> 4432</span>            }</div>
-<div class="line"><a id="l04433" name="l04433"></a><span class="lineno"> 4433</span>          } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l04434" name="l04434"></a><span class="lineno"> 4434</span>            datatypewarning = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l04435" name="l04435"></a><span class="lineno"> 4435</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; Nprims; i++) {</div>
-<div class="line"><a id="l04436" name="l04436"></a><span class="lineno"> 4436</span>              datout &lt;&lt; 0 &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04437" name="l04437"></a><span class="lineno"> 4437</span>            }</div>
-<div class="line"><a id="l04438" name="l04438"></a><span class="lineno"> 4438</span>          }</div>
-<div class="line"><a id="l04439" name="l04439"></a><span class="lineno"> 4439</span>        }</div>
-<div class="line"><a id="l04440" name="l04440"></a><span class="lineno"> 4440</span>      }</div>
-<div class="line"><a id="l04441" name="l04441"></a><span class="lineno"> 4441</span> </div>
-<div class="line"><a id="l04442" name="l04442"></a><span class="lineno"> 4442</span>      datout.close();</div>
-<div class="line"><a id="l04443" name="l04443"></a><span class="lineno"> 4443</span> </div>
-<div class="line"><a id="l04444" name="l04444"></a><span class="lineno"> 4444</span>    }</div>
-<div class="line"><a id="l04445" name="l04445"></a><span class="lineno"> 4445</span> </div>
-<div class="line"><a id="l04446" name="l04446"></a><span class="lineno"> 4446</span>    <span class="keywordflow">if</span>( uuidexistswarning ){</div>
-<div class="line"><a id="l04447" name="l04447"></a><span class="lineno"> 4447</span>      std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writeOBJ): Vector of UUIDs passed to writePrimitiveData() function contained UUIDs that do not exist, which were skipped.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04448" name="l04448"></a><span class="lineno"> 4448</span>    }</div>
-<div class="line"><a id="l04449" name="l04449"></a><span class="lineno"> 4449</span>    <span class="keywordflow">if</span>( dataexistswarning ){</div>
-<div class="line"><a id="l04450" name="l04450"></a><span class="lineno"> 4450</span>      std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writeOBJ): Primitive data requested did not exist for one or more primitives. A default value of 0 was written in these cases.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04451" name="l04451"></a><span class="lineno"> 4451</span>    }</div>
-<div class="line"><a id="l04452" name="l04452"></a><span class="lineno"> 4452</span>    <span class="keywordflow">if</span>( datatypewarning ){</div>
-<div class="line"><a id="l04453" name="l04453"></a><span class="lineno"> 4453</span>      std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writeOBJ): Only scalar primitive data types (uint, int, float, and double) are supported for this function. A column of 0&#39;s was written in these cases.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04454" name="l04454"></a><span class="lineno"> 4454</span>    }</div>
-<div class="line"><a id="l04455" name="l04455"></a><span class="lineno"> 4455</span>    <span class="keywordflow">if</span>( voxelwarning ){</div>
-<div class="line"><a id="l04456" name="l04456"></a><span class="lineno"> 4456</span>      std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writeOBJ): Writing voxels to OBJ file is not supported. Some voxels were ignored. Use boxes or box objects to represent rectangular prism geometry.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04457" name="l04457"></a><span class="lineno"> 4457</span>    }</div>
-<div class="line"><a id="l04458" name="l04458"></a><span class="lineno"> 4458</span> </div>
-<div class="line"><a id="l04459" name="l04459"></a><span class="lineno"> 4459</span>  }</div>
-<div class="line"><a id="l04460" name="l04460"></a><span class="lineno"> 4460</span> </div>
-<div class="line"><a id="l04461" name="l04461"></a><span class="lineno"> 4461</span> </div>
-<div class="line"><a id="l04462" name="l04462"></a><span class="lineno"> 4462</span>  std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04463" name="l04463"></a><span class="lineno"> 4463</span>}</div>
-</div>
-<div class="line"><a id="l04464" name="l04464"></a><span class="lineno"> 4464</span> </div>
-<div class="foldopen" id="foldopen04465" data-start="{" data-end="}">
-<div class="line"><a id="l04465" name="l04465"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844"> 4465</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844">Context::writePrimitiveData</a>( std::string filename, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;column_format, <span class="keywordtype">bool</span> print_header )<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l04466" name="l04466"></a><span class="lineno"> 4466</span>  <a class="code hl_function" href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844">writePrimitiveData</a>(filename,column_format,<a class="code hl_function" href="classhelios_1_1_context.html#a98516632daccf958cca6b5b6582310bb">getAllUUIDs</a>(),print_header);</div>
-<div class="line"><a id="l04467" name="l04467"></a><span class="lineno"> 4467</span>}</div>
-</div>
+<div class="line"><a id="l04402" name="l04402"></a><span class="lineno"> 4402</span>          <span class="keywordflow">if</span> (!<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, label.c_str())) {</div>
+<div class="line"><a id="l04403" name="l04403"></a><span class="lineno"> 4403</span>            dataexistswarning = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l04404" name="l04404"></a><span class="lineno"> 4404</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; Nprims; i++) {</div>
+<div class="line"><a id="l04405" name="l04405"></a><span class="lineno"> 4405</span>              datout &lt;&lt; 0 &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04406" name="l04406"></a><span class="lineno"> 4406</span>            }</div>
+<div class="line"><a id="l04407" name="l04407"></a><span class="lineno"> 4407</span>            <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l04408" name="l04408"></a><span class="lineno"> 4408</span>          }</div>
+<div class="line"><a id="l04409" name="l04409"></a><span class="lineno"> 4409</span> </div>
+<div class="line"><a id="l04410" name="l04410"></a><span class="lineno"> 4410</span>          <a class="code hl_enumeration" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">HeliosDataType</a> type = <a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID, label.c_str());</div>
+<div class="line"><a id="l04411" name="l04411"></a><span class="lineno"> 4411</span>          <span class="keywordflow">if</span> (type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a>) {</div>
+<div class="line"><a id="l04412" name="l04412"></a><span class="lineno"> 4412</span>            <span class="keywordtype">int</span> data;</div>
+<div class="line"><a id="l04413" name="l04413"></a><span class="lineno"> 4413</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
+<div class="line"><a id="l04414" name="l04414"></a><span class="lineno"> 4414</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; Nprims; i++) {</div>
+<div class="line"><a id="l04415" name="l04415"></a><span class="lineno"> 4415</span>              datout &lt;&lt; data &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04416" name="l04416"></a><span class="lineno"> 4416</span>            }</div>
+<div class="line"><a id="l04417" name="l04417"></a><span class="lineno"> 4417</span>          } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a>) {</div>
+<div class="line"><a id="l04418" name="l04418"></a><span class="lineno"> 4418</span>            uint data;</div>
+<div class="line"><a id="l04419" name="l04419"></a><span class="lineno"> 4419</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
+<div class="line"><a id="l04420" name="l04420"></a><span class="lineno"> 4420</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; Nprims; i++) {</div>
+<div class="line"><a id="l04421" name="l04421"></a><span class="lineno"> 4421</span>              datout &lt;&lt; data &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04422" name="l04422"></a><span class="lineno"> 4422</span>            }</div>
+<div class="line"><a id="l04423" name="l04423"></a><span class="lineno"> 4423</span>          } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a>) {</div>
+<div class="line"><a id="l04424" name="l04424"></a><span class="lineno"> 4424</span>            <span class="keywordtype">float</span> data;</div>
+<div class="line"><a id="l04425" name="l04425"></a><span class="lineno"> 4425</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
+<div class="line"><a id="l04426" name="l04426"></a><span class="lineno"> 4426</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; Nprims; i++) {</div>
+<div class="line"><a id="l04427" name="l04427"></a><span class="lineno"> 4427</span>              datout &lt;&lt; data &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04428" name="l04428"></a><span class="lineno"> 4428</span>            }</div>
+<div class="line"><a id="l04429" name="l04429"></a><span class="lineno"> 4429</span>          } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a520daf05a1b3086aabd6cbe6a712c1c3">HELIOS_TYPE_DOUBLE</a>) {</div>
+<div class="line"><a id="l04430" name="l04430"></a><span class="lineno"> 4430</span>            <span class="keywordtype">double</span> data;</div>
+<div class="line"><a id="l04431" name="l04431"></a><span class="lineno"> 4431</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
+<div class="line"><a id="l04432" name="l04432"></a><span class="lineno"> 4432</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; Nprims; i++) {</div>
+<div class="line"><a id="l04433" name="l04433"></a><span class="lineno"> 4433</span>              datout &lt;&lt; data &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04434" name="l04434"></a><span class="lineno"> 4434</span>            }</div>
+<div class="line"><a id="l04435" name="l04435"></a><span class="lineno"> 4435</span>          } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7c1f526f519f173e5931fd73b78ccbb3">HELIOS_TYPE_STRING</a>) {</div>
+<div class="line"><a id="l04436" name="l04436"></a><span class="lineno"> 4436</span>            std::string data;</div>
+<div class="line"><a id="l04437" name="l04437"></a><span class="lineno"> 4437</span>            <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
+<div class="line"><a id="l04438" name="l04438"></a><span class="lineno"> 4438</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; Nprims; i++) {</div>
+<div class="line"><a id="l04439" name="l04439"></a><span class="lineno"> 4439</span>              datout &lt;&lt; data &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04440" name="l04440"></a><span class="lineno"> 4440</span>            }</div>
+<div class="line"><a id="l04441" name="l04441"></a><span class="lineno"> 4441</span>          } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l04442" name="l04442"></a><span class="lineno"> 4442</span>            datatypewarning = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l04443" name="l04443"></a><span class="lineno"> 4443</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; Nprims; i++) {</div>
+<div class="line"><a id="l04444" name="l04444"></a><span class="lineno"> 4444</span>              datout &lt;&lt; 0 &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04445" name="l04445"></a><span class="lineno"> 4445</span>            }</div>
+<div class="line"><a id="l04446" name="l04446"></a><span class="lineno"> 4446</span>          }</div>
+<div class="line"><a id="l04447" name="l04447"></a><span class="lineno"> 4447</span>        }</div>
+<div class="line"><a id="l04448" name="l04448"></a><span class="lineno"> 4448</span>      }</div>
+<div class="line"><a id="l04449" name="l04449"></a><span class="lineno"> 4449</span> </div>
+<div class="line"><a id="l04450" name="l04450"></a><span class="lineno"> 4450</span>      datout.close();</div>
+<div class="line"><a id="l04451" name="l04451"></a><span class="lineno"> 4451</span> </div>
+<div class="line"><a id="l04452" name="l04452"></a><span class="lineno"> 4452</span>    }</div>
+<div class="line"><a id="l04453" name="l04453"></a><span class="lineno"> 4453</span> </div>
+<div class="line"><a id="l04454" name="l04454"></a><span class="lineno"> 4454</span>    <span class="keywordflow">if</span>( uuidexistswarning ){</div>
+<div class="line"><a id="l04455" name="l04455"></a><span class="lineno"> 4455</span>      std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writeOBJ): Vector of UUIDs passed to writePrimitiveData() function contained UUIDs that do not exist, which were skipped.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04456" name="l04456"></a><span class="lineno"> 4456</span>    }</div>
+<div class="line"><a id="l04457" name="l04457"></a><span class="lineno"> 4457</span>    <span class="keywordflow">if</span>( dataexistswarning ){</div>
+<div class="line"><a id="l04458" name="l04458"></a><span class="lineno"> 4458</span>      std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writeOBJ): Primitive data requested did not exist for one or more primitives. A default value of 0 was written in these cases.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04459" name="l04459"></a><span class="lineno"> 4459</span>    }</div>
+<div class="line"><a id="l04460" name="l04460"></a><span class="lineno"> 4460</span>    <span class="keywordflow">if</span>( datatypewarning ){</div>
+<div class="line"><a id="l04461" name="l04461"></a><span class="lineno"> 4461</span>      std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writeOBJ): Only scalar primitive data types (uint, int, float, and double) are supported for this function. A column of 0&#39;s was written in these cases.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04462" name="l04462"></a><span class="lineno"> 4462</span>    }</div>
+<div class="line"><a id="l04463" name="l04463"></a><span class="lineno"> 4463</span>    <span class="keywordflow">if</span>( voxelwarning ){</div>
+<div class="line"><a id="l04464" name="l04464"></a><span class="lineno"> 4464</span>      std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writeOBJ): Writing voxels to OBJ file is not supported. Some voxels were ignored. Use boxes or box objects to represent rectangular prism geometry.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04465" name="l04465"></a><span class="lineno"> 4465</span>    }</div>
+<div class="line"><a id="l04466" name="l04466"></a><span class="lineno"> 4466</span> </div>
+<div class="line"><a id="l04467" name="l04467"></a><span class="lineno"> 4467</span>  }</div>
 <div class="line"><a id="l04468" name="l04468"></a><span class="lineno"> 4468</span> </div>
-<div class="foldopen" id="foldopen04469" data-start="{" data-end="}">
-<div class="line"><a id="l04469" name="l04469"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a97378b12bfaf42c2052960c54ff096d4"> 4469</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844">Context::writePrimitiveData</a>( std::string filename, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;column_format, <span class="keyword">const</span> std::vector&lt;uint&gt; &amp;UUIDs, <span class="keywordtype">bool</span> print_header )<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l04470" name="l04470"></a><span class="lineno"> 4470</span> </div>
-<div class="line"><a id="l04471" name="l04471"></a><span class="lineno"> 4471</span>  std::ofstream file(filename);</div>
+<div class="line"><a id="l04469" name="l04469"></a><span class="lineno"> 4469</span> </div>
+<div class="line"><a id="l04470" name="l04470"></a><span class="lineno"> 4470</span>  std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04471" name="l04471"></a><span class="lineno"> 4471</span>}</div>
+</div>
 <div class="line"><a id="l04472" name="l04472"></a><span class="lineno"> 4472</span> </div>
-<div class="line"><a id="l04473" name="l04473"></a><span class="lineno"> 4473</span>  <span class="keywordflow">if</span>( print_header ){</div>
-<div class="line"><a id="l04474" name="l04474"></a><span class="lineno"> 4474</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;label : column_format ) {</div>
-<div class="line"><a id="l04475" name="l04475"></a><span class="lineno"> 4475</span>      file &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l04476" name="l04476"></a><span class="lineno"> 4476</span>    }</div>
-<div class="line"><a id="l04477" name="l04477"></a><span class="lineno"> 4477</span>    file.seekp(-1, std::ios_base::end);</div>
-<div class="line"><a id="l04478" name="l04478"></a><span class="lineno"> 4478</span>    file &lt;&lt; <span class="stringliteral">&quot;\n&quot;</span>;</div>
-<div class="line"><a id="l04479" name="l04479"></a><span class="lineno"> 4479</span>  }</div>
+<div class="foldopen" id="foldopen04473" data-start="{" data-end="}">
+<div class="line"><a id="l04473" name="l04473"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844"> 4473</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844">Context::writePrimitiveData</a>( std::string filename, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;column_format, <span class="keywordtype">bool</span> print_header )<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l04474" name="l04474"></a><span class="lineno"> 4474</span>  <a class="code hl_function" href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844">writePrimitiveData</a>(filename,column_format,<a class="code hl_function" href="classhelios_1_1_context.html#a98516632daccf958cca6b5b6582310bb">getAllUUIDs</a>(),print_header);</div>
+<div class="line"><a id="l04475" name="l04475"></a><span class="lineno"> 4475</span>}</div>
+</div>
+<div class="line"><a id="l04476" name="l04476"></a><span class="lineno"> 4476</span> </div>
+<div class="foldopen" id="foldopen04477" data-start="{" data-end="}">
+<div class="line"><a id="l04477" name="l04477"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a97378b12bfaf42c2052960c54ff096d4"> 4477</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844">Context::writePrimitiveData</a>( std::string filename, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;column_format, <span class="keyword">const</span> std::vector&lt;uint&gt; &amp;UUIDs, <span class="keywordtype">bool</span> print_header )<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l04478" name="l04478"></a><span class="lineno"> 4478</span> </div>
+<div class="line"><a id="l04479" name="l04479"></a><span class="lineno"> 4479</span>  std::ofstream file(filename);</div>
 <div class="line"><a id="l04480" name="l04480"></a><span class="lineno"> 4480</span> </div>
-<div class="line"><a id="l04481" name="l04481"></a><span class="lineno"> 4481</span>  <span class="keywordtype">bool</span> uuidexistswarning = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l04482" name="l04482"></a><span class="lineno"> 4482</span>  <span class="keywordtype">bool</span> dataexistswarning = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l04483" name="l04483"></a><span class="lineno"> 4483</span>  <span class="keywordtype">bool</span> datatypewarning = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l04484" name="l04484"></a><span class="lineno"> 4484</span> </div>
-<div class="line"><a id="l04485" name="l04485"></a><span class="lineno"> 4485</span>  <span class="keywordflow">for</span>( uint UUID : UUIDs ){</div>
-<div class="line"><a id="l04486" name="l04486"></a><span class="lineno"> 4486</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(UUID) ){</div>
-<div class="line"><a id="l04487" name="l04487"></a><span class="lineno"> 4487</span>      uuidexistswarning=<span class="keyword">true</span>;</div>
-<div class="line"><a id="l04488" name="l04488"></a><span class="lineno"> 4488</span>      <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l04489" name="l04489"></a><span class="lineno"> 4489</span>    }</div>
-<div class="line"><a id="l04490" name="l04490"></a><span class="lineno"> 4490</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;label : column_format ) {</div>
-<div class="line"><a id="l04491" name="l04491"></a><span class="lineno"> 4491</span>      <span class="keywordflow">if</span>( label == <span class="stringliteral">&quot;UUID&quot;</span> ){</div>
-<div class="line"><a id="l04492" name="l04492"></a><span class="lineno"> 4492</span>        file &lt;&lt; UUID &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l04493" name="l04493"></a><span class="lineno"> 4493</span>        <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l04494" name="l04494"></a><span class="lineno"> 4494</span>      }</div>
-<div class="line"><a id="l04495" name="l04495"></a><span class="lineno"> 4495</span>      <span class="keywordflow">if</span>( !<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID,label.c_str()) ){</div>
-<div class="line"><a id="l04496" name="l04496"></a><span class="lineno"> 4496</span>        dataexistswarning=<span class="keyword">true</span>;</div>
-<div class="line"><a id="l04497" name="l04497"></a><span class="lineno"> 4497</span>        file &lt;&lt; 0 &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l04498" name="l04498"></a><span class="lineno"> 4498</span>        <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l04499" name="l04499"></a><span class="lineno"> 4499</span>      }</div>
-<div class="line"><a id="l04500" name="l04500"></a><span class="lineno"> 4500</span>      <a class="code hl_enumeration" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">HeliosDataType</a> type = <a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>( UUID, label.c_str() );</div>
-<div class="line"><a id="l04501" name="l04501"></a><span class="lineno"> 4501</span>      <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a> ){</div>
-<div class="line"><a id="l04502" name="l04502"></a><span class="lineno"> 4502</span>        <span class="keywordtype">int</span> data;</div>
-<div class="line"><a id="l04503" name="l04503"></a><span class="lineno"> 4503</span>        <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>( UUID, label.c_str(), data );</div>
-<div class="line"><a id="l04504" name="l04504"></a><span class="lineno"> 4504</span>        file &lt;&lt; data &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l04505" name="l04505"></a><span class="lineno"> 4505</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a> ) {</div>
-<div class="line"><a id="l04506" name="l04506"></a><span class="lineno"> 4506</span>        uint data;</div>
-<div class="line"><a id="l04507" name="l04507"></a><span class="lineno"> 4507</span>        <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
-<div class="line"><a id="l04508" name="l04508"></a><span class="lineno"> 4508</span>        file &lt;&lt; data &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l04509" name="l04509"></a><span class="lineno"> 4509</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a> ) {</div>
-<div class="line"><a id="l04510" name="l04510"></a><span class="lineno"> 4510</span>        <span class="keywordtype">float</span> data;</div>
-<div class="line"><a id="l04511" name="l04511"></a><span class="lineno"> 4511</span>        <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
+<div class="line"><a id="l04481" name="l04481"></a><span class="lineno"> 4481</span>  <span class="keywordflow">if</span>( print_header ){</div>
+<div class="line"><a id="l04482" name="l04482"></a><span class="lineno"> 4482</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;label : column_format ) {</div>
+<div class="line"><a id="l04483" name="l04483"></a><span class="lineno"> 4483</span>      file &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l04484" name="l04484"></a><span class="lineno"> 4484</span>    }</div>
+<div class="line"><a id="l04485" name="l04485"></a><span class="lineno"> 4485</span>    file.seekp(-1, std::ios_base::end);</div>
+<div class="line"><a id="l04486" name="l04486"></a><span class="lineno"> 4486</span>    file &lt;&lt; <span class="stringliteral">&quot;\n&quot;</span>;</div>
+<div class="line"><a id="l04487" name="l04487"></a><span class="lineno"> 4487</span>  }</div>
+<div class="line"><a id="l04488" name="l04488"></a><span class="lineno"> 4488</span> </div>
+<div class="line"><a id="l04489" name="l04489"></a><span class="lineno"> 4489</span>  <span class="keywordtype">bool</span> uuidexistswarning = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l04490" name="l04490"></a><span class="lineno"> 4490</span>  <span class="keywordtype">bool</span> dataexistswarning = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l04491" name="l04491"></a><span class="lineno"> 4491</span>  <span class="keywordtype">bool</span> datatypewarning = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l04492" name="l04492"></a><span class="lineno"> 4492</span> </div>
+<div class="line"><a id="l04493" name="l04493"></a><span class="lineno"> 4493</span>  <span class="keywordflow">for</span>( uint UUID : UUIDs ){</div>
+<div class="line"><a id="l04494" name="l04494"></a><span class="lineno"> 4494</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(UUID) ){</div>
+<div class="line"><a id="l04495" name="l04495"></a><span class="lineno"> 4495</span>      uuidexistswarning=<span class="keyword">true</span>;</div>
+<div class="line"><a id="l04496" name="l04496"></a><span class="lineno"> 4496</span>      <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l04497" name="l04497"></a><span class="lineno"> 4497</span>    }</div>
+<div class="line"><a id="l04498" name="l04498"></a><span class="lineno"> 4498</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;label : column_format ) {</div>
+<div class="line"><a id="l04499" name="l04499"></a><span class="lineno"> 4499</span>      <span class="keywordflow">if</span>( label == <span class="stringliteral">&quot;UUID&quot;</span> ){</div>
+<div class="line"><a id="l04500" name="l04500"></a><span class="lineno"> 4500</span>        file &lt;&lt; UUID &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l04501" name="l04501"></a><span class="lineno"> 4501</span>        <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l04502" name="l04502"></a><span class="lineno"> 4502</span>      }</div>
+<div class="line"><a id="l04503" name="l04503"></a><span class="lineno"> 4503</span>      <span class="keywordflow">if</span>( !<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID,label.c_str()) ){</div>
+<div class="line"><a id="l04504" name="l04504"></a><span class="lineno"> 4504</span>        dataexistswarning=<span class="keyword">true</span>;</div>
+<div class="line"><a id="l04505" name="l04505"></a><span class="lineno"> 4505</span>        file &lt;&lt; 0 &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l04506" name="l04506"></a><span class="lineno"> 4506</span>        <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l04507" name="l04507"></a><span class="lineno"> 4507</span>      }</div>
+<div class="line"><a id="l04508" name="l04508"></a><span class="lineno"> 4508</span>      <a class="code hl_enumeration" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">HeliosDataType</a> type = <a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>( UUID, label.c_str() );</div>
+<div class="line"><a id="l04509" name="l04509"></a><span class="lineno"> 4509</span>      <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a> ){</div>
+<div class="line"><a id="l04510" name="l04510"></a><span class="lineno"> 4510</span>        <span class="keywordtype">int</span> data;</div>
+<div class="line"><a id="l04511" name="l04511"></a><span class="lineno"> 4511</span>        <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>( UUID, label.c_str(), data );</div>
 <div class="line"><a id="l04512" name="l04512"></a><span class="lineno"> 4512</span>        file &lt;&lt; data &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l04513" name="l04513"></a><span class="lineno"> 4513</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a520daf05a1b3086aabd6cbe6a712c1c3">HELIOS_TYPE_DOUBLE</a> ) {</div>
-<div class="line"><a id="l04514" name="l04514"></a><span class="lineno"> 4514</span>        <span class="keywordtype">double</span> data;</div>
+<div class="line"><a id="l04513" name="l04513"></a><span class="lineno"> 4513</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a> ) {</div>
+<div class="line"><a id="l04514" name="l04514"></a><span class="lineno"> 4514</span>        uint data;</div>
 <div class="line"><a id="l04515" name="l04515"></a><span class="lineno"> 4515</span>        <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
 <div class="line"><a id="l04516" name="l04516"></a><span class="lineno"> 4516</span>        file &lt;&lt; data &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l04517" name="l04517"></a><span class="lineno"> 4517</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7c1f526f519f173e5931fd73b78ccbb3">HELIOS_TYPE_STRING</a> ) {</div>
-<div class="line"><a id="l04518" name="l04518"></a><span class="lineno"> 4518</span>        std::string data;</div>
+<div class="line"><a id="l04517" name="l04517"></a><span class="lineno"> 4517</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a> ) {</div>
+<div class="line"><a id="l04518" name="l04518"></a><span class="lineno"> 4518</span>        <span class="keywordtype">float</span> data;</div>
 <div class="line"><a id="l04519" name="l04519"></a><span class="lineno"> 4519</span>        <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
 <div class="line"><a id="l04520" name="l04520"></a><span class="lineno"> 4520</span>        file &lt;&lt; data &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l04521" name="l04521"></a><span class="lineno"> 4521</span>      }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04522" name="l04522"></a><span class="lineno"> 4522</span>        datatypewarning=<span class="keyword">true</span>;</div>
-<div class="line"><a id="l04523" name="l04523"></a><span class="lineno"> 4523</span>        file &lt;&lt; 0 &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l04524" name="l04524"></a><span class="lineno"> 4524</span>      }</div>
-<div class="line"><a id="l04525" name="l04525"></a><span class="lineno"> 4525</span>    }</div>
-<div class="line"><a id="l04526" name="l04526"></a><span class="lineno"> 4526</span>    file.seekp(-1, std::ios_base::end);</div>
-<div class="line"><a id="l04527" name="l04527"></a><span class="lineno"> 4527</span>    file &lt;&lt; <span class="stringliteral">&quot;\n&quot;</span>;</div>
-<div class="line"><a id="l04528" name="l04528"></a><span class="lineno"> 4528</span>  }</div>
-<div class="line"><a id="l04529" name="l04529"></a><span class="lineno"> 4529</span> </div>
-<div class="line"><a id="l04530" name="l04530"></a><span class="lineno"> 4530</span>  <span class="keywordflow">if</span>( uuidexistswarning ){</div>
-<div class="line"><a id="l04531" name="l04531"></a><span class="lineno"> 4531</span>    std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writePrimitiveData): Vector of UUIDs passed to writePrimitiveData() function contained UUIDs that do not exist, which were skipped.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04532" name="l04532"></a><span class="lineno"> 4532</span>  }</div>
-<div class="line"><a id="l04533" name="l04533"></a><span class="lineno"> 4533</span>  <span class="keywordflow">if</span>( dataexistswarning ){</div>
-<div class="line"><a id="l04534" name="l04534"></a><span class="lineno"> 4534</span>    std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writePrimitiveData): Primitive data requested did not exist for one or more primitives. A default value of 0 was written in these cases.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04535" name="l04535"></a><span class="lineno"> 4535</span>  }</div>
-<div class="line"><a id="l04536" name="l04536"></a><span class="lineno"> 4536</span>  <span class="keywordflow">if</span>( datatypewarning ){</div>
-<div class="line"><a id="l04537" name="l04537"></a><span class="lineno"> 4537</span>    std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writePrimitiveData): Only scalar primitive data types (uint, int, float, and double) are supported for this function. A column of 0&#39;s was written in these cases.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04538" name="l04538"></a><span class="lineno"> 4538</span>  }</div>
-<div class="line"><a id="l04539" name="l04539"></a><span class="lineno"> 4539</span> </div>
-<div class="line"><a id="l04540" name="l04540"></a><span class="lineno"> 4540</span>  file.close();</div>
-<div class="line"><a id="l04541" name="l04541"></a><span class="lineno"> 4541</span> </div>
-<div class="line"><a id="l04542" name="l04542"></a><span class="lineno"> 4542</span>}</div>
-</div>
-<div class="line"><a id="l04543" name="l04543"></a><span class="lineno"> 4543</span> </div>
-<div class="foldopen" id="foldopen04544" data-start="{" data-end="}">
-<div class="line"><a id="l04544" name="l04544"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a1dc9a0f79be2477c4873755586744e51"> 4544</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="classhelios_1_1_context.html#a1dc9a0f79be2477c4873755586744e51">Context::loadTabularTimeseriesData</a>( <span class="keyword">const</span> std::string &amp;data_file, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;col_labels, <span class="keyword">const</span> std::string &amp;a_delimeter, <span class="keyword">const</span> std::string &amp;a_date_string_format, uint headerlines ){</div>
-<div class="line"><a id="l04545" name="l04545"></a><span class="lineno"> 4545</span> </div>
-<div class="line"><a id="l04546" name="l04546"></a><span class="lineno"> 4546</span>    std::ifstream datafile(data_file); <span class="comment">//open the file</span></div>
+<div class="line"><a id="l04521" name="l04521"></a><span class="lineno"> 4521</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a520daf05a1b3086aabd6cbe6a712c1c3">HELIOS_TYPE_DOUBLE</a> ) {</div>
+<div class="line"><a id="l04522" name="l04522"></a><span class="lineno"> 4522</span>        <span class="keywordtype">double</span> data;</div>
+<div class="line"><a id="l04523" name="l04523"></a><span class="lineno"> 4523</span>        <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
+<div class="line"><a id="l04524" name="l04524"></a><span class="lineno"> 4524</span>        file &lt;&lt; data &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l04525" name="l04525"></a><span class="lineno"> 4525</span>      }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7c1f526f519f173e5931fd73b78ccbb3">HELIOS_TYPE_STRING</a> ) {</div>
+<div class="line"><a id="l04526" name="l04526"></a><span class="lineno"> 4526</span>        std::string data;</div>
+<div class="line"><a id="l04527" name="l04527"></a><span class="lineno"> 4527</span>        <a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, label.c_str(), data);</div>
+<div class="line"><a id="l04528" name="l04528"></a><span class="lineno"> 4528</span>        file &lt;&lt; data &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l04529" name="l04529"></a><span class="lineno"> 4529</span>      }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04530" name="l04530"></a><span class="lineno"> 4530</span>        datatypewarning=<span class="keyword">true</span>;</div>
+<div class="line"><a id="l04531" name="l04531"></a><span class="lineno"> 4531</span>        file &lt;&lt; 0 &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l04532" name="l04532"></a><span class="lineno"> 4532</span>      }</div>
+<div class="line"><a id="l04533" name="l04533"></a><span class="lineno"> 4533</span>    }</div>
+<div class="line"><a id="l04534" name="l04534"></a><span class="lineno"> 4534</span>    file.seekp(-1, std::ios_base::end);</div>
+<div class="line"><a id="l04535" name="l04535"></a><span class="lineno"> 4535</span>    file &lt;&lt; <span class="stringliteral">&quot;\n&quot;</span>;</div>
+<div class="line"><a id="l04536" name="l04536"></a><span class="lineno"> 4536</span>  }</div>
+<div class="line"><a id="l04537" name="l04537"></a><span class="lineno"> 4537</span> </div>
+<div class="line"><a id="l04538" name="l04538"></a><span class="lineno"> 4538</span>  <span class="keywordflow">if</span>( uuidexistswarning ){</div>
+<div class="line"><a id="l04539" name="l04539"></a><span class="lineno"> 4539</span>    std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writePrimitiveData): Vector of UUIDs passed to writePrimitiveData() function contained UUIDs that do not exist, which were skipped.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04540" name="l04540"></a><span class="lineno"> 4540</span>  }</div>
+<div class="line"><a id="l04541" name="l04541"></a><span class="lineno"> 4541</span>  <span class="keywordflow">if</span>( dataexistswarning ){</div>
+<div class="line"><a id="l04542" name="l04542"></a><span class="lineno"> 4542</span>    std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writePrimitiveData): Primitive data requested did not exist for one or more primitives. A default value of 0 was written in these cases.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04543" name="l04543"></a><span class="lineno"> 4543</span>  }</div>
+<div class="line"><a id="l04544" name="l04544"></a><span class="lineno"> 4544</span>  <span class="keywordflow">if</span>( datatypewarning ){</div>
+<div class="line"><a id="l04545" name="l04545"></a><span class="lineno"> 4545</span>    std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::writePrimitiveData): Only scalar primitive data types (uint, int, float, and double) are supported for this function. A column of 0&#39;s was written in these cases.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04546" name="l04546"></a><span class="lineno"> 4546</span>  }</div>
 <div class="line"><a id="l04547" name="l04547"></a><span class="lineno"> 4547</span> </div>
-<div class="line"><a id="l04548" name="l04548"></a><span class="lineno"> 4548</span>    <span class="keywordflow">if</span>(!datafile.is_open()){ <span class="comment">//check that file exists</span></div>
-<div class="line"><a id="l04549" name="l04549"></a><span class="lineno"> 4549</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Weather data file &#39;&quot;</span> + data_file + <span class="stringliteral">&quot;&#39; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l04550" name="l04550"></a><span class="lineno"> 4550</span>    }</div>
+<div class="line"><a id="l04548" name="l04548"></a><span class="lineno"> 4548</span>  file.close();</div>
+<div class="line"><a id="l04549" name="l04549"></a><span class="lineno"> 4549</span> </div>
+<div class="line"><a id="l04550" name="l04550"></a><span class="lineno"> 4550</span>}</div>
+</div>
 <div class="line"><a id="l04551" name="l04551"></a><span class="lineno"> 4551</span> </div>
-<div class="line"><a id="l04552" name="l04552"></a><span class="lineno"> 4552</span>    <span class="keywordtype">int</span> yearcol=-1;</div>
-<div class="line"><a id="l04553" name="l04553"></a><span class="lineno"> 4553</span>    <span class="keywordtype">int</span> DOYcol=-1;</div>
-<div class="line"><a id="l04554" name="l04554"></a><span class="lineno"> 4554</span>    <span class="keywordtype">int</span> datestrcol=-1;</div>
-<div class="line"><a id="l04555" name="l04555"></a><span class="lineno"> 4555</span>    <span class="keywordtype">int</span> hourcol=-1;</div>
-<div class="line"><a id="l04556" name="l04556"></a><span class="lineno"> 4556</span>    <span class="keywordtype">int</span> minutecol=-1;</div>
-<div class="line"><a id="l04557" name="l04557"></a><span class="lineno"> 4557</span>    <span class="keywordtype">int</span> secondcol=-1;</div>
-<div class="line"><a id="l04558" name="l04558"></a><span class="lineno"> 4558</span>    <span class="keywordtype">int</span> timestrcol=-1;</div>
-<div class="line"><a id="l04559" name="l04559"></a><span class="lineno"> 4559</span>    std::map&lt;std::string,int&gt; datacols;</div>
-<div class="line"><a id="l04560" name="l04560"></a><span class="lineno"> 4560</span> </div>
-<div class="line"><a id="l04561" name="l04561"></a><span class="lineno"> 4561</span>    <span class="keywordtype">size_t</span> Ncolumns = 0;</div>
-<div class="line"><a id="l04562" name="l04562"></a><span class="lineno"> 4562</span> </div>
-<div class="line"><a id="l04563" name="l04563"></a><span class="lineno"> 4563</span>    <span class="keywordtype">size_t</span> row = headerlines;</div>
-<div class="line"><a id="l04564" name="l04564"></a><span class="lineno"> 4564</span> </div>
-<div class="line"><a id="l04565" name="l04565"></a><span class="lineno"> 4565</span>    std::vector&lt;std::string&gt; column_labels = col_labels;</div>
-<div class="line"><a id="l04566" name="l04566"></a><span class="lineno"> 4566</span>    std::string delimiter = a_delimeter;</div>
-<div class="line"><a id="l04567" name="l04567"></a><span class="lineno"> 4567</span>    std::string date_string_format = a_date_string_format;</div>
+<div class="foldopen" id="foldopen04552" data-start="{" data-end="}">
+<div class="line"><a id="l04552" name="l04552"></a><span class="lineno"><a class="line" href="classhelios_1_1_context.html#a1dc9a0f79be2477c4873755586744e51"> 4552</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="classhelios_1_1_context.html#a1dc9a0f79be2477c4873755586744e51">Context::loadTabularTimeseriesData</a>( <span class="keyword">const</span> std::string &amp;data_file, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;col_labels, <span class="keyword">const</span> std::string &amp;a_delimeter, <span class="keyword">const</span> std::string &amp;a_date_string_format, uint headerlines ){</div>
+<div class="line"><a id="l04553" name="l04553"></a><span class="lineno"> 4553</span> </div>
+<div class="line"><a id="l04554" name="l04554"></a><span class="lineno"> 4554</span>    std::ifstream datafile(data_file); <span class="comment">//open the file</span></div>
+<div class="line"><a id="l04555" name="l04555"></a><span class="lineno"> 4555</span> </div>
+<div class="line"><a id="l04556" name="l04556"></a><span class="lineno"> 4556</span>    <span class="keywordflow">if</span>(!datafile.is_open()){ <span class="comment">//check that file exists</span></div>
+<div class="line"><a id="l04557" name="l04557"></a><span class="lineno"> 4557</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Weather data file &#39;&quot;</span> + data_file + <span class="stringliteral">&quot;&#39; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l04558" name="l04558"></a><span class="lineno"> 4558</span>    }</div>
+<div class="line"><a id="l04559" name="l04559"></a><span class="lineno"> 4559</span> </div>
+<div class="line"><a id="l04560" name="l04560"></a><span class="lineno"> 4560</span>    <span class="keywordtype">int</span> yearcol=-1;</div>
+<div class="line"><a id="l04561" name="l04561"></a><span class="lineno"> 4561</span>    <span class="keywordtype">int</span> DOYcol=-1;</div>
+<div class="line"><a id="l04562" name="l04562"></a><span class="lineno"> 4562</span>    <span class="keywordtype">int</span> datestrcol=-1;</div>
+<div class="line"><a id="l04563" name="l04563"></a><span class="lineno"> 4563</span>    <span class="keywordtype">int</span> hourcol=-1;</div>
+<div class="line"><a id="l04564" name="l04564"></a><span class="lineno"> 4564</span>    <span class="keywordtype">int</span> minutecol=-1;</div>
+<div class="line"><a id="l04565" name="l04565"></a><span class="lineno"> 4565</span>    <span class="keywordtype">int</span> secondcol=-1;</div>
+<div class="line"><a id="l04566" name="l04566"></a><span class="lineno"> 4566</span>    <span class="keywordtype">int</span> timestrcol=-1;</div>
+<div class="line"><a id="l04567" name="l04567"></a><span class="lineno"> 4567</span>    std::map&lt;std::string,int&gt; datacols;</div>
 <div class="line"><a id="l04568" name="l04568"></a><span class="lineno"> 4568</span> </div>
-<div class="line"><a id="l04569" name="l04569"></a><span class="lineno"> 4569</span>    <span class="comment">// pre-defined labels for CIMIS weather data files</span></div>
-<div class="line"><a id="l04570" name="l04570"></a><span class="lineno"> 4570</span>    <span class="keywordflow">if</span>( col_labels.size()==1 &amp;&amp; ( col_labels.front()==<span class="stringliteral">&quot;CIMIS&quot;</span> || col_labels.front()==<span class="stringliteral">&quot;cimis&quot;</span> ) ) {</div>
-<div class="line"><a id="l04571" name="l04571"></a><span class="lineno"> 4571</span>        column_labels = {<span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;date&quot;</span>, <span class="stringliteral">&quot;hour&quot;</span>, <span class="stringliteral">&quot;DOY&quot;</span>, <span class="stringliteral">&quot;ETo&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;precipitation&quot;</span>, <span class="stringliteral">&quot;&quot;</span>,</div>
-<div class="line"><a id="l04572" name="l04572"></a><span class="lineno"> 4572</span>                         <span class="stringliteral">&quot;net_radiation&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;vapor_pressure&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;air_temperature&quot;</span>, <span class="stringliteral">&quot;&quot;</span>,</div>
-<div class="line"><a id="l04573" name="l04573"></a><span class="lineno"> 4573</span>                         <span class="stringliteral">&quot;air_humidity&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;dew_point&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;wind_speed&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;wind_direction&quot;</span>,</div>
-<div class="line"><a id="l04574" name="l04574"></a><span class="lineno"> 4574</span>                         <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;soil_temperature&quot;</span>, <span class="stringliteral">&quot;&quot;</span>};</div>
-<div class="line"><a id="l04575" name="l04575"></a><span class="lineno"> 4575</span>        headerlines = 1;</div>
-<div class="line"><a id="l04576" name="l04576"></a><span class="lineno"> 4576</span>        delimiter = <span class="stringliteral">&quot;,&quot;</span>;</div>
-<div class="line"><a id="l04577" name="l04577"></a><span class="lineno"> 4577</span>        date_string_format = <span class="stringliteral">&quot;MMDDYYYY&quot;</span>;</div>
-<div class="line"><a id="l04578" name="l04578"></a><span class="lineno"> 4578</span> </div>
-<div class="line"><a id="l04579" name="l04579"></a><span class="lineno"> 4579</span>    }</div>
-<div class="line"><a id="l04580" name="l04580"></a><span class="lineno"> 4580</span> </div>
-<div class="line"><a id="l04581" name="l04581"></a><span class="lineno"> 4581</span>    <span class="comment">//If user specified column labels as an argument, parse them</span></div>
-<div class="line"><a id="l04582" name="l04582"></a><span class="lineno"> 4582</span>    <span class="keywordflow">if</span>( !column_labels.empty() ) {</div>
-<div class="line"><a id="l04583" name="l04583"></a><span class="lineno"> 4583</span> </div>
-<div class="line"><a id="l04584" name="l04584"></a><span class="lineno"> 4584</span>        <span class="keywordtype">int</span> col = 0;</div>
-<div class="line"><a id="l04585" name="l04585"></a><span class="lineno"> 4585</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;label: column_labels) {</div>
+<div class="line"><a id="l04569" name="l04569"></a><span class="lineno"> 4569</span>    <span class="keywordtype">size_t</span> Ncolumns = 0;</div>
+<div class="line"><a id="l04570" name="l04570"></a><span class="lineno"> 4570</span> </div>
+<div class="line"><a id="l04571" name="l04571"></a><span class="lineno"> 4571</span>    <span class="keywordtype">size_t</span> row = headerlines;</div>
+<div class="line"><a id="l04572" name="l04572"></a><span class="lineno"> 4572</span> </div>
+<div class="line"><a id="l04573" name="l04573"></a><span class="lineno"> 4573</span>    std::vector&lt;std::string&gt; column_labels = col_labels;</div>
+<div class="line"><a id="l04574" name="l04574"></a><span class="lineno"> 4574</span>    std::string delimiter = a_delimeter;</div>
+<div class="line"><a id="l04575" name="l04575"></a><span class="lineno"> 4575</span>    std::string date_string_format = a_date_string_format;</div>
+<div class="line"><a id="l04576" name="l04576"></a><span class="lineno"> 4576</span> </div>
+<div class="line"><a id="l04577" name="l04577"></a><span class="lineno"> 4577</span>    <span class="comment">// pre-defined labels for CIMIS weather data files</span></div>
+<div class="line"><a id="l04578" name="l04578"></a><span class="lineno"> 4578</span>    <span class="keywordflow">if</span>( col_labels.size()==1 &amp;&amp; ( col_labels.front()==<span class="stringliteral">&quot;CIMIS&quot;</span> || col_labels.front()==<span class="stringliteral">&quot;cimis&quot;</span> ) ) {</div>
+<div class="line"><a id="l04579" name="l04579"></a><span class="lineno"> 4579</span>        column_labels = {<span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;date&quot;</span>, <span class="stringliteral">&quot;hour&quot;</span>, <span class="stringliteral">&quot;DOY&quot;</span>, <span class="stringliteral">&quot;ETo&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;precipitation&quot;</span>, <span class="stringliteral">&quot;&quot;</span>,</div>
+<div class="line"><a id="l04580" name="l04580"></a><span class="lineno"> 4580</span>                         <span class="stringliteral">&quot;net_radiation&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;vapor_pressure&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;air_temperature&quot;</span>, <span class="stringliteral">&quot;&quot;</span>,</div>
+<div class="line"><a id="l04581" name="l04581"></a><span class="lineno"> 4581</span>                         <span class="stringliteral">&quot;air_humidity&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;dew_point&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;wind_speed&quot;</span>, <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;wind_direction&quot;</span>,</div>
+<div class="line"><a id="l04582" name="l04582"></a><span class="lineno"> 4582</span>                         <span class="stringliteral">&quot;&quot;</span>, <span class="stringliteral">&quot;soil_temperature&quot;</span>, <span class="stringliteral">&quot;&quot;</span>};</div>
+<div class="line"><a id="l04583" name="l04583"></a><span class="lineno"> 4583</span>        headerlines = 1;</div>
+<div class="line"><a id="l04584" name="l04584"></a><span class="lineno"> 4584</span>        delimiter = <span class="stringliteral">&quot;,&quot;</span>;</div>
+<div class="line"><a id="l04585" name="l04585"></a><span class="lineno"> 4585</span>        date_string_format = <span class="stringliteral">&quot;MMDDYYYY&quot;</span>;</div>
 <div class="line"><a id="l04586" name="l04586"></a><span class="lineno"> 4586</span> </div>
-<div class="line"><a id="l04587" name="l04587"></a><span class="lineno"> 4587</span>            <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;year&quot;</span> || label == <span class="stringliteral">&quot;Year&quot;</span>) {</div>
-<div class="line"><a id="l04588" name="l04588"></a><span class="lineno"> 4588</span>                yearcol = col;</div>
-<div class="line"><a id="l04589" name="l04589"></a><span class="lineno"> 4589</span>            } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;DOY&quot;</span> || label == <span class="stringliteral">&quot;Jul&quot;</span> ) {</div>
-<div class="line"><a id="l04590" name="l04590"></a><span class="lineno"> 4590</span>                DOYcol = col;</div>
-<div class="line"><a id="l04591" name="l04591"></a><span class="lineno"> 4591</span>            } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;date&quot;</span> || label == <span class="stringliteral">&quot;Date&quot;</span>) {</div>
-<div class="line"><a id="l04592" name="l04592"></a><span class="lineno"> 4592</span>                datestrcol = col;</div>
-<div class="line"><a id="l04593" name="l04593"></a><span class="lineno"> 4593</span>            } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;hour&quot;</span> || label == <span class="stringliteral">&quot;Hour&quot;</span>) {</div>
-<div class="line"><a id="l04594" name="l04594"></a><span class="lineno"> 4594</span>                hourcol = col;</div>
-<div class="line"><a id="l04595" name="l04595"></a><span class="lineno"> 4595</span>            } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;minute&quot;</span> || label == <span class="stringliteral">&quot;Minute&quot;</span>) {</div>
-<div class="line"><a id="l04596" name="l04596"></a><span class="lineno"> 4596</span>                minutecol = col;</div>
-<div class="line"><a id="l04597" name="l04597"></a><span class="lineno"> 4597</span>            } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;second&quot;</span> || label == <span class="stringliteral">&quot;Second&quot;</span>) {</div>
-<div class="line"><a id="l04598" name="l04598"></a><span class="lineno"> 4598</span>                secondcol = col;</div>
-<div class="line"><a id="l04599" name="l04599"></a><span class="lineno"> 4599</span>            }<span class="keywordflow">else</span> <span class="keywordflow">if</span> ( !label.empty() ){</div>
-<div class="line"><a id="l04600" name="l04600"></a><span class="lineno"> 4600</span>                <span class="keywordflow">if</span>( datacols.find(label)==datacols.end() ) {</div>
-<div class="line"><a id="l04601" name="l04601"></a><span class="lineno"> 4601</span>                    datacols[label] = col;</div>
-<div class="line"><a id="l04602" name="l04602"></a><span class="lineno"> 4602</span>                }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04603" name="l04603"></a><span class="lineno"> 4603</span>                    datacols[label+<span class="stringliteral">&quot;_dup&quot;</span>] = col;</div>
-<div class="line"><a id="l04604" name="l04604"></a><span class="lineno"> 4604</span>                }</div>
-<div class="line"><a id="l04605" name="l04605"></a><span class="lineno"> 4605</span>            }</div>
-<div class="line"><a id="l04606" name="l04606"></a><span class="lineno"> 4606</span> </div>
-<div class="line"><a id="l04607" name="l04607"></a><span class="lineno"> 4607</span>            col++;</div>
-<div class="line"><a id="l04608" name="l04608"></a><span class="lineno"> 4608</span>        }</div>
-<div class="line"><a id="l04609" name="l04609"></a><span class="lineno"> 4609</span> </div>
-<div class="line"><a id="l04610" name="l04610"></a><span class="lineno"> 4610</span>        Ncolumns = column_labels.size();</div>
-<div class="line"><a id="l04611" name="l04611"></a><span class="lineno"> 4611</span> </div>
-<div class="line"><a id="l04612" name="l04612"></a><span class="lineno"> 4612</span>    <span class="comment">// If column labels were not provided, read the first line of the text file and parse it for labels</span></div>
-<div class="line"><a id="l04613" name="l04613"></a><span class="lineno"> 4613</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04587" name="l04587"></a><span class="lineno"> 4587</span>    }</div>
+<div class="line"><a id="l04588" name="l04588"></a><span class="lineno"> 4588</span> </div>
+<div class="line"><a id="l04589" name="l04589"></a><span class="lineno"> 4589</span>    <span class="comment">//If user specified column labels as an argument, parse them</span></div>
+<div class="line"><a id="l04590" name="l04590"></a><span class="lineno"> 4590</span>    <span class="keywordflow">if</span>( !column_labels.empty() ) {</div>
+<div class="line"><a id="l04591" name="l04591"></a><span class="lineno"> 4591</span> </div>
+<div class="line"><a id="l04592" name="l04592"></a><span class="lineno"> 4592</span>        <span class="keywordtype">int</span> col = 0;</div>
+<div class="line"><a id="l04593" name="l04593"></a><span class="lineno"> 4593</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;label: column_labels) {</div>
+<div class="line"><a id="l04594" name="l04594"></a><span class="lineno"> 4594</span> </div>
+<div class="line"><a id="l04595" name="l04595"></a><span class="lineno"> 4595</span>            <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;year&quot;</span> || label == <span class="stringliteral">&quot;Year&quot;</span>) {</div>
+<div class="line"><a id="l04596" name="l04596"></a><span class="lineno"> 4596</span>                yearcol = col;</div>
+<div class="line"><a id="l04597" name="l04597"></a><span class="lineno"> 4597</span>            } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;DOY&quot;</span> || label == <span class="stringliteral">&quot;Jul&quot;</span> ) {</div>
+<div class="line"><a id="l04598" name="l04598"></a><span class="lineno"> 4598</span>                DOYcol = col;</div>
+<div class="line"><a id="l04599" name="l04599"></a><span class="lineno"> 4599</span>            } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;date&quot;</span> || label == <span class="stringliteral">&quot;Date&quot;</span>) {</div>
+<div class="line"><a id="l04600" name="l04600"></a><span class="lineno"> 4600</span>                datestrcol = col;</div>
+<div class="line"><a id="l04601" name="l04601"></a><span class="lineno"> 4601</span>            } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;hour&quot;</span> || label == <span class="stringliteral">&quot;Hour&quot;</span>) {</div>
+<div class="line"><a id="l04602" name="l04602"></a><span class="lineno"> 4602</span>                hourcol = col;</div>
+<div class="line"><a id="l04603" name="l04603"></a><span class="lineno"> 4603</span>            } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;minute&quot;</span> || label == <span class="stringliteral">&quot;Minute&quot;</span>) {</div>
+<div class="line"><a id="l04604" name="l04604"></a><span class="lineno"> 4604</span>                minutecol = col;</div>
+<div class="line"><a id="l04605" name="l04605"></a><span class="lineno"> 4605</span>            } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;second&quot;</span> || label == <span class="stringliteral">&quot;Second&quot;</span>) {</div>
+<div class="line"><a id="l04606" name="l04606"></a><span class="lineno"> 4606</span>                secondcol = col;</div>
+<div class="line"><a id="l04607" name="l04607"></a><span class="lineno"> 4607</span>            }<span class="keywordflow">else</span> <span class="keywordflow">if</span> ( !label.empty() ){</div>
+<div class="line"><a id="l04608" name="l04608"></a><span class="lineno"> 4608</span>                <span class="keywordflow">if</span>( datacols.find(label)==datacols.end() ) {</div>
+<div class="line"><a id="l04609" name="l04609"></a><span class="lineno"> 4609</span>                    datacols[label] = col;</div>
+<div class="line"><a id="l04610" name="l04610"></a><span class="lineno"> 4610</span>                }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04611" name="l04611"></a><span class="lineno"> 4611</span>                    datacols[label+<span class="stringliteral">&quot;_dup&quot;</span>] = col;</div>
+<div class="line"><a id="l04612" name="l04612"></a><span class="lineno"> 4612</span>                }</div>
+<div class="line"><a id="l04613" name="l04613"></a><span class="lineno"> 4613</span>            }</div>
 <div class="line"><a id="l04614" name="l04614"></a><span class="lineno"> 4614</span> </div>
-<div class="line"><a id="l04615" name="l04615"></a><span class="lineno"> 4615</span>        <span class="keywordflow">if</span>( headerlines==0 ){</div>
-<div class="line"><a id="l04616" name="l04616"></a><span class="lineno"> 4616</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadTabularTimeseriesData): &quot;</span><span class="stringliteral">&quot;headerlines&quot;</span><span class="stringliteral">&quot; argument was specified as zero, and no column label information was given. Attempting to read the first line to see if it contains label information.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04617" name="l04617"></a><span class="lineno"> 4617</span>            headerlines++;</div>
-<div class="line"><a id="l04618" name="l04618"></a><span class="lineno"> 4618</span>        }</div>
+<div class="line"><a id="l04615" name="l04615"></a><span class="lineno"> 4615</span>            col++;</div>
+<div class="line"><a id="l04616" name="l04616"></a><span class="lineno"> 4616</span>        }</div>
+<div class="line"><a id="l04617" name="l04617"></a><span class="lineno"> 4617</span> </div>
+<div class="line"><a id="l04618" name="l04618"></a><span class="lineno"> 4618</span>        Ncolumns = column_labels.size();</div>
 <div class="line"><a id="l04619" name="l04619"></a><span class="lineno"> 4619</span> </div>
-<div class="line"><a id="l04620" name="l04620"></a><span class="lineno"> 4620</span>        std::string line;</div>
-<div class="line"><a id="l04621" name="l04621"></a><span class="lineno"> 4621</span>        <span class="keywordflow">if</span>( std::getline(datafile, line) ){</div>
+<div class="line"><a id="l04620" name="l04620"></a><span class="lineno"> 4620</span>    <span class="comment">// If column labels were not provided, read the first line of the text file and parse it for labels</span></div>
+<div class="line"><a id="l04621" name="l04621"></a><span class="lineno"> 4621</span>    }<span class="keywordflow">else</span>{</div>
 <div class="line"><a id="l04622" name="l04622"></a><span class="lineno"> 4622</span> </div>
-<div class="line"><a id="l04623" name="l04623"></a><span class="lineno"> 4623</span>            std::vector&lt;std::string&gt; line_parsed = <a class="code hl_function" href="group__functions.html#gae239abbec7c2ff618b3603bf69ccf2ed">separate_string_by_delimiter</a>( line, delimiter );</div>
-<div class="line"><a id="l04624" name="l04624"></a><span class="lineno"> 4624</span> </div>
-<div class="line"><a id="l04625" name="l04625"></a><span class="lineno"> 4625</span>            <span class="keywordflow">if</span>( line_parsed.empty() ){</div>
-<div class="line"><a id="l04626" name="l04626"></a><span class="lineno"> 4626</span>                <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Attempted to parse first line of file for column labels, but it did not contain the specified delimiter.&quot;</span>);</div>
-<div class="line"><a id="l04627" name="l04627"></a><span class="lineno"> 4627</span>            }</div>
-<div class="line"><a id="l04628" name="l04628"></a><span class="lineno"> 4628</span> </div>
-<div class="line"><a id="l04629" name="l04629"></a><span class="lineno"> 4629</span>            Ncolumns = line_parsed.size();</div>
+<div class="line"><a id="l04623" name="l04623"></a><span class="lineno"> 4623</span>        <span class="keywordflow">if</span>( headerlines==0 ){</div>
+<div class="line"><a id="l04624" name="l04624"></a><span class="lineno"> 4624</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadTabularTimeseriesData): &quot;</span><span class="stringliteral">&quot;headerlines&quot;</span><span class="stringliteral">&quot; argument was specified as zero, and no column label information was given. Attempting to read the first line to see if it contains label information.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04625" name="l04625"></a><span class="lineno"> 4625</span>            headerlines++;</div>
+<div class="line"><a id="l04626" name="l04626"></a><span class="lineno"> 4626</span>        }</div>
+<div class="line"><a id="l04627" name="l04627"></a><span class="lineno"> 4627</span> </div>
+<div class="line"><a id="l04628" name="l04628"></a><span class="lineno"> 4628</span>        std::string line;</div>
+<div class="line"><a id="l04629" name="l04629"></a><span class="lineno"> 4629</span>        <span class="keywordflow">if</span>( std::getline(datafile, line) ){</div>
 <div class="line"><a id="l04630" name="l04630"></a><span class="lineno"> 4630</span> </div>
-<div class="line"><a id="l04631" name="l04631"></a><span class="lineno"> 4631</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> col=0; col&lt;Ncolumns; col++ ){</div>
+<div class="line"><a id="l04631" name="l04631"></a><span class="lineno"> 4631</span>            std::vector&lt;std::string&gt; line_parsed = <a class="code hl_function" href="group__functions.html#gae239abbec7c2ff618b3603bf69ccf2ed">separate_string_by_delimiter</a>( line, delimiter );</div>
 <div class="line"><a id="l04632" name="l04632"></a><span class="lineno"> 4632</span> </div>
-<div class="line"><a id="l04633" name="l04633"></a><span class="lineno"> 4633</span>                std::string label = line_parsed.at(col);</div>
-<div class="line"><a id="l04634" name="l04634"></a><span class="lineno"> 4634</span> </div>
-<div class="line"><a id="l04635" name="l04635"></a><span class="lineno"> 4635</span>                <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;year&quot;</span> || label == <span class="stringliteral">&quot;Year&quot;</span>) {</div>
-<div class="line"><a id="l04636" name="l04636"></a><span class="lineno"> 4636</span>                    yearcol = col;</div>
-<div class="line"><a id="l04637" name="l04637"></a><span class="lineno"> 4637</span>                } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;DOY&quot;</span> || label == <span class="stringliteral">&quot;Jul&quot;</span> ) {</div>
-<div class="line"><a id="l04638" name="l04638"></a><span class="lineno"> 4638</span>                    DOYcol = col;</div>
-<div class="line"><a id="l04639" name="l04639"></a><span class="lineno"> 4639</span>                } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;date&quot;</span> || label == <span class="stringliteral">&quot;Date&quot;</span>) {</div>
-<div class="line"><a id="l04640" name="l04640"></a><span class="lineno"> 4640</span>                    datestrcol = col;</div>
-<div class="line"><a id="l04641" name="l04641"></a><span class="lineno"> 4641</span>                } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;hour&quot;</span> || label == <span class="stringliteral">&quot;Hour&quot;</span>) {</div>
-<div class="line"><a id="l04642" name="l04642"></a><span class="lineno"> 4642</span>                    hourcol = col;</div>
-<div class="line"><a id="l04643" name="l04643"></a><span class="lineno"> 4643</span>                } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;minute&quot;</span> || label == <span class="stringliteral">&quot;Minute&quot;</span>) {</div>
-<div class="line"><a id="l04644" name="l04644"></a><span class="lineno"> 4644</span>                    minutecol = col;</div>
-<div class="line"><a id="l04645" name="l04645"></a><span class="lineno"> 4645</span>                } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;second&quot;</span> || label == <span class="stringliteral">&quot;Second&quot;</span>) {</div>
-<div class="line"><a id="l04646" name="l04646"></a><span class="lineno"> 4646</span>                    secondcol = col;</div>
-<div class="line"><a id="l04647" name="l04647"></a><span class="lineno"> 4647</span>                }<span class="keywordflow">else</span> <span class="keywordflow">if</span> ( !label.empty() ) {</div>
-<div class="line"><a id="l04648" name="l04648"></a><span class="lineno"> 4648</span>                    <span class="keywordflow">if</span>( datacols.find(label)==datacols.end() ) {</div>
-<div class="line"><a id="l04649" name="l04649"></a><span class="lineno"> 4649</span>                        datacols[label] = col;</div>
-<div class="line"><a id="l04650" name="l04650"></a><span class="lineno"> 4650</span>                    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04651" name="l04651"></a><span class="lineno"> 4651</span>                        datacols[label+<span class="stringliteral">&quot;_dup&quot;</span>] = col;</div>
-<div class="line"><a id="l04652" name="l04652"></a><span class="lineno"> 4652</span>                    }</div>
-<div class="line"><a id="l04653" name="l04653"></a><span class="lineno"> 4653</span>                }</div>
-<div class="line"><a id="l04654" name="l04654"></a><span class="lineno"> 4654</span> </div>
-<div class="line"><a id="l04655" name="l04655"></a><span class="lineno"> 4655</span>            }</div>
-<div class="line"><a id="l04656" name="l04656"></a><span class="lineno"> 4656</span> </div>
-<div class="line"><a id="l04657" name="l04657"></a><span class="lineno"> 4657</span>            headerlines --;</div>
-<div class="line"><a id="l04658" name="l04658"></a><span class="lineno"> 4658</span> </div>
-<div class="line"><a id="l04659" name="l04659"></a><span class="lineno"> 4659</span>        }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04660" name="l04660"></a><span class="lineno"> 4660</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Attempted to parse first line of file for column labels, but read failed.&quot;</span>);</div>
-<div class="line"><a id="l04661" name="l04661"></a><span class="lineno"> 4661</span>        }</div>
+<div class="line"><a id="l04633" name="l04633"></a><span class="lineno"> 4633</span>            <span class="keywordflow">if</span>( line_parsed.empty() ){</div>
+<div class="line"><a id="l04634" name="l04634"></a><span class="lineno"> 4634</span>                <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Attempted to parse first line of file for column labels, but it did not contain the specified delimiter.&quot;</span>);</div>
+<div class="line"><a id="l04635" name="l04635"></a><span class="lineno"> 4635</span>            }</div>
+<div class="line"><a id="l04636" name="l04636"></a><span class="lineno"> 4636</span> </div>
+<div class="line"><a id="l04637" name="l04637"></a><span class="lineno"> 4637</span>            Ncolumns = line_parsed.size();</div>
+<div class="line"><a id="l04638" name="l04638"></a><span class="lineno"> 4638</span> </div>
+<div class="line"><a id="l04639" name="l04639"></a><span class="lineno"> 4639</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> col=0; col&lt;Ncolumns; col++ ){</div>
+<div class="line"><a id="l04640" name="l04640"></a><span class="lineno"> 4640</span> </div>
+<div class="line"><a id="l04641" name="l04641"></a><span class="lineno"> 4641</span>                std::string label = line_parsed.at(col);</div>
+<div class="line"><a id="l04642" name="l04642"></a><span class="lineno"> 4642</span> </div>
+<div class="line"><a id="l04643" name="l04643"></a><span class="lineno"> 4643</span>                <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;year&quot;</span> || label == <span class="stringliteral">&quot;Year&quot;</span>) {</div>
+<div class="line"><a id="l04644" name="l04644"></a><span class="lineno"> 4644</span>                    yearcol = col;</div>
+<div class="line"><a id="l04645" name="l04645"></a><span class="lineno"> 4645</span>                } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;DOY&quot;</span> || label == <span class="stringliteral">&quot;Jul&quot;</span> ) {</div>
+<div class="line"><a id="l04646" name="l04646"></a><span class="lineno"> 4646</span>                    DOYcol = col;</div>
+<div class="line"><a id="l04647" name="l04647"></a><span class="lineno"> 4647</span>                } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;date&quot;</span> || label == <span class="stringliteral">&quot;Date&quot;</span>) {</div>
+<div class="line"><a id="l04648" name="l04648"></a><span class="lineno"> 4648</span>                    datestrcol = col;</div>
+<div class="line"><a id="l04649" name="l04649"></a><span class="lineno"> 4649</span>                } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;hour&quot;</span> || label == <span class="stringliteral">&quot;Hour&quot;</span>) {</div>
+<div class="line"><a id="l04650" name="l04650"></a><span class="lineno"> 4650</span>                    hourcol = col;</div>
+<div class="line"><a id="l04651" name="l04651"></a><span class="lineno"> 4651</span>                } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;minute&quot;</span> || label == <span class="stringliteral">&quot;Minute&quot;</span>) {</div>
+<div class="line"><a id="l04652" name="l04652"></a><span class="lineno"> 4652</span>                    minutecol = col;</div>
+<div class="line"><a id="l04653" name="l04653"></a><span class="lineno"> 4653</span>                } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (label == <span class="stringliteral">&quot;second&quot;</span> || label == <span class="stringliteral">&quot;Second&quot;</span>) {</div>
+<div class="line"><a id="l04654" name="l04654"></a><span class="lineno"> 4654</span>                    secondcol = col;</div>
+<div class="line"><a id="l04655" name="l04655"></a><span class="lineno"> 4655</span>                }<span class="keywordflow">else</span> <span class="keywordflow">if</span> ( !label.empty() ) {</div>
+<div class="line"><a id="l04656" name="l04656"></a><span class="lineno"> 4656</span>                    <span class="keywordflow">if</span>( datacols.find(label)==datacols.end() ) {</div>
+<div class="line"><a id="l04657" name="l04657"></a><span class="lineno"> 4657</span>                        datacols[label] = col;</div>
+<div class="line"><a id="l04658" name="l04658"></a><span class="lineno"> 4658</span>                    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04659" name="l04659"></a><span class="lineno"> 4659</span>                        datacols[label+<span class="stringliteral">&quot;_dup&quot;</span>] = col;</div>
+<div class="line"><a id="l04660" name="l04660"></a><span class="lineno"> 4660</span>                    }</div>
+<div class="line"><a id="l04661" name="l04661"></a><span class="lineno"> 4661</span>                }</div>
 <div class="line"><a id="l04662" name="l04662"></a><span class="lineno"> 4662</span> </div>
-<div class="line"><a id="l04663" name="l04663"></a><span class="lineno"> 4663</span>        <span class="keywordflow">if</span>( yearcol==-1 &amp;&amp; DOYcol==-1 &amp;&amp; datestrcol==-1 ){</div>
-<div class="line"><a id="l04664" name="l04664"></a><span class="lineno"> 4664</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Attempted to parse first line of file for column labels, but could not find valid label information.&quot;</span>);</div>
-<div class="line"><a id="l04665" name="l04665"></a><span class="lineno"> 4665</span>        }</div>
+<div class="line"><a id="l04663" name="l04663"></a><span class="lineno"> 4663</span>            }</div>
+<div class="line"><a id="l04664" name="l04664"></a><span class="lineno"> 4664</span> </div>
+<div class="line"><a id="l04665" name="l04665"></a><span class="lineno"> 4665</span>            headerlines --;</div>
 <div class="line"><a id="l04666" name="l04666"></a><span class="lineno"> 4666</span> </div>
-<div class="line"><a id="l04667" name="l04667"></a><span class="lineno"> 4667</span>    }</div>
-<div class="line"><a id="l04668" name="l04668"></a><span class="lineno"> 4668</span> </div>
-<div class="line"><a id="l04669" name="l04669"></a><span class="lineno"> 4669</span>    <span class="keywordflow">if</span>( datestrcol&lt;0 &amp;&amp; (yearcol&lt;0 || DOYcol&lt;0) ){</div>
-<div class="line"><a id="l04670" name="l04670"></a><span class="lineno"> 4670</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): The date must be specified by either a column labeled &quot;</span><span class="stringliteral">&quot;date&quot;</span><span class="stringliteral">&quot;, or by two columns labeled &quot;</span><span class="stringliteral">&quot;year&quot;</span><span class="stringliteral">&quot; and &quot;</span><span class="stringliteral">&quot;DOY&quot;</span><span class="stringliteral">&quot;.&quot;</span>);</div>
-<div class="line"><a id="l04671" name="l04671"></a><span class="lineno"> 4671</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( hourcol&lt;0 ){</div>
-<div class="line"><a id="l04672" name="l04672"></a><span class="lineno"> 4672</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): At a minimum, the time must be specified by a column labeled &quot;</span><span class="stringliteral">&quot;hour&quot;</span><span class="stringliteral">&quot;.&quot;</span> );</div>
-<div class="line"><a id="l04673" name="l04673"></a><span class="lineno"> 4673</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( datacols.empty() ){</div>
-<div class="line"><a id="l04674" name="l04674"></a><span class="lineno"> 4674</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): No columns were found containing data variables (e.g., temperature, humidity, wind speed).&quot;</span>);</div>
+<div class="line"><a id="l04667" name="l04667"></a><span class="lineno"> 4667</span>        }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04668" name="l04668"></a><span class="lineno"> 4668</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Attempted to parse first line of file for column labels, but read failed.&quot;</span>);</div>
+<div class="line"><a id="l04669" name="l04669"></a><span class="lineno"> 4669</span>        }</div>
+<div class="line"><a id="l04670" name="l04670"></a><span class="lineno"> 4670</span> </div>
+<div class="line"><a id="l04671" name="l04671"></a><span class="lineno"> 4671</span>        <span class="keywordflow">if</span>( yearcol==-1 &amp;&amp; DOYcol==-1 &amp;&amp; datestrcol==-1 ){</div>
+<div class="line"><a id="l04672" name="l04672"></a><span class="lineno"> 4672</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Attempted to parse first line of file for column labels, but could not find valid label information.&quot;</span>);</div>
+<div class="line"><a id="l04673" name="l04673"></a><span class="lineno"> 4673</span>        }</div>
+<div class="line"><a id="l04674" name="l04674"></a><span class="lineno"> 4674</span> </div>
 <div class="line"><a id="l04675" name="l04675"></a><span class="lineno"> 4675</span>    }</div>
 <div class="line"><a id="l04676" name="l04676"></a><span class="lineno"> 4676</span> </div>
-<div class="line"><a id="l04677" name="l04677"></a><span class="lineno"> 4677</span>    std::string line;</div>
-<div class="line"><a id="l04678" name="l04678"></a><span class="lineno"> 4678</span> </div>
-<div class="line"><a id="l04679" name="l04679"></a><span class="lineno"> 4679</span>    <span class="comment">//skip header lines</span></div>
-<div class="line"><a id="l04680" name="l04680"></a><span class="lineno"> 4680</span>    <span class="comment">//note: if we read labels from the first header line above, we don&#39;t need to skip another line</span></div>
-<div class="line"><a id="l04681" name="l04681"></a><span class="lineno"> 4681</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; headerlines; i++) {</div>
-<div class="line"><a id="l04682" name="l04682"></a><span class="lineno"> 4682</span>        std::getline(datafile, line);</div>
+<div class="line"><a id="l04677" name="l04677"></a><span class="lineno"> 4677</span>    <span class="keywordflow">if</span>( datestrcol&lt;0 &amp;&amp; (yearcol&lt;0 || DOYcol&lt;0) ){</div>
+<div class="line"><a id="l04678" name="l04678"></a><span class="lineno"> 4678</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): The date must be specified by either a column labeled &quot;</span><span class="stringliteral">&quot;date&quot;</span><span class="stringliteral">&quot;, or by two columns labeled &quot;</span><span class="stringliteral">&quot;year&quot;</span><span class="stringliteral">&quot; and &quot;</span><span class="stringliteral">&quot;DOY&quot;</span><span class="stringliteral">&quot;.&quot;</span>);</div>
+<div class="line"><a id="l04679" name="l04679"></a><span class="lineno"> 4679</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( hourcol&lt;0 ){</div>
+<div class="line"><a id="l04680" name="l04680"></a><span class="lineno"> 4680</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): At a minimum, the time must be specified by a column labeled &quot;</span><span class="stringliteral">&quot;hour&quot;</span><span class="stringliteral">&quot;.&quot;</span> );</div>
+<div class="line"><a id="l04681" name="l04681"></a><span class="lineno"> 4681</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( datacols.empty() ){</div>
+<div class="line"><a id="l04682" name="l04682"></a><span class="lineno"> 4682</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): No columns were found containing data variables (e.g., temperature, humidity, wind speed).&quot;</span>);</div>
 <div class="line"><a id="l04683" name="l04683"></a><span class="lineno"> 4683</span>    }</div>
 <div class="line"><a id="l04684" name="l04684"></a><span class="lineno"> 4684</span> </div>
-<div class="line"><a id="l04685" name="l04685"></a><span class="lineno"> 4685</span>    <span class="keywordflow">while</span> ( std::getline(datafile, line) ) { <span class="comment">//loop through file to read data</span></div>
-<div class="line"><a id="l04686" name="l04686"></a><span class="lineno"> 4686</span>        row++;</div>
-<div class="line"><a id="l04687" name="l04687"></a><span class="lineno"> 4687</span> </div>
-<div class="line"><a id="l04688" name="l04688"></a><span class="lineno"> 4688</span>        <span class="keywordflow">if</span>( <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line).empty() &amp;&amp; row&gt;1 ){</div>
-<div class="line"><a id="l04689" name="l04689"></a><span class="lineno"> 4689</span>            <span class="keywordflow">break</span>;</div>
-<div class="line"><a id="l04690" name="l04690"></a><span class="lineno"> 4690</span>        }</div>
-<div class="line"><a id="l04691" name="l04691"></a><span class="lineno"> 4691</span> </div>
-<div class="line"><a id="l04692" name="l04692"></a><span class="lineno"> 4692</span>        <span class="comment">//separate the line by delimiter</span></div>
-<div class="line"><a id="l04693" name="l04693"></a><span class="lineno"> 4693</span>        std::vector&lt;std::string&gt; line_separated = <a class="code hl_function" href="group__functions.html#gae239abbec7c2ff618b3603bf69ccf2ed">separate_string_by_delimiter</a>( line, delimiter );</div>
-<div class="line"><a id="l04694" name="l04694"></a><span class="lineno"> 4694</span> </div>
-<div class="line"><a id="l04695" name="l04695"></a><span class="lineno"> 4695</span>        <span class="keywordflow">if</span>( line_separated.size()!=Ncolumns ){</div>
-<div class="line"><a id="l04696" name="l04696"></a><span class="lineno"> 4696</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Line &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; had &quot;</span> + std::to_string(line_separated.size()) + <span class="stringliteral">&quot; columns, but was expecting &quot;</span> + std::to_string(Ncolumns) );</div>
-<div class="line"><a id="l04697" name="l04697"></a><span class="lineno"> 4697</span>        }</div>
-<div class="line"><a id="l04698" name="l04698"></a><span class="lineno"> 4698</span> </div>
-<div class="line"><a id="l04699" name="l04699"></a><span class="lineno"> 4699</span>        <span class="comment">//compile date</span></div>
-<div class="line"><a id="l04700" name="l04700"></a><span class="lineno"> 4700</span>        <a class="code hl_struct" href="structhelios_1_1_date.html">Date</a> date;</div>
-<div class="line"><a id="l04701" name="l04701"></a><span class="lineno"> 4701</span>        <span class="keywordflow">if</span>( yearcol&gt;=0 &amp;&amp; DOYcol&gt;=0 ){</div>
-<div class="line"><a id="l04702" name="l04702"></a><span class="lineno"> 4702</span>            <span class="keywordtype">int</span> DOY;</div>
-<div class="line"><a id="l04703" name="l04703"></a><span class="lineno"> 4703</span>            <a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>(line_separated.at(DOYcol), DOY);</div>
-<div class="line"><a id="l04704" name="l04704"></a><span class="lineno"> 4704</span>            <span class="keywordflow">if</span>( DOY&lt;1 || DOY&gt;366 ){</div>
-<div class="line"><a id="l04705" name="l04705"></a><span class="lineno"> 4705</span>                <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Invalid date specified on line &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot;.&quot;</span>);</div>
-<div class="line"><a id="l04706" name="l04706"></a><span class="lineno"> 4706</span>            }</div>
-<div class="line"><a id="l04707" name="l04707"></a><span class="lineno"> 4707</span>            <span class="keywordtype">int</span> year;</div>
-<div class="line"><a id="l04708" name="l04708"></a><span class="lineno"> 4708</span>            <a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>(line_separated.at( yearcol ), year);</div>
-<div class="line"><a id="l04709" name="l04709"></a><span class="lineno"> 4709</span>            <span class="keywordflow">if</span>( year&lt;1000 ){</div>
-<div class="line"><a id="l04710" name="l04710"></a><span class="lineno"> 4710</span>                <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Invalid year specified on line &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot;.&quot;</span>);</div>
-<div class="line"><a id="l04711" name="l04711"></a><span class="lineno"> 4711</span>            }</div>
-<div class="line"><a id="l04712" name="l04712"></a><span class="lineno"> 4712</span>            date = <a class="code hl_function" href="group__vectors.html#gad4c811a7a39319de43f58c93e14ecda6">make_Date</a>( DOY, year );</div>
-<div class="line"><a id="l04713" name="l04713"></a><span class="lineno"> 4713</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( datestrcol&gt;=0 ){</div>
-<div class="line"><a id="l04714" name="l04714"></a><span class="lineno"> 4714</span>            <span class="comment">//parse date string. expecting format YYYY-MM-DD with delimiter &#39;-&#39; or &#39;/&#39;</span></div>
-<div class="line"><a id="l04715" name="l04715"></a><span class="lineno"> 4715</span>            std::string datestr = line_separated.at(datestrcol);</div>
-<div class="line"><a id="l04716" name="l04716"></a><span class="lineno"> 4716</span> </div>
-<div class="line"><a id="l04717" name="l04717"></a><span class="lineno"> 4717</span>            <span class="comment">//try parsing date string based on &#39;-&#39; delimiter</span></div>
-<div class="line"><a id="l04718" name="l04718"></a><span class="lineno"> 4718</span>            std::vector&lt;std::string&gt; thisdatestr = <a class="code hl_function" href="group__functions.html#gae239abbec7c2ff618b3603bf69ccf2ed">separate_string_by_delimiter</a>( datestr, <span class="stringliteral">&quot;-&quot;</span> );</div>
-<div class="line"><a id="l04719" name="l04719"></a><span class="lineno"> 4719</span> </div>
-<div class="line"><a id="l04720" name="l04720"></a><span class="lineno"> 4720</span>            <span class="keywordflow">if</span>( thisdatestr.size()!=3 ){</div>
-<div class="line"><a id="l04721" name="l04721"></a><span class="lineno"> 4721</span>                <span class="comment">//try parsing date string based on &#39;/&#39; delimiter</span></div>
-<div class="line"><a id="l04722" name="l04722"></a><span class="lineno"> 4722</span>                thisdatestr = <a class="code hl_function" href="group__functions.html#gae239abbec7c2ff618b3603bf69ccf2ed">separate_string_by_delimiter</a>( datestr, <span class="stringliteral">&quot;/&quot;</span> );</div>
-<div class="line"><a id="l04723" name="l04723"></a><span class="lineno"> 4723</span>            }</div>
+<div class="line"><a id="l04685" name="l04685"></a><span class="lineno"> 4685</span>    std::string line;</div>
+<div class="line"><a id="l04686" name="l04686"></a><span class="lineno"> 4686</span> </div>
+<div class="line"><a id="l04687" name="l04687"></a><span class="lineno"> 4687</span>    <span class="comment">//skip header lines</span></div>
+<div class="line"><a id="l04688" name="l04688"></a><span class="lineno"> 4688</span>    <span class="comment">//note: if we read labels from the first header line above, we don&#39;t need to skip another line</span></div>
+<div class="line"><a id="l04689" name="l04689"></a><span class="lineno"> 4689</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; headerlines; i++) {</div>
+<div class="line"><a id="l04690" name="l04690"></a><span class="lineno"> 4690</span>        std::getline(datafile, line);</div>
+<div class="line"><a id="l04691" name="l04691"></a><span class="lineno"> 4691</span>    }</div>
+<div class="line"><a id="l04692" name="l04692"></a><span class="lineno"> 4692</span> </div>
+<div class="line"><a id="l04693" name="l04693"></a><span class="lineno"> 4693</span>    <span class="keywordflow">while</span> ( std::getline(datafile, line) ) { <span class="comment">//loop through file to read data</span></div>
+<div class="line"><a id="l04694" name="l04694"></a><span class="lineno"> 4694</span>        row++;</div>
+<div class="line"><a id="l04695" name="l04695"></a><span class="lineno"> 4695</span> </div>
+<div class="line"><a id="l04696" name="l04696"></a><span class="lineno"> 4696</span>        <span class="keywordflow">if</span>( <a class="code hl_function" href="group__functions.html#ga56b873fa7b729dd84412d44156fa2dca">trim_whitespace</a>(line).empty() &amp;&amp; row&gt;1 ){</div>
+<div class="line"><a id="l04697" name="l04697"></a><span class="lineno"> 4697</span>            <span class="keywordflow">break</span>;</div>
+<div class="line"><a id="l04698" name="l04698"></a><span class="lineno"> 4698</span>        }</div>
+<div class="line"><a id="l04699" name="l04699"></a><span class="lineno"> 4699</span> </div>
+<div class="line"><a id="l04700" name="l04700"></a><span class="lineno"> 4700</span>        <span class="comment">//separate the line by delimiter</span></div>
+<div class="line"><a id="l04701" name="l04701"></a><span class="lineno"> 4701</span>        std::vector&lt;std::string&gt; line_separated = <a class="code hl_function" href="group__functions.html#gae239abbec7c2ff618b3603bf69ccf2ed">separate_string_by_delimiter</a>( line, delimiter );</div>
+<div class="line"><a id="l04702" name="l04702"></a><span class="lineno"> 4702</span> </div>
+<div class="line"><a id="l04703" name="l04703"></a><span class="lineno"> 4703</span>        <span class="keywordflow">if</span>( line_separated.size()!=Ncolumns ){</div>
+<div class="line"><a id="l04704" name="l04704"></a><span class="lineno"> 4704</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Line &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot; had &quot;</span> + std::to_string(line_separated.size()) + <span class="stringliteral">&quot; columns, but was expecting &quot;</span> + std::to_string(Ncolumns) );</div>
+<div class="line"><a id="l04705" name="l04705"></a><span class="lineno"> 4705</span>        }</div>
+<div class="line"><a id="l04706" name="l04706"></a><span class="lineno"> 4706</span> </div>
+<div class="line"><a id="l04707" name="l04707"></a><span class="lineno"> 4707</span>        <span class="comment">//compile date</span></div>
+<div class="line"><a id="l04708" name="l04708"></a><span class="lineno"> 4708</span>        <a class="code hl_struct" href="structhelios_1_1_date.html">Date</a> date;</div>
+<div class="line"><a id="l04709" name="l04709"></a><span class="lineno"> 4709</span>        <span class="keywordflow">if</span>( yearcol&gt;=0 &amp;&amp; DOYcol&gt;=0 ){</div>
+<div class="line"><a id="l04710" name="l04710"></a><span class="lineno"> 4710</span>            <span class="keywordtype">int</span> DOY;</div>
+<div class="line"><a id="l04711" name="l04711"></a><span class="lineno"> 4711</span>            <a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>(line_separated.at(DOYcol), DOY);</div>
+<div class="line"><a id="l04712" name="l04712"></a><span class="lineno"> 4712</span>            <span class="keywordflow">if</span>( DOY&lt;1 || DOY&gt;366 ){</div>
+<div class="line"><a id="l04713" name="l04713"></a><span class="lineno"> 4713</span>                <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Invalid date specified on line &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot;.&quot;</span>);</div>
+<div class="line"><a id="l04714" name="l04714"></a><span class="lineno"> 4714</span>            }</div>
+<div class="line"><a id="l04715" name="l04715"></a><span class="lineno"> 4715</span>            <span class="keywordtype">int</span> year;</div>
+<div class="line"><a id="l04716" name="l04716"></a><span class="lineno"> 4716</span>            <a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>(line_separated.at( yearcol ), year);</div>
+<div class="line"><a id="l04717" name="l04717"></a><span class="lineno"> 4717</span>            <span class="keywordflow">if</span>( year&lt;1000 ){</div>
+<div class="line"><a id="l04718" name="l04718"></a><span class="lineno"> 4718</span>                <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Invalid year specified on line &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot;.&quot;</span>);</div>
+<div class="line"><a id="l04719" name="l04719"></a><span class="lineno"> 4719</span>            }</div>
+<div class="line"><a id="l04720" name="l04720"></a><span class="lineno"> 4720</span>            date = <a class="code hl_function" href="group__vectors.html#gad4c811a7a39319de43f58c93e14ecda6">make_Date</a>( DOY, year );</div>
+<div class="line"><a id="l04721" name="l04721"></a><span class="lineno"> 4721</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( datestrcol&gt;=0 ){</div>
+<div class="line"><a id="l04722" name="l04722"></a><span class="lineno"> 4722</span>            <span class="comment">//parse date string. expecting format YYYY-MM-DD with delimiter &#39;-&#39; or &#39;/&#39;</span></div>
+<div class="line"><a id="l04723" name="l04723"></a><span class="lineno"> 4723</span>            std::string datestr = line_separated.at(datestrcol);</div>
 <div class="line"><a id="l04724" name="l04724"></a><span class="lineno"> 4724</span> </div>
-<div class="line"><a id="l04725" name="l04725"></a><span class="lineno"> 4725</span>            <span class="keywordflow">if</span>( thisdatestr.size()!=3 ){</div>
-<div class="line"><a id="l04726" name="l04726"></a><span class="lineno"> 4726</span>                <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Could not parse date string on line &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot;. It should be in the format YYYY-MM-DD, delimited by either &quot;</span><span class="stringliteral">&quot;-&quot;</span><span class="stringliteral">&quot; or &quot;</span><span class="stringliteral">&quot;/&quot;</span><span class="stringliteral">&quot;.&quot;</span> );</div>
-<div class="line"><a id="l04727" name="l04727"></a><span class="lineno"> 4727</span>            }</div>
-<div class="line"><a id="l04728" name="l04728"></a><span class="lineno"> 4728</span> </div>
-<div class="line"><a id="l04729" name="l04729"></a><span class="lineno"> 4729</span>            <span class="comment">//convert parsed date strings into a vector of integers</span></div>
-<div class="line"><a id="l04730" name="l04730"></a><span class="lineno"> 4730</span>            std::vector&lt;int&gt; thisdate(3);</div>
-<div class="line"><a id="l04731" name="l04731"></a><span class="lineno"> 4731</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;3; i++ ){</div>
-<div class="line"><a id="l04732" name="l04732"></a><span class="lineno"> 4732</span>                <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>( thisdatestr.at(i), thisdate.at(i) ) ){</div>
-<div class="line"><a id="l04733" name="l04733"></a><span class="lineno"> 4733</span>                    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Could not parse date string on line &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot;. It should be in the format YYYY-MM-DD, delimited by either &quot;</span><span class="stringliteral">&quot;-&quot;</span><span class="stringliteral">&quot; or &quot;</span><span class="stringliteral">&quot;/&quot;</span><span class="stringliteral">&quot;.&quot;</span> );</div>
-<div class="line"><a id="l04734" name="l04734"></a><span class="lineno"> 4734</span>                }</div>
+<div class="line"><a id="l04725" name="l04725"></a><span class="lineno"> 4725</span>            <span class="comment">//try parsing date string based on &#39;-&#39; delimiter</span></div>
+<div class="line"><a id="l04726" name="l04726"></a><span class="lineno"> 4726</span>            std::vector&lt;std::string&gt; thisdatestr = <a class="code hl_function" href="group__functions.html#gae239abbec7c2ff618b3603bf69ccf2ed">separate_string_by_delimiter</a>( datestr, <span class="stringliteral">&quot;-&quot;</span> );</div>
+<div class="line"><a id="l04727" name="l04727"></a><span class="lineno"> 4727</span> </div>
+<div class="line"><a id="l04728" name="l04728"></a><span class="lineno"> 4728</span>            <span class="keywordflow">if</span>( thisdatestr.size()!=3 ){</div>
+<div class="line"><a id="l04729" name="l04729"></a><span class="lineno"> 4729</span>                <span class="comment">//try parsing date string based on &#39;/&#39; delimiter</span></div>
+<div class="line"><a id="l04730" name="l04730"></a><span class="lineno"> 4730</span>                thisdatestr = <a class="code hl_function" href="group__functions.html#gae239abbec7c2ff618b3603bf69ccf2ed">separate_string_by_delimiter</a>( datestr, <span class="stringliteral">&quot;/&quot;</span> );</div>
+<div class="line"><a id="l04731" name="l04731"></a><span class="lineno"> 4731</span>            }</div>
+<div class="line"><a id="l04732" name="l04732"></a><span class="lineno"> 4732</span> </div>
+<div class="line"><a id="l04733" name="l04733"></a><span class="lineno"> 4733</span>            <span class="keywordflow">if</span>( thisdatestr.size()!=3 ){</div>
+<div class="line"><a id="l04734" name="l04734"></a><span class="lineno"> 4734</span>                <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Could not parse date string on line &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot;. It should be in the format YYYY-MM-DD, delimited by either &quot;</span><span class="stringliteral">&quot;-&quot;</span><span class="stringliteral">&quot; or &quot;</span><span class="stringliteral">&quot;/&quot;</span><span class="stringliteral">&quot;.&quot;</span> );</div>
 <div class="line"><a id="l04735" name="l04735"></a><span class="lineno"> 4735</span>            }</div>
 <div class="line"><a id="l04736" name="l04736"></a><span class="lineno"> 4736</span> </div>
-<div class="line"><a id="l04737" name="l04737"></a><span class="lineno"> 4737</span>            <span class="comment">//figure out ordering of values</span></div>
-<div class="line"><a id="l04738" name="l04738"></a><span class="lineno"> 4738</span>            <span class="keywordtype">int</span> year;</div>
-<div class="line"><a id="l04739" name="l04739"></a><span class="lineno"> 4739</span>            <span class="keywordtype">int</span> month;</div>
-<div class="line"><a id="l04740" name="l04740"></a><span class="lineno"> 4740</span>            <span class="keywordtype">int</span> day;</div>
-<div class="line"><a id="l04741" name="l04741"></a><span class="lineno"> 4741</span>            <span class="keywordflow">if</span>( date_string_format==<span class="stringliteral">&quot;YYYYMMDD&quot;</span> ){</div>
-<div class="line"><a id="l04742" name="l04742"></a><span class="lineno"> 4742</span>                year = thisdate.at(0);</div>
-<div class="line"><a id="l04743" name="l04743"></a><span class="lineno"> 4743</span>                month = thisdate.at(1);</div>
-<div class="line"><a id="l04744" name="l04744"></a><span class="lineno"> 4744</span>                day = thisdate.at(2);</div>
-<div class="line"><a id="l04745" name="l04745"></a><span class="lineno"> 4745</span>            }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( date_string_format==<span class="stringliteral">&quot;YYYYDDMM&quot;</span> ){</div>
-<div class="line"><a id="l04746" name="l04746"></a><span class="lineno"> 4746</span>                year = thisdate.at(0);</div>
-<div class="line"><a id="l04747" name="l04747"></a><span class="lineno"> 4747</span>                month = thisdate.at(2);</div>
-<div class="line"><a id="l04748" name="l04748"></a><span class="lineno"> 4748</span>                day = thisdate.at(1);</div>
-<div class="line"><a id="l04749" name="l04749"></a><span class="lineno"> 4749</span>            }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( date_string_format==<span class="stringliteral">&quot;DDMMYYYY&quot;</span> ){</div>
-<div class="line"><a id="l04750" name="l04750"></a><span class="lineno"> 4750</span>                year = thisdate.at(2);</div>
+<div class="line"><a id="l04737" name="l04737"></a><span class="lineno"> 4737</span>            <span class="comment">//convert parsed date strings into a vector of integers</span></div>
+<div class="line"><a id="l04738" name="l04738"></a><span class="lineno"> 4738</span>            std::vector&lt;int&gt; thisdate(3);</div>
+<div class="line"><a id="l04739" name="l04739"></a><span class="lineno"> 4739</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;3; i++ ){</div>
+<div class="line"><a id="l04740" name="l04740"></a><span class="lineno"> 4740</span>                <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>( thisdatestr.at(i), thisdate.at(i) ) ){</div>
+<div class="line"><a id="l04741" name="l04741"></a><span class="lineno"> 4741</span>                    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Could not parse date string on line &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot;. It should be in the format YYYY-MM-DD, delimited by either &quot;</span><span class="stringliteral">&quot;-&quot;</span><span class="stringliteral">&quot; or &quot;</span><span class="stringliteral">&quot;/&quot;</span><span class="stringliteral">&quot;.&quot;</span> );</div>
+<div class="line"><a id="l04742" name="l04742"></a><span class="lineno"> 4742</span>                }</div>
+<div class="line"><a id="l04743" name="l04743"></a><span class="lineno"> 4743</span>            }</div>
+<div class="line"><a id="l04744" name="l04744"></a><span class="lineno"> 4744</span> </div>
+<div class="line"><a id="l04745" name="l04745"></a><span class="lineno"> 4745</span>            <span class="comment">//figure out ordering of values</span></div>
+<div class="line"><a id="l04746" name="l04746"></a><span class="lineno"> 4746</span>            <span class="keywordtype">int</span> year;</div>
+<div class="line"><a id="l04747" name="l04747"></a><span class="lineno"> 4747</span>            <span class="keywordtype">int</span> month;</div>
+<div class="line"><a id="l04748" name="l04748"></a><span class="lineno"> 4748</span>            <span class="keywordtype">int</span> day;</div>
+<div class="line"><a id="l04749" name="l04749"></a><span class="lineno"> 4749</span>            <span class="keywordflow">if</span>( date_string_format==<span class="stringliteral">&quot;YYYYMMDD&quot;</span> ){</div>
+<div class="line"><a id="l04750" name="l04750"></a><span class="lineno"> 4750</span>                year = thisdate.at(0);</div>
 <div class="line"><a id="l04751" name="l04751"></a><span class="lineno"> 4751</span>                month = thisdate.at(1);</div>
-<div class="line"><a id="l04752" name="l04752"></a><span class="lineno"> 4752</span>                day = thisdate.at(0);</div>
-<div class="line"><a id="l04753" name="l04753"></a><span class="lineno"> 4753</span>            }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( date_string_format==<span class="stringliteral">&quot;MMDDYYYY&quot;</span> ){</div>
-<div class="line"><a id="l04754" name="l04754"></a><span class="lineno"> 4754</span>                year = thisdate.at(2);</div>
-<div class="line"><a id="l04755" name="l04755"></a><span class="lineno"> 4755</span>                month = thisdate.at(0);</div>
+<div class="line"><a id="l04752" name="l04752"></a><span class="lineno"> 4752</span>                day = thisdate.at(2);</div>
+<div class="line"><a id="l04753" name="l04753"></a><span class="lineno"> 4753</span>            }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( date_string_format==<span class="stringliteral">&quot;YYYYDDMM&quot;</span> ){</div>
+<div class="line"><a id="l04754" name="l04754"></a><span class="lineno"> 4754</span>                year = thisdate.at(0);</div>
+<div class="line"><a id="l04755" name="l04755"></a><span class="lineno"> 4755</span>                month = thisdate.at(2);</div>
 <div class="line"><a id="l04756" name="l04756"></a><span class="lineno"> 4756</span>                day = thisdate.at(1);</div>
-<div class="line"><a id="l04757" name="l04757"></a><span class="lineno"> 4757</span>            }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04758" name="l04758"></a><span class="lineno"> 4758</span>                <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Invalid date string format: &quot;</span> + date_string_format + <span class="stringliteral">&quot;. Must be one of &quot;</span><span class="stringliteral">&quot;YYYYMMDD&quot;</span><span class="stringliteral">&quot;, &quot;</span><span class="stringliteral">&quot;YYYYDDMM&quot;</span><span class="stringliteral">&quot;, &quot;</span><span class="stringliteral">&quot;DDMMYYYY&quot;</span><span class="stringliteral">&quot;, or &quot;</span><span class="stringliteral">&quot;MMDDYYYY&quot;</span><span class="stringliteral">&quot;.  Check that the date string does not include a delimiter (i.e., should be MMDDYYYY not MM/DD/YYYY).&quot;</span>);</div>
-<div class="line"><a id="l04759" name="l04759"></a><span class="lineno"> 4759</span>            }</div>
-<div class="line"><a id="l04760" name="l04760"></a><span class="lineno"> 4760</span> </div>
-<div class="line"><a id="l04761" name="l04761"></a><span class="lineno"> 4761</span>            <span class="keywordflow">if</span>( year&lt;1000 || month&lt;1 || month&gt;12 || day&lt;1 || day&gt;31 ){</div>
-<div class="line"><a id="l04762" name="l04762"></a><span class="lineno"> 4762</span>                <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Could not parse date string on line &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot;. It should be in the format YYYY-MM-DD, delimited by either &quot;</span><span class="stringliteral">&quot;-&quot;</span><span class="stringliteral">&quot; or &quot;</span><span class="stringliteral">&quot;/&quot;</span><span class="stringliteral">&quot;.&quot;</span> );</div>
-<div class="line"><a id="l04763" name="l04763"></a><span class="lineno"> 4763</span>            }</div>
-<div class="line"><a id="l04764" name="l04764"></a><span class="lineno"> 4764</span> </div>
-<div class="line"><a id="l04765" name="l04765"></a><span class="lineno"> 4765</span>            date = <a class="code hl_function" href="group__vectors.html#gad4c811a7a39319de43f58c93e14ecda6">make_Date</a>( day, month, year );</div>
-<div class="line"><a id="l04766" name="l04766"></a><span class="lineno"> 4766</span>        }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04767" name="l04767"></a><span class="lineno"> 4767</span>            assert(1); <span class="comment">//shouldn&#39;t be here</span></div>
-<div class="line"><a id="l04768" name="l04768"></a><span class="lineno"> 4768</span>        }</div>
-<div class="line"><a id="l04769" name="l04769"></a><span class="lineno"> 4769</span> </div>
-<div class="line"><a id="l04770" name="l04770"></a><span class="lineno"> 4770</span>        <span class="comment">//compile time</span></div>
-<div class="line"><a id="l04771" name="l04771"></a><span class="lineno"> 4771</span>        <a class="code hl_struct" href="structhelios_1_1_time.html">Time</a> time;</div>
-<div class="line"><a id="l04772" name="l04772"></a><span class="lineno"> 4772</span>        <span class="keywordtype">int</span> hour = 0;</div>
-<div class="line"><a id="l04773" name="l04773"></a><span class="lineno"> 4773</span>        <span class="keywordtype">int</span> minute = 0;</div>
-<div class="line"><a id="l04774" name="l04774"></a><span class="lineno"> 4774</span>        <span class="keywordtype">int</span> second = 0;</div>
-<div class="line"><a id="l04775" name="l04775"></a><span class="lineno"> 4775</span> </div>
-<div class="line"><a id="l04776" name="l04776"></a><span class="lineno"> 4776</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>( line_separated.at(hourcol), hour ) ){</div>
-<div class="line"><a id="l04777" name="l04777"></a><span class="lineno"> 4777</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Could not parse hour string on line &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot;.&quot;</span> );</div>
-<div class="line"><a id="l04778" name="l04778"></a><span class="lineno"> 4778</span>        }</div>
-<div class="line"><a id="l04779" name="l04779"></a><span class="lineno"> 4779</span>        <span class="keywordflow">if</span>( hour&gt;24 &amp;&amp; minutecol&lt;0 &amp;&amp; secondcol&lt;0 ){</div>
-<div class="line"><a id="l04780" name="l04780"></a><span class="lineno"> 4780</span>            <span class="keywordtype">int</span> hr_min = hour;</div>
-<div class="line"><a id="l04781" name="l04781"></a><span class="lineno"> 4781</span>            hour = std::floor( hr_min/100 );</div>
-<div class="line"><a id="l04782" name="l04782"></a><span class="lineno"> 4782</span>            minute = hr_min - hour*100;</div>
-<div class="line"><a id="l04783" name="l04783"></a><span class="lineno"> 4783</span>        }</div>
-<div class="line"><a id="l04784" name="l04784"></a><span class="lineno"> 4784</span>        <span class="keywordflow">if</span>( hour==24 ){</div>
-<div class="line"><a id="l04785" name="l04785"></a><span class="lineno"> 4785</span>            hour = 0;</div>
-<div class="line"><a id="l04786" name="l04786"></a><span class="lineno"> 4786</span>            date.<a class="code hl_function" href="structhelios_1_1_date.html#a82d115420d5c45d28e35d6226c3c8636">incrementDay</a>();</div>
-<div class="line"><a id="l04787" name="l04787"></a><span class="lineno"> 4787</span>        }</div>
-<div class="line"><a id="l04788" name="l04788"></a><span class="lineno"> 4788</span>        <span class="keywordflow">if</span>( minutecol&gt;=0 ){</div>
-<div class="line"><a id="l04789" name="l04789"></a><span class="lineno"> 4789</span>            <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>( line_separated.at(minutecol), minute ) ){</div>
-<div class="line"><a id="l04790" name="l04790"></a><span class="lineno"> 4790</span>                minute = 0;</div>
-<div class="line"><a id="l04791" name="l04791"></a><span class="lineno"> 4791</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadTabularTimeseriesData): Could not parse minute string on line &quot;</span> &lt;&lt; row &lt;&lt; <span class="stringliteral">&quot;. Setting minute equal to 0.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04792" name="l04792"></a><span class="lineno"> 4792</span>            }</div>
-<div class="line"><a id="l04793" name="l04793"></a><span class="lineno"> 4793</span>        }</div>
-<div class="line"><a id="l04794" name="l04794"></a><span class="lineno"> 4794</span>        <span class="keywordflow">if</span>( secondcol&gt;=0 ){</div>
-<div class="line"><a id="l04795" name="l04795"></a><span class="lineno"> 4795</span>            <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>( line_separated.at(secondcol), second ) ){</div>
-<div class="line"><a id="l04796" name="l04796"></a><span class="lineno"> 4796</span>                second = 0;</div>
-<div class="line"><a id="l04797" name="l04797"></a><span class="lineno"> 4797</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadTabularTimeseriesData): Could not parse second string on line &quot;</span> &lt;&lt; row &lt;&lt; <span class="stringliteral">&quot;. Setting second equal to 0.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04798" name="l04798"></a><span class="lineno"> 4798</span>            }</div>
-<div class="line"><a id="l04799" name="l04799"></a><span class="lineno"> 4799</span>        }</div>
-<div class="line"><a id="l04800" name="l04800"></a><span class="lineno"> 4800</span>        time = <a class="code hl_function" href="group__vectors.html#ga7a29e9916b97d9f7533e87e7125e5b66">make_Time</a>( hour, minute, second );</div>
-<div class="line"><a id="l04801" name="l04801"></a><span class="lineno"> 4801</span> </div>
-<div class="line"><a id="l04802" name="l04802"></a><span class="lineno"> 4802</span>        <span class="comment">//compile data values</span></div>
-<div class="line"><a id="l04803" name="l04803"></a><span class="lineno"> 4803</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;dat : datacols ){</div>
-<div class="line"><a id="l04804" name="l04804"></a><span class="lineno"> 4804</span> </div>
-<div class="line"><a id="l04805" name="l04805"></a><span class="lineno"> 4805</span>            std::string label = dat.first;</div>
-<div class="line"><a id="l04806" name="l04806"></a><span class="lineno"> 4806</span>            <span class="keywordtype">int</span> col = dat.second;</div>
-<div class="line"><a id="l04807" name="l04807"></a><span class="lineno"> 4807</span> </div>
-<div class="line"><a id="l04808" name="l04808"></a><span class="lineno"> 4808</span>            <span class="keywordtype">float</span> dataval;</div>
-<div class="line"><a id="l04809" name="l04809"></a><span class="lineno"> 4809</span>            <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a162c3d8c139c75bac9607b512768b937">parse_float</a>( line_separated.at(col), dataval ) ){</div>
-<div class="line"><a id="l04810" name="l04810"></a><span class="lineno"> 4810</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadTabularTimeseriesData): Failed to parse data value as &quot;</span><span class="stringliteral">&quot;float&quot;</span><span class="stringliteral">&quot; on line &quot;</span> &lt;&lt; row &lt;&lt; <span class="stringliteral">&quot;, column &quot;</span>&lt;&lt;col+1 &lt;&lt; <span class="stringliteral">&quot;. Skipping this value...&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04811" name="l04811"></a><span class="lineno"> 4811</span>                <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l04812" name="l04812"></a><span class="lineno"> 4812</span>            }</div>
-<div class="line"><a id="l04813" name="l04813"></a><span class="lineno"> 4813</span> </div>
-<div class="line"><a id="l04814" name="l04814"></a><span class="lineno"> 4814</span>            <span class="keywordflow">if</span>( label==<span class="stringliteral">&quot;air_humidity&quot;</span> &amp;&amp; col_labels.size()==1 &amp;&amp; ( col_labels.front()==<span class="stringliteral">&quot;CIMIS&quot;</span> || col_labels.front()==<span class="stringliteral">&quot;cimis&quot;</span> ) ) {</div>
-<div class="line"><a id="l04815" name="l04815"></a><span class="lineno"> 4815</span>                dataval = dataval/100.f;</div>
-<div class="line"><a id="l04816" name="l04816"></a><span class="lineno"> 4816</span>            }</div>
-<div class="line"><a id="l04817" name="l04817"></a><span class="lineno"> 4817</span> </div>
-<div class="line"><a id="l04818" name="l04818"></a><span class="lineno"> 4818</span>            <a class="code hl_function" href="group__timeseries.html#gab4e83017576a164eaa7c61cd0812d8a2">addTimeseriesData</a>( label.c_str(), dataval, date, time );</div>
-<div class="line"><a id="l04819" name="l04819"></a><span class="lineno"> 4819</span> </div>
-<div class="line"><a id="l04820" name="l04820"></a><span class="lineno"> 4820</span>        }</div>
+<div class="line"><a id="l04757" name="l04757"></a><span class="lineno"> 4757</span>            }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( date_string_format==<span class="stringliteral">&quot;DDMMYYYY&quot;</span> ){</div>
+<div class="line"><a id="l04758" name="l04758"></a><span class="lineno"> 4758</span>                year = thisdate.at(2);</div>
+<div class="line"><a id="l04759" name="l04759"></a><span class="lineno"> 4759</span>                month = thisdate.at(1);</div>
+<div class="line"><a id="l04760" name="l04760"></a><span class="lineno"> 4760</span>                day = thisdate.at(0);</div>
+<div class="line"><a id="l04761" name="l04761"></a><span class="lineno"> 4761</span>            }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( date_string_format==<span class="stringliteral">&quot;MMDDYYYY&quot;</span> ){</div>
+<div class="line"><a id="l04762" name="l04762"></a><span class="lineno"> 4762</span>                year = thisdate.at(2);</div>
+<div class="line"><a id="l04763" name="l04763"></a><span class="lineno"> 4763</span>                month = thisdate.at(0);</div>
+<div class="line"><a id="l04764" name="l04764"></a><span class="lineno"> 4764</span>                day = thisdate.at(1);</div>
+<div class="line"><a id="l04765" name="l04765"></a><span class="lineno"> 4765</span>            }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04766" name="l04766"></a><span class="lineno"> 4766</span>                <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Invalid date string format: &quot;</span> + date_string_format + <span class="stringliteral">&quot;. Must be one of &quot;</span><span class="stringliteral">&quot;YYYYMMDD&quot;</span><span class="stringliteral">&quot;, &quot;</span><span class="stringliteral">&quot;YYYYDDMM&quot;</span><span class="stringliteral">&quot;, &quot;</span><span class="stringliteral">&quot;DDMMYYYY&quot;</span><span class="stringliteral">&quot;, or &quot;</span><span class="stringliteral">&quot;MMDDYYYY&quot;</span><span class="stringliteral">&quot;.  Check that the date string does not include a delimiter (i.e., should be MMDDYYYY not MM/DD/YYYY).&quot;</span>);</div>
+<div class="line"><a id="l04767" name="l04767"></a><span class="lineno"> 4767</span>            }</div>
+<div class="line"><a id="l04768" name="l04768"></a><span class="lineno"> 4768</span> </div>
+<div class="line"><a id="l04769" name="l04769"></a><span class="lineno"> 4769</span>            <span class="keywordflow">if</span>( year&lt;1000 || month&lt;1 || month&gt;12 || day&lt;1 || day&gt;31 ){</div>
+<div class="line"><a id="l04770" name="l04770"></a><span class="lineno"> 4770</span>                <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Could not parse date string on line &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot;. It should be in the format YYYY-MM-DD, delimited by either &quot;</span><span class="stringliteral">&quot;-&quot;</span><span class="stringliteral">&quot; or &quot;</span><span class="stringliteral">&quot;/&quot;</span><span class="stringliteral">&quot;.&quot;</span> );</div>
+<div class="line"><a id="l04771" name="l04771"></a><span class="lineno"> 4771</span>            }</div>
+<div class="line"><a id="l04772" name="l04772"></a><span class="lineno"> 4772</span> </div>
+<div class="line"><a id="l04773" name="l04773"></a><span class="lineno"> 4773</span>            date = <a class="code hl_function" href="group__vectors.html#gad4c811a7a39319de43f58c93e14ecda6">make_Date</a>( day, month, year );</div>
+<div class="line"><a id="l04774" name="l04774"></a><span class="lineno"> 4774</span>        }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04775" name="l04775"></a><span class="lineno"> 4775</span>            assert(1); <span class="comment">//shouldn&#39;t be here</span></div>
+<div class="line"><a id="l04776" name="l04776"></a><span class="lineno"> 4776</span>        }</div>
+<div class="line"><a id="l04777" name="l04777"></a><span class="lineno"> 4777</span> </div>
+<div class="line"><a id="l04778" name="l04778"></a><span class="lineno"> 4778</span>        <span class="comment">//compile time</span></div>
+<div class="line"><a id="l04779" name="l04779"></a><span class="lineno"> 4779</span>        <a class="code hl_struct" href="structhelios_1_1_time.html">Time</a> time;</div>
+<div class="line"><a id="l04780" name="l04780"></a><span class="lineno"> 4780</span>        <span class="keywordtype">int</span> hour = 0;</div>
+<div class="line"><a id="l04781" name="l04781"></a><span class="lineno"> 4781</span>        <span class="keywordtype">int</span> minute = 0;</div>
+<div class="line"><a id="l04782" name="l04782"></a><span class="lineno"> 4782</span>        <span class="keywordtype">int</span> second = 0;</div>
+<div class="line"><a id="l04783" name="l04783"></a><span class="lineno"> 4783</span> </div>
+<div class="line"><a id="l04784" name="l04784"></a><span class="lineno"> 4784</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>( line_separated.at(hourcol), hour ) ){</div>
+<div class="line"><a id="l04785" name="l04785"></a><span class="lineno"> 4785</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::loadTabularTimeseriesData): Could not parse hour string on line &quot;</span> + std::to_string(row) + <span class="stringliteral">&quot;.&quot;</span> );</div>
+<div class="line"><a id="l04786" name="l04786"></a><span class="lineno"> 4786</span>        }</div>
+<div class="line"><a id="l04787" name="l04787"></a><span class="lineno"> 4787</span>        <span class="keywordflow">if</span>( hour&gt;24 &amp;&amp; minutecol&lt;0 &amp;&amp; secondcol&lt;0 ){</div>
+<div class="line"><a id="l04788" name="l04788"></a><span class="lineno"> 4788</span>            <span class="keywordtype">int</span> hr_min = hour;</div>
+<div class="line"><a id="l04789" name="l04789"></a><span class="lineno"> 4789</span>            hour = std::floor( hr_min/100 );</div>
+<div class="line"><a id="l04790" name="l04790"></a><span class="lineno"> 4790</span>            minute = hr_min - hour*100;</div>
+<div class="line"><a id="l04791" name="l04791"></a><span class="lineno"> 4791</span>        }</div>
+<div class="line"><a id="l04792" name="l04792"></a><span class="lineno"> 4792</span>        <span class="keywordflow">if</span>( hour==24 ){</div>
+<div class="line"><a id="l04793" name="l04793"></a><span class="lineno"> 4793</span>            hour = 0;</div>
+<div class="line"><a id="l04794" name="l04794"></a><span class="lineno"> 4794</span>            date.<a class="code hl_function" href="structhelios_1_1_date.html#a82d115420d5c45d28e35d6226c3c8636">incrementDay</a>();</div>
+<div class="line"><a id="l04795" name="l04795"></a><span class="lineno"> 4795</span>        }</div>
+<div class="line"><a id="l04796" name="l04796"></a><span class="lineno"> 4796</span>        <span class="keywordflow">if</span>( minutecol&gt;=0 ){</div>
+<div class="line"><a id="l04797" name="l04797"></a><span class="lineno"> 4797</span>            <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>( line_separated.at(minutecol), minute ) ){</div>
+<div class="line"><a id="l04798" name="l04798"></a><span class="lineno"> 4798</span>                minute = 0;</div>
+<div class="line"><a id="l04799" name="l04799"></a><span class="lineno"> 4799</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadTabularTimeseriesData): Could not parse minute string on line &quot;</span> &lt;&lt; row &lt;&lt; <span class="stringliteral">&quot;. Setting minute equal to 0.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04800" name="l04800"></a><span class="lineno"> 4800</span>            }</div>
+<div class="line"><a id="l04801" name="l04801"></a><span class="lineno"> 4801</span>        }</div>
+<div class="line"><a id="l04802" name="l04802"></a><span class="lineno"> 4802</span>        <span class="keywordflow">if</span>( secondcol&gt;=0 ){</div>
+<div class="line"><a id="l04803" name="l04803"></a><span class="lineno"> 4803</span>            <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a6b9de37fd00d939cb9e049a9002e8db0">parse_int</a>( line_separated.at(secondcol), second ) ){</div>
+<div class="line"><a id="l04804" name="l04804"></a><span class="lineno"> 4804</span>                second = 0;</div>
+<div class="line"><a id="l04805" name="l04805"></a><span class="lineno"> 4805</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadTabularTimeseriesData): Could not parse second string on line &quot;</span> &lt;&lt; row &lt;&lt; <span class="stringliteral">&quot;. Setting second equal to 0.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04806" name="l04806"></a><span class="lineno"> 4806</span>            }</div>
+<div class="line"><a id="l04807" name="l04807"></a><span class="lineno"> 4807</span>        }</div>
+<div class="line"><a id="l04808" name="l04808"></a><span class="lineno"> 4808</span>        time = <a class="code hl_function" href="group__vectors.html#ga7a29e9916b97d9f7533e87e7125e5b66">make_Time</a>( hour, minute, second );</div>
+<div class="line"><a id="l04809" name="l04809"></a><span class="lineno"> 4809</span> </div>
+<div class="line"><a id="l04810" name="l04810"></a><span class="lineno"> 4810</span>        <span class="comment">//compile data values</span></div>
+<div class="line"><a id="l04811" name="l04811"></a><span class="lineno"> 4811</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;dat : datacols ){</div>
+<div class="line"><a id="l04812" name="l04812"></a><span class="lineno"> 4812</span> </div>
+<div class="line"><a id="l04813" name="l04813"></a><span class="lineno"> 4813</span>            std::string label = dat.first;</div>
+<div class="line"><a id="l04814" name="l04814"></a><span class="lineno"> 4814</span>            <span class="keywordtype">int</span> col = dat.second;</div>
+<div class="line"><a id="l04815" name="l04815"></a><span class="lineno"> 4815</span> </div>
+<div class="line"><a id="l04816" name="l04816"></a><span class="lineno"> 4816</span>            <span class="keywordtype">float</span> dataval;</div>
+<div class="line"><a id="l04817" name="l04817"></a><span class="lineno"> 4817</span>            <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a162c3d8c139c75bac9607b512768b937">parse_float</a>( line_separated.at(col), dataval ) ){</div>
+<div class="line"><a id="l04818" name="l04818"></a><span class="lineno"> 4818</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (Context::loadTabularTimeseriesData): Failed to parse data value as &quot;</span><span class="stringliteral">&quot;float&quot;</span><span class="stringliteral">&quot; on line &quot;</span> &lt;&lt; row &lt;&lt; <span class="stringliteral">&quot;, column &quot;</span>&lt;&lt;col+1 &lt;&lt; <span class="stringliteral">&quot;. Skipping this value...&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04819" name="l04819"></a><span class="lineno"> 4819</span>                <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l04820" name="l04820"></a><span class="lineno"> 4820</span>            }</div>
 <div class="line"><a id="l04821" name="l04821"></a><span class="lineno"> 4821</span> </div>
-<div class="line"><a id="l04822" name="l04822"></a><span class="lineno"> 4822</span>    }</div>
-<div class="line"><a id="l04823" name="l04823"></a><span class="lineno"> 4823</span> </div>
-<div class="line"><a id="l04824" name="l04824"></a><span class="lineno"> 4824</span>    datafile.close();</div>
+<div class="line"><a id="l04822" name="l04822"></a><span class="lineno"> 4822</span>            <span class="keywordflow">if</span>( label==<span class="stringliteral">&quot;air_humidity&quot;</span> &amp;&amp; col_labels.size()==1 &amp;&amp; ( col_labels.front()==<span class="stringliteral">&quot;CIMIS&quot;</span> || col_labels.front()==<span class="stringliteral">&quot;cimis&quot;</span> ) ) {</div>
+<div class="line"><a id="l04823" name="l04823"></a><span class="lineno"> 4823</span>                dataval = dataval/100.f;</div>
+<div class="line"><a id="l04824" name="l04824"></a><span class="lineno"> 4824</span>            }</div>
 <div class="line"><a id="l04825" name="l04825"></a><span class="lineno"> 4825</span> </div>
-<div class="line"><a id="l04826" name="l04826"></a><span class="lineno"> 4826</span>}</div>
+<div class="line"><a id="l04826" name="l04826"></a><span class="lineno"> 4826</span>            <a class="code hl_function" href="group__timeseries.html#gab4e83017576a164eaa7c61cd0812d8a2">addTimeseriesData</a>( label.c_str(), dataval, date, time );</div>
+<div class="line"><a id="l04827" name="l04827"></a><span class="lineno"> 4827</span> </div>
+<div class="line"><a id="l04828" name="l04828"></a><span class="lineno"> 4828</span>        }</div>
+<div class="line"><a id="l04829" name="l04829"></a><span class="lineno"> 4829</span> </div>
+<div class="line"><a id="l04830" name="l04830"></a><span class="lineno"> 4830</span>    }</div>
+<div class="line"><a id="l04831" name="l04831"></a><span class="lineno"> 4831</span> </div>
+<div class="line"><a id="l04832" name="l04832"></a><span class="lineno"> 4832</span>    datafile.close();</div>
+<div class="line"><a id="l04833" name="l04833"></a><span class="lineno"> 4833</span> </div>
+<div class="line"><a id="l04834" name="l04834"></a><span class="lineno"> 4834</span>}</div>
 </div>
 <div class="ttc" id="a_context_8h_html"><div class="ttname"><a href="_context_8h.html">Context.h</a></div></div>
 <div class="ttc" id="a_context_8h_html_a935eb2a4249411a8f376a27820c70de3"><div class="ttname"><a href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">helios::HeliosDataType</a></div><div class="ttdeci">HeliosDataType</div><div class="ttdoc">Data types.</div><div class="ttdef"><b>Definition</b> <a href="_context_8h_source.html#l00041">Context.h:41</a></div></div>
@@ -5046,11 +5054,11 @@
 <div class="ttc" id="aclasshelios_1_1_cone_html_a9eaab4331e325c85ce9f4c101135c966"><div class="ttname"><a href="classhelios_1_1_cone.html#a9eaab4331e325c85ce9f4c101135c966">helios::Cone::getNodeCoordinates</a></div><div class="ttdeci">std::vector&lt; helios::vec3 &gt; getNodeCoordinates() const</div><div class="ttdoc">Get the Cartesian coordinates of each of the cone object nodes.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l04092">Context.cpp:4092</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_cone_html_adc5370734810e4b526bf0d42e143ecf8"><div class="ttname"><a href="classhelios_1_1_cone.html#adc5370734810e4b526bf0d42e143ecf8">helios::Cone::getNodeRadii</a></div><div class="ttdeci">std::vector&lt; float &gt; getNodeRadii() const</div><div class="ttdoc">Get the radius at each of the cone object nodes.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l04121">Context.cpp:4121</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a029f95ee0056f027866f8bad2fe9e48e"><div class="ttname"><a href="classhelios_1_1_context.html#a029f95ee0056f027866f8bad2fe9e48e">helios::Context::setPrimitiveColor</a></div><div class="ttdeci">void setPrimitiveColor(uint UUID, const helios::RGBcolor &amp;color)</div><div class="ttdoc">Method to set the diffuse color of a Primitive.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l07083">Context.cpp:7083</a></div></div>
-<div class="ttc" id="aclasshelios_1_1_context_html_a116724929091eabd6324047ed66cef85"><div class="ttname"><a href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">helios::Context::loadPLY</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadPLY(const char *filename, bool silent=false)</div><div class="ttdoc">Load geometry contained in a Stanford polygon file (.ply). Model will be placed at the origin with no...</div><div class="ttdef"><b>Definition</b> <a href="#l03370">Context_fileIO.cpp:3370</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_a116724929091eabd6324047ed66cef85"><div class="ttname"><a href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">helios::Context::loadPLY</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadPLY(const char *filename, bool silent=false)</div><div class="ttdoc">Load geometry contained in a Stanford polygon file (.ply). Model will be placed at the origin with no...</div><div class="ttdef"><b>Definition</b> <a href="#l03378">Context_fileIO.cpp:3378</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a129516a8fce035705a541e7b877eba2f"><div class="ttname"><a href="classhelios_1_1_context.html#a129516a8fce035705a541e7b877eba2f">helios::Context::loadXML</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadXML(const char *filename, bool quiet=false)</div><div class="ttdoc">Load inputs specified in an XML file.</div><div class="ttdef"><b>Definition</b> <a href="#l01217">Context_fileIO.cpp:1217</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a17c1256a1f57fbae1f34e04b66b76ca8"><div class="ttname"><a href="classhelios_1_1_context.html#a17c1256a1f57fbae1f34e04b66b76ca8">helios::Context::getDiskObjectPointer</a></div><div class="ttdeci">Disk * getDiskObjectPointer(uint ObjID) const</div><div class="ttdoc">Get a pointer to a Disk Compound Object.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l03984">Context.cpp:3984</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a18a276db8d3c1d754bbd1ca475deec82"><div class="ttname"><a href="classhelios_1_1_context.html#a18a276db8d3c1d754bbd1ca475deec82">helios::Context::getUniquePrimitiveParentObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getUniquePrimitiveParentObjectIDs(const std::vector&lt; uint &gt; &amp;UUIDs) const</div><div class="ttdoc">Method to return unique parent object IDs for a vector of primitive UUIDs.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l06966">Context.cpp:6966</a></div></div>
-<div class="ttc" id="aclasshelios_1_1_context_html_a1dc9a0f79be2477c4873755586744e51"><div class="ttname"><a href="classhelios_1_1_context.html#a1dc9a0f79be2477c4873755586744e51">helios::Context::loadTabularTimeseriesData</a></div><div class="ttdeci">void loadTabularTimeseriesData(const std::string &amp;data_file, const std::vector&lt; std::string &gt; &amp;column_labels, const std::string &amp;delimiter, const std::string &amp;date_string_format=&quot;YYYYMMDD&quot;, uint headerlines=0)</div><div class="ttdoc">Load tabular weather data from text file into timeseries.</div><div class="ttdef"><b>Definition</b> <a href="#l04544">Context_fileIO.cpp:4544</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_a1dc9a0f79be2477c4873755586744e51"><div class="ttname"><a href="classhelios_1_1_context.html#a1dc9a0f79be2477c4873755586744e51">helios::Context::loadTabularTimeseriesData</a></div><div class="ttdeci">void loadTabularTimeseriesData(const std::string &amp;data_file, const std::vector&lt; std::string &gt; &amp;column_labels, const std::string &amp;delimiter, const std::string &amp;date_string_format=&quot;YYYYMMDD&quot;, uint headerlines=0)</div><div class="ttdoc">Load tabular weather data from text file into timeseries.</div><div class="ttdef"><b>Definition</b> <a href="#l04552">Context_fileIO.cpp:4552</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a1ecbb5a8cfa6764bade6e0650d2f6990"><div class="ttname"><a href="classhelios_1_1_context.html#a1ecbb5a8cfa6764bade6e0650d2f6990">helios::Context::getBoxObjectPointer</a></div><div class="ttdeci">Box * getBoxObjectPointer(uint ObjID) const</div><div class="ttdoc">Get a pointer to a Box Compound Object.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l03916">Context.cpp:3916</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a2144eea981e4030c973287ce2c38315e"><div class="ttname"><a href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">helios::Context::getPrimitiveData</a></div><div class="ttdeci">void getPrimitiveData(uint UUID, const char *label, int &amp;data) const</div><div class="ttdoc">Get data associated with a primitive element.</div><div class="ttdef"><b>Definition</b> <a href="_context__data_8cpp_source.html#l01001">Context_data.cpp:1001</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a24324ccb5318cb103846a71d44dda23e"><div class="ttname"><a href="classhelios_1_1_context.html#a24324ccb5318cb103846a71d44dda23e">helios::Context::deletePrimitive</a></div><div class="ttdeci">void deletePrimitive(uint UUID)</div><div class="ttdoc">Delete a single primitive from the context.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l01526">Context.cpp:1526</a></div></div>
@@ -5065,9 +5073,9 @@
 <div class="ttc" id="aclasshelios_1_1_context_html_a6e8a5e2044331158d69d6f9bd88fc0f7"><div class="ttname"><a href="classhelios_1_1_context.html#a6e8a5e2044331158d69d6f9bd88fc0f7">helios::Context::getPrimitiveSolidFraction</a></div><div class="ttdeci">float getPrimitiveSolidFraction(uint UUID) const</div><div class="ttdoc">Get fraction of primitive surface area that is non-transparent.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l07165">Context.cpp:7165</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a780d83edd66f25cd38b5059359b48a7b"><div class="ttname"><a href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">helios::Context::doesPrimitiveDataExist</a></div><div class="ttdeci">bool doesPrimitiveDataExist(uint UUID, const char *label) const</div><div class="ttdoc">Check if primitive data 'label' exists.</div><div class="ttdef"><b>Definition</b> <a href="_context__data_8cpp_source.html#l01169">Context_data.cpp:1169</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a7d0b3a6ca36b02702b06208a735a3b03"><div class="ttname"><a href="classhelios_1_1_context.html#a7d0b3a6ca36b02702b06208a735a3b03">helios::Context::getObjectPrimitiveUUIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getObjectPrimitiveUUIDs(uint ObjID) const</div><div class="ttdoc">Get primitive UUIDs associated with compound object (single object ID input)</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l02887">Context.cpp:2887</a></div></div>
-<div class="ttc" id="aclasshelios_1_1_context_html_a8249b03fa781c9382863b7cf2caf0dd8"><div class="ttname"><a href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">helios::Context::writeOBJ</a></div><div class="ttdeci">void writeOBJ(const std::string &amp;filename) const</div><div class="ttdoc">Write geometry in the Context to a Wavefront file (.obj)</div><div class="ttdef"><b>Definition</b> <a href="#l04123">Context_fileIO.cpp:4123</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_a8249b03fa781c9382863b7cf2caf0dd8"><div class="ttname"><a href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">helios::Context::writeOBJ</a></div><div class="ttdeci">void writeOBJ(const std::string &amp;filename) const</div><div class="ttdoc">Write geometry in the Context to a Wavefront file (.obj)</div><div class="ttdef"><b>Definition</b> <a href="#l04131">Context_fileIO.cpp:4131</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a847ecbb2297e60220a23b67c39b0f6e2"><div class="ttname"><a href="classhelios_1_1_context.html#a847ecbb2297e60220a23b67c39b0f6e2">helios::Context::getTime</a></div><div class="ttdeci">helios::Time getTime() const</div><div class="ttdoc">Get the simulation time.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l01164">Context.cpp:1164</a></div></div>
-<div class="ttc" id="aclasshelios_1_1_context_html_a8657240a0b2926e8c73b083f0fdc339d"><div class="ttname"><a href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">helios::Context::loadOBJ</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadOBJ(const char *filename, bool silent=false)</div><div class="ttdoc">Load geometry contained in a Wavefront OBJ file (.obj). Model will be placed at the origin without an...</div><div class="ttdef"><b>Definition</b> <a href="#l03734">Context_fileIO.cpp:3734</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_a8657240a0b2926e8c73b083f0fdc339d"><div class="ttname"><a href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">helios::Context::loadOBJ</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadOBJ(const char *filename, bool silent=false)</div><div class="ttdoc">Load geometry contained in a Wavefront OBJ file (.obj). Model will be placed at the origin without an...</div><div class="ttdef"><b>Definition</b> <a href="#l03742">Context_fileIO.cpp:3742</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a8ed7580efa323c0f5e53e97d00e16c85"><div class="ttname"><a href="classhelios_1_1_context.html#a8ed7580efa323c0f5e53e97d00e16c85">helios::Context::getSphereObjectPointer</a></div><div class="ttdeci">Sphere * getSphereObjectPointer(uint ObjID) const</div><div class="ttdoc">Get a pointer to a Sphere Compound Object.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l03390">Context.cpp:3390</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a90df70161f5ded2f8a79e995464598e0"><div class="ttname"><a href="classhelios_1_1_context.html#a90df70161f5ded2f8a79e995464598e0">helios::Context::overridePrimitiveTextureColor</a></div><div class="ttdeci">void overridePrimitiveTextureColor(uint UUID)</div><div class="ttdoc">Override the color in the texture map for all primitives in the Compound Object, in which case the pr...</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l07141">Context.cpp:7141</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a94bf0b919e5e6034fa45fbae2f575947"><div class="ttname"><a href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">helios::Context::getGlobalDataType</a></div><div class="ttdeci">HeliosDataType getGlobalDataType(const char *label) const</div><div class="ttdoc">Get the Helios data type of global data.</div><div class="ttdef"><b>Definition</b> <a href="_context__data_8cpp_source.html#l04427">Context_data.cpp:4427</a></div></div>
@@ -5077,11 +5085,11 @@
 <div class="ttc" id="aclasshelios_1_1_context_html_a98516632daccf958cca6b5b6582310bb"><div class="ttname"><a href="classhelios_1_1_context.html#a98516632daccf958cca6b5b6582310bb">helios::Context::getAllUUIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getAllUUIDs() const</div><div class="ttdoc">Get all primitive UUIDs currently in the Context.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l01753">Context.cpp:1753</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a9b410e55075482b8cbc549f9bf571541"><div class="ttname"><a href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">helios::Context::doesObjectExist</a></div><div class="ttdeci">bool doesObjectExist(uint ObjID) const</div><div class="ttdoc">Check whether Compound Object exists in the Context.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l02565">Context.cpp:2565</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a9c894ecd12e0d893c53ffcfa9e90c0b6"><div class="ttname"><a href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">helios::Context::getPrimitiveDataType</a></div><div class="ttdeci">HeliosDataType getPrimitiveDataType(uint UUID, const char *label) const</div><div class="ttdoc">Get the Helios data type of primitive data.</div><div class="ttdef"><b>Definition</b> <a href="_context__data_8cpp_source.html#l01155">Context_data.cpp:1155</a></div></div>
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+<div class="ttc" id="aclasshelios_1_1_context_html_aa47b8b6f8cefb3c9d55a3cda10d851d7"><div class="ttname"><a href="classhelios_1_1_context.html#aa47b8b6f8cefb3c9d55a3cda10d851d7">helios::Context::writePLY</a></div><div class="ttdeci">void writePLY(const char *filename) const</div><div class="ttdoc">Write geometry in the Context to a Stanford polygon file (.ply)</div><div class="ttdef"><b>Definition</b> <a href="#l03678">Context_fileIO.cpp:3678</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_aa92b28a9c26bbff7e5621e1c9dd48086"><div class="ttname"><a href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">helios::Context::setGlobalData</a></div><div class="ttdeci">void setGlobalData(const char *label, const int &amp;data)</div><div class="ttdoc">Add global data value (int)</div><div class="ttdef"><b>Definition</b> <a href="_context__data_8cpp_source.html#l03769">Context_data.cpp:3769</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_aaaa6de8a55765b258d6e65c52bf5df69"><div class="ttname"><a href="classhelios_1_1_context.html#aaaa6de8a55765b258d6e65c52bf5df69">helios::Context::isPrimitiveTextureColorOverridden</a></div><div class="ttdeci">bool isPrimitiveTextureColorOverridden(uint UUID) const</div><div class="ttdoc">Check if color of texture map is overridden by the diffuse R-G-B color of the primitive.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l07161">Context.cpp:7161</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_ab26f963c75aa99d797a43860479910b0"><div class="ttname"><a href="classhelios_1_1_context.html#ab26f963c75aa99d797a43860479910b0">helios::Context::getTubeObjectPointer</a></div><div class="ttdeci">Tube * getTubeObjectPointer(uint ObjID) const</div><div class="ttdoc">Get a pointer to a Tube Compound Object.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l03466">Context.cpp:3466</a></div></div>
-<div class="ttc" id="aclasshelios_1_1_context_html_ab643fc787ea7b1a215605c369f446844"><div class="ttname"><a href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844">helios::Context::writePrimitiveData</a></div><div class="ttdeci">void writePrimitiveData(std::string filename, const std::vector&lt; std::string &gt; &amp;column_format, bool print_header=false) const</div><div class="ttdoc">Write primitive data to an ASCII text file for all primitives in the Context.</div><div class="ttdef"><b>Definition</b> <a href="#l04465">Context_fileIO.cpp:4465</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_ab643fc787ea7b1a215605c369f446844"><div class="ttname"><a href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844">helios::Context::writePrimitiveData</a></div><div class="ttdeci">void writePrimitiveData(std::string filename, const std::vector&lt; std::string &gt; &amp;column_format, bool print_header=false) const</div><div class="ttdoc">Write primitive data to an ASCII text file for all primitives in the Context.</div><div class="ttdef"><b>Definition</b> <a href="#l04473">Context_fileIO.cpp:4473</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_abfcac5a56c13e86298609ed3fccf354d"><div class="ttname"><a href="classhelios_1_1_context.html#abfcac5a56c13e86298609ed3fccf354d">helios::Context::writeXML</a></div><div class="ttdeci">void writeXML(const char *filename, bool quiet=false) const</div><div class="ttdoc">Write Context geometry and data to XML file for all UUIDs in the context.</div><div class="ttdef"><b>Definition</b> <a href="#l02658">Context_fileIO.cpp:2658</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_ac7677094a3bbcb62506ce461d982af1d"><div class="ttname"><a href="classhelios_1_1_context.html#ac7677094a3bbcb62506ce461d982af1d">helios::Context::setPrimitiveData</a></div><div class="ttdeci">void setPrimitiveData(const uint &amp;UUID, const char *label, const int &amp;data)</div><div class="ttdoc">Add data value (int) associated with a primitive element.</div><div class="ttdef"><b>Definition</b> <a href="_context__data_8cpp_source.html#l00655">Context_data.cpp:655</a></div></div>
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@@ -5130,12 +5138,14 @@
 <div class="ttc" id="aglobal_8h_html_a162c3d8c139c75bac9607b512768b937"><div class="ttname"><a href="global_8h.html#a162c3d8c139c75bac9607b512768b937">helios::parse_float</a></div><div class="ttdeci">bool parse_float(const std::string &amp;input_string, float &amp;converted_float)</div><div class="ttdoc">Convert a string into a float with error checking.</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l00763">global.cpp:763</a></div></div>
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+<div class="ttc" id="aglobal_8h_html_a614486c4ac0686c5b58813f03f0cedf9"><div class="ttname"><a href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9">helios::validateOutputPath</a></div><div class="ttdeci">bool validateOutputPath(std::string &amp;output_directory, const std::vector&lt; std::string &gt; &amp;allowable_file_extensions={})</div><div class="ttdoc">Check whether output file and/or directory is valid. Add a trailing slash if it is a directory.</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l03020">global.cpp:3020</a></div></div>
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+<div class="ttc" id="aglobal_8h_html_ad76f15d03b511d1bf5123d64d804d6e8"><div class="ttname"><a href="global_8h.html#ad76f15d03b511d1bf5123d64d804d6e8">helios::getFilePath</a></div><div class="ttdeci">std::string getFilePath(const std::string &amp;filepath, bool trailingslash=true)</div><div class="ttdoc">Parse a file string to get the path (i.e., portion of the string before the file name).</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l03008">global.cpp:3008</a></div></div>
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+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
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   </td>
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diff --git a/doc/html/_energy_balance_model_8h_source.html b/doc/html/_energy_balance_model_8h_source.html
index 6257f384a..0c4f6b1f3 100644
--- a/doc/html/_energy_balance_model_8h_source.html
+++ b/doc/html/_energy_balance_model_8h_source.html
@@ -38,7 +38,7 @@
  <tr id="projectrow">
   <td id="projectlogo"><img alt="Logo" src="Helios_logo_small.png"/></td>
   <td id="projectalign">
-   <div id="projectname"><span id="projectnumber">&#160;v1.3.20</span>
+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
    </div>
   </td>
  </tr>
diff --git a/doc/html/_i_o.html b/doc/html/_i_o.html
index 4f5cfa955..dbd521285 100644
--- a/doc/html/_i_o.html
+++ b/doc/html/_i_o.html
@@ -38,7 +38,7 @@
  <tr id="projectrow">
   <td id="projectlogo"><img alt="Logo" src="Helios_logo_small.png"/></td>
   <td id="projectalign">
-   <div id="projectname"><span id="projectnumber">&#160;v1.3.20</span>
+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
    </div>
   </td>
  </tr>
@@ -224,7 +224,7 @@ <h2><a class="anchor" id="TimeXML"></a>
 <div class="line">}</div>
 <div class="ttc" id="a_context_8h_html"><div class="ttname"><a href="_context_8h.html">Context.h</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html"><div class="ttname"><a href="classhelios_1_1_context.html">helios::Context</a></div><div class="ttdoc">Stores the state associated with simulation.</div><div class="ttdef"><b>Definition</b> <a href="_context_8h_source.html#l01882">Context.h:1882</a></div></div>
-<div class="ttc" id="aclasshelios_1_1_context_html_a1dc9a0f79be2477c4873755586744e51"><div class="ttname"><a href="classhelios_1_1_context.html#a1dc9a0f79be2477c4873755586744e51">helios::Context::loadTabularTimeseriesData</a></div><div class="ttdeci">void loadTabularTimeseriesData(const std::string &amp;data_file, const std::vector&lt; std::string &gt; &amp;column_labels, const std::string &amp;delimiter, const std::string &amp;date_string_format=&quot;YYYYMMDD&quot;, uint headerlines=0)</div><div class="ttdoc">Load tabular weather data from text file into timeseries.</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l04544">Context_fileIO.cpp:4544</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_a1dc9a0f79be2477c4873755586744e51"><div class="ttname"><a href="classhelios_1_1_context.html#a1dc9a0f79be2477c4873755586744e51">helios::Context::loadTabularTimeseriesData</a></div><div class="ttdeci">void loadTabularTimeseriesData(const std::string &amp;data_file, const std::vector&lt; std::string &gt; &amp;column_labels, const std::string &amp;delimiter, const std::string &amp;date_string_format=&quot;YYYYMMDD&quot;, uint headerlines=0)</div><div class="ttdoc">Load tabular weather data from text file into timeseries.</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l04552">Context_fileIO.cpp:4552</a></div></div>
 <div class="ttc" id="agroup__timeseries_html_ga8845155a8f5df1e6db968b78f5a5fb18"><div class="ttname"><a href="group__timeseries.html#ga8845155a8f5df1e6db968b78f5a5fb18">helios::Context::queryTimeseriesData</a></div><div class="ttdeci">float queryTimeseriesData(const char *label, const Date &amp;date, const Time &amp;time) const</div><div class="ttdoc">Get a timeseries data point by specifying a date and time vector.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l01884">Context.cpp:1884</a></div></div>
 <div class="ttc" id="astructhelios_1_1_date_html"><div class="ttname"><a href="structhelios_1_1_date.html">helios::Date</a></div><div class="ttdoc">Date vector.</div><div class="ttdef"><b>Definition</b> <a href="helios__vector__types_8h_source.html#l01168">helios_vector_types.h:1168</a></div></div>
 <div class="ttc" id="astructhelios_1_1_time_html"><div class="ttname"><a href="structhelios_1_1_time.html">helios::Time</a></div><div class="ttdoc">Time vector.</div><div class="ttdef"><b>Definition</b> <a href="helios__vector__types_8h_source.html#l01352">helios_vector_types.h:1352</a></div></div>
@@ -269,7 +269,7 @@ <h2><a class="anchor" id="PLYread"></a>
 <div class="line">    context.<a class="code hl_function" href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">loadPLY</a>( <span class="stringliteral">&quot;file.ply&quot;</span>, origin, scale, rotation, color );</div>
 <div class="line"> </div>
 <div class="line">}</div>
-<div class="ttc" id="aclasshelios_1_1_context_html_a116724929091eabd6324047ed66cef85"><div class="ttname"><a href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">helios::Context::loadPLY</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadPLY(const char *filename, bool silent=false)</div><div class="ttdoc">Load geometry contained in a Stanford polygon file (.ply). Model will be placed at the origin with no...</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l03370">Context_fileIO.cpp:3370</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_a116724929091eabd6324047ed66cef85"><div class="ttname"><a href="classhelios_1_1_context.html#a116724929091eabd6324047ed66cef85">helios::Context::loadPLY</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadPLY(const char *filename, bool silent=false)</div><div class="ttdoc">Load geometry contained in a Stanford polygon file (.ply). Model will be placed at the origin with no...</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l03378">Context_fileIO.cpp:3378</a></div></div>
 <div class="ttc" id="astructhelios_1_1_r_g_bcolor_html"><div class="ttname"><a href="structhelios_1_1_r_g_bcolor.html">helios::RGBcolor</a></div><div class="ttdoc">R-G-B color vector.</div><div class="ttdef"><b>Definition</b> <a href="helios__vector__types_8h_source.html#l00844">helios_vector_types.h:844</a></div></div>
 <div class="ttc" id="astructhelios_1_1_spherical_coord_html"><div class="ttname"><a href="structhelios_1_1_spherical_coord.html">helios::SphericalCoord</a></div><div class="ttdoc">Vector of spherical coordinates (elevation,azimuth)</div><div class="ttdef"><b>Definition</b> <a href="helios__vector__types_8h_source.html#l01471">helios_vector_types.h:1471</a></div></div>
 <div class="ttc" id="astructhelios_1_1vec3_html"><div class="ttname"><a href="structhelios_1_1vec3.html">helios::vec3</a></div><div class="ttdoc">Vector of three elements of type 'float'.</div><div class="ttdef"><b>Definition</b> <a href="helios__vector__types_8h_source.html#l00503">helios_vector_types.h:503</a></div></div>
@@ -310,7 +310,7 @@ <h2><a class="anchor" id="OBJread"></a>
 <div class="line">   context.<a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">loadOBJ</a>(<span class="stringliteral">&quot;relative/path/to/someobjfile.obj&quot;</span>, make_vec3(0,0,0), 0, nullrotation, RGB::red );</div>
 <div class="line"> </div>
 <div class="line">}</div>
-<div class="ttc" id="aclasshelios_1_1_context_html_a8657240a0b2926e8c73b083f0fdc339d"><div class="ttname"><a href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">helios::Context::loadOBJ</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadOBJ(const char *filename, bool silent=false)</div><div class="ttdoc">Load geometry contained in a Wavefront OBJ file (.obj). Model will be placed at the origin without an...</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l03734">Context_fileIO.cpp:3734</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_a8657240a0b2926e8c73b083f0fdc339d"><div class="ttname"><a href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">helios::Context::loadOBJ</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadOBJ(const char *filename, bool silent=false)</div><div class="ttdoc">Load geometry contained in a Wavefront OBJ file (.obj). Model will be placed at the origin without an...</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l03742">Context_fileIO.cpp:3742</a></div></div>
 </div><!-- fragment --><h2><a class="anchor" id="PLYwrite"></a>
 Writing PLY (Stanford Polygon) Files</h2>
 <p>The Context has analogous files for writing PLY files based on the geometry currently loaded in the Context. This is accomplished via the writePLY() command, as illustrated below.</p>
@@ -326,7 +326,7 @@ <h2><a class="anchor" id="OBJread"></a>
 <div class="line">    context.<a class="code hl_function" href="classhelios_1_1_context.html#aa47b8b6f8cefb3c9d55a3cda10d851d7">writePLY</a>( <span class="stringliteral">&quot;file.ply&quot;</span> );</div>
 <div class="line"> </div>
 <div class="line">}</div>
-<div class="ttc" id="aclasshelios_1_1_context_html_aa47b8b6f8cefb3c9d55a3cda10d851d7"><div class="ttname"><a href="classhelios_1_1_context.html#aa47b8b6f8cefb3c9d55a3cda10d851d7">helios::Context::writePLY</a></div><div class="ttdeci">void writePLY(const char *filename) const</div><div class="ttdoc">Write geometry in the Context to a Stanford polygon file (.ply)</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l03670">Context_fileIO.cpp:3670</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_aa47b8b6f8cefb3c9d55a3cda10d851d7"><div class="ttname"><a href="classhelios_1_1_context.html#aa47b8b6f8cefb3c9d55a3cda10d851d7">helios::Context::writePLY</a></div><div class="ttdeci">void writePLY(const char *filename) const</div><div class="ttdoc">Write geometry in the Context to a Stanford polygon file (.ply)</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l03678">Context_fileIO.cpp:3678</a></div></div>
 <div class="ttc" id="agroup__primitives_html_gaf4aec42f3f104b7c71150577ef129659"><div class="ttname"><a href="group__primitives.html#gaf4aec42f3f104b7c71150577ef129659">helios::Context::addPatch</a></div><div class="ttdeci">uint addPatch()</div><div class="ttdoc">Add new default Patch geometric primitive, which is centered at the origin (0,0,0),...</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l01202">Context.cpp:1202</a></div></div>
 </div><!-- fragment --><h2><a class="anchor" id="OBJwrite"></a>
 Writing OBJ (Wavefront) Files</h2>
@@ -344,7 +344,7 @@ <h2><a class="anchor" id="OBJread"></a>
 <div class="line">    context.<a class="code hl_function" href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">writeOBJ</a>( <span class="stringliteral">&quot;file&quot;</span> );</div>
 <div class="line"> </div>
 <div class="line">}</div>
-<div class="ttc" id="aclasshelios_1_1_context_html_a8249b03fa781c9382863b7cf2caf0dd8"><div class="ttname"><a href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">helios::Context::writeOBJ</a></div><div class="ttdeci">void writeOBJ(const std::string &amp;filename) const</div><div class="ttdoc">Write geometry in the Context to a Wavefront file (.obj)</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l04123">Context_fileIO.cpp:4123</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_a8249b03fa781c9382863b7cf2caf0dd8"><div class="ttname"><a href="classhelios_1_1_context.html#a8249b03fa781c9382863b7cf2caf0dd8">helios::Context::writeOBJ</a></div><div class="ttdeci">void writeOBJ(const std::string &amp;filename) const</div><div class="ttdoc">Write geometry in the Context to a Wavefront file (.obj)</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l04131">Context_fileIO.cpp:4131</a></div></div>
 </div><!-- fragment --><h1><a class="anchor" id="Export"></a>
 Exporting Project to XML File Format</h1>
 <p>All geometry and global/primitive data loaded into the Context can be written to an XML file using the writeXML() function, which can be later read back in using the loadXML(). This functionality can be used to save progress during a simulation run, or to ensure that consistent geometry is always used across simulation runs, among other things.</p>
@@ -397,7 +397,7 @@ <h2><a class="anchor" id="OBJread"></a>
 <div class="line">    context.<a class="code hl_function" href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844">writePrimitiveData</a>( <span class="stringliteral">&quot;file.txt&quot;</span>, columns );</div>
 <div class="line"> </div>
 <div class="line">}</div>
-<div class="ttc" id="aclasshelios_1_1_context_html_ab643fc787ea7b1a215605c369f446844"><div class="ttname"><a href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844">helios::Context::writePrimitiveData</a></div><div class="ttdeci">void writePrimitiveData(std::string filename, const std::vector&lt; std::string &gt; &amp;column_format, bool print_header=false) const</div><div class="ttdoc">Write primitive data to an ASCII text file for all primitives in the Context.</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l04465">Context_fileIO.cpp:4465</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_ab643fc787ea7b1a215605c369f446844"><div class="ttname"><a href="classhelios_1_1_context.html#ab643fc787ea7b1a215605c369f446844">helios::Context::writePrimitiveData</a></div><div class="ttdeci">void writePrimitiveData(std::string filename, const std::vector&lt; std::string &gt; &amp;column_format, bool print_header=false) const</div><div class="ttdoc">Write primitive data to an ASCII text file for all primitives in the Context.</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l04473">Context_fileIO.cpp:4473</a></div></div>
 </div><!-- fragment --><p>By default, column header labels will not be written, but if the optional third argument is set as "true" the label of the primitive data for each column will be written to the first line of the file. </p>
 </div></div><!-- contents -->
 </div><!-- PageDoc -->
diff --git a/doc/html/_input_output_8cpp.html b/doc/html/_input_output_8cpp.html
index cd4926022..cd3de254c 100644
--- a/doc/html/_input_output_8cpp.html
+++ b/doc/html/_input_output_8cpp.html
@@ -38,7 +38,7 @@
  <tr id="projectrow">
   <td id="projectlogo"><img alt="Logo" src="Helios_logo_small.png"/></td>
   <td id="projectalign">
-   <div id="projectname"><span id="projectnumber">&#160;v1.3.20</span>
+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
    </div>
   </td>
  </tr>
diff --git a/doc/html/_input_output_8cpp_source.html b/doc/html/_input_output_8cpp_source.html
index 075e20541..e8f15d293 100644
--- a/doc/html/_input_output_8cpp_source.html
+++ b/doc/html/_input_output_8cpp_source.html
@@ -38,7 +38,7 @@
  <tr id="projectrow">
   <td id="projectlogo"><img alt="Logo" src="Helios_logo_small.png"/></td>
   <td id="projectalign">
-   <div id="projectname"><span id="projectnumber">&#160;v1.3.20</span>
+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
    </div>
   </td>
  </tr>
@@ -533,310 +533,317 @@
 <div class="line"><a id="l00441" name="l00441"></a><span class="lineno">  441</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::writePlantStructureXML): Plant ID &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
 <div class="line"><a id="l00442" name="l00442"></a><span class="lineno">  442</span>    }</div>
 <div class="line"><a id="l00443" name="l00443"></a><span class="lineno">  443</span> </div>
-<div class="line"><a id="l00444" name="l00444"></a><span class="lineno">  444</span>    <span class="comment">//\todo Check the extension of &#39;filename&#39; and add .xml if needed</span></div>
-<div class="line"><a id="l00445" name="l00445"></a><span class="lineno">  445</span> </div>
-<div class="line"><a id="l00446" name="l00446"></a><span class="lineno">  446</span>    std::ofstream output_xml(filename);</div>
-<div class="line"><a id="l00447" name="l00447"></a><span class="lineno">  447</span> </div>
-<div class="line"><a id="l00448" name="l00448"></a><span class="lineno">  448</span>    <span class="keywordflow">if</span>( !output_xml.is_open() ){</div>
-<div class="line"><a id="l00449" name="l00449"></a><span class="lineno">  449</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::writePlantStructureXML): Could not open file &quot;</span> + filename + <span class="stringliteral">&quot; for writing. Make sure the directory exists and is writable.&quot;</span>);</div>
-<div class="line"><a id="l00450" name="l00450"></a><span class="lineno">  450</span>    }</div>
-<div class="line"><a id="l00451" name="l00451"></a><span class="lineno">  451</span> </div>
-<div class="line"><a id="l00452" name="l00452"></a><span class="lineno">  452</span>    output_xml &lt;&lt; <span class="stringliteral">&quot;&lt;?xml version=\&quot;1.0\&quot; encoding=\&quot;UTF-8\&quot;?&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00453" name="l00453"></a><span class="lineno">  453</span>    output_xml &lt;&lt; <span class="stringliteral">&quot;&lt;helios&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00454" name="l00454"></a><span class="lineno">  454</span>    output_xml &lt;&lt; <span class="stringliteral">&quot;\t&lt;plant_instance ID=\&quot;&quot;</span> &lt;&lt; plantID &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00455" name="l00455"></a><span class="lineno">  455</span> </div>
-<div class="line"><a id="l00456" name="l00456"></a><span class="lineno">  456</span>    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;base_position&gt; &quot;</span> &lt;&lt; plant_instances.at(plantID).base_position.x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; plant_instances.at(plantID).base_position.y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; plant_instances.at(plantID).base_position.z &lt;&lt; <span class="stringliteral">&quot; &lt;/base_position&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00457" name="l00457"></a><span class="lineno">  457</span>    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;plant_age&gt; &quot;</span> &lt;&lt; plant_instances.at(plantID).current_age &lt;&lt; <span class="stringliteral">&quot; &lt;/plant_age&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00458" name="l00458"></a><span class="lineno">  458</span> </div>
-<div class="line"><a id="l00459" name="l00459"></a><span class="lineno">  459</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; shoot : plant_instances.at(plantID).shoot_tree ) {</div>
+<div class="line"><a id="l00444" name="l00444"></a><span class="lineno">  444</span>    std::string output_file = filename;</div>
+<div class="line"><a id="l00445" name="l00445"></a><span class="lineno">  445</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9">validateOutputPath</a>(output_file,{<span class="stringliteral">&quot;.xml&quot;</span>,<span class="stringliteral">&quot;.XML&quot;</span>}) ){</div>
+<div class="line"><a id="l00446" name="l00446"></a><span class="lineno">  446</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::writePlantStructureXML): Could not open file &quot;</span> + filename + <span class="stringliteral">&quot; for writing. Make sure the directory exists and is writable.&quot;</span>);</div>
+<div class="line"><a id="l00447" name="l00447"></a><span class="lineno">  447</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( <a class="code hl_function" href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902">getFileName</a>(output_file).empty()){</div>
+<div class="line"><a id="l00448" name="l00448"></a><span class="lineno">  448</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::writePlantStructureXML): The output file given was a directory. This argument should be the path to a file not to a directory.&quot;</span>);</div>
+<div class="line"><a id="l00449" name="l00449"></a><span class="lineno">  449</span>    }</div>
+<div class="line"><a id="l00450" name="l00450"></a><span class="lineno">  450</span> </div>
+<div class="line"><a id="l00451" name="l00451"></a><span class="lineno">  451</span>    std::ofstream output_xml(filename);</div>
+<div class="line"><a id="l00452" name="l00452"></a><span class="lineno">  452</span> </div>
+<div class="line"><a id="l00453" name="l00453"></a><span class="lineno">  453</span>    <span class="keywordflow">if</span>( !output_xml.is_open() ){</div>
+<div class="line"><a id="l00454" name="l00454"></a><span class="lineno">  454</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::writePlantStructureXML): Could not open file &quot;</span> + filename + <span class="stringliteral">&quot; for writing. Make sure the directory exists and is writable.&quot;</span>);</div>
+<div class="line"><a id="l00455" name="l00455"></a><span class="lineno">  455</span>    }</div>
+<div class="line"><a id="l00456" name="l00456"></a><span class="lineno">  456</span> </div>
+<div class="line"><a id="l00457" name="l00457"></a><span class="lineno">  457</span>    output_xml &lt;&lt; <span class="stringliteral">&quot;&lt;?xml version=\&quot;1.0\&quot; encoding=\&quot;UTF-8\&quot;?&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00458" name="l00458"></a><span class="lineno">  458</span>    output_xml &lt;&lt; <span class="stringliteral">&quot;&lt;helios&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00459" name="l00459"></a><span class="lineno">  459</span>    output_xml &lt;&lt; <span class="stringliteral">&quot;\t&lt;plant_instance ID=\&quot;&quot;</span> &lt;&lt; plantID &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l00460" name="l00460"></a><span class="lineno">  460</span> </div>
-<div class="line"><a id="l00461" name="l00461"></a><span class="lineno">  461</span>        output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;shoot ID=\&quot;&quot;</span> &lt;&lt; shoot-&gt;ID &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00462" name="l00462"></a><span class="lineno">  462</span>        output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t&lt;shoot_type_label&gt; &quot;</span> &lt;&lt; shoot-&gt;shoot_type_label &lt;&lt; <span class="stringliteral">&quot; &lt;/shoot_type_label&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00463" name="l00463"></a><span class="lineno">  463</span>        output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t&lt;parent_shoot_ID&gt; &quot;</span> &lt;&lt; shoot-&gt;parent_shoot_ID &lt;&lt; <span class="stringliteral">&quot; &lt;/parent_shoot_ID&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00464" name="l00464"></a><span class="lineno">  464</span>        output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t&lt;parent_node_index&gt; &quot;</span> &lt;&lt; shoot-&gt;parent_node_index &lt;&lt; <span class="stringliteral">&quot; &lt;/parent_node_index&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00465" name="l00465"></a><span class="lineno">  465</span>        output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t&lt;parent_petiole_index&gt; &quot;</span> &lt;&lt; shoot-&gt;parent_petiole_index &lt;&lt; <span class="stringliteral">&quot; &lt;/parent_petiole_index&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00466" name="l00466"></a><span class="lineno">  466</span>        output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t&lt;base_rotation&gt; &quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(shoot-&gt;base_rotation.pitch) &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(shoot-&gt;base_rotation.yaw) &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(shoot-&gt;base_rotation.roll) &lt;&lt; <span class="stringliteral">&quot; &lt;/base_rotation&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00467" name="l00467"></a><span class="lineno">  467</span> </div>
-<div class="line"><a id="l00468" name="l00468"></a><span class="lineno">  468</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;phytomer: shoot-&gt;phytomers) {</div>
-<div class="line"><a id="l00469" name="l00469"></a><span class="lineno">  469</span> </div>
-<div class="line"><a id="l00470" name="l00470"></a><span class="lineno">  470</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t&lt;phytomer&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00471" name="l00471"></a><span class="lineno">  471</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t&lt;internode&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00472" name="l00472"></a><span class="lineno">  472</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t&lt;internode_length&gt;&quot;</span> &lt;&lt; phytomer-&gt;getInternodeLength() &lt;&lt; <span class="stringliteral">&quot;&lt;/internode_length&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00473" name="l00473"></a><span class="lineno">  473</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t&lt;internode_radius&gt;&quot;</span> &lt;&lt; phytomer-&gt;getInternodeRadius() &lt;&lt; <span class="stringliteral">&quot;&lt;/internode_radius&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00474" name="l00474"></a><span class="lineno">  474</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t&lt;internode_pitch&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(phytomer-&gt;internode_pitch) &lt;&lt; <span class="stringliteral">&quot;&lt;/internode_pitch&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00475" name="l00475"></a><span class="lineno">  475</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t&lt;internode_phyllotactic_angle&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(phytomer-&gt;internode_phyllotactic_angle) &lt;&lt; <span class="stringliteral">&quot;&lt;/internode_phyllotactic_angle&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00476" name="l00476"></a><span class="lineno">  476</span> </div>
-<div class="line"><a id="l00477" name="l00477"></a><span class="lineno">  477</span>            <span class="keywordflow">for</span> (uint petiole = 0; petiole &lt; phytomer-&gt;petiole_length.size(); petiole++) {</div>
-<div class="line"><a id="l00478" name="l00478"></a><span class="lineno">  478</span> </div>
-<div class="line"><a id="l00479" name="l00479"></a><span class="lineno">  479</span>                output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t&lt;petiole&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00480" name="l00480"></a><span class="lineno">  480</span>                output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;petiole_length&gt;&quot;</span> &lt;&lt; phytomer-&gt;petiole_length.at(petiole) &lt;&lt; <span class="stringliteral">&quot;&lt;/petiole_length&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00481" name="l00481"></a><span class="lineno">  481</span>                output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;petiole_radius&gt;&quot;</span> &lt;&lt; phytomer-&gt;petiole_radii.at(petiole).front() &lt;&lt; <span class="stringliteral">&quot;&lt;/petiole_radius&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00482" name="l00482"></a><span class="lineno">  482</span>                output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;petiole_pitch&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(phytomer-&gt;petiole_pitch) &lt;&lt; <span class="stringliteral">&quot;&lt;/petiole_pitch&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00483" name="l00483"></a><span class="lineno">  483</span>                output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;petiole_curvature&gt;&quot;</span> &lt;&lt; phytomer-&gt;petiole_curvature &lt;&lt; <span class="stringliteral">&quot;&lt;/petiole_curvature&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00484" name="l00484"></a><span class="lineno">  484</span>                <span class="keywordflow">if</span>( phytomer-&gt;leaf_rotation.at(petiole).size()==1 ){ <span class="comment">//not compound leaf</span></div>
-<div class="line"><a id="l00485" name="l00485"></a><span class="lineno">  485</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;leaflet_scale&gt;&quot;</span> &lt;&lt; 1.0 &lt;&lt; <span class="stringliteral">&quot;&lt;/leaflet_scale&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00486" name="l00486"></a><span class="lineno">  486</span>                }<span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l00487" name="l00487"></a><span class="lineno">  487</span>                    <span class="keywordtype">float</span> tip_ind = floor(<span class="keywordtype">float</span>(phytomer-&gt;leaf_rotation.at(petiole).size() - 1) / 2.f);</div>
-<div class="line"><a id="l00488" name="l00488"></a><span class="lineno">  488</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;leaflet_scale&gt;&quot;</span> &lt;&lt; phytomer-&gt;leaf_size_max.at(petiole).at(<span class="keywordtype">int</span>(tip_ind-1)) / <a class="code hl_function" href="group__functions.html#ga828d302d1bb6e0aee3e2bf5efd670f86">max</a>(phytomer-&gt;leaf_size_max.at(petiole)) &lt;&lt; <span class="stringliteral">&quot;&lt;/leaflet_scale&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00489" name="l00489"></a><span class="lineno">  489</span>                }</div>
-<div class="line"><a id="l00490" name="l00490"></a><span class="lineno">  490</span> </div>
-<div class="line"><a id="l00491" name="l00491"></a><span class="lineno">  491</span>                <span class="keywordflow">for</span>( uint leaf=0; leaf &lt; phytomer-&gt;leaf_rotation.at(petiole).size(); leaf++ ){</div>
-<div class="line"><a id="l00492" name="l00492"></a><span class="lineno">  492</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;leaf&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00493" name="l00493"></a><span class="lineno">  493</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t\t&lt;leaf_scale&gt;&quot;</span> &lt;&lt; phytomer-&gt;leaf_size_max.at(petiole).at(leaf)*phytomer-&gt;current_leaf_scale_factor &lt;&lt; <span class="stringliteral">&quot;&lt;/leaf_scale&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00494" name="l00494"></a><span class="lineno">  494</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t\t&lt;leaf_pitch&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(phytomer-&gt;leaf_rotation.at(petiole).at(leaf).pitch) &lt;&lt; <span class="stringliteral">&quot;&lt;/leaf_pitch&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00495" name="l00495"></a><span class="lineno">  495</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t\t&lt;leaf_yaw&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(phytomer-&gt;leaf_rotation.at(petiole).at(leaf).yaw) &lt;&lt; <span class="stringliteral">&quot;&lt;/leaf_yaw&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00496" name="l00496"></a><span class="lineno">  496</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t\t&lt;leaf_roll&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(phytomer-&gt;leaf_rotation.at(petiole).at(leaf).roll) &lt;&lt; <span class="stringliteral">&quot;&lt;/leaf_roll&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00497" name="l00497"></a><span class="lineno">  497</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;/leaf&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00498" name="l00498"></a><span class="lineno">  498</span>                }</div>
-<div class="line"><a id="l00499" name="l00499"></a><span class="lineno">  499</span> </div>
-<div class="line"><a id="l00500" name="l00500"></a><span class="lineno">  500</span>                output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t&lt;/petiole&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00501" name="l00501"></a><span class="lineno">  501</span>            }</div>
-<div class="line"><a id="l00502" name="l00502"></a><span class="lineno">  502</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t&lt;/internode&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00503" name="l00503"></a><span class="lineno">  503</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t&lt;/phytomer&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00504" name="l00504"></a><span class="lineno">  504</span>        }</div>
-<div class="line"><a id="l00505" name="l00505"></a><span class="lineno">  505</span>        output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;/shoot&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00506" name="l00506"></a><span class="lineno">  506</span>    }</div>
-<div class="line"><a id="l00507" name="l00507"></a><span class="lineno">  507</span>    output_xml &lt;&lt; <span class="stringliteral">&quot;\t&lt;/plant_instance&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00508" name="l00508"></a><span class="lineno">  508</span>    output_xml &lt;&lt; <span class="stringliteral">&quot;&lt;/helios&gt;&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00509" name="l00509"></a><span class="lineno">  509</span>    output_xml.close();</div>
-<div class="line"><a id="l00510" name="l00510"></a><span class="lineno">  510</span> </div>
-<div class="line"><a id="l00511" name="l00511"></a><span class="lineno">  511</span> </div>
-<div class="line"><a id="l00512" name="l00512"></a><span class="lineno">  512</span>}</div>
-<div class="line"><a id="l00513" name="l00513"></a><span class="lineno">  513</span> </div>
-<div class="line"><a id="l00514" name="l00514"></a><span class="lineno">  514</span>std::vector&lt;uint&gt; PlantArchitecture::readPlantStructureXML( <span class="keyword">const</span> std::string &amp;filename, <span class="keywordtype">bool</span> quiet){</div>
+<div class="line"><a id="l00461" name="l00461"></a><span class="lineno">  461</span>    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;base_position&gt; &quot;</span> &lt;&lt; plant_instances.at(plantID).base_position.x &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; plant_instances.at(plantID).base_position.y &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; plant_instances.at(plantID).base_position.z &lt;&lt; <span class="stringliteral">&quot; &lt;/base_position&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00462" name="l00462"></a><span class="lineno">  462</span>    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;plant_age&gt; &quot;</span> &lt;&lt; plant_instances.at(plantID).current_age &lt;&lt; <span class="stringliteral">&quot; &lt;/plant_age&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00463" name="l00463"></a><span class="lineno">  463</span> </div>
+<div class="line"><a id="l00464" name="l00464"></a><span class="lineno">  464</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; shoot : plant_instances.at(plantID).shoot_tree ) {</div>
+<div class="line"><a id="l00465" name="l00465"></a><span class="lineno">  465</span> </div>
+<div class="line"><a id="l00466" name="l00466"></a><span class="lineno">  466</span>        output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;shoot ID=\&quot;&quot;</span> &lt;&lt; shoot-&gt;ID &lt;&lt; <span class="stringliteral">&quot;\&quot;&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00467" name="l00467"></a><span class="lineno">  467</span>        output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t&lt;shoot_type_label&gt; &quot;</span> &lt;&lt; shoot-&gt;shoot_type_label &lt;&lt; <span class="stringliteral">&quot; &lt;/shoot_type_label&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00468" name="l00468"></a><span class="lineno">  468</span>        output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t&lt;parent_shoot_ID&gt; &quot;</span> &lt;&lt; shoot-&gt;parent_shoot_ID &lt;&lt; <span class="stringliteral">&quot; &lt;/parent_shoot_ID&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00469" name="l00469"></a><span class="lineno">  469</span>        output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t&lt;parent_node_index&gt; &quot;</span> &lt;&lt; shoot-&gt;parent_node_index &lt;&lt; <span class="stringliteral">&quot; &lt;/parent_node_index&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00470" name="l00470"></a><span class="lineno">  470</span>        output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t&lt;parent_petiole_index&gt; &quot;</span> &lt;&lt; shoot-&gt;parent_petiole_index &lt;&lt; <span class="stringliteral">&quot; &lt;/parent_petiole_index&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00471" name="l00471"></a><span class="lineno">  471</span>        output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t&lt;base_rotation&gt; &quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(shoot-&gt;base_rotation.pitch) &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(shoot-&gt;base_rotation.yaw) &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(shoot-&gt;base_rotation.roll) &lt;&lt; <span class="stringliteral">&quot; &lt;/base_rotation&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00472" name="l00472"></a><span class="lineno">  472</span> </div>
+<div class="line"><a id="l00473" name="l00473"></a><span class="lineno">  473</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;phytomer: shoot-&gt;phytomers) {</div>
+<div class="line"><a id="l00474" name="l00474"></a><span class="lineno">  474</span> </div>
+<div class="line"><a id="l00475" name="l00475"></a><span class="lineno">  475</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t&lt;phytomer&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00476" name="l00476"></a><span class="lineno">  476</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t&lt;internode&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00477" name="l00477"></a><span class="lineno">  477</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t&lt;internode_length&gt;&quot;</span> &lt;&lt; phytomer-&gt;getInternodeLength() &lt;&lt; <span class="stringliteral">&quot;&lt;/internode_length&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00478" name="l00478"></a><span class="lineno">  478</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t&lt;internode_radius&gt;&quot;</span> &lt;&lt; phytomer-&gt;getInternodeRadius() &lt;&lt; <span class="stringliteral">&quot;&lt;/internode_radius&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00479" name="l00479"></a><span class="lineno">  479</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t&lt;internode_pitch&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(phytomer-&gt;internode_pitch) &lt;&lt; <span class="stringliteral">&quot;&lt;/internode_pitch&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00480" name="l00480"></a><span class="lineno">  480</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t&lt;internode_phyllotactic_angle&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(phytomer-&gt;internode_phyllotactic_angle) &lt;&lt; <span class="stringliteral">&quot;&lt;/internode_phyllotactic_angle&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00481" name="l00481"></a><span class="lineno">  481</span> </div>
+<div class="line"><a id="l00482" name="l00482"></a><span class="lineno">  482</span>            <span class="keywordflow">for</span> (uint petiole = 0; petiole &lt; phytomer-&gt;petiole_length.size(); petiole++) {</div>
+<div class="line"><a id="l00483" name="l00483"></a><span class="lineno">  483</span> </div>
+<div class="line"><a id="l00484" name="l00484"></a><span class="lineno">  484</span>                output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t&lt;petiole&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00485" name="l00485"></a><span class="lineno">  485</span>                output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;petiole_length&gt;&quot;</span> &lt;&lt; phytomer-&gt;petiole_length.at(petiole) &lt;&lt; <span class="stringliteral">&quot;&lt;/petiole_length&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00486" name="l00486"></a><span class="lineno">  486</span>                output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;petiole_radius&gt;&quot;</span> &lt;&lt; phytomer-&gt;petiole_radii.at(petiole).front() &lt;&lt; <span class="stringliteral">&quot;&lt;/petiole_radius&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00487" name="l00487"></a><span class="lineno">  487</span>                output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;petiole_pitch&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(phytomer-&gt;petiole_pitch) &lt;&lt; <span class="stringliteral">&quot;&lt;/petiole_pitch&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00488" name="l00488"></a><span class="lineno">  488</span>                output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;petiole_curvature&gt;&quot;</span> &lt;&lt; phytomer-&gt;petiole_curvature &lt;&lt; <span class="stringliteral">&quot;&lt;/petiole_curvature&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00489" name="l00489"></a><span class="lineno">  489</span>                <span class="keywordflow">if</span>( phytomer-&gt;leaf_rotation.at(petiole).size()==1 ){ <span class="comment">//not compound leaf</span></div>
+<div class="line"><a id="l00490" name="l00490"></a><span class="lineno">  490</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;leaflet_scale&gt;&quot;</span> &lt;&lt; 1.0 &lt;&lt; <span class="stringliteral">&quot;&lt;/leaflet_scale&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00491" name="l00491"></a><span class="lineno">  491</span>                }<span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l00492" name="l00492"></a><span class="lineno">  492</span>                    <span class="keywordtype">float</span> tip_ind = floor(<span class="keywordtype">float</span>(phytomer-&gt;leaf_rotation.at(petiole).size() - 1) / 2.f);</div>
+<div class="line"><a id="l00493" name="l00493"></a><span class="lineno">  493</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;leaflet_scale&gt;&quot;</span> &lt;&lt; phytomer-&gt;leaf_size_max.at(petiole).at(<span class="keywordtype">int</span>(tip_ind-1)) / <a class="code hl_function" href="group__functions.html#ga828d302d1bb6e0aee3e2bf5efd670f86">max</a>(phytomer-&gt;leaf_size_max.at(petiole)) &lt;&lt; <span class="stringliteral">&quot;&lt;/leaflet_scale&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00494" name="l00494"></a><span class="lineno">  494</span>                }</div>
+<div class="line"><a id="l00495" name="l00495"></a><span class="lineno">  495</span> </div>
+<div class="line"><a id="l00496" name="l00496"></a><span class="lineno">  496</span>                <span class="keywordflow">for</span>( uint leaf=0; leaf &lt; phytomer-&gt;leaf_rotation.at(petiole).size(); leaf++ ){</div>
+<div class="line"><a id="l00497" name="l00497"></a><span class="lineno">  497</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;leaf&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00498" name="l00498"></a><span class="lineno">  498</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t\t&lt;leaf_scale&gt;&quot;</span> &lt;&lt; phytomer-&gt;leaf_size_max.at(petiole).at(leaf)*phytomer-&gt;current_leaf_scale_factor &lt;&lt; <span class="stringliteral">&quot;&lt;/leaf_scale&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00499" name="l00499"></a><span class="lineno">  499</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t\t&lt;leaf_pitch&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(phytomer-&gt;leaf_rotation.at(petiole).at(leaf).pitch) &lt;&lt; <span class="stringliteral">&quot;&lt;/leaf_pitch&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00500" name="l00500"></a><span class="lineno">  500</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t\t&lt;leaf_yaw&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(phytomer-&gt;leaf_rotation.at(petiole).at(leaf).yaw) &lt;&lt; <span class="stringliteral">&quot;&lt;/leaf_yaw&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00501" name="l00501"></a><span class="lineno">  501</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t\t&lt;leaf_roll&gt;&quot;</span> &lt;&lt; <a class="code hl_function" href="group__functions.html#ga0b9a2dac200293044d7e2ae1c03a3140">rad2deg</a>(phytomer-&gt;leaf_rotation.at(petiole).at(leaf).roll) &lt;&lt; <span class="stringliteral">&quot;&lt;/leaf_roll&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00502" name="l00502"></a><span class="lineno">  502</span>                    output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t\t&lt;/leaf&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00503" name="l00503"></a><span class="lineno">  503</span>                }</div>
+<div class="line"><a id="l00504" name="l00504"></a><span class="lineno">  504</span> </div>
+<div class="line"><a id="l00505" name="l00505"></a><span class="lineno">  505</span>                output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t\t&lt;/petiole&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00506" name="l00506"></a><span class="lineno">  506</span>            }</div>
+<div class="line"><a id="l00507" name="l00507"></a><span class="lineno">  507</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t\t&lt;/internode&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00508" name="l00508"></a><span class="lineno">  508</span>            output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t\t&lt;/phytomer&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00509" name="l00509"></a><span class="lineno">  509</span>        }</div>
+<div class="line"><a id="l00510" name="l00510"></a><span class="lineno">  510</span>        output_xml &lt;&lt; <span class="stringliteral">&quot;\t\t&lt;/shoot&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00511" name="l00511"></a><span class="lineno">  511</span>    }</div>
+<div class="line"><a id="l00512" name="l00512"></a><span class="lineno">  512</span>    output_xml &lt;&lt; <span class="stringliteral">&quot;\t&lt;/plant_instance&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00513" name="l00513"></a><span class="lineno">  513</span>    output_xml &lt;&lt; <span class="stringliteral">&quot;&lt;/helios&gt;&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00514" name="l00514"></a><span class="lineno">  514</span>    output_xml.close();</div>
 <div class="line"><a id="l00515" name="l00515"></a><span class="lineno">  515</span> </div>
-<div class="line"><a id="l00516" name="l00516"></a><span class="lineno">  516</span>    <span class="keywordflow">if</span>( !quiet ) {</div>
-<div class="line"><a id="l00517" name="l00517"></a><span class="lineno">  517</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;Loading plant architecture XML file: &quot;</span> &lt;&lt; filename &lt;&lt; <span class="stringliteral">&quot;...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l00518" name="l00518"></a><span class="lineno">  518</span>    }</div>
-<div class="line"><a id="l00519" name="l00519"></a><span class="lineno">  519</span> </div>
-<div class="line"><a id="l00520" name="l00520"></a><span class="lineno">  520</span>    std::string fn = filename;</div>
-<div class="line"><a id="l00521" name="l00521"></a><span class="lineno">  521</span>    std::string ext = <a class="code hl_function" href="global_8h.html#a58e660bb08e1ce13466825ae666467ef">getFileExtension</a>(filename);</div>
-<div class="line"><a id="l00522" name="l00522"></a><span class="lineno">  522</span>    <span class="keywordflow">if</span>( ext != <span class="stringliteral">&quot;.xml&quot;</span> &amp;&amp; ext != <span class="stringliteral">&quot;.XML&quot;</span> ) {</div>
-<div class="line"><a id="l00523" name="l00523"></a><span class="lineno">  523</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;failed.\n File &quot;</span> + fn + <span class="stringliteral">&quot; is not XML format.&quot;</span>);</div>
-<div class="line"><a id="l00524" name="l00524"></a><span class="lineno">  524</span>    }</div>
-<div class="line"><a id="l00525" name="l00525"></a><span class="lineno">  525</span> </div>
-<div class="line"><a id="l00526" name="l00526"></a><span class="lineno">  526</span>    std::vector&lt;uint&gt; plantIDs;</div>
-<div class="line"><a id="l00527" name="l00527"></a><span class="lineno">  527</span> </div>
-<div class="line"><a id="l00528" name="l00528"></a><span class="lineno">  528</span>    <span class="comment">// Using &quot;pugixml&quot; parser.  See pugixml.org</span></div>
-<div class="line"><a id="l00529" name="l00529"></a><span class="lineno">  529</span>    pugi::xml_document xmldoc;</div>
+<div class="line"><a id="l00516" name="l00516"></a><span class="lineno">  516</span> </div>
+<div class="line"><a id="l00517" name="l00517"></a><span class="lineno">  517</span>}</div>
+<div class="line"><a id="l00518" name="l00518"></a><span class="lineno">  518</span> </div>
+<div class="line"><a id="l00519" name="l00519"></a><span class="lineno">  519</span>std::vector&lt;uint&gt; PlantArchitecture::readPlantStructureXML( <span class="keyword">const</span> std::string &amp;filename, <span class="keywordtype">bool</span> quiet){</div>
+<div class="line"><a id="l00520" name="l00520"></a><span class="lineno">  520</span> </div>
+<div class="line"><a id="l00521" name="l00521"></a><span class="lineno">  521</span>    <span class="keywordflow">if</span>( !quiet ) {</div>
+<div class="line"><a id="l00522" name="l00522"></a><span class="lineno">  522</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;Loading plant architecture XML file: &quot;</span> &lt;&lt; filename &lt;&lt; <span class="stringliteral">&quot;...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l00523" name="l00523"></a><span class="lineno">  523</span>    }</div>
+<div class="line"><a id="l00524" name="l00524"></a><span class="lineno">  524</span> </div>
+<div class="line"><a id="l00525" name="l00525"></a><span class="lineno">  525</span>    std::string fn = filename;</div>
+<div class="line"><a id="l00526" name="l00526"></a><span class="lineno">  526</span>    std::string ext = <a class="code hl_function" href="global_8h.html#a58e660bb08e1ce13466825ae666467ef">getFileExtension</a>(filename);</div>
+<div class="line"><a id="l00527" name="l00527"></a><span class="lineno">  527</span>    <span class="keywordflow">if</span>( ext != <span class="stringliteral">&quot;.xml&quot;</span> &amp;&amp; ext != <span class="stringliteral">&quot;.XML&quot;</span> ) {</div>
+<div class="line"><a id="l00528" name="l00528"></a><span class="lineno">  528</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;failed.\n File &quot;</span> + fn + <span class="stringliteral">&quot; is not XML format.&quot;</span>);</div>
+<div class="line"><a id="l00529" name="l00529"></a><span class="lineno">  529</span>    }</div>
 <div class="line"><a id="l00530" name="l00530"></a><span class="lineno">  530</span> </div>
-<div class="line"><a id="l00531" name="l00531"></a><span class="lineno">  531</span>    <span class="comment">//load file</span></div>
-<div class="line"><a id="l00532" name="l00532"></a><span class="lineno">  532</span>    pugi::xml_parse_result load_result = xmldoc.load_file(filename.c_str());</div>
-<div class="line"><a id="l00533" name="l00533"></a><span class="lineno">  533</span> </div>
-<div class="line"><a id="l00534" name="l00534"></a><span class="lineno">  534</span>    <span class="comment">//error checking</span></div>
-<div class="line"><a id="l00535" name="l00535"></a><span class="lineno">  535</span>    <span class="keywordflow">if</span> (!load_result){</div>
-<div class="line"><a id="l00536" name="l00536"></a><span class="lineno">  536</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::readPlantStructureXML): Could not parse &quot;</span> + std::string(filename) + <span class="stringliteral">&quot;:\nError description: &quot;</span> + load_result.description() );</div>
-<div class="line"><a id="l00537" name="l00537"></a><span class="lineno">  537</span>    }</div>
+<div class="line"><a id="l00531" name="l00531"></a><span class="lineno">  531</span>    std::vector&lt;uint&gt; plantIDs;</div>
+<div class="line"><a id="l00532" name="l00532"></a><span class="lineno">  532</span> </div>
+<div class="line"><a id="l00533" name="l00533"></a><span class="lineno">  533</span>    <span class="comment">// Using &quot;pugixml&quot; parser.  See pugixml.org</span></div>
+<div class="line"><a id="l00534" name="l00534"></a><span class="lineno">  534</span>    pugi::xml_document xmldoc;</div>
+<div class="line"><a id="l00535" name="l00535"></a><span class="lineno">  535</span> </div>
+<div class="line"><a id="l00536" name="l00536"></a><span class="lineno">  536</span>    <span class="comment">//load file</span></div>
+<div class="line"><a id="l00537" name="l00537"></a><span class="lineno">  537</span>    pugi::xml_parse_result load_result = xmldoc.load_file(filename.c_str());</div>
 <div class="line"><a id="l00538" name="l00538"></a><span class="lineno">  538</span> </div>
-<div class="line"><a id="l00539" name="l00539"></a><span class="lineno">  539</span>    pugi::xml_node helios = xmldoc.child(<span class="stringliteral">&quot;helios&quot;</span>);</div>
-<div class="line"><a id="l00540" name="l00540"></a><span class="lineno">  540</span> </div>
-<div class="line"><a id="l00541" name="l00541"></a><span class="lineno">  541</span>    pugi::xml_node node;</div>
-<div class="line"><a id="l00542" name="l00542"></a><span class="lineno">  542</span>    std::string node_string;</div>
+<div class="line"><a id="l00539" name="l00539"></a><span class="lineno">  539</span>    <span class="comment">//error checking</span></div>
+<div class="line"><a id="l00540" name="l00540"></a><span class="lineno">  540</span>    <span class="keywordflow">if</span> (!load_result){</div>
+<div class="line"><a id="l00541" name="l00541"></a><span class="lineno">  541</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::readPlantStructureXML): Could not parse &quot;</span> + std::string(filename) + <span class="stringliteral">&quot;:\nError description: &quot;</span> + load_result.description() );</div>
+<div class="line"><a id="l00542" name="l00542"></a><span class="lineno">  542</span>    }</div>
 <div class="line"><a id="l00543" name="l00543"></a><span class="lineno">  543</span> </div>
-<div class="line"><a id="l00544" name="l00544"></a><span class="lineno">  544</span>    <span class="keywordflow">if</span>( helios.empty() ){</div>
-<div class="line"><a id="l00545" name="l00545"></a><span class="lineno">  545</span>        <span class="keywordflow">if</span>( !quiet ) {</div>
-<div class="line"><a id="l00546" name="l00546"></a><span class="lineno">  546</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;failed.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00547" name="l00547"></a><span class="lineno">  547</span>        }</div>
-<div class="line"><a id="l00548" name="l00548"></a><span class="lineno">  548</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::readPlantStructureXML): XML file must have tag &#39;&lt;helios&gt; ... &lt;/helios&gt;&#39; bounding all other tags.&quot;</span>);</div>
-<div class="line"><a id="l00549" name="l00549"></a><span class="lineno">  549</span>    }</div>
-<div class="line"><a id="l00550" name="l00550"></a><span class="lineno">  550</span> </div>
-<div class="line"><a id="l00551" name="l00551"></a><span class="lineno">  551</span>    <span class="keywordtype">size_t</span> phytomer_count = 0;</div>
-<div class="line"><a id="l00552" name="l00552"></a><span class="lineno">  552</span> </div>
-<div class="line"><a id="l00553" name="l00553"></a><span class="lineno">  553</span>    std::map&lt;int,int&gt; shoot_ID_mapping;</div>
-<div class="line"><a id="l00554" name="l00554"></a><span class="lineno">  554</span> </div>
-<div class="line"><a id="l00555" name="l00555"></a><span class="lineno">  555</span>    <span class="keywordflow">for</span> (pugi::xml_node plant = helios.child(<span class="stringliteral">&quot;plant_instance&quot;</span>); plant; plant = plant.next_sibling(<span class="stringliteral">&quot;plant_instance&quot;</span>)) {</div>
-<div class="line"><a id="l00556" name="l00556"></a><span class="lineno">  556</span> </div>
-<div class="line"><a id="l00557" name="l00557"></a><span class="lineno">  557</span>        <span class="keywordtype">int</span> plantID = std::stoi(plant.attribute(<span class="stringliteral">&quot;ID&quot;</span>).value());</div>
-<div class="line"><a id="l00558" name="l00558"></a><span class="lineno">  558</span> </div>
-<div class="line"><a id="l00559" name="l00559"></a><span class="lineno">  559</span>        <span class="comment">// base position</span></div>
-<div class="line"><a id="l00560" name="l00560"></a><span class="lineno">  560</span>        node_string = <span class="stringliteral">&quot;base_position&quot;</span>;</div>
-<div class="line"><a id="l00561" name="l00561"></a><span class="lineno">  561</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> base_position = <a class="code hl_function" href="global_8h.html#a1b7e887e4b92085bc9f52a00227ca1d0">parse_xml_tag_vec3</a>(plant.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00562" name="l00562"></a><span class="lineno">  562</span> </div>
-<div class="line"><a id="l00563" name="l00563"></a><span class="lineno">  563</span>        <span class="comment">// plant age</span></div>
-<div class="line"><a id="l00564" name="l00564"></a><span class="lineno">  564</span>        node_string = <span class="stringliteral">&quot;plant_age&quot;</span>;</div>
-<div class="line"><a id="l00565" name="l00565"></a><span class="lineno">  565</span>        <span class="keywordtype">float</span> plant_age = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(plant.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00566" name="l00566"></a><span class="lineno">  566</span> </div>
-<div class="line"><a id="l00567" name="l00567"></a><span class="lineno">  567</span>        plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, plant_age);</div>
-<div class="line"><a id="l00568" name="l00568"></a><span class="lineno">  568</span>        plantIDs.push_back(plantID);</div>
-<div class="line"><a id="l00569" name="l00569"></a><span class="lineno">  569</span> </div>
-<div class="line"><a id="l00570" name="l00570"></a><span class="lineno">  570</span>        <span class="keywordtype">int</span> current_shoot_ID;</div>
+<div class="line"><a id="l00544" name="l00544"></a><span class="lineno">  544</span>    pugi::xml_node helios = xmldoc.child(<span class="stringliteral">&quot;helios&quot;</span>);</div>
+<div class="line"><a id="l00545" name="l00545"></a><span class="lineno">  545</span> </div>
+<div class="line"><a id="l00546" name="l00546"></a><span class="lineno">  546</span>    pugi::xml_node node;</div>
+<div class="line"><a id="l00547" name="l00547"></a><span class="lineno">  547</span>    std::string node_string;</div>
+<div class="line"><a id="l00548" name="l00548"></a><span class="lineno">  548</span> </div>
+<div class="line"><a id="l00549" name="l00549"></a><span class="lineno">  549</span>    <span class="keywordflow">if</span>( helios.empty() ){</div>
+<div class="line"><a id="l00550" name="l00550"></a><span class="lineno">  550</span>        <span class="keywordflow">if</span>( !quiet ) {</div>
+<div class="line"><a id="l00551" name="l00551"></a><span class="lineno">  551</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;failed.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00552" name="l00552"></a><span class="lineno">  552</span>        }</div>
+<div class="line"><a id="l00553" name="l00553"></a><span class="lineno">  553</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (Context::readPlantStructureXML): XML file must have tag &#39;&lt;helios&gt; ... &lt;/helios&gt;&#39; bounding all other tags.&quot;</span>);</div>
+<div class="line"><a id="l00554" name="l00554"></a><span class="lineno">  554</span>    }</div>
+<div class="line"><a id="l00555" name="l00555"></a><span class="lineno">  555</span> </div>
+<div class="line"><a id="l00556" name="l00556"></a><span class="lineno">  556</span>    <span class="keywordtype">size_t</span> phytomer_count = 0;</div>
+<div class="line"><a id="l00557" name="l00557"></a><span class="lineno">  557</span> </div>
+<div class="line"><a id="l00558" name="l00558"></a><span class="lineno">  558</span>    std::map&lt;int,int&gt; shoot_ID_mapping;</div>
+<div class="line"><a id="l00559" name="l00559"></a><span class="lineno">  559</span> </div>
+<div class="line"><a id="l00560" name="l00560"></a><span class="lineno">  560</span>    <span class="keywordflow">for</span> (pugi::xml_node plant = helios.child(<span class="stringliteral">&quot;plant_instance&quot;</span>); plant; plant = plant.next_sibling(<span class="stringliteral">&quot;plant_instance&quot;</span>)) {</div>
+<div class="line"><a id="l00561" name="l00561"></a><span class="lineno">  561</span> </div>
+<div class="line"><a id="l00562" name="l00562"></a><span class="lineno">  562</span>        <span class="keywordtype">int</span> plantID = std::stoi(plant.attribute(<span class="stringliteral">&quot;ID&quot;</span>).value());</div>
+<div class="line"><a id="l00563" name="l00563"></a><span class="lineno">  563</span> </div>
+<div class="line"><a id="l00564" name="l00564"></a><span class="lineno">  564</span>        <span class="comment">// base position</span></div>
+<div class="line"><a id="l00565" name="l00565"></a><span class="lineno">  565</span>        node_string = <span class="stringliteral">&quot;base_position&quot;</span>;</div>
+<div class="line"><a id="l00566" name="l00566"></a><span class="lineno">  566</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> base_position = <a class="code hl_function" href="global_8h.html#a1b7e887e4b92085bc9f52a00227ca1d0">parse_xml_tag_vec3</a>(plant.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
+<div class="line"><a id="l00567" name="l00567"></a><span class="lineno">  567</span> </div>
+<div class="line"><a id="l00568" name="l00568"></a><span class="lineno">  568</span>        <span class="comment">// plant age</span></div>
+<div class="line"><a id="l00569" name="l00569"></a><span class="lineno">  569</span>        node_string = <span class="stringliteral">&quot;plant_age&quot;</span>;</div>
+<div class="line"><a id="l00570" name="l00570"></a><span class="lineno">  570</span>        <span class="keywordtype">float</span> plant_age = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(plant.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
 <div class="line"><a id="l00571" name="l00571"></a><span class="lineno">  571</span> </div>
-<div class="line"><a id="l00572" name="l00572"></a><span class="lineno">  572</span>        <span class="keywordflow">for</span> (pugi::xml_node shoot = plant.child(<span class="stringliteral">&quot;shoot&quot;</span>); shoot; shoot = shoot.next_sibling(<span class="stringliteral">&quot;shoot&quot;</span>)) {</div>
-<div class="line"><a id="l00573" name="l00573"></a><span class="lineno">  573</span> </div>
-<div class="line"><a id="l00574" name="l00574"></a><span class="lineno">  574</span>            <span class="keywordtype">int</span> shootID = std::stoi(shoot.attribute(<span class="stringliteral">&quot;ID&quot;</span>).value());</div>
-<div class="line"><a id="l00575" name="l00575"></a><span class="lineno">  575</span>            <span class="keywordtype">bool</span> base_shoot = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l00572" name="l00572"></a><span class="lineno">  572</span>        plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, plant_age);</div>
+<div class="line"><a id="l00573" name="l00573"></a><span class="lineno">  573</span>        plantIDs.push_back(plantID);</div>
+<div class="line"><a id="l00574" name="l00574"></a><span class="lineno">  574</span> </div>
+<div class="line"><a id="l00575" name="l00575"></a><span class="lineno">  575</span>        <span class="keywordtype">int</span> current_shoot_ID;</div>
 <div class="line"><a id="l00576" name="l00576"></a><span class="lineno">  576</span> </div>
-<div class="line"><a id="l00577" name="l00577"></a><span class="lineno">  577</span>            <span class="comment">// shoot type</span></div>
-<div class="line"><a id="l00578" name="l00578"></a><span class="lineno">  578</span>            node_string = <span class="stringliteral">&quot;shoot_type_label&quot;</span>;</div>
-<div class="line"><a id="l00579" name="l00579"></a><span class="lineno">  579</span>            std::string shoot_type_label = <a class="code hl_function" href="global_8h.html#a8a48786337175ba01ad180ef493f460b">parse_xml_tag_string</a>(shoot.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00580" name="l00580"></a><span class="lineno">  580</span> </div>
-<div class="line"><a id="l00581" name="l00581"></a><span class="lineno">  581</span>            <span class="comment">// parent shoot ID</span></div>
-<div class="line"><a id="l00582" name="l00582"></a><span class="lineno">  582</span>            node_string = <span class="stringliteral">&quot;parent_shoot_ID&quot;</span>;</div>
-<div class="line"><a id="l00583" name="l00583"></a><span class="lineno">  583</span>            <span class="keywordtype">int</span> parent_shoot_ID = <a class="code hl_function" href="global_8h.html#afcb3f2f96f4679210db6f68845c87a51">parse_xml_tag_int</a>(shoot.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00584" name="l00584"></a><span class="lineno">  584</span> </div>
-<div class="line"><a id="l00585" name="l00585"></a><span class="lineno">  585</span>            <span class="comment">// parent node index</span></div>
-<div class="line"><a id="l00586" name="l00586"></a><span class="lineno">  586</span>            node_string = <span class="stringliteral">&quot;parent_node_index&quot;</span>;</div>
-<div class="line"><a id="l00587" name="l00587"></a><span class="lineno">  587</span>            <span class="keywordtype">int</span> parent_node_index = <a class="code hl_function" href="global_8h.html#afcb3f2f96f4679210db6f68845c87a51">parse_xml_tag_int</a>(shoot.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00588" name="l00588"></a><span class="lineno">  588</span> </div>
-<div class="line"><a id="l00589" name="l00589"></a><span class="lineno">  589</span>            <span class="comment">// parent petiole index</span></div>
-<div class="line"><a id="l00590" name="l00590"></a><span class="lineno">  590</span>            node_string = <span class="stringliteral">&quot;parent_petiole_index&quot;</span>;</div>
-<div class="line"><a id="l00591" name="l00591"></a><span class="lineno">  591</span>            <span class="keywordtype">int</span> parent_petiole_index = <a class="code hl_function" href="global_8h.html#afcb3f2f96f4679210db6f68845c87a51">parse_xml_tag_int</a>(shoot.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00592" name="l00592"></a><span class="lineno">  592</span> </div>
-<div class="line"><a id="l00593" name="l00593"></a><span class="lineno">  593</span>            <span class="comment">// base rotation</span></div>
-<div class="line"><a id="l00594" name="l00594"></a><span class="lineno">  594</span>            node_string = <span class="stringliteral">&quot;base_rotation&quot;</span>;</div>
-<div class="line"><a id="l00595" name="l00595"></a><span class="lineno">  595</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> base_rot = <a class="code hl_function" href="global_8h.html#a1b7e887e4b92085bc9f52a00227ca1d0">parse_xml_tag_vec3</a>(shoot.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00596" name="l00596"></a><span class="lineno">  596</span>            <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> base_rotation(<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(base_rot.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(base_rot.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(base_rot.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>));</div>
+<div class="line"><a id="l00577" name="l00577"></a><span class="lineno">  577</span>        <span class="keywordflow">for</span> (pugi::xml_node shoot = plant.child(<span class="stringliteral">&quot;shoot&quot;</span>); shoot; shoot = shoot.next_sibling(<span class="stringliteral">&quot;shoot&quot;</span>)) {</div>
+<div class="line"><a id="l00578" name="l00578"></a><span class="lineno">  578</span> </div>
+<div class="line"><a id="l00579" name="l00579"></a><span class="lineno">  579</span>            <span class="keywordtype">int</span> shootID = std::stoi(shoot.attribute(<span class="stringliteral">&quot;ID&quot;</span>).value());</div>
+<div class="line"><a id="l00580" name="l00580"></a><span class="lineno">  580</span>            <span class="keywordtype">bool</span> base_shoot = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l00581" name="l00581"></a><span class="lineno">  581</span> </div>
+<div class="line"><a id="l00582" name="l00582"></a><span class="lineno">  582</span>            <span class="comment">// shoot type</span></div>
+<div class="line"><a id="l00583" name="l00583"></a><span class="lineno">  583</span>            node_string = <span class="stringliteral">&quot;shoot_type_label&quot;</span>;</div>
+<div class="line"><a id="l00584" name="l00584"></a><span class="lineno">  584</span>            std::string shoot_type_label = <a class="code hl_function" href="global_8h.html#a8a48786337175ba01ad180ef493f460b">parse_xml_tag_string</a>(shoot.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
+<div class="line"><a id="l00585" name="l00585"></a><span class="lineno">  585</span> </div>
+<div class="line"><a id="l00586" name="l00586"></a><span class="lineno">  586</span>            <span class="comment">// parent shoot ID</span></div>
+<div class="line"><a id="l00587" name="l00587"></a><span class="lineno">  587</span>            node_string = <span class="stringliteral">&quot;parent_shoot_ID&quot;</span>;</div>
+<div class="line"><a id="l00588" name="l00588"></a><span class="lineno">  588</span>            <span class="keywordtype">int</span> parent_shoot_ID = <a class="code hl_function" href="global_8h.html#afcb3f2f96f4679210db6f68845c87a51">parse_xml_tag_int</a>(shoot.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
+<div class="line"><a id="l00589" name="l00589"></a><span class="lineno">  589</span> </div>
+<div class="line"><a id="l00590" name="l00590"></a><span class="lineno">  590</span>            <span class="comment">// parent node index</span></div>
+<div class="line"><a id="l00591" name="l00591"></a><span class="lineno">  591</span>            node_string = <span class="stringliteral">&quot;parent_node_index&quot;</span>;</div>
+<div class="line"><a id="l00592" name="l00592"></a><span class="lineno">  592</span>            <span class="keywordtype">int</span> parent_node_index = <a class="code hl_function" href="global_8h.html#afcb3f2f96f4679210db6f68845c87a51">parse_xml_tag_int</a>(shoot.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
+<div class="line"><a id="l00593" name="l00593"></a><span class="lineno">  593</span> </div>
+<div class="line"><a id="l00594" name="l00594"></a><span class="lineno">  594</span>            <span class="comment">// parent petiole index</span></div>
+<div class="line"><a id="l00595" name="l00595"></a><span class="lineno">  595</span>            node_string = <span class="stringliteral">&quot;parent_petiole_index&quot;</span>;</div>
+<div class="line"><a id="l00596" name="l00596"></a><span class="lineno">  596</span>            <span class="keywordtype">int</span> parent_petiole_index = <a class="code hl_function" href="global_8h.html#afcb3f2f96f4679210db6f68845c87a51">parse_xml_tag_int</a>(shoot.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
 <div class="line"><a id="l00597" name="l00597"></a><span class="lineno">  597</span> </div>
-<div class="line"><a id="l00598" name="l00598"></a><span class="lineno">  598</span>            <span class="keywordflow">for</span> (pugi::xml_node phytomer = shoot.child(<span class="stringliteral">&quot;phytomer&quot;</span>); phytomer; phytomer = phytomer.next_sibling(<span class="stringliteral">&quot;phytomer&quot;</span>)) {</div>
-<div class="line"><a id="l00599" name="l00599"></a><span class="lineno">  599</span> </div>
-<div class="line"><a id="l00600" name="l00600"></a><span class="lineno">  600</span>                pugi::xml_node internode = phytomer.child(<span class="stringliteral">&quot;internode&quot;</span>);</div>
-<div class="line"><a id="l00601" name="l00601"></a><span class="lineno">  601</span> </div>
-<div class="line"><a id="l00602" name="l00602"></a><span class="lineno">  602</span>                <span class="comment">// internode length</span></div>
-<div class="line"><a id="l00603" name="l00603"></a><span class="lineno">  603</span>                node_string = <span class="stringliteral">&quot;internode_length&quot;</span>;</div>
-<div class="line"><a id="l00604" name="l00604"></a><span class="lineno">  604</span>                <span class="keywordtype">float</span> internode_length = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(internode.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00605" name="l00605"></a><span class="lineno">  605</span> </div>
-<div class="line"><a id="l00606" name="l00606"></a><span class="lineno">  606</span>                <span class="comment">// internode radius</span></div>
-<div class="line"><a id="l00607" name="l00607"></a><span class="lineno">  607</span>                node_string = <span class="stringliteral">&quot;internode_radius&quot;</span>;</div>
-<div class="line"><a id="l00608" name="l00608"></a><span class="lineno">  608</span>                <span class="keywordtype">float</span> internode_radius = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(internode.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00609" name="l00609"></a><span class="lineno">  609</span> </div>
-<div class="line"><a id="l00610" name="l00610"></a><span class="lineno">  610</span>                <span class="comment">// internode pitch</span></div>
-<div class="line"><a id="l00611" name="l00611"></a><span class="lineno">  611</span>                node_string = <span class="stringliteral">&quot;internode_pitch&quot;</span>;</div>
-<div class="line"><a id="l00612" name="l00612"></a><span class="lineno">  612</span>                <span class="keywordtype">float</span> internode_pitch = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(internode.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00613" name="l00613"></a><span class="lineno">  613</span> </div>
-<div class="line"><a id="l00614" name="l00614"></a><span class="lineno">  614</span>                <span class="comment">// internode phyllotactic angle</span></div>
-<div class="line"><a id="l00615" name="l00615"></a><span class="lineno">  615</span>                node_string = <span class="stringliteral">&quot;internode_phyllotactic_angle&quot;</span>;</div>
-<div class="line"><a id="l00616" name="l00616"></a><span class="lineno">  616</span>                <span class="keywordtype">float</span> internode_phyllotactic_angle = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(internode.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00617" name="l00617"></a><span class="lineno">  617</span> </div>
-<div class="line"><a id="l00618" name="l00618"></a><span class="lineno">  618</span>                <span class="keywordtype">float</span> petiole_length;</div>
-<div class="line"><a id="l00619" name="l00619"></a><span class="lineno">  619</span>                <span class="keywordtype">float</span> petiole_radius;</div>
-<div class="line"><a id="l00620" name="l00620"></a><span class="lineno">  620</span>                <span class="keywordtype">float</span> petiole_pitch;</div>
-<div class="line"><a id="l00621" name="l00621"></a><span class="lineno">  621</span>                <span class="keywordtype">float</span> petiole_curvature;</div>
-<div class="line"><a id="l00622" name="l00622"></a><span class="lineno">  622</span>                <span class="keywordtype">float</span> leaflet_scale;</div>
-<div class="line"><a id="l00623" name="l00623"></a><span class="lineno">  623</span>                std::vector&lt;std::vector&lt;float&gt;&gt; leaf_scale; <span class="comment">//first index is petiole within internode; second index is leaf within petiole</span></div>
-<div class="line"><a id="l00624" name="l00624"></a><span class="lineno">  624</span>                std::vector&lt;std::vector&lt;float&gt;&gt; leaf_pitch;</div>
-<div class="line"><a id="l00625" name="l00625"></a><span class="lineno">  625</span>                std::vector&lt;std::vector&lt;float&gt;&gt; leaf_yaw;</div>
-<div class="line"><a id="l00626" name="l00626"></a><span class="lineno">  626</span>                std::vector&lt;std::vector&lt;float&gt;&gt; leaf_roll;</div>
-<div class="line"><a id="l00627" name="l00627"></a><span class="lineno">  627</span>                <span class="keywordflow">for</span> (pugi::xml_node petiole = internode.child(<span class="stringliteral">&quot;petiole&quot;</span>); petiole; petiole = petiole.next_sibling(<span class="stringliteral">&quot;petiole&quot;</span>)) {</div>
-<div class="line"><a id="l00628" name="l00628"></a><span class="lineno">  628</span> </div>
-<div class="line"><a id="l00629" name="l00629"></a><span class="lineno">  629</span>                    <span class="comment">// petiole length</span></div>
-<div class="line"><a id="l00630" name="l00630"></a><span class="lineno">  630</span>                    node_string = <span class="stringliteral">&quot;petiole_length&quot;</span>;</div>
-<div class="line"><a id="l00631" name="l00631"></a><span class="lineno">  631</span>                    petiole_length = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(petiole.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00632" name="l00632"></a><span class="lineno">  632</span> </div>
-<div class="line"><a id="l00633" name="l00633"></a><span class="lineno">  633</span>                    <span class="comment">// petiole radius</span></div>
-<div class="line"><a id="l00634" name="l00634"></a><span class="lineno">  634</span>                    node_string = <span class="stringliteral">&quot;petiole_radius&quot;</span>;</div>
-<div class="line"><a id="l00635" name="l00635"></a><span class="lineno">  635</span>                    petiole_radius = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(petiole.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00636" name="l00636"></a><span class="lineno">  636</span> </div>
-<div class="line"><a id="l00637" name="l00637"></a><span class="lineno">  637</span>                    <span class="comment">// petiole pitch</span></div>
-<div class="line"><a id="l00638" name="l00638"></a><span class="lineno">  638</span>                    node_string = <span class="stringliteral">&quot;petiole_pitch&quot;</span>;</div>
-<div class="line"><a id="l00639" name="l00639"></a><span class="lineno">  639</span>                    petiole_pitch = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(petiole.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00640" name="l00640"></a><span class="lineno">  640</span> </div>
-<div class="line"><a id="l00641" name="l00641"></a><span class="lineno">  641</span>                    <span class="comment">// petiole curvature</span></div>
-<div class="line"><a id="l00642" name="l00642"></a><span class="lineno">  642</span>                    node_string = <span class="stringliteral">&quot;petiole_curvature&quot;</span>;</div>
-<div class="line"><a id="l00643" name="l00643"></a><span class="lineno">  643</span>                    petiole_curvature = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(petiole.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00644" name="l00644"></a><span class="lineno">  644</span> </div>
-<div class="line"><a id="l00645" name="l00645"></a><span class="lineno">  645</span>                    <span class="comment">// leaflet scale factor</span></div>
-<div class="line"><a id="l00646" name="l00646"></a><span class="lineno">  646</span>                    node_string = <span class="stringliteral">&quot;leaflet_scale&quot;</span>;</div>
-<div class="line"><a id="l00647" name="l00647"></a><span class="lineno">  647</span>                    leaflet_scale = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(petiole.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
-<div class="line"><a id="l00648" name="l00648"></a><span class="lineno">  648</span> </div>
-<div class="line"><a id="l00649" name="l00649"></a><span class="lineno">  649</span>                    leaf_scale.resize(leaf_scale.size() + 1);</div>
-<div class="line"><a id="l00650" name="l00650"></a><span class="lineno">  650</span>                    leaf_pitch.resize(leaf_pitch.size() + 1);</div>
-<div class="line"><a id="l00651" name="l00651"></a><span class="lineno">  651</span>                    leaf_yaw.resize(leaf_yaw.size() + 1);</div>
-<div class="line"><a id="l00652" name="l00652"></a><span class="lineno">  652</span>                    leaf_roll.resize(leaf_roll.size() + 1);</div>
-<div class="line"><a id="l00653" name="l00653"></a><span class="lineno">  653</span>                    <span class="keywordflow">for</span> (pugi::xml_node leaf = petiole.child(<span class="stringliteral">&quot;leaf&quot;</span>); leaf; leaf = leaf.next_sibling(<span class="stringliteral">&quot;leaf&quot;</span>)) {</div>
-<div class="line"><a id="l00654" name="l00654"></a><span class="lineno">  654</span> </div>
-<div class="line"><a id="l00655" name="l00655"></a><span class="lineno">  655</span>                        <span class="comment">// leaf scale factor</span></div>
-<div class="line"><a id="l00656" name="l00656"></a><span class="lineno">  656</span>                        node_string = <span class="stringliteral">&quot;leaf_scale&quot;</span>;</div>
-<div class="line"><a id="l00657" name="l00657"></a><span class="lineno">  657</span>                        leaf_scale.back().push_back( <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(leaf.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>) );</div>
-<div class="line"><a id="l00658" name="l00658"></a><span class="lineno">  658</span> </div>
-<div class="line"><a id="l00659" name="l00659"></a><span class="lineno">  659</span>                        <span class="comment">// leaf pitch</span></div>
-<div class="line"><a id="l00660" name="l00660"></a><span class="lineno">  660</span>                        node_string = <span class="stringliteral">&quot;leaf_pitch&quot;</span>;</div>
-<div class="line"><a id="l00661" name="l00661"></a><span class="lineno">  661</span>                        leaf_pitch.back().push_back( <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(leaf.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>) );</div>
-<div class="line"><a id="l00662" name="l00662"></a><span class="lineno">  662</span> </div>
-<div class="line"><a id="l00663" name="l00663"></a><span class="lineno">  663</span>                        <span class="comment">// leaf yaw</span></div>
-<div class="line"><a id="l00664" name="l00664"></a><span class="lineno">  664</span>                        node_string = <span class="stringliteral">&quot;leaf_yaw&quot;</span>;</div>
-<div class="line"><a id="l00665" name="l00665"></a><span class="lineno">  665</span>                        leaf_yaw.back().push_back( <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(leaf.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>) );</div>
-<div class="line"><a id="l00666" name="l00666"></a><span class="lineno">  666</span> </div>
-<div class="line"><a id="l00667" name="l00667"></a><span class="lineno">  667</span>                        <span class="comment">// leaf roll</span></div>
-<div class="line"><a id="l00668" name="l00668"></a><span class="lineno">  668</span>                        node_string = <span class="stringliteral">&quot;leaf_roll&quot;</span>;</div>
-<div class="line"><a id="l00669" name="l00669"></a><span class="lineno">  669</span>                        leaf_roll.back().push_back( <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(leaf.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>) );</div>
-<div class="line"><a id="l00670" name="l00670"></a><span class="lineno">  670</span> </div>
-<div class="line"><a id="l00671" name="l00671"></a><span class="lineno">  671</span>                    }</div>
-<div class="line"><a id="l00672" name="l00672"></a><span class="lineno">  672</span>                } <span class="comment">//petioles</span></div>
-<div class="line"><a id="l00673" name="l00673"></a><span class="lineno">  673</span> </div>
-<div class="line"><a id="l00674" name="l00674"></a><span class="lineno">  674</span>                <span class="keywordflow">if</span>( shoot_types.find(shoot_type_label)==shoot_types.end() ){</div>
-<div class="line"><a id="l00675" name="l00675"></a><span class="lineno">  675</span>                    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::readPlantStructureXML): Shoot type &quot;</span> + shoot_type_label + <span class="stringliteral">&quot; not found in shoot types.&quot;</span>);</div>
-<div class="line"><a id="l00676" name="l00676"></a><span class="lineno">  676</span>                }</div>
-<div class="line"><a id="l00677" name="l00677"></a><span class="lineno">  677</span> </div>
+<div class="line"><a id="l00598" name="l00598"></a><span class="lineno">  598</span>            <span class="comment">// base rotation</span></div>
+<div class="line"><a id="l00599" name="l00599"></a><span class="lineno">  599</span>            node_string = <span class="stringliteral">&quot;base_rotation&quot;</span>;</div>
+<div class="line"><a id="l00600" name="l00600"></a><span class="lineno">  600</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> base_rot = <a class="code hl_function" href="global_8h.html#a1b7e887e4b92085bc9f52a00227ca1d0">parse_xml_tag_vec3</a>(shoot.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
+<div class="line"><a id="l00601" name="l00601"></a><span class="lineno">  601</span>            <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> base_rotation(<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(base_rot.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(base_rot.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(base_rot.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>));</div>
+<div class="line"><a id="l00602" name="l00602"></a><span class="lineno">  602</span> </div>
+<div class="line"><a id="l00603" name="l00603"></a><span class="lineno">  603</span>            <span class="keywordflow">for</span> (pugi::xml_node phytomer = shoot.child(<span class="stringliteral">&quot;phytomer&quot;</span>); phytomer; phytomer = phytomer.next_sibling(<span class="stringliteral">&quot;phytomer&quot;</span>)) {</div>
+<div class="line"><a id="l00604" name="l00604"></a><span class="lineno">  604</span> </div>
+<div class="line"><a id="l00605" name="l00605"></a><span class="lineno">  605</span>                pugi::xml_node internode = phytomer.child(<span class="stringliteral">&quot;internode&quot;</span>);</div>
+<div class="line"><a id="l00606" name="l00606"></a><span class="lineno">  606</span> </div>
+<div class="line"><a id="l00607" name="l00607"></a><span class="lineno">  607</span>                <span class="comment">// internode length</span></div>
+<div class="line"><a id="l00608" name="l00608"></a><span class="lineno">  608</span>                node_string = <span class="stringliteral">&quot;internode_length&quot;</span>;</div>
+<div class="line"><a id="l00609" name="l00609"></a><span class="lineno">  609</span>                <span class="keywordtype">float</span> internode_length = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(internode.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
+<div class="line"><a id="l00610" name="l00610"></a><span class="lineno">  610</span> </div>
+<div class="line"><a id="l00611" name="l00611"></a><span class="lineno">  611</span>                <span class="comment">// internode radius</span></div>
+<div class="line"><a id="l00612" name="l00612"></a><span class="lineno">  612</span>                node_string = <span class="stringliteral">&quot;internode_radius&quot;</span>;</div>
+<div class="line"><a id="l00613" name="l00613"></a><span class="lineno">  613</span>                <span class="keywordtype">float</span> internode_radius = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(internode.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
+<div class="line"><a id="l00614" name="l00614"></a><span class="lineno">  614</span> </div>
+<div class="line"><a id="l00615" name="l00615"></a><span class="lineno">  615</span>                <span class="comment">// internode pitch</span></div>
+<div class="line"><a id="l00616" name="l00616"></a><span class="lineno">  616</span>                node_string = <span class="stringliteral">&quot;internode_pitch&quot;</span>;</div>
+<div class="line"><a id="l00617" name="l00617"></a><span class="lineno">  617</span>                <span class="keywordtype">float</span> internode_pitch = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(internode.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
+<div class="line"><a id="l00618" name="l00618"></a><span class="lineno">  618</span> </div>
+<div class="line"><a id="l00619" name="l00619"></a><span class="lineno">  619</span>                <span class="comment">// internode phyllotactic angle</span></div>
+<div class="line"><a id="l00620" name="l00620"></a><span class="lineno">  620</span>                node_string = <span class="stringliteral">&quot;internode_phyllotactic_angle&quot;</span>;</div>
+<div class="line"><a id="l00621" name="l00621"></a><span class="lineno">  621</span>                <span class="keywordtype">float</span> internode_phyllotactic_angle = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(internode.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
+<div class="line"><a id="l00622" name="l00622"></a><span class="lineno">  622</span> </div>
+<div class="line"><a id="l00623" name="l00623"></a><span class="lineno">  623</span>                <span class="keywordtype">float</span> petiole_length;</div>
+<div class="line"><a id="l00624" name="l00624"></a><span class="lineno">  624</span>                <span class="keywordtype">float</span> petiole_radius;</div>
+<div class="line"><a id="l00625" name="l00625"></a><span class="lineno">  625</span>                <span class="keywordtype">float</span> petiole_pitch;</div>
+<div class="line"><a id="l00626" name="l00626"></a><span class="lineno">  626</span>                <span class="keywordtype">float</span> petiole_curvature;</div>
+<div class="line"><a id="l00627" name="l00627"></a><span class="lineno">  627</span>                <span class="keywordtype">float</span> leaflet_scale;</div>
+<div class="line"><a id="l00628" name="l00628"></a><span class="lineno">  628</span>                std::vector&lt;std::vector&lt;float&gt;&gt; leaf_scale; <span class="comment">//first index is petiole within internode; second index is leaf within petiole</span></div>
+<div class="line"><a id="l00629" name="l00629"></a><span class="lineno">  629</span>                std::vector&lt;std::vector&lt;float&gt;&gt; leaf_pitch;</div>
+<div class="line"><a id="l00630" name="l00630"></a><span class="lineno">  630</span>                std::vector&lt;std::vector&lt;float&gt;&gt; leaf_yaw;</div>
+<div class="line"><a id="l00631" name="l00631"></a><span class="lineno">  631</span>                std::vector&lt;std::vector&lt;float&gt;&gt; leaf_roll;</div>
+<div class="line"><a id="l00632" name="l00632"></a><span class="lineno">  632</span>                <span class="keywordflow">for</span> (pugi::xml_node petiole = internode.child(<span class="stringliteral">&quot;petiole&quot;</span>); petiole; petiole = petiole.next_sibling(<span class="stringliteral">&quot;petiole&quot;</span>)) {</div>
+<div class="line"><a id="l00633" name="l00633"></a><span class="lineno">  633</span> </div>
+<div class="line"><a id="l00634" name="l00634"></a><span class="lineno">  634</span>                    <span class="comment">// petiole length</span></div>
+<div class="line"><a id="l00635" name="l00635"></a><span class="lineno">  635</span>                    node_string = <span class="stringliteral">&quot;petiole_length&quot;</span>;</div>
+<div class="line"><a id="l00636" name="l00636"></a><span class="lineno">  636</span>                    petiole_length = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(petiole.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
+<div class="line"><a id="l00637" name="l00637"></a><span class="lineno">  637</span> </div>
+<div class="line"><a id="l00638" name="l00638"></a><span class="lineno">  638</span>                    <span class="comment">// petiole radius</span></div>
+<div class="line"><a id="l00639" name="l00639"></a><span class="lineno">  639</span>                    node_string = <span class="stringliteral">&quot;petiole_radius&quot;</span>;</div>
+<div class="line"><a id="l00640" name="l00640"></a><span class="lineno">  640</span>                    petiole_radius = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(petiole.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
+<div class="line"><a id="l00641" name="l00641"></a><span class="lineno">  641</span> </div>
+<div class="line"><a id="l00642" name="l00642"></a><span class="lineno">  642</span>                    <span class="comment">// petiole pitch</span></div>
+<div class="line"><a id="l00643" name="l00643"></a><span class="lineno">  643</span>                    node_string = <span class="stringliteral">&quot;petiole_pitch&quot;</span>;</div>
+<div class="line"><a id="l00644" name="l00644"></a><span class="lineno">  644</span>                    petiole_pitch = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(petiole.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
+<div class="line"><a id="l00645" name="l00645"></a><span class="lineno">  645</span> </div>
+<div class="line"><a id="l00646" name="l00646"></a><span class="lineno">  646</span>                    <span class="comment">// petiole curvature</span></div>
+<div class="line"><a id="l00647" name="l00647"></a><span class="lineno">  647</span>                    node_string = <span class="stringliteral">&quot;petiole_curvature&quot;</span>;</div>
+<div class="line"><a id="l00648" name="l00648"></a><span class="lineno">  648</span>                    petiole_curvature = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(petiole.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
+<div class="line"><a id="l00649" name="l00649"></a><span class="lineno">  649</span> </div>
+<div class="line"><a id="l00650" name="l00650"></a><span class="lineno">  650</span>                    <span class="comment">// leaflet scale factor</span></div>
+<div class="line"><a id="l00651" name="l00651"></a><span class="lineno">  651</span>                    node_string = <span class="stringliteral">&quot;leaflet_scale&quot;</span>;</div>
+<div class="line"><a id="l00652" name="l00652"></a><span class="lineno">  652</span>                    leaflet_scale = <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(petiole.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>);</div>
+<div class="line"><a id="l00653" name="l00653"></a><span class="lineno">  653</span> </div>
+<div class="line"><a id="l00654" name="l00654"></a><span class="lineno">  654</span>                    leaf_scale.resize(leaf_scale.size() + 1);</div>
+<div class="line"><a id="l00655" name="l00655"></a><span class="lineno">  655</span>                    leaf_pitch.resize(leaf_pitch.size() + 1);</div>
+<div class="line"><a id="l00656" name="l00656"></a><span class="lineno">  656</span>                    leaf_yaw.resize(leaf_yaw.size() + 1);</div>
+<div class="line"><a id="l00657" name="l00657"></a><span class="lineno">  657</span>                    leaf_roll.resize(leaf_roll.size() + 1);</div>
+<div class="line"><a id="l00658" name="l00658"></a><span class="lineno">  658</span>                    <span class="keywordflow">for</span> (pugi::xml_node leaf = petiole.child(<span class="stringliteral">&quot;leaf&quot;</span>); leaf; leaf = leaf.next_sibling(<span class="stringliteral">&quot;leaf&quot;</span>)) {</div>
+<div class="line"><a id="l00659" name="l00659"></a><span class="lineno">  659</span> </div>
+<div class="line"><a id="l00660" name="l00660"></a><span class="lineno">  660</span>                        <span class="comment">// leaf scale factor</span></div>
+<div class="line"><a id="l00661" name="l00661"></a><span class="lineno">  661</span>                        node_string = <span class="stringliteral">&quot;leaf_scale&quot;</span>;</div>
+<div class="line"><a id="l00662" name="l00662"></a><span class="lineno">  662</span>                        leaf_scale.back().push_back( <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(leaf.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>) );</div>
+<div class="line"><a id="l00663" name="l00663"></a><span class="lineno">  663</span> </div>
+<div class="line"><a id="l00664" name="l00664"></a><span class="lineno">  664</span>                        <span class="comment">// leaf pitch</span></div>
+<div class="line"><a id="l00665" name="l00665"></a><span class="lineno">  665</span>                        node_string = <span class="stringliteral">&quot;leaf_pitch&quot;</span>;</div>
+<div class="line"><a id="l00666" name="l00666"></a><span class="lineno">  666</span>                        leaf_pitch.back().push_back( <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(leaf.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>) );</div>
+<div class="line"><a id="l00667" name="l00667"></a><span class="lineno">  667</span> </div>
+<div class="line"><a id="l00668" name="l00668"></a><span class="lineno">  668</span>                        <span class="comment">// leaf yaw</span></div>
+<div class="line"><a id="l00669" name="l00669"></a><span class="lineno">  669</span>                        node_string = <span class="stringliteral">&quot;leaf_yaw&quot;</span>;</div>
+<div class="line"><a id="l00670" name="l00670"></a><span class="lineno">  670</span>                        leaf_yaw.back().push_back( <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(leaf.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>) );</div>
+<div class="line"><a id="l00671" name="l00671"></a><span class="lineno">  671</span> </div>
+<div class="line"><a id="l00672" name="l00672"></a><span class="lineno">  672</span>                        <span class="comment">// leaf roll</span></div>
+<div class="line"><a id="l00673" name="l00673"></a><span class="lineno">  673</span>                        node_string = <span class="stringliteral">&quot;leaf_roll&quot;</span>;</div>
+<div class="line"><a id="l00674" name="l00674"></a><span class="lineno">  674</span>                        leaf_roll.back().push_back( <a class="code hl_function" href="global_8h.html#a0627913352046dda81c72c9ce234a7e7">parse_xml_tag_float</a>(leaf.child(node_string.c_str()), node_string, <span class="stringliteral">&quot;PlantArchitecture::readPlantStructureXML&quot;</span>) );</div>
+<div class="line"><a id="l00675" name="l00675"></a><span class="lineno">  675</span> </div>
+<div class="line"><a id="l00676" name="l00676"></a><span class="lineno">  676</span>                    }</div>
+<div class="line"><a id="l00677" name="l00677"></a><span class="lineno">  677</span>                } <span class="comment">//petioles</span></div>
 <div class="line"><a id="l00678" name="l00678"></a><span class="lineno">  678</span> </div>
-<div class="line"><a id="l00679" name="l00679"></a><span class="lineno">  679</span>                <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters = <a class="code hl_function" href="class_plant_architecture.html#a190d91f02c5cfcfad036879460b2e495">getCurrentShootParameters</a>(shoot_type_label);</div>
-<div class="line"><a id="l00680" name="l00680"></a><span class="lineno">  680</span> </div>
-<div class="line"><a id="l00681" name="l00681"></a><span class="lineno">  681</span>                shoot_parameters.phytomer_parameters.<a class="code hl_variable" href="struct_phytomer_parameters.html#ab97ce4b897b2ec905235ca2efbf8545d">phytomer_creation_function</a> = <span class="keyword">nullptr</span>;</div>
+<div class="line"><a id="l00679" name="l00679"></a><span class="lineno">  679</span>                <span class="keywordflow">if</span>( shoot_types.find(shoot_type_label)==shoot_types.end() ){</div>
+<div class="line"><a id="l00680" name="l00680"></a><span class="lineno">  680</span>                    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::readPlantStructureXML): Shoot type &quot;</span> + shoot_type_label + <span class="stringliteral">&quot; not found in shoot types.&quot;</span>);</div>
+<div class="line"><a id="l00681" name="l00681"></a><span class="lineno">  681</span>                }</div>
 <div class="line"><a id="l00682" name="l00682"></a><span class="lineno">  682</span> </div>
-<div class="line"><a id="l00683" name="l00683"></a><span class="lineno">  683</span>                shoot_parameters.phytomer_parameters.internode.pitch = internode_pitch;</div>
-<div class="line"><a id="l00684" name="l00684"></a><span class="lineno">  684</span>                shoot_parameters.phytomer_parameters.internode.phyllotactic_angle = internode_phyllotactic_angle;</div>
+<div class="line"><a id="l00683" name="l00683"></a><span class="lineno">  683</span> </div>
+<div class="line"><a id="l00684" name="l00684"></a><span class="lineno">  684</span>                <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters = <a class="code hl_function" href="class_plant_architecture.html#a190d91f02c5cfcfad036879460b2e495">getCurrentShootParameters</a>(shoot_type_label);</div>
 <div class="line"><a id="l00685" name="l00685"></a><span class="lineno">  685</span> </div>
-<div class="line"><a id="l00686" name="l00686"></a><span class="lineno">  686</span>                shoot_parameters.phytomer_parameters.petiole.length = petiole_length;</div>
-<div class="line"><a id="l00687" name="l00687"></a><span class="lineno">  687</span>                shoot_parameters.phytomer_parameters.petiole.radius = petiole_radius;</div>
-<div class="line"><a id="l00688" name="l00688"></a><span class="lineno">  688</span>                shoot_parameters.phytomer_parameters.petiole.pitch = petiole_pitch;</div>
-<div class="line"><a id="l00689" name="l00689"></a><span class="lineno">  689</span>                shoot_parameters.phytomer_parameters.petiole.curvature = petiole_curvature;</div>
+<div class="line"><a id="l00686" name="l00686"></a><span class="lineno">  686</span>                shoot_parameters.phytomer_parameters.<a class="code hl_variable" href="struct_phytomer_parameters.html#ab97ce4b897b2ec905235ca2efbf8545d">phytomer_creation_function</a> = <span class="keyword">nullptr</span>;</div>
+<div class="line"><a id="l00687" name="l00687"></a><span class="lineno">  687</span> </div>
+<div class="line"><a id="l00688" name="l00688"></a><span class="lineno">  688</span>                shoot_parameters.phytomer_parameters.internode.pitch = internode_pitch;</div>
+<div class="line"><a id="l00689" name="l00689"></a><span class="lineno">  689</span>                shoot_parameters.phytomer_parameters.internode.phyllotactic_angle = internode_phyllotactic_angle;</div>
 <div class="line"><a id="l00690" name="l00690"></a><span class="lineno">  690</span> </div>
-<div class="line"><a id="l00691" name="l00691"></a><span class="lineno">  691</span>                <span class="keywordtype">float</span> tip_ind = floor(<span class="keywordtype">float</span>(leaf_scale.front().size() - 1) / 2.f);</div>
-<div class="line"><a id="l00692" name="l00692"></a><span class="lineno">  692</span>                shoot_parameters.phytomer_parameters.leaf.prototype_scale = leaf_scale.front().at(tip_ind);</div>
-<div class="line"><a id="l00693" name="l00693"></a><span class="lineno">  693</span>                shoot_parameters.phytomer_parameters.leaf.pitch = 0;</div>
-<div class="line"><a id="l00694" name="l00694"></a><span class="lineno">  694</span>                shoot_parameters.phytomer_parameters.leaf.yaw = 0;</div>
-<div class="line"><a id="l00695" name="l00695"></a><span class="lineno">  695</span>                shoot_parameters.phytomer_parameters.leaf.roll = 0;</div>
-<div class="line"><a id="l00696" name="l00696"></a><span class="lineno">  696</span>                shoot_parameters.phytomer_parameters.leaf.leaflet_scale = leaflet_scale;</div>
-<div class="line"><a id="l00697" name="l00697"></a><span class="lineno">  697</span> </div>
-<div class="line"><a id="l00698" name="l00698"></a><span class="lineno">  698</span>                std::string shoot_label = <span class="stringliteral">&quot;shoot_&quot;</span> + std::to_string(phytomer_count);</div>
-<div class="line"><a id="l00699" name="l00699"></a><span class="lineno">  699</span>                <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>( shoot_label, shoot_parameters);</div>
-<div class="line"><a id="l00700" name="l00700"></a><span class="lineno">  700</span> </div>
-<div class="line"><a id="l00701" name="l00701"></a><span class="lineno">  701</span>                <span class="keywordflow">if</span>( base_shoot ){</div>
+<div class="line"><a id="l00691" name="l00691"></a><span class="lineno">  691</span>                shoot_parameters.phytomer_parameters.petiole.length = petiole_length;</div>
+<div class="line"><a id="l00692" name="l00692"></a><span class="lineno">  692</span>                shoot_parameters.phytomer_parameters.petiole.radius = petiole_radius;</div>
+<div class="line"><a id="l00693" name="l00693"></a><span class="lineno">  693</span>                shoot_parameters.phytomer_parameters.petiole.pitch = petiole_pitch;</div>
+<div class="line"><a id="l00694" name="l00694"></a><span class="lineno">  694</span>                shoot_parameters.phytomer_parameters.petiole.curvature = petiole_curvature;</div>
+<div class="line"><a id="l00695" name="l00695"></a><span class="lineno">  695</span> </div>
+<div class="line"><a id="l00696" name="l00696"></a><span class="lineno">  696</span>                <span class="keywordtype">float</span> tip_ind = floor(<span class="keywordtype">float</span>(leaf_scale.front().size() - 1) / 2.f);</div>
+<div class="line"><a id="l00697" name="l00697"></a><span class="lineno">  697</span>                shoot_parameters.phytomer_parameters.leaf.prototype_scale = leaf_scale.front().at(tip_ind);</div>
+<div class="line"><a id="l00698" name="l00698"></a><span class="lineno">  698</span>                shoot_parameters.phytomer_parameters.leaf.pitch = 0;</div>
+<div class="line"><a id="l00699" name="l00699"></a><span class="lineno">  699</span>                shoot_parameters.phytomer_parameters.leaf.yaw = 0;</div>
+<div class="line"><a id="l00700" name="l00700"></a><span class="lineno">  700</span>                shoot_parameters.phytomer_parameters.leaf.roll = 0;</div>
+<div class="line"><a id="l00701" name="l00701"></a><span class="lineno">  701</span>                shoot_parameters.phytomer_parameters.leaf.leaflet_scale = leaflet_scale;</div>
 <div class="line"><a id="l00702" name="l00702"></a><span class="lineno">  702</span> </div>
-<div class="line"><a id="l00703" name="l00703"></a><span class="lineno">  703</span>                    <span class="keywordflow">if</span>( parent_shoot_ID&lt;0 ) { <span class="comment">//this is the first shoot of the plant</span></div>
-<div class="line"><a id="l00704" name="l00704"></a><span class="lineno">  704</span>                        current_shoot_ID = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 1, base_rotation, internode_radius, internode_length, 1.f, 1.f, 0, shoot_label);</div>
-<div class="line"><a id="l00705" name="l00705"></a><span class="lineno">  705</span>                        shoot_ID_mapping[shootID] = current_shoot_ID;</div>
-<div class="line"><a id="l00706" name="l00706"></a><span class="lineno">  706</span>                    }<span class="keywordflow">else</span>{ <span class="comment">//this is a child of an existing shoot</span></div>
-<div class="line"><a id="l00707" name="l00707"></a><span class="lineno">  707</span>                        current_shoot_ID = <a class="code hl_function" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">addChildShoot</a>(plantID, shoot_ID_mapping.at(parent_shoot_ID), parent_node_index, 1, base_rotation, internode_radius, internode_length, 1.f, 1.f, 0, shoot_label, parent_petiole_index);</div>
-<div class="line"><a id="l00708" name="l00708"></a><span class="lineno">  708</span>                        shoot_ID_mapping[shootID] = current_shoot_ID;</div>
-<div class="line"><a id="l00709" name="l00709"></a><span class="lineno">  709</span>                    }</div>
-<div class="line"><a id="l00710" name="l00710"></a><span class="lineno">  710</span> </div>
-<div class="line"><a id="l00711" name="l00711"></a><span class="lineno">  711</span>                    base_shoot = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l00712" name="l00712"></a><span class="lineno">  712</span>                }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l00713" name="l00713"></a><span class="lineno">  713</span>                    <a class="code hl_function" href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">appendPhytomerToShoot</a>(plantID, current_shoot_ID, shoot_parameters.phytomer_parameters, internode_radius, internode_length, 1, 1);</div>
-<div class="line"><a id="l00714" name="l00714"></a><span class="lineno">  714</span>                }</div>
+<div class="line"><a id="l00703" name="l00703"></a><span class="lineno">  703</span>                std::string shoot_label = <span class="stringliteral">&quot;shoot_&quot;</span> + std::to_string(phytomer_count);</div>
+<div class="line"><a id="l00704" name="l00704"></a><span class="lineno">  704</span>                <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>( shoot_label, shoot_parameters);</div>
+<div class="line"><a id="l00705" name="l00705"></a><span class="lineno">  705</span> </div>
+<div class="line"><a id="l00706" name="l00706"></a><span class="lineno">  706</span>                <span class="keywordflow">if</span>( base_shoot ){</div>
+<div class="line"><a id="l00707" name="l00707"></a><span class="lineno">  707</span> </div>
+<div class="line"><a id="l00708" name="l00708"></a><span class="lineno">  708</span>                    <span class="keywordflow">if</span>( parent_shoot_ID&lt;0 ) { <span class="comment">//this is the first shoot of the plant</span></div>
+<div class="line"><a id="l00709" name="l00709"></a><span class="lineno">  709</span>                        current_shoot_ID = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 1, base_rotation, internode_radius, internode_length, 1.f, 1.f, 0, shoot_label);</div>
+<div class="line"><a id="l00710" name="l00710"></a><span class="lineno">  710</span>                        shoot_ID_mapping[shootID] = current_shoot_ID;</div>
+<div class="line"><a id="l00711" name="l00711"></a><span class="lineno">  711</span>                    }<span class="keywordflow">else</span>{ <span class="comment">//this is a child of an existing shoot</span></div>
+<div class="line"><a id="l00712" name="l00712"></a><span class="lineno">  712</span>                        current_shoot_ID = <a class="code hl_function" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">addChildShoot</a>(plantID, shoot_ID_mapping.at(parent_shoot_ID), parent_node_index, 1, base_rotation, internode_radius, internode_length, 1.f, 1.f, 0, shoot_label, parent_petiole_index);</div>
+<div class="line"><a id="l00713" name="l00713"></a><span class="lineno">  713</span>                        shoot_ID_mapping[shootID] = current_shoot_ID;</div>
+<div class="line"><a id="l00714" name="l00714"></a><span class="lineno">  714</span>                    }</div>
 <div class="line"><a id="l00715" name="l00715"></a><span class="lineno">  715</span> </div>
-<div class="line"><a id="l00716" name="l00716"></a><span class="lineno">  716</span>                <span class="comment">//rotate leaves</span></div>
-<div class="line"><a id="l00717" name="l00717"></a><span class="lineno">  717</span>                <span class="keyword">auto</span> phytomer_ptr = plant_instances.at(plantID).shoot_tree.at(current_shoot_ID)-&gt;phytomers.back();</div>
-<div class="line"><a id="l00718" name="l00718"></a><span class="lineno">  718</span>                <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole = 0; petiole&lt;phytomer_ptr-&gt;leaf_rotation.size(); petiole++ ){</div>
-<div class="line"><a id="l00719" name="l00719"></a><span class="lineno">  719</span>                    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> leaf=0; leaf&lt;phytomer_ptr-&gt;leaf_rotation.at(petiole).size(); leaf++ ){</div>
-<div class="line"><a id="l00720" name="l00720"></a><span class="lineno">  720</span>                        phytomer_ptr-&gt;rotateLeaf(petiole, leaf, make_AxisRotation(<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(leaf_pitch.at(petiole).at(leaf)), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(leaf_yaw.at(petiole).at(leaf)), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(-leaf_roll.at(petiole).at(leaf))));</div>
-<div class="line"><a id="l00721" name="l00721"></a><span class="lineno">  721</span>                    }</div>
-<div class="line"><a id="l00722" name="l00722"></a><span class="lineno">  722</span>                }</div>
-<div class="line"><a id="l00723" name="l00723"></a><span class="lineno">  723</span> </div>
-<div class="line"><a id="l00724" name="l00724"></a><span class="lineno">  724</span>                phytomer_count++;</div>
-<div class="line"><a id="l00725" name="l00725"></a><span class="lineno">  725</span>        } <span class="comment">//phytomers</span></div>
-<div class="line"><a id="l00726" name="l00726"></a><span class="lineno">  726</span> </div>
-<div class="line"><a id="l00727" name="l00727"></a><span class="lineno">  727</span>        } <span class="comment">//shoots</span></div>
+<div class="line"><a id="l00716" name="l00716"></a><span class="lineno">  716</span>                    base_shoot = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l00717" name="l00717"></a><span class="lineno">  717</span>                }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l00718" name="l00718"></a><span class="lineno">  718</span>                    <a class="code hl_function" href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">appendPhytomerToShoot</a>(plantID, current_shoot_ID, shoot_parameters.phytomer_parameters, internode_radius, internode_length, 1, 1);</div>
+<div class="line"><a id="l00719" name="l00719"></a><span class="lineno">  719</span>                }</div>
+<div class="line"><a id="l00720" name="l00720"></a><span class="lineno">  720</span> </div>
+<div class="line"><a id="l00721" name="l00721"></a><span class="lineno">  721</span>                <span class="comment">//rotate leaves</span></div>
+<div class="line"><a id="l00722" name="l00722"></a><span class="lineno">  722</span>                <span class="keyword">auto</span> phytomer_ptr = plant_instances.at(plantID).shoot_tree.at(current_shoot_ID)-&gt;phytomers.back();</div>
+<div class="line"><a id="l00723" name="l00723"></a><span class="lineno">  723</span>                <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole = 0; petiole&lt;phytomer_ptr-&gt;leaf_rotation.size(); petiole++ ){</div>
+<div class="line"><a id="l00724" name="l00724"></a><span class="lineno">  724</span>                    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> leaf=0; leaf&lt;phytomer_ptr-&gt;leaf_rotation.at(petiole).size(); leaf++ ){</div>
+<div class="line"><a id="l00725" name="l00725"></a><span class="lineno">  725</span>                        phytomer_ptr-&gt;rotateLeaf(petiole, leaf, make_AxisRotation(<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(leaf_pitch.at(petiole).at(leaf)), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(leaf_yaw.at(petiole).at(leaf)), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(-leaf_roll.at(petiole).at(leaf))));</div>
+<div class="line"><a id="l00726" name="l00726"></a><span class="lineno">  726</span>                    }</div>
+<div class="line"><a id="l00727" name="l00727"></a><span class="lineno">  727</span>                }</div>
 <div class="line"><a id="l00728" name="l00728"></a><span class="lineno">  728</span> </div>
-<div class="line"><a id="l00729" name="l00729"></a><span class="lineno">  729</span>    } <span class="comment">//plant instances</span></div>
-<div class="line"><a id="l00730" name="l00730"></a><span class="lineno">  730</span> </div>
-<div class="line"><a id="l00731" name="l00731"></a><span class="lineno">  731</span>    <span class="keywordflow">if</span>( !quiet ) {</div>
-<div class="line"><a id="l00732" name="l00732"></a><span class="lineno">  732</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l00733" name="l00733"></a><span class="lineno">  733</span>    }</div>
-<div class="line"><a id="l00734" name="l00734"></a><span class="lineno">  734</span>    <span class="keywordflow">return</span> plantIDs;</div>
+<div class="line"><a id="l00729" name="l00729"></a><span class="lineno">  729</span>                phytomer_count++;</div>
+<div class="line"><a id="l00730" name="l00730"></a><span class="lineno">  730</span>        } <span class="comment">//phytomers</span></div>
+<div class="line"><a id="l00731" name="l00731"></a><span class="lineno">  731</span> </div>
+<div class="line"><a id="l00732" name="l00732"></a><span class="lineno">  732</span>        } <span class="comment">//shoots</span></div>
+<div class="line"><a id="l00733" name="l00733"></a><span class="lineno">  733</span> </div>
+<div class="line"><a id="l00734" name="l00734"></a><span class="lineno">  734</span>    } <span class="comment">//plant instances</span></div>
 <div class="line"><a id="l00735" name="l00735"></a><span class="lineno">  735</span> </div>
-<div class="line"><a id="l00736" name="l00736"></a><span class="lineno">  736</span>}</div>
+<div class="line"><a id="l00736" name="l00736"></a><span class="lineno">  736</span>    <span class="keywordflow">if</span>( !quiet ) {</div>
+<div class="line"><a id="l00737" name="l00737"></a><span class="lineno">  737</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l00738" name="l00738"></a><span class="lineno">  738</span>    }</div>
+<div class="line"><a id="l00739" name="l00739"></a><span class="lineno">  739</span>    <span class="keywordflow">return</span> plantIDs;</div>
+<div class="line"><a id="l00740" name="l00740"></a><span class="lineno">  740</span> </div>
+<div class="line"><a id="l00741" name="l00741"></a><span class="lineno">  741</span>}</div>
 <div class="ttc" id="a_plant_architecture_8h_html"><div class="ttname"><a href="_plant_architecture_8h.html">PlantArchitecture.h</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a046541b573d8e03845a2038370cd6665"><div class="ttname"><a href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">PlantArchitecture::addPlantInstance</a></div><div class="ttdeci">uint addPlantInstance(const helios::vec3 &amp;base_position, float current_age)</div><div class="ttdoc">Create an instance of a plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02568">PlantArchitecture.cpp:2568</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a0832e7e5e15d64c3ee52ea3d640dee27"><div class="ttname"><a href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">PlantArchitecture::addChildShoot</a></div><div class="ttdeci">uint addChildShoot(uint plantID, int parent_shoot_ID, uint parent_node_index, uint current_node_number, const AxisRotation &amp;shoot_base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label, uint petiole_index=0)</div><div class="ttdoc">Manually add a child shoot at the axillary bud of a phytomer.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01976">PlantArchitecture.cpp:1976</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a122fad48603e2e0f2fe6d870c691bfd1"><div class="ttname"><a href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">PlantArchitecture::appendPhytomerToShoot</a></div><div class="ttdeci">int appendPhytomerToShoot(uint plantID, uint shootID, const PhytomerParameters &amp;phytomer_parameters, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction)</div><div class="ttdoc">Add a new phytomer at the terminal bud of a shoot.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02058">PlantArchitecture.cpp:2058</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a046541b573d8e03845a2038370cd6665"><div class="ttname"><a href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">PlantArchitecture::addPlantInstance</a></div><div class="ttdeci">uint addPlantInstance(const helios::vec3 &amp;base_position, float current_age)</div><div class="ttdoc">Create an instance of a plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02569">PlantArchitecture.cpp:2569</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a0832e7e5e15d64c3ee52ea3d640dee27"><div class="ttname"><a href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">PlantArchitecture::addChildShoot</a></div><div class="ttdeci">uint addChildShoot(uint plantID, int parent_shoot_ID, uint parent_node_index, uint current_node_number, const AxisRotation &amp;shoot_base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label, uint petiole_index=0)</div><div class="ttdoc">Manually add a child shoot at the axillary bud of a phytomer.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01977">PlantArchitecture.cpp:1977</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a122fad48603e2e0f2fe6d870c691bfd1"><div class="ttname"><a href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">PlantArchitecture::appendPhytomerToShoot</a></div><div class="ttdeci">int appendPhytomerToShoot(uint plantID, uint shootID, const PhytomerParameters &amp;phytomer_parameters, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction)</div><div class="ttdoc">Add a new phytomer at the terminal bud of a shoot.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02059">PlantArchitecture.cpp:2059</a></div></div>
 <div class="ttc" id="aclass_plant_architecture_html_a190d91f02c5cfcfad036879460b2e495"><div class="ttname"><a href="class_plant_architecture.html#a190d91f02c5cfcfad036879460b2e495">PlantArchitecture::getCurrentShootParameters</a></div><div class="ttdeci">std::map&lt; std::string, ShootParameters &gt; getCurrentShootParameters()</div><div class="ttdoc">Get the shoot parameters structure for all shoot types in the current plant model.</div><div class="ttdef"><b>Definition</b> <a href="_plant_library_8cpp_source.html#l00093">PlantLibrary.cpp:93</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a32e88ebd4d0bb468f6c0a2655833bff6"><div class="ttname"><a href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">PlantArchitecture::addBaseStemShoot</a></div><div class="ttdeci">uint addBaseStemShoot(uint plantID, uint current_node_number, const AxisRotation &amp;base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Define the stem/trunk shoot (base of plant) to start a new plant. This requires a plant instance has ...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01899">PlantArchitecture.cpp:1899</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a32e88ebd4d0bb468f6c0a2655833bff6"><div class="ttname"><a href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">PlantArchitecture::addBaseStemShoot</a></div><div class="ttdeci">uint addBaseStemShoot(uint plantID, uint current_node_number, const AxisRotation &amp;base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Define the stem/trunk shoot (base of plant) to start a new plant. This requires a plant instance has ...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01900">PlantArchitecture.cpp:1900</a></div></div>
 <div class="ttc" id="aclass_plant_architecture_html_a9700f223b8f60bf37852ad87d30e7fc0"><div class="ttname"><a href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">PlantArchitecture::defineShootType</a></div><div class="ttdeci">void defineShootType(const std::string &amp;shoot_type_label, const ShootParameters &amp;shoot_params)</div><div class="ttdoc">Define a new shoot type based on a set of ShootParameters.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l00235">PlantArchitecture.cpp:235</a></div></div>
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 <div class="ttc" id="aglobal_8h_html_a1b7e887e4b92085bc9f52a00227ca1d0"><div class="ttname"><a href="global_8h.html#a1b7e887e4b92085bc9f52a00227ca1d0">helios::parse_xml_tag_vec3</a></div><div class="ttdeci">vec3 parse_xml_tag_vec3(const pugi::xml_node &amp;node, const std::string &amp;tag, const std::string &amp;calling_function)</div><div class="ttdoc">Parse an XML tag containing a vec3 value (i.e., three space delimited floats)</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l00896">global.cpp:896</a></div></div>
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+<div class="ttc" id="aglobal_8h_html_a614486c4ac0686c5b58813f03f0cedf9"><div class="ttname"><a href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9">helios::validateOutputPath</a></div><div class="ttdeci">bool validateOutputPath(std::string &amp;output_directory, const std::vector&lt; std::string &gt; &amp;allowable_file_extensions={})</div><div class="ttdoc">Check whether output file and/or directory is valid. Add a trailing slash if it is a directory.</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l03020">global.cpp:3020</a></div></div>
+<div class="ttc" id="aglobal_8h_html_a63bd49091fdab0e262b051f61fb9a902"><div class="ttname"><a href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902">helios::getFileName</a></div><div class="ttdeci">std::string getFileName(const std::string &amp;filepath)</div><div class="ttdoc">Parse a file string to get the filename including extension.</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l03003">global.cpp:3003</a></div></div>
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 <div class="ttc" id="aglobal_8h_html_a8a48786337175ba01ad180ef493f460b"><div class="ttname"><a href="global_8h.html#a8a48786337175ba01ad180ef493f460b">helios::parse_xml_tag_string</a></div><div class="ttdeci">std::string parse_xml_tag_string(const pugi::xml_node &amp;node, const std::string &amp;tag, const std::string &amp;calling_function)</div><div class="ttdoc">Parse an XML tag containing a string.</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l00908">global.cpp:908</a></div></div>
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index b5ccb6b60..370ec1ccb 100644
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       </table>
 </div><div class="memdoc">
 
-<p class="definition">Definition at line <a class="el" href="_plant_architecture_8cpp_source.html#l03064">3064</a> of file <a class="el" href="_plant_architecture_8cpp_source.html">PlantArchitecture.cpp</a>.</p>
+<p class="definition">Definition at line <a class="el" href="_plant_architecture_8cpp_source.html#l03065">3065</a> of file <a class="el" href="_plant_architecture_8cpp_source.html">PlantArchitecture.cpp</a>.</p>
 
 </div>
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diff --git a/doc/html/_plant_architecture_8cpp_source.html b/doc/html/_plant_architecture_8cpp_source.html
index d396d96f9..6d92a52e6 100644
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 <div class="line"><a id="l00948" name="l00948"></a><span class="lineno">  948</span>    }</div>
 <div class="line"><a id="l00949" name="l00949"></a><span class="lineno">  949</span> </div>
 <div class="line"><a id="l00950" name="l00950"></a><span class="lineno">  950</span>    <span class="comment">// create internode tube</span></div>
-<div class="line"><a id="l00951" name="l00951"></a><span class="lineno">  951</span>    <span class="keywordtype">float</span> dt = 1.f / float(Ndiv_internode_length);</div>
-<div class="line"><a id="l00952" name="l00952"></a><span class="lineno">  952</span>    <span class="keywordflow">for</span>(<span class="keywordtype">int</span> inode_segment=1; inode_segment &lt;= Ndiv_internode_length; inode_segment++ ){</div>
-<div class="line"><a id="l00953" name="l00953"></a><span class="lineno">  953</span> </div>
-<div class="line"><a id="l00954" name="l00954"></a><span class="lineno">  954</span>        <span class="comment">//apply curvature and tortuosity</span></div>
-<div class="line"><a id="l00955" name="l00955"></a><span class="lineno">  955</span>        <span class="keywordflow">if</span>( (fabs(parent_shoot-&gt;gravitropic_curvature) &gt; 0 || parent_shoot_parameters.tortuosity.val() &gt; 0 ) &amp;&amp; shoot_index.x &gt; 0 ) { <span class="comment">//note: curvature is not applied to the first phytomer because if scaling is performed in the phytomer creation function it messes things up</span></div>
-<div class="line"><a id="l00956" name="l00956"></a><span class="lineno">  956</span> </div>
-<div class="line"><a id="l00957" name="l00957"></a><span class="lineno">  957</span>            <span class="keywordtype">float</span> current_curvature_fact = 0.5f-internode_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>/2.f;</div>
-<div class="line"><a id="l00958" name="l00958"></a><span class="lineno">  958</span>            <span class="keywordflow">if</span>( internode_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>&lt;0 ){</div>
-<div class="line"><a id="l00959" name="l00959"></a><span class="lineno">  959</span>                current_curvature_fact *= 2.f;</div>
-<div class="line"><a id="l00960" name="l00960"></a><span class="lineno">  960</span>            }</div>
-<div class="line"><a id="l00961" name="l00961"></a><span class="lineno">  961</span> </div>
-<div class="line"><a id="l00962" name="l00962"></a><span class="lineno">  962</span>            parent_shoot-&gt;curvature_perturbation += - 0.5f*parent_shoot-&gt;curvature_perturbation*dt + 5*parent_shoot_parameters.tortuosity.val()*context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a1792e2ad0a31efec76fecd1554e0aa07">randn</a>()*sqrt(dt);</div>
-<div class="line"><a id="l00963" name="l00963"></a><span class="lineno">  963</span>            <span class="keywordtype">float</span> curvature_angle = <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>((parent_shoot-&gt;gravitropic_curvature*current_curvature_fact+parent_shoot-&gt;curvature_perturbation) * dr_internode_max);</div>
-<div class="line"><a id="l00964" name="l00964"></a><span class="lineno">  964</span>            internode_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(internode_axis, nullorigin, shoot_bending_axis, curvature_angle);</div>
-<div class="line"><a id="l00965" name="l00965"></a><span class="lineno">  965</span> </div>
-<div class="line"><a id="l00966" name="l00966"></a><span class="lineno">  966</span>            parent_shoot-&gt;yaw_perturbation += - 0.5f*parent_shoot-&gt;yaw_perturbation*dt + 5*parent_shoot_parameters.tortuosity.val()*context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a1792e2ad0a31efec76fecd1554e0aa07">randn</a>()*sqrt(dt);</div>
-<div class="line"><a id="l00967" name="l00967"></a><span class="lineno">  967</span>            <span class="keywordtype">float</span> yaw_angle = <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>((parent_shoot-&gt;yaw_perturbation) * dr_internode_max);</div>
-<div class="line"><a id="l00968" name="l00968"></a><span class="lineno">  968</span>            internode_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(internode_axis, nullorigin, <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,1), yaw_angle);</div>
-<div class="line"><a id="l00969" name="l00969"></a><span class="lineno">  969</span>        }</div>
-<div class="line"><a id="l00970" name="l00970"></a><span class="lineno">  970</span> </div>
-<div class="line"><a id="l00971" name="l00971"></a><span class="lineno">  971</span>        phytomer_internode_vertices.at(inode_segment) = phytomer_internode_vertices.at(inode_segment - 1) + dr_internode * internode_axis;</div>
-<div class="line"><a id="l00972" name="l00972"></a><span class="lineno">  972</span> </div>
-<div class="line"><a id="l00973" name="l00973"></a><span class="lineno">  973</span>        phytomer_internode_radii.at(inode_segment) = internode_radius;</div>
-<div class="line"><a id="l00974" name="l00974"></a><span class="lineno">  974</span>        internode_colors.at(inode_segment) = phytomer_parameters.internode.color;</div>
-<div class="line"><a id="l00975" name="l00975"></a><span class="lineno">  975</span> </div>
-<div class="line"><a id="l00976" name="l00976"></a><span class="lineno">  976</span>    }</div>
-<div class="line"><a id="l00977" name="l00977"></a><span class="lineno">  977</span> </div>
-<div class="line"><a id="l00978" name="l00978"></a><span class="lineno">  978</span>    <span class="keywordflow">if</span>( shoot_index.x==0 ) { <span class="comment">//first phytomer on shoot</span></div>
-<div class="line"><a id="l00979" name="l00979"></a><span class="lineno">  979</span>        parent_shoot_ptr-&gt;shoot_internode_vertices.push_back(phytomer_internode_vertices);</div>
-<div class="line"><a id="l00980" name="l00980"></a><span class="lineno">  980</span>        parent_shoot_ptr-&gt;shoot_internode_radii.push_back(phytomer_internode_radii);</div>
-<div class="line"><a id="l00981" name="l00981"></a><span class="lineno">  981</span>    }<span class="keywordflow">else</span>{ <span class="comment">//if not the first phytomer on shoot, don&#39;t insert the first node because it&#39;s already defined on the previous phytomer</span></div>
-<div class="line"><a id="l00982" name="l00982"></a><span class="lineno">  982</span>        parent_shoot_ptr-&gt;shoot_internode_vertices.emplace_back(phytomer_internode_vertices.begin()+1,phytomer_internode_vertices.end());</div>
-<div class="line"><a id="l00983" name="l00983"></a><span class="lineno">  983</span>        parent_shoot_ptr-&gt;shoot_internode_radii.emplace_back(phytomer_internode_radii.begin()+1,phytomer_internode_radii.end());</div>
-<div class="line"><a id="l00984" name="l00984"></a><span class="lineno">  984</span>    }</div>
-<div class="line"><a id="l00985" name="l00985"></a><span class="lineno">  985</span> </div>
-<div class="line"><a id="l00986" name="l00986"></a><span class="lineno">  986</span>    <span class="comment">//build internode context geometry</span></div>
-<div class="line"><a id="l00987" name="l00987"></a><span class="lineno">  987</span>    <span class="keywordflow">if</span>( build_context_geometry_internode ) {</div>
-<div class="line"><a id="l00988" name="l00988"></a><span class="lineno">  988</span> </div>
-<div class="line"><a id="l00989" name="l00989"></a><span class="lineno">  989</span>        <span class="comment">//calculate texture coordinates</span></div>
-<div class="line"><a id="l00990" name="l00990"></a><span class="lineno">  990</span>        <span class="keywordtype">float</span> texture_repeat_length = 0.25f; <span class="comment">//meters</span></div>
-<div class="line"><a id="l00991" name="l00991"></a><span class="lineno">  991</span>        <span class="keywordtype">float</span> length=0; <span class="comment">//shoot length prior to this phytomer</span></div>
-<div class="line"><a id="l00992" name="l00992"></a><span class="lineno">  992</span>        <span class="keywordflow">for</span>(<span class="keyword">auto</span> &amp; phytomer : parent_shoot_ptr-&gt;phytomers){</div>
-<div class="line"><a id="l00993" name="l00993"></a><span class="lineno">  993</span>            length += phytomer-&gt;internode_length_max;</div>
-<div class="line"><a id="l00994" name="l00994"></a><span class="lineno">  994</span>        }</div>
-<div class="line"><a id="l00995" name="l00995"></a><span class="lineno">  995</span>        std::vector&lt;float&gt; uv_y(phytomer_internode_vertices.size());</div>
-<div class="line"><a id="l00996" name="l00996"></a><span class="lineno">  996</span>        <span class="keywordtype">float</span> dy = internode_length_max/float(uv_y.size()-1);</div>
-<div class="line"><a id="l00997" name="l00997"></a><span class="lineno">  997</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;uv_y.size(); j++ ){</div>
-<div class="line"><a id="l00998" name="l00998"></a><span class="lineno">  998</span>            uv_y.at(j) = (length+j*dy)/texture_repeat_length - std::floor((length+j*dy)/texture_repeat_length);</div>
-<div class="line"><a id="l00999" name="l00999"></a><span class="lineno">  999</span>        }</div>
-<div class="line"><a id="l01000" name="l01000"></a><span class="lineno"> 1000</span> </div>
-<div class="line"><a id="l01001" name="l01001"></a><span class="lineno"> 1001</span>        <span class="keywordflow">if</span>( !context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">doesObjectExist</a>(parent_shoot-&gt;internode_tube_objID) ){ <span class="comment">//first internode on shoot</span></div>
-<div class="line"><a id="l01002" name="l01002"></a><span class="lineno"> 1002</span>            <span class="keywordflow">if</span>( !phytomer_parameters.internode.image_texture.empty() ){</div>
-<div class="line"><a id="l01003" name="l01003"></a><span class="lineno"> 1003</span>                parent_shoot-&gt;internode_tube_objID = context_ptr-&gt;<a class="code hl_function" href="group__compoundobjects.html#ga51f79fece15fee384255237359563a18">addTubeObject</a>(Ndiv_internode_radius, phytomer_internode_vertices, phytomer_internode_radii, phytomer_parameters.internode.image_texture.c_str(), uv_y);</div>
-<div class="line"><a id="l01004" name="l01004"></a><span class="lineno"> 1004</span>            }<span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l01005" name="l01005"></a><span class="lineno"> 1005</span>                parent_shoot-&gt;internode_tube_objID = context_ptr-&gt;<a class="code hl_function" href="group__compoundobjects.html#ga51f79fece15fee384255237359563a18">addTubeObject</a>(Ndiv_internode_radius, phytomer_internode_vertices, phytomer_internode_radii, internode_colors);</div>
-<div class="line"><a id="l01006" name="l01006"></a><span class="lineno"> 1006</span>            }</div>
-<div class="line"><a id="l01007" name="l01007"></a><span class="lineno"> 1007</span>        }<span class="keywordflow">else</span>{ <span class="comment">//appending internode to shoot</span></div>
-<div class="line"><a id="l01008" name="l01008"></a><span class="lineno"> 1008</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> inode_segment = 1; inode_segment &lt;= Ndiv_internode_length; inode_segment++) {</div>
-<div class="line"><a id="l01009" name="l01009"></a><span class="lineno"> 1009</span>                <span class="keywordflow">if</span>( !phytomer_parameters.internode.image_texture.empty() ) {</div>
-<div class="line"><a id="l01010" name="l01010"></a><span class="lineno"> 1010</span>                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a646f6a5449870a191fe3d60db849b190">appendTubeSegment</a>(parent_shoot-&gt;internode_tube_objID, phytomer_internode_vertices.at(inode_segment), phytomer_internode_radii.at(inode_segment), phytomer_parameters.internode.image_texture.c_str(), {uv_y.at(inode_segment-1), uv_y.at(inode_segment)});</div>
-<div class="line"><a id="l01011" name="l01011"></a><span class="lineno"> 1011</span>                }<span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l01012" name="l01012"></a><span class="lineno"> 1012</span>                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a646f6a5449870a191fe3d60db849b190">appendTubeSegment</a>(parent_shoot-&gt;internode_tube_objID, phytomer_internode_vertices.at(inode_segment), phytomer_internode_radii.at(inode_segment), internode_colors.at(inode_segment));</div>
-<div class="line"><a id="l01013" name="l01013"></a><span class="lineno"> 1013</span>                }</div>
-<div class="line"><a id="l01014" name="l01014"></a><span class="lineno"> 1014</span>            }</div>
-<div class="line"><a id="l01015" name="l01015"></a><span class="lineno"> 1015</span>        }</div>
-<div class="line"><a id="l01016" name="l01016"></a><span class="lineno"> 1016</span>    }</div>
-<div class="line"><a id="l01017" name="l01017"></a><span class="lineno"> 1017</span> </div>
-<div class="line"><a id="l01018" name="l01018"></a><span class="lineno"> 1018</span>    <span class="comment">//--- create petiole ---//</span></div>
-<div class="line"><a id="l01019" name="l01019"></a><span class="lineno"> 1019</span> </div>
-<div class="line"><a id="l01020" name="l01020"></a><span class="lineno"> 1020</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> petiole_axis = internode_axis;</div>
-<div class="line"><a id="l01021" name="l01021"></a><span class="lineno"> 1021</span> </div>
-<div class="line"><a id="l01022" name="l01022"></a><span class="lineno"> 1022</span>    <span class="comment">//petiole pitch rotation</span></div>
-<div class="line"><a id="l01023" name="l01023"></a><span class="lineno"> 1023</span>    petiole_pitch = <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.petiole.pitch.val());</div>
-<div class="line"><a id="l01024" name="l01024"></a><span class="lineno"> 1024</span>    phytomer_parameters.petiole.pitch.resample();</div>
-<div class="line"><a id="l01025" name="l01025"></a><span class="lineno"> 1025</span>    <span class="keywordflow">if</span>( fabs(petiole_pitch)&lt;<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(5.f) ) {</div>
-<div class="line"><a id="l01026" name="l01026"></a><span class="lineno"> 1026</span>        petiole_pitch = <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(5.f);</div>
-<div class="line"><a id="l01027" name="l01027"></a><span class="lineno"> 1027</span>    }</div>
-<div class="line"><a id="l01028" name="l01028"></a><span class="lineno"> 1028</span>    petiole_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(petiole_axis, nullorigin, petiole_rotation_axis, std::abs(petiole_pitch) );</div>
-<div class="line"><a id="l01029" name="l01029"></a><span class="lineno"> 1029</span> </div>
-<div class="line"><a id="l01030" name="l01030"></a><span class="lineno"> 1030</span>    <span class="comment">//petiole yaw rotation</span></div>
-<div class="line"><a id="l01031" name="l01031"></a><span class="lineno"> 1031</span>    <span class="keywordflow">if</span>( phytomer_index!=0 &amp;&amp; internode_phyllotactic_angle!=0 ){ <span class="comment">//not first phytomer along shoot</span></div>
-<div class="line"><a id="l01032" name="l01032"></a><span class="lineno"> 1032</span>        petiole_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(petiole_axis, nullorigin, internode_axis, internode_phyllotactic_angle );</div>
-<div class="line"><a id="l01033" name="l01033"></a><span class="lineno"> 1033</span>        petiole_rotation_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(petiole_rotation_axis, nullorigin, internode_axis, internode_phyllotactic_angle );</div>
-<div class="line"><a id="l01034" name="l01034"></a><span class="lineno"> 1034</span>    }</div>
-<div class="line"><a id="l01035" name="l01035"></a><span class="lineno"> 1035</span> </div>
-<div class="line"><a id="l01036" name="l01036"></a><span class="lineno"> 1036</span>    <span class="comment">//petiole curvature</span></div>
-<div class="line"><a id="l01037" name="l01037"></a><span class="lineno"> 1037</span>    petiole_curvature = phytomer_parameters.petiole.curvature.val();</div>
-<div class="line"><a id="l01038" name="l01038"></a><span class="lineno"> 1038</span>    phytomer_parameters.petiole.curvature.resample();</div>
-<div class="line"><a id="l01039" name="l01039"></a><span class="lineno"> 1039</span> </div>
-<div class="line"><a id="l01040" name="l01040"></a><span class="lineno"> 1040</span>    <span class="keywordflow">for</span>(<span class="keywordtype">int</span> petiole=0; petiole &lt; phytomer_parameters.petiole.petioles_per_internode; petiole++ ) { <span class="comment">//looping over petioles</span></div>
-<div class="line"><a id="l01041" name="l01041"></a><span class="lineno"> 1041</span> </div>
-<div class="line"><a id="l01042" name="l01042"></a><span class="lineno"> 1042</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> petiole_rotation_axis_actual = petiole_rotation_axis;</div>
-<div class="line"><a id="l01043" name="l01043"></a><span class="lineno"> 1043</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> petiole_axis_actual = petiole_axis;</div>
-<div class="line"><a id="l01044" name="l01044"></a><span class="lineno"> 1044</span> </div>
-<div class="line"><a id="l01045" name="l01045"></a><span class="lineno"> 1045</span>        <span class="keywordflow">if</span>( petiole &gt; 0 ) {</div>
-<div class="line"><a id="l01046" name="l01046"></a><span class="lineno"> 1046</span>            <span class="keywordtype">float</span> budrot = float(petiole) * 2.f * M_PI / float(phytomer_parameters.petiole.petioles_per_internode);</div>
-<div class="line"><a id="l01047" name="l01047"></a><span class="lineno"> 1047</span>            petiole_axis_actual = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(petiole_axis_actual, nullorigin, internode_axis, budrot );</div>
-<div class="line"><a id="l01048" name="l01048"></a><span class="lineno"> 1048</span>            petiole_rotation_axis_actual = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(petiole_rotation_axis_actual, nullorigin, internode_axis, budrot );</div>
-<div class="line"><a id="l01049" name="l01049"></a><span class="lineno"> 1049</span>        }</div>
-<div class="line"><a id="l01050" name="l01050"></a><span class="lineno"> 1050</span> </div>
-<div class="line"><a id="l01051" name="l01051"></a><span class="lineno"> 1051</span>        petiole_vertices.at(petiole).at(0) = phytomer_internode_vertices.back();</div>
-<div class="line"><a id="l01052" name="l01052"></a><span class="lineno"> 1052</span> </div>
-<div class="line"><a id="l01053" name="l01053"></a><span class="lineno"> 1053</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> j = 1; j &lt;= Ndiv_petiole_length; j++) {</div>
-<div class="line"><a id="l01054" name="l01054"></a><span class="lineno"> 1054</span> </div>
-<div class="line"><a id="l01055" name="l01055"></a><span class="lineno"> 1055</span>            <span class="keywordflow">if</span>( fabs(petiole_curvature)&gt;0 ) {</div>
-<div class="line"><a id="l01056" name="l01056"></a><span class="lineno"> 1056</span>                petiole_axis_actual = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(petiole_axis_actual, nullorigin, petiole_rotation_axis_actual, -<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(petiole_curvature * dr_petiole_max.at(petiole)));</div>
-<div class="line"><a id="l01057" name="l01057"></a><span class="lineno"> 1057</span>            }</div>
-<div class="line"><a id="l01058" name="l01058"></a><span class="lineno"> 1058</span> </div>
-<div class="line"><a id="l01059" name="l01059"></a><span class="lineno"> 1059</span>            petiole_vertices.at(petiole).at(j) = petiole_vertices.at(petiole).at(j - 1) + dr_petiole.at(petiole) * petiole_axis_actual;</div>
-<div class="line"><a id="l01060" name="l01060"></a><span class="lineno"> 1060</span> </div>
-<div class="line"><a id="l01061" name="l01061"></a><span class="lineno"> 1061</span>            petiole_radii.at(petiole).at(j) = leaf_scale_factor_fraction * phytomer_parameters.petiole.radius.val() * (1.f - phytomer_parameters.petiole.taper.val() / <span class="keywordtype">float</span>(Ndiv_petiole_length) * <span class="keywordtype">float</span>(j) );</div>
-<div class="line"><a id="l01062" name="l01062"></a><span class="lineno"> 1062</span>            petiole_colors.at(j) = phytomer_parameters.petiole.color;</div>
-<div class="line"><a id="l01063" name="l01063"></a><span class="lineno"> 1063</span> </div>
-<div class="line"><a id="l01064" name="l01064"></a><span class="lineno"> 1064</span>        }</div>
-<div class="line"><a id="l01065" name="l01065"></a><span class="lineno"> 1065</span> </div>
-<div class="line"><a id="l01066" name="l01066"></a><span class="lineno"> 1066</span>        <span class="keywordflow">if</span>( build_context_geometry_petiole &amp;&amp; petiole_radii.at(petiole).front() &gt; 0.f ) {</div>
-<div class="line"><a id="l01067" name="l01067"></a><span class="lineno"> 1067</span>            petiole_objIDs.at(petiole) = <a class="code hl_function" href="_plant_architecture_8h.html#a90314e1f16ad76c838da858b9bf0ae86">makeTubeFromCones</a>(Ndiv_petiole_radius, petiole_vertices.at(petiole), petiole_radii.at(petiole), petiole_colors, context_ptr);</div>
-<div class="line"><a id="l01068" name="l01068"></a><span class="lineno"> 1068</span>        }</div>
-<div class="line"><a id="l01069" name="l01069"></a><span class="lineno"> 1069</span> </div>
-<div class="line"><a id="l01070" name="l01070"></a><span class="lineno"> 1070</span>        <span class="comment">//--- create buds ---//</span></div>
-<div class="line"><a id="l01071" name="l01071"></a><span class="lineno"> 1071</span> </div>
-<div class="line"><a id="l01072" name="l01072"></a><span class="lineno"> 1072</span>        std::vector&lt;VegetativeBud&gt; vegetative_buds_new;</div>
-<div class="line"><a id="l01073" name="l01073"></a><span class="lineno"> 1073</span>        vegetative_buds_new.resize( phytomer_parameters.internode.max_vegetative_buds_per_petiole.val() );</div>
-<div class="line"><a id="l01074" name="l01074"></a><span class="lineno"> 1074</span>        phytomer_parameters.internode.max_vegetative_buds_per_petiole.resample();</div>
-<div class="line"><a id="l01075" name="l01075"></a><span class="lineno"> 1075</span> </div>
-<div class="line"><a id="l01076" name="l01076"></a><span class="lineno"> 1076</span>        axillary_vegetative_buds.push_back(vegetative_buds_new);</div>
-<div class="line"><a id="l01077" name="l01077"></a><span class="lineno"> 1077</span> </div>
-<div class="line"><a id="l01078" name="l01078"></a><span class="lineno"> 1078</span>        std::vector&lt;FloralBud&gt; floral_buds_new;</div>
-<div class="line"><a id="l01079" name="l01079"></a><span class="lineno"> 1079</span>        floral_buds_new.resize( phytomer_parameters.internode.max_floral_buds_per_petiole.val() );</div>
-<div class="line"><a id="l01080" name="l01080"></a><span class="lineno"> 1080</span>        phytomer_parameters.internode.max_floral_buds_per_petiole.resample();</div>
-<div class="line"><a id="l01081" name="l01081"></a><span class="lineno"> 1081</span> </div>
-<div class="line"><a id="l01082" name="l01082"></a><span class="lineno"> 1082</span>        uint index = 0;</div>
-<div class="line"><a id="l01083" name="l01083"></a><span class="lineno"> 1083</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;fbud : floral_buds_new ){</div>
-<div class="line"><a id="l01084" name="l01084"></a><span class="lineno"> 1084</span>            fbud.bud_index = index;</div>
-<div class="line"><a id="l01085" name="l01085"></a><span class="lineno"> 1085</span>            fbud.parent_index = petiole;</div>
-<div class="line"><a id="l01086" name="l01086"></a><span class="lineno"> 1086</span>            <span class="keywordtype">float</span> pitch_adjustment = fbud.bud_index * 0.1f * M_PI / float(axillary_vegetative_buds.size());</div>
-<div class="line"><a id="l01087" name="l01087"></a><span class="lineno"> 1087</span>            <span class="keywordtype">float</span> yaw_adjustment = -0.25f * M_PI + fbud.bud_index * 0.5f * M_PI / float(axillary_vegetative_buds.size());</div>
-<div class="line"><a id="l01088" name="l01088"></a><span class="lineno"> 1088</span>            fbud.base_rotation = make_AxisRotation(pitch_adjustment, yaw_adjustment, 0);</div>
-<div class="line"><a id="l01089" name="l01089"></a><span class="lineno"> 1089</span>            fbud.base_position = phytomer_internode_vertices.back();</div>
-<div class="line"><a id="l01090" name="l01090"></a><span class="lineno"> 1090</span>            fbud.bending_axis = shoot_bending_axis;</div>
-<div class="line"><a id="l01091" name="l01091"></a><span class="lineno"> 1091</span>            index++;</div>
-<div class="line"><a id="l01092" name="l01092"></a><span class="lineno"> 1092</span>        }</div>
-<div class="line"><a id="l01093" name="l01093"></a><span class="lineno"> 1093</span> </div>
-<div class="line"><a id="l01094" name="l01094"></a><span class="lineno"> 1094</span>        floral_buds.push_back(floral_buds_new);</div>
-<div class="line"><a id="l01095" name="l01095"></a><span class="lineno"> 1095</span> </div>
-<div class="line"><a id="l01096" name="l01096"></a><span class="lineno"> 1096</span>        <span class="comment">//--- create leaves ---//</span></div>
-<div class="line"><a id="l01097" name="l01097"></a><span class="lineno"> 1097</span> </div>
-<div class="line"><a id="l01098" name="l01098"></a><span class="lineno"> 1098</span>        <span class="keywordflow">if</span>(phytomer_parameters.leaf.prototype_function == <span class="keyword">nullptr</span> ){</div>
-<div class="line"><a id="l01099" name="l01099"></a><span class="lineno"> 1099</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::Phytomer): Leaf prototype function was not defined for shoot type &quot;</span> + parent_shoot-&gt;shoot_type_label + <span class="stringliteral">&quot;.&quot;</span>);</div>
-<div class="line"><a id="l01100" name="l01100"></a><span class="lineno"> 1100</span>        }</div>
-<div class="line"><a id="l01101" name="l01101"></a><span class="lineno"> 1101</span> </div>
-<div class="line"><a id="l01102" name="l01102"></a><span class="lineno"> 1102</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> petiole_tip_axis = getPetioleAxisVector(1.f, petiole);</div>
-<div class="line"><a id="l01103" name="l01103"></a><span class="lineno"> 1103</span> </div>
-<div class="line"><a id="l01104" name="l01104"></a><span class="lineno"> 1104</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> leaf_rotation_axis = <a class="code hl_function" href="helios__vector__types_8h.html#aa4e7459e7404915c12903a5c08588f5b">cross</a>(internode_axis, petiole_tip_axis );</div>
-<div class="line"><a id="l01105" name="l01105"></a><span class="lineno"> 1105</span> </div>
-<div class="line"><a id="l01106" name="l01106"></a><span class="lineno"> 1106</span>        <span class="comment">// Create unique leaf prototypes for each shoot type so we can simply copy them for each leaf</span></div>
-<div class="line"><a id="l01107" name="l01107"></a><span class="lineno"> 1107</span>        <span class="keywordflow">if</span>( phytomer_parameters.leaf.unique_prototypes&gt;0 &amp;&amp; plantarchitecture_ptr-&gt;unique_leaf_prototype_objIDs.find(parent_shoot-&gt;shoot_type_label) == plantarchitecture_ptr-&gt;unique_leaf_prototype_objIDs.end() ) {</div>
-<div class="line"><a id="l01108" name="l01108"></a><span class="lineno"> 1108</span>            plantarchitecture_ptr-&gt;unique_leaf_prototype_objIDs[parent_shoot-&gt;shoot_type_label].resize(phytomer_parameters.leaf.unique_prototypes);</div>
-<div class="line"><a id="l01109" name="l01109"></a><span class="lineno"> 1109</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> prototype = 0; prototype &lt; phytomer_parameters.leaf.unique_prototypes; prototype++ ) {</div>
-<div class="line"><a id="l01110" name="l01110"></a><span class="lineno"> 1110</span>                <span class="keywordflow">for</span> (<span class="keywordtype">int</span> leaf = 0; leaf &lt; leaves_per_petiole; leaf++) {</div>
-<div class="line"><a id="l01111" name="l01111"></a><span class="lineno"> 1111</span>                    <span class="keywordtype">float</span> ind_from_tip = float(leaf) - float(leaves_per_petiole - 1) / 2.f;</div>
-<div class="line"><a id="l01112" name="l01112"></a><span class="lineno"> 1112</span>                    uint objID_leaf = phytomer_parameters.leaf.prototype_function(context_ptr, phytomer_parameters.leaf.subdivisions, ind_from_tip);</div>
-<div class="line"><a id="l01113" name="l01113"></a><span class="lineno"> 1113</span>                    plantarchitecture_ptr-&gt;unique_leaf_prototype_objIDs.at(parent_shoot-&gt;shoot_type_label).at(prototype).push_back(objID_leaf);</div>
-<div class="line"><a id="l01114" name="l01114"></a><span class="lineno"> 1114</span>                    std::vector&lt;uint&gt; petiolule_UUIDs = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a416b75bbf3ddf4ca0184df35651f41b7">filterPrimitivesByData</a>( context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a7d0b3a6ca36b02702b06208a735a3b03">getObjectPrimitiveUUIDs</a>(objID_leaf), <span class="stringliteral">&quot;object_label&quot;</span>, <span class="stringliteral">&quot;petiolule&quot;</span> );</div>
-<div class="line"><a id="l01115" name="l01115"></a><span class="lineno"> 1115</span>                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a029f95ee0056f027866f8bad2fe9e48e">setPrimitiveColor</a>( petiolule_UUIDs, phytomer_parameters.petiole.color );</div>
-<div class="line"><a id="l01116" name="l01116"></a><span class="lineno"> 1116</span>                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a983606fef144a460d4b987032a8ad005">hideObject</a>({objID_leaf});</div>
-<div class="line"><a id="l01117" name="l01117"></a><span class="lineno"> 1117</span>                }</div>
-<div class="line"><a id="l01118" name="l01118"></a><span class="lineno"> 1118</span>            }</div>
-<div class="line"><a id="l01119" name="l01119"></a><span class="lineno"> 1119</span>        }</div>
-<div class="line"><a id="l01120" name="l01120"></a><span class="lineno"> 1120</span> </div>
-<div class="line"><a id="l01121" name="l01121"></a><span class="lineno"> 1121</span>        <span class="keywordflow">for</span>(<span class="keywordtype">int</span> leaf=0; leaf &lt; leaves_per_petiole; leaf++ ){</div>
-<div class="line"><a id="l01122" name="l01122"></a><span class="lineno"> 1122</span> </div>
-<div class="line"><a id="l01123" name="l01123"></a><span class="lineno"> 1123</span>            <span class="keywordtype">float</span> ind_from_tip = float(leaf)-float(leaves_per_petiole-1)/2.f;</div>
-<div class="line"><a id="l01124" name="l01124"></a><span class="lineno"> 1124</span> </div>
-<div class="line"><a id="l01125" name="l01125"></a><span class="lineno"> 1125</span>            uint objID_leaf;</div>
-<div class="line"><a id="l01126" name="l01126"></a><span class="lineno"> 1126</span>            <span class="keywordflow">if</span>( phytomer_parameters.leaf.unique_prototypes&gt;0 ) { <span class="comment">//copy the existing prototype</span></div>
-<div class="line"><a id="l01127" name="l01127"></a><span class="lineno"> 1127</span>                <span class="keywordtype">int</span> prototype = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0, phytomer_parameters.leaf.unique_prototypes - 1);</div>
-<div class="line"><a id="l01128" name="l01128"></a><span class="lineno"> 1128</span>                objID_leaf = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a14f83860167c061e537f29f7754c12c3">copyObject</a>(plantarchitecture_ptr-&gt;unique_leaf_prototype_objIDs.at(parent_shoot-&gt;shoot_type_label).at(prototype).at(leaf));</div>
-<div class="line"><a id="l01129" name="l01129"></a><span class="lineno"> 1129</span>            }<span class="keywordflow">else</span>{ <span class="comment">//load a new prototype</span></div>
-<div class="line"><a id="l01130" name="l01130"></a><span class="lineno"> 1130</span>                objID_leaf = phytomer_parameters.leaf.prototype_function(context_ptr, phytomer_parameters.leaf.subdivisions, ind_from_tip);</div>
-<div class="line"><a id="l01131" name="l01131"></a><span class="lineno"> 1131</span>            }</div>
-<div class="line"><a id="l01132" name="l01132"></a><span class="lineno"> 1132</span> </div>
-<div class="line"><a id="l01133" name="l01133"></a><span class="lineno"> 1133</span>            <span class="comment">// -- leaf scaling -- //</span></div>
-<div class="line"><a id="l01134" name="l01134"></a><span class="lineno"> 1134</span> </div>
-<div class="line"><a id="l01135" name="l01135"></a><span class="lineno"> 1135</span>            <span class="keywordflow">if</span>( leaves_per_petiole&gt;0 &amp;&amp; phytomer_parameters.leaf.leaflet_scale.val()!=1.f &amp;&amp; ind_from_tip!=0 ){</div>
-<div class="line"><a id="l01136" name="l01136"></a><span class="lineno"> 1136</span>                leaf_size_max.at(petiole).at(leaf) = powf(phytomer_parameters.leaf.leaflet_scale.val(),fabs(ind_from_tip))*phytomer_parameters.leaf.prototype_scale.val();</div>
-<div class="line"><a id="l01137" name="l01137"></a><span class="lineno"> 1137</span>            }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l01138" name="l01138"></a><span class="lineno"> 1138</span>                leaf_size_max.at(petiole).at(leaf) = phytomer_parameters.leaf.prototype_scale.val();</div>
-<div class="line"><a id="l01139" name="l01139"></a><span class="lineno"> 1139</span>            }</div>
-<div class="line"><a id="l01140" name="l01140"></a><span class="lineno"> 1140</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> leaf_scale = leaf_scale_factor_fraction * leaf_size_max.at(petiole).at(leaf) * <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1,1,1);</div>
-<div class="line"><a id="l01141" name="l01141"></a><span class="lineno"> 1141</span> </div>
-<div class="line"><a id="l01142" name="l01142"></a><span class="lineno"> 1142</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#afe9817e155de4a39bc82b000c5d0e888">scaleObject</a>( objID_leaf, leaf_scale );</div>
-<div class="line"><a id="l01143" name="l01143"></a><span class="lineno"> 1143</span> </div>
-<div class="line"><a id="l01144" name="l01144"></a><span class="lineno"> 1144</span>            <span class="keywordtype">float</span> compound_rotation = 0;</div>
-<div class="line"><a id="l01145" name="l01145"></a><span class="lineno"> 1145</span>            <span class="keywordflow">if</span>( leaves_per_petiole&gt;1 ) {</div>
-<div class="line"><a id="l01146" name="l01146"></a><span class="lineno"> 1146</span>                <span class="keywordflow">if</span> (phytomer_parameters.leaf.leaflet_offset.val() == 0) {</div>
-<div class="line"><a id="l01147" name="l01147"></a><span class="lineno"> 1147</span>                    <span class="keywordtype">float</span> dphi = M_PI / (floor(0.5 * <span class="keywordtype">float</span>(leaves_per_petiole - 1)) + 1);</div>
-<div class="line"><a id="l01148" name="l01148"></a><span class="lineno"> 1148</span>                    compound_rotation = -float(M_PI) + dphi * (leaf + 0.5f);</div>
-<div class="line"><a id="l01149" name="l01149"></a><span class="lineno"> 1149</span>                } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l01150" name="l01150"></a><span class="lineno"> 1150</span>                    <span class="keywordflow">if</span>( leaf == <span class="keywordtype">float</span>(leaves_per_petiole-1)/2.f ){ <span class="comment">//tip leaf</span></div>
-<div class="line"><a id="l01151" name="l01151"></a><span class="lineno"> 1151</span>                        compound_rotation = 0;</div>
-<div class="line"><a id="l01152" name="l01152"></a><span class="lineno"> 1152</span>                    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( leaf &lt; <span class="keywordtype">float</span>(leaves_per_petiole-1)/2.f ) {</div>
-<div class="line"><a id="l01153" name="l01153"></a><span class="lineno"> 1153</span>                        compound_rotation = -0.5*M_PI;</div>
-<div class="line"><a id="l01154" name="l01154"></a><span class="lineno"> 1154</span>                    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l01155" name="l01155"></a><span class="lineno"> 1155</span>                        compound_rotation = 0.5*M_PI;</div>
-<div class="line"><a id="l01156" name="l01156"></a><span class="lineno"> 1156</span>                    }</div>
-<div class="line"><a id="l01157" name="l01157"></a><span class="lineno"> 1157</span>                }</div>
-<div class="line"><a id="l01158" name="l01158"></a><span class="lineno"> 1158</span>            }</div>
-<div class="line"><a id="l01159" name="l01159"></a><span class="lineno"> 1159</span> </div>
-<div class="line"><a id="l01160" name="l01160"></a><span class="lineno"> 1160</span>            <span class="comment">// -- leaf rotations -- //</span></div>
-<div class="line"><a id="l01161" name="l01161"></a><span class="lineno"> 1161</span> </div>
-<div class="line"><a id="l01162" name="l01162"></a><span class="lineno"> 1162</span>            <span class="comment">//leaf roll rotation</span></div>
-<div class="line"><a id="l01163" name="l01163"></a><span class="lineno"> 1163</span>            <span class="keywordtype">float</span> roll_rot = 0;</div>
-<div class="line"><a id="l01164" name="l01164"></a><span class="lineno"> 1164</span>            <span class="keywordflow">if</span>( leaves_per_petiole==1 ){</div>
-<div class="line"><a id="l01165" name="l01165"></a><span class="lineno"> 1165</span>                <span class="keywordtype">int</span> sign = (shoot_index.x%2==0) ? 1 : -1;</div>
-<div class="line"><a id="l01166" name="l01166"></a><span class="lineno"> 1166</span>                roll_rot = (<a class="code hl_function" href="group__functions.html#ga9f732ec5c2153020247c879034f81432">acos_safe</a>(internode_axis.z)-<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.leaf.roll.val()))*sign;</div>
-<div class="line"><a id="l01167" name="l01167"></a><span class="lineno"> 1167</span>            } <span class="keywordflow">else</span> <span class="keywordflow">if</span>( ind_from_tip!= 0){</div>
-<div class="line"><a id="l01168" name="l01168"></a><span class="lineno"> 1168</span>                roll_rot = (<a class="code hl_function" href="group__functions.html#gac400d6d37ff2494ec592a9f0a17ee9ab">asin_safe</a>(petiole_tip_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>)+<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.leaf.roll.val()))*compound_rotation/std::fabs(compound_rotation);</div>
-<div class="line"><a id="l01169" name="l01169"></a><span class="lineno"> 1169</span>            }</div>
-<div class="line"><a id="l01170" name="l01170"></a><span class="lineno"> 1170</span>            leaf_rotation.at(petiole).at(leaf).roll = <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.leaf.roll.val());</div>
-<div class="line"><a id="l01171" name="l01171"></a><span class="lineno"> 1171</span>            phytomer_parameters.leaf.roll.resample();</div>
-<div class="line"><a id="l01172" name="l01172"></a><span class="lineno"> 1172</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(objID_leaf, roll_rot, <span class="stringliteral">&quot;x&quot;</span> );</div>
-<div class="line"><a id="l01173" name="l01173"></a><span class="lineno"> 1173</span> </div>
-<div class="line"><a id="l01174" name="l01174"></a><span class="lineno"> 1174</span>            <span class="comment">//leaf pitch rotation</span></div>
-<div class="line"><a id="l01175" name="l01175"></a><span class="lineno"> 1175</span>            leaf_rotation.at(petiole).at(leaf).pitch = <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.leaf.pitch.val());</div>
-<div class="line"><a id="l01176" name="l01176"></a><span class="lineno"> 1176</span>            <span class="keywordtype">float</span> pitch_rot = leaf_rotation.at(petiole).at(leaf).pitch;</div>
-<div class="line"><a id="l01177" name="l01177"></a><span class="lineno"> 1177</span>            phytomer_parameters.leaf.pitch.resample();</div>
-<div class="line"><a id="l01178" name="l01178"></a><span class="lineno"> 1178</span>            <span class="keywordflow">if</span>( ind_from_tip==0 ){</div>
-<div class="line"><a id="l01179" name="l01179"></a><span class="lineno"> 1179</span>                pitch_rot += <a class="code hl_function" href="group__functions.html#gac400d6d37ff2494ec592a9f0a17ee9ab">asin_safe</a>(petiole_tip_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>);</div>
-<div class="line"><a id="l01180" name="l01180"></a><span class="lineno"> 1180</span>            }</div>
-<div class="line"><a id="l01181" name="l01181"></a><span class="lineno"> 1181</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(objID_leaf, -pitch_rot , <span class="stringliteral">&quot;y&quot;</span> );</div>
-<div class="line"><a id="l01182" name="l01182"></a><span class="lineno"> 1182</span> </div>
-<div class="line"><a id="l01183" name="l01183"></a><span class="lineno"> 1183</span>            <span class="comment">//leaf yaw rotation</span></div>
-<div class="line"><a id="l01184" name="l01184"></a><span class="lineno"> 1184</span>            <span class="keywordflow">if</span>( ind_from_tip!=0 ){</div>
-<div class="line"><a id="l01185" name="l01185"></a><span class="lineno"> 1185</span>                <span class="keywordtype">float</span> sign = -compound_rotation/fabs(compound_rotation);</div>
-<div class="line"><a id="l01186" name="l01186"></a><span class="lineno"> 1186</span>                leaf_rotation.at(petiole).at(leaf).yaw = sign*<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.leaf.yaw.val());</div>
-<div class="line"><a id="l01187" name="l01187"></a><span class="lineno"> 1187</span>                <span class="keywordtype">float</span> yaw_rot = leaf_rotation.at(petiole).at(leaf).yaw;</div>
-<div class="line"><a id="l01188" name="l01188"></a><span class="lineno"> 1188</span>                phytomer_parameters.leaf.yaw.resample();</div>
-<div class="line"><a id="l01189" name="l01189"></a><span class="lineno"> 1189</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>( objID_leaf, yaw_rot, <span class="stringliteral">&quot;z&quot;</span> );</div>
-<div class="line"><a id="l01190" name="l01190"></a><span class="lineno"> 1190</span>            }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l01191" name="l01191"></a><span class="lineno"> 1191</span>                leaf_rotation.at(petiole).at(leaf).yaw = 0;</div>
-<div class="line"><a id="l01192" name="l01192"></a><span class="lineno"> 1192</span>            }</div>
-<div class="line"><a id="l01193" name="l01193"></a><span class="lineno"> 1193</span> </div>
-<div class="line"><a id="l01194" name="l01194"></a><span class="lineno"> 1194</span>            <span class="comment">//rotate leaf to azimuth of petiole</span></div>
-<div class="line"><a id="l01195" name="l01195"></a><span class="lineno"> 1195</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>( objID_leaf, -std::atan2(petiole_tip_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, petiole_tip_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>)+compound_rotation, <span class="stringliteral">&quot;z&quot;</span> );</div>
-<div class="line"><a id="l01196" name="l01196"></a><span class="lineno"> 1196</span> </div>
+<div class="line"><a id="l00951" name="l00951"></a><span class="lineno">  951</span>    <span class="keywordflow">for</span>(<span class="keywordtype">int</span> inode_segment=1; inode_segment &lt;= Ndiv_internode_length; inode_segment++ ){</div>
+<div class="line"><a id="l00952" name="l00952"></a><span class="lineno">  952</span> </div>
+<div class="line"><a id="l00953" name="l00953"></a><span class="lineno">  953</span>        <span class="comment">//apply curvature and tortuosity</span></div>
+<div class="line"><a id="l00954" name="l00954"></a><span class="lineno">  954</span>        <span class="keywordflow">if</span>( (fabs(parent_shoot-&gt;gravitropic_curvature) &gt; 0 || parent_shoot_parameters.tortuosity.val() &gt; 0 ) &amp;&amp; shoot_index.x &gt; 0 ) { <span class="comment">//note: curvature is not applied to the first phytomer because if scaling is performed in the phytomer creation function it messes things up</span></div>
+<div class="line"><a id="l00955" name="l00955"></a><span class="lineno">  955</span> </div>
+<div class="line"><a id="l00956" name="l00956"></a><span class="lineno">  956</span>            <span class="keywordtype">float</span> current_curvature_fact = 0.5f-internode_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>/2.f;</div>
+<div class="line"><a id="l00957" name="l00957"></a><span class="lineno">  957</span>            <span class="keywordflow">if</span>( internode_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>&lt;0 ){</div>
+<div class="line"><a id="l00958" name="l00958"></a><span class="lineno">  958</span>                current_curvature_fact *= 2.f;</div>
+<div class="line"><a id="l00959" name="l00959"></a><span class="lineno">  959</span>            }</div>
+<div class="line"><a id="l00960" name="l00960"></a><span class="lineno">  960</span> </div>
+<div class="line"><a id="l00961" name="l00961"></a><span class="lineno">  961</span>            <span class="keywordtype">float</span> dt =  dr_internode_max / float(Ndiv_internode_length);</div>
+<div class="line"><a id="l00962" name="l00962"></a><span class="lineno">  962</span> </div>
+<div class="line"><a id="l00963" name="l00963"></a><span class="lineno">  963</span>            parent_shoot-&gt;curvature_perturbation += - 0.5f*parent_shoot-&gt;curvature_perturbation*dt + parent_shoot_parameters.tortuosity.val()*context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a1792e2ad0a31efec76fecd1554e0aa07">randn</a>()*sqrt(dt);</div>
+<div class="line"><a id="l00964" name="l00964"></a><span class="lineno">  964</span>            <span class="keywordtype">float</span> curvature_angle = <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>((parent_shoot-&gt;gravitropic_curvature*current_curvature_fact * dr_internode_max + parent_shoot-&gt;curvature_perturbation));</div>
+<div class="line"><a id="l00965" name="l00965"></a><span class="lineno">  965</span>            internode_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(internode_axis, nullorigin, shoot_bending_axis, curvature_angle);</div>
+<div class="line"><a id="l00966" name="l00966"></a><span class="lineno">  966</span> </div>
+<div class="line"><a id="l00967" name="l00967"></a><span class="lineno">  967</span>            parent_shoot-&gt;yaw_perturbation += - 0.5f*parent_shoot-&gt;yaw_perturbation*dt + parent_shoot_parameters.tortuosity.val()*context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a1792e2ad0a31efec76fecd1554e0aa07">randn</a>()*sqrt(dt);</div>
+<div class="line"><a id="l00968" name="l00968"></a><span class="lineno">  968</span>            <span class="keywordtype">float</span> yaw_angle = <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>((parent_shoot-&gt;yaw_perturbation));</div>
+<div class="line"><a id="l00969" name="l00969"></a><span class="lineno">  969</span>            internode_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(internode_axis, nullorigin, <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,1), yaw_angle);</div>
+<div class="line"><a id="l00970" name="l00970"></a><span class="lineno">  970</span>        }</div>
+<div class="line"><a id="l00971" name="l00971"></a><span class="lineno">  971</span> </div>
+<div class="line"><a id="l00972" name="l00972"></a><span class="lineno">  972</span>        phytomer_internode_vertices.at(inode_segment) = phytomer_internode_vertices.at(inode_segment - 1) + dr_internode * internode_axis;</div>
+<div class="line"><a id="l00973" name="l00973"></a><span class="lineno">  973</span> </div>
+<div class="line"><a id="l00974" name="l00974"></a><span class="lineno">  974</span>        phytomer_internode_radii.at(inode_segment) = internode_radius;</div>
+<div class="line"><a id="l00975" name="l00975"></a><span class="lineno">  975</span>        internode_colors.at(inode_segment) = phytomer_parameters.internode.color;</div>
+<div class="line"><a id="l00976" name="l00976"></a><span class="lineno">  976</span> </div>
+<div class="line"><a id="l00977" name="l00977"></a><span class="lineno">  977</span>    }</div>
+<div class="line"><a id="l00978" name="l00978"></a><span class="lineno">  978</span> </div>
+<div class="line"><a id="l00979" name="l00979"></a><span class="lineno">  979</span>    <span class="keywordflow">if</span>( shoot_index.x==0 ) { <span class="comment">//first phytomer on shoot</span></div>
+<div class="line"><a id="l00980" name="l00980"></a><span class="lineno">  980</span>        parent_shoot_ptr-&gt;shoot_internode_vertices.push_back(phytomer_internode_vertices);</div>
+<div class="line"><a id="l00981" name="l00981"></a><span class="lineno">  981</span>        parent_shoot_ptr-&gt;shoot_internode_radii.push_back(phytomer_internode_radii);</div>
+<div class="line"><a id="l00982" name="l00982"></a><span class="lineno">  982</span>    }<span class="keywordflow">else</span>{ <span class="comment">//if not the first phytomer on shoot, don&#39;t insert the first node because it&#39;s already defined on the previous phytomer</span></div>
+<div class="line"><a id="l00983" name="l00983"></a><span class="lineno">  983</span>        parent_shoot_ptr-&gt;shoot_internode_vertices.emplace_back(phytomer_internode_vertices.begin()+1,phytomer_internode_vertices.end());</div>
+<div class="line"><a id="l00984" name="l00984"></a><span class="lineno">  984</span>        parent_shoot_ptr-&gt;shoot_internode_radii.emplace_back(phytomer_internode_radii.begin()+1,phytomer_internode_radii.end());</div>
+<div class="line"><a id="l00985" name="l00985"></a><span class="lineno">  985</span>    }</div>
+<div class="line"><a id="l00986" name="l00986"></a><span class="lineno">  986</span> </div>
+<div class="line"><a id="l00987" name="l00987"></a><span class="lineno">  987</span>    <span class="comment">//build internode context geometry</span></div>
+<div class="line"><a id="l00988" name="l00988"></a><span class="lineno">  988</span>    <span class="keywordflow">if</span>( build_context_geometry_internode ) {</div>
+<div class="line"><a id="l00989" name="l00989"></a><span class="lineno">  989</span> </div>
+<div class="line"><a id="l00990" name="l00990"></a><span class="lineno">  990</span>        <span class="comment">//calculate texture coordinates</span></div>
+<div class="line"><a id="l00991" name="l00991"></a><span class="lineno">  991</span>        <span class="keywordtype">float</span> texture_repeat_length = 0.25f; <span class="comment">//meters</span></div>
+<div class="line"><a id="l00992" name="l00992"></a><span class="lineno">  992</span>        <span class="keywordtype">float</span> length=0; <span class="comment">//shoot length prior to this phytomer</span></div>
+<div class="line"><a id="l00993" name="l00993"></a><span class="lineno">  993</span>        <span class="keywordflow">for</span>(<span class="keyword">auto</span> &amp; phytomer : parent_shoot_ptr-&gt;phytomers){</div>
+<div class="line"><a id="l00994" name="l00994"></a><span class="lineno">  994</span>            length += phytomer-&gt;internode_length_max;</div>
+<div class="line"><a id="l00995" name="l00995"></a><span class="lineno">  995</span>        }</div>
+<div class="line"><a id="l00996" name="l00996"></a><span class="lineno">  996</span>        std::vector&lt;float&gt; uv_y(phytomer_internode_vertices.size());</div>
+<div class="line"><a id="l00997" name="l00997"></a><span class="lineno">  997</span>        <span class="keywordtype">float</span> dy = internode_length_max/float(uv_y.size()-1);</div>
+<div class="line"><a id="l00998" name="l00998"></a><span class="lineno">  998</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;uv_y.size(); j++ ){</div>
+<div class="line"><a id="l00999" name="l00999"></a><span class="lineno">  999</span>            uv_y.at(j) = (length+j*dy)/texture_repeat_length - std::floor((length+j*dy)/texture_repeat_length);</div>
+<div class="line"><a id="l01000" name="l01000"></a><span class="lineno"> 1000</span>        }</div>
+<div class="line"><a id="l01001" name="l01001"></a><span class="lineno"> 1001</span> </div>
+<div class="line"><a id="l01002" name="l01002"></a><span class="lineno"> 1002</span>        <span class="keywordflow">if</span>( !context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">doesObjectExist</a>(parent_shoot-&gt;internode_tube_objID) ){ <span class="comment">//first internode on shoot</span></div>
+<div class="line"><a id="l01003" name="l01003"></a><span class="lineno"> 1003</span>            <span class="keywordflow">if</span>( !phytomer_parameters.internode.image_texture.empty() ){</div>
+<div class="line"><a id="l01004" name="l01004"></a><span class="lineno"> 1004</span>                parent_shoot-&gt;internode_tube_objID = context_ptr-&gt;<a class="code hl_function" href="group__compoundobjects.html#ga51f79fece15fee384255237359563a18">addTubeObject</a>(Ndiv_internode_radius, phytomer_internode_vertices, phytomer_internode_radii, phytomer_parameters.internode.image_texture.c_str(), uv_y);</div>
+<div class="line"><a id="l01005" name="l01005"></a><span class="lineno"> 1005</span>            }<span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l01006" name="l01006"></a><span class="lineno"> 1006</span>                parent_shoot-&gt;internode_tube_objID = context_ptr-&gt;<a class="code hl_function" href="group__compoundobjects.html#ga51f79fece15fee384255237359563a18">addTubeObject</a>(Ndiv_internode_radius, phytomer_internode_vertices, phytomer_internode_radii, internode_colors);</div>
+<div class="line"><a id="l01007" name="l01007"></a><span class="lineno"> 1007</span>            }</div>
+<div class="line"><a id="l01008" name="l01008"></a><span class="lineno"> 1008</span>        }<span class="keywordflow">else</span>{ <span class="comment">//appending internode to shoot</span></div>
+<div class="line"><a id="l01009" name="l01009"></a><span class="lineno"> 1009</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> inode_segment = 1; inode_segment &lt;= Ndiv_internode_length; inode_segment++) {</div>
+<div class="line"><a id="l01010" name="l01010"></a><span class="lineno"> 1010</span>                <span class="keywordflow">if</span>( !phytomer_parameters.internode.image_texture.empty() ) {</div>
+<div class="line"><a id="l01011" name="l01011"></a><span class="lineno"> 1011</span>                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a646f6a5449870a191fe3d60db849b190">appendTubeSegment</a>(parent_shoot-&gt;internode_tube_objID, phytomer_internode_vertices.at(inode_segment), phytomer_internode_radii.at(inode_segment), phytomer_parameters.internode.image_texture.c_str(), {uv_y.at(inode_segment-1), uv_y.at(inode_segment)});</div>
+<div class="line"><a id="l01012" name="l01012"></a><span class="lineno"> 1012</span>                }<span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l01013" name="l01013"></a><span class="lineno"> 1013</span>                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a646f6a5449870a191fe3d60db849b190">appendTubeSegment</a>(parent_shoot-&gt;internode_tube_objID, phytomer_internode_vertices.at(inode_segment), phytomer_internode_radii.at(inode_segment), internode_colors.at(inode_segment));</div>
+<div class="line"><a id="l01014" name="l01014"></a><span class="lineno"> 1014</span>                }</div>
+<div class="line"><a id="l01015" name="l01015"></a><span class="lineno"> 1015</span>            }</div>
+<div class="line"><a id="l01016" name="l01016"></a><span class="lineno"> 1016</span>        }</div>
+<div class="line"><a id="l01017" name="l01017"></a><span class="lineno"> 1017</span>    }</div>
+<div class="line"><a id="l01018" name="l01018"></a><span class="lineno"> 1018</span> </div>
+<div class="line"><a id="l01019" name="l01019"></a><span class="lineno"> 1019</span>    <span class="comment">//--- create petiole ---//</span></div>
+<div class="line"><a id="l01020" name="l01020"></a><span class="lineno"> 1020</span> </div>
+<div class="line"><a id="l01021" name="l01021"></a><span class="lineno"> 1021</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> petiole_axis = internode_axis;</div>
+<div class="line"><a id="l01022" name="l01022"></a><span class="lineno"> 1022</span> </div>
+<div class="line"><a id="l01023" name="l01023"></a><span class="lineno"> 1023</span>    <span class="comment">//petiole pitch rotation</span></div>
+<div class="line"><a id="l01024" name="l01024"></a><span class="lineno"> 1024</span>    petiole_pitch = <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.petiole.pitch.val());</div>
+<div class="line"><a id="l01025" name="l01025"></a><span class="lineno"> 1025</span>    phytomer_parameters.petiole.pitch.resample();</div>
+<div class="line"><a id="l01026" name="l01026"></a><span class="lineno"> 1026</span>    <span class="keywordflow">if</span>( fabs(petiole_pitch)&lt;<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(5.f) ) {</div>
+<div class="line"><a id="l01027" name="l01027"></a><span class="lineno"> 1027</span>        petiole_pitch = <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(5.f);</div>
+<div class="line"><a id="l01028" name="l01028"></a><span class="lineno"> 1028</span>    }</div>
+<div class="line"><a id="l01029" name="l01029"></a><span class="lineno"> 1029</span>    petiole_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(petiole_axis, nullorigin, petiole_rotation_axis, std::abs(petiole_pitch) );</div>
+<div class="line"><a id="l01030" name="l01030"></a><span class="lineno"> 1030</span> </div>
+<div class="line"><a id="l01031" name="l01031"></a><span class="lineno"> 1031</span>    <span class="comment">//petiole yaw rotation</span></div>
+<div class="line"><a id="l01032" name="l01032"></a><span class="lineno"> 1032</span>    <span class="keywordflow">if</span>( phytomer_index!=0 &amp;&amp; internode_phyllotactic_angle!=0 ){ <span class="comment">//not first phytomer along shoot</span></div>
+<div class="line"><a id="l01033" name="l01033"></a><span class="lineno"> 1033</span>        petiole_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(petiole_axis, nullorigin, internode_axis, internode_phyllotactic_angle );</div>
+<div class="line"><a id="l01034" name="l01034"></a><span class="lineno"> 1034</span>        petiole_rotation_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(petiole_rotation_axis, nullorigin, internode_axis, internode_phyllotactic_angle );</div>
+<div class="line"><a id="l01035" name="l01035"></a><span class="lineno"> 1035</span>    }</div>
+<div class="line"><a id="l01036" name="l01036"></a><span class="lineno"> 1036</span> </div>
+<div class="line"><a id="l01037" name="l01037"></a><span class="lineno"> 1037</span>    <span class="comment">//petiole curvature</span></div>
+<div class="line"><a id="l01038" name="l01038"></a><span class="lineno"> 1038</span>    petiole_curvature = phytomer_parameters.petiole.curvature.val();</div>
+<div class="line"><a id="l01039" name="l01039"></a><span class="lineno"> 1039</span>    phytomer_parameters.petiole.curvature.resample();</div>
+<div class="line"><a id="l01040" name="l01040"></a><span class="lineno"> 1040</span> </div>
+<div class="line"><a id="l01041" name="l01041"></a><span class="lineno"> 1041</span>    <span class="keywordflow">for</span>(<span class="keywordtype">int</span> petiole=0; petiole &lt; phytomer_parameters.petiole.petioles_per_internode; petiole++ ) { <span class="comment">//looping over petioles</span></div>
+<div class="line"><a id="l01042" name="l01042"></a><span class="lineno"> 1042</span> </div>
+<div class="line"><a id="l01043" name="l01043"></a><span class="lineno"> 1043</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> petiole_rotation_axis_actual = petiole_rotation_axis;</div>
+<div class="line"><a id="l01044" name="l01044"></a><span class="lineno"> 1044</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> petiole_axis_actual = petiole_axis;</div>
+<div class="line"><a id="l01045" name="l01045"></a><span class="lineno"> 1045</span> </div>
+<div class="line"><a id="l01046" name="l01046"></a><span class="lineno"> 1046</span>        <span class="keywordflow">if</span>( petiole &gt; 0 ) {</div>
+<div class="line"><a id="l01047" name="l01047"></a><span class="lineno"> 1047</span>            <span class="keywordtype">float</span> budrot = float(petiole) * 2.f * M_PI / float(phytomer_parameters.petiole.petioles_per_internode);</div>
+<div class="line"><a id="l01048" name="l01048"></a><span class="lineno"> 1048</span>            petiole_axis_actual = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(petiole_axis_actual, nullorigin, internode_axis, budrot );</div>
+<div class="line"><a id="l01049" name="l01049"></a><span class="lineno"> 1049</span>            petiole_rotation_axis_actual = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(petiole_rotation_axis_actual, nullorigin, internode_axis, budrot );</div>
+<div class="line"><a id="l01050" name="l01050"></a><span class="lineno"> 1050</span>        }</div>
+<div class="line"><a id="l01051" name="l01051"></a><span class="lineno"> 1051</span> </div>
+<div class="line"><a id="l01052" name="l01052"></a><span class="lineno"> 1052</span>        petiole_vertices.at(petiole).at(0) = phytomer_internode_vertices.back();</div>
+<div class="line"><a id="l01053" name="l01053"></a><span class="lineno"> 1053</span> </div>
+<div class="line"><a id="l01054" name="l01054"></a><span class="lineno"> 1054</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> j = 1; j &lt;= Ndiv_petiole_length; j++) {</div>
+<div class="line"><a id="l01055" name="l01055"></a><span class="lineno"> 1055</span> </div>
+<div class="line"><a id="l01056" name="l01056"></a><span class="lineno"> 1056</span>            <span class="keywordflow">if</span>( fabs(petiole_curvature)&gt;0 ) {</div>
+<div class="line"><a id="l01057" name="l01057"></a><span class="lineno"> 1057</span>                petiole_axis_actual = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(petiole_axis_actual, nullorigin, petiole_rotation_axis_actual, -<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(petiole_curvature * dr_petiole_max.at(petiole)));</div>
+<div class="line"><a id="l01058" name="l01058"></a><span class="lineno"> 1058</span>            }</div>
+<div class="line"><a id="l01059" name="l01059"></a><span class="lineno"> 1059</span> </div>
+<div class="line"><a id="l01060" name="l01060"></a><span class="lineno"> 1060</span>            petiole_vertices.at(petiole).at(j) = petiole_vertices.at(petiole).at(j - 1) + dr_petiole.at(petiole) * petiole_axis_actual;</div>
+<div class="line"><a id="l01061" name="l01061"></a><span class="lineno"> 1061</span> </div>
+<div class="line"><a id="l01062" name="l01062"></a><span class="lineno"> 1062</span>            petiole_radii.at(petiole).at(j) = leaf_scale_factor_fraction * phytomer_parameters.petiole.radius.val() * (1.f - phytomer_parameters.petiole.taper.val() / <span class="keywordtype">float</span>(Ndiv_petiole_length) * <span class="keywordtype">float</span>(j) );</div>
+<div class="line"><a id="l01063" name="l01063"></a><span class="lineno"> 1063</span>            petiole_colors.at(j) = phytomer_parameters.petiole.color;</div>
+<div class="line"><a id="l01064" name="l01064"></a><span class="lineno"> 1064</span> </div>
+<div class="line"><a id="l01065" name="l01065"></a><span class="lineno"> 1065</span>        }</div>
+<div class="line"><a id="l01066" name="l01066"></a><span class="lineno"> 1066</span> </div>
+<div class="line"><a id="l01067" name="l01067"></a><span class="lineno"> 1067</span>        <span class="keywordflow">if</span>( build_context_geometry_petiole &amp;&amp; petiole_radii.at(petiole).front() &gt; 0.f ) {</div>
+<div class="line"><a id="l01068" name="l01068"></a><span class="lineno"> 1068</span>            petiole_objIDs.at(petiole) = <a class="code hl_function" href="_plant_architecture_8h.html#a90314e1f16ad76c838da858b9bf0ae86">makeTubeFromCones</a>(Ndiv_petiole_radius, petiole_vertices.at(petiole), petiole_radii.at(petiole), petiole_colors, context_ptr);</div>
+<div class="line"><a id="l01069" name="l01069"></a><span class="lineno"> 1069</span>        }</div>
+<div class="line"><a id="l01070" name="l01070"></a><span class="lineno"> 1070</span> </div>
+<div class="line"><a id="l01071" name="l01071"></a><span class="lineno"> 1071</span>        <span class="comment">//--- create buds ---//</span></div>
+<div class="line"><a id="l01072" name="l01072"></a><span class="lineno"> 1072</span> </div>
+<div class="line"><a id="l01073" name="l01073"></a><span class="lineno"> 1073</span>        std::vector&lt;VegetativeBud&gt; vegetative_buds_new;</div>
+<div class="line"><a id="l01074" name="l01074"></a><span class="lineno"> 1074</span>        vegetative_buds_new.resize( phytomer_parameters.internode.max_vegetative_buds_per_petiole.val() );</div>
+<div class="line"><a id="l01075" name="l01075"></a><span class="lineno"> 1075</span>        phytomer_parameters.internode.max_vegetative_buds_per_petiole.resample();</div>
+<div class="line"><a id="l01076" name="l01076"></a><span class="lineno"> 1076</span> </div>
+<div class="line"><a id="l01077" name="l01077"></a><span class="lineno"> 1077</span>        axillary_vegetative_buds.push_back(vegetative_buds_new);</div>
+<div class="line"><a id="l01078" name="l01078"></a><span class="lineno"> 1078</span> </div>
+<div class="line"><a id="l01079" name="l01079"></a><span class="lineno"> 1079</span>        std::vector&lt;FloralBud&gt; floral_buds_new;</div>
+<div class="line"><a id="l01080" name="l01080"></a><span class="lineno"> 1080</span>        floral_buds_new.resize( phytomer_parameters.internode.max_floral_buds_per_petiole.val() );</div>
+<div class="line"><a id="l01081" name="l01081"></a><span class="lineno"> 1081</span>        phytomer_parameters.internode.max_floral_buds_per_petiole.resample();</div>
+<div class="line"><a id="l01082" name="l01082"></a><span class="lineno"> 1082</span> </div>
+<div class="line"><a id="l01083" name="l01083"></a><span class="lineno"> 1083</span>        uint index = 0;</div>
+<div class="line"><a id="l01084" name="l01084"></a><span class="lineno"> 1084</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;fbud : floral_buds_new ){</div>
+<div class="line"><a id="l01085" name="l01085"></a><span class="lineno"> 1085</span>            fbud.bud_index = index;</div>
+<div class="line"><a id="l01086" name="l01086"></a><span class="lineno"> 1086</span>            fbud.parent_index = petiole;</div>
+<div class="line"><a id="l01087" name="l01087"></a><span class="lineno"> 1087</span>            <span class="keywordtype">float</span> pitch_adjustment = fbud.bud_index * 0.1f * M_PI / float(axillary_vegetative_buds.size());</div>
+<div class="line"><a id="l01088" name="l01088"></a><span class="lineno"> 1088</span>            <span class="keywordtype">float</span> yaw_adjustment = -0.25f * M_PI + fbud.bud_index * 0.5f * M_PI / float(axillary_vegetative_buds.size());</div>
+<div class="line"><a id="l01089" name="l01089"></a><span class="lineno"> 1089</span>            fbud.base_rotation = make_AxisRotation(pitch_adjustment, yaw_adjustment, 0);</div>
+<div class="line"><a id="l01090" name="l01090"></a><span class="lineno"> 1090</span>            fbud.base_position = phytomer_internode_vertices.back();</div>
+<div class="line"><a id="l01091" name="l01091"></a><span class="lineno"> 1091</span>            fbud.bending_axis = shoot_bending_axis;</div>
+<div class="line"><a id="l01092" name="l01092"></a><span class="lineno"> 1092</span>            index++;</div>
+<div class="line"><a id="l01093" name="l01093"></a><span class="lineno"> 1093</span>        }</div>
+<div class="line"><a id="l01094" name="l01094"></a><span class="lineno"> 1094</span> </div>
+<div class="line"><a id="l01095" name="l01095"></a><span class="lineno"> 1095</span>        floral_buds.push_back(floral_buds_new);</div>
+<div class="line"><a id="l01096" name="l01096"></a><span class="lineno"> 1096</span> </div>
+<div class="line"><a id="l01097" name="l01097"></a><span class="lineno"> 1097</span>        <span class="comment">//--- create leaves ---//</span></div>
+<div class="line"><a id="l01098" name="l01098"></a><span class="lineno"> 1098</span> </div>
+<div class="line"><a id="l01099" name="l01099"></a><span class="lineno"> 1099</span>        <span class="keywordflow">if</span>(phytomer_parameters.leaf.prototype_function == <span class="keyword">nullptr</span> ){</div>
+<div class="line"><a id="l01100" name="l01100"></a><span class="lineno"> 1100</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::Phytomer): Leaf prototype function was not defined for shoot type &quot;</span> + parent_shoot-&gt;shoot_type_label + <span class="stringliteral">&quot;.&quot;</span>);</div>
+<div class="line"><a id="l01101" name="l01101"></a><span class="lineno"> 1101</span>        }</div>
+<div class="line"><a id="l01102" name="l01102"></a><span class="lineno"> 1102</span> </div>
+<div class="line"><a id="l01103" name="l01103"></a><span class="lineno"> 1103</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> petiole_tip_axis = getPetioleAxisVector(1.f, petiole);</div>
+<div class="line"><a id="l01104" name="l01104"></a><span class="lineno"> 1104</span> </div>
+<div class="line"><a id="l01105" name="l01105"></a><span class="lineno"> 1105</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> leaf_rotation_axis = <a class="code hl_function" href="helios__vector__types_8h.html#aa4e7459e7404915c12903a5c08588f5b">cross</a>(internode_axis, petiole_tip_axis );</div>
+<div class="line"><a id="l01106" name="l01106"></a><span class="lineno"> 1106</span> </div>
+<div class="line"><a id="l01107" name="l01107"></a><span class="lineno"> 1107</span>        <span class="comment">// Create unique leaf prototypes for each shoot type so we can simply copy them for each leaf</span></div>
+<div class="line"><a id="l01108" name="l01108"></a><span class="lineno"> 1108</span>        <span class="keywordflow">if</span>( phytomer_parameters.leaf.unique_prototypes&gt;0 &amp;&amp; plantarchitecture_ptr-&gt;unique_leaf_prototype_objIDs.find(parent_shoot-&gt;shoot_type_label) == plantarchitecture_ptr-&gt;unique_leaf_prototype_objIDs.end() ) {</div>
+<div class="line"><a id="l01109" name="l01109"></a><span class="lineno"> 1109</span>            plantarchitecture_ptr-&gt;unique_leaf_prototype_objIDs[parent_shoot-&gt;shoot_type_label].resize(phytomer_parameters.leaf.unique_prototypes);</div>
+<div class="line"><a id="l01110" name="l01110"></a><span class="lineno"> 1110</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> prototype = 0; prototype &lt; phytomer_parameters.leaf.unique_prototypes; prototype++ ) {</div>
+<div class="line"><a id="l01111" name="l01111"></a><span class="lineno"> 1111</span>                <span class="keywordflow">for</span> (<span class="keywordtype">int</span> leaf = 0; leaf &lt; leaves_per_petiole; leaf++) {</div>
+<div class="line"><a id="l01112" name="l01112"></a><span class="lineno"> 1112</span>                    <span class="keywordtype">float</span> ind_from_tip = float(leaf) - float(leaves_per_petiole - 1) / 2.f;</div>
+<div class="line"><a id="l01113" name="l01113"></a><span class="lineno"> 1113</span>                    uint objID_leaf = phytomer_parameters.leaf.prototype_function(context_ptr, phytomer_parameters.leaf.subdivisions, ind_from_tip);</div>
+<div class="line"><a id="l01114" name="l01114"></a><span class="lineno"> 1114</span>                    plantarchitecture_ptr-&gt;unique_leaf_prototype_objIDs.at(parent_shoot-&gt;shoot_type_label).at(prototype).push_back(objID_leaf);</div>
+<div class="line"><a id="l01115" name="l01115"></a><span class="lineno"> 1115</span>                    std::vector&lt;uint&gt; petiolule_UUIDs = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a416b75bbf3ddf4ca0184df35651f41b7">filterPrimitivesByData</a>( context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a7d0b3a6ca36b02702b06208a735a3b03">getObjectPrimitiveUUIDs</a>(objID_leaf), <span class="stringliteral">&quot;object_label&quot;</span>, <span class="stringliteral">&quot;petiolule&quot;</span> );</div>
+<div class="line"><a id="l01116" name="l01116"></a><span class="lineno"> 1116</span>                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a029f95ee0056f027866f8bad2fe9e48e">setPrimitiveColor</a>( petiolule_UUIDs, phytomer_parameters.petiole.color );</div>
+<div class="line"><a id="l01117" name="l01117"></a><span class="lineno"> 1117</span>                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a983606fef144a460d4b987032a8ad005">hideObject</a>({objID_leaf});</div>
+<div class="line"><a id="l01118" name="l01118"></a><span class="lineno"> 1118</span>                }</div>
+<div class="line"><a id="l01119" name="l01119"></a><span class="lineno"> 1119</span>            }</div>
+<div class="line"><a id="l01120" name="l01120"></a><span class="lineno"> 1120</span>        }</div>
+<div class="line"><a id="l01121" name="l01121"></a><span class="lineno"> 1121</span> </div>
+<div class="line"><a id="l01122" name="l01122"></a><span class="lineno"> 1122</span>        <span class="keywordflow">for</span>(<span class="keywordtype">int</span> leaf=0; leaf &lt; leaves_per_petiole; leaf++ ){</div>
+<div class="line"><a id="l01123" name="l01123"></a><span class="lineno"> 1123</span> </div>
+<div class="line"><a id="l01124" name="l01124"></a><span class="lineno"> 1124</span>            <span class="keywordtype">float</span> ind_from_tip = float(leaf)-float(leaves_per_petiole-1)/2.f;</div>
+<div class="line"><a id="l01125" name="l01125"></a><span class="lineno"> 1125</span> </div>
+<div class="line"><a id="l01126" name="l01126"></a><span class="lineno"> 1126</span>            uint objID_leaf;</div>
+<div class="line"><a id="l01127" name="l01127"></a><span class="lineno"> 1127</span>            <span class="keywordflow">if</span>( phytomer_parameters.leaf.unique_prototypes&gt;0 ) { <span class="comment">//copy the existing prototype</span></div>
+<div class="line"><a id="l01128" name="l01128"></a><span class="lineno"> 1128</span>                <span class="keywordtype">int</span> prototype = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0, phytomer_parameters.leaf.unique_prototypes - 1);</div>
+<div class="line"><a id="l01129" name="l01129"></a><span class="lineno"> 1129</span>                objID_leaf = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a14f83860167c061e537f29f7754c12c3">copyObject</a>(plantarchitecture_ptr-&gt;unique_leaf_prototype_objIDs.at(parent_shoot-&gt;shoot_type_label).at(prototype).at(leaf));</div>
+<div class="line"><a id="l01130" name="l01130"></a><span class="lineno"> 1130</span>            }<span class="keywordflow">else</span>{ <span class="comment">//load a new prototype</span></div>
+<div class="line"><a id="l01131" name="l01131"></a><span class="lineno"> 1131</span>                objID_leaf = phytomer_parameters.leaf.prototype_function(context_ptr, phytomer_parameters.leaf.subdivisions, ind_from_tip);</div>
+<div class="line"><a id="l01132" name="l01132"></a><span class="lineno"> 1132</span>            }</div>
+<div class="line"><a id="l01133" name="l01133"></a><span class="lineno"> 1133</span> </div>
+<div class="line"><a id="l01134" name="l01134"></a><span class="lineno"> 1134</span>            <span class="comment">// -- leaf scaling -- //</span></div>
+<div class="line"><a id="l01135" name="l01135"></a><span class="lineno"> 1135</span> </div>
+<div class="line"><a id="l01136" name="l01136"></a><span class="lineno"> 1136</span>            <span class="keywordflow">if</span>( leaves_per_petiole&gt;0 &amp;&amp; phytomer_parameters.leaf.leaflet_scale.val()!=1.f &amp;&amp; ind_from_tip!=0 ){</div>
+<div class="line"><a id="l01137" name="l01137"></a><span class="lineno"> 1137</span>                leaf_size_max.at(petiole).at(leaf) = powf(phytomer_parameters.leaf.leaflet_scale.val(),fabs(ind_from_tip))*phytomer_parameters.leaf.prototype_scale.val();</div>
+<div class="line"><a id="l01138" name="l01138"></a><span class="lineno"> 1138</span>            }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l01139" name="l01139"></a><span class="lineno"> 1139</span>                leaf_size_max.at(petiole).at(leaf) = phytomer_parameters.leaf.prototype_scale.val();</div>
+<div class="line"><a id="l01140" name="l01140"></a><span class="lineno"> 1140</span>            }</div>
+<div class="line"><a id="l01141" name="l01141"></a><span class="lineno"> 1141</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> leaf_scale = leaf_scale_factor_fraction * leaf_size_max.at(petiole).at(leaf) * <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1,1,1);</div>
+<div class="line"><a id="l01142" name="l01142"></a><span class="lineno"> 1142</span> </div>
+<div class="line"><a id="l01143" name="l01143"></a><span class="lineno"> 1143</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#afe9817e155de4a39bc82b000c5d0e888">scaleObject</a>( objID_leaf, leaf_scale );</div>
+<div class="line"><a id="l01144" name="l01144"></a><span class="lineno"> 1144</span> </div>
+<div class="line"><a id="l01145" name="l01145"></a><span class="lineno"> 1145</span>            <span class="keywordtype">float</span> compound_rotation = 0;</div>
+<div class="line"><a id="l01146" name="l01146"></a><span class="lineno"> 1146</span>            <span class="keywordflow">if</span>( leaves_per_petiole&gt;1 ) {</div>
+<div class="line"><a id="l01147" name="l01147"></a><span class="lineno"> 1147</span>                <span class="keywordflow">if</span> (phytomer_parameters.leaf.leaflet_offset.val() == 0) {</div>
+<div class="line"><a id="l01148" name="l01148"></a><span class="lineno"> 1148</span>                    <span class="keywordtype">float</span> dphi = M_PI / (floor(0.5 * <span class="keywordtype">float</span>(leaves_per_petiole - 1)) + 1);</div>
+<div class="line"><a id="l01149" name="l01149"></a><span class="lineno"> 1149</span>                    compound_rotation = -float(M_PI) + dphi * (leaf + 0.5f);</div>
+<div class="line"><a id="l01150" name="l01150"></a><span class="lineno"> 1150</span>                } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l01151" name="l01151"></a><span class="lineno"> 1151</span>                    <span class="keywordflow">if</span>( leaf == <span class="keywordtype">float</span>(leaves_per_petiole-1)/2.f ){ <span class="comment">//tip leaf</span></div>
+<div class="line"><a id="l01152" name="l01152"></a><span class="lineno"> 1152</span>                        compound_rotation = 0;</div>
+<div class="line"><a id="l01153" name="l01153"></a><span class="lineno"> 1153</span>                    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( leaf &lt; <span class="keywordtype">float</span>(leaves_per_petiole-1)/2.f ) {</div>
+<div class="line"><a id="l01154" name="l01154"></a><span class="lineno"> 1154</span>                        compound_rotation = -0.5*M_PI;</div>
+<div class="line"><a id="l01155" name="l01155"></a><span class="lineno"> 1155</span>                    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l01156" name="l01156"></a><span class="lineno"> 1156</span>                        compound_rotation = 0.5*M_PI;</div>
+<div class="line"><a id="l01157" name="l01157"></a><span class="lineno"> 1157</span>                    }</div>
+<div class="line"><a id="l01158" name="l01158"></a><span class="lineno"> 1158</span>                }</div>
+<div class="line"><a id="l01159" name="l01159"></a><span class="lineno"> 1159</span>            }</div>
+<div class="line"><a id="l01160" name="l01160"></a><span class="lineno"> 1160</span> </div>
+<div class="line"><a id="l01161" name="l01161"></a><span class="lineno"> 1161</span>            <span class="comment">// -- leaf rotations -- //</span></div>
+<div class="line"><a id="l01162" name="l01162"></a><span class="lineno"> 1162</span> </div>
+<div class="line"><a id="l01163" name="l01163"></a><span class="lineno"> 1163</span>            <span class="comment">//leaf roll rotation</span></div>
+<div class="line"><a id="l01164" name="l01164"></a><span class="lineno"> 1164</span>            <span class="keywordtype">float</span> roll_rot = 0;</div>
+<div class="line"><a id="l01165" name="l01165"></a><span class="lineno"> 1165</span>            <span class="keywordflow">if</span>( leaves_per_petiole==1 ){</div>
+<div class="line"><a id="l01166" name="l01166"></a><span class="lineno"> 1166</span>                <span class="keywordtype">int</span> sign = (shoot_index.x%2==0) ? 1 : -1;</div>
+<div class="line"><a id="l01167" name="l01167"></a><span class="lineno"> 1167</span>                roll_rot = (<a class="code hl_function" href="group__functions.html#ga9f732ec5c2153020247c879034f81432">acos_safe</a>(internode_axis.z)-<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.leaf.roll.val()))*sign;</div>
+<div class="line"><a id="l01168" name="l01168"></a><span class="lineno"> 1168</span>            } <span class="keywordflow">else</span> <span class="keywordflow">if</span>( ind_from_tip!= 0){</div>
+<div class="line"><a id="l01169" name="l01169"></a><span class="lineno"> 1169</span>                roll_rot = (<a class="code hl_function" href="group__functions.html#gac400d6d37ff2494ec592a9f0a17ee9ab">asin_safe</a>(petiole_tip_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>)+<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.leaf.roll.val()))*compound_rotation/std::fabs(compound_rotation);</div>
+<div class="line"><a id="l01170" name="l01170"></a><span class="lineno"> 1170</span>            }</div>
+<div class="line"><a id="l01171" name="l01171"></a><span class="lineno"> 1171</span>            leaf_rotation.at(petiole).at(leaf).roll = <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.leaf.roll.val());</div>
+<div class="line"><a id="l01172" name="l01172"></a><span class="lineno"> 1172</span>            phytomer_parameters.leaf.roll.resample();</div>
+<div class="line"><a id="l01173" name="l01173"></a><span class="lineno"> 1173</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(objID_leaf, roll_rot, <span class="stringliteral">&quot;x&quot;</span> );</div>
+<div class="line"><a id="l01174" name="l01174"></a><span class="lineno"> 1174</span> </div>
+<div class="line"><a id="l01175" name="l01175"></a><span class="lineno"> 1175</span>            <span class="comment">//leaf pitch rotation</span></div>
+<div class="line"><a id="l01176" name="l01176"></a><span class="lineno"> 1176</span>            leaf_rotation.at(petiole).at(leaf).pitch = <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.leaf.pitch.val());</div>
+<div class="line"><a id="l01177" name="l01177"></a><span class="lineno"> 1177</span>            <span class="keywordtype">float</span> pitch_rot = leaf_rotation.at(petiole).at(leaf).pitch;</div>
+<div class="line"><a id="l01178" name="l01178"></a><span class="lineno"> 1178</span>            phytomer_parameters.leaf.pitch.resample();</div>
+<div class="line"><a id="l01179" name="l01179"></a><span class="lineno"> 1179</span>            <span class="keywordflow">if</span>( ind_from_tip==0 ){</div>
+<div class="line"><a id="l01180" name="l01180"></a><span class="lineno"> 1180</span>                pitch_rot += <a class="code hl_function" href="group__functions.html#gac400d6d37ff2494ec592a9f0a17ee9ab">asin_safe</a>(petiole_tip_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>);</div>
+<div class="line"><a id="l01181" name="l01181"></a><span class="lineno"> 1181</span>            }</div>
+<div class="line"><a id="l01182" name="l01182"></a><span class="lineno"> 1182</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(objID_leaf, -pitch_rot , <span class="stringliteral">&quot;y&quot;</span> );</div>
+<div class="line"><a id="l01183" name="l01183"></a><span class="lineno"> 1183</span> </div>
+<div class="line"><a id="l01184" name="l01184"></a><span class="lineno"> 1184</span>            <span class="comment">//leaf yaw rotation</span></div>
+<div class="line"><a id="l01185" name="l01185"></a><span class="lineno"> 1185</span>            <span class="keywordflow">if</span>( ind_from_tip!=0 ){</div>
+<div class="line"><a id="l01186" name="l01186"></a><span class="lineno"> 1186</span>                <span class="keywordtype">float</span> sign = -compound_rotation/fabs(compound_rotation);</div>
+<div class="line"><a id="l01187" name="l01187"></a><span class="lineno"> 1187</span>                leaf_rotation.at(petiole).at(leaf).yaw = sign*<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.leaf.yaw.val());</div>
+<div class="line"><a id="l01188" name="l01188"></a><span class="lineno"> 1188</span>                <span class="keywordtype">float</span> yaw_rot = leaf_rotation.at(petiole).at(leaf).yaw;</div>
+<div class="line"><a id="l01189" name="l01189"></a><span class="lineno"> 1189</span>                phytomer_parameters.leaf.yaw.resample();</div>
+<div class="line"><a id="l01190" name="l01190"></a><span class="lineno"> 1190</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>( objID_leaf, yaw_rot, <span class="stringliteral">&quot;z&quot;</span> );</div>
+<div class="line"><a id="l01191" name="l01191"></a><span class="lineno"> 1191</span>            }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l01192" name="l01192"></a><span class="lineno"> 1192</span>                leaf_rotation.at(petiole).at(leaf).yaw = 0;</div>
+<div class="line"><a id="l01193" name="l01193"></a><span class="lineno"> 1193</span>            }</div>
+<div class="line"><a id="l01194" name="l01194"></a><span class="lineno"> 1194</span> </div>
+<div class="line"><a id="l01195" name="l01195"></a><span class="lineno"> 1195</span>            <span class="comment">//rotate leaf to azimuth of petiole</span></div>
+<div class="line"><a id="l01196" name="l01196"></a><span class="lineno"> 1196</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>( objID_leaf, -std::atan2(petiole_tip_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, petiole_tip_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>)+compound_rotation, <span class="stringliteral">&quot;z&quot;</span> );</div>
 <div class="line"><a id="l01197" name="l01197"></a><span class="lineno"> 1197</span> </div>
-<div class="line"><a id="l01198" name="l01198"></a><span class="lineno"> 1198</span>            <span class="comment">// -- leaf translation -- //</span></div>
-<div class="line"><a id="l01199" name="l01199"></a><span class="lineno"> 1199</span> </div>
-<div class="line"><a id="l01200" name="l01200"></a><span class="lineno"> 1200</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> leaf_base = petiole_vertices.at(petiole).back();</div>
-<div class="line"><a id="l01201" name="l01201"></a><span class="lineno"> 1201</span>            <span class="keywordflow">if</span>( leaves_per_petiole&gt;1 &amp;&amp; phytomer_parameters.leaf.leaflet_offset.val()&gt;0 ){</div>
-<div class="line"><a id="l01202" name="l01202"></a><span class="lineno"> 1202</span>                <span class="keywordflow">if</span>( ind_from_tip != 0 ) {</div>
-<div class="line"><a id="l01203" name="l01203"></a><span class="lineno"> 1203</span>                    <span class="keywordtype">float</span> offset = (fabs(ind_from_tip) - 0.5f) * phytomer_parameters.leaf.leaflet_offset.val() * phytomer_parameters.petiole.length.val();</div>
-<div class="line"><a id="l01204" name="l01204"></a><span class="lineno"> 1204</span>                    leaf_base = <a class="code hl_function" href="_canopy_generator_8h.html#a339d165bb0c396a75ce255fbe16a20d4">interpolateTube</a>(petiole_vertices.at(petiole), 1.f - offset / phytomer_parameters.petiole.length.val() );</div>
-<div class="line"><a id="l01205" name="l01205"></a><span class="lineno"> 1205</span>                }</div>
-<div class="line"><a id="l01206" name="l01206"></a><span class="lineno"> 1206</span>            }</div>
-<div class="line"><a id="l01207" name="l01207"></a><span class="lineno"> 1207</span> </div>
-<div class="line"><a id="l01208" name="l01208"></a><span class="lineno"> 1208</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>( objID_leaf, leaf_base );</div>
-<div class="line"><a id="l01209" name="l01209"></a><span class="lineno"> 1209</span> </div>
-<div class="line"><a id="l01210" name="l01210"></a><span class="lineno"> 1210</span>            leaf_objIDs.at(petiole).push_back(objID_leaf );</div>
-<div class="line"><a id="l01211" name="l01211"></a><span class="lineno"> 1211</span>            leaf_bases.at(petiole).push_back(leaf_base );</div>
-<div class="line"><a id="l01212" name="l01212"></a><span class="lineno"> 1212</span> </div>
-<div class="line"><a id="l01213" name="l01213"></a><span class="lineno"> 1213</span>        }</div>
-<div class="line"><a id="l01214" name="l01214"></a><span class="lineno"> 1214</span>        phytomer_parameters.leaf.prototype_scale.resample();</div>
-<div class="line"><a id="l01215" name="l01215"></a><span class="lineno"> 1215</span> </div>
-<div class="line"><a id="l01216" name="l01216"></a><span class="lineno"> 1216</span>        <span class="keywordflow">if</span>( petiole_axis_actual==<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,1) ) {</div>
-<div class="line"><a id="l01217" name="l01217"></a><span class="lineno"> 1217</span>            inflorescence_bending_axis = <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1, 0, 0);</div>
-<div class="line"><a id="l01218" name="l01218"></a><span class="lineno"> 1218</span>        }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l01219" name="l01219"></a><span class="lineno"> 1219</span>            inflorescence_bending_axis = <a class="code hl_function" href="helios__vector__types_8h.html#aa4e7459e7404915c12903a5c08588f5b">cross</a>(<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0, 0, 1), petiole_axis_actual);</div>
-<div class="line"><a id="l01220" name="l01220"></a><span class="lineno"> 1220</span>        }</div>
-<div class="line"><a id="l01221" name="l01221"></a><span class="lineno"> 1221</span> </div>
-<div class="line"><a id="l01222" name="l01222"></a><span class="lineno"> 1222</span>    }</div>
-<div class="line"><a id="l01223" name="l01223"></a><span class="lineno"> 1223</span> </div>
-<div class="line"><a id="l01224" name="l01224"></a><span class="lineno"> 1224</span>}</div>
-<div class="line"><a id="l01225" name="l01225"></a><span class="lineno"> 1225</span> </div>
-<div class="line"><a id="l01226" name="l01226"></a><span class="lineno"> 1226</span><span class="keywordtype">void</span> Phytomer::updateInflorescence(<a class="code hl_struct" href="struct_floral_bud.html">FloralBud</a> &amp;fbud) {</div>
-<div class="line"><a id="l01227" name="l01227"></a><span class="lineno"> 1227</span> </div>
-<div class="line"><a id="l01228" name="l01228"></a><span class="lineno"> 1228</span>    <span class="keywordtype">bool</span> build_context_geometry_peduncle = plantarchitecture_ptr-&gt;build_context_geometry_peduncle;</div>
-<div class="line"><a id="l01229" name="l01229"></a><span class="lineno"> 1229</span> </div>
-<div class="line"><a id="l01230" name="l01230"></a><span class="lineno"> 1230</span>    uint Ndiv_peduncle_length = std::max(uint(1), phytomer_parameters.peduncle.length_segments);</div>
-<div class="line"><a id="l01231" name="l01231"></a><span class="lineno"> 1231</span>    uint Ndiv_peduncle_radius = std::max(uint(3), phytomer_parameters.peduncle.radial_subdivisions);</div>
-<div class="line"><a id="l01232" name="l01232"></a><span class="lineno"> 1232</span>    <span class="keywordflow">if</span>( phytomer_parameters.peduncle.length_segments==0 || phytomer_parameters.peduncle.radial_subdivisions&lt;3 ){</div>
-<div class="line"><a id="l01233" name="l01233"></a><span class="lineno"> 1233</span>        build_context_geometry_peduncle = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01234" name="l01234"></a><span class="lineno"> 1234</span>    }</div>
-<div class="line"><a id="l01235" name="l01235"></a><span class="lineno"> 1235</span> </div>
-<div class="line"><a id="l01236" name="l01236"></a><span class="lineno"> 1236</span>    <span class="keywordtype">float</span> dr_peduncle = phytomer_parameters.peduncle.length.val() / float(Ndiv_peduncle_length);</div>
-<div class="line"><a id="l01237" name="l01237"></a><span class="lineno"> 1237</span>    phytomer_parameters.peduncle.length.resample();</div>
-<div class="line"><a id="l01238" name="l01238"></a><span class="lineno"> 1238</span> </div>
-<div class="line"><a id="l01239" name="l01239"></a><span class="lineno"> 1239</span>    std::vector&lt;vec3&gt; peduncle_vertices(phytomer_parameters.peduncle.length_segments + 1);</div>
-<div class="line"><a id="l01240" name="l01240"></a><span class="lineno"> 1240</span>    peduncle_vertices.at(0) = fbud.base_position;</div>
-<div class="line"><a id="l01241" name="l01241"></a><span class="lineno"> 1241</span>    std::vector&lt;float&gt; peduncle_radii(phytomer_parameters.peduncle.length_segments + 1);</div>
-<div class="line"><a id="l01242" name="l01242"></a><span class="lineno"> 1242</span>    peduncle_radii.at(0) = phytomer_parameters.peduncle.radius.val();</div>
-<div class="line"><a id="l01243" name="l01243"></a><span class="lineno"> 1243</span>    std::vector&lt;RGBcolor&gt; peduncle_colors(phytomer_parameters.peduncle.length_segments + 1);</div>
-<div class="line"><a id="l01244" name="l01244"></a><span class="lineno"> 1244</span>    peduncle_colors.at(0) = phytomer_parameters.peduncle.color;</div>
-<div class="line"><a id="l01245" name="l01245"></a><span class="lineno"> 1245</span> </div>
-<div class="line"><a id="l01246" name="l01246"></a><span class="lineno"> 1246</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> peduncle_axis = getAxisVector(1.f, getInternodeNodePositions() );</div>
-<div class="line"><a id="l01247" name="l01247"></a><span class="lineno"> 1247</span> </div>
-<div class="line"><a id="l01248" name="l01248"></a><span class="lineno"> 1248</span>    <span class="comment">//peduncle pitch rotation</span></div>
-<div class="line"><a id="l01249" name="l01249"></a><span class="lineno"> 1249</span>    <span class="keywordflow">if</span>( phytomer_parameters.peduncle.pitch.val()!=0.f || fbud.base_rotation.pitch!=0.f ) {</div>
-<div class="line"><a id="l01250" name="l01250"></a><span class="lineno"> 1250</span>        peduncle_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(peduncle_axis, nullorigin, inflorescence_bending_axis, <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.peduncle.pitch.val())+fbud.base_rotation.pitch );</div>
-<div class="line"><a id="l01251" name="l01251"></a><span class="lineno"> 1251</span>        phytomer_parameters.peduncle.pitch.resample();</div>
-<div class="line"><a id="l01252" name="l01252"></a><span class="lineno"> 1252</span>    }</div>
-<div class="line"><a id="l01253" name="l01253"></a><span class="lineno"> 1253</span> </div>
-<div class="line"><a id="l01254" name="l01254"></a><span class="lineno"> 1254</span>    <span class="comment">//rotate peduncle to azimuth of petiole and apply peduncle base yaw rotation</span></div>
-<div class="line"><a id="l01255" name="l01255"></a><span class="lineno"> 1255</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> internode_axis = getAxisVector(1.f, getInternodeNodePositions() );</div>
-<div class="line"><a id="l01256" name="l01256"></a><span class="lineno"> 1256</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> parent_petiole_base_axis = getPetioleAxisVector(0.f, fbud.parent_index);</div>
-<div class="line"><a id="l01257" name="l01257"></a><span class="lineno"> 1257</span>    <span class="keywordtype">float</span> parent_petiole_azimuth = -std::atan2(parent_petiole_base_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, parent_petiole_base_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>);</div>
-<div class="line"><a id="l01258" name="l01258"></a><span class="lineno"> 1258</span>    <span class="keywordtype">float</span> current_peduncle_azimuth = -std::atan2(peduncle_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, peduncle_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>);</div>
-<div class="line"><a id="l01259" name="l01259"></a><span class="lineno"> 1259</span>    peduncle_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>( peduncle_axis, nullorigin, internode_axis, (current_peduncle_azimuth-parent_petiole_azimuth) + fbud.base_rotation.yaw );</div>
-<div class="line"><a id="l01260" name="l01260"></a><span class="lineno"> 1260</span> </div>
-<div class="line"><a id="l01261" name="l01261"></a><span class="lineno"> 1261</span>    <span class="keywordtype">float</span> theta_base = fabs(<a class="code hl_function" href="group__functions.html#ga32a34b00e0a28f4b35e501b8b34cfccd">cart2sphere</a>(peduncle_axis).zenith);</div>
-<div class="line"><a id="l01262" name="l01262"></a><span class="lineno"> 1262</span> </div>
-<div class="line"><a id="l01263" name="l01263"></a><span class="lineno"> 1263</span>    <span class="keywordflow">for</span>(<span class="keywordtype">int</span> i=1; i&lt;=phytomer_parameters.peduncle.length_segments; i++ ){</div>
-<div class="line"><a id="l01264" name="l01264"></a><span class="lineno"> 1264</span> </div>
-<div class="line"><a id="l01265" name="l01265"></a><span class="lineno"> 1265</span>        <span class="keywordflow">if</span>( phytomer_parameters.peduncle.curvature.val()!=0.f ) {</div>
-<div class="line"><a id="l01266" name="l01266"></a><span class="lineno"> 1266</span>            <span class="keywordtype">float</span> theta_curvature = -<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.peduncle.curvature.val() * dr_peduncle);</div>
-<div class="line"><a id="l01267" name="l01267"></a><span class="lineno"> 1267</span>            phytomer_parameters.peduncle.curvature.resample();</div>
-<div class="line"><a id="l01268" name="l01268"></a><span class="lineno"> 1268</span>            <span class="keywordflow">if</span> (fabs(theta_curvature) * <span class="keywordtype">float</span>(i) &lt; M_PI - theta_base) {</div>
-<div class="line"><a id="l01269" name="l01269"></a><span class="lineno"> 1269</span>                peduncle_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(peduncle_axis, nullorigin, inflorescence_bending_axis, theta_curvature);</div>
-<div class="line"><a id="l01270" name="l01270"></a><span class="lineno"> 1270</span>            } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l01271" name="l01271"></a><span class="lineno"> 1271</span>                peduncle_axis = <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0, 0, -1);</div>
-<div class="line"><a id="l01272" name="l01272"></a><span class="lineno"> 1272</span>            }</div>
-<div class="line"><a id="l01273" name="l01273"></a><span class="lineno"> 1273</span>        }</div>
-<div class="line"><a id="l01274" name="l01274"></a><span class="lineno"> 1274</span> </div>
-<div class="line"><a id="l01275" name="l01275"></a><span class="lineno"> 1275</span>        peduncle_vertices.at(i) = peduncle_vertices.at(i - 1) + dr_peduncle * peduncle_axis;</div>
-<div class="line"><a id="l01276" name="l01276"></a><span class="lineno"> 1276</span> </div>
-<div class="line"><a id="l01277" name="l01277"></a><span class="lineno"> 1277</span>        peduncle_radii.at(i) = phytomer_parameters.peduncle.radius.val();</div>
-<div class="line"><a id="l01278" name="l01278"></a><span class="lineno"> 1278</span>        peduncle_colors.at(i) = phytomer_parameters.peduncle.color;</div>
-<div class="line"><a id="l01279" name="l01279"></a><span class="lineno"> 1279</span> </div>
-<div class="line"><a id="l01280" name="l01280"></a><span class="lineno"> 1280</span>    }</div>
-<div class="line"><a id="l01281" name="l01281"></a><span class="lineno"> 1281</span>    phytomer_parameters.peduncle.radius.resample();</div>
-<div class="line"><a id="l01282" name="l01282"></a><span class="lineno"> 1282</span> </div>
-<div class="line"><a id="l01283" name="l01283"></a><span class="lineno"> 1283</span>    <span class="keywordflow">if</span>( build_context_geometry_peduncle) {</div>
-<div class="line"><a id="l01284" name="l01284"></a><span class="lineno"> 1284</span>        fbud.peduncle_objIDs.push_back(context_ptr-&gt;<a class="code hl_function" href="group__compoundobjects.html#ga51f79fece15fee384255237359563a18">addTubeObject</a>(Ndiv_peduncle_radius, peduncle_vertices, peduncle_radii, peduncle_colors));</div>
-<div class="line"><a id="l01285" name="l01285"></a><span class="lineno"> 1285</span>    }</div>
-<div class="line"><a id="l01286" name="l01286"></a><span class="lineno"> 1286</span> </div>
-<div class="line"><a id="l01287" name="l01287"></a><span class="lineno"> 1287</span>    <span class="comment">// Create unique inflorescence prototypes for each shoot type so we can simply copy them for each leaf</span></div>
-<div class="line"><a id="l01288" name="l01288"></a><span class="lineno"> 1288</span>    std::string parent_shoot_type_label = plantarchitecture_ptr-&gt;plant_instances.at(this-&gt;plantID).shoot_tree.at(parent_shoot_ID)-&gt;shoot_type_label;</div>
-<div class="line"><a id="l01289" name="l01289"></a><span class="lineno"> 1289</span>    <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.unique_prototypes&gt;0 ){</div>
-<div class="line"><a id="l01290" name="l01290"></a><span class="lineno"> 1290</span>        <span class="comment">//closed flowers</span></div>
-<div class="line"><a id="l01291" name="l01291"></a><span class="lineno"> 1291</span>        <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.flower_prototype_function!= <span class="keyword">nullptr</span> &amp;&amp; plantarchitecture_ptr-&gt;unique_closed_flower_prototype_objIDs.find(parent_shoot_type_label) == plantarchitecture_ptr-&gt;unique_closed_flower_prototype_objIDs.end() ) {</div>
-<div class="line"><a id="l01292" name="l01292"></a><span class="lineno"> 1292</span>            plantarchitecture_ptr-&gt;unique_closed_flower_prototype_objIDs[parent_shoot_type_label].resize(phytomer_parameters.inflorescence.unique_prototypes);</div>
-<div class="line"><a id="l01293" name="l01293"></a><span class="lineno"> 1293</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> prototype = 0; prototype &lt; phytomer_parameters.inflorescence.unique_prototypes; prototype++ ) {</div>
-<div class="line"><a id="l01294" name="l01294"></a><span class="lineno"> 1294</span>                uint objID_flower = phytomer_parameters.inflorescence.flower_prototype_function(context_ptr, 1, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l01295" name="l01295"></a><span class="lineno"> 1295</span>                plantarchitecture_ptr-&gt;unique_closed_flower_prototype_objIDs.at(parent_shoot_type_label).at(prototype) = objID_flower;</div>
-<div class="line"><a id="l01296" name="l01296"></a><span class="lineno"> 1296</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a983606fef144a460d4b987032a8ad005">hideObject</a>({objID_flower});</div>
-<div class="line"><a id="l01297" name="l01297"></a><span class="lineno"> 1297</span>            }</div>
-<div class="line"><a id="l01298" name="l01298"></a><span class="lineno"> 1298</span>        }</div>
-<div class="line"><a id="l01299" name="l01299"></a><span class="lineno"> 1299</span>        <span class="comment">//open flowers</span></div>
-<div class="line"><a id="l01300" name="l01300"></a><span class="lineno"> 1300</span>        <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.flower_prototype_function!= <span class="keyword">nullptr</span> &amp;&amp; plantarchitecture_ptr-&gt;unique_open_flower_prototype_objIDs.find(parent_shoot_type_label) == plantarchitecture_ptr-&gt;unique_open_flower_prototype_objIDs.end() ) {</div>
-<div class="line"><a id="l01301" name="l01301"></a><span class="lineno"> 1301</span>            plantarchitecture_ptr-&gt;unique_open_flower_prototype_objIDs[parent_shoot_type_label].resize(phytomer_parameters.inflorescence.unique_prototypes);</div>
-<div class="line"><a id="l01302" name="l01302"></a><span class="lineno"> 1302</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> prototype = 0; prototype &lt; phytomer_parameters.inflorescence.unique_prototypes; prototype++ ) {</div>
-<div class="line"><a id="l01303" name="l01303"></a><span class="lineno"> 1303</span>                uint objID_flower = phytomer_parameters.inflorescence.flower_prototype_function(context_ptr, 1, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l01304" name="l01304"></a><span class="lineno"> 1304</span>                plantarchitecture_ptr-&gt;unique_open_flower_prototype_objIDs.at(parent_shoot_type_label).at(prototype) = objID_flower;</div>
-<div class="line"><a id="l01305" name="l01305"></a><span class="lineno"> 1305</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a983606fef144a460d4b987032a8ad005">hideObject</a>({objID_flower});</div>
-<div class="line"><a id="l01306" name="l01306"></a><span class="lineno"> 1306</span>            }</div>
-<div class="line"><a id="l01307" name="l01307"></a><span class="lineno"> 1307</span>        }</div>
-<div class="line"><a id="l01308" name="l01308"></a><span class="lineno"> 1308</span>        <span class="comment">//fruit</span></div>
-<div class="line"><a id="l01309" name="l01309"></a><span class="lineno"> 1309</span>        <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.fruit_prototype_function!= <span class="keyword">nullptr</span> &amp;&amp; plantarchitecture_ptr-&gt;unique_fruit_prototype_objIDs.find(parent_shoot_type_label) == plantarchitecture_ptr-&gt;unique_fruit_prototype_objIDs.end() ) {</div>
-<div class="line"><a id="l01310" name="l01310"></a><span class="lineno"> 1310</span>            plantarchitecture_ptr-&gt;unique_fruit_prototype_objIDs[parent_shoot_type_label].resize(phytomer_parameters.inflorescence.unique_prototypes);</div>
-<div class="line"><a id="l01311" name="l01311"></a><span class="lineno"> 1311</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> prototype = 0; prototype &lt; phytomer_parameters.inflorescence.unique_prototypes; prototype++ ) {</div>
-<div class="line"><a id="l01312" name="l01312"></a><span class="lineno"> 1312</span>                uint objID_fruit = phytomer_parameters.inflorescence.fruit_prototype_function(context_ptr, 1, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l01313" name="l01313"></a><span class="lineno"> 1313</span>                plantarchitecture_ptr-&gt;unique_fruit_prototype_objIDs.at(parent_shoot_type_label).at(prototype) = objID_fruit;</div>
-<div class="line"><a id="l01314" name="l01314"></a><span class="lineno"> 1314</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a983606fef144a460d4b987032a8ad005">hideObject</a>({objID_fruit});</div>
-<div class="line"><a id="l01315" name="l01315"></a><span class="lineno"> 1315</span>            }</div>
-<div class="line"><a id="l01316" name="l01316"></a><span class="lineno"> 1316</span>        }</div>
-<div class="line"><a id="l01317" name="l01317"></a><span class="lineno"> 1317</span>    }</div>
-<div class="line"><a id="l01318" name="l01318"></a><span class="lineno"> 1318</span> </div>
-<div class="line"><a id="l01319" name="l01319"></a><span class="lineno"> 1319</span>    <span class="keywordflow">for</span>(<span class="keywordtype">int</span> fruit=0; fruit &lt; phytomer_parameters.inflorescence.flowers_per_peduncle.val(); fruit++ ){</div>
-<div class="line"><a id="l01320" name="l01320"></a><span class="lineno"> 1320</span> </div>
-<div class="line"><a id="l01321" name="l01321"></a><span class="lineno"> 1321</span>        uint objID_fruit;</div>
-<div class="line"><a id="l01322" name="l01322"></a><span class="lineno"> 1322</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> fruit_scale;</div>
-<div class="line"><a id="l01323" name="l01323"></a><span class="lineno"> 1323</span> </div>
-<div class="line"><a id="l01324" name="l01324"></a><span class="lineno"> 1324</span>        <span class="keywordflow">if</span>(fbud.state == BUD_FRUITING ){</div>
-<div class="line"><a id="l01325" name="l01325"></a><span class="lineno"> 1325</span>            <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.unique_prototypes&gt;0 ) { <span class="comment">//copy existing prototype</span></div>
-<div class="line"><a id="l01326" name="l01326"></a><span class="lineno"> 1326</span>                <span class="keywordtype">int</span> prototype = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0, <span class="keywordtype">int</span>(phytomer_parameters.inflorescence.unique_prototypes - 1));</div>
-<div class="line"><a id="l01327" name="l01327"></a><span class="lineno"> 1327</span>                objID_fruit = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a14f83860167c061e537f29f7754c12c3">copyObject</a>(plantarchitecture_ptr-&gt;unique_fruit_prototype_objIDs.at(parent_shoot_type_label).at(prototype));</div>
-<div class="line"><a id="l01328" name="l01328"></a><span class="lineno"> 1328</span>            }<span class="keywordflow">else</span>{ <span class="comment">//load new prototype</span></div>
-<div class="line"><a id="l01329" name="l01329"></a><span class="lineno"> 1329</span>                objID_fruit = phytomer_parameters.inflorescence.fruit_prototype_function(context_ptr, 1, fbud.time_counter);</div>
-<div class="line"><a id="l01330" name="l01330"></a><span class="lineno"> 1330</span>            }</div>
-<div class="line"><a id="l01331" name="l01331"></a><span class="lineno"> 1331</span>            fruit_scale = phytomer_parameters.inflorescence.fruit_prototype_scale.val()*<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1,1,1);</div>
-<div class="line"><a id="l01332" name="l01332"></a><span class="lineno"> 1332</span>            phytomer_parameters.inflorescence.fruit_prototype_scale.resample();</div>
-<div class="line"><a id="l01333" name="l01333"></a><span class="lineno"> 1333</span>        }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l01334" name="l01334"></a><span class="lineno"> 1334</span>            <span class="keywordtype">bool</span> flower_is_open;</div>
-<div class="line"><a id="l01335" name="l01335"></a><span class="lineno"> 1335</span>            <span class="keywordflow">if</span>(fbud.state == BUD_FLOWER_CLOSED ) {</div>
-<div class="line"><a id="l01336" name="l01336"></a><span class="lineno"> 1336</span>                flower_is_open = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01337" name="l01337"></a><span class="lineno"> 1337</span>                <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.unique_prototypes&gt;0 ) { <span class="comment">//copy existing prototype</span></div>
-<div class="line"><a id="l01338" name="l01338"></a><span class="lineno"> 1338</span>                    <span class="keywordtype">int</span> prototype = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0, <span class="keywordtype">int</span>(phytomer_parameters.inflorescence.unique_prototypes - 1));</div>
-<div class="line"><a id="l01339" name="l01339"></a><span class="lineno"> 1339</span>                    objID_fruit = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a14f83860167c061e537f29f7754c12c3">copyObject</a>(plantarchitecture_ptr-&gt;unique_closed_flower_prototype_objIDs.at(parent_shoot_type_label).at(prototype));</div>
-<div class="line"><a id="l01340" name="l01340"></a><span class="lineno"> 1340</span>                }<span class="keywordflow">else</span>{ <span class="comment">//load new prototype</span></div>
-<div class="line"><a id="l01341" name="l01341"></a><span class="lineno"> 1341</span>                    objID_fruit = phytomer_parameters.inflorescence.flower_prototype_function(context_ptr, 1, flower_is_open);</div>
-<div class="line"><a id="l01342" name="l01342"></a><span class="lineno"> 1342</span>                }</div>
-<div class="line"><a id="l01343" name="l01343"></a><span class="lineno"> 1343</span>            }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l01344" name="l01344"></a><span class="lineno"> 1344</span>                flower_is_open = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l01345" name="l01345"></a><span class="lineno"> 1345</span>                <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.unique_prototypes&gt;0 ) { <span class="comment">//copy existing prototype</span></div>
-<div class="line"><a id="l01346" name="l01346"></a><span class="lineno"> 1346</span>                    <span class="keywordtype">int</span> prototype = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0, <span class="keywordtype">int</span>(phytomer_parameters.inflorescence.unique_prototypes - 1));</div>
-<div class="line"><a id="l01347" name="l01347"></a><span class="lineno"> 1347</span>                    objID_fruit = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a14f83860167c061e537f29f7754c12c3">copyObject</a>(plantarchitecture_ptr-&gt;unique_open_flower_prototype_objIDs.at(parent_shoot_type_label).at(prototype));</div>
-<div class="line"><a id="l01348" name="l01348"></a><span class="lineno"> 1348</span>                }<span class="keywordflow">else</span>{ <span class="comment">//load new prototype</span></div>
-<div class="line"><a id="l01349" name="l01349"></a><span class="lineno"> 1349</span>                    objID_fruit = phytomer_parameters.inflorescence.flower_prototype_function(context_ptr, 1, flower_is_open);</div>
-<div class="line"><a id="l01350" name="l01350"></a><span class="lineno"> 1350</span>                }</div>
-<div class="line"><a id="l01351" name="l01351"></a><span class="lineno"> 1351</span>            }</div>
-<div class="line"><a id="l01352" name="l01352"></a><span class="lineno"> 1352</span>            fruit_scale = phytomer_parameters.inflorescence.flower_prototype_scale.val()*<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1,1,1);</div>
-<div class="line"><a id="l01353" name="l01353"></a><span class="lineno"> 1353</span>            phytomer_parameters.inflorescence.flower_prototype_scale.resample();</div>
-<div class="line"><a id="l01354" name="l01354"></a><span class="lineno"> 1354</span>        }</div>
-<div class="line"><a id="l01355" name="l01355"></a><span class="lineno"> 1355</span> </div>
-<div class="line"><a id="l01356" name="l01356"></a><span class="lineno"> 1356</span>        <span class="keywordtype">float</span> ind_from_tip = fabs(fruit - <span class="keywordtype">float</span>(phytomer_parameters.inflorescence.flowers_per_peduncle.val() - 1) / <span class="keywordtype">float</span>(phytomer_parameters.petiole.petioles_per_internode));</div>
-<div class="line"><a id="l01357" name="l01357"></a><span class="lineno"> 1357</span> </div>
-<div class="line"><a id="l01358" name="l01358"></a><span class="lineno"> 1358</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#afe9817e155de4a39bc82b000c5d0e888">scaleObject</a>( objID_fruit, fruit_scale );</div>
-<div class="line"><a id="l01359" name="l01359"></a><span class="lineno"> 1359</span> </div>
-<div class="line"><a id="l01360" name="l01360"></a><span class="lineno"> 1360</span>        <span class="comment">//if we have more than one flower/fruit, we need to adjust the base position of the fruit</span></div>
-<div class="line"><a id="l01361" name="l01361"></a><span class="lineno"> 1361</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> fruit_base = peduncle_vertices.back();</div>
-<div class="line"><a id="l01362" name="l01362"></a><span class="lineno"> 1362</span>        <span class="keywordtype">float</span> frac = 1;</div>
-<div class="line"><a id="l01363" name="l01363"></a><span class="lineno"> 1363</span>        <span class="keywordflow">if</span>(phytomer_parameters.inflorescence.flowers_per_peduncle.val() &gt; 1 &amp;&amp; phytomer_parameters.inflorescence.flower_offset.val() &gt; 0 ){</div>
-<div class="line"><a id="l01364" name="l01364"></a><span class="lineno"> 1364</span>            <span class="keywordflow">if</span>( ind_from_tip != 0 ) {</div>
-<div class="line"><a id="l01365" name="l01365"></a><span class="lineno"> 1365</span>                <span class="keywordtype">float</span> offset = offset = (ind_from_tip - 0.5f) * phytomer_parameters.inflorescence.flower_offset.val() * phytomer_parameters.peduncle.length.val();</div>
-<div class="line"><a id="l01366" name="l01366"></a><span class="lineno"> 1366</span>                <span class="keywordflow">if</span>( phytomer_parameters.peduncle.length.val()&gt;0 ){</div>
-<div class="line"><a id="l01367" name="l01367"></a><span class="lineno"> 1367</span>                    frac = 1.f - offset / phytomer_parameters.peduncle.length.val();</div>
-<div class="line"><a id="l01368" name="l01368"></a><span class="lineno"> 1368</span>                }</div>
-<div class="line"><a id="l01369" name="l01369"></a><span class="lineno"> 1369</span>                fruit_base = <a class="code hl_function" href="_canopy_generator_8h.html#a339d165bb0c396a75ce255fbe16a20d4">interpolateTube</a>(peduncle_vertices, frac);</div>
-<div class="line"><a id="l01370" name="l01370"></a><span class="lineno"> 1370</span>            }</div>
-<div class="line"><a id="l01371" name="l01371"></a><span class="lineno"> 1371</span>        }</div>
-<div class="line"><a id="l01372" name="l01372"></a><span class="lineno"> 1372</span> </div>
-<div class="line"><a id="l01373" name="l01373"></a><span class="lineno"> 1373</span>        <span class="comment">//if we have more than one flower/fruit, we need to adjust the rotation about the peduncle</span></div>
-<div class="line"><a id="l01374" name="l01374"></a><span class="lineno"> 1374</span>        <span class="keywordtype">float</span> compound_rotation = 0;</div>
-<div class="line"><a id="l01375" name="l01375"></a><span class="lineno"> 1375</span>        <span class="keywordflow">if</span>(phytomer_parameters.inflorescence.flowers_per_peduncle.val() &gt; 1 ) {</div>
-<div class="line"><a id="l01376" name="l01376"></a><span class="lineno"> 1376</span>            <span class="keywordflow">if</span> (phytomer_parameters.inflorescence.flower_offset.val() == 0) { <span class="comment">//flowers/fruit are all at the tip, so just equally distribute them about the azimuth</span></div>
-<div class="line"><a id="l01377" name="l01377"></a><span class="lineno"> 1377</span>                <span class="keywordtype">float</span> dphi = M_PI / (floor(0.5 * <span class="keywordtype">float</span>(phytomer_parameters.inflorescence.flowers_per_peduncle.val() - 1)) + 1);</div>
-<div class="line"><a id="l01378" name="l01378"></a><span class="lineno"> 1378</span>                compound_rotation = -float(M_PI) + dphi * (fruit + 0.5f);</div>
-<div class="line"><a id="l01379" name="l01379"></a><span class="lineno"> 1379</span>            } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l01380" name="l01380"></a><span class="lineno"> 1380</span>                compound_rotation = <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.internode.phyllotactic_angle.val())*float(ind_from_tip) + 2.f*M_PI/float(phytomer_parameters.petiole.petioles_per_internode)*float(fruit);</div>
-<div class="line"><a id="l01381" name="l01381"></a><span class="lineno"> 1381</span>                phytomer_parameters.internode.phyllotactic_angle.resample();</div>
-<div class="line"><a id="l01382" name="l01382"></a><span class="lineno"> 1382</span>            }</div>
-<div class="line"><a id="l01383" name="l01383"></a><span class="lineno"> 1383</span>        }</div>
-<div class="line"><a id="l01384" name="l01384"></a><span class="lineno"> 1384</span> </div>
-<div class="line"><a id="l01385" name="l01385"></a><span class="lineno"> 1385</span>        peduncle_axis = getAxisVector(frac, peduncle_vertices );</div>
-<div class="line"><a id="l01386" name="l01386"></a><span class="lineno"> 1386</span> </div>
-<div class="line"><a id="l01387" name="l01387"></a><span class="lineno"> 1387</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> fruit_axis = peduncle_axis;</div>
-<div class="line"><a id="l01388" name="l01388"></a><span class="lineno"> 1388</span> </div>
-<div class="line"><a id="l01389" name="l01389"></a><span class="lineno"> 1389</span>        <span class="comment">//roll rotation</span></div>
-<div class="line"><a id="l01390" name="l01390"></a><span class="lineno"> 1390</span>        <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.roll.val()!=0.f ) {</div>
-<div class="line"><a id="l01391" name="l01391"></a><span class="lineno"> 1391</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(objID_fruit, <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.inflorescence.roll.val()), <span class="stringliteral">&quot;x&quot;</span> );</div>
-<div class="line"><a id="l01392" name="l01392"></a><span class="lineno"> 1392</span>            phytomer_parameters.inflorescence.roll.resample();</div>
-<div class="line"><a id="l01393" name="l01393"></a><span class="lineno"> 1393</span>        }</div>
-<div class="line"><a id="l01394" name="l01394"></a><span class="lineno"> 1394</span> </div>
-<div class="line"><a id="l01395" name="l01395"></a><span class="lineno"> 1395</span>        <span class="comment">//pitch rotation</span></div>
-<div class="line"><a id="l01396" name="l01396"></a><span class="lineno"> 1396</span>        <span class="keywordtype">float</span> pitch_inflorescence = -<a class="code hl_function" href="group__functions.html#gac400d6d37ff2494ec592a9f0a17ee9ab">asin_safe</a>(peduncle_axis.z) + <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.inflorescence.pitch.val());</div>
-<div class="line"><a id="l01397" name="l01397"></a><span class="lineno"> 1397</span>        phytomer_parameters.inflorescence.pitch.resample();</div>
-<div class="line"><a id="l01398" name="l01398"></a><span class="lineno"> 1398</span>        <span class="keywordflow">if</span>(fbud.state == BUD_FRUITING ) { <span class="comment">//gravity effect for fruit</span></div>
-<div class="line"><a id="l01399" name="l01399"></a><span class="lineno"> 1399</span>            pitch_inflorescence = pitch_inflorescence + phytomer_parameters.inflorescence.fruit_gravity_factor_fraction.val() * (0.5f * M_PI - pitch_inflorescence);</div>
-<div class="line"><a id="l01400" name="l01400"></a><span class="lineno"> 1400</span>        }</div>
-<div class="line"><a id="l01401" name="l01401"></a><span class="lineno"> 1401</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(objID_fruit, pitch_inflorescence, <span class="stringliteral">&quot;y&quot;</span>);</div>
-<div class="line"><a id="l01402" name="l01402"></a><span class="lineno"> 1402</span>        fruit_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(fruit_axis, nullorigin, <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1, 0, 0), pitch_inflorescence);</div>
-<div class="line"><a id="l01403" name="l01403"></a><span class="lineno"> 1403</span> </div>
-<div class="line"><a id="l01404" name="l01404"></a><span class="lineno"> 1404</span>        <span class="comment">//rotate flower/fruit to azimuth of peduncle</span></div>
-<div class="line"><a id="l01405" name="l01405"></a><span class="lineno"> 1405</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(objID_fruit, -std::atan2(peduncle_axis.y, peduncle_axis.x), <span class="stringliteral">&quot;z&quot;</span> );</div>
-<div class="line"><a id="l01406" name="l01406"></a><span class="lineno"> 1406</span>        fruit_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>( fruit_axis, nullorigin, <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,1), -std::atan2(peduncle_axis.y, peduncle_axis.x) );</div>
-<div class="line"><a id="l01407" name="l01407"></a><span class="lineno"> 1407</span> </div>
-<div class="line"><a id="l01408" name="l01408"></a><span class="lineno"> 1408</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>( objID_fruit, fruit_base );</div>
-<div class="line"><a id="l01409" name="l01409"></a><span class="lineno"> 1409</span> </div>
-<div class="line"><a id="l01410" name="l01410"></a><span class="lineno"> 1410</span>        <span class="comment">//rotate flower/fruit about peduncle (roll)</span></div>
-<div class="line"><a id="l01411" name="l01411"></a><span class="lineno"> 1411</span>        <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.fruit_gravity_factor_fraction.val()!=0 &amp;&amp; fbud.state == BUD_FRUITING ) {</div>
-<div class="line"><a id="l01412" name="l01412"></a><span class="lineno"> 1412</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(objID_fruit, <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.peduncle.roll.val()) + compound_rotation, fruit_base, <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0, 0, 1));</div>
-<div class="line"><a id="l01413" name="l01413"></a><span class="lineno"> 1413</span>        }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l01414" name="l01414"></a><span class="lineno"> 1414</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(objID_fruit, <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.peduncle.roll.val()) + compound_rotation, fruit_base, peduncle_axis);</div>
-<div class="line"><a id="l01415" name="l01415"></a><span class="lineno"> 1415</span>            fruit_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(fruit_axis, nullorigin, peduncle_axis, <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.peduncle.roll.val()) + compound_rotation);</div>
-<div class="line"><a id="l01416" name="l01416"></a><span class="lineno"> 1416</span>        }</div>
-<div class="line"><a id="l01417" name="l01417"></a><span class="lineno"> 1417</span>        phytomer_parameters.inflorescence.fruit_gravity_factor_fraction.resample();</div>
-<div class="line"><a id="l01418" name="l01418"></a><span class="lineno"> 1418</span> </div>
-<div class="line"><a id="l01419" name="l01419"></a><span class="lineno"> 1419</span>        fbud.inflorescence_bases.push_back(fruit_base );</div>
-<div class="line"><a id="l01420" name="l01420"></a><span class="lineno"> 1420</span> </div>
-<div class="line"><a id="l01421" name="l01421"></a><span class="lineno"> 1421</span>        fbud.inflorescence_objIDs.push_back(objID_fruit );</div>
-<div class="line"><a id="l01422" name="l01422"></a><span class="lineno"> 1422</span> </div>
-<div class="line"><a id="l01423" name="l01423"></a><span class="lineno"> 1423</span>    }</div>
-<div class="line"><a id="l01424" name="l01424"></a><span class="lineno"> 1424</span>    phytomer_parameters.inflorescence.flowers_per_peduncle.resample();</div>
-<div class="line"><a id="l01425" name="l01425"></a><span class="lineno"> 1425</span>    phytomer_parameters.peduncle.roll.resample();</div>
-<div class="line"><a id="l01426" name="l01426"></a><span class="lineno"> 1426</span> </div>
-<div class="line"><a id="l01427" name="l01427"></a><span class="lineno"> 1427</span>    <span class="keywordflow">if</span>( plantarchitecture_ptr-&gt;output_object_data.at(<span class="stringliteral">&quot;rank&quot;</span>) ) {</div>
-<div class="line"><a id="l01428" name="l01428"></a><span class="lineno"> 1428</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>(fbud.peduncle_objIDs, <span class="stringliteral">&quot;rank&quot;</span>, rank );</div>
-<div class="line"><a id="l01429" name="l01429"></a><span class="lineno"> 1429</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>(fbud.inflorescence_objIDs, <span class="stringliteral">&quot;rank&quot;</span>, rank );</div>
-<div class="line"><a id="l01430" name="l01430"></a><span class="lineno"> 1430</span>    }</div>
-<div class="line"><a id="l01431" name="l01431"></a><span class="lineno"> 1431</span> </div>
-<div class="line"><a id="l01432" name="l01432"></a><span class="lineno"> 1432</span>    <span class="keywordflow">if</span>( plantarchitecture_ptr-&gt;output_object_data.at(<span class="stringliteral">&quot;peduncleID&quot;</span>) ) {</div>
-<div class="line"><a id="l01433" name="l01433"></a><span class="lineno"> 1433</span>        <span class="keywordflow">for</span> (uint objID: fbud.peduncle_objIDs) {</div>
-<div class="line"><a id="l01434" name="l01434"></a><span class="lineno"> 1434</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>(objID, <span class="stringliteral">&quot;peduncleID&quot;</span>, (<span class="keywordtype">int</span>) objID);</div>
-<div class="line"><a id="l01435" name="l01435"></a><span class="lineno"> 1435</span>        }</div>
-<div class="line"><a id="l01436" name="l01436"></a><span class="lineno"> 1436</span>    }</div>
-<div class="line"><a id="l01437" name="l01437"></a><span class="lineno"> 1437</span>    <span class="keywordflow">for</span>( uint objID : fbud.inflorescence_objIDs ) {</div>
-<div class="line"><a id="l01438" name="l01438"></a><span class="lineno"> 1438</span>        <span class="keywordflow">if</span>( fbud.state == BUD_FLOWER_CLOSED &amp;&amp; plantarchitecture_ptr-&gt;output_object_data.at(<span class="stringliteral">&quot;closedflowerID&quot;</span>) ) {</div>
-<div class="line"><a id="l01439" name="l01439"></a><span class="lineno"> 1439</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>( objID, <span class="stringliteral">&quot;closedflowerID&quot;</span>, (<span class="keywordtype">int</span>) objID);</div>
-<div class="line"><a id="l01440" name="l01440"></a><span class="lineno"> 1440</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( fbud.state == BUD_FLOWER_OPEN &amp;&amp; plantarchitecture_ptr-&gt;output_object_data.at(<span class="stringliteral">&quot;openflowerID&quot;</span>) ) {</div>
-<div class="line"><a id="l01441" name="l01441"></a><span class="lineno"> 1441</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6c96c0f3fbb3c31ae9aad750d647903b">clearObjectData</a>( objID, <span class="stringliteral">&quot;closedflowerID&quot;</span> );</div>
-<div class="line"><a id="l01442" name="l01442"></a><span class="lineno"> 1442</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>( objID, <span class="stringliteral">&quot;openflowerID&quot;</span>, (<span class="keywordtype">int</span>) objID);</div>
-<div class="line"><a id="l01443" name="l01443"></a><span class="lineno"> 1443</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( plantarchitecture_ptr-&gt;output_object_data.at(<span class="stringliteral">&quot;fruitID&quot;</span>) ){</div>
-<div class="line"><a id="l01444" name="l01444"></a><span class="lineno"> 1444</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>( objID, <span class="stringliteral">&quot;fruitID&quot;</span>, (<span class="keywordtype">int</span>) objID);</div>
-<div class="line"><a id="l01445" name="l01445"></a><span class="lineno"> 1445</span>        }</div>
-<div class="line"><a id="l01446" name="l01446"></a><span class="lineno"> 1446</span>    }</div>
-<div class="line"><a id="l01447" name="l01447"></a><span class="lineno"> 1447</span> </div>
-<div class="line"><a id="l01448" name="l01448"></a><span class="lineno"> 1448</span>}</div>
-<div class="line"><a id="l01449" name="l01449"></a><span class="lineno"> 1449</span> </div>
-<div class="line"><a id="l01450" name="l01450"></a><span class="lineno"> 1450</span><span class="keywordtype">void</span> Phytomer::setPetioleBase( <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position ){</div>
-<div class="line"><a id="l01451" name="l01451"></a><span class="lineno"> 1451</span> </div>
-<div class="line"><a id="l01452" name="l01452"></a><span class="lineno"> 1452</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> old_base = <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.front().front();</div>
-<div class="line"><a id="l01453" name="l01453"></a><span class="lineno"> 1453</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> shift = base_position - old_base;</div>
-<div class="line"><a id="l01454" name="l01454"></a><span class="lineno"> 1454</span> </div>
-<div class="line"><a id="l01455" name="l01455"></a><span class="lineno"> 1455</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer_parameters.petiole.petioles_per_internode; petiole++ ) {</div>
-<div class="line"><a id="l01456" name="l01456"></a><span class="lineno"> 1456</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;vertex: <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole) ) {</div>
-<div class="line"><a id="l01457" name="l01457"></a><span class="lineno"> 1457</span>            vertex += shift;</div>
-<div class="line"><a id="l01458" name="l01458"></a><span class="lineno"> 1458</span>        }</div>
-<div class="line"><a id="l01459" name="l01459"></a><span class="lineno"> 1459</span>    }</div>
-<div class="line"><a id="l01460" name="l01460"></a><span class="lineno"> 1460</span> </div>
-<div class="line"><a id="l01461" name="l01461"></a><span class="lineno"> 1461</span>    <span class="keywordflow">if</span>( build_context_geometry_petiole ) {</div>
-<div class="line"><a id="l01462" name="l01462"></a><span class="lineno"> 1462</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>(<a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(petiole_objIDs), shift);</div>
-<div class="line"><a id="l01463" name="l01463"></a><span class="lineno"> 1463</span>    }</div>
-<div class="line"><a id="l01464" name="l01464"></a><span class="lineno"> 1464</span>    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>( <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(leaf_objIDs), shift );</div>
-<div class="line"><a id="l01465" name="l01465"></a><span class="lineno"> 1465</span> </div>
-<div class="line"><a id="l01466" name="l01466"></a><span class="lineno"> 1466</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole=0; petiole&lt;leaf_bases.size(); petiole++ ) {</div>
-<div class="line"><a id="l01467" name="l01467"></a><span class="lineno"> 1467</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;leaf_base: leaf_bases.at(petiole)) {</div>
-<div class="line"><a id="l01468" name="l01468"></a><span class="lineno"> 1468</span>            leaf_base += shift;</div>
-<div class="line"><a id="l01469" name="l01469"></a><span class="lineno"> 1469</span>        }</div>
-<div class="line"><a id="l01470" name="l01470"></a><span class="lineno"> 1470</span>        <span class="keywordflow">for</span> ( <span class="keyword">auto</span> &amp;fbud : floral_buds.at(petiole) ) {</div>
-<div class="line"><a id="l01471" name="l01471"></a><span class="lineno"> 1471</span>            assert( !fbud.isterminal );</div>
-<div class="line"><a id="l01472" name="l01472"></a><span class="lineno"> 1472</span>            fbud.base_position = <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).front();</div>
-<div class="line"><a id="l01473" name="l01473"></a><span class="lineno"> 1473</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>( fbud.inflorescence_objIDs, shift);</div>
-<div class="line"><a id="l01474" name="l01474"></a><span class="lineno"> 1474</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;base : fbud.inflorescence_bases ) {</div>
-<div class="line"><a id="l01475" name="l01475"></a><span class="lineno"> 1475</span>                base += shift;</div>
-<div class="line"><a id="l01476" name="l01476"></a><span class="lineno"> 1476</span>            }</div>
-<div class="line"><a id="l01477" name="l01477"></a><span class="lineno"> 1477</span>            <span class="keywordflow">if</span>( build_context_geometry_peduncle ) {</div>
-<div class="line"><a id="l01478" name="l01478"></a><span class="lineno"> 1478</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>( fbud.peduncle_objIDs, shift);</div>
-<div class="line"><a id="l01479" name="l01479"></a><span class="lineno"> 1479</span>            }</div>
-<div class="line"><a id="l01480" name="l01480"></a><span class="lineno"> 1480</span>        }</div>
-<div class="line"><a id="l01481" name="l01481"></a><span class="lineno"> 1481</span>    }</div>
-<div class="line"><a id="l01482" name="l01482"></a><span class="lineno"> 1482</span> </div>
-<div class="line"><a id="l01483" name="l01483"></a><span class="lineno"> 1483</span>}</div>
-<div class="line"><a id="l01484" name="l01484"></a><span class="lineno"> 1484</span> </div>
-<div class="line"><a id="l01485" name="l01485"></a><span class="lineno"> 1485</span><span class="keywordtype">void</span> Phytomer::rotateLeaf( uint petiole_index, uint leaf_index, <span class="keyword">const</span> <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> &amp;rotation ){</div>
-<div class="line"><a id="l01486" name="l01486"></a><span class="lineno"> 1486</span> </div>
-<div class="line"><a id="l01487" name="l01487"></a><span class="lineno"> 1487</span>    <span class="keywordflow">if</span>( petiole_index&gt;=leaf_objIDs.size() ){</div>
-<div class="line"><a id="l01488" name="l01488"></a><span class="lineno"> 1488</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::Phytomer): Invalid petiole index.&quot;</span>);</div>
-<div class="line"><a id="l01489" name="l01489"></a><span class="lineno"> 1489</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( leaf_index&gt;=leaf_objIDs.at(petiole_index).size() ){</div>
-<div class="line"><a id="l01490" name="l01490"></a><span class="lineno"> 1490</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::Phytomer): Invalid leaf index.&quot;</span>);</div>
-<div class="line"><a id="l01491" name="l01491"></a><span class="lineno"> 1491</span>    }</div>
-<div class="line"><a id="l01492" name="l01492"></a><span class="lineno"> 1492</span> </div>
-<div class="line"><a id="l01493" name="l01493"></a><span class="lineno"> 1493</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> petiole_axis = getPetioleAxisVector(1.f, petiole_index); <span class="comment">//note: this is not exactly correct because it should get the axis at the leaf position and not the tip</span></div>
-<div class="line"><a id="l01494" name="l01494"></a><span class="lineno"> 1494</span> </div>
-<div class="line"><a id="l01495" name="l01495"></a><span class="lineno"> 1495</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> internode_axis = getInternodeAxisVector(1.f);</div>
-<div class="line"><a id="l01496" name="l01496"></a><span class="lineno"> 1496</span> </div>
-<div class="line"><a id="l01497" name="l01497"></a><span class="lineno"> 1497</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> pitch_axis = -1*<a class="code hl_function" href="helios__vector__types_8h.html#aa4e7459e7404915c12903a5c08588f5b">cross</a>( internode_axis, petiole_axis );</div>
-<div class="line"><a id="l01498" name="l01498"></a><span class="lineno"> 1498</span> </div>
-<div class="line"><a id="l01499" name="l01499"></a><span class="lineno"> 1499</span>    <span class="keywordtype">int</span> leaves_per_petiole = leaf_rotation.at(petiole_index).size();</div>
-<div class="line"><a id="l01500" name="l01500"></a><span class="lineno"> 1500</span>    <span class="keywordtype">float</span> yaw;</div>
-<div class="line"><a id="l01501" name="l01501"></a><span class="lineno"> 1501</span>    <span class="keywordtype">float</span> roll;</div>
-<div class="line"><a id="l01502" name="l01502"></a><span class="lineno"> 1502</span>    <span class="keywordtype">float</span> compound_rotation = 0;</div>
-<div class="line"><a id="l01503" name="l01503"></a><span class="lineno"> 1503</span>    <span class="keywordflow">if</span>( leaf_index == <span class="keywordtype">float</span>(leaves_per_petiole-1)/2.f ){ <span class="comment">//tip leaf</span></div>
-<div class="line"><a id="l01504" name="l01504"></a><span class="lineno"> 1504</span>        roll = 0;</div>
-<div class="line"><a id="l01505" name="l01505"></a><span class="lineno"> 1505</span>        yaw = 0;</div>
-<div class="line"><a id="l01506" name="l01506"></a><span class="lineno"> 1506</span>        compound_rotation = 0;</div>
-<div class="line"><a id="l01507" name="l01507"></a><span class="lineno"> 1507</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( leaf_index &lt; <span class="keywordtype">float</span>(leaves_per_petiole-1)/2.f ) {</div>
-<div class="line"><a id="l01508" name="l01508"></a><span class="lineno"> 1508</span>        yaw = -rotation.yaw;</div>
-<div class="line"><a id="l01509" name="l01509"></a><span class="lineno"> 1509</span>        roll = -rotation.roll;</div>
-<div class="line"><a id="l01510" name="l01510"></a><span class="lineno"> 1510</span>        compound_rotation = -0.5*M_PI;</div>
-<div class="line"><a id="l01511" name="l01511"></a><span class="lineno"> 1511</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l01512" name="l01512"></a><span class="lineno"> 1512</span>        yaw = -rotation.yaw;</div>
-<div class="line"><a id="l01513" name="l01513"></a><span class="lineno"> 1513</span>        roll = rotation.roll;</div>
-<div class="line"><a id="l01514" name="l01514"></a><span class="lineno"> 1514</span>        compound_rotation = 0.5*M_PI;</div>
-<div class="line"><a id="l01515" name="l01515"></a><span class="lineno"> 1515</span>    }</div>
-<div class="line"><a id="l01516" name="l01516"></a><span class="lineno"> 1516</span> </div>
-<div class="line"><a id="l01517" name="l01517"></a><span class="lineno"> 1517</span>    <span class="comment">//roll</span></div>
-<div class="line"><a id="l01518" name="l01518"></a><span class="lineno"> 1518</span>    <span class="keywordflow">if</span>( roll!=0.f ) {</div>
-<div class="line"><a id="l01519" name="l01519"></a><span class="lineno"> 1519</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> roll_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>({petiole_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, petiole_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, 0}, <a class="code hl_variable" href="global_8h.html#a876dc18d1da8ace50c131f428f8883be">nullorigin</a>, {0, 0, 1}, leaf_rotation.at(petiole_index).at(leaf_index).yaw + compound_rotation);</div>
-<div class="line"><a id="l01520" name="l01520"></a><span class="lineno"> 1520</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(leaf_objIDs.at(petiole_index).at(leaf_index), roll, leaf_bases.at(petiole_index).at(leaf_index), roll_axis);</div>
-<div class="line"><a id="l01521" name="l01521"></a><span class="lineno"> 1521</span>        leaf_rotation.at(petiole_index).at(leaf_index).roll += roll;</div>
-<div class="line"><a id="l01522" name="l01522"></a><span class="lineno"> 1522</span>    }</div>
-<div class="line"><a id="l01523" name="l01523"></a><span class="lineno"> 1523</span> </div>
-<div class="line"><a id="l01524" name="l01524"></a><span class="lineno"> 1524</span>    <span class="comment">//pitch</span></div>
-<div class="line"><a id="l01525" name="l01525"></a><span class="lineno"> 1525</span>    <span class="keywordflow">if</span>( rotation.pitch!=0 ) {</div>
-<div class="line"><a id="l01526" name="l01526"></a><span class="lineno"> 1526</span>        pitch_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(pitch_axis, nullorigin, {0, 0, 1}, -compound_rotation);</div>
-<div class="line"><a id="l01527" name="l01527"></a><span class="lineno"> 1527</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(leaf_objIDs.at(petiole_index).at(leaf_index), rotation.pitch, leaf_bases.at(petiole_index).at(leaf_index), pitch_axis);</div>
-<div class="line"><a id="l01528" name="l01528"></a><span class="lineno"> 1528</span>        leaf_rotation.at(petiole_index).at(leaf_index).pitch += rotation.pitch;</div>
-<div class="line"><a id="l01529" name="l01529"></a><span class="lineno"> 1529</span>    }</div>
-<div class="line"><a id="l01530" name="l01530"></a><span class="lineno"> 1530</span> </div>
-<div class="line"><a id="l01531" name="l01531"></a><span class="lineno"> 1531</span>    <span class="comment">//yaw</span></div>
-<div class="line"><a id="l01532" name="l01532"></a><span class="lineno"> 1532</span>    <span class="keywordflow">if</span>( yaw!=0.f ) {</div>
-<div class="line"><a id="l01533" name="l01533"></a><span class="lineno"> 1533</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(leaf_objIDs.at(petiole_index).at(leaf_index), yaw, leaf_bases.at(petiole_index).at(leaf_index), {0, 0, 1});</div>
-<div class="line"><a id="l01534" name="l01534"></a><span class="lineno"> 1534</span>        leaf_rotation.at(petiole_index).at(leaf_index).yaw += yaw;</div>
-<div class="line"><a id="l01535" name="l01535"></a><span class="lineno"> 1535</span>    }</div>
-<div class="line"><a id="l01536" name="l01536"></a><span class="lineno"> 1536</span> </div>
-<div class="line"><a id="l01537" name="l01537"></a><span class="lineno"> 1537</span>}</div>
-<div class="line"><a id="l01538" name="l01538"></a><span class="lineno"> 1538</span> </div>
-<div class="line"><a id="l01539" name="l01539"></a><span class="lineno"> 1539</span><span class="keywordtype">void</span> Phytomer::setInternodeLengthScaleFraction(<span class="keywordtype">float</span> internode_scale_factor_fraction, <span class="keywordtype">bool</span> update_context_geometry) {</div>
-<div class="line"><a id="l01540" name="l01540"></a><span class="lineno"> 1540</span> </div>
-<div class="line"><a id="l01541" name="l01541"></a><span class="lineno"> 1541</span>    assert(internode_scale_factor_fraction &gt;= 0 &amp;&amp; internode_scale_factor_fraction &lt;= 1 );</div>
-<div class="line"><a id="l01542" name="l01542"></a><span class="lineno"> 1542</span> </div>
-<div class="line"><a id="l01543" name="l01543"></a><span class="lineno"> 1543</span>    <span class="keywordflow">if</span>(internode_scale_factor_fraction == current_internode_scale_factor ){</div>
-<div class="line"><a id="l01544" name="l01544"></a><span class="lineno"> 1544</span>        <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l01545" name="l01545"></a><span class="lineno"> 1545</span>    }</div>
-<div class="line"><a id="l01546" name="l01546"></a><span class="lineno"> 1546</span> </div>
-<div class="line"><a id="l01547" name="l01547"></a><span class="lineno"> 1547</span>    <span class="keywordtype">float</span> delta_scale = internode_scale_factor_fraction / current_internode_scale_factor;</div>
-<div class="line"><a id="l01548" name="l01548"></a><span class="lineno"> 1548</span> </div>
-<div class="line"><a id="l01549" name="l01549"></a><span class="lineno"> 1549</span>    <span class="keywordtype">float</span> current_internode_length = getInternodeLength();</div>
-<div class="line"><a id="l01550" name="l01550"></a><span class="lineno"> 1550</span>    <span class="keywordtype">float</span> internode_length = current_internode_length*delta_scale;</div>
-<div class="line"><a id="l01551" name="l01551"></a><span class="lineno"> 1551</span>    current_internode_scale_factor = internode_scale_factor_fraction;</div>
-<div class="line"><a id="l01552" name="l01552"></a><span class="lineno"> 1552</span> </div>
-<div class="line"><a id="l01553" name="l01553"></a><span class="lineno"> 1553</span>    <span class="keywordtype">int</span> p = <a class="code hl_variable" href="struct_phytomer.html#aa35d5da6c2d3ae761d1b4ce491db2e17">shoot_index</a>.<a class="code hl_variable" href="structhelios_1_1int3.html#a1ce8c8391637ea6e33bb30b1d0adfc50">x</a>;</div>
-<div class="line"><a id="l01554" name="l01554"></a><span class="lineno"> 1554</span>    <span class="keywordtype">int</span> s_start = (p == 0) ? 1 : 0; <span class="comment">//skip the first node at the base of the shoot</span></div>
-<div class="line"><a id="l01555" name="l01555"></a><span class="lineno"> 1555</span> </div>
-<div class="line"><a id="l01556" name="l01556"></a><span class="lineno"> 1556</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> s = s_start; s &lt; parent_shoot_ptr-&gt;shoot_internode_vertices.at(p).size(); s++) { <span class="comment">//looping over all segments within this phytomer internode</span></div>
-<div class="line"><a id="l01557" name="l01557"></a><span class="lineno"> 1557</span> </div>
-<div class="line"><a id="l01558" name="l01558"></a><span class="lineno"> 1558</span>        <span class="keywordtype">int</span> p_minus = p;</div>
-<div class="line"><a id="l01559" name="l01559"></a><span class="lineno"> 1559</span>        <span class="keywordtype">int</span> s_minus = s-1;</div>
-<div class="line"><a id="l01560" name="l01560"></a><span class="lineno"> 1560</span>        <span class="keywordflow">if</span>( s_minus&lt;0 ){</div>
-<div class="line"><a id="l01561" name="l01561"></a><span class="lineno"> 1561</span>            p_minus--;</div>
-<div class="line"><a id="l01562" name="l01562"></a><span class="lineno"> 1562</span>            s_minus = int(parent_shoot_ptr-&gt;shoot_internode_vertices.at(p_minus).size()-1);</div>
-<div class="line"><a id="l01563" name="l01563"></a><span class="lineno"> 1563</span>        }</div>
-<div class="line"><a id="l01564" name="l01564"></a><span class="lineno"> 1564</span> </div>
-<div class="line"><a id="l01565" name="l01565"></a><span class="lineno"> 1565</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> central_axis = (parent_shoot_ptr-&gt;shoot_internode_vertices.at(p).at(s) - parent_shoot_ptr-&gt;shoot_internode_vertices.at(p_minus).at(s_minus));</div>
-<div class="line"><a id="l01566" name="l01566"></a><span class="lineno"> 1566</span>        <span class="keywordtype">float</span> current_length = central_axis.<a class="code hl_function" href="structhelios_1_1vec3.html#adb96b24e6544d106a19e029c2594fee4">magnitude</a>();</div>
-<div class="line"><a id="l01567" name="l01567"></a><span class="lineno"> 1567</span>        central_axis = central_axis / current_length;</div>
-<div class="line"><a id="l01568" name="l01568"></a><span class="lineno"> 1568</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> dL = central_axis * current_length * (delta_scale - 1);</div>
-<div class="line"><a id="l01569" name="l01569"></a><span class="lineno"> 1569</span> </div>
-<div class="line"><a id="l01570" name="l01570"></a><span class="lineno"> 1570</span>        <span class="comment">//apply shift to all downstream nodes</span></div>
-<div class="line"><a id="l01571" name="l01571"></a><span class="lineno"> 1571</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> p_downstream = p; p_downstream &lt; parent_shoot_ptr-&gt;shoot_internode_vertices.size(); p_downstream++) {</div>
-<div class="line"><a id="l01572" name="l01572"></a><span class="lineno"> 1572</span>            <span class="keywordtype">int</span> sd_start = ( p_downstream==p ) ? s : 0;</div>
-<div class="line"><a id="l01573" name="l01573"></a><span class="lineno"> 1573</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> s_downstream = sd_start; s_downstream &lt; parent_shoot_ptr-&gt;shoot_internode_vertices.at(p_downstream).size(); s_downstream++) {</div>
-<div class="line"><a id="l01574" name="l01574"></a><span class="lineno"> 1574</span>                parent_shoot_ptr-&gt;shoot_internode_vertices.at(p_downstream).at(s_downstream) += dL;</div>
-<div class="line"><a id="l01575" name="l01575"></a><span class="lineno"> 1575</span>            }</div>
-<div class="line"><a id="l01576" name="l01576"></a><span class="lineno"> 1576</span> </div>
-<div class="line"><a id="l01577" name="l01577"></a><span class="lineno"> 1577</span>        }</div>
-<div class="line"><a id="l01578" name="l01578"></a><span class="lineno"> 1578</span> </div>
-<div class="line"><a id="l01579" name="l01579"></a><span class="lineno"> 1579</span>    }</div>
-<div class="line"><a id="l01580" name="l01580"></a><span class="lineno"> 1580</span> </div>
-<div class="line"><a id="l01581" name="l01581"></a><span class="lineno"> 1581</span>    parent_shoot_ptr-&gt;<a class="code hl_function" href="struct_shoot.html#a19eb5d6e3248c45de08774d11cbf329b">updateShootNodes</a>(update_context_geometry);</div>
-<div class="line"><a id="l01582" name="l01582"></a><span class="lineno"> 1582</span> </div>
+<div class="line"><a id="l01198" name="l01198"></a><span class="lineno"> 1198</span> </div>
+<div class="line"><a id="l01199" name="l01199"></a><span class="lineno"> 1199</span>            <span class="comment">// -- leaf translation -- //</span></div>
+<div class="line"><a id="l01200" name="l01200"></a><span class="lineno"> 1200</span> </div>
+<div class="line"><a id="l01201" name="l01201"></a><span class="lineno"> 1201</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> leaf_base = petiole_vertices.at(petiole).back();</div>
+<div class="line"><a id="l01202" name="l01202"></a><span class="lineno"> 1202</span>            <span class="keywordflow">if</span>( leaves_per_petiole&gt;1 &amp;&amp; phytomer_parameters.leaf.leaflet_offset.val()&gt;0 ){</div>
+<div class="line"><a id="l01203" name="l01203"></a><span class="lineno"> 1203</span>                <span class="keywordflow">if</span>( ind_from_tip != 0 ) {</div>
+<div class="line"><a id="l01204" name="l01204"></a><span class="lineno"> 1204</span>                    <span class="keywordtype">float</span> offset = (fabs(ind_from_tip) - 0.5f) * phytomer_parameters.leaf.leaflet_offset.val() * phytomer_parameters.petiole.length.val();</div>
+<div class="line"><a id="l01205" name="l01205"></a><span class="lineno"> 1205</span>                    leaf_base = <a class="code hl_function" href="_canopy_generator_8h.html#a339d165bb0c396a75ce255fbe16a20d4">interpolateTube</a>(petiole_vertices.at(petiole), 1.f - offset / phytomer_parameters.petiole.length.val() );</div>
+<div class="line"><a id="l01206" name="l01206"></a><span class="lineno"> 1206</span>                }</div>
+<div class="line"><a id="l01207" name="l01207"></a><span class="lineno"> 1207</span>            }</div>
+<div class="line"><a id="l01208" name="l01208"></a><span class="lineno"> 1208</span> </div>
+<div class="line"><a id="l01209" name="l01209"></a><span class="lineno"> 1209</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>( objID_leaf, leaf_base );</div>
+<div class="line"><a id="l01210" name="l01210"></a><span class="lineno"> 1210</span> </div>
+<div class="line"><a id="l01211" name="l01211"></a><span class="lineno"> 1211</span>            leaf_objIDs.at(petiole).push_back(objID_leaf );</div>
+<div class="line"><a id="l01212" name="l01212"></a><span class="lineno"> 1212</span>            leaf_bases.at(petiole).push_back(leaf_base );</div>
+<div class="line"><a id="l01213" name="l01213"></a><span class="lineno"> 1213</span> </div>
+<div class="line"><a id="l01214" name="l01214"></a><span class="lineno"> 1214</span>        }</div>
+<div class="line"><a id="l01215" name="l01215"></a><span class="lineno"> 1215</span>        phytomer_parameters.leaf.prototype_scale.resample();</div>
+<div class="line"><a id="l01216" name="l01216"></a><span class="lineno"> 1216</span> </div>
+<div class="line"><a id="l01217" name="l01217"></a><span class="lineno"> 1217</span>        <span class="keywordflow">if</span>( petiole_axis_actual==<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,1) ) {</div>
+<div class="line"><a id="l01218" name="l01218"></a><span class="lineno"> 1218</span>            inflorescence_bending_axis = <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1, 0, 0);</div>
+<div class="line"><a id="l01219" name="l01219"></a><span class="lineno"> 1219</span>        }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l01220" name="l01220"></a><span class="lineno"> 1220</span>            inflorescence_bending_axis = <a class="code hl_function" href="helios__vector__types_8h.html#aa4e7459e7404915c12903a5c08588f5b">cross</a>(<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0, 0, 1), petiole_axis_actual);</div>
+<div class="line"><a id="l01221" name="l01221"></a><span class="lineno"> 1221</span>        }</div>
+<div class="line"><a id="l01222" name="l01222"></a><span class="lineno"> 1222</span> </div>
+<div class="line"><a id="l01223" name="l01223"></a><span class="lineno"> 1223</span>    }</div>
+<div class="line"><a id="l01224" name="l01224"></a><span class="lineno"> 1224</span> </div>
+<div class="line"><a id="l01225" name="l01225"></a><span class="lineno"> 1225</span>}</div>
+<div class="line"><a id="l01226" name="l01226"></a><span class="lineno"> 1226</span> </div>
+<div class="line"><a id="l01227" name="l01227"></a><span class="lineno"> 1227</span><span class="keywordtype">void</span> Phytomer::updateInflorescence(<a class="code hl_struct" href="struct_floral_bud.html">FloralBud</a> &amp;fbud) {</div>
+<div class="line"><a id="l01228" name="l01228"></a><span class="lineno"> 1228</span> </div>
+<div class="line"><a id="l01229" name="l01229"></a><span class="lineno"> 1229</span>    <span class="keywordtype">bool</span> build_context_geometry_peduncle = plantarchitecture_ptr-&gt;build_context_geometry_peduncle;</div>
+<div class="line"><a id="l01230" name="l01230"></a><span class="lineno"> 1230</span> </div>
+<div class="line"><a id="l01231" name="l01231"></a><span class="lineno"> 1231</span>    uint Ndiv_peduncle_length = std::max(uint(1), phytomer_parameters.peduncle.length_segments);</div>
+<div class="line"><a id="l01232" name="l01232"></a><span class="lineno"> 1232</span>    uint Ndiv_peduncle_radius = std::max(uint(3), phytomer_parameters.peduncle.radial_subdivisions);</div>
+<div class="line"><a id="l01233" name="l01233"></a><span class="lineno"> 1233</span>    <span class="keywordflow">if</span>( phytomer_parameters.peduncle.length_segments==0 || phytomer_parameters.peduncle.radial_subdivisions&lt;3 ){</div>
+<div class="line"><a id="l01234" name="l01234"></a><span class="lineno"> 1234</span>        build_context_geometry_peduncle = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01235" name="l01235"></a><span class="lineno"> 1235</span>    }</div>
+<div class="line"><a id="l01236" name="l01236"></a><span class="lineno"> 1236</span> </div>
+<div class="line"><a id="l01237" name="l01237"></a><span class="lineno"> 1237</span>    <span class="keywordtype">float</span> dr_peduncle = phytomer_parameters.peduncle.length.val() / float(Ndiv_peduncle_length);</div>
+<div class="line"><a id="l01238" name="l01238"></a><span class="lineno"> 1238</span>    phytomer_parameters.peduncle.length.resample();</div>
+<div class="line"><a id="l01239" name="l01239"></a><span class="lineno"> 1239</span> </div>
+<div class="line"><a id="l01240" name="l01240"></a><span class="lineno"> 1240</span>    std::vector&lt;vec3&gt; peduncle_vertices(phytomer_parameters.peduncle.length_segments + 1);</div>
+<div class="line"><a id="l01241" name="l01241"></a><span class="lineno"> 1241</span>    peduncle_vertices.at(0) = fbud.base_position;</div>
+<div class="line"><a id="l01242" name="l01242"></a><span class="lineno"> 1242</span>    std::vector&lt;float&gt; peduncle_radii(phytomer_parameters.peduncle.length_segments + 1);</div>
+<div class="line"><a id="l01243" name="l01243"></a><span class="lineno"> 1243</span>    peduncle_radii.at(0) = phytomer_parameters.peduncle.radius.val();</div>
+<div class="line"><a id="l01244" name="l01244"></a><span class="lineno"> 1244</span>    std::vector&lt;RGBcolor&gt; peduncle_colors(phytomer_parameters.peduncle.length_segments + 1);</div>
+<div class="line"><a id="l01245" name="l01245"></a><span class="lineno"> 1245</span>    peduncle_colors.at(0) = phytomer_parameters.peduncle.color;</div>
+<div class="line"><a id="l01246" name="l01246"></a><span class="lineno"> 1246</span> </div>
+<div class="line"><a id="l01247" name="l01247"></a><span class="lineno"> 1247</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> peduncle_axis = getAxisVector(1.f, getInternodeNodePositions() );</div>
+<div class="line"><a id="l01248" name="l01248"></a><span class="lineno"> 1248</span> </div>
+<div class="line"><a id="l01249" name="l01249"></a><span class="lineno"> 1249</span>    <span class="comment">//peduncle pitch rotation</span></div>
+<div class="line"><a id="l01250" name="l01250"></a><span class="lineno"> 1250</span>    <span class="keywordflow">if</span>( phytomer_parameters.peduncle.pitch.val()!=0.f || fbud.base_rotation.pitch!=0.f ) {</div>
+<div class="line"><a id="l01251" name="l01251"></a><span class="lineno"> 1251</span>        peduncle_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(peduncle_axis, nullorigin, inflorescence_bending_axis, <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.peduncle.pitch.val())+fbud.base_rotation.pitch );</div>
+<div class="line"><a id="l01252" name="l01252"></a><span class="lineno"> 1252</span>        phytomer_parameters.peduncle.pitch.resample();</div>
+<div class="line"><a id="l01253" name="l01253"></a><span class="lineno"> 1253</span>    }</div>
+<div class="line"><a id="l01254" name="l01254"></a><span class="lineno"> 1254</span> </div>
+<div class="line"><a id="l01255" name="l01255"></a><span class="lineno"> 1255</span>    <span class="comment">//rotate peduncle to azimuth of petiole and apply peduncle base yaw rotation</span></div>
+<div class="line"><a id="l01256" name="l01256"></a><span class="lineno"> 1256</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> internode_axis = getAxisVector(1.f, getInternodeNodePositions() );</div>
+<div class="line"><a id="l01257" name="l01257"></a><span class="lineno"> 1257</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> parent_petiole_base_axis = getPetioleAxisVector(0.f, fbud.parent_index);</div>
+<div class="line"><a id="l01258" name="l01258"></a><span class="lineno"> 1258</span>    <span class="keywordtype">float</span> parent_petiole_azimuth = -std::atan2(parent_petiole_base_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, parent_petiole_base_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>);</div>
+<div class="line"><a id="l01259" name="l01259"></a><span class="lineno"> 1259</span>    <span class="keywordtype">float</span> current_peduncle_azimuth = -std::atan2(peduncle_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, peduncle_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>);</div>
+<div class="line"><a id="l01260" name="l01260"></a><span class="lineno"> 1260</span>    peduncle_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>( peduncle_axis, nullorigin, internode_axis, (current_peduncle_azimuth-parent_petiole_azimuth) + fbud.base_rotation.yaw );</div>
+<div class="line"><a id="l01261" name="l01261"></a><span class="lineno"> 1261</span> </div>
+<div class="line"><a id="l01262" name="l01262"></a><span class="lineno"> 1262</span>    <span class="keywordtype">float</span> theta_base = fabs(<a class="code hl_function" href="group__functions.html#ga32a34b00e0a28f4b35e501b8b34cfccd">cart2sphere</a>(peduncle_axis).zenith);</div>
+<div class="line"><a id="l01263" name="l01263"></a><span class="lineno"> 1263</span> </div>
+<div class="line"><a id="l01264" name="l01264"></a><span class="lineno"> 1264</span>    <span class="keywordflow">for</span>(<span class="keywordtype">int</span> i=1; i&lt;=phytomer_parameters.peduncle.length_segments; i++ ){</div>
+<div class="line"><a id="l01265" name="l01265"></a><span class="lineno"> 1265</span> </div>
+<div class="line"><a id="l01266" name="l01266"></a><span class="lineno"> 1266</span>        <span class="keywordflow">if</span>( phytomer_parameters.peduncle.curvature.val()!=0.f ) {</div>
+<div class="line"><a id="l01267" name="l01267"></a><span class="lineno"> 1267</span>            <span class="keywordtype">float</span> theta_curvature = -<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.peduncle.curvature.val() * dr_peduncle);</div>
+<div class="line"><a id="l01268" name="l01268"></a><span class="lineno"> 1268</span>            phytomer_parameters.peduncle.curvature.resample();</div>
+<div class="line"><a id="l01269" name="l01269"></a><span class="lineno"> 1269</span>            <span class="keywordflow">if</span> (fabs(theta_curvature) * <span class="keywordtype">float</span>(i) &lt; M_PI - theta_base) {</div>
+<div class="line"><a id="l01270" name="l01270"></a><span class="lineno"> 1270</span>                peduncle_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(peduncle_axis, nullorigin, inflorescence_bending_axis, theta_curvature);</div>
+<div class="line"><a id="l01271" name="l01271"></a><span class="lineno"> 1271</span>            } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l01272" name="l01272"></a><span class="lineno"> 1272</span>                peduncle_axis = <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0, 0, -1);</div>
+<div class="line"><a id="l01273" name="l01273"></a><span class="lineno"> 1273</span>            }</div>
+<div class="line"><a id="l01274" name="l01274"></a><span class="lineno"> 1274</span>        }</div>
+<div class="line"><a id="l01275" name="l01275"></a><span class="lineno"> 1275</span> </div>
+<div class="line"><a id="l01276" name="l01276"></a><span class="lineno"> 1276</span>        peduncle_vertices.at(i) = peduncle_vertices.at(i - 1) + dr_peduncle * peduncle_axis;</div>
+<div class="line"><a id="l01277" name="l01277"></a><span class="lineno"> 1277</span> </div>
+<div class="line"><a id="l01278" name="l01278"></a><span class="lineno"> 1278</span>        peduncle_radii.at(i) = phytomer_parameters.peduncle.radius.val();</div>
+<div class="line"><a id="l01279" name="l01279"></a><span class="lineno"> 1279</span>        peduncle_colors.at(i) = phytomer_parameters.peduncle.color;</div>
+<div class="line"><a id="l01280" name="l01280"></a><span class="lineno"> 1280</span> </div>
+<div class="line"><a id="l01281" name="l01281"></a><span class="lineno"> 1281</span>    }</div>
+<div class="line"><a id="l01282" name="l01282"></a><span class="lineno"> 1282</span>    phytomer_parameters.peduncle.radius.resample();</div>
+<div class="line"><a id="l01283" name="l01283"></a><span class="lineno"> 1283</span> </div>
+<div class="line"><a id="l01284" name="l01284"></a><span class="lineno"> 1284</span>    <span class="keywordflow">if</span>( build_context_geometry_peduncle) {</div>
+<div class="line"><a id="l01285" name="l01285"></a><span class="lineno"> 1285</span>        fbud.peduncle_objIDs.push_back(context_ptr-&gt;<a class="code hl_function" href="group__compoundobjects.html#ga51f79fece15fee384255237359563a18">addTubeObject</a>(Ndiv_peduncle_radius, peduncle_vertices, peduncle_radii, peduncle_colors));</div>
+<div class="line"><a id="l01286" name="l01286"></a><span class="lineno"> 1286</span>    }</div>
+<div class="line"><a id="l01287" name="l01287"></a><span class="lineno"> 1287</span> </div>
+<div class="line"><a id="l01288" name="l01288"></a><span class="lineno"> 1288</span>    <span class="comment">// Create unique inflorescence prototypes for each shoot type so we can simply copy them for each leaf</span></div>
+<div class="line"><a id="l01289" name="l01289"></a><span class="lineno"> 1289</span>    std::string parent_shoot_type_label = plantarchitecture_ptr-&gt;plant_instances.at(this-&gt;plantID).shoot_tree.at(parent_shoot_ID)-&gt;shoot_type_label;</div>
+<div class="line"><a id="l01290" name="l01290"></a><span class="lineno"> 1290</span>    <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.unique_prototypes&gt;0 ){</div>
+<div class="line"><a id="l01291" name="l01291"></a><span class="lineno"> 1291</span>        <span class="comment">//closed flowers</span></div>
+<div class="line"><a id="l01292" name="l01292"></a><span class="lineno"> 1292</span>        <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.flower_prototype_function!= <span class="keyword">nullptr</span> &amp;&amp; plantarchitecture_ptr-&gt;unique_closed_flower_prototype_objIDs.find(parent_shoot_type_label) == plantarchitecture_ptr-&gt;unique_closed_flower_prototype_objIDs.end() ) {</div>
+<div class="line"><a id="l01293" name="l01293"></a><span class="lineno"> 1293</span>            plantarchitecture_ptr-&gt;unique_closed_flower_prototype_objIDs[parent_shoot_type_label].resize(phytomer_parameters.inflorescence.unique_prototypes);</div>
+<div class="line"><a id="l01294" name="l01294"></a><span class="lineno"> 1294</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> prototype = 0; prototype &lt; phytomer_parameters.inflorescence.unique_prototypes; prototype++ ) {</div>
+<div class="line"><a id="l01295" name="l01295"></a><span class="lineno"> 1295</span>                uint objID_flower = phytomer_parameters.inflorescence.flower_prototype_function(context_ptr, 1, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l01296" name="l01296"></a><span class="lineno"> 1296</span>                plantarchitecture_ptr-&gt;unique_closed_flower_prototype_objIDs.at(parent_shoot_type_label).at(prototype) = objID_flower;</div>
+<div class="line"><a id="l01297" name="l01297"></a><span class="lineno"> 1297</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a983606fef144a460d4b987032a8ad005">hideObject</a>({objID_flower});</div>
+<div class="line"><a id="l01298" name="l01298"></a><span class="lineno"> 1298</span>            }</div>
+<div class="line"><a id="l01299" name="l01299"></a><span class="lineno"> 1299</span>        }</div>
+<div class="line"><a id="l01300" name="l01300"></a><span class="lineno"> 1300</span>        <span class="comment">//open flowers</span></div>
+<div class="line"><a id="l01301" name="l01301"></a><span class="lineno"> 1301</span>        <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.flower_prototype_function!= <span class="keyword">nullptr</span> &amp;&amp; plantarchitecture_ptr-&gt;unique_open_flower_prototype_objIDs.find(parent_shoot_type_label) == plantarchitecture_ptr-&gt;unique_open_flower_prototype_objIDs.end() ) {</div>
+<div class="line"><a id="l01302" name="l01302"></a><span class="lineno"> 1302</span>            plantarchitecture_ptr-&gt;unique_open_flower_prototype_objIDs[parent_shoot_type_label].resize(phytomer_parameters.inflorescence.unique_prototypes);</div>
+<div class="line"><a id="l01303" name="l01303"></a><span class="lineno"> 1303</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> prototype = 0; prototype &lt; phytomer_parameters.inflorescence.unique_prototypes; prototype++ ) {</div>
+<div class="line"><a id="l01304" name="l01304"></a><span class="lineno"> 1304</span>                uint objID_flower = phytomer_parameters.inflorescence.flower_prototype_function(context_ptr, 1, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l01305" name="l01305"></a><span class="lineno"> 1305</span>                plantarchitecture_ptr-&gt;unique_open_flower_prototype_objIDs.at(parent_shoot_type_label).at(prototype) = objID_flower;</div>
+<div class="line"><a id="l01306" name="l01306"></a><span class="lineno"> 1306</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a983606fef144a460d4b987032a8ad005">hideObject</a>({objID_flower});</div>
+<div class="line"><a id="l01307" name="l01307"></a><span class="lineno"> 1307</span>            }</div>
+<div class="line"><a id="l01308" name="l01308"></a><span class="lineno"> 1308</span>        }</div>
+<div class="line"><a id="l01309" name="l01309"></a><span class="lineno"> 1309</span>        <span class="comment">//fruit</span></div>
+<div class="line"><a id="l01310" name="l01310"></a><span class="lineno"> 1310</span>        <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.fruit_prototype_function!= <span class="keyword">nullptr</span> &amp;&amp; plantarchitecture_ptr-&gt;unique_fruit_prototype_objIDs.find(parent_shoot_type_label) == plantarchitecture_ptr-&gt;unique_fruit_prototype_objIDs.end() ) {</div>
+<div class="line"><a id="l01311" name="l01311"></a><span class="lineno"> 1311</span>            plantarchitecture_ptr-&gt;unique_fruit_prototype_objIDs[parent_shoot_type_label].resize(phytomer_parameters.inflorescence.unique_prototypes);</div>
+<div class="line"><a id="l01312" name="l01312"></a><span class="lineno"> 1312</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> prototype = 0; prototype &lt; phytomer_parameters.inflorescence.unique_prototypes; prototype++ ) {</div>
+<div class="line"><a id="l01313" name="l01313"></a><span class="lineno"> 1313</span>                uint objID_fruit = phytomer_parameters.inflorescence.fruit_prototype_function(context_ptr, 1, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l01314" name="l01314"></a><span class="lineno"> 1314</span>                plantarchitecture_ptr-&gt;unique_fruit_prototype_objIDs.at(parent_shoot_type_label).at(prototype) = objID_fruit;</div>
+<div class="line"><a id="l01315" name="l01315"></a><span class="lineno"> 1315</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a983606fef144a460d4b987032a8ad005">hideObject</a>({objID_fruit});</div>
+<div class="line"><a id="l01316" name="l01316"></a><span class="lineno"> 1316</span>            }</div>
+<div class="line"><a id="l01317" name="l01317"></a><span class="lineno"> 1317</span>        }</div>
+<div class="line"><a id="l01318" name="l01318"></a><span class="lineno"> 1318</span>    }</div>
+<div class="line"><a id="l01319" name="l01319"></a><span class="lineno"> 1319</span> </div>
+<div class="line"><a id="l01320" name="l01320"></a><span class="lineno"> 1320</span>    <span class="keywordflow">for</span>(<span class="keywordtype">int</span> fruit=0; fruit &lt; phytomer_parameters.inflorescence.flowers_per_peduncle.val(); fruit++ ){</div>
+<div class="line"><a id="l01321" name="l01321"></a><span class="lineno"> 1321</span> </div>
+<div class="line"><a id="l01322" name="l01322"></a><span class="lineno"> 1322</span>        uint objID_fruit;</div>
+<div class="line"><a id="l01323" name="l01323"></a><span class="lineno"> 1323</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> fruit_scale;</div>
+<div class="line"><a id="l01324" name="l01324"></a><span class="lineno"> 1324</span> </div>
+<div class="line"><a id="l01325" name="l01325"></a><span class="lineno"> 1325</span>        <span class="keywordflow">if</span>(fbud.state == BUD_FRUITING ){</div>
+<div class="line"><a id="l01326" name="l01326"></a><span class="lineno"> 1326</span>            <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.unique_prototypes&gt;0 ) { <span class="comment">//copy existing prototype</span></div>
+<div class="line"><a id="l01327" name="l01327"></a><span class="lineno"> 1327</span>                <span class="keywordtype">int</span> prototype = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0, <span class="keywordtype">int</span>(phytomer_parameters.inflorescence.unique_prototypes - 1));</div>
+<div class="line"><a id="l01328" name="l01328"></a><span class="lineno"> 1328</span>                objID_fruit = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a14f83860167c061e537f29f7754c12c3">copyObject</a>(plantarchitecture_ptr-&gt;unique_fruit_prototype_objIDs.at(parent_shoot_type_label).at(prototype));</div>
+<div class="line"><a id="l01329" name="l01329"></a><span class="lineno"> 1329</span>            }<span class="keywordflow">else</span>{ <span class="comment">//load new prototype</span></div>
+<div class="line"><a id="l01330" name="l01330"></a><span class="lineno"> 1330</span>                objID_fruit = phytomer_parameters.inflorescence.fruit_prototype_function(context_ptr, 1, fbud.time_counter);</div>
+<div class="line"><a id="l01331" name="l01331"></a><span class="lineno"> 1331</span>            }</div>
+<div class="line"><a id="l01332" name="l01332"></a><span class="lineno"> 1332</span>            fruit_scale = phytomer_parameters.inflorescence.fruit_prototype_scale.val()*<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1,1,1);</div>
+<div class="line"><a id="l01333" name="l01333"></a><span class="lineno"> 1333</span>            phytomer_parameters.inflorescence.fruit_prototype_scale.resample();</div>
+<div class="line"><a id="l01334" name="l01334"></a><span class="lineno"> 1334</span>        }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l01335" name="l01335"></a><span class="lineno"> 1335</span>            <span class="keywordtype">bool</span> flower_is_open;</div>
+<div class="line"><a id="l01336" name="l01336"></a><span class="lineno"> 1336</span>            <span class="keywordflow">if</span>(fbud.state == BUD_FLOWER_CLOSED ) {</div>
+<div class="line"><a id="l01337" name="l01337"></a><span class="lineno"> 1337</span>                flower_is_open = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01338" name="l01338"></a><span class="lineno"> 1338</span>                <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.unique_prototypes&gt;0 ) { <span class="comment">//copy existing prototype</span></div>
+<div class="line"><a id="l01339" name="l01339"></a><span class="lineno"> 1339</span>                    <span class="keywordtype">int</span> prototype = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0, <span class="keywordtype">int</span>(phytomer_parameters.inflorescence.unique_prototypes - 1));</div>
+<div class="line"><a id="l01340" name="l01340"></a><span class="lineno"> 1340</span>                    objID_fruit = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a14f83860167c061e537f29f7754c12c3">copyObject</a>(plantarchitecture_ptr-&gt;unique_closed_flower_prototype_objIDs.at(parent_shoot_type_label).at(prototype));</div>
+<div class="line"><a id="l01341" name="l01341"></a><span class="lineno"> 1341</span>                }<span class="keywordflow">else</span>{ <span class="comment">//load new prototype</span></div>
+<div class="line"><a id="l01342" name="l01342"></a><span class="lineno"> 1342</span>                    objID_fruit = phytomer_parameters.inflorescence.flower_prototype_function(context_ptr, 1, flower_is_open);</div>
+<div class="line"><a id="l01343" name="l01343"></a><span class="lineno"> 1343</span>                }</div>
+<div class="line"><a id="l01344" name="l01344"></a><span class="lineno"> 1344</span>            }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l01345" name="l01345"></a><span class="lineno"> 1345</span>                flower_is_open = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l01346" name="l01346"></a><span class="lineno"> 1346</span>                <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.unique_prototypes&gt;0 ) { <span class="comment">//copy existing prototype</span></div>
+<div class="line"><a id="l01347" name="l01347"></a><span class="lineno"> 1347</span>                    <span class="keywordtype">int</span> prototype = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0, <span class="keywordtype">int</span>(phytomer_parameters.inflorescence.unique_prototypes - 1));</div>
+<div class="line"><a id="l01348" name="l01348"></a><span class="lineno"> 1348</span>                    objID_fruit = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a14f83860167c061e537f29f7754c12c3">copyObject</a>(plantarchitecture_ptr-&gt;unique_open_flower_prototype_objIDs.at(parent_shoot_type_label).at(prototype));</div>
+<div class="line"><a id="l01349" name="l01349"></a><span class="lineno"> 1349</span>                }<span class="keywordflow">else</span>{ <span class="comment">//load new prototype</span></div>
+<div class="line"><a id="l01350" name="l01350"></a><span class="lineno"> 1350</span>                    objID_fruit = phytomer_parameters.inflorescence.flower_prototype_function(context_ptr, 1, flower_is_open);</div>
+<div class="line"><a id="l01351" name="l01351"></a><span class="lineno"> 1351</span>                }</div>
+<div class="line"><a id="l01352" name="l01352"></a><span class="lineno"> 1352</span>            }</div>
+<div class="line"><a id="l01353" name="l01353"></a><span class="lineno"> 1353</span>            fruit_scale = phytomer_parameters.inflorescence.flower_prototype_scale.val()*<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1,1,1);</div>
+<div class="line"><a id="l01354" name="l01354"></a><span class="lineno"> 1354</span>            phytomer_parameters.inflorescence.flower_prototype_scale.resample();</div>
+<div class="line"><a id="l01355" name="l01355"></a><span class="lineno"> 1355</span>        }</div>
+<div class="line"><a id="l01356" name="l01356"></a><span class="lineno"> 1356</span> </div>
+<div class="line"><a id="l01357" name="l01357"></a><span class="lineno"> 1357</span>        <span class="keywordtype">float</span> ind_from_tip = fabs(fruit - <span class="keywordtype">float</span>(phytomer_parameters.inflorescence.flowers_per_peduncle.val() - 1) / <span class="keywordtype">float</span>(phytomer_parameters.petiole.petioles_per_internode));</div>
+<div class="line"><a id="l01358" name="l01358"></a><span class="lineno"> 1358</span> </div>
+<div class="line"><a id="l01359" name="l01359"></a><span class="lineno"> 1359</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#afe9817e155de4a39bc82b000c5d0e888">scaleObject</a>( objID_fruit, fruit_scale );</div>
+<div class="line"><a id="l01360" name="l01360"></a><span class="lineno"> 1360</span> </div>
+<div class="line"><a id="l01361" name="l01361"></a><span class="lineno"> 1361</span>        <span class="comment">//if we have more than one flower/fruit, we need to adjust the base position of the fruit</span></div>
+<div class="line"><a id="l01362" name="l01362"></a><span class="lineno"> 1362</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> fruit_base = peduncle_vertices.back();</div>
+<div class="line"><a id="l01363" name="l01363"></a><span class="lineno"> 1363</span>        <span class="keywordtype">float</span> frac = 1;</div>
+<div class="line"><a id="l01364" name="l01364"></a><span class="lineno"> 1364</span>        <span class="keywordflow">if</span>(phytomer_parameters.inflorescence.flowers_per_peduncle.val() &gt; 1 &amp;&amp; phytomer_parameters.inflorescence.flower_offset.val() &gt; 0 ){</div>
+<div class="line"><a id="l01365" name="l01365"></a><span class="lineno"> 1365</span>            <span class="keywordflow">if</span>( ind_from_tip != 0 ) {</div>
+<div class="line"><a id="l01366" name="l01366"></a><span class="lineno"> 1366</span>                <span class="keywordtype">float</span> offset = offset = (ind_from_tip - 0.5f) * phytomer_parameters.inflorescence.flower_offset.val() * phytomer_parameters.peduncle.length.val();</div>
+<div class="line"><a id="l01367" name="l01367"></a><span class="lineno"> 1367</span>                <span class="keywordflow">if</span>( phytomer_parameters.peduncle.length.val()&gt;0 ){</div>
+<div class="line"><a id="l01368" name="l01368"></a><span class="lineno"> 1368</span>                    frac = 1.f - offset / phytomer_parameters.peduncle.length.val();</div>
+<div class="line"><a id="l01369" name="l01369"></a><span class="lineno"> 1369</span>                }</div>
+<div class="line"><a id="l01370" name="l01370"></a><span class="lineno"> 1370</span>                fruit_base = <a class="code hl_function" href="_canopy_generator_8h.html#a339d165bb0c396a75ce255fbe16a20d4">interpolateTube</a>(peduncle_vertices, frac);</div>
+<div class="line"><a id="l01371" name="l01371"></a><span class="lineno"> 1371</span>            }</div>
+<div class="line"><a id="l01372" name="l01372"></a><span class="lineno"> 1372</span>        }</div>
+<div class="line"><a id="l01373" name="l01373"></a><span class="lineno"> 1373</span> </div>
+<div class="line"><a id="l01374" name="l01374"></a><span class="lineno"> 1374</span>        <span class="comment">//if we have more than one flower/fruit, we need to adjust the rotation about the peduncle</span></div>
+<div class="line"><a id="l01375" name="l01375"></a><span class="lineno"> 1375</span>        <span class="keywordtype">float</span> compound_rotation = 0;</div>
+<div class="line"><a id="l01376" name="l01376"></a><span class="lineno"> 1376</span>        <span class="keywordflow">if</span>(phytomer_parameters.inflorescence.flowers_per_peduncle.val() &gt; 1 ) {</div>
+<div class="line"><a id="l01377" name="l01377"></a><span class="lineno"> 1377</span>            <span class="keywordflow">if</span> (phytomer_parameters.inflorescence.flower_offset.val() == 0) { <span class="comment">//flowers/fruit are all at the tip, so just equally distribute them about the azimuth</span></div>
+<div class="line"><a id="l01378" name="l01378"></a><span class="lineno"> 1378</span>                <span class="keywordtype">float</span> dphi = M_PI / (floor(0.5 * <span class="keywordtype">float</span>(phytomer_parameters.inflorescence.flowers_per_peduncle.val() - 1)) + 1);</div>
+<div class="line"><a id="l01379" name="l01379"></a><span class="lineno"> 1379</span>                compound_rotation = -float(M_PI) + dphi * (fruit + 0.5f);</div>
+<div class="line"><a id="l01380" name="l01380"></a><span class="lineno"> 1380</span>            } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l01381" name="l01381"></a><span class="lineno"> 1381</span>                compound_rotation = <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.internode.phyllotactic_angle.val())*float(ind_from_tip) + 2.f*M_PI/float(phytomer_parameters.petiole.petioles_per_internode)*float(fruit);</div>
+<div class="line"><a id="l01382" name="l01382"></a><span class="lineno"> 1382</span>                phytomer_parameters.internode.phyllotactic_angle.resample();</div>
+<div class="line"><a id="l01383" name="l01383"></a><span class="lineno"> 1383</span>            }</div>
+<div class="line"><a id="l01384" name="l01384"></a><span class="lineno"> 1384</span>        }</div>
+<div class="line"><a id="l01385" name="l01385"></a><span class="lineno"> 1385</span> </div>
+<div class="line"><a id="l01386" name="l01386"></a><span class="lineno"> 1386</span>        peduncle_axis = getAxisVector(frac, peduncle_vertices );</div>
+<div class="line"><a id="l01387" name="l01387"></a><span class="lineno"> 1387</span> </div>
+<div class="line"><a id="l01388" name="l01388"></a><span class="lineno"> 1388</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> fruit_axis = peduncle_axis;</div>
+<div class="line"><a id="l01389" name="l01389"></a><span class="lineno"> 1389</span> </div>
+<div class="line"><a id="l01390" name="l01390"></a><span class="lineno"> 1390</span>        <span class="comment">//roll rotation</span></div>
+<div class="line"><a id="l01391" name="l01391"></a><span class="lineno"> 1391</span>        <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.roll.val()!=0.f ) {</div>
+<div class="line"><a id="l01392" name="l01392"></a><span class="lineno"> 1392</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(objID_fruit, <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.inflorescence.roll.val()), <span class="stringliteral">&quot;x&quot;</span> );</div>
+<div class="line"><a id="l01393" name="l01393"></a><span class="lineno"> 1393</span>            phytomer_parameters.inflorescence.roll.resample();</div>
+<div class="line"><a id="l01394" name="l01394"></a><span class="lineno"> 1394</span>        }</div>
+<div class="line"><a id="l01395" name="l01395"></a><span class="lineno"> 1395</span> </div>
+<div class="line"><a id="l01396" name="l01396"></a><span class="lineno"> 1396</span>        <span class="comment">//pitch rotation</span></div>
+<div class="line"><a id="l01397" name="l01397"></a><span class="lineno"> 1397</span>        <span class="keywordtype">float</span> pitch_inflorescence = -<a class="code hl_function" href="group__functions.html#gac400d6d37ff2494ec592a9f0a17ee9ab">asin_safe</a>(peduncle_axis.z) + <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.inflorescence.pitch.val());</div>
+<div class="line"><a id="l01398" name="l01398"></a><span class="lineno"> 1398</span>        phytomer_parameters.inflorescence.pitch.resample();</div>
+<div class="line"><a id="l01399" name="l01399"></a><span class="lineno"> 1399</span>        <span class="keywordflow">if</span>(fbud.state == BUD_FRUITING ) { <span class="comment">//gravity effect for fruit</span></div>
+<div class="line"><a id="l01400" name="l01400"></a><span class="lineno"> 1400</span>            pitch_inflorescence = pitch_inflorescence + phytomer_parameters.inflorescence.fruit_gravity_factor_fraction.val() * (0.5f * M_PI - pitch_inflorescence);</div>
+<div class="line"><a id="l01401" name="l01401"></a><span class="lineno"> 1401</span>        }</div>
+<div class="line"><a id="l01402" name="l01402"></a><span class="lineno"> 1402</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(objID_fruit, pitch_inflorescence, <span class="stringliteral">&quot;y&quot;</span>);</div>
+<div class="line"><a id="l01403" name="l01403"></a><span class="lineno"> 1403</span>        fruit_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(fruit_axis, nullorigin, <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1, 0, 0), pitch_inflorescence);</div>
+<div class="line"><a id="l01404" name="l01404"></a><span class="lineno"> 1404</span> </div>
+<div class="line"><a id="l01405" name="l01405"></a><span class="lineno"> 1405</span>        <span class="comment">//rotate flower/fruit to azimuth of peduncle</span></div>
+<div class="line"><a id="l01406" name="l01406"></a><span class="lineno"> 1406</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(objID_fruit, -std::atan2(peduncle_axis.y, peduncle_axis.x), <span class="stringliteral">&quot;z&quot;</span> );</div>
+<div class="line"><a id="l01407" name="l01407"></a><span class="lineno"> 1407</span>        fruit_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>( fruit_axis, nullorigin, <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,1), -std::atan2(peduncle_axis.y, peduncle_axis.x) );</div>
+<div class="line"><a id="l01408" name="l01408"></a><span class="lineno"> 1408</span> </div>
+<div class="line"><a id="l01409" name="l01409"></a><span class="lineno"> 1409</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>( objID_fruit, fruit_base );</div>
+<div class="line"><a id="l01410" name="l01410"></a><span class="lineno"> 1410</span> </div>
+<div class="line"><a id="l01411" name="l01411"></a><span class="lineno"> 1411</span>        <span class="comment">//rotate flower/fruit about peduncle (roll)</span></div>
+<div class="line"><a id="l01412" name="l01412"></a><span class="lineno"> 1412</span>        <span class="keywordflow">if</span>( phytomer_parameters.inflorescence.fruit_gravity_factor_fraction.val()!=0 &amp;&amp; fbud.state == BUD_FRUITING ) {</div>
+<div class="line"><a id="l01413" name="l01413"></a><span class="lineno"> 1413</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(objID_fruit, <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.peduncle.roll.val()) + compound_rotation, fruit_base, <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0, 0, 1));</div>
+<div class="line"><a id="l01414" name="l01414"></a><span class="lineno"> 1414</span>        }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l01415" name="l01415"></a><span class="lineno"> 1415</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(objID_fruit, <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.peduncle.roll.val()) + compound_rotation, fruit_base, peduncle_axis);</div>
+<div class="line"><a id="l01416" name="l01416"></a><span class="lineno"> 1416</span>            fruit_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(fruit_axis, nullorigin, peduncle_axis, <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(phytomer_parameters.peduncle.roll.val()) + compound_rotation);</div>
+<div class="line"><a id="l01417" name="l01417"></a><span class="lineno"> 1417</span>        }</div>
+<div class="line"><a id="l01418" name="l01418"></a><span class="lineno"> 1418</span>        phytomer_parameters.inflorescence.fruit_gravity_factor_fraction.resample();</div>
+<div class="line"><a id="l01419" name="l01419"></a><span class="lineno"> 1419</span> </div>
+<div class="line"><a id="l01420" name="l01420"></a><span class="lineno"> 1420</span>        fbud.inflorescence_bases.push_back(fruit_base );</div>
+<div class="line"><a id="l01421" name="l01421"></a><span class="lineno"> 1421</span> </div>
+<div class="line"><a id="l01422" name="l01422"></a><span class="lineno"> 1422</span>        fbud.inflorescence_objIDs.push_back(objID_fruit );</div>
+<div class="line"><a id="l01423" name="l01423"></a><span class="lineno"> 1423</span> </div>
+<div class="line"><a id="l01424" name="l01424"></a><span class="lineno"> 1424</span>    }</div>
+<div class="line"><a id="l01425" name="l01425"></a><span class="lineno"> 1425</span>    phytomer_parameters.inflorescence.flowers_per_peduncle.resample();</div>
+<div class="line"><a id="l01426" name="l01426"></a><span class="lineno"> 1426</span>    phytomer_parameters.peduncle.roll.resample();</div>
+<div class="line"><a id="l01427" name="l01427"></a><span class="lineno"> 1427</span> </div>
+<div class="line"><a id="l01428" name="l01428"></a><span class="lineno"> 1428</span>    <span class="keywordflow">if</span>( plantarchitecture_ptr-&gt;output_object_data.at(<span class="stringliteral">&quot;rank&quot;</span>) ) {</div>
+<div class="line"><a id="l01429" name="l01429"></a><span class="lineno"> 1429</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>(fbud.peduncle_objIDs, <span class="stringliteral">&quot;rank&quot;</span>, rank );</div>
+<div class="line"><a id="l01430" name="l01430"></a><span class="lineno"> 1430</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>(fbud.inflorescence_objIDs, <span class="stringliteral">&quot;rank&quot;</span>, rank );</div>
+<div class="line"><a id="l01431" name="l01431"></a><span class="lineno"> 1431</span>    }</div>
+<div class="line"><a id="l01432" name="l01432"></a><span class="lineno"> 1432</span> </div>
+<div class="line"><a id="l01433" name="l01433"></a><span class="lineno"> 1433</span>    <span class="keywordflow">if</span>( plantarchitecture_ptr-&gt;output_object_data.at(<span class="stringliteral">&quot;peduncleID&quot;</span>) ) {</div>
+<div class="line"><a id="l01434" name="l01434"></a><span class="lineno"> 1434</span>        <span class="keywordflow">for</span> (uint objID: fbud.peduncle_objIDs) {</div>
+<div class="line"><a id="l01435" name="l01435"></a><span class="lineno"> 1435</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>(objID, <span class="stringliteral">&quot;peduncleID&quot;</span>, (<span class="keywordtype">int</span>) objID);</div>
+<div class="line"><a id="l01436" name="l01436"></a><span class="lineno"> 1436</span>        }</div>
+<div class="line"><a id="l01437" name="l01437"></a><span class="lineno"> 1437</span>    }</div>
+<div class="line"><a id="l01438" name="l01438"></a><span class="lineno"> 1438</span>    <span class="keywordflow">for</span>( uint objID : fbud.inflorescence_objIDs ) {</div>
+<div class="line"><a id="l01439" name="l01439"></a><span class="lineno"> 1439</span>        <span class="keywordflow">if</span>( fbud.state == BUD_FLOWER_CLOSED &amp;&amp; plantarchitecture_ptr-&gt;output_object_data.at(<span class="stringliteral">&quot;closedflowerID&quot;</span>) ) {</div>
+<div class="line"><a id="l01440" name="l01440"></a><span class="lineno"> 1440</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>( objID, <span class="stringliteral">&quot;closedflowerID&quot;</span>, (<span class="keywordtype">int</span>) objID);</div>
+<div class="line"><a id="l01441" name="l01441"></a><span class="lineno"> 1441</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( fbud.state == BUD_FLOWER_OPEN &amp;&amp; plantarchitecture_ptr-&gt;output_object_data.at(<span class="stringliteral">&quot;openflowerID&quot;</span>) ) {</div>
+<div class="line"><a id="l01442" name="l01442"></a><span class="lineno"> 1442</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6c96c0f3fbb3c31ae9aad750d647903b">clearObjectData</a>( objID, <span class="stringliteral">&quot;closedflowerID&quot;</span> );</div>
+<div class="line"><a id="l01443" name="l01443"></a><span class="lineno"> 1443</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>( objID, <span class="stringliteral">&quot;openflowerID&quot;</span>, (<span class="keywordtype">int</span>) objID);</div>
+<div class="line"><a id="l01444" name="l01444"></a><span class="lineno"> 1444</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( plantarchitecture_ptr-&gt;output_object_data.at(<span class="stringliteral">&quot;fruitID&quot;</span>) ){</div>
+<div class="line"><a id="l01445" name="l01445"></a><span class="lineno"> 1445</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>( objID, <span class="stringliteral">&quot;fruitID&quot;</span>, (<span class="keywordtype">int</span>) objID);</div>
+<div class="line"><a id="l01446" name="l01446"></a><span class="lineno"> 1446</span>        }</div>
+<div class="line"><a id="l01447" name="l01447"></a><span class="lineno"> 1447</span>    }</div>
+<div class="line"><a id="l01448" name="l01448"></a><span class="lineno"> 1448</span> </div>
+<div class="line"><a id="l01449" name="l01449"></a><span class="lineno"> 1449</span>}</div>
+<div class="line"><a id="l01450" name="l01450"></a><span class="lineno"> 1450</span> </div>
+<div class="line"><a id="l01451" name="l01451"></a><span class="lineno"> 1451</span><span class="keywordtype">void</span> Phytomer::setPetioleBase( <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position ){</div>
+<div class="line"><a id="l01452" name="l01452"></a><span class="lineno"> 1452</span> </div>
+<div class="line"><a id="l01453" name="l01453"></a><span class="lineno"> 1453</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> old_base = <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.front().front();</div>
+<div class="line"><a id="l01454" name="l01454"></a><span class="lineno"> 1454</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> shift = base_position - old_base;</div>
+<div class="line"><a id="l01455" name="l01455"></a><span class="lineno"> 1455</span> </div>
+<div class="line"><a id="l01456" name="l01456"></a><span class="lineno"> 1456</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer_parameters.petiole.petioles_per_internode; petiole++ ) {</div>
+<div class="line"><a id="l01457" name="l01457"></a><span class="lineno"> 1457</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;vertex: <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole) ) {</div>
+<div class="line"><a id="l01458" name="l01458"></a><span class="lineno"> 1458</span>            vertex += shift;</div>
+<div class="line"><a id="l01459" name="l01459"></a><span class="lineno"> 1459</span>        }</div>
+<div class="line"><a id="l01460" name="l01460"></a><span class="lineno"> 1460</span>    }</div>
+<div class="line"><a id="l01461" name="l01461"></a><span class="lineno"> 1461</span> </div>
+<div class="line"><a id="l01462" name="l01462"></a><span class="lineno"> 1462</span>    <span class="keywordflow">if</span>( build_context_geometry_petiole ) {</div>
+<div class="line"><a id="l01463" name="l01463"></a><span class="lineno"> 1463</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>(<a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(petiole_objIDs), shift);</div>
+<div class="line"><a id="l01464" name="l01464"></a><span class="lineno"> 1464</span>    }</div>
+<div class="line"><a id="l01465" name="l01465"></a><span class="lineno"> 1465</span>    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>( <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(leaf_objIDs), shift );</div>
+<div class="line"><a id="l01466" name="l01466"></a><span class="lineno"> 1466</span> </div>
+<div class="line"><a id="l01467" name="l01467"></a><span class="lineno"> 1467</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole=0; petiole&lt;leaf_bases.size(); petiole++ ) {</div>
+<div class="line"><a id="l01468" name="l01468"></a><span class="lineno"> 1468</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;leaf_base: leaf_bases.at(petiole)) {</div>
+<div class="line"><a id="l01469" name="l01469"></a><span class="lineno"> 1469</span>            leaf_base += shift;</div>
+<div class="line"><a id="l01470" name="l01470"></a><span class="lineno"> 1470</span>        }</div>
+<div class="line"><a id="l01471" name="l01471"></a><span class="lineno"> 1471</span>        <span class="keywordflow">for</span> ( <span class="keyword">auto</span> &amp;fbud : floral_buds.at(petiole) ) {</div>
+<div class="line"><a id="l01472" name="l01472"></a><span class="lineno"> 1472</span>            assert( !fbud.isterminal );</div>
+<div class="line"><a id="l01473" name="l01473"></a><span class="lineno"> 1473</span>            fbud.base_position = <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).front();</div>
+<div class="line"><a id="l01474" name="l01474"></a><span class="lineno"> 1474</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>( fbud.inflorescence_objIDs, shift);</div>
+<div class="line"><a id="l01475" name="l01475"></a><span class="lineno"> 1475</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;base : fbud.inflorescence_bases ) {</div>
+<div class="line"><a id="l01476" name="l01476"></a><span class="lineno"> 1476</span>                base += shift;</div>
+<div class="line"><a id="l01477" name="l01477"></a><span class="lineno"> 1477</span>            }</div>
+<div class="line"><a id="l01478" name="l01478"></a><span class="lineno"> 1478</span>            <span class="keywordflow">if</span>( build_context_geometry_peduncle ) {</div>
+<div class="line"><a id="l01479" name="l01479"></a><span class="lineno"> 1479</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>( fbud.peduncle_objIDs, shift);</div>
+<div class="line"><a id="l01480" name="l01480"></a><span class="lineno"> 1480</span>            }</div>
+<div class="line"><a id="l01481" name="l01481"></a><span class="lineno"> 1481</span>        }</div>
+<div class="line"><a id="l01482" name="l01482"></a><span class="lineno"> 1482</span>    }</div>
+<div class="line"><a id="l01483" name="l01483"></a><span class="lineno"> 1483</span> </div>
+<div class="line"><a id="l01484" name="l01484"></a><span class="lineno"> 1484</span>}</div>
+<div class="line"><a id="l01485" name="l01485"></a><span class="lineno"> 1485</span> </div>
+<div class="line"><a id="l01486" name="l01486"></a><span class="lineno"> 1486</span><span class="keywordtype">void</span> Phytomer::rotateLeaf( uint petiole_index, uint leaf_index, <span class="keyword">const</span> <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> &amp;rotation ){</div>
+<div class="line"><a id="l01487" name="l01487"></a><span class="lineno"> 1487</span> </div>
+<div class="line"><a id="l01488" name="l01488"></a><span class="lineno"> 1488</span>    <span class="keywordflow">if</span>( petiole_index&gt;=leaf_objIDs.size() ){</div>
+<div class="line"><a id="l01489" name="l01489"></a><span class="lineno"> 1489</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::Phytomer): Invalid petiole index.&quot;</span>);</div>
+<div class="line"><a id="l01490" name="l01490"></a><span class="lineno"> 1490</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( leaf_index&gt;=leaf_objIDs.at(petiole_index).size() ){</div>
+<div class="line"><a id="l01491" name="l01491"></a><span class="lineno"> 1491</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::Phytomer): Invalid leaf index.&quot;</span>);</div>
+<div class="line"><a id="l01492" name="l01492"></a><span class="lineno"> 1492</span>    }</div>
+<div class="line"><a id="l01493" name="l01493"></a><span class="lineno"> 1493</span> </div>
+<div class="line"><a id="l01494" name="l01494"></a><span class="lineno"> 1494</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> petiole_axis = getPetioleAxisVector(1.f, petiole_index); <span class="comment">//note: this is not exactly correct because it should get the axis at the leaf position and not the tip</span></div>
+<div class="line"><a id="l01495" name="l01495"></a><span class="lineno"> 1495</span> </div>
+<div class="line"><a id="l01496" name="l01496"></a><span class="lineno"> 1496</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> internode_axis = getInternodeAxisVector(1.f);</div>
+<div class="line"><a id="l01497" name="l01497"></a><span class="lineno"> 1497</span> </div>
+<div class="line"><a id="l01498" name="l01498"></a><span class="lineno"> 1498</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> pitch_axis = -1*<a class="code hl_function" href="helios__vector__types_8h.html#aa4e7459e7404915c12903a5c08588f5b">cross</a>( internode_axis, petiole_axis );</div>
+<div class="line"><a id="l01499" name="l01499"></a><span class="lineno"> 1499</span> </div>
+<div class="line"><a id="l01500" name="l01500"></a><span class="lineno"> 1500</span>    <span class="keywordtype">int</span> leaves_per_petiole = leaf_rotation.at(petiole_index).size();</div>
+<div class="line"><a id="l01501" name="l01501"></a><span class="lineno"> 1501</span>    <span class="keywordtype">float</span> yaw;</div>
+<div class="line"><a id="l01502" name="l01502"></a><span class="lineno"> 1502</span>    <span class="keywordtype">float</span> roll;</div>
+<div class="line"><a id="l01503" name="l01503"></a><span class="lineno"> 1503</span>    <span class="keywordtype">float</span> compound_rotation = 0;</div>
+<div class="line"><a id="l01504" name="l01504"></a><span class="lineno"> 1504</span>    <span class="keywordflow">if</span>( leaf_index == <span class="keywordtype">float</span>(leaves_per_petiole-1)/2.f ){ <span class="comment">//tip leaf</span></div>
+<div class="line"><a id="l01505" name="l01505"></a><span class="lineno"> 1505</span>        roll = 0;</div>
+<div class="line"><a id="l01506" name="l01506"></a><span class="lineno"> 1506</span>        yaw = 0;</div>
+<div class="line"><a id="l01507" name="l01507"></a><span class="lineno"> 1507</span>        compound_rotation = 0;</div>
+<div class="line"><a id="l01508" name="l01508"></a><span class="lineno"> 1508</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( leaf_index &lt; <span class="keywordtype">float</span>(leaves_per_petiole-1)/2.f ) {</div>
+<div class="line"><a id="l01509" name="l01509"></a><span class="lineno"> 1509</span>        yaw = -rotation.yaw;</div>
+<div class="line"><a id="l01510" name="l01510"></a><span class="lineno"> 1510</span>        roll = -rotation.roll;</div>
+<div class="line"><a id="l01511" name="l01511"></a><span class="lineno"> 1511</span>        compound_rotation = -0.5*M_PI;</div>
+<div class="line"><a id="l01512" name="l01512"></a><span class="lineno"> 1512</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l01513" name="l01513"></a><span class="lineno"> 1513</span>        yaw = -rotation.yaw;</div>
+<div class="line"><a id="l01514" name="l01514"></a><span class="lineno"> 1514</span>        roll = rotation.roll;</div>
+<div class="line"><a id="l01515" name="l01515"></a><span class="lineno"> 1515</span>        compound_rotation = 0.5*M_PI;</div>
+<div class="line"><a id="l01516" name="l01516"></a><span class="lineno"> 1516</span>    }</div>
+<div class="line"><a id="l01517" name="l01517"></a><span class="lineno"> 1517</span> </div>
+<div class="line"><a id="l01518" name="l01518"></a><span class="lineno"> 1518</span>    <span class="comment">//roll</span></div>
+<div class="line"><a id="l01519" name="l01519"></a><span class="lineno"> 1519</span>    <span class="keywordflow">if</span>( roll!=0.f ) {</div>
+<div class="line"><a id="l01520" name="l01520"></a><span class="lineno"> 1520</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> roll_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>({petiole_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, petiole_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, 0}, <a class="code hl_variable" href="global_8h.html#a876dc18d1da8ace50c131f428f8883be">nullorigin</a>, {0, 0, 1}, leaf_rotation.at(petiole_index).at(leaf_index).yaw + compound_rotation);</div>
+<div class="line"><a id="l01521" name="l01521"></a><span class="lineno"> 1521</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(leaf_objIDs.at(petiole_index).at(leaf_index), roll, leaf_bases.at(petiole_index).at(leaf_index), roll_axis);</div>
+<div class="line"><a id="l01522" name="l01522"></a><span class="lineno"> 1522</span>        leaf_rotation.at(petiole_index).at(leaf_index).roll += roll;</div>
+<div class="line"><a id="l01523" name="l01523"></a><span class="lineno"> 1523</span>    }</div>
+<div class="line"><a id="l01524" name="l01524"></a><span class="lineno"> 1524</span> </div>
+<div class="line"><a id="l01525" name="l01525"></a><span class="lineno"> 1525</span>    <span class="comment">//pitch</span></div>
+<div class="line"><a id="l01526" name="l01526"></a><span class="lineno"> 1526</span>    <span class="keywordflow">if</span>( rotation.pitch!=0 ) {</div>
+<div class="line"><a id="l01527" name="l01527"></a><span class="lineno"> 1527</span>        pitch_axis = <a class="code hl_function" href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">rotatePointAboutLine</a>(pitch_axis, nullorigin, {0, 0, 1}, -compound_rotation);</div>
+<div class="line"><a id="l01528" name="l01528"></a><span class="lineno"> 1528</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(leaf_objIDs.at(petiole_index).at(leaf_index), rotation.pitch, leaf_bases.at(petiole_index).at(leaf_index), pitch_axis);</div>
+<div class="line"><a id="l01529" name="l01529"></a><span class="lineno"> 1529</span>        leaf_rotation.at(petiole_index).at(leaf_index).pitch += rotation.pitch;</div>
+<div class="line"><a id="l01530" name="l01530"></a><span class="lineno"> 1530</span>    }</div>
+<div class="line"><a id="l01531" name="l01531"></a><span class="lineno"> 1531</span> </div>
+<div class="line"><a id="l01532" name="l01532"></a><span class="lineno"> 1532</span>    <span class="comment">//yaw</span></div>
+<div class="line"><a id="l01533" name="l01533"></a><span class="lineno"> 1533</span>    <span class="keywordflow">if</span>( yaw!=0.f ) {</div>
+<div class="line"><a id="l01534" name="l01534"></a><span class="lineno"> 1534</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3b4ffa6ef56001319b2b63703b9f2acd">rotateObject</a>(leaf_objIDs.at(petiole_index).at(leaf_index), yaw, leaf_bases.at(petiole_index).at(leaf_index), {0, 0, 1});</div>
+<div class="line"><a id="l01535" name="l01535"></a><span class="lineno"> 1535</span>        leaf_rotation.at(petiole_index).at(leaf_index).yaw += yaw;</div>
+<div class="line"><a id="l01536" name="l01536"></a><span class="lineno"> 1536</span>    }</div>
+<div class="line"><a id="l01537" name="l01537"></a><span class="lineno"> 1537</span> </div>
+<div class="line"><a id="l01538" name="l01538"></a><span class="lineno"> 1538</span>}</div>
+<div class="line"><a id="l01539" name="l01539"></a><span class="lineno"> 1539</span> </div>
+<div class="line"><a id="l01540" name="l01540"></a><span class="lineno"> 1540</span><span class="keywordtype">void</span> Phytomer::setInternodeLengthScaleFraction(<span class="keywordtype">float</span> internode_scale_factor_fraction, <span class="keywordtype">bool</span> update_context_geometry) {</div>
+<div class="line"><a id="l01541" name="l01541"></a><span class="lineno"> 1541</span> </div>
+<div class="line"><a id="l01542" name="l01542"></a><span class="lineno"> 1542</span>    assert(internode_scale_factor_fraction &gt;= 0 &amp;&amp; internode_scale_factor_fraction &lt;= 1 );</div>
+<div class="line"><a id="l01543" name="l01543"></a><span class="lineno"> 1543</span> </div>
+<div class="line"><a id="l01544" name="l01544"></a><span class="lineno"> 1544</span>    <span class="keywordflow">if</span>(internode_scale_factor_fraction == current_internode_scale_factor ){</div>
+<div class="line"><a id="l01545" name="l01545"></a><span class="lineno"> 1545</span>        <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l01546" name="l01546"></a><span class="lineno"> 1546</span>    }</div>
+<div class="line"><a id="l01547" name="l01547"></a><span class="lineno"> 1547</span> </div>
+<div class="line"><a id="l01548" name="l01548"></a><span class="lineno"> 1548</span>    <span class="keywordtype">float</span> delta_scale = internode_scale_factor_fraction / current_internode_scale_factor;</div>
+<div class="line"><a id="l01549" name="l01549"></a><span class="lineno"> 1549</span> </div>
+<div class="line"><a id="l01550" name="l01550"></a><span class="lineno"> 1550</span>    <span class="keywordtype">float</span> current_internode_length = getInternodeLength();</div>
+<div class="line"><a id="l01551" name="l01551"></a><span class="lineno"> 1551</span>    <span class="keywordtype">float</span> internode_length = current_internode_length*delta_scale;</div>
+<div class="line"><a id="l01552" name="l01552"></a><span class="lineno"> 1552</span>    current_internode_scale_factor = internode_scale_factor_fraction;</div>
+<div class="line"><a id="l01553" name="l01553"></a><span class="lineno"> 1553</span> </div>
+<div class="line"><a id="l01554" name="l01554"></a><span class="lineno"> 1554</span>    <span class="keywordtype">int</span> p = <a class="code hl_variable" href="struct_phytomer.html#aa35d5da6c2d3ae761d1b4ce491db2e17">shoot_index</a>.<a class="code hl_variable" href="structhelios_1_1int3.html#a1ce8c8391637ea6e33bb30b1d0adfc50">x</a>;</div>
+<div class="line"><a id="l01555" name="l01555"></a><span class="lineno"> 1555</span>    <span class="keywordtype">int</span> s_start = (p == 0) ? 1 : 0; <span class="comment">//skip the first node at the base of the shoot</span></div>
+<div class="line"><a id="l01556" name="l01556"></a><span class="lineno"> 1556</span> </div>
+<div class="line"><a id="l01557" name="l01557"></a><span class="lineno"> 1557</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> s = s_start; s &lt; parent_shoot_ptr-&gt;shoot_internode_vertices.at(p).size(); s++) { <span class="comment">//looping over all segments within this phytomer internode</span></div>
+<div class="line"><a id="l01558" name="l01558"></a><span class="lineno"> 1558</span> </div>
+<div class="line"><a id="l01559" name="l01559"></a><span class="lineno"> 1559</span>        <span class="keywordtype">int</span> p_minus = p;</div>
+<div class="line"><a id="l01560" name="l01560"></a><span class="lineno"> 1560</span>        <span class="keywordtype">int</span> s_minus = s-1;</div>
+<div class="line"><a id="l01561" name="l01561"></a><span class="lineno"> 1561</span>        <span class="keywordflow">if</span>( s_minus&lt;0 ){</div>
+<div class="line"><a id="l01562" name="l01562"></a><span class="lineno"> 1562</span>            p_minus--;</div>
+<div class="line"><a id="l01563" name="l01563"></a><span class="lineno"> 1563</span>            s_minus = int(parent_shoot_ptr-&gt;shoot_internode_vertices.at(p_minus).size()-1);</div>
+<div class="line"><a id="l01564" name="l01564"></a><span class="lineno"> 1564</span>        }</div>
+<div class="line"><a id="l01565" name="l01565"></a><span class="lineno"> 1565</span> </div>
+<div class="line"><a id="l01566" name="l01566"></a><span class="lineno"> 1566</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> central_axis = (parent_shoot_ptr-&gt;shoot_internode_vertices.at(p).at(s) - parent_shoot_ptr-&gt;shoot_internode_vertices.at(p_minus).at(s_minus));</div>
+<div class="line"><a id="l01567" name="l01567"></a><span class="lineno"> 1567</span>        <span class="keywordtype">float</span> current_length = central_axis.<a class="code hl_function" href="structhelios_1_1vec3.html#adb96b24e6544d106a19e029c2594fee4">magnitude</a>();</div>
+<div class="line"><a id="l01568" name="l01568"></a><span class="lineno"> 1568</span>        central_axis = central_axis / current_length;</div>
+<div class="line"><a id="l01569" name="l01569"></a><span class="lineno"> 1569</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> dL = central_axis * current_length * (delta_scale - 1);</div>
+<div class="line"><a id="l01570" name="l01570"></a><span class="lineno"> 1570</span> </div>
+<div class="line"><a id="l01571" name="l01571"></a><span class="lineno"> 1571</span>        <span class="comment">//apply shift to all downstream nodes</span></div>
+<div class="line"><a id="l01572" name="l01572"></a><span class="lineno"> 1572</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> p_downstream = p; p_downstream &lt; parent_shoot_ptr-&gt;shoot_internode_vertices.size(); p_downstream++) {</div>
+<div class="line"><a id="l01573" name="l01573"></a><span class="lineno"> 1573</span>            <span class="keywordtype">int</span> sd_start = ( p_downstream==p ) ? s : 0;</div>
+<div class="line"><a id="l01574" name="l01574"></a><span class="lineno"> 1574</span>            <span class="keywordflow">for</span> (<span class="keywordtype">int</span> s_downstream = sd_start; s_downstream &lt; parent_shoot_ptr-&gt;shoot_internode_vertices.at(p_downstream).size(); s_downstream++) {</div>
+<div class="line"><a id="l01575" name="l01575"></a><span class="lineno"> 1575</span>                parent_shoot_ptr-&gt;shoot_internode_vertices.at(p_downstream).at(s_downstream) += dL;</div>
+<div class="line"><a id="l01576" name="l01576"></a><span class="lineno"> 1576</span>            }</div>
+<div class="line"><a id="l01577" name="l01577"></a><span class="lineno"> 1577</span> </div>
+<div class="line"><a id="l01578" name="l01578"></a><span class="lineno"> 1578</span>        }</div>
+<div class="line"><a id="l01579" name="l01579"></a><span class="lineno"> 1579</span> </div>
+<div class="line"><a id="l01580" name="l01580"></a><span class="lineno"> 1580</span>    }</div>
+<div class="line"><a id="l01581" name="l01581"></a><span class="lineno"> 1581</span> </div>
+<div class="line"><a id="l01582" name="l01582"></a><span class="lineno"> 1582</span>    parent_shoot_ptr-&gt;<a class="code hl_function" href="struct_shoot.html#a19eb5d6e3248c45de08774d11cbf329b">updateShootNodes</a>(update_context_geometry);</div>
 <div class="line"><a id="l01583" name="l01583"></a><span class="lineno"> 1583</span> </div>
-<div class="line"><a id="l01584" name="l01584"></a><span class="lineno"> 1584</span>}</div>
-<div class="line"><a id="l01585" name="l01585"></a><span class="lineno"> 1585</span> </div>
-<div class="foldopen" id="foldopen01586" data-start="{" data-end="}">
-<div class="line"><a id="l01586" name="l01586"></a><span class="lineno"><a class="line" href="struct_phytomer.html#aecc6f52f3490562f4daf581bec7f4260"> 1586</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="struct_phytomer.html#aecc6f52f3490562f4daf581bec7f4260">Phytomer::scaleInternodeMaxLength</a>( <span class="keywordtype">float</span> scale_factor ){</div>
-<div class="line"><a id="l01587" name="l01587"></a><span class="lineno"> 1587</span>    this-&gt;internode_length_max *= scale_factor;</div>
-<div class="line"><a id="l01588" name="l01588"></a><span class="lineno"> 1588</span> </div>
-<div class="line"><a id="l01589" name="l01589"></a><span class="lineno"> 1589</span>    current_internode_scale_factor = current_internode_scale_factor/scale_factor;</div>
-<div class="line"><a id="l01590" name="l01590"></a><span class="lineno"> 1590</span> </div>
-<div class="line"><a id="l01591" name="l01591"></a><span class="lineno"> 1591</span>    <span class="keywordflow">if</span>( current_internode_scale_factor&gt;=1.f ){</div>
-<div class="line"><a id="l01592" name="l01592"></a><span class="lineno"> 1592</span>        setInternodeLengthScaleFraction(1.f, <span class="keyword">true</span>);</div>
-<div class="line"><a id="l01593" name="l01593"></a><span class="lineno"> 1593</span>        current_internode_scale_factor = 1.f;</div>
-<div class="line"><a id="l01594" name="l01594"></a><span class="lineno"> 1594</span>    }</div>
-<div class="line"><a id="l01595" name="l01595"></a><span class="lineno"> 1595</span>}</div>
+<div class="line"><a id="l01584" name="l01584"></a><span class="lineno"> 1584</span> </div>
+<div class="line"><a id="l01585" name="l01585"></a><span class="lineno"> 1585</span>}</div>
+<div class="line"><a id="l01586" name="l01586"></a><span class="lineno"> 1586</span> </div>
+<div class="foldopen" id="foldopen01587" data-start="{" data-end="}">
+<div class="line"><a id="l01587" name="l01587"></a><span class="lineno"><a class="line" href="struct_phytomer.html#aecc6f52f3490562f4daf581bec7f4260"> 1587</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="struct_phytomer.html#aecc6f52f3490562f4daf581bec7f4260">Phytomer::scaleInternodeMaxLength</a>( <span class="keywordtype">float</span> scale_factor ){</div>
+<div class="line"><a id="l01588" name="l01588"></a><span class="lineno"> 1588</span>    this-&gt;internode_length_max *= scale_factor;</div>
+<div class="line"><a id="l01589" name="l01589"></a><span class="lineno"> 1589</span> </div>
+<div class="line"><a id="l01590" name="l01590"></a><span class="lineno"> 1590</span>    current_internode_scale_factor = current_internode_scale_factor/scale_factor;</div>
+<div class="line"><a id="l01591" name="l01591"></a><span class="lineno"> 1591</span> </div>
+<div class="line"><a id="l01592" name="l01592"></a><span class="lineno"> 1592</span>    <span class="keywordflow">if</span>( current_internode_scale_factor&gt;=1.f ){</div>
+<div class="line"><a id="l01593" name="l01593"></a><span class="lineno"> 1593</span>        setInternodeLengthScaleFraction(1.f, <span class="keyword">true</span>);</div>
+<div class="line"><a id="l01594" name="l01594"></a><span class="lineno"> 1594</span>        current_internode_scale_factor = 1.f;</div>
+<div class="line"><a id="l01595" name="l01595"></a><span class="lineno"> 1595</span>    }</div>
+<div class="line"><a id="l01596" name="l01596"></a><span class="lineno"> 1596</span>}</div>
 </div>
-<div class="line"><a id="l01596" name="l01596"></a><span class="lineno"> 1596</span> </div>
-<div class="foldopen" id="foldopen01597" data-start="{" data-end="}">
-<div class="line"><a id="l01597" name="l01597"></a><span class="lineno"><a class="line" href="struct_phytomer.html#a25a09ac7a2eb07d34fed5c6d9fad213e"> 1597</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="struct_phytomer.html#a25a09ac7a2eb07d34fed5c6d9fad213e">Phytomer::setInternodeMaxLength</a>( <span class="keywordtype">float</span> internode_length_max_new ){</div>
-<div class="line"><a id="l01598" name="l01598"></a><span class="lineno"> 1598</span>    <span class="keywordtype">float</span> scale_factor = internode_length_max_new/this-&gt;internode_length_max;</div>
-<div class="line"><a id="l01599" name="l01599"></a><span class="lineno"> 1599</span>    <a class="code hl_function" href="struct_phytomer.html#aecc6f52f3490562f4daf581bec7f4260">scaleInternodeMaxLength</a>(scale_factor);</div>
-<div class="line"><a id="l01600" name="l01600"></a><span class="lineno"> 1600</span>}</div>
+<div class="line"><a id="l01597" name="l01597"></a><span class="lineno"> 1597</span> </div>
+<div class="foldopen" id="foldopen01598" data-start="{" data-end="}">
+<div class="line"><a id="l01598" name="l01598"></a><span class="lineno"><a class="line" href="struct_phytomer.html#a25a09ac7a2eb07d34fed5c6d9fad213e"> 1598</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="struct_phytomer.html#a25a09ac7a2eb07d34fed5c6d9fad213e">Phytomer::setInternodeMaxLength</a>( <span class="keywordtype">float</span> internode_length_max_new ){</div>
+<div class="line"><a id="l01599" name="l01599"></a><span class="lineno"> 1599</span>    <span class="keywordtype">float</span> scale_factor = internode_length_max_new/this-&gt;internode_length_max;</div>
+<div class="line"><a id="l01600" name="l01600"></a><span class="lineno"> 1600</span>    <a class="code hl_function" href="struct_phytomer.html#aecc6f52f3490562f4daf581bec7f4260">scaleInternodeMaxLength</a>(scale_factor);</div>
+<div class="line"><a id="l01601" name="l01601"></a><span class="lineno"> 1601</span>}</div>
 </div>
-<div class="line"><a id="l01601" name="l01601"></a><span class="lineno"> 1601</span> </div>
-<div class="foldopen" id="foldopen01602" data-start="{" data-end="}">
-<div class="line"><a id="l01602" name="l01602"></a><span class="lineno"><a class="line" href="struct_phytomer.html#a70aa0f62afdf829d9f2af6167d30f8ca"> 1602</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="struct_phytomer.html#a70aa0f62afdf829d9f2af6167d30f8ca">Phytomer::setInternodeMaxRadius</a>( <span class="keywordtype">float</span> internode_radius_max_new ){</div>
-<div class="line"><a id="l01603" name="l01603"></a><span class="lineno"> 1603</span> </div>
-<div class="line"><a id="l01604" name="l01604"></a><span class="lineno"> 1604</span>    this-&gt;internode_radius_max = internode_radius_max_new;</div>
-<div class="line"><a id="l01605" name="l01605"></a><span class="lineno"> 1605</span> </div>
-<div class="line"><a id="l01606" name="l01606"></a><span class="lineno"> 1606</span>}</div>
+<div class="line"><a id="l01602" name="l01602"></a><span class="lineno"> 1602</span> </div>
+<div class="foldopen" id="foldopen01603" data-start="{" data-end="}">
+<div class="line"><a id="l01603" name="l01603"></a><span class="lineno"><a class="line" href="struct_phytomer.html#a70aa0f62afdf829d9f2af6167d30f8ca"> 1603</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="struct_phytomer.html#a70aa0f62afdf829d9f2af6167d30f8ca">Phytomer::setInternodeMaxRadius</a>( <span class="keywordtype">float</span> internode_radius_max_new ){</div>
+<div class="line"><a id="l01604" name="l01604"></a><span class="lineno"> 1604</span> </div>
+<div class="line"><a id="l01605" name="l01605"></a><span class="lineno"> 1605</span>    this-&gt;internode_radius_max = internode_radius_max_new;</div>
+<div class="line"><a id="l01606" name="l01606"></a><span class="lineno"> 1606</span> </div>
+<div class="line"><a id="l01607" name="l01607"></a><span class="lineno"> 1607</span>}</div>
 </div>
-<div class="line"><a id="l01607" name="l01607"></a><span class="lineno"> 1607</span> </div>
-<div class="foldopen" id="foldopen01608" data-start="{" data-end="}">
-<div class="line"><a id="l01608" name="l01608"></a><span class="lineno"><a class="line" href="struct_phytomer.html#ab089057c5102fd40a09a92d5a424bfdb"> 1608</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="struct_phytomer.html#ab089057c5102fd40a09a92d5a424bfdb">Phytomer::setLeafScaleFraction</a>(<span class="keywordtype">float</span> leaf_scale_factor_fraction ){</div>
-<div class="line"><a id="l01609" name="l01609"></a><span class="lineno"> 1609</span> </div>
-<div class="line"><a id="l01610" name="l01610"></a><span class="lineno"> 1610</span>    assert(leaf_scale_factor_fraction &gt;= 0 &amp;&amp; leaf_scale_factor_fraction &lt;= 1 );</div>
-<div class="line"><a id="l01611" name="l01611"></a><span class="lineno"> 1611</span> </div>
-<div class="line"><a id="l01612" name="l01612"></a><span class="lineno"> 1612</span>    <span class="keywordflow">if</span>(leaf_scale_factor_fraction == current_leaf_scale_factor || (leaf_objIDs.empty() &amp;&amp; petiole_objIDs.empty())  ){</div>
-<div class="line"><a id="l01613" name="l01613"></a><span class="lineno"> 1613</span>        <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l01614" name="l01614"></a><span class="lineno"> 1614</span>    }</div>
-<div class="line"><a id="l01615" name="l01615"></a><span class="lineno"> 1615</span> </div>
-<div class="line"><a id="l01616" name="l01616"></a><span class="lineno"> 1616</span>    <span class="keywordtype">float</span> delta_scale = leaf_scale_factor_fraction / current_leaf_scale_factor;</div>
-<div class="line"><a id="l01617" name="l01617"></a><span class="lineno"> 1617</span> </div>
-<div class="line"><a id="l01618" name="l01618"></a><span class="lineno"> 1618</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer_parameters.petiole.petioles_per_internode; petiole++ ) {</div>
-<div class="line"><a id="l01619" name="l01619"></a><span class="lineno"> 1619</span>        petiole_length.at(petiole) *= delta_scale;</div>
-<div class="line"><a id="l01620" name="l01620"></a><span class="lineno"> 1620</span>    }</div>
-<div class="line"><a id="l01621" name="l01621"></a><span class="lineno"> 1621</span>    current_leaf_scale_factor = leaf_scale_factor_fraction;</div>
-<div class="line"><a id="l01622" name="l01622"></a><span class="lineno"> 1622</span> </div>
-<div class="line"><a id="l01623" name="l01623"></a><span class="lineno"> 1623</span>    assert(leaf_objIDs.size() == leaf_bases.size());</div>
-<div class="line"><a id="l01624" name="l01624"></a><span class="lineno"> 1624</span> </div>
-<div class="line"><a id="l01625" name="l01625"></a><span class="lineno"> 1625</span>    <span class="comment">//scale the petiole</span></div>
-<div class="line"><a id="l01626" name="l01626"></a><span class="lineno"> 1626</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer_parameters.petiole.petioles_per_internode; petiole++ ) {</div>
-<div class="line"><a id="l01627" name="l01627"></a><span class="lineno"> 1627</span> </div>
-<div class="line"><a id="l01628" name="l01628"></a><span class="lineno"> 1628</span>        <span class="keywordflow">if</span>( !petiole_objIDs.empty() ) {</div>
-<div class="line"><a id="l01629" name="l01629"></a><span class="lineno"> 1629</span>            <span class="keywordtype">int</span> node = 0;</div>
-<div class="line"><a id="l01630" name="l01630"></a><span class="lineno"> 1630</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> old_tip = <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).back();</div>
-<div class="line"><a id="l01631" name="l01631"></a><span class="lineno"> 1631</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> last_base = <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).front();<span class="comment">//looping over petioles</span></div>
-<div class="line"><a id="l01632" name="l01632"></a><span class="lineno"> 1632</span>            <span class="keywordflow">for</span> (uint objID: petiole_objIDs.at(petiole)) { <span class="comment">//looping over cones/segments within petiole</span></div>
-<div class="line"><a id="l01633" name="l01633"></a><span class="lineno"> 1633</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3221051ea9c1025e8fb00d9dec01839f">getConeObjectPointer</a>(objID)-&gt;<a class="code hl_function" href="classhelios_1_1_cone.html#aaefa3caee5b8e46ca46650031d0bee0a">scaleLength</a>(delta_scale);</div>
-<div class="line"><a id="l01634" name="l01634"></a><span class="lineno"> 1634</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3221051ea9c1025e8fb00d9dec01839f">getConeObjectPointer</a>(objID)-&gt;<a class="code hl_function" href="classhelios_1_1_cone.html#ad40b7cda9baac86be967058736b2bb78">scaleGirth</a>(delta_scale);</div>
-<div class="line"><a id="l01635" name="l01635"></a><span class="lineno"> 1635</span>                petiole_radii.at(petiole).at(node) *= delta_scale;</div>
-<div class="line"><a id="l01636" name="l01636"></a><span class="lineno"> 1636</span>                <span class="keywordflow">if</span> (node &gt; 0) {</div>
-<div class="line"><a id="l01637" name="l01637"></a><span class="lineno"> 1637</span>                    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> new_base = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a54e9f0b7c5014a37cd9d5bf74e7d5935">getConeObjectNode</a>(objID, 0);</div>
-<div class="line"><a id="l01638" name="l01638"></a><span class="lineno"> 1638</span>                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>(objID, last_base - new_base);</div>
-<div class="line"><a id="l01639" name="l01639"></a><span class="lineno"> 1639</span>                } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l01640" name="l01640"></a><span class="lineno"> 1640</span>                    <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).at(0) = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a54e9f0b7c5014a37cd9d5bf74e7d5935">getConeObjectNode</a>(objID, 0);</div>
-<div class="line"><a id="l01641" name="l01641"></a><span class="lineno"> 1641</span>                }</div>
-<div class="line"><a id="l01642" name="l01642"></a><span class="lineno"> 1642</span>                last_base = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a54e9f0b7c5014a37cd9d5bf74e7d5935">getConeObjectNode</a>(objID, 1);</div>
-<div class="line"><a id="l01643" name="l01643"></a><span class="lineno"> 1643</span>                <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).at(node + 1) = last_base;</div>
-<div class="line"><a id="l01644" name="l01644"></a><span class="lineno"> 1644</span>                node++;</div>
-<div class="line"><a id="l01645" name="l01645"></a><span class="lineno"> 1645</span>            }</div>
-<div class="line"><a id="l01646" name="l01646"></a><span class="lineno"> 1646</span>        }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l01647" name="l01647"></a><span class="lineno"> 1647</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=1; i&lt;<a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).size(); i++ ) {</div>
-<div class="line"><a id="l01648" name="l01648"></a><span class="lineno"> 1648</span>                <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> axis_vector = <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).at(i) - <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).at(i-1);</div>
-<div class="line"><a id="l01649" name="l01649"></a><span class="lineno"> 1649</span>                <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).at(i) = <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).at(i-1) + delta_scale*axis_vector;</div>
-<div class="line"><a id="l01650" name="l01650"></a><span class="lineno"> 1650</span>                petiole_radii.at(petiole).at(i) *= delta_scale;</div>
-<div class="line"><a id="l01651" name="l01651"></a><span class="lineno"> 1651</span>            }</div>
-<div class="line"><a id="l01652" name="l01652"></a><span class="lineno"> 1652</span>        }</div>
-<div class="line"><a id="l01653" name="l01653"></a><span class="lineno"> 1653</span> </div>
-<div class="line"><a id="l01654" name="l01654"></a><span class="lineno"> 1654</span>        <span class="comment">//scale and translate leaves</span></div>
-<div class="line"><a id="l01655" name="l01655"></a><span class="lineno"> 1655</span>        assert(leaf_objIDs.at(petiole).size() == leaf_bases.at(petiole).size());</div>
-<div class="line"><a id="l01656" name="l01656"></a><span class="lineno"> 1656</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> leaf = 0; leaf &lt; leaf_objIDs.at(petiole).size(); leaf++) {</div>
-<div class="line"><a id="l01657" name="l01657"></a><span class="lineno"> 1657</span> </div>
-<div class="line"><a id="l01658" name="l01658"></a><span class="lineno"> 1658</span>            <span class="keywordtype">float</span> ind_from_tip = float(leaf) - float(leaf_objIDs.at(petiole).size() - 1) / 2.f;</div>
-<div class="line"><a id="l01659" name="l01659"></a><span class="lineno"> 1659</span> </div>
-<div class="line"><a id="l01660" name="l01660"></a><span class="lineno"> 1660</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>(leaf_objIDs.at(petiole).at(leaf), -1 * leaf_bases.at(petiole).at(leaf));</div>
-<div class="line"><a id="l01661" name="l01661"></a><span class="lineno"> 1661</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#afe9817e155de4a39bc82b000c5d0e888">scaleObject</a>(leaf_objIDs.at(petiole).at(leaf), delta_scale * <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1, 1, 1));</div>
-<div class="line"><a id="l01662" name="l01662"></a><span class="lineno"> 1662</span>            <span class="keywordflow">if</span> (ind_from_tip == 0) {</div>
-<div class="line"><a id="l01663" name="l01663"></a><span class="lineno"> 1663</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>(leaf_objIDs.at(petiole).at(leaf), <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).back());</div>
-<div class="line"><a id="l01664" name="l01664"></a><span class="lineno"> 1664</span>                leaf_bases.at(petiole).at(leaf) = <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).back();</div>
-<div class="line"><a id="l01665" name="l01665"></a><span class="lineno"> 1665</span>            } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l01666" name="l01666"></a><span class="lineno"> 1666</span>                <span class="keywordtype">float</span> offset = (fabs(ind_from_tip) - 0.5f) * phytomer_parameters.leaf.leaflet_offset.val() * phytomer_parameters.petiole.length.val();</div>
-<div class="line"><a id="l01667" name="l01667"></a><span class="lineno"> 1667</span>                <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> leaf_base = <a class="code hl_function" href="_canopy_generator_8h.html#a339d165bb0c396a75ce255fbe16a20d4">interpolateTube</a>(<a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole), 1.f - offset / phytomer_parameters.petiole.length.val());</div>
-<div class="line"><a id="l01668" name="l01668"></a><span class="lineno"> 1668</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>(leaf_objIDs.at(petiole).at(leaf), leaf_base);</div>
-<div class="line"><a id="l01669" name="l01669"></a><span class="lineno"> 1669</span>                leaf_bases.at(petiole).at(leaf) = leaf_base;</div>
-<div class="line"><a id="l01670" name="l01670"></a><span class="lineno"> 1670</span>            }</div>
-<div class="line"><a id="l01671" name="l01671"></a><span class="lineno"> 1671</span> </div>
-<div class="line"><a id="l01672" name="l01672"></a><span class="lineno"> 1672</span>        }</div>
-<div class="line"><a id="l01673" name="l01673"></a><span class="lineno"> 1673</span> </div>
-<div class="line"><a id="l01674" name="l01674"></a><span class="lineno"> 1674</span>    }</div>
-<div class="line"><a id="l01675" name="l01675"></a><span class="lineno"> 1675</span> </div>
-<div class="line"><a id="l01676" name="l01676"></a><span class="lineno"> 1676</span>}</div>
+<div class="line"><a id="l01608" name="l01608"></a><span class="lineno"> 1608</span> </div>
+<div class="foldopen" id="foldopen01609" data-start="{" data-end="}">
+<div class="line"><a id="l01609" name="l01609"></a><span class="lineno"><a class="line" href="struct_phytomer.html#ab089057c5102fd40a09a92d5a424bfdb"> 1609</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="struct_phytomer.html#ab089057c5102fd40a09a92d5a424bfdb">Phytomer::setLeafScaleFraction</a>(<span class="keywordtype">float</span> leaf_scale_factor_fraction ){</div>
+<div class="line"><a id="l01610" name="l01610"></a><span class="lineno"> 1610</span> </div>
+<div class="line"><a id="l01611" name="l01611"></a><span class="lineno"> 1611</span>    assert(leaf_scale_factor_fraction &gt;= 0 &amp;&amp; leaf_scale_factor_fraction &lt;= 1 );</div>
+<div class="line"><a id="l01612" name="l01612"></a><span class="lineno"> 1612</span> </div>
+<div class="line"><a id="l01613" name="l01613"></a><span class="lineno"> 1613</span>    <span class="keywordflow">if</span>(leaf_scale_factor_fraction == current_leaf_scale_factor || (leaf_objIDs.empty() &amp;&amp; petiole_objIDs.empty())  ){</div>
+<div class="line"><a id="l01614" name="l01614"></a><span class="lineno"> 1614</span>        <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l01615" name="l01615"></a><span class="lineno"> 1615</span>    }</div>
+<div class="line"><a id="l01616" name="l01616"></a><span class="lineno"> 1616</span> </div>
+<div class="line"><a id="l01617" name="l01617"></a><span class="lineno"> 1617</span>    <span class="keywordtype">float</span> delta_scale = leaf_scale_factor_fraction / current_leaf_scale_factor;</div>
+<div class="line"><a id="l01618" name="l01618"></a><span class="lineno"> 1618</span> </div>
+<div class="line"><a id="l01619" name="l01619"></a><span class="lineno"> 1619</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer_parameters.petiole.petioles_per_internode; petiole++ ) {</div>
+<div class="line"><a id="l01620" name="l01620"></a><span class="lineno"> 1620</span>        petiole_length.at(petiole) *= delta_scale;</div>
+<div class="line"><a id="l01621" name="l01621"></a><span class="lineno"> 1621</span>    }</div>
+<div class="line"><a id="l01622" name="l01622"></a><span class="lineno"> 1622</span>    current_leaf_scale_factor = leaf_scale_factor_fraction;</div>
+<div class="line"><a id="l01623" name="l01623"></a><span class="lineno"> 1623</span> </div>
+<div class="line"><a id="l01624" name="l01624"></a><span class="lineno"> 1624</span>    assert(leaf_objIDs.size() == leaf_bases.size());</div>
+<div class="line"><a id="l01625" name="l01625"></a><span class="lineno"> 1625</span> </div>
+<div class="line"><a id="l01626" name="l01626"></a><span class="lineno"> 1626</span>    <span class="comment">//scale the petiole</span></div>
+<div class="line"><a id="l01627" name="l01627"></a><span class="lineno"> 1627</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer_parameters.petiole.petioles_per_internode; petiole++ ) {</div>
+<div class="line"><a id="l01628" name="l01628"></a><span class="lineno"> 1628</span> </div>
+<div class="line"><a id="l01629" name="l01629"></a><span class="lineno"> 1629</span>        <span class="keywordflow">if</span>( !petiole_objIDs.empty() ) {</div>
+<div class="line"><a id="l01630" name="l01630"></a><span class="lineno"> 1630</span>            <span class="keywordtype">int</span> node = 0;</div>
+<div class="line"><a id="l01631" name="l01631"></a><span class="lineno"> 1631</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> old_tip = <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).back();</div>
+<div class="line"><a id="l01632" name="l01632"></a><span class="lineno"> 1632</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> last_base = <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).front();<span class="comment">//looping over petioles</span></div>
+<div class="line"><a id="l01633" name="l01633"></a><span class="lineno"> 1633</span>            <span class="keywordflow">for</span> (uint objID: petiole_objIDs.at(petiole)) { <span class="comment">//looping over cones/segments within petiole</span></div>
+<div class="line"><a id="l01634" name="l01634"></a><span class="lineno"> 1634</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3221051ea9c1025e8fb00d9dec01839f">getConeObjectPointer</a>(objID)-&gt;<a class="code hl_function" href="classhelios_1_1_cone.html#aaefa3caee5b8e46ca46650031d0bee0a">scaleLength</a>(delta_scale);</div>
+<div class="line"><a id="l01635" name="l01635"></a><span class="lineno"> 1635</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3221051ea9c1025e8fb00d9dec01839f">getConeObjectPointer</a>(objID)-&gt;<a class="code hl_function" href="classhelios_1_1_cone.html#ad40b7cda9baac86be967058736b2bb78">scaleGirth</a>(delta_scale);</div>
+<div class="line"><a id="l01636" name="l01636"></a><span class="lineno"> 1636</span>                petiole_radii.at(petiole).at(node) *= delta_scale;</div>
+<div class="line"><a id="l01637" name="l01637"></a><span class="lineno"> 1637</span>                <span class="keywordflow">if</span> (node &gt; 0) {</div>
+<div class="line"><a id="l01638" name="l01638"></a><span class="lineno"> 1638</span>                    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> new_base = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a54e9f0b7c5014a37cd9d5bf74e7d5935">getConeObjectNode</a>(objID, 0);</div>
+<div class="line"><a id="l01639" name="l01639"></a><span class="lineno"> 1639</span>                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>(objID, last_base - new_base);</div>
+<div class="line"><a id="l01640" name="l01640"></a><span class="lineno"> 1640</span>                } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l01641" name="l01641"></a><span class="lineno"> 1641</span>                    <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).at(0) = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a54e9f0b7c5014a37cd9d5bf74e7d5935">getConeObjectNode</a>(objID, 0);</div>
+<div class="line"><a id="l01642" name="l01642"></a><span class="lineno"> 1642</span>                }</div>
+<div class="line"><a id="l01643" name="l01643"></a><span class="lineno"> 1643</span>                last_base = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a54e9f0b7c5014a37cd9d5bf74e7d5935">getConeObjectNode</a>(objID, 1);</div>
+<div class="line"><a id="l01644" name="l01644"></a><span class="lineno"> 1644</span>                <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).at(node + 1) = last_base;</div>
+<div class="line"><a id="l01645" name="l01645"></a><span class="lineno"> 1645</span>                node++;</div>
+<div class="line"><a id="l01646" name="l01646"></a><span class="lineno"> 1646</span>            }</div>
+<div class="line"><a id="l01647" name="l01647"></a><span class="lineno"> 1647</span>        }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l01648" name="l01648"></a><span class="lineno"> 1648</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=1; i&lt;<a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).size(); i++ ) {</div>
+<div class="line"><a id="l01649" name="l01649"></a><span class="lineno"> 1649</span>                <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> axis_vector = <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).at(i) - <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).at(i-1);</div>
+<div class="line"><a id="l01650" name="l01650"></a><span class="lineno"> 1650</span>                <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).at(i) = <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).at(i-1) + delta_scale*axis_vector;</div>
+<div class="line"><a id="l01651" name="l01651"></a><span class="lineno"> 1651</span>                petiole_radii.at(petiole).at(i) *= delta_scale;</div>
+<div class="line"><a id="l01652" name="l01652"></a><span class="lineno"> 1652</span>            }</div>
+<div class="line"><a id="l01653" name="l01653"></a><span class="lineno"> 1653</span>        }</div>
+<div class="line"><a id="l01654" name="l01654"></a><span class="lineno"> 1654</span> </div>
+<div class="line"><a id="l01655" name="l01655"></a><span class="lineno"> 1655</span>        <span class="comment">//scale and translate leaves</span></div>
+<div class="line"><a id="l01656" name="l01656"></a><span class="lineno"> 1656</span>        assert(leaf_objIDs.at(petiole).size() == leaf_bases.at(petiole).size());</div>
+<div class="line"><a id="l01657" name="l01657"></a><span class="lineno"> 1657</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> leaf = 0; leaf &lt; leaf_objIDs.at(petiole).size(); leaf++) {</div>
+<div class="line"><a id="l01658" name="l01658"></a><span class="lineno"> 1658</span> </div>
+<div class="line"><a id="l01659" name="l01659"></a><span class="lineno"> 1659</span>            <span class="keywordtype">float</span> ind_from_tip = float(leaf) - float(leaf_objIDs.at(petiole).size() - 1) / 2.f;</div>
+<div class="line"><a id="l01660" name="l01660"></a><span class="lineno"> 1660</span> </div>
+<div class="line"><a id="l01661" name="l01661"></a><span class="lineno"> 1661</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>(leaf_objIDs.at(petiole).at(leaf), -1 * leaf_bases.at(petiole).at(leaf));</div>
+<div class="line"><a id="l01662" name="l01662"></a><span class="lineno"> 1662</span>            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#afe9817e155de4a39bc82b000c5d0e888">scaleObject</a>(leaf_objIDs.at(petiole).at(leaf), delta_scale * <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1, 1, 1));</div>
+<div class="line"><a id="l01663" name="l01663"></a><span class="lineno"> 1663</span>            <span class="keywordflow">if</span> (ind_from_tip == 0) {</div>
+<div class="line"><a id="l01664" name="l01664"></a><span class="lineno"> 1664</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>(leaf_objIDs.at(petiole).at(leaf), <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).back());</div>
+<div class="line"><a id="l01665" name="l01665"></a><span class="lineno"> 1665</span>                leaf_bases.at(petiole).at(leaf) = <a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole).back();</div>
+<div class="line"><a id="l01666" name="l01666"></a><span class="lineno"> 1666</span>            } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l01667" name="l01667"></a><span class="lineno"> 1667</span>                <span class="keywordtype">float</span> offset = (fabs(ind_from_tip) - 0.5f) * phytomer_parameters.leaf.leaflet_offset.val() * phytomer_parameters.petiole.length.val();</div>
+<div class="line"><a id="l01668" name="l01668"></a><span class="lineno"> 1668</span>                <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> leaf_base = <a class="code hl_function" href="_canopy_generator_8h.html#a339d165bb0c396a75ce255fbe16a20d4">interpolateTube</a>(<a class="code hl_variable" href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">petiole_vertices</a>.at(petiole), 1.f - offset / phytomer_parameters.petiole.length.val());</div>
+<div class="line"><a id="l01669" name="l01669"></a><span class="lineno"> 1669</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a70805980c2c201082507dcfdde4399d1">translateObject</a>(leaf_objIDs.at(petiole).at(leaf), leaf_base);</div>
+<div class="line"><a id="l01670" name="l01670"></a><span class="lineno"> 1670</span>                leaf_bases.at(petiole).at(leaf) = leaf_base;</div>
+<div class="line"><a id="l01671" name="l01671"></a><span class="lineno"> 1671</span>            }</div>
+<div class="line"><a id="l01672" name="l01672"></a><span class="lineno"> 1672</span> </div>
+<div class="line"><a id="l01673" name="l01673"></a><span class="lineno"> 1673</span>        }</div>
+<div class="line"><a id="l01674" name="l01674"></a><span class="lineno"> 1674</span> </div>
+<div class="line"><a id="l01675" name="l01675"></a><span class="lineno"> 1675</span>    }</div>
+<div class="line"><a id="l01676" name="l01676"></a><span class="lineno"> 1676</span> </div>
+<div class="line"><a id="l01677" name="l01677"></a><span class="lineno"> 1677</span>}</div>
 </div>
-<div class="line"><a id="l01677" name="l01677"></a><span class="lineno"> 1677</span> </div>
-<div class="foldopen" id="foldopen01678" data-start="{" data-end="}">
-<div class="line"><a id="l01678" name="l01678"></a><span class="lineno"><a class="line" href="struct_phytomer.html#ae6bbbd7dcf85fb3b11062e2b0cb415e3"> 1678</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="struct_phytomer.html#ae6bbbd7dcf85fb3b11062e2b0cb415e3">Phytomer::setLeafPrototypeScale</a>( <span class="keywordtype">float</span> leaf_prototype_scale ){</div>
-<div class="line"><a id="l01679" name="l01679"></a><span class="lineno"> 1679</span> </div>
-<div class="line"><a id="l01680" name="l01680"></a><span class="lineno"> 1680</span>    <span class="keywordtype">float</span> tip_ind = ceil(<span class="keywordtype">float</span>(leaf_size_max.front().size()-1)/2.f);</div>
-<div class="line"><a id="l01681" name="l01681"></a><span class="lineno"> 1681</span>    <span class="keywordtype">float</span> scale_factor = leaf_prototype_scale/leaf_size_max.front().at(tip_ind);</div>
-<div class="line"><a id="l01682" name="l01682"></a><span class="lineno"> 1682</span>    current_leaf_scale_factor = current_leaf_scale_factor*scale_factor;</div>
-<div class="line"><a id="l01683" name="l01683"></a><span class="lineno"> 1683</span> </div>
-<div class="line"><a id="l01684" name="l01684"></a><span class="lineno"> 1684</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer_parameters.petiole.petioles_per_internode; petiole++ ) {</div>
-<div class="line"><a id="l01685" name="l01685"></a><span class="lineno"> 1685</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> leaf = 0; leaf &lt; leaf_objIDs.at(petiole).size(); leaf++) {</div>
-<div class="line"><a id="l01686" name="l01686"></a><span class="lineno"> 1686</span>            leaf_size_max.at(petiole).at(leaf)*=scale_factor;</div>
-<div class="line"><a id="l01687" name="l01687"></a><span class="lineno"> 1687</span>        }</div>
-<div class="line"><a id="l01688" name="l01688"></a><span class="lineno"> 1688</span>    }</div>
-<div class="line"><a id="l01689" name="l01689"></a><span class="lineno"> 1689</span> </div>
-<div class="line"><a id="l01690" name="l01690"></a><span class="lineno"> 1690</span>    <span class="comment">//note: at time of phytomer creation, petiole curvature was based on the petiole length prior to this scaling. To stay consistent, we will scale the curvature appropriately.</span></div>
-<div class="line"><a id="l01691" name="l01691"></a><span class="lineno"> 1691</span>    this-&gt;petiole_curvature /= scale_factor;</div>
-<div class="line"><a id="l01692" name="l01692"></a><span class="lineno"> 1692</span> </div>
-<div class="line"><a id="l01693" name="l01693"></a><span class="lineno"> 1693</span>    <span class="keywordflow">if</span>( current_leaf_scale_factor&gt;=1.f ){</div>
-<div class="line"><a id="l01694" name="l01694"></a><span class="lineno"> 1694</span>        <a class="code hl_function" href="struct_phytomer.html#ab089057c5102fd40a09a92d5a424bfdb">setLeafScaleFraction</a>(1.f);</div>
-<div class="line"><a id="l01695" name="l01695"></a><span class="lineno"> 1695</span>        current_leaf_scale_factor = 1.f;</div>
-<div class="line"><a id="l01696" name="l01696"></a><span class="lineno"> 1696</span>    }</div>
-<div class="line"><a id="l01697" name="l01697"></a><span class="lineno"> 1697</span> </div>
-<div class="line"><a id="l01698" name="l01698"></a><span class="lineno"> 1698</span>}</div>
+<div class="line"><a id="l01678" name="l01678"></a><span class="lineno"> 1678</span> </div>
+<div class="foldopen" id="foldopen01679" data-start="{" data-end="}">
+<div class="line"><a id="l01679" name="l01679"></a><span class="lineno"><a class="line" href="struct_phytomer.html#ae6bbbd7dcf85fb3b11062e2b0cb415e3"> 1679</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="struct_phytomer.html#ae6bbbd7dcf85fb3b11062e2b0cb415e3">Phytomer::setLeafPrototypeScale</a>( <span class="keywordtype">float</span> leaf_prototype_scale ){</div>
+<div class="line"><a id="l01680" name="l01680"></a><span class="lineno"> 1680</span> </div>
+<div class="line"><a id="l01681" name="l01681"></a><span class="lineno"> 1681</span>    <span class="keywordtype">float</span> tip_ind = ceil(<span class="keywordtype">float</span>(leaf_size_max.front().size()-1)/2.f);</div>
+<div class="line"><a id="l01682" name="l01682"></a><span class="lineno"> 1682</span>    <span class="keywordtype">float</span> scale_factor = leaf_prototype_scale/leaf_size_max.front().at(tip_ind);</div>
+<div class="line"><a id="l01683" name="l01683"></a><span class="lineno"> 1683</span>    current_leaf_scale_factor = current_leaf_scale_factor*scale_factor;</div>
+<div class="line"><a id="l01684" name="l01684"></a><span class="lineno"> 1684</span> </div>
+<div class="line"><a id="l01685" name="l01685"></a><span class="lineno"> 1685</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer_parameters.petiole.petioles_per_internode; petiole++ ) {</div>
+<div class="line"><a id="l01686" name="l01686"></a><span class="lineno"> 1686</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> leaf = 0; leaf &lt; leaf_objIDs.at(petiole).size(); leaf++) {</div>
+<div class="line"><a id="l01687" name="l01687"></a><span class="lineno"> 1687</span>            leaf_size_max.at(petiole).at(leaf)*=scale_factor;</div>
+<div class="line"><a id="l01688" name="l01688"></a><span class="lineno"> 1688</span>        }</div>
+<div class="line"><a id="l01689" name="l01689"></a><span class="lineno"> 1689</span>    }</div>
+<div class="line"><a id="l01690" name="l01690"></a><span class="lineno"> 1690</span> </div>
+<div class="line"><a id="l01691" name="l01691"></a><span class="lineno"> 1691</span>    <span class="comment">//note: at time of phytomer creation, petiole curvature was based on the petiole length prior to this scaling. To stay consistent, we will scale the curvature appropriately.</span></div>
+<div class="line"><a id="l01692" name="l01692"></a><span class="lineno"> 1692</span>    this-&gt;petiole_curvature /= scale_factor;</div>
+<div class="line"><a id="l01693" name="l01693"></a><span class="lineno"> 1693</span> </div>
+<div class="line"><a id="l01694" name="l01694"></a><span class="lineno"> 1694</span>    <span class="keywordflow">if</span>( current_leaf_scale_factor&gt;=1.f ){</div>
+<div class="line"><a id="l01695" name="l01695"></a><span class="lineno"> 1695</span>        <a class="code hl_function" href="struct_phytomer.html#ab089057c5102fd40a09a92d5a424bfdb">setLeafScaleFraction</a>(1.f);</div>
+<div class="line"><a id="l01696" name="l01696"></a><span class="lineno"> 1696</span>        current_leaf_scale_factor = 1.f;</div>
+<div class="line"><a id="l01697" name="l01697"></a><span class="lineno"> 1697</span>    }</div>
+<div class="line"><a id="l01698" name="l01698"></a><span class="lineno"> 1698</span> </div>
+<div class="line"><a id="l01699" name="l01699"></a><span class="lineno"> 1699</span>}</div>
 </div>
-<div class="line"><a id="l01699" name="l01699"></a><span class="lineno"> 1699</span> </div>
-<div class="line"><a id="l01700" name="l01700"></a><span class="lineno"> 1700</span><span class="keywordtype">void</span> Phytomer::scaleLeafPrototypeScale( <span class="keywordtype">float</span> scale_factor ){</div>
-<div class="line"><a id="l01701" name="l01701"></a><span class="lineno"> 1701</span> </div>
-<div class="line"><a id="l01702" name="l01702"></a><span class="lineno"> 1702</span>    <span class="keywordflow">if</span>( scale_factor&lt;0.f ) {</div>
-<div class="line"><a id="l01703" name="l01703"></a><span class="lineno"> 1703</span>        scale_factor = 0;</div>
-<div class="line"><a id="l01704" name="l01704"></a><span class="lineno"> 1704</span>    }</div>
-<div class="line"><a id="l01705" name="l01705"></a><span class="lineno"> 1705</span> </div>
-<div class="line"><a id="l01706" name="l01706"></a><span class="lineno"> 1706</span>    current_leaf_scale_factor = current_leaf_scale_factor/scale_factor;</div>
-<div class="line"><a id="l01707" name="l01707"></a><span class="lineno"> 1707</span> </div>
-<div class="line"><a id="l01708" name="l01708"></a><span class="lineno"> 1708</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer_parameters.petiole.petioles_per_internode; petiole++ ) {</div>
-<div class="line"><a id="l01709" name="l01709"></a><span class="lineno"> 1709</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> leaf = 0; leaf &lt; leaf_objIDs.at(petiole).size(); leaf++) {</div>
-<div class="line"><a id="l01710" name="l01710"></a><span class="lineno"> 1710</span>            leaf_size_max.at(petiole).at(leaf) *= scale_factor;</div>
-<div class="line"><a id="l01711" name="l01711"></a><span class="lineno"> 1711</span>        }</div>
-<div class="line"><a id="l01712" name="l01712"></a><span class="lineno"> 1712</span>    }</div>
-<div class="line"><a id="l01713" name="l01713"></a><span class="lineno"> 1713</span> </div>
-<div class="line"><a id="l01714" name="l01714"></a><span class="lineno"> 1714</span>    <span class="comment">//note: at time of phytomer creation, petiole curvature was based on the petiole length prior to this scaling. To stay consistent, we will scale the curvature appropriately.</span></div>
-<div class="line"><a id="l01715" name="l01715"></a><span class="lineno"> 1715</span>    this-&gt;petiole_curvature /= scale_factor;</div>
-<div class="line"><a id="l01716" name="l01716"></a><span class="lineno"> 1716</span> </div>
-<div class="line"><a id="l01717" name="l01717"></a><span class="lineno"> 1717</span>    <span class="keywordflow">if</span>( current_leaf_scale_factor&gt;=1.f ){</div>
-<div class="line"><a id="l01718" name="l01718"></a><span class="lineno"> 1718</span>        <a class="code hl_function" href="struct_phytomer.html#ab089057c5102fd40a09a92d5a424bfdb">setLeafScaleFraction</a>(1.f);</div>
-<div class="line"><a id="l01719" name="l01719"></a><span class="lineno"> 1719</span>        current_leaf_scale_factor = 1.f;</div>
-<div class="line"><a id="l01720" name="l01720"></a><span class="lineno"> 1720</span>    }</div>
-<div class="line"><a id="l01721" name="l01721"></a><span class="lineno"> 1721</span> </div>
-<div class="line"><a id="l01722" name="l01722"></a><span class="lineno"> 1722</span>}</div>
-<div class="line"><a id="l01723" name="l01723"></a><span class="lineno"> 1723</span> </div>
+<div class="line"><a id="l01700" name="l01700"></a><span class="lineno"> 1700</span> </div>
+<div class="line"><a id="l01701" name="l01701"></a><span class="lineno"> 1701</span><span class="keywordtype">void</span> Phytomer::scaleLeafPrototypeScale( <span class="keywordtype">float</span> scale_factor ){</div>
+<div class="line"><a id="l01702" name="l01702"></a><span class="lineno"> 1702</span> </div>
+<div class="line"><a id="l01703" name="l01703"></a><span class="lineno"> 1703</span>    <span class="keywordflow">if</span>( scale_factor&lt;0.f ) {</div>
+<div class="line"><a id="l01704" name="l01704"></a><span class="lineno"> 1704</span>        scale_factor = 0;</div>
+<div class="line"><a id="l01705" name="l01705"></a><span class="lineno"> 1705</span>    }</div>
+<div class="line"><a id="l01706" name="l01706"></a><span class="lineno"> 1706</span> </div>
+<div class="line"><a id="l01707" name="l01707"></a><span class="lineno"> 1707</span>    current_leaf_scale_factor = current_leaf_scale_factor/scale_factor;</div>
+<div class="line"><a id="l01708" name="l01708"></a><span class="lineno"> 1708</span> </div>
+<div class="line"><a id="l01709" name="l01709"></a><span class="lineno"> 1709</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer_parameters.petiole.petioles_per_internode; petiole++ ) {</div>
+<div class="line"><a id="l01710" name="l01710"></a><span class="lineno"> 1710</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> leaf = 0; leaf &lt; leaf_objIDs.at(petiole).size(); leaf++) {</div>
+<div class="line"><a id="l01711" name="l01711"></a><span class="lineno"> 1711</span>            leaf_size_max.at(petiole).at(leaf) *= scale_factor;</div>
+<div class="line"><a id="l01712" name="l01712"></a><span class="lineno"> 1712</span>        }</div>
+<div class="line"><a id="l01713" name="l01713"></a><span class="lineno"> 1713</span>    }</div>
+<div class="line"><a id="l01714" name="l01714"></a><span class="lineno"> 1714</span> </div>
+<div class="line"><a id="l01715" name="l01715"></a><span class="lineno"> 1715</span>    <span class="comment">//note: at time of phytomer creation, petiole curvature was based on the petiole length prior to this scaling. To stay consistent, we will scale the curvature appropriately.</span></div>
+<div class="line"><a id="l01716" name="l01716"></a><span class="lineno"> 1716</span>    this-&gt;petiole_curvature /= scale_factor;</div>
+<div class="line"><a id="l01717" name="l01717"></a><span class="lineno"> 1717</span> </div>
+<div class="line"><a id="l01718" name="l01718"></a><span class="lineno"> 1718</span>    <span class="keywordflow">if</span>( current_leaf_scale_factor&gt;=1.f ){</div>
+<div class="line"><a id="l01719" name="l01719"></a><span class="lineno"> 1719</span>        <a class="code hl_function" href="struct_phytomer.html#ab089057c5102fd40a09a92d5a424bfdb">setLeafScaleFraction</a>(1.f);</div>
+<div class="line"><a id="l01720" name="l01720"></a><span class="lineno"> 1720</span>        current_leaf_scale_factor = 1.f;</div>
+<div class="line"><a id="l01721" name="l01721"></a><span class="lineno"> 1721</span>    }</div>
+<div class="line"><a id="l01722" name="l01722"></a><span class="lineno"> 1722</span> </div>
+<div class="line"><a id="l01723" name="l01723"></a><span class="lineno"> 1723</span>}</div>
 <div class="line"><a id="l01724" name="l01724"></a><span class="lineno"> 1724</span> </div>
-<div class="line"><a id="l01725" name="l01725"></a><span class="lineno"> 1725</span><span class="keywordtype">void</span> Phytomer::setInflorescenceScaleFraction(<a class="code hl_struct" href="struct_floral_bud.html">FloralBud</a> &amp;fbud, <span class="keywordtype">float</span> inflorescence_scale_factor_fraction) {</div>
-<div class="line"><a id="l01726" name="l01726"></a><span class="lineno"> 1726</span> </div>
-<div class="line"><a id="l01727" name="l01727"></a><span class="lineno"> 1727</span>    assert(inflorescence_scale_factor_fraction &gt;= 0 &amp;&amp; inflorescence_scale_factor_fraction &lt;= 1 );</div>
-<div class="line"><a id="l01728" name="l01728"></a><span class="lineno"> 1728</span> </div>
-<div class="line"><a id="l01729" name="l01729"></a><span class="lineno"> 1729</span>    <span class="keywordflow">if</span>(inflorescence_scale_factor_fraction == fbud.current_fruit_scale_factor ){</div>
-<div class="line"><a id="l01730" name="l01730"></a><span class="lineno"> 1730</span>        <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l01731" name="l01731"></a><span class="lineno"> 1731</span>    }</div>
-<div class="line"><a id="l01732" name="l01732"></a><span class="lineno"> 1732</span> </div>
-<div class="line"><a id="l01733" name="l01733"></a><span class="lineno"> 1733</span>    <span class="keywordtype">float</span> delta_scale = inflorescence_scale_factor_fraction / fbud.current_fruit_scale_factor;</div>
-<div class="line"><a id="l01734" name="l01734"></a><span class="lineno"> 1734</span> </div>
-<div class="line"><a id="l01735" name="l01735"></a><span class="lineno"> 1735</span>    fbud.current_fruit_scale_factor = inflorescence_scale_factor_fraction;</div>
-<div class="line"><a id="l01736" name="l01736"></a><span class="lineno"> 1736</span> </div>
-<div class="line"><a id="l01737" name="l01737"></a><span class="lineno"> 1737</span>    <span class="comment">//scale and translate flowers/fruit</span></div>
-<div class="line"><a id="l01738" name="l01738"></a><span class="lineno"> 1738</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> inflorescence=0; inflorescence&lt;fbud.inflorescence_objIDs.size(); inflorescence++ ) {</div>
-<div class="line"><a id="l01739" name="l01739"></a><span class="lineno"> 1739</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a0c84572898729e1a1d40415ad633066d">scaleObjectAboutPoint</a>(fbud.inflorescence_objIDs.at(inflorescence), delta_scale*<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1,1,1), fbud.inflorescence_bases.at(inflorescence));</div>
-<div class="line"><a id="l01740" name="l01740"></a><span class="lineno"> 1740</span>    }</div>
-<div class="line"><a id="l01741" name="l01741"></a><span class="lineno"> 1741</span> </div>
-<div class="line"><a id="l01742" name="l01742"></a><span class="lineno"> 1742</span>}</div>
-<div class="line"><a id="l01743" name="l01743"></a><span class="lineno"> 1743</span> </div>
-<div class="line"><a id="l01744" name="l01744"></a><span class="lineno"> 1744</span><span class="keywordtype">void</span> Phytomer::removeLeaf(){</div>
-<div class="line"><a id="l01745" name="l01745"></a><span class="lineno"> 1745</span> </div>
-<div class="line"><a id="l01746" name="l01746"></a><span class="lineno"> 1746</span>    this-&gt;petiole_radii.resize(0);</div>
-<div class="line"><a id="l01747" name="l01747"></a><span class="lineno"> 1747</span><span class="comment">//    this-&gt;petiole_vertices.resize(0);</span></div>
-<div class="line"><a id="l01748" name="l01748"></a><span class="lineno"> 1748</span>    this-&gt;petiole_colors.resize(0);</div>
-<div class="line"><a id="l01749" name="l01749"></a><span class="lineno"> 1749</span>    this-&gt;petiole_length.resize(0);</div>
-<div class="line"><a id="l01750" name="l01750"></a><span class="lineno"> 1750</span>    this-&gt;leaf_size_max.resize(0);</div>
-<div class="line"><a id="l01751" name="l01751"></a><span class="lineno"> 1751</span>    this-&gt;leaf_rotation.resize(0);</div>
-<div class="line"><a id="l01752" name="l01752"></a><span class="lineno"> 1752</span>    this-&gt;leaf_bases.resize(0);</div>
-<div class="line"><a id="l01753" name="l01753"></a><span class="lineno"> 1753</span> </div>
-<div class="line"><a id="l01754" name="l01754"></a><span class="lineno"> 1754</span>    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(<a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(leaf_objIDs));</div>
-<div class="line"><a id="l01755" name="l01755"></a><span class="lineno"> 1755</span>    leaf_objIDs.resize(0);</div>
-<div class="line"><a id="l01756" name="l01756"></a><span class="lineno"> 1756</span>    leaf_bases.resize(0);</div>
-<div class="line"><a id="l01757" name="l01757"></a><span class="lineno"> 1757</span> </div>
-<div class="line"><a id="l01758" name="l01758"></a><span class="lineno"> 1758</span>    <span class="keywordflow">if</span>( build_context_geometry_petiole ) {</div>
-<div class="line"><a id="l01759" name="l01759"></a><span class="lineno"> 1759</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(<a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(petiole_objIDs));</div>
-<div class="line"><a id="l01760" name="l01760"></a><span class="lineno"> 1760</span>        petiole_objIDs.resize(0);</div>
-<div class="line"><a id="l01761" name="l01761"></a><span class="lineno"> 1761</span>    }</div>
-<div class="line"><a id="l01762" name="l01762"></a><span class="lineno"> 1762</span> </div>
-<div class="line"><a id="l01763" name="l01763"></a><span class="lineno"> 1763</span>}</div>
-<div class="line"><a id="l01764" name="l01764"></a><span class="lineno"> 1764</span> </div>
-<div class="line"><a id="l01765" name="l01765"></a><span class="lineno"> 1765</span><span class="keywordtype">bool</span> Phytomer::hasLeaf()<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l01766" name="l01766"></a><span class="lineno"> 1766</span>    <span class="keywordflow">return</span> !leaf_bases.empty();</div>
-<div class="line"><a id="l01767" name="l01767"></a><span class="lineno"> 1767</span>}</div>
-<div class="line"><a id="l01768" name="l01768"></a><span class="lineno"> 1768</span> </div>
-<div class="line"><a id="l01769" name="l01769"></a><span class="lineno"> 1769</span><span class="keywordtype">float</span> Phytomer::calculateDownstreamLeafArea()<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l01770" name="l01770"></a><span class="lineno"> 1770</span>    <span class="keywordflow">return</span> parent_shoot_ptr-&gt;sumShootLeafArea( <a class="code hl_variable" href="struct_phytomer.html#aa35d5da6c2d3ae761d1b4ce491db2e17">shoot_index</a>.<a class="code hl_variable" href="structhelios_1_1int3.html#a1ce8c8391637ea6e33bb30b1d0adfc50">x</a> );</div>
-<div class="line"><a id="l01771" name="l01771"></a><span class="lineno"> 1771</span>}</div>
-<div class="line"><a id="l01772" name="l01772"></a><span class="lineno"> 1772</span> </div>
-<div class="line"><a id="l01773" name="l01773"></a><span class="lineno"> 1773</span>Shoot::Shoot(uint plant_ID, <span class="keywordtype">int</span> shoot_ID, <span class="keywordtype">int</span> parent_shoot_ID, uint parent_node, uint parent_petiole_index, uint rank, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;shoot_base_position, <span class="keyword">const</span> <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> &amp;shoot_base_rotation, uint current_node_number,</div>
-<div class="line"><a id="l01774" name="l01774"></a><span class="lineno"> 1774</span>             <span class="keywordtype">float</span> internode_length_shoot_initial, <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> &amp;shoot_params, std::string shoot_type_label, <a class="code hl_class" href="class_plant_architecture.html">PlantArchitecture</a> *plant_architecture_ptr) :</div>
-<div class="line"><a id="l01775" name="l01775"></a><span class="lineno"> 1775</span>        plantID(plant_ID), ID(shoot_ID), parent_shoot_ID(parent_shoot_ID), parent_node_index(parent_node), parent_petiole_index(parent_petiole_index), rank(rank), base_position(shoot_base_position), base_rotation(shoot_base_rotation), current_node_number(current_node_number), internode_length_max_shoot_initial(internode_length_shoot_initial), shoot_parameters(shoot_params), shoot_type_label(std::move(shoot_type_label)), plantarchitecture_ptr(plant_architecture_ptr) {</div>
-<div class="line"><a id="l01776" name="l01776"></a><span class="lineno"> 1776</span>    carbohydrate_pool_molC = 0;</div>
-<div class="line"><a id="l01777" name="l01777"></a><span class="lineno"> 1777</span>    phyllochron_counter = 0;</div>
-<div class="line"><a id="l01778" name="l01778"></a><span class="lineno"> 1778</span>    isdormant = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l01779" name="l01779"></a><span class="lineno"> 1779</span>    gravitropic_curvature = shoot_params.gravitropic_curvature.val();</div>
-<div class="line"><a id="l01780" name="l01780"></a><span class="lineno"> 1780</span>    context_ptr = plant_architecture_ptr-&gt;context_ptr;</div>
-<div class="line"><a id="l01781" name="l01781"></a><span class="lineno"> 1781</span> </div>
-<div class="line"><a id="l01782" name="l01782"></a><span class="lineno"> 1782</span>    <span class="keywordflow">if</span>( parent_shoot_ID&gt;=0 ) {</div>
-<div class="line"><a id="l01783" name="l01783"></a><span class="lineno"> 1783</span>        plant_architecture_ptr-&gt;plant_instances.at(plantID).shoot_tree.at(parent_shoot_ID)-&gt;childIDs[(int) parent_node_index].push_back(shoot_ID);</div>
-<div class="line"><a id="l01784" name="l01784"></a><span class="lineno"> 1784</span>    }</div>
-<div class="line"><a id="l01785" name="l01785"></a><span class="lineno"> 1785</span> </div>
-<div class="line"><a id="l01786" name="l01786"></a><span class="lineno"> 1786</span>}</div>
-<div class="line"><a id="l01787" name="l01787"></a><span class="lineno"> 1787</span> </div>
-<div class="line"><a id="l01788" name="l01788"></a><span class="lineno"> 1788</span><span class="keywordtype">void</span> Shoot::buildShootPhytomers(<span class="keywordtype">float</span> internode_radius, <span class="keywordtype">float</span> internode_length, <span class="keywordtype">float</span> internode_length_scale_factor_fraction, <span class="keywordtype">float</span> leaf_scale_factor_fraction, <span class="keywordtype">float</span> radius_taper) {</div>
-<div class="line"><a id="l01789" name="l01789"></a><span class="lineno"> 1789</span> </div>
-<div class="line"><a id="l01790" name="l01790"></a><span class="lineno"> 1790</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;current_node_number; i++ ) { <span class="comment">//loop over phytomers to build up the shoot</span></div>
-<div class="line"><a id="l01791" name="l01791"></a><span class="lineno"> 1791</span> </div>
-<div class="line"><a id="l01792" name="l01792"></a><span class="lineno"> 1792</span>        <span class="comment">//Determine position of internode base</span></div>
-<div class="line"><a id="l01793" name="l01793"></a><span class="lineno"> 1793</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> internode_base_position;</div>
-<div class="line"><a id="l01794" name="l01794"></a><span class="lineno"> 1794</span>        <span class="keywordflow">if</span>( i==0 ){ <span class="comment">//first phytomer on shoot</span></div>
-<div class="line"><a id="l01795" name="l01795"></a><span class="lineno"> 1795</span>            internode_base_position = base_position;</div>
-<div class="line"><a id="l01796" name="l01796"></a><span class="lineno"> 1796</span>        }<span class="keywordflow">else</span>{ <span class="comment">// not the first phytomer on the shoot</span></div>
-<div class="line"><a id="l01797" name="l01797"></a><span class="lineno"> 1797</span>            internode_base_position = shoot_internode_vertices.back().back();</div>
-<div class="line"><a id="l01798" name="l01798"></a><span class="lineno"> 1798</span>        }</div>
-<div class="line"><a id="l01799" name="l01799"></a><span class="lineno"> 1799</span> </div>
-<div class="line"><a id="l01800" name="l01800"></a><span class="lineno"> 1800</span>        <span class="keywordtype">float</span> taper = 1.f;</div>
-<div class="line"><a id="l01801" name="l01801"></a><span class="lineno"> 1801</span>        <span class="keywordflow">if</span>( current_node_number&gt;1 ){</div>
-<div class="line"><a id="l01802" name="l01802"></a><span class="lineno"> 1802</span>            taper = 1.f-radius_taper*float(i)/float(current_node_number-1);</div>
-<div class="line"><a id="l01803" name="l01803"></a><span class="lineno"> 1803</span>        }</div>
-<div class="line"><a id="l01804" name="l01804"></a><span class="lineno"> 1804</span> </div>
-<div class="line"><a id="l01805" name="l01805"></a><span class="lineno"> 1805</span>        <span class="comment">//Adding the phytomer(s) to the shoot</span></div>
-<div class="line"><a id="l01806" name="l01806"></a><span class="lineno"> 1806</span>        <span class="keywordtype">int</span> pID = <a class="code hl_function" href="struct_shoot.html#aa501b313aa5ee8daf94667fdfc51fb9b">appendPhytomer</a>(internode_radius * taper, internode_length, internode_length_scale_factor_fraction, leaf_scale_factor_fraction);</div>
-<div class="line"><a id="l01807" name="l01807"></a><span class="lineno"> 1807</span> </div>
-<div class="line"><a id="l01808" name="l01808"></a><span class="lineno"> 1808</span>    }</div>
-<div class="line"><a id="l01809" name="l01809"></a><span class="lineno"> 1809</span> </div>
-<div class="line"><a id="l01810" name="l01810"></a><span class="lineno"> 1810</span>}</div>
-<div class="line"><a id="l01811" name="l01811"></a><span class="lineno"> 1811</span> </div>
-<div class="foldopen" id="foldopen01812" data-start="{" data-end="}">
-<div class="line"><a id="l01812" name="l01812"></a><span class="lineno"><a class="line" href="struct_shoot.html#a72773ed6bd25881df4ecfe707ebbdcb1"> 1812</a></span><span class="keywordtype">bool</span> <a class="code hl_function" href="struct_shoot.html#a72773ed6bd25881df4ecfe707ebbdcb1">Shoot::sampleChildShootType</a>(std::string &amp;child_shoot_type_label)<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l01813" name="l01813"></a><span class="lineno"> 1813</span> </div>
-<div class="line"><a id="l01814" name="l01814"></a><span class="lineno"> 1814</span>    <span class="keyword">auto</span> shoot_ptr = <span class="keyword">this</span>;</div>
-<div class="line"><a id="l01815" name="l01815"></a><span class="lineno"> 1815</span> </div>
-<div class="line"><a id="l01816" name="l01816"></a><span class="lineno"> 1816</span>    assert( shoot_ptr-&gt;shoot_parameters.child_shoot_type_labels.size() == shoot_ptr-&gt;shoot_parameters.child_shoot_type_probabilities.size() );</div>
-<div class="line"><a id="l01817" name="l01817"></a><span class="lineno"> 1817</span> </div>
-<div class="line"><a id="l01818" name="l01818"></a><span class="lineno"> 1818</span>    child_shoot_type_label = <span class="stringliteral">&quot;&quot;</span>;</div>
-<div class="line"><a id="l01819" name="l01819"></a><span class="lineno"> 1819</span> </div>
-<div class="line"><a id="l01820" name="l01820"></a><span class="lineno"> 1820</span>    <span class="keywordflow">if</span> ( shoot_ptr-&gt;shoot_parameters.child_shoot_type_labels.size()==0 ) { <span class="comment">//if user doesn&#39;t specify child shoot types, generate the same type by default</span></div>
-<div class="line"><a id="l01821" name="l01821"></a><span class="lineno"> 1821</span>        child_shoot_type_label = shoot_ptr-&gt;shoot_type_label;</div>
-<div class="line"><a id="l01822" name="l01822"></a><span class="lineno"> 1822</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( shoot_ptr-&gt;shoot_parameters.child_shoot_type_labels.size()==1 ){ <span class="comment">//if only one child shoot types was specified, use it</span></div>
-<div class="line"><a id="l01823" name="l01823"></a><span class="lineno"> 1823</span>        child_shoot_type_label = shoot_ptr-&gt;shoot_parameters.child_shoot_type_labels.at(0);</div>
-<div class="line"><a id="l01824" name="l01824"></a><span class="lineno"> 1824</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l01825" name="l01825"></a><span class="lineno"> 1825</span>        <span class="keywordtype">float</span> randf = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>();</div>
-<div class="line"><a id="l01826" name="l01826"></a><span class="lineno"> 1826</span>        <span class="keywordtype">int</span> shoot_type_index = -1;</div>
-<div class="line"><a id="l01827" name="l01827"></a><span class="lineno"> 1827</span>        <span class="keywordtype">float</span> cumulative_probability = 0;</div>
-<div class="line"><a id="l01828" name="l01828"></a><span class="lineno"> 1828</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> s = 0; s &lt; shoot_ptr-&gt;shoot_parameters.child_shoot_type_labels.size(); s++) {</div>
-<div class="line"><a id="l01829" name="l01829"></a><span class="lineno"> 1829</span>            cumulative_probability += shoot_ptr-&gt;shoot_parameters.child_shoot_type_probabilities.at(s);</div>
-<div class="line"><a id="l01830" name="l01830"></a><span class="lineno"> 1830</span>            <span class="keywordflow">if</span> (randf &lt; cumulative_probability ) {</div>
-<div class="line"><a id="l01831" name="l01831"></a><span class="lineno"> 1831</span>                shoot_type_index = s;</div>
-<div class="line"><a id="l01832" name="l01832"></a><span class="lineno"> 1832</span>                <span class="keywordflow">break</span>;</div>
-<div class="line"><a id="l01833" name="l01833"></a><span class="lineno"> 1833</span>            }</div>
-<div class="line"><a id="l01834" name="l01834"></a><span class="lineno"> 1834</span>        }</div>
-<div class="line"><a id="l01835" name="l01835"></a><span class="lineno"> 1835</span>        <span class="keywordflow">if</span> (shoot_type_index &lt; 0) {</div>
-<div class="line"><a id="l01836" name="l01836"></a><span class="lineno"> 1836</span>            shoot_type_index = shoot_ptr-&gt;shoot_parameters.child_shoot_type_labels.size() - 1;</div>
-<div class="line"><a id="l01837" name="l01837"></a><span class="lineno"> 1837</span>        }</div>
-<div class="line"><a id="l01838" name="l01838"></a><span class="lineno"> 1838</span>        child_shoot_type_label = shoot_ptr-&gt;shoot_type_label;</div>
-<div class="line"><a id="l01839" name="l01839"></a><span class="lineno"> 1839</span>        <span class="keywordflow">if</span> (shoot_type_index &gt;= 0) {</div>
-<div class="line"><a id="l01840" name="l01840"></a><span class="lineno"> 1840</span>            child_shoot_type_label = shoot_ptr-&gt;shoot_parameters.child_shoot_type_labels.at(shoot_type_index);</div>
-<div class="line"><a id="l01841" name="l01841"></a><span class="lineno"> 1841</span>        }</div>
-<div class="line"><a id="l01842" name="l01842"></a><span class="lineno"> 1842</span>    }</div>
-<div class="line"><a id="l01843" name="l01843"></a><span class="lineno"> 1843</span> </div>
-<div class="line"><a id="l01844" name="l01844"></a><span class="lineno"> 1844</span>    <span class="keywordtype">bool</span> bud_break = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l01845" name="l01845"></a><span class="lineno"> 1845</span>    <span class="keywordflow">if</span> (context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>() &gt; plantarchitecture_ptr-&gt;shoot_types.at(shoot_ptr-&gt;shoot_type_label).vegetative_bud_break_probability.val() ) {</div>
-<div class="line"><a id="l01846" name="l01846"></a><span class="lineno"> 1846</span>        bud_break = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01847" name="l01847"></a><span class="lineno"> 1847</span>    }</div>
-<div class="line"><a id="l01848" name="l01848"></a><span class="lineno"> 1848</span> </div>
+<div class="line"><a id="l01725" name="l01725"></a><span class="lineno"> 1725</span> </div>
+<div class="line"><a id="l01726" name="l01726"></a><span class="lineno"> 1726</span><span class="keywordtype">void</span> Phytomer::setInflorescenceScaleFraction(<a class="code hl_struct" href="struct_floral_bud.html">FloralBud</a> &amp;fbud, <span class="keywordtype">float</span> inflorescence_scale_factor_fraction) {</div>
+<div class="line"><a id="l01727" name="l01727"></a><span class="lineno"> 1727</span> </div>
+<div class="line"><a id="l01728" name="l01728"></a><span class="lineno"> 1728</span>    assert(inflorescence_scale_factor_fraction &gt;= 0 &amp;&amp; inflorescence_scale_factor_fraction &lt;= 1 );</div>
+<div class="line"><a id="l01729" name="l01729"></a><span class="lineno"> 1729</span> </div>
+<div class="line"><a id="l01730" name="l01730"></a><span class="lineno"> 1730</span>    <span class="keywordflow">if</span>(inflorescence_scale_factor_fraction == fbud.current_fruit_scale_factor ){</div>
+<div class="line"><a id="l01731" name="l01731"></a><span class="lineno"> 1731</span>        <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l01732" name="l01732"></a><span class="lineno"> 1732</span>    }</div>
+<div class="line"><a id="l01733" name="l01733"></a><span class="lineno"> 1733</span> </div>
+<div class="line"><a id="l01734" name="l01734"></a><span class="lineno"> 1734</span>    <span class="keywordtype">float</span> delta_scale = inflorescence_scale_factor_fraction / fbud.current_fruit_scale_factor;</div>
+<div class="line"><a id="l01735" name="l01735"></a><span class="lineno"> 1735</span> </div>
+<div class="line"><a id="l01736" name="l01736"></a><span class="lineno"> 1736</span>    fbud.current_fruit_scale_factor = inflorescence_scale_factor_fraction;</div>
+<div class="line"><a id="l01737" name="l01737"></a><span class="lineno"> 1737</span> </div>
+<div class="line"><a id="l01738" name="l01738"></a><span class="lineno"> 1738</span>    <span class="comment">//scale and translate flowers/fruit</span></div>
+<div class="line"><a id="l01739" name="l01739"></a><span class="lineno"> 1739</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> inflorescence=0; inflorescence&lt;fbud.inflorescence_objIDs.size(); inflorescence++ ) {</div>
+<div class="line"><a id="l01740" name="l01740"></a><span class="lineno"> 1740</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a0c84572898729e1a1d40415ad633066d">scaleObjectAboutPoint</a>(fbud.inflorescence_objIDs.at(inflorescence), delta_scale*<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(1,1,1), fbud.inflorescence_bases.at(inflorescence));</div>
+<div class="line"><a id="l01741" name="l01741"></a><span class="lineno"> 1741</span>    }</div>
+<div class="line"><a id="l01742" name="l01742"></a><span class="lineno"> 1742</span> </div>
+<div class="line"><a id="l01743" name="l01743"></a><span class="lineno"> 1743</span>}</div>
+<div class="line"><a id="l01744" name="l01744"></a><span class="lineno"> 1744</span> </div>
+<div class="line"><a id="l01745" name="l01745"></a><span class="lineno"> 1745</span><span class="keywordtype">void</span> Phytomer::removeLeaf(){</div>
+<div class="line"><a id="l01746" name="l01746"></a><span class="lineno"> 1746</span> </div>
+<div class="line"><a id="l01747" name="l01747"></a><span class="lineno"> 1747</span>    this-&gt;petiole_radii.resize(0);</div>
+<div class="line"><a id="l01748" name="l01748"></a><span class="lineno"> 1748</span><span class="comment">//    this-&gt;petiole_vertices.resize(0);</span></div>
+<div class="line"><a id="l01749" name="l01749"></a><span class="lineno"> 1749</span>    this-&gt;petiole_colors.resize(0);</div>
+<div class="line"><a id="l01750" name="l01750"></a><span class="lineno"> 1750</span>    this-&gt;petiole_length.resize(0);</div>
+<div class="line"><a id="l01751" name="l01751"></a><span class="lineno"> 1751</span>    this-&gt;leaf_size_max.resize(0);</div>
+<div class="line"><a id="l01752" name="l01752"></a><span class="lineno"> 1752</span>    this-&gt;leaf_rotation.resize(0);</div>
+<div class="line"><a id="l01753" name="l01753"></a><span class="lineno"> 1753</span>    this-&gt;leaf_bases.resize(0);</div>
+<div class="line"><a id="l01754" name="l01754"></a><span class="lineno"> 1754</span> </div>
+<div class="line"><a id="l01755" name="l01755"></a><span class="lineno"> 1755</span>    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(<a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(leaf_objIDs));</div>
+<div class="line"><a id="l01756" name="l01756"></a><span class="lineno"> 1756</span>    leaf_objIDs.resize(0);</div>
+<div class="line"><a id="l01757" name="l01757"></a><span class="lineno"> 1757</span>    leaf_bases.resize(0);</div>
+<div class="line"><a id="l01758" name="l01758"></a><span class="lineno"> 1758</span> </div>
+<div class="line"><a id="l01759" name="l01759"></a><span class="lineno"> 1759</span>    <span class="keywordflow">if</span>( build_context_geometry_petiole ) {</div>
+<div class="line"><a id="l01760" name="l01760"></a><span class="lineno"> 1760</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(<a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(petiole_objIDs));</div>
+<div class="line"><a id="l01761" name="l01761"></a><span class="lineno"> 1761</span>        petiole_objIDs.resize(0);</div>
+<div class="line"><a id="l01762" name="l01762"></a><span class="lineno"> 1762</span>    }</div>
+<div class="line"><a id="l01763" name="l01763"></a><span class="lineno"> 1763</span> </div>
+<div class="line"><a id="l01764" name="l01764"></a><span class="lineno"> 1764</span>}</div>
+<div class="line"><a id="l01765" name="l01765"></a><span class="lineno"> 1765</span> </div>
+<div class="line"><a id="l01766" name="l01766"></a><span class="lineno"> 1766</span><span class="keywordtype">bool</span> Phytomer::hasLeaf()<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l01767" name="l01767"></a><span class="lineno"> 1767</span>    <span class="keywordflow">return</span> !leaf_bases.empty();</div>
+<div class="line"><a id="l01768" name="l01768"></a><span class="lineno"> 1768</span>}</div>
+<div class="line"><a id="l01769" name="l01769"></a><span class="lineno"> 1769</span> </div>
+<div class="line"><a id="l01770" name="l01770"></a><span class="lineno"> 1770</span><span class="keywordtype">float</span> Phytomer::calculateDownstreamLeafArea()<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l01771" name="l01771"></a><span class="lineno"> 1771</span>    <span class="keywordflow">return</span> parent_shoot_ptr-&gt;sumShootLeafArea( <a class="code hl_variable" href="struct_phytomer.html#aa35d5da6c2d3ae761d1b4ce491db2e17">shoot_index</a>.<a class="code hl_variable" href="structhelios_1_1int3.html#a1ce8c8391637ea6e33bb30b1d0adfc50">x</a> );</div>
+<div class="line"><a id="l01772" name="l01772"></a><span class="lineno"> 1772</span>}</div>
+<div class="line"><a id="l01773" name="l01773"></a><span class="lineno"> 1773</span> </div>
+<div class="line"><a id="l01774" name="l01774"></a><span class="lineno"> 1774</span>Shoot::Shoot(uint plant_ID, <span class="keywordtype">int</span> shoot_ID, <span class="keywordtype">int</span> parent_shoot_ID, uint parent_node, uint parent_petiole_index, uint rank, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;shoot_base_position, <span class="keyword">const</span> <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> &amp;shoot_base_rotation, uint current_node_number,</div>
+<div class="line"><a id="l01775" name="l01775"></a><span class="lineno"> 1775</span>             <span class="keywordtype">float</span> internode_length_shoot_initial, <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> &amp;shoot_params, std::string shoot_type_label, <a class="code hl_class" href="class_plant_architecture.html">PlantArchitecture</a> *plant_architecture_ptr) :</div>
+<div class="line"><a id="l01776" name="l01776"></a><span class="lineno"> 1776</span>        plantID(plant_ID), ID(shoot_ID), parent_shoot_ID(parent_shoot_ID), parent_node_index(parent_node), parent_petiole_index(parent_petiole_index), rank(rank), base_position(shoot_base_position), base_rotation(shoot_base_rotation), current_node_number(current_node_number), internode_length_max_shoot_initial(internode_length_shoot_initial), shoot_parameters(shoot_params), shoot_type_label(std::move(shoot_type_label)), plantarchitecture_ptr(plant_architecture_ptr) {</div>
+<div class="line"><a id="l01777" name="l01777"></a><span class="lineno"> 1777</span>    carbohydrate_pool_molC = 0;</div>
+<div class="line"><a id="l01778" name="l01778"></a><span class="lineno"> 1778</span>    phyllochron_counter = 0;</div>
+<div class="line"><a id="l01779" name="l01779"></a><span class="lineno"> 1779</span>    isdormant = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l01780" name="l01780"></a><span class="lineno"> 1780</span>    gravitropic_curvature = shoot_params.gravitropic_curvature.val();</div>
+<div class="line"><a id="l01781" name="l01781"></a><span class="lineno"> 1781</span>    context_ptr = plant_architecture_ptr-&gt;context_ptr;</div>
+<div class="line"><a id="l01782" name="l01782"></a><span class="lineno"> 1782</span> </div>
+<div class="line"><a id="l01783" name="l01783"></a><span class="lineno"> 1783</span>    <span class="keywordflow">if</span>( parent_shoot_ID&gt;=0 ) {</div>
+<div class="line"><a id="l01784" name="l01784"></a><span class="lineno"> 1784</span>        plant_architecture_ptr-&gt;plant_instances.at(plantID).shoot_tree.at(parent_shoot_ID)-&gt;childIDs[(int) parent_node_index].push_back(shoot_ID);</div>
+<div class="line"><a id="l01785" name="l01785"></a><span class="lineno"> 1785</span>    }</div>
+<div class="line"><a id="l01786" name="l01786"></a><span class="lineno"> 1786</span> </div>
+<div class="line"><a id="l01787" name="l01787"></a><span class="lineno"> 1787</span>}</div>
+<div class="line"><a id="l01788" name="l01788"></a><span class="lineno"> 1788</span> </div>
+<div class="line"><a id="l01789" name="l01789"></a><span class="lineno"> 1789</span><span class="keywordtype">void</span> Shoot::buildShootPhytomers(<span class="keywordtype">float</span> internode_radius, <span class="keywordtype">float</span> internode_length, <span class="keywordtype">float</span> internode_length_scale_factor_fraction, <span class="keywordtype">float</span> leaf_scale_factor_fraction, <span class="keywordtype">float</span> radius_taper) {</div>
+<div class="line"><a id="l01790" name="l01790"></a><span class="lineno"> 1790</span> </div>
+<div class="line"><a id="l01791" name="l01791"></a><span class="lineno"> 1791</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;current_node_number; i++ ) { <span class="comment">//loop over phytomers to build up the shoot</span></div>
+<div class="line"><a id="l01792" name="l01792"></a><span class="lineno"> 1792</span> </div>
+<div class="line"><a id="l01793" name="l01793"></a><span class="lineno"> 1793</span>        <span class="comment">//Determine position of internode base</span></div>
+<div class="line"><a id="l01794" name="l01794"></a><span class="lineno"> 1794</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> internode_base_position;</div>
+<div class="line"><a id="l01795" name="l01795"></a><span class="lineno"> 1795</span>        <span class="keywordflow">if</span>( i==0 ){ <span class="comment">//first phytomer on shoot</span></div>
+<div class="line"><a id="l01796" name="l01796"></a><span class="lineno"> 1796</span>            internode_base_position = base_position;</div>
+<div class="line"><a id="l01797" name="l01797"></a><span class="lineno"> 1797</span>        }<span class="keywordflow">else</span>{ <span class="comment">// not the first phytomer on the shoot</span></div>
+<div class="line"><a id="l01798" name="l01798"></a><span class="lineno"> 1798</span>            internode_base_position = shoot_internode_vertices.back().back();</div>
+<div class="line"><a id="l01799" name="l01799"></a><span class="lineno"> 1799</span>        }</div>
+<div class="line"><a id="l01800" name="l01800"></a><span class="lineno"> 1800</span> </div>
+<div class="line"><a id="l01801" name="l01801"></a><span class="lineno"> 1801</span>        <span class="keywordtype">float</span> taper = 1.f;</div>
+<div class="line"><a id="l01802" name="l01802"></a><span class="lineno"> 1802</span>        <span class="keywordflow">if</span>( current_node_number&gt;1 ){</div>
+<div class="line"><a id="l01803" name="l01803"></a><span class="lineno"> 1803</span>            taper = 1.f-radius_taper*float(i)/float(current_node_number-1);</div>
+<div class="line"><a id="l01804" name="l01804"></a><span class="lineno"> 1804</span>        }</div>
+<div class="line"><a id="l01805" name="l01805"></a><span class="lineno"> 1805</span> </div>
+<div class="line"><a id="l01806" name="l01806"></a><span class="lineno"> 1806</span>        <span class="comment">//Adding the phytomer(s) to the shoot</span></div>
+<div class="line"><a id="l01807" name="l01807"></a><span class="lineno"> 1807</span>        <span class="keywordtype">int</span> pID = <a class="code hl_function" href="struct_shoot.html#aa501b313aa5ee8daf94667fdfc51fb9b">appendPhytomer</a>(internode_radius * taper, internode_length, internode_length_scale_factor_fraction, leaf_scale_factor_fraction);</div>
+<div class="line"><a id="l01808" name="l01808"></a><span class="lineno"> 1808</span> </div>
+<div class="line"><a id="l01809" name="l01809"></a><span class="lineno"> 1809</span>    }</div>
+<div class="line"><a id="l01810" name="l01810"></a><span class="lineno"> 1810</span> </div>
+<div class="line"><a id="l01811" name="l01811"></a><span class="lineno"> 1811</span>}</div>
+<div class="line"><a id="l01812" name="l01812"></a><span class="lineno"> 1812</span> </div>
+<div class="foldopen" id="foldopen01813" data-start="{" data-end="}">
+<div class="line"><a id="l01813" name="l01813"></a><span class="lineno"><a class="line" href="struct_shoot.html#a72773ed6bd25881df4ecfe707ebbdcb1"> 1813</a></span><span class="keywordtype">bool</span> <a class="code hl_function" href="struct_shoot.html#a72773ed6bd25881df4ecfe707ebbdcb1">Shoot::sampleChildShootType</a>(std::string &amp;child_shoot_type_label)<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l01814" name="l01814"></a><span class="lineno"> 1814</span> </div>
+<div class="line"><a id="l01815" name="l01815"></a><span class="lineno"> 1815</span>    <span class="keyword">auto</span> shoot_ptr = <span class="keyword">this</span>;</div>
+<div class="line"><a id="l01816" name="l01816"></a><span class="lineno"> 1816</span> </div>
+<div class="line"><a id="l01817" name="l01817"></a><span class="lineno"> 1817</span>    assert( shoot_ptr-&gt;shoot_parameters.child_shoot_type_labels.size() == shoot_ptr-&gt;shoot_parameters.child_shoot_type_probabilities.size() );</div>
+<div class="line"><a id="l01818" name="l01818"></a><span class="lineno"> 1818</span> </div>
+<div class="line"><a id="l01819" name="l01819"></a><span class="lineno"> 1819</span>    child_shoot_type_label = <span class="stringliteral">&quot;&quot;</span>;</div>
+<div class="line"><a id="l01820" name="l01820"></a><span class="lineno"> 1820</span> </div>
+<div class="line"><a id="l01821" name="l01821"></a><span class="lineno"> 1821</span>    <span class="keywordflow">if</span> ( shoot_ptr-&gt;shoot_parameters.child_shoot_type_labels.size()==0 ) { <span class="comment">//if user doesn&#39;t specify child shoot types, generate the same type by default</span></div>
+<div class="line"><a id="l01822" name="l01822"></a><span class="lineno"> 1822</span>        child_shoot_type_label = shoot_ptr-&gt;shoot_type_label;</div>
+<div class="line"><a id="l01823" name="l01823"></a><span class="lineno"> 1823</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( shoot_ptr-&gt;shoot_parameters.child_shoot_type_labels.size()==1 ){ <span class="comment">//if only one child shoot types was specified, use it</span></div>
+<div class="line"><a id="l01824" name="l01824"></a><span class="lineno"> 1824</span>        child_shoot_type_label = shoot_ptr-&gt;shoot_parameters.child_shoot_type_labels.at(0);</div>
+<div class="line"><a id="l01825" name="l01825"></a><span class="lineno"> 1825</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l01826" name="l01826"></a><span class="lineno"> 1826</span>        <span class="keywordtype">float</span> randf = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>();</div>
+<div class="line"><a id="l01827" name="l01827"></a><span class="lineno"> 1827</span>        <span class="keywordtype">int</span> shoot_type_index = -1;</div>
+<div class="line"><a id="l01828" name="l01828"></a><span class="lineno"> 1828</span>        <span class="keywordtype">float</span> cumulative_probability = 0;</div>
+<div class="line"><a id="l01829" name="l01829"></a><span class="lineno"> 1829</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> s = 0; s &lt; shoot_ptr-&gt;shoot_parameters.child_shoot_type_labels.size(); s++) {</div>
+<div class="line"><a id="l01830" name="l01830"></a><span class="lineno"> 1830</span>            cumulative_probability += shoot_ptr-&gt;shoot_parameters.child_shoot_type_probabilities.at(s);</div>
+<div class="line"><a id="l01831" name="l01831"></a><span class="lineno"> 1831</span>            <span class="keywordflow">if</span> (randf &lt; cumulative_probability ) {</div>
+<div class="line"><a id="l01832" name="l01832"></a><span class="lineno"> 1832</span>                shoot_type_index = s;</div>
+<div class="line"><a id="l01833" name="l01833"></a><span class="lineno"> 1833</span>                <span class="keywordflow">break</span>;</div>
+<div class="line"><a id="l01834" name="l01834"></a><span class="lineno"> 1834</span>            }</div>
+<div class="line"><a id="l01835" name="l01835"></a><span class="lineno"> 1835</span>        }</div>
+<div class="line"><a id="l01836" name="l01836"></a><span class="lineno"> 1836</span>        <span class="keywordflow">if</span> (shoot_type_index &lt; 0) {</div>
+<div class="line"><a id="l01837" name="l01837"></a><span class="lineno"> 1837</span>            shoot_type_index = shoot_ptr-&gt;shoot_parameters.child_shoot_type_labels.size() - 1;</div>
+<div class="line"><a id="l01838" name="l01838"></a><span class="lineno"> 1838</span>        }</div>
+<div class="line"><a id="l01839" name="l01839"></a><span class="lineno"> 1839</span>        child_shoot_type_label = shoot_ptr-&gt;shoot_type_label;</div>
+<div class="line"><a id="l01840" name="l01840"></a><span class="lineno"> 1840</span>        <span class="keywordflow">if</span> (shoot_type_index &gt;= 0) {</div>
+<div class="line"><a id="l01841" name="l01841"></a><span class="lineno"> 1841</span>            child_shoot_type_label = shoot_ptr-&gt;shoot_parameters.child_shoot_type_labels.at(shoot_type_index);</div>
+<div class="line"><a id="l01842" name="l01842"></a><span class="lineno"> 1842</span>        }</div>
+<div class="line"><a id="l01843" name="l01843"></a><span class="lineno"> 1843</span>    }</div>
+<div class="line"><a id="l01844" name="l01844"></a><span class="lineno"> 1844</span> </div>
+<div class="line"><a id="l01845" name="l01845"></a><span class="lineno"> 1845</span>    <span class="keywordtype">bool</span> bud_break = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l01846" name="l01846"></a><span class="lineno"> 1846</span>    <span class="keywordflow">if</span> (context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>() &gt; plantarchitecture_ptr-&gt;shoot_types.at(shoot_ptr-&gt;shoot_type_label).vegetative_bud_break_probability.val() ) {</div>
+<div class="line"><a id="l01847" name="l01847"></a><span class="lineno"> 1847</span>        bud_break = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01848" name="l01848"></a><span class="lineno"> 1848</span>    }</div>
 <div class="line"><a id="l01849" name="l01849"></a><span class="lineno"> 1849</span> </div>
-<div class="line"><a id="l01850" name="l01850"></a><span class="lineno"> 1850</span>    <span class="keywordflow">return</span> bud_break;</div>
-<div class="line"><a id="l01851" name="l01851"></a><span class="lineno"> 1851</span> </div>
-<div class="line"><a id="l01852" name="l01852"></a><span class="lineno"> 1852</span>}</div>
+<div class="line"><a id="l01850" name="l01850"></a><span class="lineno"> 1850</span> </div>
+<div class="line"><a id="l01851" name="l01851"></a><span class="lineno"> 1851</span>    <span class="keywordflow">return</span> bud_break;</div>
+<div class="line"><a id="l01852" name="l01852"></a><span class="lineno"> 1852</span> </div>
+<div class="line"><a id="l01853" name="l01853"></a><span class="lineno"> 1853</span>}</div>
 </div>
-<div class="line"><a id="l01853" name="l01853"></a><span class="lineno"> 1853</span> </div>
-<div class="foldopen" id="foldopen01854" data-start="{" data-end="}">
-<div class="line"><a id="l01854" name="l01854"></a><span class="lineno"><a class="line" href="struct_shoot.html#afe4fa0bc2d46f94087c88b658d8aef13"> 1854</a></span>uint <a class="code hl_function" href="struct_shoot.html#afe4fa0bc2d46f94087c88b658d8aef13">Shoot::sampleEpicormicShoot</a>( <span class="keywordtype">float</span> dt, std::vector&lt;float&gt; &amp;epicormic_positions_fraction ){</div>
-<div class="line"><a id="l01855" name="l01855"></a><span class="lineno"> 1855</span> </div>
-<div class="line"><a id="l01856" name="l01856"></a><span class="lineno"> 1856</span>    std::string epicormic_shoot_label = plantarchitecture_ptr-&gt;plant_instances.at(this-&gt;plantID).epicormic_shoot_probability_perlength_per_day.first;</div>
-<div class="line"><a id="l01857" name="l01857"></a><span class="lineno"> 1857</span> </div>
-<div class="line"><a id="l01858" name="l01858"></a><span class="lineno"> 1858</span>    <span class="keywordflow">if</span>( epicormic_shoot_label.empty() ){</div>
-<div class="line"><a id="l01859" name="l01859"></a><span class="lineno"> 1859</span>        <span class="keywordflow">return</span> 0;</div>
-<div class="line"><a id="l01860" name="l01860"></a><span class="lineno"> 1860</span>    }</div>
-<div class="line"><a id="l01861" name="l01861"></a><span class="lineno"> 1861</span> </div>
-<div class="line"><a id="l01862" name="l01862"></a><span class="lineno"> 1862</span>    <span class="keywordtype">float</span> epicormic_probability = plantarchitecture_ptr-&gt;plant_instances.at(this-&gt;plantID).epicormic_shoot_probability_perlength_per_day.second;</div>
-<div class="line"><a id="l01863" name="l01863"></a><span class="lineno"> 1863</span> </div>
-<div class="line"><a id="l01864" name="l01864"></a><span class="lineno"> 1864</span>    <span class="keywordflow">if</span>( epicormic_probability == 0 ){</div>
-<div class="line"><a id="l01865" name="l01865"></a><span class="lineno"> 1865</span>        <span class="keywordflow">return</span> 0;</div>
-<div class="line"><a id="l01866" name="l01866"></a><span class="lineno"> 1866</span>    }</div>
-<div class="line"><a id="l01867" name="l01867"></a><span class="lineno"> 1867</span> </div>
-<div class="line"><a id="l01868" name="l01868"></a><span class="lineno"> 1868</span>    uint Nshoots = 0;</div>
-<div class="line"><a id="l01869" name="l01869"></a><span class="lineno"> 1869</span> </div>
-<div class="line"><a id="l01870" name="l01870"></a><span class="lineno"> 1870</span>    epicormic_positions_fraction.clear();</div>
-<div class="line"><a id="l01871" name="l01871"></a><span class="lineno"> 1871</span> </div>
-<div class="line"><a id="l01872" name="l01872"></a><span class="lineno"> 1872</span>    <span class="keywordtype">float</span> shoot_length = this-&gt;calculateShootLength();</div>
-<div class="line"><a id="l01873" name="l01873"></a><span class="lineno"> 1873</span> </div>
-<div class="line"><a id="l01874" name="l01874"></a><span class="lineno"> 1874</span>    <span class="keywordtype">float</span> time = dt;</div>
-<div class="line"><a id="l01875" name="l01875"></a><span class="lineno"> 1875</span>    <span class="keywordflow">while</span>( time&gt;0 ){</div>
-<div class="line"><a id="l01876" name="l01876"></a><span class="lineno"> 1876</span> </div>
-<div class="line"><a id="l01877" name="l01877"></a><span class="lineno"> 1877</span>        <span class="keywordtype">float</span> dta = std::min(time,1.f);</div>
-<div class="line"><a id="l01878" name="l01878"></a><span class="lineno"> 1878</span> </div>
-<div class="line"><a id="l01879" name="l01879"></a><span class="lineno"> 1879</span>        <span class="keywordtype">float</span> shoot_fraction = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>();</div>
-<div class="line"><a id="l01880" name="l01880"></a><span class="lineno"> 1880</span> </div>
-<div class="line"><a id="l01881" name="l01881"></a><span class="lineno"> 1881</span>        <span class="keywordtype">float</span> elevation = fabs(getShootAxisVector(shoot_fraction).z);</div>
-<div class="line"><a id="l01882" name="l01882"></a><span class="lineno"> 1882</span> </div>
-<div class="line"><a id="l01883" name="l01883"></a><span class="lineno"> 1883</span>        <span class="keywordtype">bool</span> new_shoot = uint((epicormic_probability*shoot_length*dta*elevation &gt; context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>() ));</div>
-<div class="line"><a id="l01884" name="l01884"></a><span class="lineno"> 1884</span> </div>
-<div class="line"><a id="l01885" name="l01885"></a><span class="lineno"> 1885</span>        Nshoots += uint(new_shoot);</div>
-<div class="line"><a id="l01886" name="l01886"></a><span class="lineno"> 1886</span> </div>
-<div class="line"><a id="l01887" name="l01887"></a><span class="lineno"> 1887</span>        <span class="keywordflow">if</span>( new_shoot ){</div>
-<div class="line"><a id="l01888" name="l01888"></a><span class="lineno"> 1888</span>            epicormic_positions_fraction.push_back(shoot_fraction);</div>
-<div class="line"><a id="l01889" name="l01889"></a><span class="lineno"> 1889</span>        }</div>
-<div class="line"><a id="l01890" name="l01890"></a><span class="lineno"> 1890</span> </div>
-<div class="line"><a id="l01891" name="l01891"></a><span class="lineno"> 1891</span>        time -= dta;</div>
-<div class="line"><a id="l01892" name="l01892"></a><span class="lineno"> 1892</span>    }</div>
-<div class="line"><a id="l01893" name="l01893"></a><span class="lineno"> 1893</span> </div>
-<div class="line"><a id="l01894" name="l01894"></a><span class="lineno"> 1894</span>    assert(epicormic_positions_fraction.size() == Nshoots);</div>
-<div class="line"><a id="l01895" name="l01895"></a><span class="lineno"> 1895</span> </div>
-<div class="line"><a id="l01896" name="l01896"></a><span class="lineno"> 1896</span>    <span class="keywordflow">return</span> Nshoots;</div>
-<div class="line"><a id="l01897" name="l01897"></a><span class="lineno"> 1897</span>}</div>
+<div class="line"><a id="l01854" name="l01854"></a><span class="lineno"> 1854</span> </div>
+<div class="foldopen" id="foldopen01855" data-start="{" data-end="}">
+<div class="line"><a id="l01855" name="l01855"></a><span class="lineno"><a class="line" href="struct_shoot.html#afe4fa0bc2d46f94087c88b658d8aef13"> 1855</a></span>uint <a class="code hl_function" href="struct_shoot.html#afe4fa0bc2d46f94087c88b658d8aef13">Shoot::sampleEpicormicShoot</a>( <span class="keywordtype">float</span> dt, std::vector&lt;float&gt; &amp;epicormic_positions_fraction ){</div>
+<div class="line"><a id="l01856" name="l01856"></a><span class="lineno"> 1856</span> </div>
+<div class="line"><a id="l01857" name="l01857"></a><span class="lineno"> 1857</span>    std::string epicormic_shoot_label = plantarchitecture_ptr-&gt;plant_instances.at(this-&gt;plantID).epicormic_shoot_probability_perlength_per_day.first;</div>
+<div class="line"><a id="l01858" name="l01858"></a><span class="lineno"> 1858</span> </div>
+<div class="line"><a id="l01859" name="l01859"></a><span class="lineno"> 1859</span>    <span class="keywordflow">if</span>( epicormic_shoot_label.empty() ){</div>
+<div class="line"><a id="l01860" name="l01860"></a><span class="lineno"> 1860</span>        <span class="keywordflow">return</span> 0;</div>
+<div class="line"><a id="l01861" name="l01861"></a><span class="lineno"> 1861</span>    }</div>
+<div class="line"><a id="l01862" name="l01862"></a><span class="lineno"> 1862</span> </div>
+<div class="line"><a id="l01863" name="l01863"></a><span class="lineno"> 1863</span>    <span class="keywordtype">float</span> epicormic_probability = plantarchitecture_ptr-&gt;plant_instances.at(this-&gt;plantID).epicormic_shoot_probability_perlength_per_day.second;</div>
+<div class="line"><a id="l01864" name="l01864"></a><span class="lineno"> 1864</span> </div>
+<div class="line"><a id="l01865" name="l01865"></a><span class="lineno"> 1865</span>    <span class="keywordflow">if</span>( epicormic_probability == 0 ){</div>
+<div class="line"><a id="l01866" name="l01866"></a><span class="lineno"> 1866</span>        <span class="keywordflow">return</span> 0;</div>
+<div class="line"><a id="l01867" name="l01867"></a><span class="lineno"> 1867</span>    }</div>
+<div class="line"><a id="l01868" name="l01868"></a><span class="lineno"> 1868</span> </div>
+<div class="line"><a id="l01869" name="l01869"></a><span class="lineno"> 1869</span>    uint Nshoots = 0;</div>
+<div class="line"><a id="l01870" name="l01870"></a><span class="lineno"> 1870</span> </div>
+<div class="line"><a id="l01871" name="l01871"></a><span class="lineno"> 1871</span>    epicormic_positions_fraction.clear();</div>
+<div class="line"><a id="l01872" name="l01872"></a><span class="lineno"> 1872</span> </div>
+<div class="line"><a id="l01873" name="l01873"></a><span class="lineno"> 1873</span>    <span class="keywordtype">float</span> shoot_length = this-&gt;calculateShootLength();</div>
+<div class="line"><a id="l01874" name="l01874"></a><span class="lineno"> 1874</span> </div>
+<div class="line"><a id="l01875" name="l01875"></a><span class="lineno"> 1875</span>    <span class="keywordtype">float</span> time = dt;</div>
+<div class="line"><a id="l01876" name="l01876"></a><span class="lineno"> 1876</span>    <span class="keywordflow">while</span>( time&gt;0 ){</div>
+<div class="line"><a id="l01877" name="l01877"></a><span class="lineno"> 1877</span> </div>
+<div class="line"><a id="l01878" name="l01878"></a><span class="lineno"> 1878</span>        <span class="keywordtype">float</span> dta = std::min(time,1.f);</div>
+<div class="line"><a id="l01879" name="l01879"></a><span class="lineno"> 1879</span> </div>
+<div class="line"><a id="l01880" name="l01880"></a><span class="lineno"> 1880</span>        <span class="keywordtype">float</span> shoot_fraction = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>();</div>
+<div class="line"><a id="l01881" name="l01881"></a><span class="lineno"> 1881</span> </div>
+<div class="line"><a id="l01882" name="l01882"></a><span class="lineno"> 1882</span>        <span class="keywordtype">float</span> elevation = fabs(getShootAxisVector(shoot_fraction).z);</div>
+<div class="line"><a id="l01883" name="l01883"></a><span class="lineno"> 1883</span> </div>
+<div class="line"><a id="l01884" name="l01884"></a><span class="lineno"> 1884</span>        <span class="keywordtype">bool</span> new_shoot = uint((epicormic_probability*shoot_length*dta*elevation &gt; context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>() ));</div>
+<div class="line"><a id="l01885" name="l01885"></a><span class="lineno"> 1885</span> </div>
+<div class="line"><a id="l01886" name="l01886"></a><span class="lineno"> 1886</span>        Nshoots += uint(new_shoot);</div>
+<div class="line"><a id="l01887" name="l01887"></a><span class="lineno"> 1887</span> </div>
+<div class="line"><a id="l01888" name="l01888"></a><span class="lineno"> 1888</span>        <span class="keywordflow">if</span>( new_shoot ){</div>
+<div class="line"><a id="l01889" name="l01889"></a><span class="lineno"> 1889</span>            epicormic_positions_fraction.push_back(shoot_fraction);</div>
+<div class="line"><a id="l01890" name="l01890"></a><span class="lineno"> 1890</span>        }</div>
+<div class="line"><a id="l01891" name="l01891"></a><span class="lineno"> 1891</span> </div>
+<div class="line"><a id="l01892" name="l01892"></a><span class="lineno"> 1892</span>        time -= dta;</div>
+<div class="line"><a id="l01893" name="l01893"></a><span class="lineno"> 1893</span>    }</div>
+<div class="line"><a id="l01894" name="l01894"></a><span class="lineno"> 1894</span> </div>
+<div class="line"><a id="l01895" name="l01895"></a><span class="lineno"> 1895</span>    assert(epicormic_positions_fraction.size() == Nshoots);</div>
+<div class="line"><a id="l01896" name="l01896"></a><span class="lineno"> 1896</span> </div>
+<div class="line"><a id="l01897" name="l01897"></a><span class="lineno"> 1897</span>    <span class="keywordflow">return</span> Nshoots;</div>
+<div class="line"><a id="l01898" name="l01898"></a><span class="lineno"> 1898</span>}</div>
 </div>
-<div class="line"><a id="l01898" name="l01898"></a><span class="lineno"> 1898</span> </div>
-<div class="foldopen" id="foldopen01899" data-start="{" data-end="}">
-<div class="line"><a id="l01899" name="l01899"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6"> 1899</a></span>uint <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">PlantArchitecture::addBaseStemShoot</a>(uint plantID, uint current_node_number, <span class="keyword">const</span> <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> &amp;base_rotation, <span class="keywordtype">float</span> internode_radius, <span class="keywordtype">float</span> internode_length_max, <span class="keywordtype">float</span> internode_length_scale_factor_fraction, <span class="keywordtype">float</span> leaf_scale_factor_fraction,</div>
-<div class="line"><a id="l01900" name="l01900"></a><span class="lineno"> 1900</span>                                         <span class="keywordtype">float</span> radius_taper, <span class="keyword">const</span> std::string &amp;shoot_type_label) {</div>
-<div class="line"><a id="l01901" name="l01901"></a><span class="lineno"> 1901</span> </div>
-<div class="line"><a id="l01902" name="l01902"></a><span class="lineno"> 1902</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l01903" name="l01903"></a><span class="lineno"> 1903</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addBaseStemShoot): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l01904" name="l01904"></a><span class="lineno"> 1904</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( shoot_types.find(shoot_type_label) == shoot_types.end() ) {</div>
-<div class="line"><a id="l01905" name="l01905"></a><span class="lineno"> 1905</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addBaseStemShoot): Shoot type with label of &quot;</span> + shoot_type_label + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l01906" name="l01906"></a><span class="lineno"> 1906</span>    }</div>
-<div class="line"><a id="l01907" name="l01907"></a><span class="lineno"> 1907</span> </div>
-<div class="line"><a id="l01908" name="l01908"></a><span class="lineno"> 1908</span>    <span class="keyword">auto</span> shoot_tree_ptr = &amp;plant_instances.at(plantID).shoot_tree;</div>
-<div class="line"><a id="l01909" name="l01909"></a><span class="lineno"> 1909</span> </div>
-<div class="line"><a id="l01910" name="l01910"></a><span class="lineno"> 1910</span>    <span class="keyword">auto</span> shoot_parameters = shoot_types.at(shoot_type_label);</div>
-<div class="line"><a id="l01911" name="l01911"></a><span class="lineno"> 1911</span>    validateShootTypes(shoot_parameters);</div>
-<div class="line"><a id="l01912" name="l01912"></a><span class="lineno"> 1912</span> </div>
-<div class="line"><a id="l01913" name="l01913"></a><span class="lineno"> 1913</span>    <span class="keywordflow">if</span>(current_node_number &gt; shoot_parameters.max_nodes.val() ){</div>
-<div class="line"><a id="l01914" name="l01914"></a><span class="lineno"> 1914</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addBaseStemShoot): Cannot add shoot with &quot;</span> + std::to_string(current_node_number) + <span class="stringliteral">&quot; nodes since the specified max node number is &quot;</span> + std::to_string(shoot_parameters.max_nodes.val()) + <span class="stringliteral">&quot;.&quot;</span>);</div>
-<div class="line"><a id="l01915" name="l01915"></a><span class="lineno"> 1915</span>    }</div>
-<div class="line"><a id="l01916" name="l01916"></a><span class="lineno"> 1916</span> </div>
-<div class="line"><a id="l01917" name="l01917"></a><span class="lineno"> 1917</span>    uint shootID = shoot_tree_ptr-&gt;size();</div>
-<div class="line"><a id="l01918" name="l01918"></a><span class="lineno"> 1918</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> base_position = plant_instances.at(plantID).base_position;</div>
-<div class="line"><a id="l01919" name="l01919"></a><span class="lineno"> 1919</span> </div>
-<div class="line"><a id="l01920" name="l01920"></a><span class="lineno"> 1920</span>    <span class="comment">// Create the new shoot</span></div>
-<div class="line"><a id="l01921" name="l01921"></a><span class="lineno"> 1921</span>    <span class="keyword">auto</span>* shoot_new = (<span class="keyword">new</span> <a class="code hl_struct" href="struct_shoot.html">Shoot</a>(plantID, shootID, -1, 0, 0, 0, base_position, base_rotation, current_node_number, internode_length_max, shoot_parameters, shoot_type_label, <span class="keyword">this</span>));</div>
-<div class="line"><a id="l01922" name="l01922"></a><span class="lineno"> 1922</span>    shoot_tree_ptr-&gt;emplace_back(shoot_new);</div>
-<div class="line"><a id="l01923" name="l01923"></a><span class="lineno"> 1923</span> </div>
-<div class="line"><a id="l01924" name="l01924"></a><span class="lineno"> 1924</span>    <span class="comment">// Build phytomer geometry</span></div>
-<div class="line"><a id="l01925" name="l01925"></a><span class="lineno"> 1925</span>    shoot_new-&gt;buildShootPhytomers(internode_radius, internode_length_max, internode_length_scale_factor_fraction, leaf_scale_factor_fraction, radius_taper);</div>
-<div class="line"><a id="l01926" name="l01926"></a><span class="lineno"> 1926</span> </div>
-<div class="line"><a id="l01927" name="l01927"></a><span class="lineno"> 1927</span>    <span class="keywordflow">return</span> shootID;</div>
-<div class="line"><a id="l01928" name="l01928"></a><span class="lineno"> 1928</span> </div>
-<div class="line"><a id="l01929" name="l01929"></a><span class="lineno"> 1929</span>}</div>
+<div class="line"><a id="l01899" name="l01899"></a><span class="lineno"> 1899</span> </div>
+<div class="foldopen" id="foldopen01900" data-start="{" data-end="}">
+<div class="line"><a id="l01900" name="l01900"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6"> 1900</a></span>uint <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">PlantArchitecture::addBaseStemShoot</a>(uint plantID, uint current_node_number, <span class="keyword">const</span> <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> &amp;base_rotation, <span class="keywordtype">float</span> internode_radius, <span class="keywordtype">float</span> internode_length_max, <span class="keywordtype">float</span> internode_length_scale_factor_fraction, <span class="keywordtype">float</span> leaf_scale_factor_fraction,</div>
+<div class="line"><a id="l01901" name="l01901"></a><span class="lineno"> 1901</span>                                         <span class="keywordtype">float</span> radius_taper, <span class="keyword">const</span> std::string &amp;shoot_type_label) {</div>
+<div class="line"><a id="l01902" name="l01902"></a><span class="lineno"> 1902</span> </div>
+<div class="line"><a id="l01903" name="l01903"></a><span class="lineno"> 1903</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l01904" name="l01904"></a><span class="lineno"> 1904</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addBaseStemShoot): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l01905" name="l01905"></a><span class="lineno"> 1905</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( shoot_types.find(shoot_type_label) == shoot_types.end() ) {</div>
+<div class="line"><a id="l01906" name="l01906"></a><span class="lineno"> 1906</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addBaseStemShoot): Shoot type with label of &quot;</span> + shoot_type_label + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l01907" name="l01907"></a><span class="lineno"> 1907</span>    }</div>
+<div class="line"><a id="l01908" name="l01908"></a><span class="lineno"> 1908</span> </div>
+<div class="line"><a id="l01909" name="l01909"></a><span class="lineno"> 1909</span>    <span class="keyword">auto</span> shoot_tree_ptr = &amp;plant_instances.at(plantID).shoot_tree;</div>
+<div class="line"><a id="l01910" name="l01910"></a><span class="lineno"> 1910</span> </div>
+<div class="line"><a id="l01911" name="l01911"></a><span class="lineno"> 1911</span>    <span class="keyword">auto</span> shoot_parameters = shoot_types.at(shoot_type_label);</div>
+<div class="line"><a id="l01912" name="l01912"></a><span class="lineno"> 1912</span>    validateShootTypes(shoot_parameters);</div>
+<div class="line"><a id="l01913" name="l01913"></a><span class="lineno"> 1913</span> </div>
+<div class="line"><a id="l01914" name="l01914"></a><span class="lineno"> 1914</span>    <span class="keywordflow">if</span>(current_node_number &gt; shoot_parameters.max_nodes.val() ){</div>
+<div class="line"><a id="l01915" name="l01915"></a><span class="lineno"> 1915</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addBaseStemShoot): Cannot add shoot with &quot;</span> + std::to_string(current_node_number) + <span class="stringliteral">&quot; nodes since the specified max node number is &quot;</span> + std::to_string(shoot_parameters.max_nodes.val()) + <span class="stringliteral">&quot;.&quot;</span>);</div>
+<div class="line"><a id="l01916" name="l01916"></a><span class="lineno"> 1916</span>    }</div>
+<div class="line"><a id="l01917" name="l01917"></a><span class="lineno"> 1917</span> </div>
+<div class="line"><a id="l01918" name="l01918"></a><span class="lineno"> 1918</span>    uint shootID = shoot_tree_ptr-&gt;size();</div>
+<div class="line"><a id="l01919" name="l01919"></a><span class="lineno"> 1919</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> base_position = plant_instances.at(plantID).base_position;</div>
+<div class="line"><a id="l01920" name="l01920"></a><span class="lineno"> 1920</span> </div>
+<div class="line"><a id="l01921" name="l01921"></a><span class="lineno"> 1921</span>    <span class="comment">// Create the new shoot</span></div>
+<div class="line"><a id="l01922" name="l01922"></a><span class="lineno"> 1922</span>    <span class="keyword">auto</span>* shoot_new = (<span class="keyword">new</span> <a class="code hl_struct" href="struct_shoot.html">Shoot</a>(plantID, shootID, -1, 0, 0, 0, base_position, base_rotation, current_node_number, internode_length_max, shoot_parameters, shoot_type_label, <span class="keyword">this</span>));</div>
+<div class="line"><a id="l01923" name="l01923"></a><span class="lineno"> 1923</span>    shoot_tree_ptr-&gt;emplace_back(shoot_new);</div>
+<div class="line"><a id="l01924" name="l01924"></a><span class="lineno"> 1924</span> </div>
+<div class="line"><a id="l01925" name="l01925"></a><span class="lineno"> 1925</span>    <span class="comment">// Build phytomer geometry</span></div>
+<div class="line"><a id="l01926" name="l01926"></a><span class="lineno"> 1926</span>    shoot_new-&gt;buildShootPhytomers(internode_radius, internode_length_max, internode_length_scale_factor_fraction, leaf_scale_factor_fraction, radius_taper);</div>
+<div class="line"><a id="l01927" name="l01927"></a><span class="lineno"> 1927</span> </div>
+<div class="line"><a id="l01928" name="l01928"></a><span class="lineno"> 1928</span>    <span class="keywordflow">return</span> shootID;</div>
+<div class="line"><a id="l01929" name="l01929"></a><span class="lineno"> 1929</span> </div>
+<div class="line"><a id="l01930" name="l01930"></a><span class="lineno"> 1930</span>}</div>
 </div>
-<div class="line"><a id="l01930" name="l01930"></a><span class="lineno"> 1930</span> </div>
-<div class="foldopen" id="foldopen01931" data-start="{" data-end="}">
-<div class="line"><a id="l01931" name="l01931"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55"> 1931</a></span>uint <a class="code hl_function" href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55">PlantArchitecture::appendShoot</a>(uint plantID, <span class="keywordtype">int</span> parent_shoot_ID, uint current_node_number, <span class="keyword">const</span> <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> &amp;base_rotation, <span class="keywordtype">float</span> internode_radius, <span class="keywordtype">float</span> internode_length_max, <span class="keywordtype">float</span> internode_length_scale_factor_fraction,</div>
-<div class="line"><a id="l01932" name="l01932"></a><span class="lineno"> 1932</span>                                    <span class="keywordtype">float</span> leaf_scale_factor_fraction, <span class="keywordtype">float</span> radius_taper, <span class="keyword">const</span> std::string &amp;shoot_type_label) {</div>
-<div class="line"><a id="l01933" name="l01933"></a><span class="lineno"> 1933</span> </div>
-<div class="line"><a id="l01934" name="l01934"></a><span class="lineno"> 1934</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ) {</div>
-<div class="line"><a id="l01935" name="l01935"></a><span class="lineno"> 1935</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::appendShoot): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l01936" name="l01936"></a><span class="lineno"> 1936</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( shoot_types.find(shoot_type_label) == shoot_types.end() ) {</div>
-<div class="line"><a id="l01937" name="l01937"></a><span class="lineno"> 1937</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::appendShoot): Shoot type with label of &quot;</span> + shoot_type_label + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l01938" name="l01938"></a><span class="lineno"> 1938</span>    }</div>
-<div class="line"><a id="l01939" name="l01939"></a><span class="lineno"> 1939</span> </div>
-<div class="line"><a id="l01940" name="l01940"></a><span class="lineno"> 1940</span>    <span class="keyword">auto</span> shoot_tree_ptr = &amp;plant_instances.at(plantID).shoot_tree;</div>
-<div class="line"><a id="l01941" name="l01941"></a><span class="lineno"> 1941</span> </div>
-<div class="line"><a id="l01942" name="l01942"></a><span class="lineno"> 1942</span>    <span class="keyword">auto</span> shoot_parameters = shoot_types.at(shoot_type_label);</div>
-<div class="line"><a id="l01943" name="l01943"></a><span class="lineno"> 1943</span>    validateShootTypes(shoot_parameters);</div>
-<div class="line"><a id="l01944" name="l01944"></a><span class="lineno"> 1944</span> </div>
-<div class="line"><a id="l01945" name="l01945"></a><span class="lineno"> 1945</span>    <span class="keywordflow">if</span>( shoot_tree_ptr-&gt;empty() ){</div>
-<div class="line"><a id="l01946" name="l01946"></a><span class="lineno"> 1946</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::appendShoot): Cannot append shoot to empty shoot. You must call addBaseStemShoot() first for each plant.&quot;</span>);</div>
-<div class="line"><a id="l01947" name="l01947"></a><span class="lineno"> 1947</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( parent_shoot_ID &gt;= <span class="keywordtype">int</span>(shoot_tree_ptr-&gt;size()) ){</div>
-<div class="line"><a id="l01948" name="l01948"></a><span class="lineno"> 1948</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::appendShoot): Parent with ID of &quot;</span> + std::to_string(parent_shoot_ID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l01949" name="l01949"></a><span class="lineno"> 1949</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>(current_node_number &gt; shoot_parameters.max_nodes.val() ){</div>
-<div class="line"><a id="l01950" name="l01950"></a><span class="lineno"> 1950</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::appendShoot): Cannot add shoot with &quot;</span> + std::to_string(current_node_number) + <span class="stringliteral">&quot; nodes since the specified max node number is &quot;</span> + std::to_string(shoot_parameters.max_nodes.val()) + <span class="stringliteral">&quot;.&quot;</span>);</div>
-<div class="line"><a id="l01951" name="l01951"></a><span class="lineno"> 1951</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;phytomers.empty() ){</div>
-<div class="line"><a id="l01952" name="l01952"></a><span class="lineno"> 1952</span>        std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (PlantArchitecture::appendShoot): Shoot does not have any phytomers to append.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l01953" name="l01953"></a><span class="lineno"> 1953</span>    }</div>
-<div class="line"><a id="l01954" name="l01954"></a><span class="lineno"> 1954</span> </div>
-<div class="line"><a id="l01955" name="l01955"></a><span class="lineno"> 1955</span>    <span class="comment">//stop parent shoot from producing new phytomers at the apex</span></div>
-<div class="line"><a id="l01956" name="l01956"></a><span class="lineno"> 1956</span>    shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;shoot_parameters.max_nodes = shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;current_node_number;</div>
-<div class="line"><a id="l01957" name="l01957"></a><span class="lineno"> 1957</span>    shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;terminateApicalBud(); <span class="comment">//meristem should not keep growing after appending shoot</span></div>
-<div class="line"><a id="l01958" name="l01958"></a><span class="lineno"> 1958</span> </div>
-<div class="line"><a id="l01959" name="l01959"></a><span class="lineno"> 1959</span>    <span class="comment">//accumulate all the values that will be passed to Shoot constructor</span></div>
-<div class="line"><a id="l01960" name="l01960"></a><span class="lineno"> 1960</span>    <span class="keywordtype">int</span> appended_shootID = int(shoot_tree_ptr-&gt;size());</div>
-<div class="line"><a id="l01961" name="l01961"></a><span class="lineno"> 1961</span>    uint parent_node = shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;current_node_number-1;</div>
-<div class="line"><a id="l01962" name="l01962"></a><span class="lineno"> 1962</span>    uint rank = shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;rank;</div>
-<div class="line"><a id="l01963" name="l01963"></a><span class="lineno"> 1963</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> base_position = <a class="code hl_function" href="_canopy_generator_8h.html#a339d165bb0c396a75ce255fbe16a20d4">interpolateTube</a>(shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;phytomers.back()-&gt;getInternodeNodePositions(), 0.9f );</div>
-<div class="line"><a id="l01964" name="l01964"></a><span class="lineno"> 1964</span> </div>
-<div class="line"><a id="l01965" name="l01965"></a><span class="lineno"> 1965</span>    <span class="comment">// Create the new shoot</span></div>
-<div class="line"><a id="l01966" name="l01966"></a><span class="lineno"> 1966</span>    <span class="keyword">auto</span> * shoot_new = (<span class="keyword">new</span> <a class="code hl_struct" href="struct_shoot.html">Shoot</a>(plantID, appended_shootID, parent_shoot_ID, parent_node, 0, rank, base_position, base_rotation, current_node_number, internode_length_max, shoot_parameters, shoot_type_label, <span class="keyword">this</span>));</div>
-<div class="line"><a id="l01967" name="l01967"></a><span class="lineno"> 1967</span>    shoot_tree_ptr-&gt;emplace_back(shoot_new);</div>
-<div class="line"><a id="l01968" name="l01968"></a><span class="lineno"> 1968</span> </div>
-<div class="line"><a id="l01969" name="l01969"></a><span class="lineno"> 1969</span>    <span class="comment">// Build phytomer geometry</span></div>
-<div class="line"><a id="l01970" name="l01970"></a><span class="lineno"> 1970</span>    shoot_new-&gt;buildShootPhytomers(internode_radius, internode_length_max, internode_length_scale_factor_fraction, leaf_scale_factor_fraction, radius_taper);</div>
-<div class="line"><a id="l01971" name="l01971"></a><span class="lineno"> 1971</span> </div>
-<div class="line"><a id="l01972" name="l01972"></a><span class="lineno"> 1972</span>    <span class="keywordflow">return</span> appended_shootID;</div>
-<div class="line"><a id="l01973" name="l01973"></a><span class="lineno"> 1973</span> </div>
-<div class="line"><a id="l01974" name="l01974"></a><span class="lineno"> 1974</span>}</div>
+<div class="line"><a id="l01931" name="l01931"></a><span class="lineno"> 1931</span> </div>
+<div class="foldopen" id="foldopen01932" data-start="{" data-end="}">
+<div class="line"><a id="l01932" name="l01932"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55"> 1932</a></span>uint <a class="code hl_function" href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55">PlantArchitecture::appendShoot</a>(uint plantID, <span class="keywordtype">int</span> parent_shoot_ID, uint current_node_number, <span class="keyword">const</span> <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> &amp;base_rotation, <span class="keywordtype">float</span> internode_radius, <span class="keywordtype">float</span> internode_length_max, <span class="keywordtype">float</span> internode_length_scale_factor_fraction,</div>
+<div class="line"><a id="l01933" name="l01933"></a><span class="lineno"> 1933</span>                                    <span class="keywordtype">float</span> leaf_scale_factor_fraction, <span class="keywordtype">float</span> radius_taper, <span class="keyword">const</span> std::string &amp;shoot_type_label) {</div>
+<div class="line"><a id="l01934" name="l01934"></a><span class="lineno"> 1934</span> </div>
+<div class="line"><a id="l01935" name="l01935"></a><span class="lineno"> 1935</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ) {</div>
+<div class="line"><a id="l01936" name="l01936"></a><span class="lineno"> 1936</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::appendShoot): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l01937" name="l01937"></a><span class="lineno"> 1937</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( shoot_types.find(shoot_type_label) == shoot_types.end() ) {</div>
+<div class="line"><a id="l01938" name="l01938"></a><span class="lineno"> 1938</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::appendShoot): Shoot type with label of &quot;</span> + shoot_type_label + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l01939" name="l01939"></a><span class="lineno"> 1939</span>    }</div>
+<div class="line"><a id="l01940" name="l01940"></a><span class="lineno"> 1940</span> </div>
+<div class="line"><a id="l01941" name="l01941"></a><span class="lineno"> 1941</span>    <span class="keyword">auto</span> shoot_tree_ptr = &amp;plant_instances.at(plantID).shoot_tree;</div>
+<div class="line"><a id="l01942" name="l01942"></a><span class="lineno"> 1942</span> </div>
+<div class="line"><a id="l01943" name="l01943"></a><span class="lineno"> 1943</span>    <span class="keyword">auto</span> shoot_parameters = shoot_types.at(shoot_type_label);</div>
+<div class="line"><a id="l01944" name="l01944"></a><span class="lineno"> 1944</span>    validateShootTypes(shoot_parameters);</div>
+<div class="line"><a id="l01945" name="l01945"></a><span class="lineno"> 1945</span> </div>
+<div class="line"><a id="l01946" name="l01946"></a><span class="lineno"> 1946</span>    <span class="keywordflow">if</span>( shoot_tree_ptr-&gt;empty() ){</div>
+<div class="line"><a id="l01947" name="l01947"></a><span class="lineno"> 1947</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::appendShoot): Cannot append shoot to empty shoot. You must call addBaseStemShoot() first for each plant.&quot;</span>);</div>
+<div class="line"><a id="l01948" name="l01948"></a><span class="lineno"> 1948</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( parent_shoot_ID &gt;= <span class="keywordtype">int</span>(shoot_tree_ptr-&gt;size()) ){</div>
+<div class="line"><a id="l01949" name="l01949"></a><span class="lineno"> 1949</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::appendShoot): Parent with ID of &quot;</span> + std::to_string(parent_shoot_ID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l01950" name="l01950"></a><span class="lineno"> 1950</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>(current_node_number &gt; shoot_parameters.max_nodes.val() ){</div>
+<div class="line"><a id="l01951" name="l01951"></a><span class="lineno"> 1951</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::appendShoot): Cannot add shoot with &quot;</span> + std::to_string(current_node_number) + <span class="stringliteral">&quot; nodes since the specified max node number is &quot;</span> + std::to_string(shoot_parameters.max_nodes.val()) + <span class="stringliteral">&quot;.&quot;</span>);</div>
+<div class="line"><a id="l01952" name="l01952"></a><span class="lineno"> 1952</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;phytomers.empty() ){</div>
+<div class="line"><a id="l01953" name="l01953"></a><span class="lineno"> 1953</span>        std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (PlantArchitecture::appendShoot): Shoot does not have any phytomers to append.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l01954" name="l01954"></a><span class="lineno"> 1954</span>    }</div>
+<div class="line"><a id="l01955" name="l01955"></a><span class="lineno"> 1955</span> </div>
+<div class="line"><a id="l01956" name="l01956"></a><span class="lineno"> 1956</span>    <span class="comment">//stop parent shoot from producing new phytomers at the apex</span></div>
+<div class="line"><a id="l01957" name="l01957"></a><span class="lineno"> 1957</span>    shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;shoot_parameters.max_nodes = shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;current_node_number;</div>
+<div class="line"><a id="l01958" name="l01958"></a><span class="lineno"> 1958</span>    shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;terminateApicalBud(); <span class="comment">//meristem should not keep growing after appending shoot</span></div>
+<div class="line"><a id="l01959" name="l01959"></a><span class="lineno"> 1959</span> </div>
+<div class="line"><a id="l01960" name="l01960"></a><span class="lineno"> 1960</span>    <span class="comment">//accumulate all the values that will be passed to Shoot constructor</span></div>
+<div class="line"><a id="l01961" name="l01961"></a><span class="lineno"> 1961</span>    <span class="keywordtype">int</span> appended_shootID = int(shoot_tree_ptr-&gt;size());</div>
+<div class="line"><a id="l01962" name="l01962"></a><span class="lineno"> 1962</span>    uint parent_node = shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;current_node_number-1;</div>
+<div class="line"><a id="l01963" name="l01963"></a><span class="lineno"> 1963</span>    uint rank = shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;rank;</div>
+<div class="line"><a id="l01964" name="l01964"></a><span class="lineno"> 1964</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> base_position = <a class="code hl_function" href="_canopy_generator_8h.html#a339d165bb0c396a75ce255fbe16a20d4">interpolateTube</a>(shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;phytomers.back()-&gt;getInternodeNodePositions(), 0.9f );</div>
+<div class="line"><a id="l01965" name="l01965"></a><span class="lineno"> 1965</span> </div>
+<div class="line"><a id="l01966" name="l01966"></a><span class="lineno"> 1966</span>    <span class="comment">// Create the new shoot</span></div>
+<div class="line"><a id="l01967" name="l01967"></a><span class="lineno"> 1967</span>    <span class="keyword">auto</span> * shoot_new = (<span class="keyword">new</span> <a class="code hl_struct" href="struct_shoot.html">Shoot</a>(plantID, appended_shootID, parent_shoot_ID, parent_node, 0, rank, base_position, base_rotation, current_node_number, internode_length_max, shoot_parameters, shoot_type_label, <span class="keyword">this</span>));</div>
+<div class="line"><a id="l01968" name="l01968"></a><span class="lineno"> 1968</span>    shoot_tree_ptr-&gt;emplace_back(shoot_new);</div>
+<div class="line"><a id="l01969" name="l01969"></a><span class="lineno"> 1969</span> </div>
+<div class="line"><a id="l01970" name="l01970"></a><span class="lineno"> 1970</span>    <span class="comment">// Build phytomer geometry</span></div>
+<div class="line"><a id="l01971" name="l01971"></a><span class="lineno"> 1971</span>    shoot_new-&gt;buildShootPhytomers(internode_radius, internode_length_max, internode_length_scale_factor_fraction, leaf_scale_factor_fraction, radius_taper);</div>
+<div class="line"><a id="l01972" name="l01972"></a><span class="lineno"> 1972</span> </div>
+<div class="line"><a id="l01973" name="l01973"></a><span class="lineno"> 1973</span>    <span class="keywordflow">return</span> appended_shootID;</div>
+<div class="line"><a id="l01974" name="l01974"></a><span class="lineno"> 1974</span> </div>
+<div class="line"><a id="l01975" name="l01975"></a><span class="lineno"> 1975</span>}</div>
 </div>
-<div class="line"><a id="l01975" name="l01975"></a><span class="lineno"> 1975</span> </div>
-<div class="foldopen" id="foldopen01976" data-start="{" data-end="}">
-<div class="line"><a id="l01976" name="l01976"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27"> 1976</a></span>uint <a class="code hl_function" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">PlantArchitecture::addChildShoot</a>(uint plantID, <span class="keywordtype">int</span> parent_shoot_ID, uint parent_node_index, uint current_node_number, <span class="keyword">const</span> <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> &amp;shoot_base_rotation, <span class="keywordtype">float</span> internode_radius, <span class="keywordtype">float</span> internode_length_max,</div>
-<div class="line"><a id="l01977" name="l01977"></a><span class="lineno"> 1977</span>                                      <span class="keywordtype">float</span> internode_length_scale_factor_fraction, <span class="keywordtype">float</span> leaf_scale_factor_fraction, <span class="keywordtype">float</span> radius_taper, <span class="keyword">const</span> std::string &amp;shoot_type_label, uint petiole_index) {</div>
-<div class="line"><a id="l01978" name="l01978"></a><span class="lineno"> 1978</span> </div>
-<div class="line"><a id="l01979" name="l01979"></a><span class="lineno"> 1979</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l01980" name="l01980"></a><span class="lineno"> 1980</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addChildShoot): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l01981" name="l01981"></a><span class="lineno"> 1981</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( shoot_types.find(shoot_type_label) == shoot_types.end() ) {</div>
-<div class="line"><a id="l01982" name="l01982"></a><span class="lineno"> 1982</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addChildShoot): Shoot type with label of &quot;</span> + shoot_type_label + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l01983" name="l01983"></a><span class="lineno"> 1983</span>    }</div>
-<div class="line"><a id="l01984" name="l01984"></a><span class="lineno"> 1984</span> </div>
-<div class="line"><a id="l01985" name="l01985"></a><span class="lineno"> 1985</span>    <span class="keyword">auto</span> shoot_tree_ptr = &amp;plant_instances.at(plantID).shoot_tree;</div>
-<div class="line"><a id="l01986" name="l01986"></a><span class="lineno"> 1986</span> </div>
-<div class="line"><a id="l01987" name="l01987"></a><span class="lineno"> 1987</span>    <span class="keywordflow">if</span>(parent_shoot_ID &lt;= -1 || parent_shoot_ID &gt;= shoot_tree_ptr-&gt;size() ){</div>
-<div class="line"><a id="l01988" name="l01988"></a><span class="lineno"> 1988</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addChildShoot): Parent with ID of &quot;</span> + std::to_string(parent_shoot_ID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l01989" name="l01989"></a><span class="lineno"> 1989</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>(shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;phytomers.size() &lt;= parent_node_index ) {</div>
-<div class="line"><a id="l01990" name="l01990"></a><span class="lineno"> 1990</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addChildShoot): Parent shoot does not have a node &quot;</span> + std::to_string(parent_node_index) + <span class="stringliteral">&quot;.&quot;</span>);</div>
-<div class="line"><a id="l01991" name="l01991"></a><span class="lineno"> 1991</span>    }</div>
-<div class="line"><a id="l01992" name="l01992"></a><span class="lineno"> 1992</span> </div>
-<div class="line"><a id="l01993" name="l01993"></a><span class="lineno"> 1993</span>    <span class="comment">// accumulate all the values that will be passed to Shoot constructor</span></div>
-<div class="line"><a id="l01994" name="l01994"></a><span class="lineno"> 1994</span>    <span class="keyword">auto</span> shoot_parameters = shoot_types.at(shoot_type_label);</div>
-<div class="line"><a id="l01995" name="l01995"></a><span class="lineno"> 1995</span>    validateShootTypes(shoot_parameters);</div>
-<div class="line"><a id="l01996" name="l01996"></a><span class="lineno"> 1996</span>    uint parent_rank = (int)shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;rank;</div>
-<div class="line"><a id="l01997" name="l01997"></a><span class="lineno"> 1997</span>    <span class="keywordtype">int</span> parent_node_count = shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;current_node_number;</div>
-<div class="line"><a id="l01998" name="l01998"></a><span class="lineno"> 1998</span>    <span class="keywordtype">int</span> childID = int(shoot_tree_ptr-&gt;size());</div>
-<div class="line"><a id="l01999" name="l01999"></a><span class="lineno"> 1999</span> </div>
-<div class="line"><a id="l02000" name="l02000"></a><span class="lineno"> 2000</span>    <span class="comment">// Calculate the position of the shoot base</span></div>
-<div class="line"><a id="l02001" name="l02001"></a><span class="lineno"> 2001</span>    <span class="keyword">auto</span> parent_shoot_ptr = shoot_tree_ptr-&gt;at(parent_shoot_ID);</div>
-<div class="line"><a id="l02002" name="l02002"></a><span class="lineno"> 2002</span> </div>
-<div class="line"><a id="l02003" name="l02003"></a><span class="lineno"> 2003</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> shoot_base_position = parent_shoot_ptr-&gt;shoot_internode_vertices.at(parent_node_index).back();</div>
-<div class="line"><a id="l02004" name="l02004"></a><span class="lineno"> 2004</span> </div>
-<div class="line"><a id="l02005" name="l02005"></a><span class="lineno"> 2005</span>    <span class="comment">// Shift the shoot base position outward by the parent internode radius</span></div>
-<div class="line"><a id="l02006" name="l02006"></a><span class="lineno"> 2006</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> petiole_axis = parent_shoot_ptr-&gt;phytomers.at(parent_node_index)-&gt;getPetioleAxisVector(0,petiole_index);</div>
-<div class="line"><a id="l02007" name="l02007"></a><span class="lineno"> 2007</span>    shoot_base_position += 0.9f * petiole_axis * parent_shoot_ptr-&gt;phytomers.at(parent_node_index)-&gt;getInternodeRadius(1.f);</div>
-<div class="line"><a id="l02008" name="l02008"></a><span class="lineno"> 2008</span> </div>
-<div class="line"><a id="l02009" name="l02009"></a><span class="lineno"> 2009</span>    <span class="comment">// Create the new shoot</span></div>
-<div class="line"><a id="l02010" name="l02010"></a><span class="lineno"> 2010</span>    <span class="keyword">auto</span>* shoot_new = (<span class="keyword">new</span> <a class="code hl_struct" href="struct_shoot.html">Shoot</a>(plantID, childID, parent_shoot_ID, parent_node_index, petiole_index, parent_rank + 1, shoot_base_position, shoot_base_rotation, current_node_number, internode_length_max, shoot_parameters, shoot_type_label, <span class="keyword">this</span>));</div>
-<div class="line"><a id="l02011" name="l02011"></a><span class="lineno"> 2011</span>    shoot_tree_ptr-&gt;emplace_back(shoot_new);</div>
-<div class="line"><a id="l02012" name="l02012"></a><span class="lineno"> 2012</span> </div>
-<div class="line"><a id="l02013" name="l02013"></a><span class="lineno"> 2013</span>    <span class="comment">// Build phytomer geometry</span></div>
-<div class="line"><a id="l02014" name="l02014"></a><span class="lineno"> 2014</span>    shoot_new-&gt;buildShootPhytomers(internode_radius, internode_length_max, internode_length_scale_factor_fraction, leaf_scale_factor_fraction, radius_taper);</div>
-<div class="line"><a id="l02015" name="l02015"></a><span class="lineno"> 2015</span> </div>
-<div class="line"><a id="l02016" name="l02016"></a><span class="lineno"> 2016</span>    <span class="keywordflow">return</span> childID;</div>
-<div class="line"><a id="l02017" name="l02017"></a><span class="lineno"> 2017</span> </div>
-<div class="line"><a id="l02018" name="l02018"></a><span class="lineno"> 2018</span>}</div>
+<div class="line"><a id="l01976" name="l01976"></a><span class="lineno"> 1976</span> </div>
+<div class="foldopen" id="foldopen01977" data-start="{" data-end="}">
+<div class="line"><a id="l01977" name="l01977"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27"> 1977</a></span>uint <a class="code hl_function" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">PlantArchitecture::addChildShoot</a>(uint plantID, <span class="keywordtype">int</span> parent_shoot_ID, uint parent_node_index, uint current_node_number, <span class="keyword">const</span> <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> &amp;shoot_base_rotation, <span class="keywordtype">float</span> internode_radius, <span class="keywordtype">float</span> internode_length_max,</div>
+<div class="line"><a id="l01978" name="l01978"></a><span class="lineno"> 1978</span>                                      <span class="keywordtype">float</span> internode_length_scale_factor_fraction, <span class="keywordtype">float</span> leaf_scale_factor_fraction, <span class="keywordtype">float</span> radius_taper, <span class="keyword">const</span> std::string &amp;shoot_type_label, uint petiole_index) {</div>
+<div class="line"><a id="l01979" name="l01979"></a><span class="lineno"> 1979</span> </div>
+<div class="line"><a id="l01980" name="l01980"></a><span class="lineno"> 1980</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l01981" name="l01981"></a><span class="lineno"> 1981</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addChildShoot): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l01982" name="l01982"></a><span class="lineno"> 1982</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( shoot_types.find(shoot_type_label) == shoot_types.end() ) {</div>
+<div class="line"><a id="l01983" name="l01983"></a><span class="lineno"> 1983</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addChildShoot): Shoot type with label of &quot;</span> + shoot_type_label + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l01984" name="l01984"></a><span class="lineno"> 1984</span>    }</div>
+<div class="line"><a id="l01985" name="l01985"></a><span class="lineno"> 1985</span> </div>
+<div class="line"><a id="l01986" name="l01986"></a><span class="lineno"> 1986</span>    <span class="keyword">auto</span> shoot_tree_ptr = &amp;plant_instances.at(plantID).shoot_tree;</div>
+<div class="line"><a id="l01987" name="l01987"></a><span class="lineno"> 1987</span> </div>
+<div class="line"><a id="l01988" name="l01988"></a><span class="lineno"> 1988</span>    <span class="keywordflow">if</span>(parent_shoot_ID &lt;= -1 || parent_shoot_ID &gt;= shoot_tree_ptr-&gt;size() ){</div>
+<div class="line"><a id="l01989" name="l01989"></a><span class="lineno"> 1989</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addChildShoot): Parent with ID of &quot;</span> + std::to_string(parent_shoot_ID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l01990" name="l01990"></a><span class="lineno"> 1990</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>(shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;phytomers.size() &lt;= parent_node_index ) {</div>
+<div class="line"><a id="l01991" name="l01991"></a><span class="lineno"> 1991</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addChildShoot): Parent shoot does not have a node &quot;</span> + std::to_string(parent_node_index) + <span class="stringliteral">&quot;.&quot;</span>);</div>
+<div class="line"><a id="l01992" name="l01992"></a><span class="lineno"> 1992</span>    }</div>
+<div class="line"><a id="l01993" name="l01993"></a><span class="lineno"> 1993</span> </div>
+<div class="line"><a id="l01994" name="l01994"></a><span class="lineno"> 1994</span>    <span class="comment">// accumulate all the values that will be passed to Shoot constructor</span></div>
+<div class="line"><a id="l01995" name="l01995"></a><span class="lineno"> 1995</span>    <span class="keyword">auto</span> shoot_parameters = shoot_types.at(shoot_type_label);</div>
+<div class="line"><a id="l01996" name="l01996"></a><span class="lineno"> 1996</span>    validateShootTypes(shoot_parameters);</div>
+<div class="line"><a id="l01997" name="l01997"></a><span class="lineno"> 1997</span>    uint parent_rank = (int)shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;rank;</div>
+<div class="line"><a id="l01998" name="l01998"></a><span class="lineno"> 1998</span>    <span class="keywordtype">int</span> parent_node_count = shoot_tree_ptr-&gt;at(parent_shoot_ID)-&gt;current_node_number;</div>
+<div class="line"><a id="l01999" name="l01999"></a><span class="lineno"> 1999</span>    <span class="keywordtype">int</span> childID = int(shoot_tree_ptr-&gt;size());</div>
+<div class="line"><a id="l02000" name="l02000"></a><span class="lineno"> 2000</span> </div>
+<div class="line"><a id="l02001" name="l02001"></a><span class="lineno"> 2001</span>    <span class="comment">// Calculate the position of the shoot base</span></div>
+<div class="line"><a id="l02002" name="l02002"></a><span class="lineno"> 2002</span>    <span class="keyword">auto</span> parent_shoot_ptr = shoot_tree_ptr-&gt;at(parent_shoot_ID);</div>
+<div class="line"><a id="l02003" name="l02003"></a><span class="lineno"> 2003</span> </div>
+<div class="line"><a id="l02004" name="l02004"></a><span class="lineno"> 2004</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> shoot_base_position = parent_shoot_ptr-&gt;shoot_internode_vertices.at(parent_node_index).back();</div>
+<div class="line"><a id="l02005" name="l02005"></a><span class="lineno"> 2005</span> </div>
+<div class="line"><a id="l02006" name="l02006"></a><span class="lineno"> 2006</span>    <span class="comment">// Shift the shoot base position outward by the parent internode radius</span></div>
+<div class="line"><a id="l02007" name="l02007"></a><span class="lineno"> 2007</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> petiole_axis = parent_shoot_ptr-&gt;phytomers.at(parent_node_index)-&gt;getPetioleAxisVector(0,petiole_index);</div>
+<div class="line"><a id="l02008" name="l02008"></a><span class="lineno"> 2008</span>    shoot_base_position += 0.9f * petiole_axis * parent_shoot_ptr-&gt;phytomers.at(parent_node_index)-&gt;getInternodeRadius(1.f);</div>
+<div class="line"><a id="l02009" name="l02009"></a><span class="lineno"> 2009</span> </div>
+<div class="line"><a id="l02010" name="l02010"></a><span class="lineno"> 2010</span>    <span class="comment">// Create the new shoot</span></div>
+<div class="line"><a id="l02011" name="l02011"></a><span class="lineno"> 2011</span>    <span class="keyword">auto</span>* shoot_new = (<span class="keyword">new</span> <a class="code hl_struct" href="struct_shoot.html">Shoot</a>(plantID, childID, parent_shoot_ID, parent_node_index, petiole_index, parent_rank + 1, shoot_base_position, shoot_base_rotation, current_node_number, internode_length_max, shoot_parameters, shoot_type_label, <span class="keyword">this</span>));</div>
+<div class="line"><a id="l02012" name="l02012"></a><span class="lineno"> 2012</span>    shoot_tree_ptr-&gt;emplace_back(shoot_new);</div>
+<div class="line"><a id="l02013" name="l02013"></a><span class="lineno"> 2013</span> </div>
+<div class="line"><a id="l02014" name="l02014"></a><span class="lineno"> 2014</span>    <span class="comment">// Build phytomer geometry</span></div>
+<div class="line"><a id="l02015" name="l02015"></a><span class="lineno"> 2015</span>    shoot_new-&gt;buildShootPhytomers(internode_radius, internode_length_max, internode_length_scale_factor_fraction, leaf_scale_factor_fraction, radius_taper);</div>
+<div class="line"><a id="l02016" name="l02016"></a><span class="lineno"> 2016</span> </div>
+<div class="line"><a id="l02017" name="l02017"></a><span class="lineno"> 2017</span>    <span class="keywordflow">return</span> childID;</div>
+<div class="line"><a id="l02018" name="l02018"></a><span class="lineno"> 2018</span> </div>
+<div class="line"><a id="l02019" name="l02019"></a><span class="lineno"> 2019</span>}</div>
 </div>
-<div class="line"><a id="l02019" name="l02019"></a><span class="lineno"> 2019</span> </div>
-<div class="foldopen" id="foldopen02020" data-start="{" data-end="}">
-<div class="line"><a id="l02020" name="l02020"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#ade786dc8bb429eb033d29ccf9df6b254"> 2020</a></span>uint <a class="code hl_function" href="class_plant_architecture.html#ade786dc8bb429eb033d29ccf9df6b254">PlantArchitecture::addEpicormicShoot</a>(uint plantID, <span class="keywordtype">int</span> parent_shoot_ID, <span class="keywordtype">float</span> parent_position_fraction, uint current_node_number, <span class="keywordtype">float</span> zenith_perturbation_degrees, <span class="keywordtype">float</span> internode_radius, <span class="keywordtype">float</span> internode_length_max,</div>
-<div class="line"><a id="l02021" name="l02021"></a><span class="lineno"> 2021</span>                                          <span class="keywordtype">float</span> internode_length_scale_factor_fraction, <span class="keywordtype">float</span> leaf_scale_factor_fraction, <span class="keywordtype">float</span> radius_taper, <span class="keyword">const</span> std::string &amp;shoot_type_label) {</div>
-<div class="line"><a id="l02022" name="l02022"></a><span class="lineno"> 2022</span> </div>
-<div class="line"><a id="l02023" name="l02023"></a><span class="lineno"> 2023</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02024" name="l02024"></a><span class="lineno"> 2024</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addEpicormicShoot): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02025" name="l02025"></a><span class="lineno"> 2025</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( shoot_types.find(shoot_type_label) == shoot_types.end() ) {</div>
-<div class="line"><a id="l02026" name="l02026"></a><span class="lineno"> 2026</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addEpicormicShoot): Shoot type with label of &quot;</span> + shoot_type_label + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02027" name="l02027"></a><span class="lineno"> 2027</span>    }</div>
-<div class="line"><a id="l02028" name="l02028"></a><span class="lineno"> 2028</span> </div>
-<div class="line"><a id="l02029" name="l02029"></a><span class="lineno"> 2029</span>    <span class="keyword">auto</span> &amp;parent_shoot = plant_instances.at(plantID).shoot_tree.at(parent_shoot_ID);</div>
-<div class="line"><a id="l02030" name="l02030"></a><span class="lineno"> 2030</span> </div>
-<div class="line"><a id="l02031" name="l02031"></a><span class="lineno"> 2031</span>    uint parent_node_index = 0;</div>
-<div class="line"><a id="l02032" name="l02032"></a><span class="lineno"> 2032</span>    <span class="keywordflow">if</span>( parent_position_fraction&gt;0 ){</div>
-<div class="line"><a id="l02033" name="l02033"></a><span class="lineno"> 2033</span>        parent_node_index = std::ceil( parent_position_fraction * <span class="keywordtype">float</span>(parent_shoot-&gt;phytomers.size()) ) - 1;</div>
-<div class="line"><a id="l02034" name="l02034"></a><span class="lineno"> 2034</span>    }</div>
-<div class="line"><a id="l02035" name="l02035"></a><span class="lineno"> 2035</span> </div>
-<div class="line"><a id="l02036" name="l02036"></a><span class="lineno"> 2036</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> petiole_axis = plant_instances.at(plantID).shoot_tree.at(parent_shoot_ID)-&gt;phytomers.at(parent_node_index)-&gt;getPetioleAxisVector(0,0);</div>
-<div class="line"><a id="l02037" name="l02037"></a><span class="lineno"> 2037</span> </div>
-<div class="line"><a id="l02038" name="l02038"></a><span class="lineno"> 2038</span>    <span class="comment">//\todo Figuring out how to set this correctly to make the shoot vertical, which avoids having to write a child shoot function.</span></div>
-<div class="line"><a id="l02039" name="l02039"></a><span class="lineno"> 2039</span>    <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> base_rotation = make_AxisRotation(0, <a class="code hl_function" href="group__functions.html#ga9f732ec5c2153020247c879034f81432">acos_safe</a>(petiole_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>), 0);</div>
-<div class="line"><a id="l02040" name="l02040"></a><span class="lineno"> 2040</span> </div>
-<div class="line"><a id="l02041" name="l02041"></a><span class="lineno"> 2041</span>    <span class="keywordflow">return</span> <a class="code hl_function" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">addChildShoot</a>(plantID, parent_shoot_ID, parent_node_index, current_node_number, base_rotation, internode_radius, internode_length_max, internode_length_scale_factor_fraction, leaf_scale_factor_fraction, radius_taper, shoot_type_label, 0);</div>
-<div class="line"><a id="l02042" name="l02042"></a><span class="lineno"> 2042</span> </div>
-<div class="line"><a id="l02043" name="l02043"></a><span class="lineno"> 2043</span>}</div>
+<div class="line"><a id="l02020" name="l02020"></a><span class="lineno"> 2020</span> </div>
+<div class="foldopen" id="foldopen02021" data-start="{" data-end="}">
+<div class="line"><a id="l02021" name="l02021"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#ade786dc8bb429eb033d29ccf9df6b254"> 2021</a></span>uint <a class="code hl_function" href="class_plant_architecture.html#ade786dc8bb429eb033d29ccf9df6b254">PlantArchitecture::addEpicormicShoot</a>(uint plantID, <span class="keywordtype">int</span> parent_shoot_ID, <span class="keywordtype">float</span> parent_position_fraction, uint current_node_number, <span class="keywordtype">float</span> zenith_perturbation_degrees, <span class="keywordtype">float</span> internode_radius, <span class="keywordtype">float</span> internode_length_max,</div>
+<div class="line"><a id="l02022" name="l02022"></a><span class="lineno"> 2022</span>                                          <span class="keywordtype">float</span> internode_length_scale_factor_fraction, <span class="keywordtype">float</span> leaf_scale_factor_fraction, <span class="keywordtype">float</span> radius_taper, <span class="keyword">const</span> std::string &amp;shoot_type_label) {</div>
+<div class="line"><a id="l02023" name="l02023"></a><span class="lineno"> 2023</span> </div>
+<div class="line"><a id="l02024" name="l02024"></a><span class="lineno"> 2024</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02025" name="l02025"></a><span class="lineno"> 2025</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addEpicormicShoot): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02026" name="l02026"></a><span class="lineno"> 2026</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( shoot_types.find(shoot_type_label) == shoot_types.end() ) {</div>
+<div class="line"><a id="l02027" name="l02027"></a><span class="lineno"> 2027</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addEpicormicShoot): Shoot type with label of &quot;</span> + shoot_type_label + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02028" name="l02028"></a><span class="lineno"> 2028</span>    }</div>
+<div class="line"><a id="l02029" name="l02029"></a><span class="lineno"> 2029</span> </div>
+<div class="line"><a id="l02030" name="l02030"></a><span class="lineno"> 2030</span>    <span class="keyword">auto</span> &amp;parent_shoot = plant_instances.at(plantID).shoot_tree.at(parent_shoot_ID);</div>
+<div class="line"><a id="l02031" name="l02031"></a><span class="lineno"> 2031</span> </div>
+<div class="line"><a id="l02032" name="l02032"></a><span class="lineno"> 2032</span>    uint parent_node_index = 0;</div>
+<div class="line"><a id="l02033" name="l02033"></a><span class="lineno"> 2033</span>    <span class="keywordflow">if</span>( parent_position_fraction&gt;0 ){</div>
+<div class="line"><a id="l02034" name="l02034"></a><span class="lineno"> 2034</span>        parent_node_index = std::ceil( parent_position_fraction * <span class="keywordtype">float</span>(parent_shoot-&gt;phytomers.size()) ) - 1;</div>
+<div class="line"><a id="l02035" name="l02035"></a><span class="lineno"> 2035</span>    }</div>
+<div class="line"><a id="l02036" name="l02036"></a><span class="lineno"> 2036</span> </div>
+<div class="line"><a id="l02037" name="l02037"></a><span class="lineno"> 2037</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> petiole_axis = plant_instances.at(plantID).shoot_tree.at(parent_shoot_ID)-&gt;phytomers.at(parent_node_index)-&gt;getPetioleAxisVector(0,0);</div>
+<div class="line"><a id="l02038" name="l02038"></a><span class="lineno"> 2038</span> </div>
+<div class="line"><a id="l02039" name="l02039"></a><span class="lineno"> 2039</span>    <span class="comment">//\todo Figuring out how to set this correctly to make the shoot vertical, which avoids having to write a child shoot function.</span></div>
+<div class="line"><a id="l02040" name="l02040"></a><span class="lineno"> 2040</span>    <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> base_rotation = make_AxisRotation(0, <a class="code hl_function" href="group__functions.html#ga9f732ec5c2153020247c879034f81432">acos_safe</a>(petiole_axis.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>), 0);</div>
+<div class="line"><a id="l02041" name="l02041"></a><span class="lineno"> 2041</span> </div>
+<div class="line"><a id="l02042" name="l02042"></a><span class="lineno"> 2042</span>    <span class="keywordflow">return</span> <a class="code hl_function" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">addChildShoot</a>(plantID, parent_shoot_ID, parent_node_index, current_node_number, base_rotation, internode_radius, internode_length_max, internode_length_scale_factor_fraction, leaf_scale_factor_fraction, radius_taper, shoot_type_label, 0);</div>
+<div class="line"><a id="l02043" name="l02043"></a><span class="lineno"> 2043</span> </div>
+<div class="line"><a id="l02044" name="l02044"></a><span class="lineno"> 2044</span>}</div>
 </div>
-<div class="line"><a id="l02044" name="l02044"></a><span class="lineno"> 2044</span> </div>
-<div class="line"><a id="l02045" name="l02045"></a><span class="lineno"> 2045</span><span class="keywordtype">void</span> PlantArchitecture::validateShootTypes( <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> &amp;shoot_parameters )<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l02046" name="l02046"></a><span class="lineno"> 2046</span> </div>
-<div class="line"><a id="l02047" name="l02047"></a><span class="lineno"> 2047</span>    assert( shoot_parameters.child_shoot_type_probabilities.size() == shoot_parameters.child_shoot_type_labels.size() );</div>
-<div class="line"><a id="l02048" name="l02048"></a><span class="lineno"> 2048</span> </div>
-<div class="line"><a id="l02049" name="l02049"></a><span class="lineno"> 2049</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> ind = shoot_parameters.child_shoot_type_labels.size()-1; ind&gt;=0; ind-- ){</div>
-<div class="line"><a id="l02050" name="l02050"></a><span class="lineno"> 2050</span>        <span class="keywordflow">if</span>( shoot_types.find(shoot_parameters.child_shoot_type_labels.at(ind)) == shoot_types.end() ){</div>
-<div class="line"><a id="l02051" name="l02051"></a><span class="lineno"> 2051</span>            shoot_parameters.child_shoot_type_labels.erase(shoot_parameters.child_shoot_type_labels.begin()+ind);</div>
-<div class="line"><a id="l02052" name="l02052"></a><span class="lineno"> 2052</span>            shoot_parameters.child_shoot_type_probabilities.erase(shoot_parameters.child_shoot_type_probabilities.begin()+ind);</div>
-<div class="line"><a id="l02053" name="l02053"></a><span class="lineno"> 2053</span>        }</div>
-<div class="line"><a id="l02054" name="l02054"></a><span class="lineno"> 2054</span>    }</div>
-<div class="line"><a id="l02055" name="l02055"></a><span class="lineno"> 2055</span> </div>
-<div class="line"><a id="l02056" name="l02056"></a><span class="lineno"> 2056</span>}</div>
-<div class="line"><a id="l02057" name="l02057"></a><span class="lineno"> 2057</span> </div>
-<div class="foldopen" id="foldopen02058" data-start="{" data-end="}">
-<div class="line"><a id="l02058" name="l02058"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1"> 2058</a></span><span class="keywordtype">int</span> <a class="code hl_function" href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">PlantArchitecture::appendPhytomerToShoot</a>(uint plantID, uint shootID, <span class="keyword">const</span> <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> &amp;phytomer_parameters, <span class="keywordtype">float</span> internode_radius, <span class="keywordtype">float</span> internode_length_max, <span class="keywordtype">float</span> internode_length_scale_factor_fraction, <span class="keywordtype">float</span> leaf_scale_factor_fraction) {</div>
-<div class="line"><a id="l02059" name="l02059"></a><span class="lineno"> 2059</span> </div>
-<div class="line"><a id="l02060" name="l02060"></a><span class="lineno"> 2060</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02061" name="l02061"></a><span class="lineno"> 2061</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::appendPhytomerToShoot): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02062" name="l02062"></a><span class="lineno"> 2062</span>    }</div>
-<div class="line"><a id="l02063" name="l02063"></a><span class="lineno"> 2063</span> </div>
-<div class="line"><a id="l02064" name="l02064"></a><span class="lineno"> 2064</span>    <span class="keyword">auto</span> shoot_tree_ptr = &amp;plant_instances.at(plantID).shoot_tree;</div>
-<div class="line"><a id="l02065" name="l02065"></a><span class="lineno"> 2065</span> </div>
-<div class="line"><a id="l02066" name="l02066"></a><span class="lineno"> 2066</span>    <span class="keywordflow">if</span>(shootID &gt;= shoot_tree_ptr-&gt;size() ){</div>
-<div class="line"><a id="l02067" name="l02067"></a><span class="lineno"> 2067</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::appendPhytomerToShoot): Parent with ID of &quot;</span> + std::to_string(shootID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02068" name="l02068"></a><span class="lineno"> 2068</span>    }</div>
-<div class="line"><a id="l02069" name="l02069"></a><span class="lineno"> 2069</span> </div>
-<div class="line"><a id="l02070" name="l02070"></a><span class="lineno"> 2070</span>    <span class="keyword">auto</span> current_shoot_ptr = plant_instances.at(plantID).shoot_tree.at(shootID);</div>
-<div class="line"><a id="l02071" name="l02071"></a><span class="lineno"> 2071</span> </div>
-<div class="line"><a id="l02072" name="l02072"></a><span class="lineno"> 2072</span>    <span class="keywordtype">int</span> pID = current_shoot_ptr-&gt;appendPhytomer(internode_radius, internode_length_max, internode_length_scale_factor_fraction, leaf_scale_factor_fraction);</div>
-<div class="line"><a id="l02073" name="l02073"></a><span class="lineno"> 2073</span> </div>
-<div class="line"><a id="l02074" name="l02074"></a><span class="lineno"> 2074</span>    current_shoot_ptr-&gt;current_node_number ++;</div>
-<div class="line"><a id="l02075" name="l02075"></a><span class="lineno"> 2075</span> </div>
-<div class="line"><a id="l02076" name="l02076"></a><span class="lineno"> 2076</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;phytomers: current_shoot_ptr-&gt;phytomers ){</div>
-<div class="line"><a id="l02077" name="l02077"></a><span class="lineno"> 2077</span>        phytomers-&gt;shoot_index.y = current_shoot_ptr-&gt;current_node_number;</div>
-<div class="line"><a id="l02078" name="l02078"></a><span class="lineno"> 2078</span>    }</div>
-<div class="line"><a id="l02079" name="l02079"></a><span class="lineno"> 2079</span> </div>
-<div class="line"><a id="l02080" name="l02080"></a><span class="lineno"> 2080</span>    <span class="comment">//If this shoot reached max nodes, add a terminal floral bud if max_terminal_floral_buds &gt; 0</span></div>
-<div class="line"><a id="l02081" name="l02081"></a><span class="lineno"> 2081</span>    <span class="keywordflow">if</span>( current_shoot_ptr-&gt;current_node_number == current_shoot_ptr-&gt;shoot_parameters.max_nodes.val() ){</div>
-<div class="line"><a id="l02082" name="l02082"></a><span class="lineno"> 2082</span>        <span class="keywordflow">if</span> ( !current_shoot_ptr-&gt;shoot_parameters.flowers_require_dormancy &amp;&amp; current_shoot_ptr-&gt;shoot_parameters.max_terminal_floral_buds.val() &gt; 0) {</div>
-<div class="line"><a id="l02083" name="l02083"></a><span class="lineno"> 2083</span>            current_shoot_ptr-&gt;addTerminalFloralBud();</div>
-<div class="line"><a id="l02084" name="l02084"></a><span class="lineno"> 2084</span>            BudState state;</div>
-<div class="line"><a id="l02085" name="l02085"></a><span class="lineno"> 2085</span>            <span class="keywordflow">if</span>( current_shoot_ptr-&gt;shoot_parameters.phytomer_parameters.inflorescence.flower_prototype_function!=<span class="keyword">nullptr</span> ){</div>
-<div class="line"><a id="l02086" name="l02086"></a><span class="lineno"> 2086</span>                state = BUD_FLOWER_CLOSED;</div>
-<div class="line"><a id="l02087" name="l02087"></a><span class="lineno"> 2087</span>            }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( current_shoot_ptr-&gt;shoot_parameters.phytomer_parameters.inflorescence.fruit_prototype_function!=<span class="keyword">nullptr</span> ) {</div>
-<div class="line"><a id="l02088" name="l02088"></a><span class="lineno"> 2088</span>                state = BUD_FRUITING;</div>
-<div class="line"><a id="l02089" name="l02089"></a><span class="lineno"> 2089</span>            }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l02090" name="l02090"></a><span class="lineno"> 2090</span>                <span class="keywordflow">return</span> pID;</div>
-<div class="line"><a id="l02091" name="l02091"></a><span class="lineno"> 2091</span>            }</div>
-<div class="line"><a id="l02092" name="l02092"></a><span class="lineno"> 2092</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;fbuds : current_shoot_ptr-&gt;phytomers.back()-&gt;floral_buds ) {</div>
-<div class="line"><a id="l02093" name="l02093"></a><span class="lineno"> 2093</span>                <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;fbud : fbuds ) {</div>
-<div class="line"><a id="l02094" name="l02094"></a><span class="lineno"> 2094</span>                    <span class="keywordflow">if</span>( fbud.isterminal ) {</div>
-<div class="line"><a id="l02095" name="l02095"></a><span class="lineno"> 2095</span>                        fbud.state = state;</div>
-<div class="line"><a id="l02096" name="l02096"></a><span class="lineno"> 2096</span>                        current_shoot_ptr-&gt;phytomers.back()-&gt;updateInflorescence(fbud);</div>
-<div class="line"><a id="l02097" name="l02097"></a><span class="lineno"> 2097</span>                    }</div>
-<div class="line"><a id="l02098" name="l02098"></a><span class="lineno"> 2098</span>                }</div>
-<div class="line"><a id="l02099" name="l02099"></a><span class="lineno"> 2099</span>            }</div>
-<div class="line"><a id="l02100" name="l02100"></a><span class="lineno"> 2100</span>        }</div>
-<div class="line"><a id="l02101" name="l02101"></a><span class="lineno"> 2101</span>    }</div>
-<div class="line"><a id="l02102" name="l02102"></a><span class="lineno"> 2102</span> </div>
-<div class="line"><a id="l02103" name="l02103"></a><span class="lineno"> 2103</span>    <span class="keywordflow">return</span> pID;</div>
-<div class="line"><a id="l02104" name="l02104"></a><span class="lineno"> 2104</span> </div>
-<div class="line"><a id="l02105" name="l02105"></a><span class="lineno"> 2105</span>}</div>
+<div class="line"><a id="l02045" name="l02045"></a><span class="lineno"> 2045</span> </div>
+<div class="line"><a id="l02046" name="l02046"></a><span class="lineno"> 2046</span><span class="keywordtype">void</span> PlantArchitecture::validateShootTypes( <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> &amp;shoot_parameters )<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02047" name="l02047"></a><span class="lineno"> 2047</span> </div>
+<div class="line"><a id="l02048" name="l02048"></a><span class="lineno"> 2048</span>    assert( shoot_parameters.child_shoot_type_probabilities.size() == shoot_parameters.child_shoot_type_labels.size() );</div>
+<div class="line"><a id="l02049" name="l02049"></a><span class="lineno"> 2049</span> </div>
+<div class="line"><a id="l02050" name="l02050"></a><span class="lineno"> 2050</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> ind = shoot_parameters.child_shoot_type_labels.size()-1; ind&gt;=0; ind-- ){</div>
+<div class="line"><a id="l02051" name="l02051"></a><span class="lineno"> 2051</span>        <span class="keywordflow">if</span>( shoot_types.find(shoot_parameters.child_shoot_type_labels.at(ind)) == shoot_types.end() ){</div>
+<div class="line"><a id="l02052" name="l02052"></a><span class="lineno"> 2052</span>            shoot_parameters.child_shoot_type_labels.erase(shoot_parameters.child_shoot_type_labels.begin()+ind);</div>
+<div class="line"><a id="l02053" name="l02053"></a><span class="lineno"> 2053</span>            shoot_parameters.child_shoot_type_probabilities.erase(shoot_parameters.child_shoot_type_probabilities.begin()+ind);</div>
+<div class="line"><a id="l02054" name="l02054"></a><span class="lineno"> 2054</span>        }</div>
+<div class="line"><a id="l02055" name="l02055"></a><span class="lineno"> 2055</span>    }</div>
+<div class="line"><a id="l02056" name="l02056"></a><span class="lineno"> 2056</span> </div>
+<div class="line"><a id="l02057" name="l02057"></a><span class="lineno"> 2057</span>}</div>
+<div class="line"><a id="l02058" name="l02058"></a><span class="lineno"> 2058</span> </div>
+<div class="foldopen" id="foldopen02059" data-start="{" data-end="}">
+<div class="line"><a id="l02059" name="l02059"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1"> 2059</a></span><span class="keywordtype">int</span> <a class="code hl_function" href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">PlantArchitecture::appendPhytomerToShoot</a>(uint plantID, uint shootID, <span class="keyword">const</span> <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> &amp;phytomer_parameters, <span class="keywordtype">float</span> internode_radius, <span class="keywordtype">float</span> internode_length_max, <span class="keywordtype">float</span> internode_length_scale_factor_fraction, <span class="keywordtype">float</span> leaf_scale_factor_fraction) {</div>
+<div class="line"><a id="l02060" name="l02060"></a><span class="lineno"> 2060</span> </div>
+<div class="line"><a id="l02061" name="l02061"></a><span class="lineno"> 2061</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02062" name="l02062"></a><span class="lineno"> 2062</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::appendPhytomerToShoot): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02063" name="l02063"></a><span class="lineno"> 2063</span>    }</div>
+<div class="line"><a id="l02064" name="l02064"></a><span class="lineno"> 2064</span> </div>
+<div class="line"><a id="l02065" name="l02065"></a><span class="lineno"> 2065</span>    <span class="keyword">auto</span> shoot_tree_ptr = &amp;plant_instances.at(plantID).shoot_tree;</div>
+<div class="line"><a id="l02066" name="l02066"></a><span class="lineno"> 2066</span> </div>
+<div class="line"><a id="l02067" name="l02067"></a><span class="lineno"> 2067</span>    <span class="keywordflow">if</span>(shootID &gt;= shoot_tree_ptr-&gt;size() ){</div>
+<div class="line"><a id="l02068" name="l02068"></a><span class="lineno"> 2068</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::appendPhytomerToShoot): Parent with ID of &quot;</span> + std::to_string(shootID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02069" name="l02069"></a><span class="lineno"> 2069</span>    }</div>
+<div class="line"><a id="l02070" name="l02070"></a><span class="lineno"> 2070</span> </div>
+<div class="line"><a id="l02071" name="l02071"></a><span class="lineno"> 2071</span>    <span class="keyword">auto</span> current_shoot_ptr = plant_instances.at(plantID).shoot_tree.at(shootID);</div>
+<div class="line"><a id="l02072" name="l02072"></a><span class="lineno"> 2072</span> </div>
+<div class="line"><a id="l02073" name="l02073"></a><span class="lineno"> 2073</span>    <span class="keywordtype">int</span> pID = current_shoot_ptr-&gt;appendPhytomer(internode_radius, internode_length_max, internode_length_scale_factor_fraction, leaf_scale_factor_fraction);</div>
+<div class="line"><a id="l02074" name="l02074"></a><span class="lineno"> 2074</span> </div>
+<div class="line"><a id="l02075" name="l02075"></a><span class="lineno"> 2075</span>    current_shoot_ptr-&gt;current_node_number ++;</div>
+<div class="line"><a id="l02076" name="l02076"></a><span class="lineno"> 2076</span> </div>
+<div class="line"><a id="l02077" name="l02077"></a><span class="lineno"> 2077</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;phytomers: current_shoot_ptr-&gt;phytomers ){</div>
+<div class="line"><a id="l02078" name="l02078"></a><span class="lineno"> 2078</span>        phytomers-&gt;shoot_index.y = current_shoot_ptr-&gt;current_node_number;</div>
+<div class="line"><a id="l02079" name="l02079"></a><span class="lineno"> 2079</span>    }</div>
+<div class="line"><a id="l02080" name="l02080"></a><span class="lineno"> 2080</span> </div>
+<div class="line"><a id="l02081" name="l02081"></a><span class="lineno"> 2081</span>    <span class="comment">//If this shoot reached max nodes, add a terminal floral bud if max_terminal_floral_buds &gt; 0</span></div>
+<div class="line"><a id="l02082" name="l02082"></a><span class="lineno"> 2082</span>    <span class="keywordflow">if</span>( current_shoot_ptr-&gt;current_node_number == current_shoot_ptr-&gt;shoot_parameters.max_nodes.val() ){</div>
+<div class="line"><a id="l02083" name="l02083"></a><span class="lineno"> 2083</span>        <span class="keywordflow">if</span> ( !current_shoot_ptr-&gt;shoot_parameters.flowers_require_dormancy &amp;&amp; current_shoot_ptr-&gt;shoot_parameters.max_terminal_floral_buds.val() &gt; 0) {</div>
+<div class="line"><a id="l02084" name="l02084"></a><span class="lineno"> 2084</span>            current_shoot_ptr-&gt;addTerminalFloralBud();</div>
+<div class="line"><a id="l02085" name="l02085"></a><span class="lineno"> 2085</span>            BudState state;</div>
+<div class="line"><a id="l02086" name="l02086"></a><span class="lineno"> 2086</span>            <span class="keywordflow">if</span>( current_shoot_ptr-&gt;shoot_parameters.phytomer_parameters.inflorescence.flower_prototype_function!=<span class="keyword">nullptr</span> ){</div>
+<div class="line"><a id="l02087" name="l02087"></a><span class="lineno"> 2087</span>                state = BUD_FLOWER_CLOSED;</div>
+<div class="line"><a id="l02088" name="l02088"></a><span class="lineno"> 2088</span>            }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( current_shoot_ptr-&gt;shoot_parameters.phytomer_parameters.inflorescence.fruit_prototype_function!=<span class="keyword">nullptr</span> ) {</div>
+<div class="line"><a id="l02089" name="l02089"></a><span class="lineno"> 2089</span>                state = BUD_FRUITING;</div>
+<div class="line"><a id="l02090" name="l02090"></a><span class="lineno"> 2090</span>            }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l02091" name="l02091"></a><span class="lineno"> 2091</span>                <span class="keywordflow">return</span> pID;</div>
+<div class="line"><a id="l02092" name="l02092"></a><span class="lineno"> 2092</span>            }</div>
+<div class="line"><a id="l02093" name="l02093"></a><span class="lineno"> 2093</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;fbuds : current_shoot_ptr-&gt;phytomers.back()-&gt;floral_buds ) {</div>
+<div class="line"><a id="l02094" name="l02094"></a><span class="lineno"> 2094</span>                <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;fbud : fbuds ) {</div>
+<div class="line"><a id="l02095" name="l02095"></a><span class="lineno"> 2095</span>                    <span class="keywordflow">if</span>( fbud.isterminal ) {</div>
+<div class="line"><a id="l02096" name="l02096"></a><span class="lineno"> 2096</span>                        fbud.state = state;</div>
+<div class="line"><a id="l02097" name="l02097"></a><span class="lineno"> 2097</span>                        current_shoot_ptr-&gt;phytomers.back()-&gt;updateInflorescence(fbud);</div>
+<div class="line"><a id="l02098" name="l02098"></a><span class="lineno"> 2098</span>                    }</div>
+<div class="line"><a id="l02099" name="l02099"></a><span class="lineno"> 2099</span>                }</div>
+<div class="line"><a id="l02100" name="l02100"></a><span class="lineno"> 2100</span>            }</div>
+<div class="line"><a id="l02101" name="l02101"></a><span class="lineno"> 2101</span>        }</div>
+<div class="line"><a id="l02102" name="l02102"></a><span class="lineno"> 2102</span>    }</div>
+<div class="line"><a id="l02103" name="l02103"></a><span class="lineno"> 2103</span> </div>
+<div class="line"><a id="l02104" name="l02104"></a><span class="lineno"> 2104</span>    <span class="keywordflow">return</span> pID;</div>
+<div class="line"><a id="l02105" name="l02105"></a><span class="lineno"> 2105</span> </div>
+<div class="line"><a id="l02106" name="l02106"></a><span class="lineno"> 2106</span>}</div>
 </div>
-<div class="line"><a id="l02106" name="l02106"></a><span class="lineno"> 2106</span> </div>
-<div class="foldopen" id="foldopen02107" data-start="{" data-end="}">
-<div class="line"><a id="l02107" name="l02107"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a8fc29c4a5b44430a34fc780180a01e8b"> 2107</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#a8fc29c4a5b44430a34fc780180a01e8b">PlantArchitecture::enableEpicormicChildShoots</a>(uint plantID, <span class="keyword">const</span> std::string &amp;epicormic_shoot_type_label, <span class="keywordtype">float</span> epicormic_probability_perlength_perday) {</div>
-<div class="line"><a id="l02108" name="l02108"></a><span class="lineno"> 2108</span> </div>
-<div class="line"><a id="l02109" name="l02109"></a><span class="lineno"> 2109</span>    <span class="keywordflow">if</span>(shoot_types.find(epicormic_shoot_type_label) == shoot_types.end() ){</div>
-<div class="line"><a id="l02110" name="l02110"></a><span class="lineno"> 2110</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::enableEpicormicChildShoots): Shoot type with label of &quot;</span> + epicormic_shoot_type_label + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02111" name="l02111"></a><span class="lineno"> 2111</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( epicormic_probability_perlength_perday&lt;0 ){</div>
-<div class="line"><a id="l02112" name="l02112"></a><span class="lineno"> 2112</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::enableEpicormicChildShoots): Epicormic probability must be greater than or equal to zero.&quot;</span>);</div>
-<div class="line"><a id="l02113" name="l02113"></a><span class="lineno"> 2113</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02114" name="l02114"></a><span class="lineno"> 2114</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::enableEpicormicChildShoots): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02115" name="l02115"></a><span class="lineno"> 2115</span>    }</div>
-<div class="line"><a id="l02116" name="l02116"></a><span class="lineno"> 2116</span> </div>
-<div class="line"><a id="l02117" name="l02117"></a><span class="lineno"> 2117</span>    plant_instances.at(plantID).epicormic_shoot_probability_perlength_per_day = std::make_pair(epicormic_shoot_type_label, epicormic_probability_perlength_perday);</div>
-<div class="line"><a id="l02118" name="l02118"></a><span class="lineno"> 2118</span> </div>
-<div class="line"><a id="l02119" name="l02119"></a><span class="lineno"> 2119</span>}</div>
+<div class="line"><a id="l02107" name="l02107"></a><span class="lineno"> 2107</span> </div>
+<div class="foldopen" id="foldopen02108" data-start="{" data-end="}">
+<div class="line"><a id="l02108" name="l02108"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a8fc29c4a5b44430a34fc780180a01e8b"> 2108</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#a8fc29c4a5b44430a34fc780180a01e8b">PlantArchitecture::enableEpicormicChildShoots</a>(uint plantID, <span class="keyword">const</span> std::string &amp;epicormic_shoot_type_label, <span class="keywordtype">float</span> epicormic_probability_perlength_perday) {</div>
+<div class="line"><a id="l02109" name="l02109"></a><span class="lineno"> 2109</span> </div>
+<div class="line"><a id="l02110" name="l02110"></a><span class="lineno"> 2110</span>    <span class="keywordflow">if</span>(shoot_types.find(epicormic_shoot_type_label) == shoot_types.end() ){</div>
+<div class="line"><a id="l02111" name="l02111"></a><span class="lineno"> 2111</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::enableEpicormicChildShoots): Shoot type with label of &quot;</span> + epicormic_shoot_type_label + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02112" name="l02112"></a><span class="lineno"> 2112</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( epicormic_probability_perlength_perday&lt;0 ){</div>
+<div class="line"><a id="l02113" name="l02113"></a><span class="lineno"> 2113</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::enableEpicormicChildShoots): Epicormic probability must be greater than or equal to zero.&quot;</span>);</div>
+<div class="line"><a id="l02114" name="l02114"></a><span class="lineno"> 2114</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02115" name="l02115"></a><span class="lineno"> 2115</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::enableEpicormicChildShoots): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02116" name="l02116"></a><span class="lineno"> 2116</span>    }</div>
+<div class="line"><a id="l02117" name="l02117"></a><span class="lineno"> 2117</span> </div>
+<div class="line"><a id="l02118" name="l02118"></a><span class="lineno"> 2118</span>    plant_instances.at(plantID).epicormic_shoot_probability_perlength_per_day = std::make_pair(epicormic_shoot_type_label, epicormic_probability_perlength_perday);</div>
+<div class="line"><a id="l02119" name="l02119"></a><span class="lineno"> 2119</span> </div>
+<div class="line"><a id="l02120" name="l02120"></a><span class="lineno"> 2120</span>}</div>
 </div>
-<div class="line"><a id="l02120" name="l02120"></a><span class="lineno"> 2120</span> </div>
-<div class="foldopen" id="foldopen02121" data-start="{" data-end="}">
-<div class="line"><a id="l02121" name="l02121"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#af66af0968daf0fef4135b4434c61dc60"> 2121</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#af66af0968daf0fef4135b4434c61dc60">PlantArchitecture::disableInternodeContextBuild</a>(){</div>
-<div class="line"><a id="l02122" name="l02122"></a><span class="lineno"> 2122</span>    build_context_geometry_internode = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02123" name="l02123"></a><span class="lineno"> 2123</span>}</div>
+<div class="line"><a id="l02121" name="l02121"></a><span class="lineno"> 2121</span> </div>
+<div class="foldopen" id="foldopen02122" data-start="{" data-end="}">
+<div class="line"><a id="l02122" name="l02122"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#af66af0968daf0fef4135b4434c61dc60"> 2122</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#af66af0968daf0fef4135b4434c61dc60">PlantArchitecture::disableInternodeContextBuild</a>(){</div>
+<div class="line"><a id="l02123" name="l02123"></a><span class="lineno"> 2123</span>    build_context_geometry_internode = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02124" name="l02124"></a><span class="lineno"> 2124</span>}</div>
 </div>
-<div class="line"><a id="l02124" name="l02124"></a><span class="lineno"> 2124</span> </div>
-<div class="foldopen" id="foldopen02125" data-start="{" data-end="}">
-<div class="line"><a id="l02125" name="l02125"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#ab4ae495e7aebc365826f2a2f02a24338"> 2125</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#ab4ae495e7aebc365826f2a2f02a24338">PlantArchitecture::disablePetioleContextBuild</a>(){</div>
-<div class="line"><a id="l02126" name="l02126"></a><span class="lineno"> 2126</span>    build_context_geometry_petiole = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02127" name="l02127"></a><span class="lineno"> 2127</span>}</div>
+<div class="line"><a id="l02125" name="l02125"></a><span class="lineno"> 2125</span> </div>
+<div class="foldopen" id="foldopen02126" data-start="{" data-end="}">
+<div class="line"><a id="l02126" name="l02126"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#ab4ae495e7aebc365826f2a2f02a24338"> 2126</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#ab4ae495e7aebc365826f2a2f02a24338">PlantArchitecture::disablePetioleContextBuild</a>(){</div>
+<div class="line"><a id="l02127" name="l02127"></a><span class="lineno"> 2127</span>    build_context_geometry_petiole = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02128" name="l02128"></a><span class="lineno"> 2128</span>}</div>
 </div>
-<div class="line"><a id="l02128" name="l02128"></a><span class="lineno"> 2128</span> </div>
-<div class="foldopen" id="foldopen02129" data-start="{" data-end="}">
-<div class="line"><a id="l02129" name="l02129"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a71918ef58e5257e4a8a338dba4f9b328"> 2129</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#a71918ef58e5257e4a8a338dba4f9b328">PlantArchitecture::disablePeduncleContextBuild</a>(){</div>
-<div class="line"><a id="l02130" name="l02130"></a><span class="lineno"> 2130</span>    build_context_geometry_peduncle = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02131" name="l02131"></a><span class="lineno"> 2131</span>}</div>
+<div class="line"><a id="l02129" name="l02129"></a><span class="lineno"> 2129</span> </div>
+<div class="foldopen" id="foldopen02130" data-start="{" data-end="}">
+<div class="line"><a id="l02130" name="l02130"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a71918ef58e5257e4a8a338dba4f9b328"> 2130</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#a71918ef58e5257e4a8a338dba4f9b328">PlantArchitecture::disablePeduncleContextBuild</a>(){</div>
+<div class="line"><a id="l02131" name="l02131"></a><span class="lineno"> 2131</span>    build_context_geometry_peduncle = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02132" name="l02132"></a><span class="lineno"> 2132</span>}</div>
 </div>
-<div class="line"><a id="l02132" name="l02132"></a><span class="lineno"> 2132</span> </div>
-<div class="foldopen" id="foldopen02133" data-start="{" data-end="}">
-<div class="line"><a id="l02133" name="l02133"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a27dd2c46b6bb9f5c922d18acb6d9ba69"> 2133</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#a27dd2c46b6bb9f5c922d18acb6d9ba69">PlantArchitecture::enableGroundClipping</a>( <span class="keywordtype">float</span> ground_height ){</div>
-<div class="line"><a id="l02134" name="l02134"></a><span class="lineno"> 2134</span>    ground_clipping_height = ground_height;</div>
-<div class="line"><a id="l02135" name="l02135"></a><span class="lineno"> 2135</span>}</div>
+<div class="line"><a id="l02133" name="l02133"></a><span class="lineno"> 2133</span> </div>
+<div class="foldopen" id="foldopen02134" data-start="{" data-end="}">
+<div class="line"><a id="l02134" name="l02134"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a27dd2c46b6bb9f5c922d18acb6d9ba69"> 2134</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#a27dd2c46b6bb9f5c922d18acb6d9ba69">PlantArchitecture::enableGroundClipping</a>( <span class="keywordtype">float</span> ground_height ){</div>
+<div class="line"><a id="l02135" name="l02135"></a><span class="lineno"> 2135</span>    ground_clipping_height = ground_height;</div>
+<div class="line"><a id="l02136" name="l02136"></a><span class="lineno"> 2136</span>}</div>
 </div>
-<div class="line"><a id="l02136" name="l02136"></a><span class="lineno"> 2136</span> </div>
-<div class="line"><a id="l02137" name="l02137"></a><span class="lineno"> 2137</span><span class="comment">//void PlantArchitecture::incrementPhytomerInternodeGirth(uint plantID, uint shootID, uint node_number, float girth_change, bool update_context_geometry) {</span></div>
-<div class="line"><a id="l02138" name="l02138"></a><span class="lineno"> 2138</span><span class="comment">//</span></div>
-<div class="line"><a id="l02139" name="l02139"></a><span class="lineno"> 2139</span><span class="comment">//    if( girth_change==0 ){</span></div>
-<div class="line"><a id="l02140" name="l02140"></a><span class="lineno"> 2140</span><span class="comment">//        return;</span></div>
-<div class="line"><a id="l02141" name="l02141"></a><span class="lineno"> 2141</span><span class="comment">//    }</span></div>
-<div class="line"><a id="l02142" name="l02142"></a><span class="lineno"> 2142</span><span class="comment">//</span></div>
-<div class="line"><a id="l02143" name="l02143"></a><span class="lineno"> 2143</span><span class="comment">//    if( plant_instances.find(plantID) == plant_instances.end() ){</span></div>
-<div class="line"><a id="l02144" name="l02144"></a><span class="lineno"> 2144</span><span class="comment">//        helios_runtime_error(&quot;ERROR (PlantArchitecture::incrementPhytomerInternodeGirth): Plant with ID of &quot; + std::to_string(plantID) + &quot; does not exist.&quot;);</span></div>
-<div class="line"><a id="l02145" name="l02145"></a><span class="lineno"> 2145</span><span class="comment">//    }</span></div>
-<div class="line"><a id="l02146" name="l02146"></a><span class="lineno"> 2146</span><span class="comment">//</span></div>
-<div class="line"><a id="l02147" name="l02147"></a><span class="lineno"> 2147</span><span class="comment">//    auto shoot = plant_instances.at(plantID).shoot_tree.at(shootID);</span></div>
-<div class="line"><a id="l02148" name="l02148"></a><span class="lineno"> 2148</span><span class="comment">//</span></div>
-<div class="line"><a id="l02149" name="l02149"></a><span class="lineno"> 2149</span><span class="comment">//    if( shootID&gt;=plant_instances.at(plantID).shoot_tree.size() ){</span></div>
-<div class="line"><a id="l02150" name="l02150"></a><span class="lineno"> 2150</span><span class="comment">//        helios_runtime_error(&quot;ERROR (PlantArchitecture::incrementPhytomerInternodeGirth): Shoot with ID of &quot; + std::to_string(shootID) + &quot; does not exist.&quot;);</span></div>
-<div class="line"><a id="l02151" name="l02151"></a><span class="lineno"> 2151</span><span class="comment">//    }else if( node_number&gt;=shoot-&gt;current_node_number ){</span></div>
-<div class="line"><a id="l02152" name="l02152"></a><span class="lineno"> 2152</span><span class="comment">//        helios_runtime_error(&quot;ERROR (PlantArchitecture::incrementPhytomerInternodeGirth): Cannot scale internode &quot; + std::to_string(node_number) + &quot; because there are only &quot; + std::to_string(shoot-&gt;current_node_number) + &quot; nodes in this shoot.&quot;);</span></div>
-<div class="line"><a id="l02153" name="l02153"></a><span class="lineno"> 2153</span><span class="comment">//    }</span></div>
-<div class="line"><a id="l02154" name="l02154"></a><span class="lineno"> 2154</span><span class="comment">//</span></div>
-<div class="line"><a id="l02155" name="l02155"></a><span class="lineno"> 2155</span><span class="comment">//    auto phytomer = shoot-&gt;phytomers.at(node_number);</span></div>
-<div class="line"><a id="l02156" name="l02156"></a><span class="lineno"> 2156</span><span class="comment">//</span></div>
-<div class="line"><a id="l02157" name="l02157"></a><span class="lineno"> 2157</span><span class="comment">//    // Scale the girth of the internode</span></div>
-<div class="line"><a id="l02158" name="l02158"></a><span class="lineno"> 2158</span><span class="comment">//    auto &amp;segment = shoot-&gt;shoot_internode_radii.at(node_number);</span></div>
-<div class="line"><a id="l02159" name="l02159"></a><span class="lineno"> 2159</span><span class="comment">//    for( float &amp;radius : segment  ) {</span></div>
-<div class="line"><a id="l02160" name="l02160"></a><span class="lineno"> 2160</span><span class="comment">//</span></div>
-<div class="line"><a id="l02161" name="l02161"></a><span class="lineno"> 2161</span><span class="comment">//        float taper = 1.f - 0.5f * float(node_number) / float(shoot-&gt;current_node_number);</span></div>
-<div class="line"><a id="l02162" name="l02162"></a><span class="lineno"> 2162</span><span class="comment">//</span></div>
-<div class="line"><a id="l02163" name="l02163"></a><span class="lineno"> 2163</span><span class="comment">//        if (radius * girth_change &gt; phytomer-&gt;internode_radius_max) {</span></div>
-<div class="line"><a id="l02164" name="l02164"></a><span class="lineno"> 2164</span><span class="comment">//            girth_change = phytomer-&gt;internode_radius_max / radius;</span></div>
-<div class="line"><a id="l02165" name="l02165"></a><span class="lineno"> 2165</span><span class="comment">//            radius = phytomer-&gt;internode_radius_max;</span></div>
-<div class="line"><a id="l02166" name="l02166"></a><span class="lineno"> 2166</span><span class="comment">//        }else if( girth_change&gt;1.f ) {</span></div>
-<div class="line"><a id="l02167" name="l02167"></a><span class="lineno"> 2167</span><span class="comment">//            radius *= 1.f + (girth_change - 1.f) * taper;</span></div>
-<div class="line"><a id="l02168" name="l02168"></a><span class="lineno"> 2168</span><span class="comment">//        }else{</span></div>
-<div class="line"><a id="l02169" name="l02169"></a><span class="lineno"> 2169</span><span class="comment">//            radius *= girth_change;</span></div>
-<div class="line"><a id="l02170" name="l02170"></a><span class="lineno"> 2170</span><span class="comment">//        }</span></div>
-<div class="line"><a id="l02171" name="l02171"></a><span class="lineno"> 2171</span><span class="comment">//</span></div>
-<div class="line"><a id="l02172" name="l02172"></a><span class="lineno"> 2172</span><span class="comment">//    }</span></div>
-<div class="line"><a id="l02173" name="l02173"></a><span class="lineno"> 2173</span><span class="comment">//</span></div>
+<div class="line"><a id="l02137" name="l02137"></a><span class="lineno"> 2137</span> </div>
+<div class="line"><a id="l02138" name="l02138"></a><span class="lineno"> 2138</span><span class="comment">//void PlantArchitecture::incrementPhytomerInternodeGirth(uint plantID, uint shootID, uint node_number, float girth_change, bool update_context_geometry) {</span></div>
+<div class="line"><a id="l02139" name="l02139"></a><span class="lineno"> 2139</span><span class="comment">//</span></div>
+<div class="line"><a id="l02140" name="l02140"></a><span class="lineno"> 2140</span><span class="comment">//    if( girth_change==0 ){</span></div>
+<div class="line"><a id="l02141" name="l02141"></a><span class="lineno"> 2141</span><span class="comment">//        return;</span></div>
+<div class="line"><a id="l02142" name="l02142"></a><span class="lineno"> 2142</span><span class="comment">//    }</span></div>
+<div class="line"><a id="l02143" name="l02143"></a><span class="lineno"> 2143</span><span class="comment">//</span></div>
+<div class="line"><a id="l02144" name="l02144"></a><span class="lineno"> 2144</span><span class="comment">//    if( plant_instances.find(plantID) == plant_instances.end() ){</span></div>
+<div class="line"><a id="l02145" name="l02145"></a><span class="lineno"> 2145</span><span class="comment">//        helios_runtime_error(&quot;ERROR (PlantArchitecture::incrementPhytomerInternodeGirth): Plant with ID of &quot; + std::to_string(plantID) + &quot; does not exist.&quot;);</span></div>
+<div class="line"><a id="l02146" name="l02146"></a><span class="lineno"> 2146</span><span class="comment">//    }</span></div>
+<div class="line"><a id="l02147" name="l02147"></a><span class="lineno"> 2147</span><span class="comment">//</span></div>
+<div class="line"><a id="l02148" name="l02148"></a><span class="lineno"> 2148</span><span class="comment">//    auto shoot = plant_instances.at(plantID).shoot_tree.at(shootID);</span></div>
+<div class="line"><a id="l02149" name="l02149"></a><span class="lineno"> 2149</span><span class="comment">//</span></div>
+<div class="line"><a id="l02150" name="l02150"></a><span class="lineno"> 2150</span><span class="comment">//    if( shootID&gt;=plant_instances.at(plantID).shoot_tree.size() ){</span></div>
+<div class="line"><a id="l02151" name="l02151"></a><span class="lineno"> 2151</span><span class="comment">//        helios_runtime_error(&quot;ERROR (PlantArchitecture::incrementPhytomerInternodeGirth): Shoot with ID of &quot; + std::to_string(shootID) + &quot; does not exist.&quot;);</span></div>
+<div class="line"><a id="l02152" name="l02152"></a><span class="lineno"> 2152</span><span class="comment">//    }else if( node_number&gt;=shoot-&gt;current_node_number ){</span></div>
+<div class="line"><a id="l02153" name="l02153"></a><span class="lineno"> 2153</span><span class="comment">//        helios_runtime_error(&quot;ERROR (PlantArchitecture::incrementPhytomerInternodeGirth): Cannot scale internode &quot; + std::to_string(node_number) + &quot; because there are only &quot; + std::to_string(shoot-&gt;current_node_number) + &quot; nodes in this shoot.&quot;);</span></div>
+<div class="line"><a id="l02154" name="l02154"></a><span class="lineno"> 2154</span><span class="comment">//    }</span></div>
+<div class="line"><a id="l02155" name="l02155"></a><span class="lineno"> 2155</span><span class="comment">//</span></div>
+<div class="line"><a id="l02156" name="l02156"></a><span class="lineno"> 2156</span><span class="comment">//    auto phytomer = shoot-&gt;phytomers.at(node_number);</span></div>
+<div class="line"><a id="l02157" name="l02157"></a><span class="lineno"> 2157</span><span class="comment">//</span></div>
+<div class="line"><a id="l02158" name="l02158"></a><span class="lineno"> 2158</span><span class="comment">//    // Scale the girth of the internode</span></div>
+<div class="line"><a id="l02159" name="l02159"></a><span class="lineno"> 2159</span><span class="comment">//    auto &amp;segment = shoot-&gt;shoot_internode_radii.at(node_number);</span></div>
+<div class="line"><a id="l02160" name="l02160"></a><span class="lineno"> 2160</span><span class="comment">//    for( float &amp;radius : segment  ) {</span></div>
+<div class="line"><a id="l02161" name="l02161"></a><span class="lineno"> 2161</span><span class="comment">//</span></div>
+<div class="line"><a id="l02162" name="l02162"></a><span class="lineno"> 2162</span><span class="comment">//        float taper = 1.f - 0.5f * float(node_number) / float(shoot-&gt;current_node_number);</span></div>
+<div class="line"><a id="l02163" name="l02163"></a><span class="lineno"> 2163</span><span class="comment">//</span></div>
+<div class="line"><a id="l02164" name="l02164"></a><span class="lineno"> 2164</span><span class="comment">//        if (radius * girth_change &gt; phytomer-&gt;internode_radius_max) {</span></div>
+<div class="line"><a id="l02165" name="l02165"></a><span class="lineno"> 2165</span><span class="comment">//            girth_change = phytomer-&gt;internode_radius_max / radius;</span></div>
+<div class="line"><a id="l02166" name="l02166"></a><span class="lineno"> 2166</span><span class="comment">//            radius = phytomer-&gt;internode_radius_max;</span></div>
+<div class="line"><a id="l02167" name="l02167"></a><span class="lineno"> 2167</span><span class="comment">//        }else if( girth_change&gt;1.f ) {</span></div>
+<div class="line"><a id="l02168" name="l02168"></a><span class="lineno"> 2168</span><span class="comment">//            radius *= 1.f + (girth_change - 1.f) * taper;</span></div>
+<div class="line"><a id="l02169" name="l02169"></a><span class="lineno"> 2169</span><span class="comment">//        }else{</span></div>
+<div class="line"><a id="l02170" name="l02170"></a><span class="lineno"> 2170</span><span class="comment">//            radius *= girth_change;</span></div>
+<div class="line"><a id="l02171" name="l02171"></a><span class="lineno"> 2171</span><span class="comment">//        }</span></div>
+<div class="line"><a id="l02172" name="l02172"></a><span class="lineno"> 2172</span><span class="comment">//</span></div>
+<div class="line"><a id="l02173" name="l02173"></a><span class="lineno"> 2173</span><span class="comment">//    }</span></div>
 <div class="line"><a id="l02174" name="l02174"></a><span class="lineno"> 2174</span><span class="comment">//</span></div>
-<div class="line"><a id="l02175" name="l02175"></a><span class="lineno"> 2175</span><span class="comment">//    if( update_context_geometry ){</span></div>
-<div class="line"><a id="l02176" name="l02176"></a><span class="lineno"> 2176</span><span class="comment">//        context_ptr-&gt;setTubeRadii(shoot-&gt;internode_tube_objID, flatten(shoot-&gt;shoot_internode_radii) );</span></div>
-<div class="line"><a id="l02177" name="l02177"></a><span class="lineno"> 2177</span><span class="comment">//    }</span></div>
-<div class="line"><a id="l02178" name="l02178"></a><span class="lineno"> 2178</span><span class="comment">//</span></div>
-<div class="line"><a id="l02179" name="l02179"></a><span class="lineno"> 2179</span><span class="comment">//}</span></div>
-<div class="line"><a id="l02180" name="l02180"></a><span class="lineno"> 2180</span> </div>
-<div class="line"><a id="l02181" name="l02181"></a><span class="lineno"> 2181</span><span class="keywordtype">void</span> PlantArchitecture::incrementPhytomerInternodeGirth(uint plantID, uint shootID, uint node_number, <span class="keywordtype">bool</span> update_context_geometry) {</div>
-<div class="line"><a id="l02182" name="l02182"></a><span class="lineno"> 2182</span> </div>
-<div class="line"><a id="l02183" name="l02183"></a><span class="lineno"> 2183</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02184" name="l02184"></a><span class="lineno"> 2184</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::incrementPhytomerInternodeGirth): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02185" name="l02185"></a><span class="lineno"> 2185</span>    }</div>
-<div class="line"><a id="l02186" name="l02186"></a><span class="lineno"> 2186</span> </div>
-<div class="line"><a id="l02187" name="l02187"></a><span class="lineno"> 2187</span>    <span class="keyword">auto</span> shoot = plant_instances.at(plantID).shoot_tree.at(shootID);</div>
-<div class="line"><a id="l02188" name="l02188"></a><span class="lineno"> 2188</span> </div>
-<div class="line"><a id="l02189" name="l02189"></a><span class="lineno"> 2189</span>    <span class="keywordflow">if</span>( shootID&gt;=plant_instances.at(plantID).shoot_tree.size() ){</div>
-<div class="line"><a id="l02190" name="l02190"></a><span class="lineno"> 2190</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::incrementPhytomerInternodeGirth): Shoot with ID of &quot;</span> + std::to_string(shootID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02191" name="l02191"></a><span class="lineno"> 2191</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( node_number&gt;=shoot-&gt;current_node_number ){</div>
-<div class="line"><a id="l02192" name="l02192"></a><span class="lineno"> 2192</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::incrementPhytomerInternodeGirth): Cannot scale internode &quot;</span> + std::to_string(node_number) + <span class="stringliteral">&quot; because there are only &quot;</span> + std::to_string(shoot-&gt;current_node_number) + <span class="stringliteral">&quot; nodes in this shoot.&quot;</span>);</div>
-<div class="line"><a id="l02193" name="l02193"></a><span class="lineno"> 2193</span>    }</div>
-<div class="line"><a id="l02194" name="l02194"></a><span class="lineno"> 2194</span> </div>
-<div class="line"><a id="l02195" name="l02195"></a><span class="lineno"> 2195</span>    <span class="keyword">auto</span> phytomer = shoot-&gt;phytomers.at(node_number);</div>
-<div class="line"><a id="l02196" name="l02196"></a><span class="lineno"> 2196</span> </div>
-<div class="line"><a id="l02197" name="l02197"></a><span class="lineno"> 2197</span>    <span class="keywordtype">float</span> leaf_area = phytomer-&gt;calculateDownstreamLeafArea();</div>
-<div class="line"><a id="l02198" name="l02198"></a><span class="lineno"> 2198</span> </div>
-<div class="line"><a id="l02199" name="l02199"></a><span class="lineno"> 2199</span>    <span class="keywordtype">float</span> internode_area = phytomer-&gt;parent_shoot_ptr-&gt;shoot_parameters.girth_area_factor.val()*leaf_area*1e-4;</div>
-<div class="line"><a id="l02200" name="l02200"></a><span class="lineno"> 2200</span>    phytomer-&gt;parent_shoot_ptr-&gt;shoot_parameters.girth_area_factor.resample();</div>
-<div class="line"><a id="l02201" name="l02201"></a><span class="lineno"> 2201</span> </div>
-<div class="line"><a id="l02202" name="l02202"></a><span class="lineno"> 2202</span>    <span class="keywordtype">float</span> phytomer_radius = sqrtf(internode_area / M_PI);</div>
-<div class="line"><a id="l02203" name="l02203"></a><span class="lineno"> 2203</span> </div>
-<div class="line"><a id="l02204" name="l02204"></a><span class="lineno"> 2204</span>    <span class="keyword">auto</span> &amp;segment = shoot-&gt;shoot_internode_radii.at(node_number);</div>
-<div class="line"><a id="l02205" name="l02205"></a><span class="lineno"> 2205</span>    <span class="keywordflow">for</span>( <span class="keywordtype">float</span> &amp;radius : segment  ) {</div>
-<div class="line"><a id="l02206" name="l02206"></a><span class="lineno"> 2206</span>        <span class="keywordflow">if</span>( phytomer_radius &gt; radius ) { <span class="comment">//radius should only increase</span></div>
-<div class="line"><a id="l02207" name="l02207"></a><span class="lineno"> 2207</span>            radius = phytomer_radius;</div>
-<div class="line"><a id="l02208" name="l02208"></a><span class="lineno"> 2208</span>        }</div>
-<div class="line"><a id="l02209" name="l02209"></a><span class="lineno"> 2209</span>    }</div>
-<div class="line"><a id="l02210" name="l02210"></a><span class="lineno"> 2210</span> </div>
-<div class="line"><a id="l02211" name="l02211"></a><span class="lineno"> 2211</span>    <span class="keywordflow">if</span>( update_context_geometry ){</div>
-<div class="line"><a id="l02212" name="l02212"></a><span class="lineno"> 2212</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#afbbb8692fb22c4c7475738556af0ec6a">setTubeRadii</a>(shoot-&gt;internode_tube_objID, <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(shoot-&gt;shoot_internode_radii) );</div>
-<div class="line"><a id="l02213" name="l02213"></a><span class="lineno"> 2213</span>    }</div>
-<div class="line"><a id="l02214" name="l02214"></a><span class="lineno"> 2214</span> </div>
-<div class="line"><a id="l02215" name="l02215"></a><span class="lineno"> 2215</span>}</div>
-<div class="line"><a id="l02216" name="l02216"></a><span class="lineno"> 2216</span> </div>
-<div class="line"><a id="l02217" name="l02217"></a><span class="lineno"> 2217</span><span class="keywordtype">void</span> PlantArchitecture::setPhytomerLeafScale(uint plantID, uint shootID, uint node_number, <span class="keywordtype">float</span> leaf_scale_factor_fraction) {</div>
-<div class="line"><a id="l02218" name="l02218"></a><span class="lineno"> 2218</span> </div>
-<div class="line"><a id="l02219" name="l02219"></a><span class="lineno"> 2219</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02220" name="l02220"></a><span class="lineno"> 2220</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPhytomerLeafScale): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02221" name="l02221"></a><span class="lineno"> 2221</span>    }</div>
-<div class="line"><a id="l02222" name="l02222"></a><span class="lineno"> 2222</span> </div>
-<div class="line"><a id="l02223" name="l02223"></a><span class="lineno"> 2223</span>    <span class="keyword">auto</span> parent_shoot = plant_instances.at(plantID).shoot_tree.at(shootID);</div>
-<div class="line"><a id="l02224" name="l02224"></a><span class="lineno"> 2224</span> </div>
-<div class="line"><a id="l02225" name="l02225"></a><span class="lineno"> 2225</span>    <span class="keywordflow">if</span>( shootID&gt;=plant_instances.at(plantID).shoot_tree.size() ){</div>
-<div class="line"><a id="l02226" name="l02226"></a><span class="lineno"> 2226</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPhytomerLeafScale): Shoot with ID of &quot;</span> + std::to_string(shootID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02227" name="l02227"></a><span class="lineno"> 2227</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( node_number&gt;=parent_shoot-&gt;current_node_number ){</div>
-<div class="line"><a id="l02228" name="l02228"></a><span class="lineno"> 2228</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPhytomerLeafScale): Cannot scale leaf &quot;</span> + std::to_string(node_number) + <span class="stringliteral">&quot; because there are only &quot;</span> + std::to_string(parent_shoot-&gt;current_node_number) + <span class="stringliteral">&quot; nodes in this shoot.&quot;</span>);</div>
-<div class="line"><a id="l02229" name="l02229"></a><span class="lineno"> 2229</span>    }</div>
-<div class="line"><a id="l02230" name="l02230"></a><span class="lineno"> 2230</span>    <span class="keywordflow">if</span>(leaf_scale_factor_fraction &lt; 0 || leaf_scale_factor_fraction &gt; 1 ){</div>
-<div class="line"><a id="l02231" name="l02231"></a><span class="lineno"> 2231</span>        std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (PlantArchitecture::setPhytomerLeafScale): Leaf scaling factor was outside the range of 0 to 1. No scaling was applied.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02232" name="l02232"></a><span class="lineno"> 2232</span>        <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l02233" name="l02233"></a><span class="lineno"> 2233</span>    }</div>
-<div class="line"><a id="l02234" name="l02234"></a><span class="lineno"> 2234</span> </div>
-<div class="line"><a id="l02235" name="l02235"></a><span class="lineno"> 2235</span>    parent_shoot-&gt;phytomers.at(node_number)-&gt;setLeafScaleFraction(leaf_scale_factor_fraction);</div>
-<div class="line"><a id="l02236" name="l02236"></a><span class="lineno"> 2236</span> </div>
-<div class="line"><a id="l02237" name="l02237"></a><span class="lineno"> 2237</span>}</div>
-<div class="line"><a id="l02238" name="l02238"></a><span class="lineno"> 2238</span> </div>
-<div class="line"><a id="l02239" name="l02239"></a><span class="lineno"> 2239</span><span class="keywordtype">void</span> PlantArchitecture::setPlantBasePosition(uint plantID, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
-<div class="line"><a id="l02240" name="l02240"></a><span class="lineno"> 2240</span> </div>
-<div class="line"><a id="l02241" name="l02241"></a><span class="lineno"> 2241</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02242" name="l02242"></a><span class="lineno"> 2242</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPlantBasePosition): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02243" name="l02243"></a><span class="lineno"> 2243</span>    }</div>
-<div class="line"><a id="l02244" name="l02244"></a><span class="lineno"> 2244</span> </div>
-<div class="line"><a id="l02245" name="l02245"></a><span class="lineno"> 2245</span>    plant_instances.at(plantID).base_position = base_position;</div>
-<div class="line"><a id="l02246" name="l02246"></a><span class="lineno"> 2246</span> </div>
-<div class="line"><a id="l02247" name="l02247"></a><span class="lineno"> 2247</span>    <span class="comment">//\todo Does not work after shoots have been added to the plant.</span></div>
-<div class="line"><a id="l02248" name="l02248"></a><span class="lineno"> 2248</span>    <span class="keywordflow">if</span>( !plant_instances.at(plantID).shoot_tree.empty() ){</div>
-<div class="line"><a id="l02249" name="l02249"></a><span class="lineno"> 2249</span>        std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (PlantArchitecture::setPlantBasePosition): This function does not work after shoots have been added to the plant.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02250" name="l02250"></a><span class="lineno"> 2250</span>    }</div>
-<div class="line"><a id="l02251" name="l02251"></a><span class="lineno"> 2251</span> </div>
-<div class="line"><a id="l02252" name="l02252"></a><span class="lineno"> 2252</span>}</div>
-<div class="line"><a id="l02253" name="l02253"></a><span class="lineno"> 2253</span> </div>
-<div class="line"><a id="l02254" name="l02254"></a><span class="lineno"> 2254</span><a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> PlantArchitecture::getPlantBasePosition(uint plantID)<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l02255" name="l02255"></a><span class="lineno"> 2255</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02256" name="l02256"></a><span class="lineno"> 2256</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPlantBasePosition): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02257" name="l02257"></a><span class="lineno"> 2257</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( plant_instances.at(plantID).shoot_tree.empty() ){</div>
-<div class="line"><a id="l02258" name="l02258"></a><span class="lineno"> 2258</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPlantBasePosition): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; has no shoots, so could not get a base position.&quot;</span>);</div>
-<div class="line"><a id="l02259" name="l02259"></a><span class="lineno"> 2259</span>    }</div>
-<div class="line"><a id="l02260" name="l02260"></a><span class="lineno"> 2260</span>    <span class="keywordflow">return</span> plant_instances.at(plantID).base_position;</div>
-<div class="line"><a id="l02261" name="l02261"></a><span class="lineno"> 2261</span>}</div>
-<div class="line"><a id="l02262" name="l02262"></a><span class="lineno"> 2262</span> </div>
-<div class="foldopen" id="foldopen02263" data-start="{" data-end="}">
-<div class="line"><a id="l02263" name="l02263"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#ae8be24e5a963c49e7ab9ce5641fddec6"> 2263</a></span><span class="keywordtype">float</span> <a class="code hl_function" href="class_plant_architecture.html#ae8be24e5a963c49e7ab9ce5641fddec6">PlantArchitecture::sumPlantLeafArea</a>(uint plantID)<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l02264" name="l02264"></a><span class="lineno"> 2264</span> </div>
-<div class="line"><a id="l02265" name="l02265"></a><span class="lineno"> 2265</span>    <span class="keywordflow">if</span>( plantID&gt;=plant_instances.size() ){</div>
-<div class="line"><a id="l02266" name="l02266"></a><span class="lineno"> 2266</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::sumPlantLeafArea): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02267" name="l02267"></a><span class="lineno"> 2267</span>    }</div>
-<div class="line"><a id="l02268" name="l02268"></a><span class="lineno"> 2268</span> </div>
-<div class="line"><a id="l02269" name="l02269"></a><span class="lineno"> 2269</span>    std::vector&lt;uint&gt; leaf_objIDs = <a class="code hl_function" href="class_plant_architecture.html#afcdea7f14c6ca722d39d94ff19ba87b4">getPlantLeafObjectIDs</a>(plantID);</div>
-<div class="line"><a id="l02270" name="l02270"></a><span class="lineno"> 2270</span> </div>
-<div class="line"><a id="l02271" name="l02271"></a><span class="lineno"> 2271</span>    <span class="keywordtype">float</span> area = 0;</div>
-<div class="line"><a id="l02272" name="l02272"></a><span class="lineno"> 2272</span>    <span class="keywordflow">for</span>( uint objID : leaf_objIDs ){</div>
-<div class="line"><a id="l02273" name="l02273"></a><span class="lineno"> 2273</span>        area += context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aac46a608ec7719e4702cd861667925f1">getObjectArea</a>(objID);</div>
-<div class="line"><a id="l02274" name="l02274"></a><span class="lineno"> 2274</span>    }</div>
-<div class="line"><a id="l02275" name="l02275"></a><span class="lineno"> 2275</span> </div>
-<div class="line"><a id="l02276" name="l02276"></a><span class="lineno"> 2276</span>   <span class="keywordflow">return</span> area;</div>
-<div class="line"><a id="l02277" name="l02277"></a><span class="lineno"> 2277</span>}</div>
+<div class="line"><a id="l02175" name="l02175"></a><span class="lineno"> 2175</span><span class="comment">//</span></div>
+<div class="line"><a id="l02176" name="l02176"></a><span class="lineno"> 2176</span><span class="comment">//    if( update_context_geometry ){</span></div>
+<div class="line"><a id="l02177" name="l02177"></a><span class="lineno"> 2177</span><span class="comment">//        context_ptr-&gt;setTubeRadii(shoot-&gt;internode_tube_objID, flatten(shoot-&gt;shoot_internode_radii) );</span></div>
+<div class="line"><a id="l02178" name="l02178"></a><span class="lineno"> 2178</span><span class="comment">//    }</span></div>
+<div class="line"><a id="l02179" name="l02179"></a><span class="lineno"> 2179</span><span class="comment">//</span></div>
+<div class="line"><a id="l02180" name="l02180"></a><span class="lineno"> 2180</span><span class="comment">//}</span></div>
+<div class="line"><a id="l02181" name="l02181"></a><span class="lineno"> 2181</span> </div>
+<div class="line"><a id="l02182" name="l02182"></a><span class="lineno"> 2182</span><span class="keywordtype">void</span> PlantArchitecture::incrementPhytomerInternodeGirth(uint plantID, uint shootID, uint node_number, <span class="keywordtype">bool</span> update_context_geometry) {</div>
+<div class="line"><a id="l02183" name="l02183"></a><span class="lineno"> 2183</span> </div>
+<div class="line"><a id="l02184" name="l02184"></a><span class="lineno"> 2184</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02185" name="l02185"></a><span class="lineno"> 2185</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::incrementPhytomerInternodeGirth): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02186" name="l02186"></a><span class="lineno"> 2186</span>    }</div>
+<div class="line"><a id="l02187" name="l02187"></a><span class="lineno"> 2187</span> </div>
+<div class="line"><a id="l02188" name="l02188"></a><span class="lineno"> 2188</span>    <span class="keyword">auto</span> shoot = plant_instances.at(plantID).shoot_tree.at(shootID);</div>
+<div class="line"><a id="l02189" name="l02189"></a><span class="lineno"> 2189</span> </div>
+<div class="line"><a id="l02190" name="l02190"></a><span class="lineno"> 2190</span>    <span class="keywordflow">if</span>( shootID&gt;=plant_instances.at(plantID).shoot_tree.size() ){</div>
+<div class="line"><a id="l02191" name="l02191"></a><span class="lineno"> 2191</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::incrementPhytomerInternodeGirth): Shoot with ID of &quot;</span> + std::to_string(shootID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02192" name="l02192"></a><span class="lineno"> 2192</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( node_number&gt;=shoot-&gt;current_node_number ){</div>
+<div class="line"><a id="l02193" name="l02193"></a><span class="lineno"> 2193</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::incrementPhytomerInternodeGirth): Cannot scale internode &quot;</span> + std::to_string(node_number) + <span class="stringliteral">&quot; because there are only &quot;</span> + std::to_string(shoot-&gt;current_node_number) + <span class="stringliteral">&quot; nodes in this shoot.&quot;</span>);</div>
+<div class="line"><a id="l02194" name="l02194"></a><span class="lineno"> 2194</span>    }</div>
+<div class="line"><a id="l02195" name="l02195"></a><span class="lineno"> 2195</span> </div>
+<div class="line"><a id="l02196" name="l02196"></a><span class="lineno"> 2196</span>    <span class="keyword">auto</span> phytomer = shoot-&gt;phytomers.at(node_number);</div>
+<div class="line"><a id="l02197" name="l02197"></a><span class="lineno"> 2197</span> </div>
+<div class="line"><a id="l02198" name="l02198"></a><span class="lineno"> 2198</span>    <span class="keywordtype">float</span> leaf_area = phytomer-&gt;calculateDownstreamLeafArea();</div>
+<div class="line"><a id="l02199" name="l02199"></a><span class="lineno"> 2199</span> </div>
+<div class="line"><a id="l02200" name="l02200"></a><span class="lineno"> 2200</span>    <span class="keywordtype">float</span> internode_area = phytomer-&gt;parent_shoot_ptr-&gt;shoot_parameters.girth_area_factor.val()*leaf_area*1e-4;</div>
+<div class="line"><a id="l02201" name="l02201"></a><span class="lineno"> 2201</span>    phytomer-&gt;parent_shoot_ptr-&gt;shoot_parameters.girth_area_factor.resample();</div>
+<div class="line"><a id="l02202" name="l02202"></a><span class="lineno"> 2202</span> </div>
+<div class="line"><a id="l02203" name="l02203"></a><span class="lineno"> 2203</span>    <span class="keywordtype">float</span> phytomer_radius = sqrtf(internode_area / M_PI);</div>
+<div class="line"><a id="l02204" name="l02204"></a><span class="lineno"> 2204</span> </div>
+<div class="line"><a id="l02205" name="l02205"></a><span class="lineno"> 2205</span>    <span class="keyword">auto</span> &amp;segment = shoot-&gt;shoot_internode_radii.at(node_number);</div>
+<div class="line"><a id="l02206" name="l02206"></a><span class="lineno"> 2206</span>    <span class="keywordflow">for</span>( <span class="keywordtype">float</span> &amp;radius : segment  ) {</div>
+<div class="line"><a id="l02207" name="l02207"></a><span class="lineno"> 2207</span>        <span class="keywordflow">if</span>( phytomer_radius &gt; radius ) { <span class="comment">//radius should only increase</span></div>
+<div class="line"><a id="l02208" name="l02208"></a><span class="lineno"> 2208</span>            radius = phytomer_radius;</div>
+<div class="line"><a id="l02209" name="l02209"></a><span class="lineno"> 2209</span>        }</div>
+<div class="line"><a id="l02210" name="l02210"></a><span class="lineno"> 2210</span>    }</div>
+<div class="line"><a id="l02211" name="l02211"></a><span class="lineno"> 2211</span> </div>
+<div class="line"><a id="l02212" name="l02212"></a><span class="lineno"> 2212</span>    <span class="keywordflow">if</span>( update_context_geometry ){</div>
+<div class="line"><a id="l02213" name="l02213"></a><span class="lineno"> 2213</span>        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#afbbb8692fb22c4c7475738556af0ec6a">setTubeRadii</a>(shoot-&gt;internode_tube_objID, <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(shoot-&gt;shoot_internode_radii) );</div>
+<div class="line"><a id="l02214" name="l02214"></a><span class="lineno"> 2214</span>    }</div>
+<div class="line"><a id="l02215" name="l02215"></a><span class="lineno"> 2215</span> </div>
+<div class="line"><a id="l02216" name="l02216"></a><span class="lineno"> 2216</span>}</div>
+<div class="line"><a id="l02217" name="l02217"></a><span class="lineno"> 2217</span> </div>
+<div class="line"><a id="l02218" name="l02218"></a><span class="lineno"> 2218</span><span class="keywordtype">void</span> PlantArchitecture::setPhytomerLeafScale(uint plantID, uint shootID, uint node_number, <span class="keywordtype">float</span> leaf_scale_factor_fraction) {</div>
+<div class="line"><a id="l02219" name="l02219"></a><span class="lineno"> 2219</span> </div>
+<div class="line"><a id="l02220" name="l02220"></a><span class="lineno"> 2220</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02221" name="l02221"></a><span class="lineno"> 2221</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPhytomerLeafScale): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02222" name="l02222"></a><span class="lineno"> 2222</span>    }</div>
+<div class="line"><a id="l02223" name="l02223"></a><span class="lineno"> 2223</span> </div>
+<div class="line"><a id="l02224" name="l02224"></a><span class="lineno"> 2224</span>    <span class="keyword">auto</span> parent_shoot = plant_instances.at(plantID).shoot_tree.at(shootID);</div>
+<div class="line"><a id="l02225" name="l02225"></a><span class="lineno"> 2225</span> </div>
+<div class="line"><a id="l02226" name="l02226"></a><span class="lineno"> 2226</span>    <span class="keywordflow">if</span>( shootID&gt;=plant_instances.at(plantID).shoot_tree.size() ){</div>
+<div class="line"><a id="l02227" name="l02227"></a><span class="lineno"> 2227</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPhytomerLeafScale): Shoot with ID of &quot;</span> + std::to_string(shootID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02228" name="l02228"></a><span class="lineno"> 2228</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( node_number&gt;=parent_shoot-&gt;current_node_number ){</div>
+<div class="line"><a id="l02229" name="l02229"></a><span class="lineno"> 2229</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPhytomerLeafScale): Cannot scale leaf &quot;</span> + std::to_string(node_number) + <span class="stringliteral">&quot; because there are only &quot;</span> + std::to_string(parent_shoot-&gt;current_node_number) + <span class="stringliteral">&quot; nodes in this shoot.&quot;</span>);</div>
+<div class="line"><a id="l02230" name="l02230"></a><span class="lineno"> 2230</span>    }</div>
+<div class="line"><a id="l02231" name="l02231"></a><span class="lineno"> 2231</span>    <span class="keywordflow">if</span>(leaf_scale_factor_fraction &lt; 0 || leaf_scale_factor_fraction &gt; 1 ){</div>
+<div class="line"><a id="l02232" name="l02232"></a><span class="lineno"> 2232</span>        std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (PlantArchitecture::setPhytomerLeafScale): Leaf scaling factor was outside the range of 0 to 1. No scaling was applied.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02233" name="l02233"></a><span class="lineno"> 2233</span>        <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l02234" name="l02234"></a><span class="lineno"> 2234</span>    }</div>
+<div class="line"><a id="l02235" name="l02235"></a><span class="lineno"> 2235</span> </div>
+<div class="line"><a id="l02236" name="l02236"></a><span class="lineno"> 2236</span>    parent_shoot-&gt;phytomers.at(node_number)-&gt;setLeafScaleFraction(leaf_scale_factor_fraction);</div>
+<div class="line"><a id="l02237" name="l02237"></a><span class="lineno"> 2237</span> </div>
+<div class="line"><a id="l02238" name="l02238"></a><span class="lineno"> 2238</span>}</div>
+<div class="line"><a id="l02239" name="l02239"></a><span class="lineno"> 2239</span> </div>
+<div class="line"><a id="l02240" name="l02240"></a><span class="lineno"> 2240</span><span class="keywordtype">void</span> PlantArchitecture::setPlantBasePosition(uint plantID, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
+<div class="line"><a id="l02241" name="l02241"></a><span class="lineno"> 2241</span> </div>
+<div class="line"><a id="l02242" name="l02242"></a><span class="lineno"> 2242</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02243" name="l02243"></a><span class="lineno"> 2243</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPlantBasePosition): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02244" name="l02244"></a><span class="lineno"> 2244</span>    }</div>
+<div class="line"><a id="l02245" name="l02245"></a><span class="lineno"> 2245</span> </div>
+<div class="line"><a id="l02246" name="l02246"></a><span class="lineno"> 2246</span>    plant_instances.at(plantID).base_position = base_position;</div>
+<div class="line"><a id="l02247" name="l02247"></a><span class="lineno"> 2247</span> </div>
+<div class="line"><a id="l02248" name="l02248"></a><span class="lineno"> 2248</span>    <span class="comment">//\todo Does not work after shoots have been added to the plant.</span></div>
+<div class="line"><a id="l02249" name="l02249"></a><span class="lineno"> 2249</span>    <span class="keywordflow">if</span>( !plant_instances.at(plantID).shoot_tree.empty() ){</div>
+<div class="line"><a id="l02250" name="l02250"></a><span class="lineno"> 2250</span>        std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (PlantArchitecture::setPlantBasePosition): This function does not work after shoots have been added to the plant.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02251" name="l02251"></a><span class="lineno"> 2251</span>    }</div>
+<div class="line"><a id="l02252" name="l02252"></a><span class="lineno"> 2252</span> </div>
+<div class="line"><a id="l02253" name="l02253"></a><span class="lineno"> 2253</span>}</div>
+<div class="line"><a id="l02254" name="l02254"></a><span class="lineno"> 2254</span> </div>
+<div class="line"><a id="l02255" name="l02255"></a><span class="lineno"> 2255</span><a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> PlantArchitecture::getPlantBasePosition(uint plantID)<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02256" name="l02256"></a><span class="lineno"> 2256</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02257" name="l02257"></a><span class="lineno"> 2257</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPlantBasePosition): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02258" name="l02258"></a><span class="lineno"> 2258</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( plant_instances.at(plantID).shoot_tree.empty() ){</div>
+<div class="line"><a id="l02259" name="l02259"></a><span class="lineno"> 2259</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPlantBasePosition): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; has no shoots, so could not get a base position.&quot;</span>);</div>
+<div class="line"><a id="l02260" name="l02260"></a><span class="lineno"> 2260</span>    }</div>
+<div class="line"><a id="l02261" name="l02261"></a><span class="lineno"> 2261</span>    <span class="keywordflow">return</span> plant_instances.at(plantID).base_position;</div>
+<div class="line"><a id="l02262" name="l02262"></a><span class="lineno"> 2262</span>}</div>
+<div class="line"><a id="l02263" name="l02263"></a><span class="lineno"> 2263</span> </div>
+<div class="foldopen" id="foldopen02264" data-start="{" data-end="}">
+<div class="line"><a id="l02264" name="l02264"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#ae8be24e5a963c49e7ab9ce5641fddec6"> 2264</a></span><span class="keywordtype">float</span> <a class="code hl_function" href="class_plant_architecture.html#ae8be24e5a963c49e7ab9ce5641fddec6">PlantArchitecture::sumPlantLeafArea</a>(uint plantID)<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02265" name="l02265"></a><span class="lineno"> 2265</span> </div>
+<div class="line"><a id="l02266" name="l02266"></a><span class="lineno"> 2266</span>    <span class="keywordflow">if</span>( plantID&gt;=plant_instances.size() ){</div>
+<div class="line"><a id="l02267" name="l02267"></a><span class="lineno"> 2267</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::sumPlantLeafArea): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02268" name="l02268"></a><span class="lineno"> 2268</span>    }</div>
+<div class="line"><a id="l02269" name="l02269"></a><span class="lineno"> 2269</span> </div>
+<div class="line"><a id="l02270" name="l02270"></a><span class="lineno"> 2270</span>    std::vector&lt;uint&gt; leaf_objIDs = <a class="code hl_function" href="class_plant_architecture.html#afcdea7f14c6ca722d39d94ff19ba87b4">getPlantLeafObjectIDs</a>(plantID);</div>
+<div class="line"><a id="l02271" name="l02271"></a><span class="lineno"> 2271</span> </div>
+<div class="line"><a id="l02272" name="l02272"></a><span class="lineno"> 2272</span>    <span class="keywordtype">float</span> area = 0;</div>
+<div class="line"><a id="l02273" name="l02273"></a><span class="lineno"> 2273</span>    <span class="keywordflow">for</span>( uint objID : leaf_objIDs ){</div>
+<div class="line"><a id="l02274" name="l02274"></a><span class="lineno"> 2274</span>        area += context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aac46a608ec7719e4702cd861667925f1">getObjectArea</a>(objID);</div>
+<div class="line"><a id="l02275" name="l02275"></a><span class="lineno"> 2275</span>    }</div>
+<div class="line"><a id="l02276" name="l02276"></a><span class="lineno"> 2276</span> </div>
+<div class="line"><a id="l02277" name="l02277"></a><span class="lineno"> 2277</span>   <span class="keywordflow">return</span> area;</div>
+<div class="line"><a id="l02278" name="l02278"></a><span class="lineno"> 2278</span>}</div>
 </div>
-<div class="line"><a id="l02278" name="l02278"></a><span class="lineno"> 2278</span> </div>
-<div class="line"><a id="l02279" name="l02279"></a><span class="lineno"> 2279</span><span class="keywordtype">void</span> PlantArchitecture::setPlantAge(uint plantID, <span class="keywordtype">float</span> a_current_age) {</div>
-<div class="line"><a id="l02280" name="l02280"></a><span class="lineno"> 2280</span>    <span class="comment">//\todo</span></div>
-<div class="line"><a id="l02281" name="l02281"></a><span class="lineno"> 2281</span><span class="comment">//    this-&gt;current_age = current_age;</span></div>
-<div class="line"><a id="l02282" name="l02282"></a><span class="lineno"> 2282</span>}</div>
-<div class="line"><a id="l02283" name="l02283"></a><span class="lineno"> 2283</span> </div>
-<div class="line"><a id="l02284" name="l02284"></a><span class="lineno"> 2284</span><span class="keywordtype">float</span> PlantArchitecture::getPlantAge(uint plantID)<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l02285" name="l02285"></a><span class="lineno"> 2285</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02286" name="l02286"></a><span class="lineno"> 2286</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPlantAge): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02287" name="l02287"></a><span class="lineno"> 2287</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( plant_instances.at(plantID).shoot_tree.empty() ){</div>
-<div class="line"><a id="l02288" name="l02288"></a><span class="lineno"> 2288</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPlantAge): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; has no shoots, so could not get a base position.&quot;</span>);</div>
-<div class="line"><a id="l02289" name="l02289"></a><span class="lineno"> 2289</span>    }</div>
-<div class="line"><a id="l02290" name="l02290"></a><span class="lineno"> 2290</span>    <span class="keywordflow">return</span> plant_instances.at(plantID).current_age;</div>
-<div class="line"><a id="l02291" name="l02291"></a><span class="lineno"> 2291</span>}</div>
-<div class="line"><a id="l02292" name="l02292"></a><span class="lineno"> 2292</span> </div>
-<div class="line"><a id="l02293" name="l02293"></a><span class="lineno"> 2293</span><span class="keywordtype">void</span> PlantArchitecture::harvestPlant(uint plantID){</div>
-<div class="line"><a id="l02294" name="l02294"></a><span class="lineno"> 2294</span> </div>
-<div class="line"><a id="l02295" name="l02295"></a><span class="lineno"> 2295</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02296" name="l02296"></a><span class="lineno"> 2296</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::harvestPlant): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02297" name="l02297"></a><span class="lineno"> 2297</span>    }</div>
-<div class="line"><a id="l02298" name="l02298"></a><span class="lineno"> 2298</span> </div>
-<div class="line"><a id="l02299" name="l02299"></a><span class="lineno"> 2299</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; shoot: plant_instances.at(plantID).shoot_tree ){</div>
-<div class="line"><a id="l02300" name="l02300"></a><span class="lineno"> 2300</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; phytomer: shoot-&gt;phytomers ){</div>
-<div class="line"><a id="l02301" name="l02301"></a><span class="lineno"> 2301</span> </div>
-<div class="line"><a id="l02302" name="l02302"></a><span class="lineno"> 2302</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; petiole : phytomer-&gt;floral_buds ) {</div>
-<div class="line"><a id="l02303" name="l02303"></a><span class="lineno"> 2303</span>                <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;fbud: petiole) {</div>
-<div class="line"><a id="l02304" name="l02304"></a><span class="lineno"> 2304</span>                    <span class="keywordflow">if</span> (fbud.state != BUD_DORMANT) {</div>
-<div class="line"><a id="l02305" name="l02305"></a><span class="lineno"> 2305</span>                        phytomer-&gt;setFloralBudState(BUD_DEAD, fbud);</div>
-<div class="line"><a id="l02306" name="l02306"></a><span class="lineno"> 2306</span>                    }</div>
-<div class="line"><a id="l02307" name="l02307"></a><span class="lineno"> 2307</span>                }</div>
-<div class="line"><a id="l02308" name="l02308"></a><span class="lineno"> 2308</span>            }</div>
-<div class="line"><a id="l02309" name="l02309"></a><span class="lineno"> 2309</span> </div>
-<div class="line"><a id="l02310" name="l02310"></a><span class="lineno"> 2310</span>        }</div>
-<div class="line"><a id="l02311" name="l02311"></a><span class="lineno"> 2311</span>    }</div>
-<div class="line"><a id="l02312" name="l02312"></a><span class="lineno"> 2312</span> </div>
-<div class="line"><a id="l02313" name="l02313"></a><span class="lineno"> 2313</span>}</div>
-<div class="line"><a id="l02314" name="l02314"></a><span class="lineno"> 2314</span> </div>
-<div class="line"><a id="l02315" name="l02315"></a><span class="lineno"> 2315</span><span class="keywordtype">void</span> PlantArchitecture::removeShootLeaves(uint plantID, uint shootID){</div>
-<div class="line"><a id="l02316" name="l02316"></a><span class="lineno"> 2316</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02317" name="l02317"></a><span class="lineno"> 2317</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::removePlantLeaves): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02318" name="l02318"></a><span class="lineno"> 2318</span>    }</div>
-<div class="line"><a id="l02319" name="l02319"></a><span class="lineno"> 2319</span> </div>
-<div class="line"><a id="l02320" name="l02320"></a><span class="lineno"> 2320</span>    <span class="keywordflow">if</span>( shootID&gt;=plant_instances.at(plantID).shoot_tree.size() ){</div>
-<div class="line"><a id="l02321" name="l02321"></a><span class="lineno"> 2321</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::removeShootLeaves): Shoot with ID of &quot;</span> + std::to_string(shootID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02322" name="l02322"></a><span class="lineno"> 2322</span>    }</div>
-<div class="line"><a id="l02323" name="l02323"></a><span class="lineno"> 2323</span> </div>
-<div class="line"><a id="l02324" name="l02324"></a><span class="lineno"> 2324</span>    <span class="keyword">auto</span>&amp; shoot = plant_instances.at(plantID).shoot_tree.at(shootID);</div>
-<div class="line"><a id="l02325" name="l02325"></a><span class="lineno"> 2325</span> </div>
-<div class="line"><a id="l02326" name="l02326"></a><span class="lineno"> 2326</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; phytomer: shoot-&gt;phytomers ){</div>
-<div class="line"><a id="l02327" name="l02327"></a><span class="lineno"> 2327</span>        phytomer-&gt;removeLeaf();</div>
-<div class="line"><a id="l02328" name="l02328"></a><span class="lineno"> 2328</span>    }</div>
-<div class="line"><a id="l02329" name="l02329"></a><span class="lineno"> 2329</span> </div>
-<div class="line"><a id="l02330" name="l02330"></a><span class="lineno"> 2330</span>}</div>
-<div class="line"><a id="l02331" name="l02331"></a><span class="lineno"> 2331</span> </div>
-<div class="line"><a id="l02332" name="l02332"></a><span class="lineno"> 2332</span><span class="keywordtype">void</span> PlantArchitecture::removePlantLeaves(uint plantID ){</div>
-<div class="line"><a id="l02333" name="l02333"></a><span class="lineno"> 2333</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02334" name="l02334"></a><span class="lineno"> 2334</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::removePlantLeaves): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02335" name="l02335"></a><span class="lineno"> 2335</span>    }</div>
-<div class="line"><a id="l02336" name="l02336"></a><span class="lineno"> 2336</span> </div>
-<div class="line"><a id="l02337" name="l02337"></a><span class="lineno"> 2337</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; shoot: plant_instances.at(plantID).shoot_tree ){</div>
-<div class="line"><a id="l02338" name="l02338"></a><span class="lineno"> 2338</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; phytomer: shoot-&gt;phytomers ){</div>
-<div class="line"><a id="l02339" name="l02339"></a><span class="lineno"> 2339</span>            phytomer-&gt;removeLeaf();</div>
-<div class="line"><a id="l02340" name="l02340"></a><span class="lineno"> 2340</span>        }</div>
-<div class="line"><a id="l02341" name="l02341"></a><span class="lineno"> 2341</span>    }</div>
-<div class="line"><a id="l02342" name="l02342"></a><span class="lineno"> 2342</span>}</div>
-<div class="line"><a id="l02343" name="l02343"></a><span class="lineno"> 2343</span> </div>
-<div class="line"><a id="l02344" name="l02344"></a><span class="lineno"> 2344</span><span class="keywordtype">void</span> PlantArchitecture::makePlantDormant( uint plantID ){</div>
-<div class="line"><a id="l02345" name="l02345"></a><span class="lineno"> 2345</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02346" name="l02346"></a><span class="lineno"> 2346</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::makePlantDormant): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02347" name="l02347"></a><span class="lineno"> 2347</span>    }</div>
-<div class="line"><a id="l02348" name="l02348"></a><span class="lineno"> 2348</span> </div>
-<div class="line"><a id="l02349" name="l02349"></a><span class="lineno"> 2349</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; shoot: plant_instances.at(plantID).shoot_tree ){</div>
-<div class="line"><a id="l02350" name="l02350"></a><span class="lineno"> 2350</span>        shoot-&gt;makeDormant();</div>
-<div class="line"><a id="l02351" name="l02351"></a><span class="lineno"> 2351</span>    }</div>
-<div class="line"><a id="l02352" name="l02352"></a><span class="lineno"> 2352</span>}</div>
-<div class="line"><a id="l02353" name="l02353"></a><span class="lineno"> 2353</span> </div>
-<div class="line"><a id="l02354" name="l02354"></a><span class="lineno"> 2354</span><span class="keywordtype">void</span> PlantArchitecture::breakPlantDormancy( uint plantID ){</div>
-<div class="line"><a id="l02355" name="l02355"></a><span class="lineno"> 2355</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02356" name="l02356"></a><span class="lineno"> 2356</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::breakPlantDormancy): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02357" name="l02357"></a><span class="lineno"> 2357</span>    }</div>
-<div class="line"><a id="l02358" name="l02358"></a><span class="lineno"> 2358</span> </div>
-<div class="line"><a id="l02359" name="l02359"></a><span class="lineno"> 2359</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; shoot: plant_instances.at(plantID).shoot_tree ){</div>
-<div class="line"><a id="l02360" name="l02360"></a><span class="lineno"> 2360</span>        shoot-&gt;breakDormancy();</div>
-<div class="line"><a id="l02361" name="l02361"></a><span class="lineno"> 2361</span>    }</div>
-<div class="line"><a id="l02362" name="l02362"></a><span class="lineno"> 2362</span>}</div>
-<div class="line"><a id="l02363" name="l02363"></a><span class="lineno"> 2363</span> </div>
+<div class="line"><a id="l02279" name="l02279"></a><span class="lineno"> 2279</span> </div>
+<div class="line"><a id="l02280" name="l02280"></a><span class="lineno"> 2280</span><span class="keywordtype">void</span> PlantArchitecture::setPlantAge(uint plantID, <span class="keywordtype">float</span> a_current_age) {</div>
+<div class="line"><a id="l02281" name="l02281"></a><span class="lineno"> 2281</span>    <span class="comment">//\todo</span></div>
+<div class="line"><a id="l02282" name="l02282"></a><span class="lineno"> 2282</span><span class="comment">//    this-&gt;current_age = current_age;</span></div>
+<div class="line"><a id="l02283" name="l02283"></a><span class="lineno"> 2283</span>}</div>
+<div class="line"><a id="l02284" name="l02284"></a><span class="lineno"> 2284</span> </div>
+<div class="line"><a id="l02285" name="l02285"></a><span class="lineno"> 2285</span><span class="keywordtype">float</span> PlantArchitecture::getPlantAge(uint plantID)<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02286" name="l02286"></a><span class="lineno"> 2286</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02287" name="l02287"></a><span class="lineno"> 2287</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPlantAge): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02288" name="l02288"></a><span class="lineno"> 2288</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( plant_instances.at(plantID).shoot_tree.empty() ){</div>
+<div class="line"><a id="l02289" name="l02289"></a><span class="lineno"> 2289</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPlantAge): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; has no shoots, so could not get a base position.&quot;</span>);</div>
+<div class="line"><a id="l02290" name="l02290"></a><span class="lineno"> 2290</span>    }</div>
+<div class="line"><a id="l02291" name="l02291"></a><span class="lineno"> 2291</span>    <span class="keywordflow">return</span> plant_instances.at(plantID).current_age;</div>
+<div class="line"><a id="l02292" name="l02292"></a><span class="lineno"> 2292</span>}</div>
+<div class="line"><a id="l02293" name="l02293"></a><span class="lineno"> 2293</span> </div>
+<div class="line"><a id="l02294" name="l02294"></a><span class="lineno"> 2294</span><span class="keywordtype">void</span> PlantArchitecture::harvestPlant(uint plantID){</div>
+<div class="line"><a id="l02295" name="l02295"></a><span class="lineno"> 2295</span> </div>
+<div class="line"><a id="l02296" name="l02296"></a><span class="lineno"> 2296</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02297" name="l02297"></a><span class="lineno"> 2297</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::harvestPlant): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02298" name="l02298"></a><span class="lineno"> 2298</span>    }</div>
+<div class="line"><a id="l02299" name="l02299"></a><span class="lineno"> 2299</span> </div>
+<div class="line"><a id="l02300" name="l02300"></a><span class="lineno"> 2300</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; shoot: plant_instances.at(plantID).shoot_tree ){</div>
+<div class="line"><a id="l02301" name="l02301"></a><span class="lineno"> 2301</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; phytomer: shoot-&gt;phytomers ){</div>
+<div class="line"><a id="l02302" name="l02302"></a><span class="lineno"> 2302</span> </div>
+<div class="line"><a id="l02303" name="l02303"></a><span class="lineno"> 2303</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; petiole : phytomer-&gt;floral_buds ) {</div>
+<div class="line"><a id="l02304" name="l02304"></a><span class="lineno"> 2304</span>                <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;fbud: petiole) {</div>
+<div class="line"><a id="l02305" name="l02305"></a><span class="lineno"> 2305</span>                    <span class="keywordflow">if</span> (fbud.state != BUD_DORMANT) {</div>
+<div class="line"><a id="l02306" name="l02306"></a><span class="lineno"> 2306</span>                        phytomer-&gt;setFloralBudState(BUD_DEAD, fbud);</div>
+<div class="line"><a id="l02307" name="l02307"></a><span class="lineno"> 2307</span>                    }</div>
+<div class="line"><a id="l02308" name="l02308"></a><span class="lineno"> 2308</span>                }</div>
+<div class="line"><a id="l02309" name="l02309"></a><span class="lineno"> 2309</span>            }</div>
+<div class="line"><a id="l02310" name="l02310"></a><span class="lineno"> 2310</span> </div>
+<div class="line"><a id="l02311" name="l02311"></a><span class="lineno"> 2311</span>        }</div>
+<div class="line"><a id="l02312" name="l02312"></a><span class="lineno"> 2312</span>    }</div>
+<div class="line"><a id="l02313" name="l02313"></a><span class="lineno"> 2313</span> </div>
+<div class="line"><a id="l02314" name="l02314"></a><span class="lineno"> 2314</span>}</div>
+<div class="line"><a id="l02315" name="l02315"></a><span class="lineno"> 2315</span> </div>
+<div class="line"><a id="l02316" name="l02316"></a><span class="lineno"> 2316</span><span class="keywordtype">void</span> PlantArchitecture::removeShootLeaves(uint plantID, uint shootID){</div>
+<div class="line"><a id="l02317" name="l02317"></a><span class="lineno"> 2317</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02318" name="l02318"></a><span class="lineno"> 2318</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::removePlantLeaves): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02319" name="l02319"></a><span class="lineno"> 2319</span>    }</div>
+<div class="line"><a id="l02320" name="l02320"></a><span class="lineno"> 2320</span> </div>
+<div class="line"><a id="l02321" name="l02321"></a><span class="lineno"> 2321</span>    <span class="keywordflow">if</span>( shootID&gt;=plant_instances.at(plantID).shoot_tree.size() ){</div>
+<div class="line"><a id="l02322" name="l02322"></a><span class="lineno"> 2322</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::removeShootLeaves): Shoot with ID of &quot;</span> + std::to_string(shootID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02323" name="l02323"></a><span class="lineno"> 2323</span>    }</div>
+<div class="line"><a id="l02324" name="l02324"></a><span class="lineno"> 2324</span> </div>
+<div class="line"><a id="l02325" name="l02325"></a><span class="lineno"> 2325</span>    <span class="keyword">auto</span>&amp; shoot = plant_instances.at(plantID).shoot_tree.at(shootID);</div>
+<div class="line"><a id="l02326" name="l02326"></a><span class="lineno"> 2326</span> </div>
+<div class="line"><a id="l02327" name="l02327"></a><span class="lineno"> 2327</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; phytomer: shoot-&gt;phytomers ){</div>
+<div class="line"><a id="l02328" name="l02328"></a><span class="lineno"> 2328</span>        phytomer-&gt;removeLeaf();</div>
+<div class="line"><a id="l02329" name="l02329"></a><span class="lineno"> 2329</span>    }</div>
+<div class="line"><a id="l02330" name="l02330"></a><span class="lineno"> 2330</span> </div>
+<div class="line"><a id="l02331" name="l02331"></a><span class="lineno"> 2331</span>}</div>
+<div class="line"><a id="l02332" name="l02332"></a><span class="lineno"> 2332</span> </div>
+<div class="line"><a id="l02333" name="l02333"></a><span class="lineno"> 2333</span><span class="keywordtype">void</span> PlantArchitecture::removePlantLeaves(uint plantID ){</div>
+<div class="line"><a id="l02334" name="l02334"></a><span class="lineno"> 2334</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02335" name="l02335"></a><span class="lineno"> 2335</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::removePlantLeaves): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02336" name="l02336"></a><span class="lineno"> 2336</span>    }</div>
+<div class="line"><a id="l02337" name="l02337"></a><span class="lineno"> 2337</span> </div>
+<div class="line"><a id="l02338" name="l02338"></a><span class="lineno"> 2338</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; shoot: plant_instances.at(plantID).shoot_tree ){</div>
+<div class="line"><a id="l02339" name="l02339"></a><span class="lineno"> 2339</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; phytomer: shoot-&gt;phytomers ){</div>
+<div class="line"><a id="l02340" name="l02340"></a><span class="lineno"> 2340</span>            phytomer-&gt;removeLeaf();</div>
+<div class="line"><a id="l02341" name="l02341"></a><span class="lineno"> 2341</span>        }</div>
+<div class="line"><a id="l02342" name="l02342"></a><span class="lineno"> 2342</span>    }</div>
+<div class="line"><a id="l02343" name="l02343"></a><span class="lineno"> 2343</span>}</div>
+<div class="line"><a id="l02344" name="l02344"></a><span class="lineno"> 2344</span> </div>
+<div class="line"><a id="l02345" name="l02345"></a><span class="lineno"> 2345</span><span class="keywordtype">void</span> PlantArchitecture::makePlantDormant( uint plantID ){</div>
+<div class="line"><a id="l02346" name="l02346"></a><span class="lineno"> 2346</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02347" name="l02347"></a><span class="lineno"> 2347</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::makePlantDormant): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02348" name="l02348"></a><span class="lineno"> 2348</span>    }</div>
+<div class="line"><a id="l02349" name="l02349"></a><span class="lineno"> 2349</span> </div>
+<div class="line"><a id="l02350" name="l02350"></a><span class="lineno"> 2350</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; shoot: plant_instances.at(plantID).shoot_tree ){</div>
+<div class="line"><a id="l02351" name="l02351"></a><span class="lineno"> 2351</span>        shoot-&gt;makeDormant();</div>
+<div class="line"><a id="l02352" name="l02352"></a><span class="lineno"> 2352</span>    }</div>
+<div class="line"><a id="l02353" name="l02353"></a><span class="lineno"> 2353</span>}</div>
+<div class="line"><a id="l02354" name="l02354"></a><span class="lineno"> 2354</span> </div>
+<div class="line"><a id="l02355" name="l02355"></a><span class="lineno"> 2355</span><span class="keywordtype">void</span> PlantArchitecture::breakPlantDormancy( uint plantID ){</div>
+<div class="line"><a id="l02356" name="l02356"></a><span class="lineno"> 2356</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02357" name="l02357"></a><span class="lineno"> 2357</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::breakPlantDormancy): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02358" name="l02358"></a><span class="lineno"> 2358</span>    }</div>
+<div class="line"><a id="l02359" name="l02359"></a><span class="lineno"> 2359</span> </div>
+<div class="line"><a id="l02360" name="l02360"></a><span class="lineno"> 2360</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span>&amp; shoot: plant_instances.at(plantID).shoot_tree ){</div>
+<div class="line"><a id="l02361" name="l02361"></a><span class="lineno"> 2361</span>        shoot-&gt;breakDormancy();</div>
+<div class="line"><a id="l02362" name="l02362"></a><span class="lineno"> 2362</span>    }</div>
+<div class="line"><a id="l02363" name="l02363"></a><span class="lineno"> 2363</span>}</div>
 <div class="line"><a id="l02364" name="l02364"></a><span class="lineno"> 2364</span> </div>
-<div class="line"><a id="l02365" name="l02365"></a><span class="lineno"> 2365</span>uint PlantArchitecture::getShootNodeCount( uint plantID, uint shootID )<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l02366" name="l02366"></a><span class="lineno"> 2366</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02367" name="l02367"></a><span class="lineno"> 2367</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getShootNodeCount): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02368" name="l02368"></a><span class="lineno"> 2368</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( plant_instances.at(plantID).shoot_tree.size()&lt;=shootID ){</div>
-<div class="line"><a id="l02369" name="l02369"></a><span class="lineno"> 2369</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getShootNodeCount): Shoot ID is out of range.&quot;</span>);</div>
-<div class="line"><a id="l02370" name="l02370"></a><span class="lineno"> 2370</span>    }</div>
-<div class="line"><a id="l02371" name="l02371"></a><span class="lineno"> 2371</span>    <span class="keywordflow">return</span> plant_instances.at(plantID).shoot_tree.at(shootID)-&gt;current_node_number;</div>
-<div class="line"><a id="l02372" name="l02372"></a><span class="lineno"> 2372</span>}</div>
-<div class="line"><a id="l02373" name="l02373"></a><span class="lineno"> 2373</span> </div>
-<div class="line"><a id="l02374" name="l02374"></a><span class="lineno"> 2374</span><span class="keywordtype">float</span> PlantArchitecture::getShootTaper( uint plantID, uint shootID )<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l02375" name="l02375"></a><span class="lineno"> 2375</span> </div>
-<div class="line"><a id="l02376" name="l02376"></a><span class="lineno"> 2376</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02377" name="l02377"></a><span class="lineno"> 2377</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getShootTaper): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02378" name="l02378"></a><span class="lineno"> 2378</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( plant_instances.at(plantID).shoot_tree.size()&lt;=shootID ){</div>
-<div class="line"><a id="l02379" name="l02379"></a><span class="lineno"> 2379</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getShootTaper): Shoot ID is out of range.&quot;</span>);</div>
-<div class="line"><a id="l02380" name="l02380"></a><span class="lineno"> 2380</span>    }</div>
-<div class="line"><a id="l02381" name="l02381"></a><span class="lineno"> 2381</span> </div>
-<div class="line"><a id="l02382" name="l02382"></a><span class="lineno"> 2382</span>    <span class="keywordtype">float</span> r0 = plant_instances.at(plantID).shoot_tree.at(shootID)-&gt;shoot_internode_radii.front().front();</div>
-<div class="line"><a id="l02383" name="l02383"></a><span class="lineno"> 2383</span>    <span class="keywordtype">float</span> r1 = plant_instances.at(plantID).shoot_tree.at(shootID)-&gt;shoot_internode_radii.back().back();</div>
-<div class="line"><a id="l02384" name="l02384"></a><span class="lineno"> 2384</span> </div>
-<div class="line"><a id="l02385" name="l02385"></a><span class="lineno"> 2385</span>    <span class="keywordtype">float</span> taper = (r0-r1)/r0;</div>
-<div class="line"><a id="l02386" name="l02386"></a><span class="lineno"> 2386</span>    <span class="keywordflow">if</span>( taper&lt;0 ){</div>
-<div class="line"><a id="l02387" name="l02387"></a><span class="lineno"> 2387</span>        taper = 0;</div>
-<div class="line"><a id="l02388" name="l02388"></a><span class="lineno"> 2388</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( taper&gt;1 ){</div>
-<div class="line"><a id="l02389" name="l02389"></a><span class="lineno"> 2389</span>        taper = 1;</div>
-<div class="line"><a id="l02390" name="l02390"></a><span class="lineno"> 2390</span>    }</div>
-<div class="line"><a id="l02391" name="l02391"></a><span class="lineno"> 2391</span> </div>
-<div class="line"><a id="l02392" name="l02392"></a><span class="lineno"> 2392</span>    <span class="keywordflow">return</span> taper;</div>
-<div class="line"><a id="l02393" name="l02393"></a><span class="lineno"> 2393</span> </div>
-<div class="line"><a id="l02394" name="l02394"></a><span class="lineno"> 2394</span>}</div>
-<div class="line"><a id="l02395" name="l02395"></a><span class="lineno"> 2395</span> </div>
-<div class="foldopen" id="foldopen02396" data-start="{" data-end="}">
-<div class="line"><a id="l02396" name="l02396"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#acf9855048c790d30d8d4de7fa1dc3550"> 2396</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#acf9855048c790d30d8d4de7fa1dc3550">PlantArchitecture::getAllPlantObjectIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l02397" name="l02397"></a><span class="lineno"> 2397</span> </div>
-<div class="line"><a id="l02398" name="l02398"></a><span class="lineno"> 2398</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02399" name="l02399"></a><span class="lineno"> 2399</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getAllPlantObjectIDs): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02400" name="l02400"></a><span class="lineno"> 2400</span>    }</div>
-<div class="line"><a id="l02401" name="l02401"></a><span class="lineno"> 2401</span> </div>
-<div class="line"><a id="l02402" name="l02402"></a><span class="lineno"> 2402</span>    std::vector&lt;uint&gt; objIDs;</div>
-<div class="line"><a id="l02403" name="l02403"></a><span class="lineno"> 2403</span> </div>
-<div class="line"><a id="l02404" name="l02404"></a><span class="lineno"> 2404</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span>&amp; shoot: plant_instances.at(plantID).shoot_tree ){</div>
-<div class="line"><a id="l02405" name="l02405"></a><span class="lineno"> 2405</span>        objIDs.push_back(shoot-&gt;internode_tube_objID);</div>
-<div class="line"><a id="l02406" name="l02406"></a><span class="lineno"> 2406</span>        <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span>&amp; phytomer: shoot-&gt;phytomers ){</div>
-<div class="line"><a id="l02407" name="l02407"></a><span class="lineno"> 2407</span>            std::vector&lt;uint&gt; petiole_objIDs_flat = <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(phytomer-&gt;petiole_objIDs);</div>
-<div class="line"><a id="l02408" name="l02408"></a><span class="lineno"> 2408</span>            objIDs.insert(objIDs.end(), petiole_objIDs_flat.begin(), petiole_objIDs_flat.end() );</div>
-<div class="line"><a id="l02409" name="l02409"></a><span class="lineno"> 2409</span>            std::vector&lt;uint&gt; leaf_objIDs_flat = <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(phytomer-&gt;leaf_objIDs);</div>
-<div class="line"><a id="l02410" name="l02410"></a><span class="lineno"> 2410</span>            objIDs.insert(objIDs.end(), leaf_objIDs_flat.begin(), leaf_objIDs_flat.end() );</div>
-<div class="line"><a id="l02411" name="l02411"></a><span class="lineno"> 2411</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;petiole : phytomer-&gt;floral_buds ) {</div>
-<div class="line"><a id="l02412" name="l02412"></a><span class="lineno"> 2412</span>                <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;fbud : petiole ) {</div>
-<div class="line"><a id="l02413" name="l02413"></a><span class="lineno"> 2413</span>                    std::vector&lt;uint&gt; inflorescence_objIDs_flat = fbud.inflorescence_objIDs;</div>
-<div class="line"><a id="l02414" name="l02414"></a><span class="lineno"> 2414</span>                    objIDs.insert(objIDs.end(), inflorescence_objIDs_flat.begin(), inflorescence_objIDs_flat.end());</div>
-<div class="line"><a id="l02415" name="l02415"></a><span class="lineno"> 2415</span>                    std::vector&lt;uint&gt; peduncle_objIDs_flat = fbud.peduncle_objIDs;</div>
-<div class="line"><a id="l02416" name="l02416"></a><span class="lineno"> 2416</span>                    objIDs.insert(objIDs.end(), peduncle_objIDs_flat.begin(), peduncle_objIDs_flat.end());</div>
-<div class="line"><a id="l02417" name="l02417"></a><span class="lineno"> 2417</span>                }</div>
-<div class="line"><a id="l02418" name="l02418"></a><span class="lineno"> 2418</span>            }</div>
-<div class="line"><a id="l02419" name="l02419"></a><span class="lineno"> 2419</span>        }</div>
-<div class="line"><a id="l02420" name="l02420"></a><span class="lineno"> 2420</span>    }</div>
-<div class="line"><a id="l02421" name="l02421"></a><span class="lineno"> 2421</span> </div>
-<div class="line"><a id="l02422" name="l02422"></a><span class="lineno"> 2422</span>    <span class="keywordflow">return</span> objIDs;</div>
-<div class="line"><a id="l02423" name="l02423"></a><span class="lineno"> 2423</span> </div>
-<div class="line"><a id="l02424" name="l02424"></a><span class="lineno"> 2424</span>}</div>
+<div class="line"><a id="l02365" name="l02365"></a><span class="lineno"> 2365</span> </div>
+<div class="line"><a id="l02366" name="l02366"></a><span class="lineno"> 2366</span>uint PlantArchitecture::getShootNodeCount( uint plantID, uint shootID )<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02367" name="l02367"></a><span class="lineno"> 2367</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02368" name="l02368"></a><span class="lineno"> 2368</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getShootNodeCount): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02369" name="l02369"></a><span class="lineno"> 2369</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( plant_instances.at(plantID).shoot_tree.size()&lt;=shootID ){</div>
+<div class="line"><a id="l02370" name="l02370"></a><span class="lineno"> 2370</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getShootNodeCount): Shoot ID is out of range.&quot;</span>);</div>
+<div class="line"><a id="l02371" name="l02371"></a><span class="lineno"> 2371</span>    }</div>
+<div class="line"><a id="l02372" name="l02372"></a><span class="lineno"> 2372</span>    <span class="keywordflow">return</span> plant_instances.at(plantID).shoot_tree.at(shootID)-&gt;current_node_number;</div>
+<div class="line"><a id="l02373" name="l02373"></a><span class="lineno"> 2373</span>}</div>
+<div class="line"><a id="l02374" name="l02374"></a><span class="lineno"> 2374</span> </div>
+<div class="line"><a id="l02375" name="l02375"></a><span class="lineno"> 2375</span><span class="keywordtype">float</span> PlantArchitecture::getShootTaper( uint plantID, uint shootID )<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02376" name="l02376"></a><span class="lineno"> 2376</span> </div>
+<div class="line"><a id="l02377" name="l02377"></a><span class="lineno"> 2377</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02378" name="l02378"></a><span class="lineno"> 2378</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getShootTaper): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02379" name="l02379"></a><span class="lineno"> 2379</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( plant_instances.at(plantID).shoot_tree.size()&lt;=shootID ){</div>
+<div class="line"><a id="l02380" name="l02380"></a><span class="lineno"> 2380</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getShootTaper): Shoot ID is out of range.&quot;</span>);</div>
+<div class="line"><a id="l02381" name="l02381"></a><span class="lineno"> 2381</span>    }</div>
+<div class="line"><a id="l02382" name="l02382"></a><span class="lineno"> 2382</span> </div>
+<div class="line"><a id="l02383" name="l02383"></a><span class="lineno"> 2383</span>    <span class="keywordtype">float</span> r0 = plant_instances.at(plantID).shoot_tree.at(shootID)-&gt;shoot_internode_radii.front().front();</div>
+<div class="line"><a id="l02384" name="l02384"></a><span class="lineno"> 2384</span>    <span class="keywordtype">float</span> r1 = plant_instances.at(plantID).shoot_tree.at(shootID)-&gt;shoot_internode_radii.back().back();</div>
+<div class="line"><a id="l02385" name="l02385"></a><span class="lineno"> 2385</span> </div>
+<div class="line"><a id="l02386" name="l02386"></a><span class="lineno"> 2386</span>    <span class="keywordtype">float</span> taper = (r0-r1)/r0;</div>
+<div class="line"><a id="l02387" name="l02387"></a><span class="lineno"> 2387</span>    <span class="keywordflow">if</span>( taper&lt;0 ){</div>
+<div class="line"><a id="l02388" name="l02388"></a><span class="lineno"> 2388</span>        taper = 0;</div>
+<div class="line"><a id="l02389" name="l02389"></a><span class="lineno"> 2389</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( taper&gt;1 ){</div>
+<div class="line"><a id="l02390" name="l02390"></a><span class="lineno"> 2390</span>        taper = 1;</div>
+<div class="line"><a id="l02391" name="l02391"></a><span class="lineno"> 2391</span>    }</div>
+<div class="line"><a id="l02392" name="l02392"></a><span class="lineno"> 2392</span> </div>
+<div class="line"><a id="l02393" name="l02393"></a><span class="lineno"> 2393</span>    <span class="keywordflow">return</span> taper;</div>
+<div class="line"><a id="l02394" name="l02394"></a><span class="lineno"> 2394</span> </div>
+<div class="line"><a id="l02395" name="l02395"></a><span class="lineno"> 2395</span>}</div>
+<div class="line"><a id="l02396" name="l02396"></a><span class="lineno"> 2396</span> </div>
+<div class="foldopen" id="foldopen02397" data-start="{" data-end="}">
+<div class="line"><a id="l02397" name="l02397"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#acf9855048c790d30d8d4de7fa1dc3550"> 2397</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#acf9855048c790d30d8d4de7fa1dc3550">PlantArchitecture::getAllPlantObjectIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02398" name="l02398"></a><span class="lineno"> 2398</span> </div>
+<div class="line"><a id="l02399" name="l02399"></a><span class="lineno"> 2399</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02400" name="l02400"></a><span class="lineno"> 2400</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getAllPlantObjectIDs): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02401" name="l02401"></a><span class="lineno"> 2401</span>    }</div>
+<div class="line"><a id="l02402" name="l02402"></a><span class="lineno"> 2402</span> </div>
+<div class="line"><a id="l02403" name="l02403"></a><span class="lineno"> 2403</span>    std::vector&lt;uint&gt; objIDs;</div>
+<div class="line"><a id="l02404" name="l02404"></a><span class="lineno"> 2404</span> </div>
+<div class="line"><a id="l02405" name="l02405"></a><span class="lineno"> 2405</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span>&amp; shoot: plant_instances.at(plantID).shoot_tree ){</div>
+<div class="line"><a id="l02406" name="l02406"></a><span class="lineno"> 2406</span>        objIDs.push_back(shoot-&gt;internode_tube_objID);</div>
+<div class="line"><a id="l02407" name="l02407"></a><span class="lineno"> 2407</span>        <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span>&amp; phytomer: shoot-&gt;phytomers ){</div>
+<div class="line"><a id="l02408" name="l02408"></a><span class="lineno"> 2408</span>            std::vector&lt;uint&gt; petiole_objIDs_flat = <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(phytomer-&gt;petiole_objIDs);</div>
+<div class="line"><a id="l02409" name="l02409"></a><span class="lineno"> 2409</span>            objIDs.insert(objIDs.end(), petiole_objIDs_flat.begin(), petiole_objIDs_flat.end() );</div>
+<div class="line"><a id="l02410" name="l02410"></a><span class="lineno"> 2410</span>            std::vector&lt;uint&gt; leaf_objIDs_flat = <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(phytomer-&gt;leaf_objIDs);</div>
+<div class="line"><a id="l02411" name="l02411"></a><span class="lineno"> 2411</span>            objIDs.insert(objIDs.end(), leaf_objIDs_flat.begin(), leaf_objIDs_flat.end() );</div>
+<div class="line"><a id="l02412" name="l02412"></a><span class="lineno"> 2412</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;petiole : phytomer-&gt;floral_buds ) {</div>
+<div class="line"><a id="l02413" name="l02413"></a><span class="lineno"> 2413</span>                <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;fbud : petiole ) {</div>
+<div class="line"><a id="l02414" name="l02414"></a><span class="lineno"> 2414</span>                    std::vector&lt;uint&gt; inflorescence_objIDs_flat = fbud.inflorescence_objIDs;</div>
+<div class="line"><a id="l02415" name="l02415"></a><span class="lineno"> 2415</span>                    objIDs.insert(objIDs.end(), inflorescence_objIDs_flat.begin(), inflorescence_objIDs_flat.end());</div>
+<div class="line"><a id="l02416" name="l02416"></a><span class="lineno"> 2416</span>                    std::vector&lt;uint&gt; peduncle_objIDs_flat = fbud.peduncle_objIDs;</div>
+<div class="line"><a id="l02417" name="l02417"></a><span class="lineno"> 2417</span>                    objIDs.insert(objIDs.end(), peduncle_objIDs_flat.begin(), peduncle_objIDs_flat.end());</div>
+<div class="line"><a id="l02418" name="l02418"></a><span class="lineno"> 2418</span>                }</div>
+<div class="line"><a id="l02419" name="l02419"></a><span class="lineno"> 2419</span>            }</div>
+<div class="line"><a id="l02420" name="l02420"></a><span class="lineno"> 2420</span>        }</div>
+<div class="line"><a id="l02421" name="l02421"></a><span class="lineno"> 2421</span>    }</div>
+<div class="line"><a id="l02422" name="l02422"></a><span class="lineno"> 2422</span> </div>
+<div class="line"><a id="l02423" name="l02423"></a><span class="lineno"> 2423</span>    <span class="keywordflow">return</span> objIDs;</div>
+<div class="line"><a id="l02424" name="l02424"></a><span class="lineno"> 2424</span> </div>
+<div class="line"><a id="l02425" name="l02425"></a><span class="lineno"> 2425</span>}</div>
 </div>
-<div class="line"><a id="l02425" name="l02425"></a><span class="lineno"> 2425</span> </div>
-<div class="foldopen" id="foldopen02426" data-start="{" data-end="}">
-<div class="line"><a id="l02426" name="l02426"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a3bdffb4e53fe0da836a40de80946d31f"> 2426</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#a3bdffb4e53fe0da836a40de80946d31f">PlantArchitecture::getAllPlantUUIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l02427" name="l02427"></a><span class="lineno"> 2427</span>    <span class="keywordflow">return</span> context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a7d0b3a6ca36b02702b06208a735a3b03">getObjectPrimitiveUUIDs</a>(<a class="code hl_function" href="class_plant_architecture.html#acf9855048c790d30d8d4de7fa1dc3550">getAllPlantObjectIDs</a>(plantID));</div>
-<div class="line"><a id="l02428" name="l02428"></a><span class="lineno"> 2428</span>}</div>
+<div class="line"><a id="l02426" name="l02426"></a><span class="lineno"> 2426</span> </div>
+<div class="foldopen" id="foldopen02427" data-start="{" data-end="}">
+<div class="line"><a id="l02427" name="l02427"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a3bdffb4e53fe0da836a40de80946d31f"> 2427</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#a3bdffb4e53fe0da836a40de80946d31f">PlantArchitecture::getAllPlantUUIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02428" name="l02428"></a><span class="lineno"> 2428</span>    <span class="keywordflow">return</span> context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a7d0b3a6ca36b02702b06208a735a3b03">getObjectPrimitiveUUIDs</a>(<a class="code hl_function" href="class_plant_architecture.html#acf9855048c790d30d8d4de7fa1dc3550">getAllPlantObjectIDs</a>(plantID));</div>
+<div class="line"><a id="l02429" name="l02429"></a><span class="lineno"> 2429</span>}</div>
 </div>
-<div class="line"><a id="l02429" name="l02429"></a><span class="lineno"> 2429</span> </div>
-<div class="foldopen" id="foldopen02430" data-start="{" data-end="}">
-<div class="line"><a id="l02430" name="l02430"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a53967340a1c9b88f4b804522f081ce62"> 2430</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#a53967340a1c9b88f4b804522f081ce62">PlantArchitecture::getPlantInternodeObjectIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l02431" name="l02431"></a><span class="lineno"> 2431</span> </div>
-<div class="line"><a id="l02432" name="l02432"></a><span class="lineno"> 2432</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02433" name="l02433"></a><span class="lineno"> 2433</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getPlantInternodeObjectIDs): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02434" name="l02434"></a><span class="lineno"> 2434</span>    }</div>
-<div class="line"><a id="l02435" name="l02435"></a><span class="lineno"> 2435</span> </div>
-<div class="line"><a id="l02436" name="l02436"></a><span class="lineno"> 2436</span>    std::vector&lt;uint&gt; objIDs;</div>
-<div class="line"><a id="l02437" name="l02437"></a><span class="lineno"> 2437</span> </div>
-<div class="line"><a id="l02438" name="l02438"></a><span class="lineno"> 2438</span>    <span class="keyword">auto</span> &amp;shoot_tree = plant_instances.at(plantID).shoot_tree;</div>
-<div class="line"><a id="l02439" name="l02439"></a><span class="lineno"> 2439</span> </div>
-<div class="line"><a id="l02440" name="l02440"></a><span class="lineno"> 2440</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;shoot : shoot_tree ){</div>
-<div class="line"><a id="l02441" name="l02441"></a><span class="lineno"> 2441</span>        objIDs.push_back( shoot-&gt;internode_tube_objID );</div>
-<div class="line"><a id="l02442" name="l02442"></a><span class="lineno"> 2442</span>    }</div>
-<div class="line"><a id="l02443" name="l02443"></a><span class="lineno"> 2443</span> </div>
-<div class="line"><a id="l02444" name="l02444"></a><span class="lineno"> 2444</span>    <span class="keywordflow">return</span> objIDs;</div>
-<div class="line"><a id="l02445" name="l02445"></a><span class="lineno"> 2445</span> </div>
-<div class="line"><a id="l02446" name="l02446"></a><span class="lineno"> 2446</span>}</div>
+<div class="line"><a id="l02430" name="l02430"></a><span class="lineno"> 2430</span> </div>
+<div class="foldopen" id="foldopen02431" data-start="{" data-end="}">
+<div class="line"><a id="l02431" name="l02431"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a53967340a1c9b88f4b804522f081ce62"> 2431</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#a53967340a1c9b88f4b804522f081ce62">PlantArchitecture::getPlantInternodeObjectIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02432" name="l02432"></a><span class="lineno"> 2432</span> </div>
+<div class="line"><a id="l02433" name="l02433"></a><span class="lineno"> 2433</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02434" name="l02434"></a><span class="lineno"> 2434</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getPlantInternodeObjectIDs): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02435" name="l02435"></a><span class="lineno"> 2435</span>    }</div>
+<div class="line"><a id="l02436" name="l02436"></a><span class="lineno"> 2436</span> </div>
+<div class="line"><a id="l02437" name="l02437"></a><span class="lineno"> 2437</span>    std::vector&lt;uint&gt; objIDs;</div>
+<div class="line"><a id="l02438" name="l02438"></a><span class="lineno"> 2438</span> </div>
+<div class="line"><a id="l02439" name="l02439"></a><span class="lineno"> 2439</span>    <span class="keyword">auto</span> &amp;shoot_tree = plant_instances.at(plantID).shoot_tree;</div>
+<div class="line"><a id="l02440" name="l02440"></a><span class="lineno"> 2440</span> </div>
+<div class="line"><a id="l02441" name="l02441"></a><span class="lineno"> 2441</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;shoot : shoot_tree ){</div>
+<div class="line"><a id="l02442" name="l02442"></a><span class="lineno"> 2442</span>        objIDs.push_back( shoot-&gt;internode_tube_objID );</div>
+<div class="line"><a id="l02443" name="l02443"></a><span class="lineno"> 2443</span>    }</div>
+<div class="line"><a id="l02444" name="l02444"></a><span class="lineno"> 2444</span> </div>
+<div class="line"><a id="l02445" name="l02445"></a><span class="lineno"> 2445</span>    <span class="keywordflow">return</span> objIDs;</div>
+<div class="line"><a id="l02446" name="l02446"></a><span class="lineno"> 2446</span> </div>
+<div class="line"><a id="l02447" name="l02447"></a><span class="lineno"> 2447</span>}</div>
 </div>
-<div class="line"><a id="l02447" name="l02447"></a><span class="lineno"> 2447</span> </div>
-<div class="foldopen" id="foldopen02448" data-start="{" data-end="}">
-<div class="line"><a id="l02448" name="l02448"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#aee2486b87dca29982dd1b380aa3510fb"> 2448</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#aee2486b87dca29982dd1b380aa3510fb">PlantArchitecture::getPlantPetioleObjectIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l02449" name="l02449"></a><span class="lineno"> 2449</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02450" name="l02450"></a><span class="lineno"> 2450</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getPlantPetioleObjectIDs): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02451" name="l02451"></a><span class="lineno"> 2451</span>    }</div>
-<div class="line"><a id="l02452" name="l02452"></a><span class="lineno"> 2452</span> </div>
-<div class="line"><a id="l02453" name="l02453"></a><span class="lineno"> 2453</span>    std::vector&lt;uint&gt; objIDs;</div>
-<div class="line"><a id="l02454" name="l02454"></a><span class="lineno"> 2454</span> </div>
-<div class="line"><a id="l02455" name="l02455"></a><span class="lineno"> 2455</span>    <span class="keyword">auto</span> &amp;shoot_tree = plant_instances.at(plantID).shoot_tree;</div>
-<div class="line"><a id="l02456" name="l02456"></a><span class="lineno"> 2456</span> </div>
-<div class="line"><a id="l02457" name="l02457"></a><span class="lineno"> 2457</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;shoot : shoot_tree ){</div>
-<div class="line"><a id="l02458" name="l02458"></a><span class="lineno"> 2458</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;phytomer : shoot-&gt;phytomers ){</div>
-<div class="line"><a id="l02459" name="l02459"></a><span class="lineno"> 2459</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;petiole : phytomer-&gt;petiole_objIDs ){</div>
-<div class="line"><a id="l02460" name="l02460"></a><span class="lineno"> 2460</span>                objIDs.insert(objIDs.end(), petiole.begin(), petiole.end() );</div>
-<div class="line"><a id="l02461" name="l02461"></a><span class="lineno"> 2461</span>            }</div>
-<div class="line"><a id="l02462" name="l02462"></a><span class="lineno"> 2462</span>        }</div>
-<div class="line"><a id="l02463" name="l02463"></a><span class="lineno"> 2463</span>    }</div>
-<div class="line"><a id="l02464" name="l02464"></a><span class="lineno"> 2464</span> </div>
-<div class="line"><a id="l02465" name="l02465"></a><span class="lineno"> 2465</span>    <span class="keywordflow">return</span> objIDs;</div>
-<div class="line"><a id="l02466" name="l02466"></a><span class="lineno"> 2466</span> </div>
-<div class="line"><a id="l02467" name="l02467"></a><span class="lineno"> 2467</span>}</div>
+<div class="line"><a id="l02448" name="l02448"></a><span class="lineno"> 2448</span> </div>
+<div class="foldopen" id="foldopen02449" data-start="{" data-end="}">
+<div class="line"><a id="l02449" name="l02449"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#aee2486b87dca29982dd1b380aa3510fb"> 2449</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#aee2486b87dca29982dd1b380aa3510fb">PlantArchitecture::getPlantPetioleObjectIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02450" name="l02450"></a><span class="lineno"> 2450</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02451" name="l02451"></a><span class="lineno"> 2451</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getPlantPetioleObjectIDs): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02452" name="l02452"></a><span class="lineno"> 2452</span>    }</div>
+<div class="line"><a id="l02453" name="l02453"></a><span class="lineno"> 2453</span> </div>
+<div class="line"><a id="l02454" name="l02454"></a><span class="lineno"> 2454</span>    std::vector&lt;uint&gt; objIDs;</div>
+<div class="line"><a id="l02455" name="l02455"></a><span class="lineno"> 2455</span> </div>
+<div class="line"><a id="l02456" name="l02456"></a><span class="lineno"> 2456</span>    <span class="keyword">auto</span> &amp;shoot_tree = plant_instances.at(plantID).shoot_tree;</div>
+<div class="line"><a id="l02457" name="l02457"></a><span class="lineno"> 2457</span> </div>
+<div class="line"><a id="l02458" name="l02458"></a><span class="lineno"> 2458</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;shoot : shoot_tree ){</div>
+<div class="line"><a id="l02459" name="l02459"></a><span class="lineno"> 2459</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;phytomer : shoot-&gt;phytomers ){</div>
+<div class="line"><a id="l02460" name="l02460"></a><span class="lineno"> 2460</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;petiole : phytomer-&gt;petiole_objIDs ){</div>
+<div class="line"><a id="l02461" name="l02461"></a><span class="lineno"> 2461</span>                objIDs.insert(objIDs.end(), petiole.begin(), petiole.end() );</div>
+<div class="line"><a id="l02462" name="l02462"></a><span class="lineno"> 2462</span>            }</div>
+<div class="line"><a id="l02463" name="l02463"></a><span class="lineno"> 2463</span>        }</div>
+<div class="line"><a id="l02464" name="l02464"></a><span class="lineno"> 2464</span>    }</div>
+<div class="line"><a id="l02465" name="l02465"></a><span class="lineno"> 2465</span> </div>
+<div class="line"><a id="l02466" name="l02466"></a><span class="lineno"> 2466</span>    <span class="keywordflow">return</span> objIDs;</div>
+<div class="line"><a id="l02467" name="l02467"></a><span class="lineno"> 2467</span> </div>
+<div class="line"><a id="l02468" name="l02468"></a><span class="lineno"> 2468</span>}</div>
 </div>
-<div class="line"><a id="l02468" name="l02468"></a><span class="lineno"> 2468</span> </div>
-<div class="foldopen" id="foldopen02469" data-start="{" data-end="}">
-<div class="line"><a id="l02469" name="l02469"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#afcdea7f14c6ca722d39d94ff19ba87b4"> 2469</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#afcdea7f14c6ca722d39d94ff19ba87b4">PlantArchitecture::getPlantLeafObjectIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l02470" name="l02470"></a><span class="lineno"> 2470</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02471" name="l02471"></a><span class="lineno"> 2471</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getPlantLeafObjectIDs): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02472" name="l02472"></a><span class="lineno"> 2472</span>    }</div>
-<div class="line"><a id="l02473" name="l02473"></a><span class="lineno"> 2473</span> </div>
-<div class="line"><a id="l02474" name="l02474"></a><span class="lineno"> 2474</span>    std::vector&lt;uint&gt; objIDs;</div>
-<div class="line"><a id="l02475" name="l02475"></a><span class="lineno"> 2475</span> </div>
-<div class="line"><a id="l02476" name="l02476"></a><span class="lineno"> 2476</span>    <span class="keyword">auto</span> &amp;shoot_tree = plant_instances.at(plantID).shoot_tree;</div>
-<div class="line"><a id="l02477" name="l02477"></a><span class="lineno"> 2477</span> </div>
-<div class="line"><a id="l02478" name="l02478"></a><span class="lineno"> 2478</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;shoot : shoot_tree ){</div>
-<div class="line"><a id="l02479" name="l02479"></a><span class="lineno"> 2479</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;phytomer : shoot-&gt;phytomers ){</div>
-<div class="line"><a id="l02480" name="l02480"></a><span class="lineno"> 2480</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer-&gt;leaf_objIDs.size(); petiole++ ) {</div>
-<div class="line"><a id="l02481" name="l02481"></a><span class="lineno"> 2481</span>                objIDs.insert(objIDs.end(), phytomer-&gt;leaf_objIDs.at(petiole).begin(), phytomer-&gt;leaf_objIDs.at(petiole).end());</div>
-<div class="line"><a id="l02482" name="l02482"></a><span class="lineno"> 2482</span>            }</div>
-<div class="line"><a id="l02483" name="l02483"></a><span class="lineno"> 2483</span>        }</div>
-<div class="line"><a id="l02484" name="l02484"></a><span class="lineno"> 2484</span>    }</div>
-<div class="line"><a id="l02485" name="l02485"></a><span class="lineno"> 2485</span> </div>
-<div class="line"><a id="l02486" name="l02486"></a><span class="lineno"> 2486</span>    <span class="keywordflow">return</span> objIDs;</div>
-<div class="line"><a id="l02487" name="l02487"></a><span class="lineno"> 2487</span> </div>
-<div class="line"><a id="l02488" name="l02488"></a><span class="lineno"> 2488</span>}</div>
+<div class="line"><a id="l02469" name="l02469"></a><span class="lineno"> 2469</span> </div>
+<div class="foldopen" id="foldopen02470" data-start="{" data-end="}">
+<div class="line"><a id="l02470" name="l02470"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#afcdea7f14c6ca722d39d94ff19ba87b4"> 2470</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#afcdea7f14c6ca722d39d94ff19ba87b4">PlantArchitecture::getPlantLeafObjectIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02471" name="l02471"></a><span class="lineno"> 2471</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02472" name="l02472"></a><span class="lineno"> 2472</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getPlantLeafObjectIDs): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02473" name="l02473"></a><span class="lineno"> 2473</span>    }</div>
+<div class="line"><a id="l02474" name="l02474"></a><span class="lineno"> 2474</span> </div>
+<div class="line"><a id="l02475" name="l02475"></a><span class="lineno"> 2475</span>    std::vector&lt;uint&gt; objIDs;</div>
+<div class="line"><a id="l02476" name="l02476"></a><span class="lineno"> 2476</span> </div>
+<div class="line"><a id="l02477" name="l02477"></a><span class="lineno"> 2477</span>    <span class="keyword">auto</span> &amp;shoot_tree = plant_instances.at(plantID).shoot_tree;</div>
+<div class="line"><a id="l02478" name="l02478"></a><span class="lineno"> 2478</span> </div>
+<div class="line"><a id="l02479" name="l02479"></a><span class="lineno"> 2479</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;shoot : shoot_tree ){</div>
+<div class="line"><a id="l02480" name="l02480"></a><span class="lineno"> 2480</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;phytomer : shoot-&gt;phytomers ){</div>
+<div class="line"><a id="l02481" name="l02481"></a><span class="lineno"> 2481</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer-&gt;leaf_objIDs.size(); petiole++ ) {</div>
+<div class="line"><a id="l02482" name="l02482"></a><span class="lineno"> 2482</span>                objIDs.insert(objIDs.end(), phytomer-&gt;leaf_objIDs.at(petiole).begin(), phytomer-&gt;leaf_objIDs.at(petiole).end());</div>
+<div class="line"><a id="l02483" name="l02483"></a><span class="lineno"> 2483</span>            }</div>
+<div class="line"><a id="l02484" name="l02484"></a><span class="lineno"> 2484</span>        }</div>
+<div class="line"><a id="l02485" name="l02485"></a><span class="lineno"> 2485</span>    }</div>
+<div class="line"><a id="l02486" name="l02486"></a><span class="lineno"> 2486</span> </div>
+<div class="line"><a id="l02487" name="l02487"></a><span class="lineno"> 2487</span>    <span class="keywordflow">return</span> objIDs;</div>
+<div class="line"><a id="l02488" name="l02488"></a><span class="lineno"> 2488</span> </div>
+<div class="line"><a id="l02489" name="l02489"></a><span class="lineno"> 2489</span>}</div>
 </div>
-<div class="line"><a id="l02489" name="l02489"></a><span class="lineno"> 2489</span> </div>
-<div class="foldopen" id="foldopen02490" data-start="{" data-end="}">
-<div class="line"><a id="l02490" name="l02490"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#af8a9f26212baf6695d71d44b982e6adf"> 2490</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#af8a9f26212baf6695d71d44b982e6adf">PlantArchitecture::getPlantPeduncleObjectIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l02491" name="l02491"></a><span class="lineno"> 2491</span> </div>
-<div class="line"><a id="l02492" name="l02492"></a><span class="lineno"> 2492</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02493" name="l02493"></a><span class="lineno"> 2493</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getPlantPeduncleObjectIDs): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02494" name="l02494"></a><span class="lineno"> 2494</span>    }</div>
-<div class="line"><a id="l02495" name="l02495"></a><span class="lineno"> 2495</span> </div>
-<div class="line"><a id="l02496" name="l02496"></a><span class="lineno"> 2496</span>    std::vector&lt;uint&gt; objIDs;</div>
-<div class="line"><a id="l02497" name="l02497"></a><span class="lineno"> 2497</span> </div>
-<div class="line"><a id="l02498" name="l02498"></a><span class="lineno"> 2498</span>    <span class="keyword">auto</span> &amp;shoot_tree = plant_instances.at(plantID).shoot_tree;</div>
-<div class="line"><a id="l02499" name="l02499"></a><span class="lineno"> 2499</span> </div>
-<div class="line"><a id="l02500" name="l02500"></a><span class="lineno"> 2500</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;shoot : shoot_tree ){</div>
-<div class="line"><a id="l02501" name="l02501"></a><span class="lineno"> 2501</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;phytomer : shoot-&gt;phytomers ){</div>
-<div class="line"><a id="l02502" name="l02502"></a><span class="lineno"> 2502</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;petiole : phytomer-&gt;floral_buds ) {</div>
-<div class="line"><a id="l02503" name="l02503"></a><span class="lineno"> 2503</span>                <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;fbud : petiole ) {</div>
-<div class="line"><a id="l02504" name="l02504"></a><span class="lineno"> 2504</span>                    objIDs.insert(objIDs.end(), fbud.peduncle_objIDs.begin(), fbud.peduncle_objIDs.end());</div>
-<div class="line"><a id="l02505" name="l02505"></a><span class="lineno"> 2505</span>                }</div>
-<div class="line"><a id="l02506" name="l02506"></a><span class="lineno"> 2506</span>            }</div>
-<div class="line"><a id="l02507" name="l02507"></a><span class="lineno"> 2507</span>        }</div>
-<div class="line"><a id="l02508" name="l02508"></a><span class="lineno"> 2508</span>    }</div>
-<div class="line"><a id="l02509" name="l02509"></a><span class="lineno"> 2509</span> </div>
-<div class="line"><a id="l02510" name="l02510"></a><span class="lineno"> 2510</span>    <span class="keywordflow">return</span> objIDs;</div>
-<div class="line"><a id="l02511" name="l02511"></a><span class="lineno"> 2511</span> </div>
-<div class="line"><a id="l02512" name="l02512"></a><span class="lineno"> 2512</span>}</div>
+<div class="line"><a id="l02490" name="l02490"></a><span class="lineno"> 2490</span> </div>
+<div class="foldopen" id="foldopen02491" data-start="{" data-end="}">
+<div class="line"><a id="l02491" name="l02491"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#af8a9f26212baf6695d71d44b982e6adf"> 2491</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#af8a9f26212baf6695d71d44b982e6adf">PlantArchitecture::getPlantPeduncleObjectIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02492" name="l02492"></a><span class="lineno"> 2492</span> </div>
+<div class="line"><a id="l02493" name="l02493"></a><span class="lineno"> 2493</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02494" name="l02494"></a><span class="lineno"> 2494</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getPlantPeduncleObjectIDs): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02495" name="l02495"></a><span class="lineno"> 2495</span>    }</div>
+<div class="line"><a id="l02496" name="l02496"></a><span class="lineno"> 2496</span> </div>
+<div class="line"><a id="l02497" name="l02497"></a><span class="lineno"> 2497</span>    std::vector&lt;uint&gt; objIDs;</div>
+<div class="line"><a id="l02498" name="l02498"></a><span class="lineno"> 2498</span> </div>
+<div class="line"><a id="l02499" name="l02499"></a><span class="lineno"> 2499</span>    <span class="keyword">auto</span> &amp;shoot_tree = plant_instances.at(plantID).shoot_tree;</div>
+<div class="line"><a id="l02500" name="l02500"></a><span class="lineno"> 2500</span> </div>
+<div class="line"><a id="l02501" name="l02501"></a><span class="lineno"> 2501</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;shoot : shoot_tree ){</div>
+<div class="line"><a id="l02502" name="l02502"></a><span class="lineno"> 2502</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;phytomer : shoot-&gt;phytomers ){</div>
+<div class="line"><a id="l02503" name="l02503"></a><span class="lineno"> 2503</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;petiole : phytomer-&gt;floral_buds ) {</div>
+<div class="line"><a id="l02504" name="l02504"></a><span class="lineno"> 2504</span>                <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;fbud : petiole ) {</div>
+<div class="line"><a id="l02505" name="l02505"></a><span class="lineno"> 2505</span>                    objIDs.insert(objIDs.end(), fbud.peduncle_objIDs.begin(), fbud.peduncle_objIDs.end());</div>
+<div class="line"><a id="l02506" name="l02506"></a><span class="lineno"> 2506</span>                }</div>
+<div class="line"><a id="l02507" name="l02507"></a><span class="lineno"> 2507</span>            }</div>
+<div class="line"><a id="l02508" name="l02508"></a><span class="lineno"> 2508</span>        }</div>
+<div class="line"><a id="l02509" name="l02509"></a><span class="lineno"> 2509</span>    }</div>
+<div class="line"><a id="l02510" name="l02510"></a><span class="lineno"> 2510</span> </div>
+<div class="line"><a id="l02511" name="l02511"></a><span class="lineno"> 2511</span>    <span class="keywordflow">return</span> objIDs;</div>
+<div class="line"><a id="l02512" name="l02512"></a><span class="lineno"> 2512</span> </div>
+<div class="line"><a id="l02513" name="l02513"></a><span class="lineno"> 2513</span>}</div>
 </div>
-<div class="line"><a id="l02513" name="l02513"></a><span class="lineno"> 2513</span> </div>
-<div class="foldopen" id="foldopen02514" data-start="{" data-end="}">
-<div class="line"><a id="l02514" name="l02514"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a1cb3e4ba93c7a94558c3c07496e550c2"> 2514</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#a1cb3e4ba93c7a94558c3c07496e550c2">PlantArchitecture::getPlantFlowerObjectIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l02515" name="l02515"></a><span class="lineno"> 2515</span> </div>
-<div class="line"><a id="l02516" name="l02516"></a><span class="lineno"> 2516</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02517" name="l02517"></a><span class="lineno"> 2517</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getPlantInflorescenceObjectIDs): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02518" name="l02518"></a><span class="lineno"> 2518</span>    }</div>
-<div class="line"><a id="l02519" name="l02519"></a><span class="lineno"> 2519</span> </div>
-<div class="line"><a id="l02520" name="l02520"></a><span class="lineno"> 2520</span>    std::vector&lt;uint&gt; objIDs;</div>
-<div class="line"><a id="l02521" name="l02521"></a><span class="lineno"> 2521</span> </div>
-<div class="line"><a id="l02522" name="l02522"></a><span class="lineno"> 2522</span>    <span class="keyword">auto</span> &amp;shoot_tree = plant_instances.at(plantID).shoot_tree;</div>
-<div class="line"><a id="l02523" name="l02523"></a><span class="lineno"> 2523</span> </div>
-<div class="line"><a id="l02524" name="l02524"></a><span class="lineno"> 2524</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;shoot : shoot_tree ){</div>
-<div class="line"><a id="l02525" name="l02525"></a><span class="lineno"> 2525</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;phytomer : shoot-&gt;phytomers ){</div>
-<div class="line"><a id="l02526" name="l02526"></a><span class="lineno"> 2526</span>            <span class="keywordflow">for</span>(<span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer-&gt;floral_buds.size(); petiole++ ){</div>
-<div class="line"><a id="l02527" name="l02527"></a><span class="lineno"> 2527</span>                <span class="keywordflow">for</span>(<span class="keywordtype">int</span> bud=0; bud&lt;phytomer-&gt;floral_buds.at(petiole).size(); bud++ ){</div>
-<div class="line"><a id="l02528" name="l02528"></a><span class="lineno"> 2528</span>                    <span class="keywordflow">if</span>(phytomer-&gt;floral_buds.at(petiole).at(bud).state == BUD_FLOWER_OPEN || phytomer-&gt;floral_buds.at(petiole).at(bud).state == BUD_FLOWER_CLOSED ) {</div>
-<div class="line"><a id="l02529" name="l02529"></a><span class="lineno"> 2529</span>                        objIDs.insert(objIDs.end(), phytomer-&gt;floral_buds.at(petiole).at(bud).inflorescence_objIDs.begin(), phytomer-&gt;floral_buds.at(petiole).at(bud).inflorescence_objIDs.end());</div>
-<div class="line"><a id="l02530" name="l02530"></a><span class="lineno"> 2530</span>                    }</div>
-<div class="line"><a id="l02531" name="l02531"></a><span class="lineno"> 2531</span>                }</div>
-<div class="line"><a id="l02532" name="l02532"></a><span class="lineno"> 2532</span>            }</div>
-<div class="line"><a id="l02533" name="l02533"></a><span class="lineno"> 2533</span>        }</div>
-<div class="line"><a id="l02534" name="l02534"></a><span class="lineno"> 2534</span>    }</div>
-<div class="line"><a id="l02535" name="l02535"></a><span class="lineno"> 2535</span> </div>
-<div class="line"><a id="l02536" name="l02536"></a><span class="lineno"> 2536</span>    <span class="keywordflow">return</span> objIDs;</div>
-<div class="line"><a id="l02537" name="l02537"></a><span class="lineno"> 2537</span> </div>
+<div class="line"><a id="l02514" name="l02514"></a><span class="lineno"> 2514</span> </div>
+<div class="foldopen" id="foldopen02515" data-start="{" data-end="}">
+<div class="line"><a id="l02515" name="l02515"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a1cb3e4ba93c7a94558c3c07496e550c2"> 2515</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#a1cb3e4ba93c7a94558c3c07496e550c2">PlantArchitecture::getPlantFlowerObjectIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02516" name="l02516"></a><span class="lineno"> 2516</span> </div>
+<div class="line"><a id="l02517" name="l02517"></a><span class="lineno"> 2517</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02518" name="l02518"></a><span class="lineno"> 2518</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getPlantInflorescenceObjectIDs): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02519" name="l02519"></a><span class="lineno"> 2519</span>    }</div>
+<div class="line"><a id="l02520" name="l02520"></a><span class="lineno"> 2520</span> </div>
+<div class="line"><a id="l02521" name="l02521"></a><span class="lineno"> 2521</span>    std::vector&lt;uint&gt; objIDs;</div>
+<div class="line"><a id="l02522" name="l02522"></a><span class="lineno"> 2522</span> </div>
+<div class="line"><a id="l02523" name="l02523"></a><span class="lineno"> 2523</span>    <span class="keyword">auto</span> &amp;shoot_tree = plant_instances.at(plantID).shoot_tree;</div>
+<div class="line"><a id="l02524" name="l02524"></a><span class="lineno"> 2524</span> </div>
+<div class="line"><a id="l02525" name="l02525"></a><span class="lineno"> 2525</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;shoot : shoot_tree ){</div>
+<div class="line"><a id="l02526" name="l02526"></a><span class="lineno"> 2526</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;phytomer : shoot-&gt;phytomers ){</div>
+<div class="line"><a id="l02527" name="l02527"></a><span class="lineno"> 2527</span>            <span class="keywordflow">for</span>(<span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer-&gt;floral_buds.size(); petiole++ ){</div>
+<div class="line"><a id="l02528" name="l02528"></a><span class="lineno"> 2528</span>                <span class="keywordflow">for</span>(<span class="keywordtype">int</span> bud=0; bud&lt;phytomer-&gt;floral_buds.at(petiole).size(); bud++ ){</div>
+<div class="line"><a id="l02529" name="l02529"></a><span class="lineno"> 2529</span>                    <span class="keywordflow">if</span>(phytomer-&gt;floral_buds.at(petiole).at(bud).state == BUD_FLOWER_OPEN || phytomer-&gt;floral_buds.at(petiole).at(bud).state == BUD_FLOWER_CLOSED ) {</div>
+<div class="line"><a id="l02530" name="l02530"></a><span class="lineno"> 2530</span>                        objIDs.insert(objIDs.end(), phytomer-&gt;floral_buds.at(petiole).at(bud).inflorescence_objIDs.begin(), phytomer-&gt;floral_buds.at(petiole).at(bud).inflorescence_objIDs.end());</div>
+<div class="line"><a id="l02531" name="l02531"></a><span class="lineno"> 2531</span>                    }</div>
+<div class="line"><a id="l02532" name="l02532"></a><span class="lineno"> 2532</span>                }</div>
+<div class="line"><a id="l02533" name="l02533"></a><span class="lineno"> 2533</span>            }</div>
+<div class="line"><a id="l02534" name="l02534"></a><span class="lineno"> 2534</span>        }</div>
+<div class="line"><a id="l02535" name="l02535"></a><span class="lineno"> 2535</span>    }</div>
+<div class="line"><a id="l02536" name="l02536"></a><span class="lineno"> 2536</span> </div>
+<div class="line"><a id="l02537" name="l02537"></a><span class="lineno"> 2537</span>    <span class="keywordflow">return</span> objIDs;</div>
 <div class="line"><a id="l02538" name="l02538"></a><span class="lineno"> 2538</span> </div>
-<div class="line"><a id="l02539" name="l02539"></a><span class="lineno"> 2539</span>}</div>
+<div class="line"><a id="l02539" name="l02539"></a><span class="lineno"> 2539</span> </div>
+<div class="line"><a id="l02540" name="l02540"></a><span class="lineno"> 2540</span>}</div>
 </div>
-<div class="line"><a id="l02540" name="l02540"></a><span class="lineno"> 2540</span> </div>
-<div class="foldopen" id="foldopen02541" data-start="{" data-end="}">
-<div class="line"><a id="l02541" name="l02541"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#aac602c603ac136c3aaffad052bd844d4"> 2541</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#aac602c603ac136c3aaffad052bd844d4">PlantArchitecture::getPlantFruitObjectIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
-<div class="line"><a id="l02542" name="l02542"></a><span class="lineno"> 2542</span> </div>
-<div class="line"><a id="l02543" name="l02543"></a><span class="lineno"> 2543</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02544" name="l02544"></a><span class="lineno"> 2544</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getPlantInflorescenceObjectIDs): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02545" name="l02545"></a><span class="lineno"> 2545</span>    }</div>
-<div class="line"><a id="l02546" name="l02546"></a><span class="lineno"> 2546</span> </div>
-<div class="line"><a id="l02547" name="l02547"></a><span class="lineno"> 2547</span>    std::vector&lt;uint&gt; objIDs;</div>
-<div class="line"><a id="l02548" name="l02548"></a><span class="lineno"> 2548</span> </div>
-<div class="line"><a id="l02549" name="l02549"></a><span class="lineno"> 2549</span>    <span class="keyword">auto</span> &amp;shoot_tree = plant_instances.at(plantID).shoot_tree;</div>
-<div class="line"><a id="l02550" name="l02550"></a><span class="lineno"> 2550</span> </div>
-<div class="line"><a id="l02551" name="l02551"></a><span class="lineno"> 2551</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;shoot : shoot_tree ){</div>
-<div class="line"><a id="l02552" name="l02552"></a><span class="lineno"> 2552</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;phytomer : shoot-&gt;phytomers ){</div>
-<div class="line"><a id="l02553" name="l02553"></a><span class="lineno"> 2553</span>            <span class="keywordflow">for</span>(<span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer-&gt;floral_buds.size(); petiole++ ){</div>
-<div class="line"><a id="l02554" name="l02554"></a><span class="lineno"> 2554</span>                <span class="keywordflow">for</span>(<span class="keywordtype">int</span> bud=0; bud&lt;phytomer-&gt;floral_buds.at(petiole).size(); bud++ ){</div>
-<div class="line"><a id="l02555" name="l02555"></a><span class="lineno"> 2555</span>                    <span class="keywordflow">if</span>(phytomer-&gt;floral_buds.at(petiole).at(bud).state == BUD_FRUITING ) {</div>
-<div class="line"><a id="l02556" name="l02556"></a><span class="lineno"> 2556</span>                        objIDs.insert(objIDs.end(), phytomer-&gt;floral_buds.at(petiole).at(bud).inflorescence_objIDs.begin(), phytomer-&gt;floral_buds.at(petiole).at(bud).inflorescence_objIDs.end());</div>
-<div class="line"><a id="l02557" name="l02557"></a><span class="lineno"> 2557</span>                    }</div>
-<div class="line"><a id="l02558" name="l02558"></a><span class="lineno"> 2558</span>                }</div>
-<div class="line"><a id="l02559" name="l02559"></a><span class="lineno"> 2559</span>            }</div>
-<div class="line"><a id="l02560" name="l02560"></a><span class="lineno"> 2560</span>        }</div>
-<div class="line"><a id="l02561" name="l02561"></a><span class="lineno"> 2561</span>    }</div>
-<div class="line"><a id="l02562" name="l02562"></a><span class="lineno"> 2562</span> </div>
-<div class="line"><a id="l02563" name="l02563"></a><span class="lineno"> 2563</span>    <span class="keywordflow">return</span> objIDs;</div>
-<div class="line"><a id="l02564" name="l02564"></a><span class="lineno"> 2564</span> </div>
+<div class="line"><a id="l02541" name="l02541"></a><span class="lineno"> 2541</span> </div>
+<div class="foldopen" id="foldopen02542" data-start="{" data-end="}">
+<div class="line"><a id="l02542" name="l02542"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#aac602c603ac136c3aaffad052bd844d4"> 2542</a></span>std::vector&lt;uint&gt; <a class="code hl_function" href="class_plant_architecture.html#aac602c603ac136c3aaffad052bd844d4">PlantArchitecture::getPlantFruitObjectIDs</a>(uint plantID)<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02543" name="l02543"></a><span class="lineno"> 2543</span> </div>
+<div class="line"><a id="l02544" name="l02544"></a><span class="lineno"> 2544</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02545" name="l02545"></a><span class="lineno"> 2545</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::getPlantInflorescenceObjectIDs): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02546" name="l02546"></a><span class="lineno"> 2546</span>    }</div>
+<div class="line"><a id="l02547" name="l02547"></a><span class="lineno"> 2547</span> </div>
+<div class="line"><a id="l02548" name="l02548"></a><span class="lineno"> 2548</span>    std::vector&lt;uint&gt; objIDs;</div>
+<div class="line"><a id="l02549" name="l02549"></a><span class="lineno"> 2549</span> </div>
+<div class="line"><a id="l02550" name="l02550"></a><span class="lineno"> 2550</span>    <span class="keyword">auto</span> &amp;shoot_tree = plant_instances.at(plantID).shoot_tree;</div>
+<div class="line"><a id="l02551" name="l02551"></a><span class="lineno"> 2551</span> </div>
+<div class="line"><a id="l02552" name="l02552"></a><span class="lineno"> 2552</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;shoot : shoot_tree ){</div>
+<div class="line"><a id="l02553" name="l02553"></a><span class="lineno"> 2553</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;phytomer : shoot-&gt;phytomers ){</div>
+<div class="line"><a id="l02554" name="l02554"></a><span class="lineno"> 2554</span>            <span class="keywordflow">for</span>(<span class="keywordtype">int</span> petiole=0; petiole&lt;phytomer-&gt;floral_buds.size(); petiole++ ){</div>
+<div class="line"><a id="l02555" name="l02555"></a><span class="lineno"> 2555</span>                <span class="keywordflow">for</span>(<span class="keywordtype">int</span> bud=0; bud&lt;phytomer-&gt;floral_buds.at(petiole).size(); bud++ ){</div>
+<div class="line"><a id="l02556" name="l02556"></a><span class="lineno"> 2556</span>                    <span class="keywordflow">if</span>(phytomer-&gt;floral_buds.at(petiole).at(bud).state == BUD_FRUITING ) {</div>
+<div class="line"><a id="l02557" name="l02557"></a><span class="lineno"> 2557</span>                        objIDs.insert(objIDs.end(), phytomer-&gt;floral_buds.at(petiole).at(bud).inflorescence_objIDs.begin(), phytomer-&gt;floral_buds.at(petiole).at(bud).inflorescence_objIDs.end());</div>
+<div class="line"><a id="l02558" name="l02558"></a><span class="lineno"> 2558</span>                    }</div>
+<div class="line"><a id="l02559" name="l02559"></a><span class="lineno"> 2559</span>                }</div>
+<div class="line"><a id="l02560" name="l02560"></a><span class="lineno"> 2560</span>            }</div>
+<div class="line"><a id="l02561" name="l02561"></a><span class="lineno"> 2561</span>        }</div>
+<div class="line"><a id="l02562" name="l02562"></a><span class="lineno"> 2562</span>    }</div>
+<div class="line"><a id="l02563" name="l02563"></a><span class="lineno"> 2563</span> </div>
+<div class="line"><a id="l02564" name="l02564"></a><span class="lineno"> 2564</span>    <span class="keywordflow">return</span> objIDs;</div>
 <div class="line"><a id="l02565" name="l02565"></a><span class="lineno"> 2565</span> </div>
-<div class="line"><a id="l02566" name="l02566"></a><span class="lineno"> 2566</span>}</div>
+<div class="line"><a id="l02566" name="l02566"></a><span class="lineno"> 2566</span> </div>
+<div class="line"><a id="l02567" name="l02567"></a><span class="lineno"> 2567</span>}</div>
 </div>
-<div class="line"><a id="l02567" name="l02567"></a><span class="lineno"> 2567</span> </div>
-<div class="foldopen" id="foldopen02568" data-start="{" data-end="}">
-<div class="line"><a id="l02568" name="l02568"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665"> 2568</a></span>uint <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">PlantArchitecture::addPlantInstance</a>(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position, <span class="keywordtype">float</span> current_age) {</div>
-<div class="line"><a id="l02569" name="l02569"></a><span class="lineno"> 2569</span> </div>
-<div class="line"><a id="l02570" name="l02570"></a><span class="lineno"> 2570</span>    <span class="keywordflow">if</span>( current_age&lt;0 ){</div>
-<div class="line"><a id="l02571" name="l02571"></a><span class="lineno"> 2571</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addPlantInstance): Current age must be greater than or equal to zero.&quot;</span>);</div>
-<div class="line"><a id="l02572" name="l02572"></a><span class="lineno"> 2572</span>    }</div>
-<div class="line"><a id="l02573" name="l02573"></a><span class="lineno"> 2573</span> </div>
-<div class="line"><a id="l02574" name="l02574"></a><span class="lineno"> 2574</span>    <a class="code hl_struct" href="struct_plant_instance.html">PlantInstance</a> instance(base_position, current_age, context_ptr);</div>
-<div class="line"><a id="l02575" name="l02575"></a><span class="lineno"> 2575</span> </div>
-<div class="line"><a id="l02576" name="l02576"></a><span class="lineno"> 2576</span>    plant_instances.emplace(plant_count, instance);</div>
-<div class="line"><a id="l02577" name="l02577"></a><span class="lineno"> 2577</span> </div>
-<div class="line"><a id="l02578" name="l02578"></a><span class="lineno"> 2578</span>    plant_count++;</div>
-<div class="line"><a id="l02579" name="l02579"></a><span class="lineno"> 2579</span> </div>
-<div class="line"><a id="l02580" name="l02580"></a><span class="lineno"> 2580</span>    <span class="keywordflow">return</span> plant_count-1;</div>
-<div class="line"><a id="l02581" name="l02581"></a><span class="lineno"> 2581</span> </div>
-<div class="line"><a id="l02582" name="l02582"></a><span class="lineno"> 2582</span>}</div>
+<div class="line"><a id="l02568" name="l02568"></a><span class="lineno"> 2568</span> </div>
+<div class="foldopen" id="foldopen02569" data-start="{" data-end="}">
+<div class="line"><a id="l02569" name="l02569"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665"> 2569</a></span>uint <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">PlantArchitecture::addPlantInstance</a>(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position, <span class="keywordtype">float</span> current_age) {</div>
+<div class="line"><a id="l02570" name="l02570"></a><span class="lineno"> 2570</span> </div>
+<div class="line"><a id="l02571" name="l02571"></a><span class="lineno"> 2571</span>    <span class="keywordflow">if</span>( current_age&lt;0 ){</div>
+<div class="line"><a id="l02572" name="l02572"></a><span class="lineno"> 2572</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::addPlantInstance): Current age must be greater than or equal to zero.&quot;</span>);</div>
+<div class="line"><a id="l02573" name="l02573"></a><span class="lineno"> 2573</span>    }</div>
+<div class="line"><a id="l02574" name="l02574"></a><span class="lineno"> 2574</span> </div>
+<div class="line"><a id="l02575" name="l02575"></a><span class="lineno"> 2575</span>    <a class="code hl_struct" href="struct_plant_instance.html">PlantInstance</a> instance(base_position, current_age, context_ptr);</div>
+<div class="line"><a id="l02576" name="l02576"></a><span class="lineno"> 2576</span> </div>
+<div class="line"><a id="l02577" name="l02577"></a><span class="lineno"> 2577</span>    plant_instances.emplace(plant_count, instance);</div>
+<div class="line"><a id="l02578" name="l02578"></a><span class="lineno"> 2578</span> </div>
+<div class="line"><a id="l02579" name="l02579"></a><span class="lineno"> 2579</span>    plant_count++;</div>
+<div class="line"><a id="l02580" name="l02580"></a><span class="lineno"> 2580</span> </div>
+<div class="line"><a id="l02581" name="l02581"></a><span class="lineno"> 2581</span>    <span class="keywordflow">return</span> plant_count-1;</div>
+<div class="line"><a id="l02582" name="l02582"></a><span class="lineno"> 2582</span> </div>
+<div class="line"><a id="l02583" name="l02583"></a><span class="lineno"> 2583</span>}</div>
 </div>
-<div class="line"><a id="l02583" name="l02583"></a><span class="lineno"> 2583</span> </div>
-<div class="foldopen" id="foldopen02584" data-start="{" data-end="}">
-<div class="line"><a id="l02584" name="l02584"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#acd6de0d13dbc534992b94a203a16b76d"> 2584</a></span>uint <a class="code hl_function" href="class_plant_architecture.html#acd6de0d13dbc534992b94a203a16b76d">PlantArchitecture::duplicatePlantInstance</a>(uint plantID, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position, <span class="keyword">const</span> <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> &amp;base_rotation, <span class="keywordtype">float</span> current_age) {</div>
-<div class="line"><a id="l02585" name="l02585"></a><span class="lineno"> 2585</span> </div>
-<div class="line"><a id="l02586" name="l02586"></a><span class="lineno"> 2586</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02587" name="l02587"></a><span class="lineno"> 2587</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::duplicatePlantInstance): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02588" name="l02588"></a><span class="lineno"> 2588</span>    }</div>
-<div class="line"><a id="l02589" name="l02589"></a><span class="lineno"> 2589</span> </div>
-<div class="line"><a id="l02590" name="l02590"></a><span class="lineno"> 2590</span>    <span class="keyword">auto</span> plant_shoot_tree = &amp;plant_instances.at(plantID).shoot_tree;</div>
-<div class="line"><a id="l02591" name="l02591"></a><span class="lineno"> 2591</span> </div>
-<div class="line"><a id="l02592" name="l02592"></a><span class="lineno"> 2592</span>    uint plantID_new = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, current_age);</div>
-<div class="line"><a id="l02593" name="l02593"></a><span class="lineno"> 2593</span> </div>
-<div class="line"><a id="l02594" name="l02594"></a><span class="lineno"> 2594</span>    <span class="keywordflow">if</span>( plant_shoot_tree-&gt;empty() ){ <span class="comment">//no shoots to add</span></div>
-<div class="line"><a id="l02595" name="l02595"></a><span class="lineno"> 2595</span>        <span class="keywordflow">return</span> plantID_new;</div>
-<div class="line"><a id="l02596" name="l02596"></a><span class="lineno"> 2596</span>    }</div>
-<div class="line"><a id="l02597" name="l02597"></a><span class="lineno"> 2597</span>    <span class="keywordflow">if</span>( plant_shoot_tree-&gt;front()-&gt;phytomers.empty() ){ <span class="comment">//no phytomers to add</span></div>
-<div class="line"><a id="l02598" name="l02598"></a><span class="lineno"> 2598</span>        <span class="keywordflow">return</span> plantID_new;</div>
-<div class="line"><a id="l02599" name="l02599"></a><span class="lineno"> 2599</span>    }</div>
-<div class="line"><a id="l02600" name="l02600"></a><span class="lineno"> 2600</span> </div>
-<div class="line"><a id="l02601" name="l02601"></a><span class="lineno"> 2601</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> shoot: *plant_shoot_tree ) {</div>
-<div class="line"><a id="l02602" name="l02602"></a><span class="lineno"> 2602</span> </div>
-<div class="line"><a id="l02603" name="l02603"></a><span class="lineno"> 2603</span>        uint shootID_new; <span class="comment">//ID of the new shoot; will be set once the shoot is created on the first loop iteration</span></div>
-<div class="line"><a id="l02604" name="l02604"></a><span class="lineno"> 2604</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> node = 0; node &lt; shoot-&gt;current_node_number; node++) {</div>
-<div class="line"><a id="l02605" name="l02605"></a><span class="lineno"> 2605</span> </div>
-<div class="line"><a id="l02606" name="l02606"></a><span class="lineno"> 2606</span>            <span class="keyword">auto</span> phytomer = shoot-&gt;phytomers.at(node);</div>
-<div class="line"><a id="l02607" name="l02607"></a><span class="lineno"> 2607</span>            <span class="keywordtype">float</span> internode_radius = phytomer-&gt;internode_radius_initial;</div>
-<div class="line"><a id="l02608" name="l02608"></a><span class="lineno"> 2608</span>            <span class="keywordtype">float</span> internode_length_max = phytomer-&gt;internode_length_max;</div>
-<div class="line"><a id="l02609" name="l02609"></a><span class="lineno"> 2609</span>            <span class="keywordtype">float</span> internode_scale_factor_fraction = phytomer-&gt;current_internode_scale_factor;</div>
-<div class="line"><a id="l02610" name="l02610"></a><span class="lineno"> 2610</span>            <span class="keywordtype">float</span> leaf_scale_factor_fraction = phytomer-&gt;current_leaf_scale_factor;</div>
-<div class="line"><a id="l02611" name="l02611"></a><span class="lineno"> 2611</span> </div>
-<div class="line"><a id="l02612" name="l02612"></a><span class="lineno"> 2612</span>            <span class="keywordflow">if</span> (node == 0) {<span class="comment">//first phytomer on shoot</span></div>
-<div class="line"><a id="l02613" name="l02613"></a><span class="lineno"> 2613</span>                <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> original_base_rotation = shoot-&gt;base_rotation;</div>
-<div class="line"><a id="l02614" name="l02614"></a><span class="lineno"> 2614</span>                <span class="keywordflow">if</span>(shoot-&gt;parent_shoot_ID == -1 ) { <span class="comment">//first shoot on plant</span></div>
-<div class="line"><a id="l02615" name="l02615"></a><span class="lineno"> 2615</span>                    shootID_new = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID_new, 1, original_base_rotation + base_rotation, internode_radius, internode_length_max, internode_scale_factor_fraction, leaf_scale_factor_fraction, 0, shoot-&gt;shoot_type_label);</div>
-<div class="line"><a id="l02616" name="l02616"></a><span class="lineno"> 2616</span>                }<span class="keywordflow">else</span>{ <span class="comment">//child shoot</span></div>
-<div class="line"><a id="l02617" name="l02617"></a><span class="lineno"> 2617</span>                    uint parent_node = plant_shoot_tree-&gt;at(shoot-&gt;parent_shoot_ID)-&gt;parent_node_index;</div>
-<div class="line"><a id="l02618" name="l02618"></a><span class="lineno"> 2618</span>                    uint parent_petiole_index = 0;</div>
-<div class="line"><a id="l02619" name="l02619"></a><span class="lineno"> 2619</span>                    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;petiole : phytomer-&gt;axillary_vegetative_buds ) {</div>
-<div class="line"><a id="l02620" name="l02620"></a><span class="lineno"> 2620</span>                        shootID_new = <a class="code hl_function" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">addChildShoot</a>(plantID_new, shoot-&gt;parent_shoot_ID, parent_node, 1, original_base_rotation, internode_radius, internode_length_max, internode_scale_factor_fraction, leaf_scale_factor_fraction, 0, shoot-&gt;shoot_type_label, parent_petiole_index);</div>
-<div class="line"><a id="l02621" name="l02621"></a><span class="lineno"> 2621</span>                        parent_petiole_index++;</div>
-<div class="line"><a id="l02622" name="l02622"></a><span class="lineno"> 2622</span>                    }</div>
-<div class="line"><a id="l02623" name="l02623"></a><span class="lineno"> 2623</span>                }</div>
-<div class="line"><a id="l02624" name="l02624"></a><span class="lineno"> 2624</span>            } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l02625" name="l02625"></a><span class="lineno"> 2625</span>                <span class="comment">//each phytomer needs to be added one-by-one to account for possible internodes/leaves that are not fully elongated</span></div>
-<div class="line"><a id="l02626" name="l02626"></a><span class="lineno"> 2626</span>                <a class="code hl_function" href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">appendPhytomerToShoot</a>(plantID_new, shootID_new, shoot_types.at(shoot-&gt;shoot_type_label).phytomer_parameters, internode_radius, internode_length_max, internode_scale_factor_fraction, leaf_scale_factor_fraction);</div>
-<div class="line"><a id="l02627" name="l02627"></a><span class="lineno"> 2627</span>            }</div>
-<div class="line"><a id="l02628" name="l02628"></a><span class="lineno"> 2628</span> </div>
-<div class="line"><a id="l02629" name="l02629"></a><span class="lineno"> 2629</span>        }</div>
-<div class="line"><a id="l02630" name="l02630"></a><span class="lineno"> 2630</span> </div>
-<div class="line"><a id="l02631" name="l02631"></a><span class="lineno"> 2631</span>    }</div>
-<div class="line"><a id="l02632" name="l02632"></a><span class="lineno"> 2632</span> </div>
-<div class="line"><a id="l02633" name="l02633"></a><span class="lineno"> 2633</span>    <span class="keywordflow">return</span> plantID_new;</div>
-<div class="line"><a id="l02634" name="l02634"></a><span class="lineno"> 2634</span> </div>
-<div class="line"><a id="l02635" name="l02635"></a><span class="lineno"> 2635</span>}</div>
+<div class="line"><a id="l02584" name="l02584"></a><span class="lineno"> 2584</span> </div>
+<div class="foldopen" id="foldopen02585" data-start="{" data-end="}">
+<div class="line"><a id="l02585" name="l02585"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#acd6de0d13dbc534992b94a203a16b76d"> 2585</a></span>uint <a class="code hl_function" href="class_plant_architecture.html#acd6de0d13dbc534992b94a203a16b76d">PlantArchitecture::duplicatePlantInstance</a>(uint plantID, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position, <span class="keyword">const</span> <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> &amp;base_rotation, <span class="keywordtype">float</span> current_age) {</div>
+<div class="line"><a id="l02586" name="l02586"></a><span class="lineno"> 2586</span> </div>
+<div class="line"><a id="l02587" name="l02587"></a><span class="lineno"> 2587</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02588" name="l02588"></a><span class="lineno"> 2588</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::duplicatePlantInstance): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02589" name="l02589"></a><span class="lineno"> 2589</span>    }</div>
+<div class="line"><a id="l02590" name="l02590"></a><span class="lineno"> 2590</span> </div>
+<div class="line"><a id="l02591" name="l02591"></a><span class="lineno"> 2591</span>    <span class="keyword">auto</span> plant_shoot_tree = &amp;plant_instances.at(plantID).shoot_tree;</div>
+<div class="line"><a id="l02592" name="l02592"></a><span class="lineno"> 2592</span> </div>
+<div class="line"><a id="l02593" name="l02593"></a><span class="lineno"> 2593</span>    uint plantID_new = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, current_age);</div>
+<div class="line"><a id="l02594" name="l02594"></a><span class="lineno"> 2594</span> </div>
+<div class="line"><a id="l02595" name="l02595"></a><span class="lineno"> 2595</span>    <span class="keywordflow">if</span>( plant_shoot_tree-&gt;empty() ){ <span class="comment">//no shoots to add</span></div>
+<div class="line"><a id="l02596" name="l02596"></a><span class="lineno"> 2596</span>        <span class="keywordflow">return</span> plantID_new;</div>
+<div class="line"><a id="l02597" name="l02597"></a><span class="lineno"> 2597</span>    }</div>
+<div class="line"><a id="l02598" name="l02598"></a><span class="lineno"> 2598</span>    <span class="keywordflow">if</span>( plant_shoot_tree-&gt;front()-&gt;phytomers.empty() ){ <span class="comment">//no phytomers to add</span></div>
+<div class="line"><a id="l02599" name="l02599"></a><span class="lineno"> 2599</span>        <span class="keywordflow">return</span> plantID_new;</div>
+<div class="line"><a id="l02600" name="l02600"></a><span class="lineno"> 2600</span>    }</div>
+<div class="line"><a id="l02601" name="l02601"></a><span class="lineno"> 2601</span> </div>
+<div class="line"><a id="l02602" name="l02602"></a><span class="lineno"> 2602</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> shoot: *plant_shoot_tree ) {</div>
+<div class="line"><a id="l02603" name="l02603"></a><span class="lineno"> 2603</span> </div>
+<div class="line"><a id="l02604" name="l02604"></a><span class="lineno"> 2604</span>        uint shootID_new; <span class="comment">//ID of the new shoot; will be set once the shoot is created on the first loop iteration</span></div>
+<div class="line"><a id="l02605" name="l02605"></a><span class="lineno"> 2605</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> node = 0; node &lt; shoot-&gt;current_node_number; node++) {</div>
+<div class="line"><a id="l02606" name="l02606"></a><span class="lineno"> 2606</span> </div>
+<div class="line"><a id="l02607" name="l02607"></a><span class="lineno"> 2607</span>            <span class="keyword">auto</span> phytomer = shoot-&gt;phytomers.at(node);</div>
+<div class="line"><a id="l02608" name="l02608"></a><span class="lineno"> 2608</span>            <span class="keywordtype">float</span> internode_radius = phytomer-&gt;internode_radius_initial;</div>
+<div class="line"><a id="l02609" name="l02609"></a><span class="lineno"> 2609</span>            <span class="keywordtype">float</span> internode_length_max = phytomer-&gt;internode_length_max;</div>
+<div class="line"><a id="l02610" name="l02610"></a><span class="lineno"> 2610</span>            <span class="keywordtype">float</span> internode_scale_factor_fraction = phytomer-&gt;current_internode_scale_factor;</div>
+<div class="line"><a id="l02611" name="l02611"></a><span class="lineno"> 2611</span>            <span class="keywordtype">float</span> leaf_scale_factor_fraction = phytomer-&gt;current_leaf_scale_factor;</div>
+<div class="line"><a id="l02612" name="l02612"></a><span class="lineno"> 2612</span> </div>
+<div class="line"><a id="l02613" name="l02613"></a><span class="lineno"> 2613</span>            <span class="keywordflow">if</span> (node == 0) {<span class="comment">//first phytomer on shoot</span></div>
+<div class="line"><a id="l02614" name="l02614"></a><span class="lineno"> 2614</span>                <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> original_base_rotation = shoot-&gt;base_rotation;</div>
+<div class="line"><a id="l02615" name="l02615"></a><span class="lineno"> 2615</span>                <span class="keywordflow">if</span>(shoot-&gt;parent_shoot_ID == -1 ) { <span class="comment">//first shoot on plant</span></div>
+<div class="line"><a id="l02616" name="l02616"></a><span class="lineno"> 2616</span>                    shootID_new = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID_new, 1, original_base_rotation + base_rotation, internode_radius, internode_length_max, internode_scale_factor_fraction, leaf_scale_factor_fraction, 0, shoot-&gt;shoot_type_label);</div>
+<div class="line"><a id="l02617" name="l02617"></a><span class="lineno"> 2617</span>                }<span class="keywordflow">else</span>{ <span class="comment">//child shoot</span></div>
+<div class="line"><a id="l02618" name="l02618"></a><span class="lineno"> 2618</span>                    uint parent_node = plant_shoot_tree-&gt;at(shoot-&gt;parent_shoot_ID)-&gt;parent_node_index;</div>
+<div class="line"><a id="l02619" name="l02619"></a><span class="lineno"> 2619</span>                    uint parent_petiole_index = 0;</div>
+<div class="line"><a id="l02620" name="l02620"></a><span class="lineno"> 2620</span>                    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;petiole : phytomer-&gt;axillary_vegetative_buds ) {</div>
+<div class="line"><a id="l02621" name="l02621"></a><span class="lineno"> 2621</span>                        shootID_new = <a class="code hl_function" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">addChildShoot</a>(plantID_new, shoot-&gt;parent_shoot_ID, parent_node, 1, original_base_rotation, internode_radius, internode_length_max, internode_scale_factor_fraction, leaf_scale_factor_fraction, 0, shoot-&gt;shoot_type_label, parent_petiole_index);</div>
+<div class="line"><a id="l02622" name="l02622"></a><span class="lineno"> 2622</span>                        parent_petiole_index++;</div>
+<div class="line"><a id="l02623" name="l02623"></a><span class="lineno"> 2623</span>                    }</div>
+<div class="line"><a id="l02624" name="l02624"></a><span class="lineno"> 2624</span>                }</div>
+<div class="line"><a id="l02625" name="l02625"></a><span class="lineno"> 2625</span>            } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l02626" name="l02626"></a><span class="lineno"> 2626</span>                <span class="comment">//each phytomer needs to be added one-by-one to account for possible internodes/leaves that are not fully elongated</span></div>
+<div class="line"><a id="l02627" name="l02627"></a><span class="lineno"> 2627</span>                <a class="code hl_function" href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">appendPhytomerToShoot</a>(plantID_new, shootID_new, shoot_types.at(shoot-&gt;shoot_type_label).phytomer_parameters, internode_radius, internode_length_max, internode_scale_factor_fraction, leaf_scale_factor_fraction);</div>
+<div class="line"><a id="l02628" name="l02628"></a><span class="lineno"> 2628</span>            }</div>
+<div class="line"><a id="l02629" name="l02629"></a><span class="lineno"> 2629</span> </div>
+<div class="line"><a id="l02630" name="l02630"></a><span class="lineno"> 2630</span>        }</div>
+<div class="line"><a id="l02631" name="l02631"></a><span class="lineno"> 2631</span> </div>
+<div class="line"><a id="l02632" name="l02632"></a><span class="lineno"> 2632</span>    }</div>
+<div class="line"><a id="l02633" name="l02633"></a><span class="lineno"> 2633</span> </div>
+<div class="line"><a id="l02634" name="l02634"></a><span class="lineno"> 2634</span>    <span class="keywordflow">return</span> plantID_new;</div>
+<div class="line"><a id="l02635" name="l02635"></a><span class="lineno"> 2635</span> </div>
+<div class="line"><a id="l02636" name="l02636"></a><span class="lineno"> 2636</span>}</div>
 </div>
-<div class="line"><a id="l02636" name="l02636"></a><span class="lineno"> 2636</span> </div>
-<div class="foldopen" id="foldopen02637" data-start="{" data-end="}">
-<div class="line"><a id="l02637" name="l02637"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a892ccc80c958b43d7528fa07006117e7"> 2637</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#a892ccc80c958b43d7528fa07006117e7">PlantArchitecture::deletePlantInstance</a>(uint plantID){</div>
-<div class="line"><a id="l02638" name="l02638"></a><span class="lineno"> 2638</span> </div>
-<div class="line"><a id="l02639" name="l02639"></a><span class="lineno"> 2639</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02640" name="l02640"></a><span class="lineno"> 2640</span>        <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l02641" name="l02641"></a><span class="lineno"> 2641</span>    }</div>
-<div class="line"><a id="l02642" name="l02642"></a><span class="lineno"> 2642</span> </div>
-<div class="line"><a id="l02643" name="l02643"></a><span class="lineno"> 2643</span>    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(<a class="code hl_function" href="class_plant_architecture.html#acf9855048c790d30d8d4de7fa1dc3550">getAllPlantObjectIDs</a>(plantID));</div>
-<div class="line"><a id="l02644" name="l02644"></a><span class="lineno"> 2644</span> </div>
-<div class="line"><a id="l02645" name="l02645"></a><span class="lineno"> 2645</span>    plant_instances.erase(plantID);</div>
-<div class="line"><a id="l02646" name="l02646"></a><span class="lineno"> 2646</span> </div>
-<div class="line"><a id="l02647" name="l02647"></a><span class="lineno"> 2647</span>}</div>
+<div class="line"><a id="l02637" name="l02637"></a><span class="lineno"> 2637</span> </div>
+<div class="foldopen" id="foldopen02638" data-start="{" data-end="}">
+<div class="line"><a id="l02638" name="l02638"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a892ccc80c958b43d7528fa07006117e7"> 2638</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#a892ccc80c958b43d7528fa07006117e7">PlantArchitecture::deletePlantInstance</a>(uint plantID){</div>
+<div class="line"><a id="l02639" name="l02639"></a><span class="lineno"> 2639</span> </div>
+<div class="line"><a id="l02640" name="l02640"></a><span class="lineno"> 2640</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02641" name="l02641"></a><span class="lineno"> 2641</span>        <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l02642" name="l02642"></a><span class="lineno"> 2642</span>    }</div>
+<div class="line"><a id="l02643" name="l02643"></a><span class="lineno"> 2643</span> </div>
+<div class="line"><a id="l02644" name="l02644"></a><span class="lineno"> 2644</span>    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(<a class="code hl_function" href="class_plant_architecture.html#acf9855048c790d30d8d4de7fa1dc3550">getAllPlantObjectIDs</a>(plantID));</div>
+<div class="line"><a id="l02645" name="l02645"></a><span class="lineno"> 2645</span> </div>
+<div class="line"><a id="l02646" name="l02646"></a><span class="lineno"> 2646</span>    plant_instances.erase(plantID);</div>
+<div class="line"><a id="l02647" name="l02647"></a><span class="lineno"> 2647</span> </div>
+<div class="line"><a id="l02648" name="l02648"></a><span class="lineno"> 2648</span>}</div>
 </div>
-<div class="line"><a id="l02648" name="l02648"></a><span class="lineno"> 2648</span> </div>
-<div class="foldopen" id="foldopen02649" data-start="{" data-end="}">
-<div class="line"><a id="l02649" name="l02649"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#afda177f49619fda164fd0ad6cfe512e9"> 2649</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#a892ccc80c958b43d7528fa07006117e7">PlantArchitecture::deletePlantInstance</a>( <span class="keyword">const</span> std::vector&lt;uint&gt; &amp;plantIDs ){</div>
-<div class="line"><a id="l02650" name="l02650"></a><span class="lineno"> 2650</span> </div>
-<div class="line"><a id="l02651" name="l02651"></a><span class="lineno"> 2651</span>    <span class="keywordflow">for</span>( uint ID : plantIDs ){</div>
-<div class="line"><a id="l02652" name="l02652"></a><span class="lineno"> 2652</span>        <a class="code hl_function" href="class_plant_architecture.html#a892ccc80c958b43d7528fa07006117e7">deletePlantInstance</a>(ID);</div>
-<div class="line"><a id="l02653" name="l02653"></a><span class="lineno"> 2653</span>    }</div>
-<div class="line"><a id="l02654" name="l02654"></a><span class="lineno"> 2654</span> </div>
-<div class="line"><a id="l02655" name="l02655"></a><span class="lineno"> 2655</span>}</div>
+<div class="line"><a id="l02649" name="l02649"></a><span class="lineno"> 2649</span> </div>
+<div class="foldopen" id="foldopen02650" data-start="{" data-end="}">
+<div class="line"><a id="l02650" name="l02650"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#afda177f49619fda164fd0ad6cfe512e9"> 2650</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#a892ccc80c958b43d7528fa07006117e7">PlantArchitecture::deletePlantInstance</a>( <span class="keyword">const</span> std::vector&lt;uint&gt; &amp;plantIDs ){</div>
+<div class="line"><a id="l02651" name="l02651"></a><span class="lineno"> 2651</span> </div>
+<div class="line"><a id="l02652" name="l02652"></a><span class="lineno"> 2652</span>    <span class="keywordflow">for</span>( uint ID : plantIDs ){</div>
+<div class="line"><a id="l02653" name="l02653"></a><span class="lineno"> 2653</span>        <a class="code hl_function" href="class_plant_architecture.html#a892ccc80c958b43d7528fa07006117e7">deletePlantInstance</a>(ID);</div>
+<div class="line"><a id="l02654" name="l02654"></a><span class="lineno"> 2654</span>    }</div>
+<div class="line"><a id="l02655" name="l02655"></a><span class="lineno"> 2655</span> </div>
+<div class="line"><a id="l02656" name="l02656"></a><span class="lineno"> 2656</span>}</div>
 </div>
-<div class="line"><a id="l02656" name="l02656"></a><span class="lineno"> 2656</span> </div>
-<div class="foldopen" id="foldopen02657" data-start="{" data-end="}">
-<div class="line"><a id="l02657" name="l02657"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089"> 2657</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">PlantArchitecture::setPlantPhenologicalThresholds</a>(uint plantID, <span class="keywordtype">float</span> time_to_dormancy_break, <span class="keywordtype">float</span> time_to_flower_initiation, <span class="keywordtype">float</span> time_to_flower_opening, <span class="keywordtype">float</span> time_to_fruit_set, <span class="keywordtype">float</span> time_to_fruit_maturity, <span class="keywordtype">float</span> time_to_senescence, <span class="keywordtype">bool</span> is_evergreen) {</div>
-<div class="line"><a id="l02658" name="l02658"></a><span class="lineno"> 2658</span> </div>
-<div class="line"><a id="l02659" name="l02659"></a><span class="lineno"> 2659</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02660" name="l02660"></a><span class="lineno"> 2660</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPlantPhenologicalThresholds): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02661" name="l02661"></a><span class="lineno"> 2661</span>    }</div>
-<div class="line"><a id="l02662" name="l02662"></a><span class="lineno"> 2662</span> </div>
-<div class="line"><a id="l02663" name="l02663"></a><span class="lineno"> 2663</span>    plant_instances.at(plantID).dd_to_dormancy_break = time_to_dormancy_break;</div>
-<div class="line"><a id="l02664" name="l02664"></a><span class="lineno"> 2664</span>    plant_instances.at(plantID).dd_to_flower_initiation = time_to_flower_initiation;</div>
-<div class="line"><a id="l02665" name="l02665"></a><span class="lineno"> 2665</span>    plant_instances.at(plantID).dd_to_flower_opening = time_to_flower_opening;</div>
-<div class="line"><a id="l02666" name="l02666"></a><span class="lineno"> 2666</span>    plant_instances.at(plantID).dd_to_fruit_set = time_to_fruit_set;</div>
-<div class="line"><a id="l02667" name="l02667"></a><span class="lineno"> 2667</span>    plant_instances.at(plantID).dd_to_fruit_maturity = time_to_fruit_maturity;</div>
-<div class="line"><a id="l02668" name="l02668"></a><span class="lineno"> 2668</span>    plant_instances.at(plantID).dd_to_senescence = time_to_senescence;</div>
-<div class="line"><a id="l02669" name="l02669"></a><span class="lineno"> 2669</span>    plant_instances.at(plantID).is_evergreen = is_evergreen;</div>
-<div class="line"><a id="l02670" name="l02670"></a><span class="lineno"> 2670</span> </div>
-<div class="line"><a id="l02671" name="l02671"></a><span class="lineno"> 2671</span>}</div>
+<div class="line"><a id="l02657" name="l02657"></a><span class="lineno"> 2657</span> </div>
+<div class="foldopen" id="foldopen02658" data-start="{" data-end="}">
+<div class="line"><a id="l02658" name="l02658"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089"> 2658</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">PlantArchitecture::setPlantPhenologicalThresholds</a>(uint plantID, <span class="keywordtype">float</span> time_to_dormancy_break, <span class="keywordtype">float</span> time_to_flower_initiation, <span class="keywordtype">float</span> time_to_flower_opening, <span class="keywordtype">float</span> time_to_fruit_set, <span class="keywordtype">float</span> time_to_fruit_maturity, <span class="keywordtype">float</span> time_to_senescence, <span class="keywordtype">bool</span> is_evergreen) {</div>
+<div class="line"><a id="l02659" name="l02659"></a><span class="lineno"> 2659</span> </div>
+<div class="line"><a id="l02660" name="l02660"></a><span class="lineno"> 2660</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02661" name="l02661"></a><span class="lineno"> 2661</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::setPlantPhenologicalThresholds): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02662" name="l02662"></a><span class="lineno"> 2662</span>    }</div>
+<div class="line"><a id="l02663" name="l02663"></a><span class="lineno"> 2663</span> </div>
+<div class="line"><a id="l02664" name="l02664"></a><span class="lineno"> 2664</span>    plant_instances.at(plantID).dd_to_dormancy_break = time_to_dormancy_break;</div>
+<div class="line"><a id="l02665" name="l02665"></a><span class="lineno"> 2665</span>    plant_instances.at(plantID).dd_to_flower_initiation = time_to_flower_initiation;</div>
+<div class="line"><a id="l02666" name="l02666"></a><span class="lineno"> 2666</span>    plant_instances.at(plantID).dd_to_flower_opening = time_to_flower_opening;</div>
+<div class="line"><a id="l02667" name="l02667"></a><span class="lineno"> 2667</span>    plant_instances.at(plantID).dd_to_fruit_set = time_to_fruit_set;</div>
+<div class="line"><a id="l02668" name="l02668"></a><span class="lineno"> 2668</span>    plant_instances.at(plantID).dd_to_fruit_maturity = time_to_fruit_maturity;</div>
+<div class="line"><a id="l02669" name="l02669"></a><span class="lineno"> 2669</span>    plant_instances.at(plantID).dd_to_senescence = time_to_senescence;</div>
+<div class="line"><a id="l02670" name="l02670"></a><span class="lineno"> 2670</span>    plant_instances.at(plantID).is_evergreen = is_evergreen;</div>
+<div class="line"><a id="l02671" name="l02671"></a><span class="lineno"> 2671</span> </div>
+<div class="line"><a id="l02672" name="l02672"></a><span class="lineno"> 2672</span>}</div>
 </div>
-<div class="line"><a id="l02672" name="l02672"></a><span class="lineno"> 2672</span> </div>
-<div class="line"><a id="l02673" name="l02673"></a><span class="lineno"> 2673</span><span class="keywordtype">void</span> PlantArchitecture::disablePlantPhenology( uint plantID ){</div>
-<div class="line"><a id="l02674" name="l02674"></a><span class="lineno"> 2674</span>    plant_instances.at(plantID).dd_to_dormancy_break = 0;</div>
-<div class="line"><a id="l02675" name="l02675"></a><span class="lineno"> 2675</span>    plant_instances.at(plantID).dd_to_flower_initiation = -1;</div>
-<div class="line"><a id="l02676" name="l02676"></a><span class="lineno"> 2676</span>    plant_instances.at(plantID).dd_to_flower_opening = -1;</div>
-<div class="line"><a id="l02677" name="l02677"></a><span class="lineno"> 2677</span>    plant_instances.at(plantID).dd_to_fruit_set = -1;</div>
-<div class="line"><a id="l02678" name="l02678"></a><span class="lineno"> 2678</span>    plant_instances.at(plantID).dd_to_fruit_maturity = -1;</div>
-<div class="line"><a id="l02679" name="l02679"></a><span class="lineno"> 2679</span>    plant_instances.at(plantID).dd_to_senescence = 1e6;</div>
-<div class="line"><a id="l02680" name="l02680"></a><span class="lineno"> 2680</span>}</div>
-<div class="line"><a id="l02681" name="l02681"></a><span class="lineno"> 2681</span> </div>
-<div class="foldopen" id="foldopen02682" data-start="{" data-end="}">
-<div class="line"><a id="l02682" name="l02682"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#afac9e51e48de17afa485128dbea39019"> 2682</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#afac9e51e48de17afa485128dbea39019">PlantArchitecture::advanceTime</a>( <span class="keywordtype">float</span> dt ){</div>
-<div class="line"><a id="l02683" name="l02683"></a><span class="lineno"> 2683</span> </div>
-<div class="line"><a id="l02684" name="l02684"></a><span class="lineno"> 2684</span>    <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;plant: plant_instances ) {</div>
-<div class="line"><a id="l02685" name="l02685"></a><span class="lineno"> 2685</span> </div>
-<div class="line"><a id="l02686" name="l02686"></a><span class="lineno"> 2686</span>        uint plantID = plant.first;</div>
-<div class="line"><a id="l02687" name="l02687"></a><span class="lineno"> 2687</span> </div>
-<div class="line"><a id="l02688" name="l02688"></a><span class="lineno"> 2688</span>        <a class="code hl_function" href="class_plant_architecture.html#afac9e51e48de17afa485128dbea39019">advanceTime</a>(plantID, dt);</div>
-<div class="line"><a id="l02689" name="l02689"></a><span class="lineno"> 2689</span> </div>
-<div class="line"><a id="l02690" name="l02690"></a><span class="lineno"> 2690</span>    }</div>
-<div class="line"><a id="l02691" name="l02691"></a><span class="lineno"> 2691</span> </div>
-<div class="line"><a id="l02692" name="l02692"></a><span class="lineno"> 2692</span>}</div>
+<div class="line"><a id="l02673" name="l02673"></a><span class="lineno"> 2673</span> </div>
+<div class="line"><a id="l02674" name="l02674"></a><span class="lineno"> 2674</span><span class="keywordtype">void</span> PlantArchitecture::disablePlantPhenology( uint plantID ){</div>
+<div class="line"><a id="l02675" name="l02675"></a><span class="lineno"> 2675</span>    plant_instances.at(plantID).dd_to_dormancy_break = 0;</div>
+<div class="line"><a id="l02676" name="l02676"></a><span class="lineno"> 2676</span>    plant_instances.at(plantID).dd_to_flower_initiation = -1;</div>
+<div class="line"><a id="l02677" name="l02677"></a><span class="lineno"> 2677</span>    plant_instances.at(plantID).dd_to_flower_opening = -1;</div>
+<div class="line"><a id="l02678" name="l02678"></a><span class="lineno"> 2678</span>    plant_instances.at(plantID).dd_to_fruit_set = -1;</div>
+<div class="line"><a id="l02679" name="l02679"></a><span class="lineno"> 2679</span>    plant_instances.at(plantID).dd_to_fruit_maturity = -1;</div>
+<div class="line"><a id="l02680" name="l02680"></a><span class="lineno"> 2680</span>    plant_instances.at(plantID).dd_to_senescence = 1e6;</div>
+<div class="line"><a id="l02681" name="l02681"></a><span class="lineno"> 2681</span>}</div>
+<div class="line"><a id="l02682" name="l02682"></a><span class="lineno"> 2682</span> </div>
+<div class="foldopen" id="foldopen02683" data-start="{" data-end="}">
+<div class="line"><a id="l02683" name="l02683"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#afac9e51e48de17afa485128dbea39019"> 2683</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#afac9e51e48de17afa485128dbea39019">PlantArchitecture::advanceTime</a>( <span class="keywordtype">float</span> dt ){</div>
+<div class="line"><a id="l02684" name="l02684"></a><span class="lineno"> 2684</span> </div>
+<div class="line"><a id="l02685" name="l02685"></a><span class="lineno"> 2685</span>    <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;plant: plant_instances ) {</div>
+<div class="line"><a id="l02686" name="l02686"></a><span class="lineno"> 2686</span> </div>
+<div class="line"><a id="l02687" name="l02687"></a><span class="lineno"> 2687</span>        uint plantID = plant.first;</div>
+<div class="line"><a id="l02688" name="l02688"></a><span class="lineno"> 2688</span> </div>
+<div class="line"><a id="l02689" name="l02689"></a><span class="lineno"> 2689</span>        <a class="code hl_function" href="class_plant_architecture.html#afac9e51e48de17afa485128dbea39019">advanceTime</a>(plantID, dt);</div>
+<div class="line"><a id="l02690" name="l02690"></a><span class="lineno"> 2690</span> </div>
+<div class="line"><a id="l02691" name="l02691"></a><span class="lineno"> 2691</span>    }</div>
+<div class="line"><a id="l02692" name="l02692"></a><span class="lineno"> 2692</span> </div>
+<div class="line"><a id="l02693" name="l02693"></a><span class="lineno"> 2693</span>}</div>
 </div>
-<div class="line"><a id="l02693" name="l02693"></a><span class="lineno"> 2693</span> </div>
-<div class="foldopen" id="foldopen02694" data-start="{" data-end="}">
-<div class="line"><a id="l02694" name="l02694"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#ad366a5288f6b07f0114b1603507e887f"> 2694</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#afac9e51e48de17afa485128dbea39019">PlantArchitecture::advanceTime</a>( uint plantID, <span class="keywordtype">float</span> dt ) {</div>
-<div class="line"><a id="l02695" name="l02695"></a><span class="lineno"> 2695</span> </div>
-<div class="line"><a id="l02696" name="l02696"></a><span class="lineno"> 2696</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
-<div class="line"><a id="l02697" name="l02697"></a><span class="lineno"> 2697</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::advanceTime): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l02698" name="l02698"></a><span class="lineno"> 2698</span>    }</div>
-<div class="line"><a id="l02699" name="l02699"></a><span class="lineno"> 2699</span> </div>
-<div class="line"><a id="l02700" name="l02700"></a><span class="lineno"> 2700</span>    <a class="code hl_struct" href="struct_plant_instance.html">PlantInstance</a>&amp; plant_instance = plant_instances.at(plantID);</div>
-<div class="line"><a id="l02701" name="l02701"></a><span class="lineno"> 2701</span> </div>
-<div class="line"><a id="l02702" name="l02702"></a><span class="lineno"> 2702</span>    <span class="keyword">auto</span> shoot_tree = &amp;plant_instance.shoot_tree;</div>
-<div class="line"><a id="l02703" name="l02703"></a><span class="lineno"> 2703</span> </div>
-<div class="line"><a id="l02704" name="l02704"></a><span class="lineno"> 2704</span>    <span class="keywordflow">if</span>( shoot_tree-&gt;empty() ){</div>
-<div class="line"><a id="l02705" name="l02705"></a><span class="lineno"> 2705</span>        <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l02706" name="l02706"></a><span class="lineno"> 2706</span>    }</div>
-<div class="line"><a id="l02707" name="l02707"></a><span class="lineno"> 2707</span> </div>
-<div class="line"><a id="l02708" name="l02708"></a><span class="lineno"> 2708</span>    <span class="comment">//accounting for case of dt&gt;phyllochron</span></div>
-<div class="line"><a id="l02709" name="l02709"></a><span class="lineno"> 2709</span>    <span class="keywordtype">float</span> phyllochron_min = shoot_tree-&gt;front()-&gt;shoot_parameters.phyllochron.val();</div>
-<div class="line"><a id="l02710" name="l02710"></a><span class="lineno"> 2710</span>    <span class="keywordflow">for</span> ( <span class="keywordtype">int</span> i=1; i&lt;shoot_tree-&gt;size(); i++ ){</div>
-<div class="line"><a id="l02711" name="l02711"></a><span class="lineno"> 2711</span>        <span class="keywordflow">if</span>( shoot_tree-&gt;at(i)-&gt;shoot_parameters.phyllochron.val() &lt; phyllochron_min ){</div>
-<div class="line"><a id="l02712" name="l02712"></a><span class="lineno"> 2712</span>            phyllochron_min = shoot_tree-&gt;at(i)-&gt;shoot_parameters.phyllochron.val();</div>
-<div class="line"><a id="l02713" name="l02713"></a><span class="lineno"> 2713</span>        }</div>
-<div class="line"><a id="l02714" name="l02714"></a><span class="lineno"> 2714</span>    }</div>
-<div class="line"><a id="l02715" name="l02715"></a><span class="lineno"> 2715</span> </div>
-<div class="line"><a id="l02716" name="l02716"></a><span class="lineno"> 2716</span>    <span class="keywordtype">int</span> Nsteps = std::floor(dt/phyllochron_min);</div>
-<div class="line"><a id="l02717" name="l02717"></a><span class="lineno"> 2717</span>    <span class="keywordtype">float</span> remainder_time = dt-phyllochron_min*float(Nsteps);</div>
-<div class="line"><a id="l02718" name="l02718"></a><span class="lineno"> 2718</span>    <span class="keywordflow">if</span>( remainder_time&gt;0.f ){</div>
-<div class="line"><a id="l02719" name="l02719"></a><span class="lineno"> 2719</span>        Nsteps++;</div>
-<div class="line"><a id="l02720" name="l02720"></a><span class="lineno"> 2720</span>    }</div>
-<div class="line"><a id="l02721" name="l02721"></a><span class="lineno"> 2721</span> </div>
-<div class="line"><a id="l02722" name="l02722"></a><span class="lineno"> 2722</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> timestep=0; timestep&lt;Nsteps; timestep++ ) {</div>
-<div class="line"><a id="l02723" name="l02723"></a><span class="lineno"> 2723</span> </div>
-<div class="line"><a id="l02724" name="l02724"></a><span class="lineno"> 2724</span>        <span class="keywordtype">float</span> dt_max = phyllochron_min;</div>
-<div class="line"><a id="l02725" name="l02725"></a><span class="lineno"> 2725</span>        <span class="keywordflow">if</span> (timestep == Nsteps - 1 &amp;&amp; remainder_time != 0.f ) {</div>
-<div class="line"><a id="l02726" name="l02726"></a><span class="lineno"> 2726</span>            dt_max = remainder_time;</div>
-<div class="line"><a id="l02727" name="l02727"></a><span class="lineno"> 2727</span>        }</div>
-<div class="line"><a id="l02728" name="l02728"></a><span class="lineno"> 2728</span> </div>
-<div class="line"><a id="l02729" name="l02729"></a><span class="lineno"> 2729</span>        plant_instance.current_age += dt_max;</div>
-<div class="line"><a id="l02730" name="l02730"></a><span class="lineno"> 2730</span> </div>
-<div class="line"><a id="l02731" name="l02731"></a><span class="lineno"> 2731</span>        <span class="keywordflow">if</span>( plant_instance.current_age &gt; plant_instance.dd_to_senescence ){</div>
-<div class="line"><a id="l02732" name="l02732"></a><span class="lineno"> 2732</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;Going dormant &quot;</span> &lt;&lt; plant_instance.current_age &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; plant_instance.dd_to_senescence &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02733" name="l02733"></a><span class="lineno"> 2733</span>            <span class="keywordflow">for</span> (<span class="keyword">const</span> <span class="keyword">auto</span>&amp; shoot : *shoot_tree) {</div>
-<div class="line"><a id="l02734" name="l02734"></a><span class="lineno"> 2734</span>                shoot-&gt;makeDormant();</div>
-<div class="line"><a id="l02735" name="l02735"></a><span class="lineno"> 2735</span>                shoot-&gt;carbohydrate_pool_molC = 100;</div>
-<div class="line"><a id="l02736" name="l02736"></a><span class="lineno"> 2736</span>                plant_instance.current_age = 0;</div>
-<div class="line"><a id="l02737" name="l02737"></a><span class="lineno"> 2737</span>            }</div>
-<div class="line"><a id="l02738" name="l02738"></a><span class="lineno"> 2738</span>            harvestPlant(plantID);</div>
-<div class="line"><a id="l02739" name="l02739"></a><span class="lineno"> 2739</span>            <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l02740" name="l02740"></a><span class="lineno"> 2740</span>        }</div>
-<div class="line"><a id="l02741" name="l02741"></a><span class="lineno"> 2741</span> </div>
-<div class="line"><a id="l02742" name="l02742"></a><span class="lineno"> 2742</span>        <span class="keywordtype">size_t</span> shoot_count = shoot_tree-&gt;size();</div>
-<div class="line"><a id="l02743" name="l02743"></a><span class="lineno"> 2743</span>        <span class="keywordflow">for</span> ( <span class="keywordtype">int</span> i=0; i&lt;shoot_count; i++ ){</div>
-<div class="line"><a id="l02744" name="l02744"></a><span class="lineno"> 2744</span> </div>
-<div class="line"><a id="l02745" name="l02745"></a><span class="lineno"> 2745</span>            <span class="keyword">auto</span> shoot = shoot_tree-&gt;at(i);</div>
-<div class="line"><a id="l02746" name="l02746"></a><span class="lineno"> 2746</span> </div>
-<div class="line"><a id="l02747" name="l02747"></a><span class="lineno"> 2747</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;phytomer : shoot-&gt;phytomers ){</div>
-<div class="line"><a id="l02748" name="l02748"></a><span class="lineno"> 2748</span> </div>
-<div class="line"><a id="l02749" name="l02749"></a><span class="lineno"> 2749</span>                phytomer-&gt;age += dt_max;</div>
-<div class="line"><a id="l02750" name="l02750"></a><span class="lineno"> 2750</span> </div>
-<div class="line"><a id="l02751" name="l02751"></a><span class="lineno"> 2751</span>                <span class="keywordflow">if</span>(phytomer-&gt;phytomer_parameters.phytomer_callback_function != <span class="keyword">nullptr</span> ) {</div>
-<div class="line"><a id="l02752" name="l02752"></a><span class="lineno"> 2752</span>                    phytomer-&gt;phytomer_parameters.phytomer_callback_function(phytomer);</div>
-<div class="line"><a id="l02753" name="l02753"></a><span class="lineno"> 2753</span>                }</div>
-<div class="line"><a id="l02754" name="l02754"></a><span class="lineno"> 2754</span>            }</div>
-<div class="line"><a id="l02755" name="l02755"></a><span class="lineno"> 2755</span> </div>
-<div class="line"><a id="l02756" name="l02756"></a><span class="lineno"> 2756</span>            <span class="comment">// ****** PHENOLOGICAL TRANSITIONS ****** //</span></div>
-<div class="line"><a id="l02757" name="l02757"></a><span class="lineno"> 2757</span> </div>
-<div class="line"><a id="l02758" name="l02758"></a><span class="lineno"> 2758</span>            <span class="comment">// breaking dormancy</span></div>
-<div class="line"><a id="l02759" name="l02759"></a><span class="lineno"> 2759</span>            <span class="keywordtype">bool</span> dormancy_broken_this_timestep = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02760" name="l02760"></a><span class="lineno"> 2760</span>            <span class="keywordflow">if</span> (shoot-&gt;isdormant &amp;&amp; plant_instance.current_age &gt;= plant_instance.dd_to_dormancy_break) {</div>
-<div class="line"><a id="l02761" name="l02761"></a><span class="lineno"> 2761</span>                shoot-&gt;breakDormancy();</div>
-<div class="line"><a id="l02762" name="l02762"></a><span class="lineno"> 2762</span>                dormancy_broken_this_timestep = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l02763" name="l02763"></a><span class="lineno"> 2763</span>                shoot-&gt;carbohydrate_pool_molC = 1e6;</div>
-<div class="line"><a id="l02764" name="l02764"></a><span class="lineno"> 2764</span>            }</div>
-<div class="line"><a id="l02765" name="l02765"></a><span class="lineno"> 2765</span> </div>
-<div class="line"><a id="l02766" name="l02766"></a><span class="lineno"> 2766</span>            <span class="keywordflow">if</span> (shoot-&gt;isdormant) { <span class="comment">//dormant, don&#39;t do anything</span></div>
-<div class="line"><a id="l02767" name="l02767"></a><span class="lineno"> 2767</span>                <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l02768" name="l02768"></a><span class="lineno"> 2768</span>            }</div>
-<div class="line"><a id="l02769" name="l02769"></a><span class="lineno"> 2769</span> </div>
-<div class="line"><a id="l02770" name="l02770"></a><span class="lineno"> 2770</span>            <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;phytomer: shoot-&gt;phytomers) {</div>
-<div class="line"><a id="l02771" name="l02771"></a><span class="lineno"> 2771</span> </div>
-<div class="line"><a id="l02772" name="l02772"></a><span class="lineno"> 2772</span>                <span class="keywordflow">if</span> (!shoot-&gt;isdormant) {</div>
-<div class="line"><a id="l02773" name="l02773"></a><span class="lineno"> 2773</span>                    phytomer-&gt;time_since_dormancy += dt_max;</div>
-<div class="line"><a id="l02774" name="l02774"></a><span class="lineno"> 2774</span>                }</div>
-<div class="line"><a id="l02775" name="l02775"></a><span class="lineno"> 2775</span> </div>
-<div class="line"><a id="l02776" name="l02776"></a><span class="lineno"> 2776</span>                <span class="keywordflow">if</span> (phytomer-&gt;floral_buds.empty() ) { <span class="comment">//no floral buds - skip this phytomer</span></div>
-<div class="line"><a id="l02777" name="l02777"></a><span class="lineno"> 2777</span>                    <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l02778" name="l02778"></a><span class="lineno"> 2778</span>                }</div>
-<div class="line"><a id="l02779" name="l02779"></a><span class="lineno"> 2779</span> </div>
-<div class="line"><a id="l02780" name="l02780"></a><span class="lineno"> 2780</span>                <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;petiole: phytomer-&gt;floral_buds) {</div>
-<div class="line"><a id="l02781" name="l02781"></a><span class="lineno"> 2781</span>                    <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;fbud: petiole) {</div>
-<div class="line"><a id="l02782" name="l02782"></a><span class="lineno"> 2782</span> </div>
-<div class="line"><a id="l02783" name="l02783"></a><span class="lineno"> 2783</span>                        <span class="keywordflow">if</span> (fbud.state != BUD_DORMANT &amp;&amp; fbud.state != BUD_DEAD) {</div>
-<div class="line"><a id="l02784" name="l02784"></a><span class="lineno"> 2784</span>                            fbud.time_counter += dt_max;</div>
-<div class="line"><a id="l02785" name="l02785"></a><span class="lineno"> 2785</span>                        }</div>
-<div class="line"><a id="l02786" name="l02786"></a><span class="lineno"> 2786</span> </div>
-<div class="line"><a id="l02787" name="l02787"></a><span class="lineno"> 2787</span>                        <span class="comment">// -- Flowering -- //</span></div>
-<div class="line"><a id="l02788" name="l02788"></a><span class="lineno"> 2788</span>                        <span class="keywordflow">if</span> (shoot-&gt;shoot_parameters.phytomer_parameters.inflorescence.flower_prototype_function != <span class="keyword">nullptr</span>) { <span class="comment">//user defined a flower prototype function</span></div>
-<div class="line"><a id="l02789" name="l02789"></a><span class="lineno"> 2789</span>                            <span class="comment">// -- Flower initiation (closed flowers) -- //</span></div>
-<div class="line"><a id="l02790" name="l02790"></a><span class="lineno"> 2790</span>                            <span class="keywordflow">if</span> (fbud.state == BUD_ACTIVE &amp;&amp; plant_instance.dd_to_flower_initiation &gt;= 0.f) { <span class="comment">//bud is active and flower initiation is enabled</span></div>
-<div class="line"><a id="l02791" name="l02791"></a><span class="lineno"> 2791</span>                                <span class="keywordflow">if</span> ((!shoot-&gt;shoot_parameters.flowers_require_dormancy &amp;&amp; plant_instance.current_age &gt;= plant_instance.dd_to_flower_initiation) ||</div>
-<div class="line"><a id="l02792" name="l02792"></a><span class="lineno"> 2792</span>                                    (shoot-&gt;shoot_parameters.flowers_require_dormancy &amp;&amp; phytomer-&gt;time_since_dormancy &gt;= plant_instance.dd_to_flower_initiation)) {</div>
-<div class="line"><a id="l02793" name="l02793"></a><span class="lineno"> 2793</span>                                    fbud.time_counter = 0;</div>
-<div class="line"><a id="l02794" name="l02794"></a><span class="lineno"> 2794</span>                                    <span class="keywordflow">if</span> (context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>() &lt; shoot-&gt;shoot_parameters.flower_bud_break_probability.val() ) {</div>
-<div class="line"><a id="l02795" name="l02795"></a><span class="lineno"> 2795</span>                                        phytomer-&gt;setFloralBudState(BUD_FLOWER_CLOSED, fbud);</div>
-<div class="line"><a id="l02796" name="l02796"></a><span class="lineno"> 2796</span>                                    } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l02797" name="l02797"></a><span class="lineno"> 2797</span>                                        phytomer-&gt;setFloralBudState(BUD_DEAD, fbud);</div>
-<div class="line"><a id="l02798" name="l02798"></a><span class="lineno"> 2798</span>                                    }</div>
-<div class="line"><a id="l02799" name="l02799"></a><span class="lineno"> 2799</span>                                    <span class="keywordflow">if</span> (shoot-&gt;shoot_parameters.determinate_shoot_growth) {</div>
-<div class="line"><a id="l02800" name="l02800"></a><span class="lineno"> 2800</span>                                        shoot-&gt;terminateApicalBud();</div>
-<div class="line"><a id="l02801" name="l02801"></a><span class="lineno"> 2801</span>                                        shoot-&gt;terminateAxillaryVegetativeBuds();</div>
-<div class="line"><a id="l02802" name="l02802"></a><span class="lineno"> 2802</span>                                    }</div>
-<div class="line"><a id="l02803" name="l02803"></a><span class="lineno"> 2803</span>                                }</div>
-<div class="line"><a id="l02804" name="l02804"></a><span class="lineno"> 2804</span> </div>
-<div class="line"><a id="l02805" name="l02805"></a><span class="lineno"> 2805</span>                                <span class="comment">// -- Flower opening -- //</span></div>
-<div class="line"><a id="l02806" name="l02806"></a><span class="lineno"> 2806</span>                            } <span class="keywordflow">else</span> <span class="keywordflow">if</span> ((fbud.state == BUD_FLOWER_CLOSED &amp;&amp; plant_instance.dd_to_flower_opening &gt;= 0.f) ||</div>
-<div class="line"><a id="l02807" name="l02807"></a><span class="lineno"> 2807</span>                                       (fbud.state == BUD_ACTIVE &amp;&amp; plant_instance.dd_to_flower_initiation &lt; 0.f &amp;&amp; plant_instance.dd_to_flower_opening &gt;= 0.f)) {</div>
-<div class="line"><a id="l02808" name="l02808"></a><span class="lineno"> 2808</span>                                <span class="keywordflow">if</span> (fbud.time_counter &gt;= plant_instance.dd_to_flower_opening) {</div>
-<div class="line"><a id="l02809" name="l02809"></a><span class="lineno"> 2809</span>                                    fbud.time_counter = 0;</div>
-<div class="line"><a id="l02810" name="l02810"></a><span class="lineno"> 2810</span>                                    <span class="keywordflow">if</span>( fbud.state == BUD_FLOWER_CLOSED ) {</div>
-<div class="line"><a id="l02811" name="l02811"></a><span class="lineno"> 2811</span>                                        phytomer-&gt;setFloralBudState(BUD_FLOWER_OPEN, fbud);</div>
-<div class="line"><a id="l02812" name="l02812"></a><span class="lineno"> 2812</span>                                    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l02813" name="l02813"></a><span class="lineno"> 2813</span>                                        <span class="keywordflow">if</span> (context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>() &lt; shoot-&gt;shoot_parameters.flower_bud_break_probability.val() ) {</div>
-<div class="line"><a id="l02814" name="l02814"></a><span class="lineno"> 2814</span>                                            phytomer-&gt;setFloralBudState(BUD_FLOWER_OPEN, fbud);</div>
-<div class="line"><a id="l02815" name="l02815"></a><span class="lineno"> 2815</span>                                        } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l02816" name="l02816"></a><span class="lineno"> 2816</span>                                            phytomer-&gt;setFloralBudState(BUD_DEAD, fbud);</div>
-<div class="line"><a id="l02817" name="l02817"></a><span class="lineno"> 2817</span>                                        }</div>
-<div class="line"><a id="l02818" name="l02818"></a><span class="lineno"> 2818</span>                                    }</div>
-<div class="line"><a id="l02819" name="l02819"></a><span class="lineno"> 2819</span>                                    <span class="keywordflow">if</span> (shoot-&gt;shoot_parameters.determinate_shoot_growth) {</div>
-<div class="line"><a id="l02820" name="l02820"></a><span class="lineno"> 2820</span>                                        shoot-&gt;terminateApicalBud();</div>
-<div class="line"><a id="l02821" name="l02821"></a><span class="lineno"> 2821</span>                                        shoot-&gt;terminateAxillaryVegetativeBuds();</div>
-<div class="line"><a id="l02822" name="l02822"></a><span class="lineno"> 2822</span>                                    }</div>
-<div class="line"><a id="l02823" name="l02823"></a><span class="lineno"> 2823</span>                                }</div>
-<div class="line"><a id="l02824" name="l02824"></a><span class="lineno"> 2824</span>                            }</div>
-<div class="line"><a id="l02825" name="l02825"></a><span class="lineno"> 2825</span>                        }</div>
-<div class="line"><a id="l02826" name="l02826"></a><span class="lineno"> 2826</span> </div>
-<div class="line"><a id="l02827" name="l02827"></a><span class="lineno"> 2827</span>                        <span class="comment">// -- Fruit Set -- //</span></div>
-<div class="line"><a id="l02828" name="l02828"></a><span class="lineno"> 2828</span>                        <span class="comment">// If the flower bud is in a &#39;flowering&#39; state, the fruit set occurs after a certain amount of time</span></div>
-<div class="line"><a id="l02829" name="l02829"></a><span class="lineno"> 2829</span>                        <span class="keywordflow">if</span> (shoot-&gt;shoot_parameters.phytomer_parameters.inflorescence.fruit_prototype_function != <span class="keyword">nullptr</span>) {</div>
-<div class="line"><a id="l02830" name="l02830"></a><span class="lineno"> 2830</span>                            <span class="keywordflow">if</span> ((fbud.state == BUD_FLOWER_OPEN &amp;&amp; plant_instance.dd_to_fruit_set &gt;= 0.f) || <span class="comment">//flower opened and fruit set is enabled</span></div>
-<div class="line"><a id="l02831" name="l02831"></a><span class="lineno"> 2831</span>                                (fbud.state == BUD_ACTIVE &amp;&amp; plant_instance.dd_to_flower_initiation &lt; 0.f &amp;&amp; plant_instance.dd_to_flower_opening &lt; 0.f &amp;&amp; plant_instance.dd_to_fruit_set &gt;= 0.f) || <span class="comment">//jumped straight to fruit set with no flowering</span></div>
-<div class="line"><a id="l02832" name="l02832"></a><span class="lineno"> 2832</span>                                (fbud.state == BUD_FLOWER_CLOSED &amp;&amp; plant_instance.dd_to_flower_opening &lt; 0.f &amp;&amp; plant_instance.dd_to_fruit_set &gt;= 0.f)) { <span class="comment">//jumped from closed flower to fruit set with no flower opening</span></div>
-<div class="line"><a id="l02833" name="l02833"></a><span class="lineno"> 2833</span>                                <span class="keywordflow">if</span> (fbud.time_counter &gt;= plant_instance.dd_to_fruit_set) {</div>
-<div class="line"><a id="l02834" name="l02834"></a><span class="lineno"> 2834</span>                                    fbud.time_counter = 0;</div>
-<div class="line"><a id="l02835" name="l02835"></a><span class="lineno"> 2835</span>                                    <span class="keywordflow">if</span> (context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>() &lt; shoot-&gt;shoot_parameters.fruit_set_probability.val() ) {</div>
-<div class="line"><a id="l02836" name="l02836"></a><span class="lineno"> 2836</span>                                        phytomer-&gt;setFloralBudState(BUD_FRUITING, fbud);</div>
-<div class="line"><a id="l02837" name="l02837"></a><span class="lineno"> 2837</span>                                    } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l02838" name="l02838"></a><span class="lineno"> 2838</span>                                        phytomer-&gt;setFloralBudState(BUD_DEAD, fbud);</div>
-<div class="line"><a id="l02839" name="l02839"></a><span class="lineno"> 2839</span>                                    }</div>
-<div class="line"><a id="l02840" name="l02840"></a><span class="lineno"> 2840</span>                                    <span class="keywordflow">if</span> (shoot-&gt;shoot_parameters.determinate_shoot_growth) {</div>
-<div class="line"><a id="l02841" name="l02841"></a><span class="lineno"> 2841</span>                                        shoot-&gt;terminateApicalBud();</div>
-<div class="line"><a id="l02842" name="l02842"></a><span class="lineno"> 2842</span>                                        shoot-&gt;terminateAxillaryVegetativeBuds();</div>
-<div class="line"><a id="l02843" name="l02843"></a><span class="lineno"> 2843</span>                                    }</div>
-<div class="line"><a id="l02844" name="l02844"></a><span class="lineno"> 2844</span>                                }</div>
-<div class="line"><a id="l02845" name="l02845"></a><span class="lineno"> 2845</span>                            }</div>
-<div class="line"><a id="l02846" name="l02846"></a><span class="lineno"> 2846</span>                        }</div>
-<div class="line"><a id="l02847" name="l02847"></a><span class="lineno"> 2847</span> </div>
-<div class="line"><a id="l02848" name="l02848"></a><span class="lineno"> 2848</span>                    }</div>
-<div class="line"><a id="l02849" name="l02849"></a><span class="lineno"> 2849</span>                }</div>
-<div class="line"><a id="l02850" name="l02850"></a><span class="lineno"> 2850</span> </div>
-<div class="line"><a id="l02851" name="l02851"></a><span class="lineno"> 2851</span>            }</div>
-<div class="line"><a id="l02852" name="l02852"></a><span class="lineno"> 2852</span> </div>
-<div class="line"><a id="l02853" name="l02853"></a><span class="lineno"> 2853</span>            <span class="comment">// ****** GROWTH/SCALING OF CURRENT PHYTOMERS/FRUIT ****** //</span></div>
-<div class="line"><a id="l02854" name="l02854"></a><span class="lineno"> 2854</span> </div>
-<div class="line"><a id="l02855" name="l02855"></a><span class="lineno"> 2855</span>            <span class="keywordtype">int</span> node_index = 0;</div>
-<div class="line"><a id="l02856" name="l02856"></a><span class="lineno"> 2856</span>            <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;phytomer: shoot-&gt;phytomers) {</div>
-<div class="line"><a id="l02857" name="l02857"></a><span class="lineno"> 2857</span> </div>
-<div class="line"><a id="l02858" name="l02858"></a><span class="lineno"> 2858</span>                <span class="comment">//scale internode length</span></div>
-<div class="line"><a id="l02859" name="l02859"></a><span class="lineno"> 2859</span>                <span class="keywordflow">if</span> (phytomer-&gt;current_internode_scale_factor &lt; 1) {</div>
-<div class="line"><a id="l02860" name="l02860"></a><span class="lineno"> 2860</span>                    <span class="keywordtype">float</span> dL_internode = dt_max * shoot-&gt;shoot_parameters.elongation_rate.val() * phytomer-&gt;internode_length_max;</div>
-<div class="line"><a id="l02861" name="l02861"></a><span class="lineno"> 2861</span>                    <span class="keywordtype">float</span> length_scale = fmin(1.f, (phytomer-&gt;getInternodeLength() + dL_internode) / phytomer-&gt;internode_length_max);</div>
-<div class="line"><a id="l02862" name="l02862"></a><span class="lineno"> 2862</span>                     phytomer-&gt;setInternodeLengthScaleFraction(length_scale, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l02863" name="l02863"></a><span class="lineno"> 2863</span>                }</div>
-<div class="line"><a id="l02864" name="l02864"></a><span class="lineno"> 2864</span> </div>
-<div class="line"><a id="l02865" name="l02865"></a><span class="lineno"> 2865</span>                <span class="comment">//scale internode girth</span></div>
-<div class="line"><a id="l02866" name="l02866"></a><span class="lineno"> 2866</span>                <span class="keywordtype">float</span> inode_radius = phytomer-&gt;getInternodeRadius();</div>
-<div class="line"><a id="l02867" name="l02867"></a><span class="lineno"> 2867</span>                <span class="keywordflow">if</span> (inode_radius &lt; phytomer-&gt;internode_radius_max &amp;&amp; shoot-&gt;shoot_parameters.girth_area_factor.val()&gt;0.f ) {</div>
-<div class="line"><a id="l02868" name="l02868"></a><span class="lineno"> 2868</span>                    incrementPhytomerInternodeGirth(plantID, shoot-&gt;ID, node_index, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l02869" name="l02869"></a><span class="lineno"> 2869</span>                }</div>
-<div class="line"><a id="l02870" name="l02870"></a><span class="lineno"> 2870</span> </div>
-<div class="line"><a id="l02871" name="l02871"></a><span class="lineno"> 2871</span>                node_index++;</div>
-<div class="line"><a id="l02872" name="l02872"></a><span class="lineno"> 2872</span>            }</div>
-<div class="line"><a id="l02873" name="l02873"></a><span class="lineno"> 2873</span> </div>
-<div class="line"><a id="l02874" name="l02874"></a><span class="lineno"> 2874</span>            node_index = 0;</div>
-<div class="line"><a id="l02875" name="l02875"></a><span class="lineno"> 2875</span>            <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;phytomer: shoot-&gt;phytomers) {</div>
-<div class="line"><a id="l02876" name="l02876"></a><span class="lineno"> 2876</span> </div>
-<div class="line"><a id="l02877" name="l02877"></a><span class="lineno"> 2877</span>                <span class="comment">//scale petiole/leaves</span></div>
-<div class="line"><a id="l02878" name="l02878"></a><span class="lineno"> 2878</span>                <span class="keywordflow">if</span> (phytomer-&gt;hasLeaf() &amp;&amp; phytomer-&gt;current_leaf_scale_factor &lt;= 1) {</div>
-<div class="line"><a id="l02879" name="l02879"></a><span class="lineno"> 2879</span>                    <span class="keywordtype">float</span> tip_ind = ceil(<span class="keywordtype">float</span>(phytomer-&gt;leaf_size_max.front().size()-1)/2.f);</div>
-<div class="line"><a id="l02880" name="l02880"></a><span class="lineno"> 2880</span>                    <span class="keywordtype">float</span> leaf_length = phytomer-&gt;current_leaf_scale_factor * phytomer-&gt;leaf_size_max.front().at(tip_ind);</div>
-<div class="line"><a id="l02881" name="l02881"></a><span class="lineno"> 2881</span>                    <span class="keywordtype">float</span> dL_leaf = dt_max * shoot-&gt;shoot_parameters.elongation_rate.val() * phytomer-&gt;leaf_size_max.front().at(tip_ind);</div>
-<div class="line"><a id="l02882" name="l02882"></a><span class="lineno"> 2882</span>                    <span class="keywordtype">float</span> scale = fmin(1.f, (leaf_length + dL_leaf) / phytomer-&gt;phytomer_parameters.leaf.prototype_scale.val() );</div>
-<div class="line"><a id="l02883" name="l02883"></a><span class="lineno"> 2883</span>                    phytomer-&gt;phytomer_parameters.leaf.prototype_scale.resample();</div>
-<div class="line"><a id="l02884" name="l02884"></a><span class="lineno"> 2884</span>                    phytomer-&gt;setLeafScaleFraction(scale);</div>
-<div class="line"><a id="l02885" name="l02885"></a><span class="lineno"> 2885</span>                }</div>
-<div class="line"><a id="l02886" name="l02886"></a><span class="lineno"> 2886</span> </div>
-<div class="line"><a id="l02887" name="l02887"></a><span class="lineno"> 2887</span>                <span class="comment">//Fruit Growth</span></div>
-<div class="line"><a id="l02888" name="l02888"></a><span class="lineno"> 2888</span>                <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;petiole: phytomer-&gt;floral_buds) {</div>
-<div class="line"><a id="l02889" name="l02889"></a><span class="lineno"> 2889</span>                    <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;fbud: petiole) {</div>
-<div class="line"><a id="l02890" name="l02890"></a><span class="lineno"> 2890</span> </div>
-<div class="line"><a id="l02891" name="l02891"></a><span class="lineno"> 2891</span>                        <span class="comment">// If the floral bud it in a &#39;fruiting&#39; state, the fruit grows with time</span></div>
-<div class="line"><a id="l02892" name="l02892"></a><span class="lineno"> 2892</span>                        <span class="keywordflow">if</span> (fbud.state == BUD_FRUITING &amp;&amp; fbud.time_counter &gt; 0) {</div>
-<div class="line"><a id="l02893" name="l02893"></a><span class="lineno"> 2893</span>                            <span class="keywordtype">float</span> scale = fmin(1, 0.25f + 0.75f * fbud.time_counter / plant_instance.dd_to_fruit_maturity);</div>
-<div class="line"><a id="l02894" name="l02894"></a><span class="lineno"> 2894</span>                            phytomer-&gt;setInflorescenceScaleFraction(fbud, scale);</div>
-<div class="line"><a id="l02895" name="l02895"></a><span class="lineno"> 2895</span>                        }</div>
-<div class="line"><a id="l02896" name="l02896"></a><span class="lineno"> 2896</span>                    }</div>
-<div class="line"><a id="l02897" name="l02897"></a><span class="lineno"> 2897</span>                }</div>
-<div class="line"><a id="l02898" name="l02898"></a><span class="lineno"> 2898</span> </div>
-<div class="line"><a id="l02899" name="l02899"></a><span class="lineno"> 2899</span>                <span class="comment">// ****** NEW CHILD SHOOTS FROM VEGETATIVE BUDS ****** //</span></div>
-<div class="line"><a id="l02900" name="l02900"></a><span class="lineno"> 2900</span>                uint parent_petiole_index = 0;</div>
-<div class="line"><a id="l02901" name="l02901"></a><span class="lineno"> 2901</span>                <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;petiole: phytomer-&gt;axillary_vegetative_buds) {</div>
-<div class="line"><a id="l02902" name="l02902"></a><span class="lineno"> 2902</span>                    <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;vbud: petiole) {</div>
-<div class="line"><a id="l02903" name="l02903"></a><span class="lineno"> 2903</span> </div>
-<div class="line"><a id="l02904" name="l02904"></a><span class="lineno"> 2904</span>                        <span class="keywordflow">if</span> (vbud.state == BUD_ACTIVE &amp;&amp; phytomer-&gt;age + dt_max &gt; shoot-&gt;shoot_parameters.vegetative_bud_break_time.val()) {</div>
-<div class="line"><a id="l02905" name="l02905"></a><span class="lineno"> 2905</span> </div>
-<div class="line"><a id="l02906" name="l02906"></a><span class="lineno"> 2906</span>                            <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> *new_shoot_parameters = &amp;shoot_types.at(vbud.shoot_type_label);</div>
-<div class="line"><a id="l02907" name="l02907"></a><span class="lineno"> 2907</span>                            <span class="keywordtype">int</span> parent_node_count = shoot-&gt;current_node_number;</div>
-<div class="line"><a id="l02908" name="l02908"></a><span class="lineno"> 2908</span> </div>
-<div class="line"><a id="l02909" name="l02909"></a><span class="lineno"> 2909</span><span class="comment">//                            float insertion_angle_adjustment = fmin(new_shoot_parameters-&gt;insertion_angle_tip.val() + new_shoot_parameters-&gt;insertion_angle_decay_rate.val() * float(parent_node_count - phytomer-&gt;shoot_index.x - 1), 90.f);</span></div>
-<div class="line"><a id="l02910" name="l02910"></a><span class="lineno"> 2910</span><span class="comment">//                            AxisRotation base_rotation = make_AxisRotation(deg2rad(insertion_angle_adjustment), deg2rad(new_shoot_parameters-&gt;base_yaw.val()), deg2rad(new_shoot_parameters-&gt;base_roll.val()));</span></div>
-<div class="line"><a id="l02911" name="l02911"></a><span class="lineno"> 2911</span><span class="comment">//                            new_shoot_parameters-&gt;base_yaw.resample();</span></div>
-<div class="line"><a id="l02912" name="l02912"></a><span class="lineno"> 2912</span><span class="comment">//                            if( new_shoot_parameters-&gt;insertion_angle_decay_rate.val()==0 ){</span></div>
-<div class="line"><a id="l02913" name="l02913"></a><span class="lineno"> 2913</span><span class="comment">//                                new_shoot_parameters-&gt;insertion_angle_tip.resample();</span></div>
-<div class="line"><a id="l02914" name="l02914"></a><span class="lineno"> 2914</span><span class="comment">//                            }</span></div>
-<div class="line"><a id="l02915" name="l02915"></a><span class="lineno"> 2915</span>                            <span class="keywordtype">float</span> insertion_angle_adjustment = fmin(shoot-&gt;shoot_parameters.insertion_angle_tip.val() + shoot-&gt;shoot_parameters.insertion_angle_decay_rate.val() * <span class="keywordtype">float</span>(parent_node_count - phytomer-&gt;shoot_index.x - 1), 90.f);</div>
-<div class="line"><a id="l02916" name="l02916"></a><span class="lineno"> 2916</span>                            <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> base_rotation = make_AxisRotation(<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(insertion_angle_adjustment), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(new_shoot_parameters-&gt;base_yaw.val()), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(new_shoot_parameters-&gt;base_roll.val()));</div>
-<div class="line"><a id="l02917" name="l02917"></a><span class="lineno"> 2917</span>                            new_shoot_parameters-&gt;base_yaw.resample();</div>
-<div class="line"><a id="l02918" name="l02918"></a><span class="lineno"> 2918</span>                            <span class="keywordflow">if</span>( shoot-&gt;shoot_parameters.insertion_angle_decay_rate.val()==0 ){</div>
-<div class="line"><a id="l02919" name="l02919"></a><span class="lineno"> 2919</span>                                shoot-&gt;shoot_parameters.insertion_angle_tip.resample();</div>
-<div class="line"><a id="l02920" name="l02920"></a><span class="lineno"> 2920</span>                            }</div>
-<div class="line"><a id="l02921" name="l02921"></a><span class="lineno"> 2921</span> </div>
-<div class="line"><a id="l02922" name="l02922"></a><span class="lineno"> 2922</span>                            <span class="comment">//scale the shoot internode length based on proximity from the tip</span></div>
-<div class="line"><a id="l02923" name="l02923"></a><span class="lineno"> 2923</span>                            <span class="keywordtype">float</span> internode_length_max;</div>
-<div class="line"><a id="l02924" name="l02924"></a><span class="lineno"> 2924</span>                            <span class="keywordflow">if</span> (new_shoot_parameters-&gt;growth_requires_dormancy) {</div>
-<div class="line"><a id="l02925" name="l02925"></a><span class="lineno"> 2925</span>                                internode_length_max = fmax(new_shoot_parameters-&gt;internode_length_max.val() - new_shoot_parameters-&gt;internode_length_decay_rate.val() * <span class="keywordtype">float</span>(parent_node_count - phytomer-&gt;shoot_index.x - 1),</div>
-<div class="line"><a id="l02926" name="l02926"></a><span class="lineno"> 2926</span>                                                            new_shoot_parameters-&gt;internode_length_min.val());</div>
-<div class="line"><a id="l02927" name="l02927"></a><span class="lineno"> 2927</span>                            } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l02928" name="l02928"></a><span class="lineno"> 2928</span>                                internode_length_max = new_shoot_parameters-&gt;internode_length_max.val();</div>
-<div class="line"><a id="l02929" name="l02929"></a><span class="lineno"> 2929</span>                            }</div>
-<div class="line"><a id="l02930" name="l02930"></a><span class="lineno"> 2930</span> </div>
-<div class="line"><a id="l02931" name="l02931"></a><span class="lineno"> 2931</span>                            <span class="keywordtype">float</span> internode_radius = shoot_types.at(vbud.shoot_type_label).internode_radius_initial.val();</div>
-<div class="line"><a id="l02932" name="l02932"></a><span class="lineno"> 2932</span> </div>
-<div class="line"><a id="l02933" name="l02933"></a><span class="lineno"> 2933</span><span class="comment">//                                std::cout &lt;&lt; &quot;Adding child shoot of type &quot; &lt;&lt; vbud.shoot_type_label &lt;&lt; std::endl;</span></div>
-<div class="line"><a id="l02934" name="l02934"></a><span class="lineno"> 2934</span> </div>
-<div class="line"><a id="l02935" name="l02935"></a><span class="lineno"> 2935</span>                            uint childID = <a class="code hl_function" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">addChildShoot</a>(plantID, shoot-&gt;ID, node_index, 1, base_rotation, internode_radius, internode_length_max, 0.01, 0.01, 0, vbud.shoot_type_label, parent_petiole_index);</div>
-<div class="line"><a id="l02936" name="l02936"></a><span class="lineno"> 2936</span> </div>
-<div class="line"><a id="l02937" name="l02937"></a><span class="lineno"> 2937</span>                            phytomer-&gt;setVegetativeBudState( BUD_DEAD, vbud );</div>
-<div class="line"><a id="l02938" name="l02938"></a><span class="lineno"> 2938</span>                            vbud.shoot_ID = childID;</div>
-<div class="line"><a id="l02939" name="l02939"></a><span class="lineno"> 2939</span>                            shoot_tree-&gt;at(childID)-&gt;isdormant = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02940" name="l02940"></a><span class="lineno"> 2940</span> </div>
-<div class="line"><a id="l02941" name="l02941"></a><span class="lineno"> 2941</span>                        }</div>
-<div class="line"><a id="l02942" name="l02942"></a><span class="lineno"> 2942</span> </div>
-<div class="line"><a id="l02943" name="l02943"></a><span class="lineno"> 2943</span>                    }</div>
-<div class="line"><a id="l02944" name="l02944"></a><span class="lineno"> 2944</span>                    parent_petiole_index++;</div>
-<div class="line"><a id="l02945" name="l02945"></a><span class="lineno"> 2945</span>                }</div>
-<div class="line"><a id="l02946" name="l02946"></a><span class="lineno"> 2946</span> </div>
-<div class="line"><a id="l02947" name="l02947"></a><span class="lineno"> 2947</span>                <span class="comment">// check for ground collisions</span></div>
-<div class="line"><a id="l02948" name="l02948"></a><span class="lineno"> 2948</span>                <span class="keywordflow">if</span>( ground_clipping_height!=-99999  ){</div>
-<div class="line"><a id="l02949" name="l02949"></a><span class="lineno"> 2949</span> </div>
-<div class="line"><a id="l02950" name="l02950"></a><span class="lineno"> 2950</span>                    <span class="comment">// internode</span></div>
-<div class="line"><a id="l02951" name="l02951"></a><span class="lineno"> 2951</span>                    <span class="keywordflow">if</span> ( (phytomer-&gt;shoot_index.x==0 &amp;&amp; phytomer-&gt;rank&gt;0 ) &amp;&amp; context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">doesObjectExist</a>(shoot-&gt;internode_tube_objID) &amp;&amp; detectGroundCollision( shoot-&gt;internode_tube_objID ) ) {</div>
-<div class="line"><a id="l02952" name="l02952"></a><span class="lineno"> 2952</span>                        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(shoot-&gt;internode_tube_objID);</div>
-<div class="line"><a id="l02953" name="l02953"></a><span class="lineno"> 2953</span>                        shoot-&gt;terminateApicalBud();</div>
-<div class="line"><a id="l02954" name="l02954"></a><span class="lineno"> 2954</span>                    }</div>
-<div class="line"><a id="l02955" name="l02955"></a><span class="lineno"> 2955</span> </div>
-<div class="line"><a id="l02956" name="l02956"></a><span class="lineno"> 2956</span>                    <span class="comment">// leaves</span></div>
-<div class="line"><a id="l02957" name="l02957"></a><span class="lineno"> 2957</span>                    <span class="keywordflow">for</span>( uint petiole=0; petiole&lt;phytomer-&gt;leaf_objIDs.size(); petiole++ ) {</div>
-<div class="line"><a id="l02958" name="l02958"></a><span class="lineno"> 2958</span> </div>
-<div class="line"><a id="l02959" name="l02959"></a><span class="lineno"> 2959</span>                        <span class="keywordflow">if</span> ( detectGroundCollision(phytomer-&gt;leaf_objIDs.at(petiole)) ) {</div>
-<div class="line"><a id="l02960" name="l02960"></a><span class="lineno"> 2960</span>                            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(phytomer-&gt;leaf_objIDs.at(petiole));</div>
-<div class="line"><a id="l02961" name="l02961"></a><span class="lineno"> 2961</span>                            phytomer-&gt;leaf_objIDs.at(petiole).clear();</div>
-<div class="line"><a id="l02962" name="l02962"></a><span class="lineno"> 2962</span>                            phytomer-&gt;leaf_bases.at(petiole).clear();</div>
-<div class="line"><a id="l02963" name="l02963"></a><span class="lineno"> 2963</span>                            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(phytomer-&gt;petiole_objIDs.at(petiole));</div>
-<div class="line"><a id="l02964" name="l02964"></a><span class="lineno"> 2964</span>                            phytomer-&gt;petiole_objIDs.at(petiole).clear();</div>
-<div class="line"><a id="l02965" name="l02965"></a><span class="lineno"> 2965</span>                        }</div>
-<div class="line"><a id="l02966" name="l02966"></a><span class="lineno"> 2966</span> </div>
-<div class="line"><a id="l02967" name="l02967"></a><span class="lineno"> 2967</span>                    }</div>
-<div class="line"><a id="l02968" name="l02968"></a><span class="lineno"> 2968</span> </div>
-<div class="line"><a id="l02969" name="l02969"></a><span class="lineno"> 2969</span>                    <span class="comment">//inflorescence</span></div>
-<div class="line"><a id="l02970" name="l02970"></a><span class="lineno"> 2970</span>                    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;petiole : phytomer-&gt;floral_buds ) {</div>
-<div class="line"><a id="l02971" name="l02971"></a><span class="lineno"> 2971</span>                        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;fbud : petiole ){</div>
-<div class="line"><a id="l02972" name="l02972"></a><span class="lineno"> 2972</span>                            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> p=fbud.inflorescence_objIDs.size()-1; p&gt;=0; p-- ){</div>
-<div class="line"><a id="l02973" name="l02973"></a><span class="lineno"> 2973</span>                                uint objID = fbud.inflorescence_objIDs.at(p);</div>
-<div class="line"><a id="l02974" name="l02974"></a><span class="lineno"> 2974</span>                                <span class="keywordflow">if</span> ( detectGroundCollision(objID) ) {</div>
-<div class="line"><a id="l02975" name="l02975"></a><span class="lineno"> 2975</span>                                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(objID);</div>
-<div class="line"><a id="l02976" name="l02976"></a><span class="lineno"> 2976</span>                                    fbud.inflorescence_objIDs.erase( fbud.inflorescence_objIDs.begin()+p );</div>
-<div class="line"><a id="l02977" name="l02977"></a><span class="lineno"> 2977</span>                                }</div>
-<div class="line"><a id="l02978" name="l02978"></a><span class="lineno"> 2978</span>                            }</div>
-<div class="line"><a id="l02979" name="l02979"></a><span class="lineno"> 2979</span>                            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> p=fbud.peduncle_objIDs.size()-1; p&gt;=0; p-- ){</div>
-<div class="line"><a id="l02980" name="l02980"></a><span class="lineno"> 2980</span>                                uint objID = fbud.peduncle_objIDs.at(p);</div>
-<div class="line"><a id="l02981" name="l02981"></a><span class="lineno"> 2981</span>                                <span class="keywordflow">if</span> ( detectGroundCollision(objID) ) {</div>
-<div class="line"><a id="l02982" name="l02982"></a><span class="lineno"> 2982</span>                                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(fbud.peduncle_objIDs);</div>
-<div class="line"><a id="l02983" name="l02983"></a><span class="lineno"> 2983</span>                                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(fbud.inflorescence_objIDs);</div>
-<div class="line"><a id="l02984" name="l02984"></a><span class="lineno"> 2984</span>                                    fbud.peduncle_objIDs.clear();</div>
-<div class="line"><a id="l02985" name="l02985"></a><span class="lineno"> 2985</span>                                    fbud.inflorescence_objIDs.clear();</div>
-<div class="line"><a id="l02986" name="l02986"></a><span class="lineno"> 2986</span>                                    <span class="keywordflow">break</span>;</div>
-<div class="line"><a id="l02987" name="l02987"></a><span class="lineno"> 2987</span>                                }</div>
-<div class="line"><a id="l02988" name="l02988"></a><span class="lineno"> 2988</span>                            }</div>
-<div class="line"><a id="l02989" name="l02989"></a><span class="lineno"> 2989</span>                        }</div>
-<div class="line"><a id="l02990" name="l02990"></a><span class="lineno"> 2990</span>                    }</div>
-<div class="line"><a id="l02991" name="l02991"></a><span class="lineno"> 2991</span> </div>
-<div class="line"><a id="l02992" name="l02992"></a><span class="lineno"> 2992</span>                }</div>
-<div class="line"><a id="l02993" name="l02993"></a><span class="lineno"> 2993</span> </div>
-<div class="line"><a id="l02994" name="l02994"></a><span class="lineno"> 2994</span>                <span class="keywordflow">if</span>( output_object_data.at(<span class="stringliteral">&quot;age&quot;</span>) ) {</div>
-<div class="line"><a id="l02995" name="l02995"></a><span class="lineno"> 2995</span>                    <span class="keywordflow">if</span> (shoot-&gt;build_context_geometry_internode) {</div>
-<div class="line"><a id="l02996" name="l02996"></a><span class="lineno"> 2996</span>                        <span class="comment">//\todo This is redundant and only needs to be done once per shoot</span></div>
-<div class="line"><a id="l02997" name="l02997"></a><span class="lineno"> 2997</span>                        <span class="keywordflow">if</span>( context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">doesObjectExist</a>(shoot-&gt;internode_tube_objID) ) {</div>
-<div class="line"><a id="l02998" name="l02998"></a><span class="lineno"> 2998</span>                            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>(shoot-&gt;internode_tube_objID, <span class="stringliteral">&quot;age&quot;</span>, phytomer-&gt;age);</div>
-<div class="line"><a id="l02999" name="l02999"></a><span class="lineno"> 2999</span>                        }</div>
-<div class="line"><a id="l03000" name="l03000"></a><span class="lineno"> 3000</span>                    }</div>
-<div class="line"><a id="l03001" name="l03001"></a><span class="lineno"> 3001</span>                    <span class="keywordflow">if</span> (phytomer-&gt;build_context_geometry_petiole) {</div>
-<div class="line"><a id="l03002" name="l03002"></a><span class="lineno"> 3002</span>                        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>(phytomer-&gt;petiole_objIDs, <span class="stringliteral">&quot;age&quot;</span>, phytomer-&gt;age);</div>
-<div class="line"><a id="l03003" name="l03003"></a><span class="lineno"> 3003</span>                    }</div>
-<div class="line"><a id="l03004" name="l03004"></a><span class="lineno"> 3004</span>                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>(phytomer-&gt;leaf_objIDs, <span class="stringliteral">&quot;age&quot;</span>, phytomer-&gt;age);</div>
-<div class="line"><a id="l03005" name="l03005"></a><span class="lineno"> 3005</span>                }</div>
-<div class="line"><a id="l03006" name="l03006"></a><span class="lineno"> 3006</span> </div>
-<div class="line"><a id="l03007" name="l03007"></a><span class="lineno"> 3007</span>                node_index++;</div>
-<div class="line"><a id="l03008" name="l03008"></a><span class="lineno"> 3008</span>            }</div>
-<div class="line"><a id="l03009" name="l03009"></a><span class="lineno"> 3009</span> </div>
-<div class="line"><a id="l03010" name="l03010"></a><span class="lineno"> 3010</span>            <span class="comment">// if shoot has reached max_nodes, stop apical growth</span></div>
-<div class="line"><a id="l03011" name="l03011"></a><span class="lineno"> 3011</span>            <span class="keywordflow">if</span> (shoot-&gt;current_node_number &gt;= shoot-&gt;shoot_parameters.max_nodes.val()) {</div>
-<div class="line"><a id="l03012" name="l03012"></a><span class="lineno"> 3012</span>                shoot-&gt;terminateApicalBud();</div>
-<div class="line"><a id="l03013" name="l03013"></a><span class="lineno"> 3013</span>            }</div>
-<div class="line"><a id="l03014" name="l03014"></a><span class="lineno"> 3014</span> </div>
-<div class="line"><a id="l03015" name="l03015"></a><span class="lineno"> 3015</span>            <span class="comment">// If the apical bud is dead, don&#39;t do anything more with the shoot</span></div>
-<div class="line"><a id="l03016" name="l03016"></a><span class="lineno"> 3016</span>            <span class="keywordflow">if</span> (!shoot-&gt;meristem_is_alive) {</div>
-<div class="line"><a id="l03017" name="l03017"></a><span class="lineno"> 3017</span>                <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l03018" name="l03018"></a><span class="lineno"> 3018</span>            }</div>
-<div class="line"><a id="l03019" name="l03019"></a><span class="lineno"> 3019</span> </div>
-<div class="line"><a id="l03020" name="l03020"></a><span class="lineno"> 3020</span>            <span class="comment">// ****** PHYLLOCHRON - NEW PHYTOMERS ****** //</span></div>
-<div class="line"><a id="l03021" name="l03021"></a><span class="lineno"> 3021</span>            shoot-&gt;phyllochron_counter += dt_max;</div>
-<div class="line"><a id="l03022" name="l03022"></a><span class="lineno"> 3022</span>            <span class="keywordflow">if</span> (shoot-&gt;phyllochron_counter &gt;= <span class="keywordtype">float</span>(shoot-&gt;shoot_parameters.leaf_flush_count) * shoot-&gt;shoot_parameters.phyllochron.val()) {</div>
-<div class="line"><a id="l03023" name="l03023"></a><span class="lineno"> 3023</span>                <span class="keywordtype">float</span> internode_radius = shoot-&gt;shoot_parameters.internode_radius_initial.val();</div>
-<div class="line"><a id="l03024" name="l03024"></a><span class="lineno"> 3024</span>                <span class="keywordtype">float</span> internode_length_max = shoot-&gt;internode_length_max_shoot_initial;</div>
-<div class="line"><a id="l03025" name="l03025"></a><span class="lineno"> 3025</span>                <span class="keywordflow">for</span> (<span class="keywordtype">int</span> leaf = 0; leaf &lt; shoot-&gt;shoot_parameters.leaf_flush_count; leaf++) {</div>
-<div class="line"><a id="l03026" name="l03026"></a><span class="lineno"> 3026</span>                    <a class="code hl_function" href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">appendPhytomerToShoot</a>(plantID, shoot-&gt;ID, shoot_types.at(shoot-&gt;shoot_type_label).phytomer_parameters, internode_radius, internode_length_max, 0.01, 0.01); <span class="comment">//\todo These factors should be set to be consistent with the shoot</span></div>
-<div class="line"><a id="l03027" name="l03027"></a><span class="lineno"> 3027</span>                }</div>
-<div class="line"><a id="l03028" name="l03028"></a><span class="lineno"> 3028</span>                shoot-&gt;shoot_parameters.phyllochron.resample();</div>
-<div class="line"><a id="l03029" name="l03029"></a><span class="lineno"> 3029</span>                shoot-&gt;phyllochron_counter = shoot-&gt;phyllochron_counter - float(shoot-&gt;shoot_parameters.leaf_flush_count) * shoot-&gt;shoot_parameters.phyllochron.val();</div>
-<div class="line"><a id="l03030" name="l03030"></a><span class="lineno"> 3030</span>            }</div>
-<div class="line"><a id="l03031" name="l03031"></a><span class="lineno"> 3031</span> </div>
-<div class="line"><a id="l03032" name="l03032"></a><span class="lineno"> 3032</span>            <span class="comment">// ****** EPICORMIC SHOOTS ****** //</span></div>
-<div class="line"><a id="l03033" name="l03033"></a><span class="lineno"> 3033</span>            std::string epicormic_shoot_label = plant_instance.epicormic_shoot_probability_perlength_per_day.first;</div>
-<div class="line"><a id="l03034" name="l03034"></a><span class="lineno"> 3034</span>            <span class="keywordflow">if</span>( !epicormic_shoot_label.empty() ) {</div>
-<div class="line"><a id="l03035" name="l03035"></a><span class="lineno"> 3035</span>                std::vector&lt;float&gt; epicormic_fraction;</div>
-<div class="line"><a id="l03036" name="l03036"></a><span class="lineno"> 3036</span>                uint Nepicormic = shoot-&gt;sampleEpicormicShoot(dt, epicormic_fraction);</div>
-<div class="line"><a id="l03037" name="l03037"></a><span class="lineno"> 3037</span>                <span class="keywordflow">for</span> (<span class="keywordtype">int</span> s = 0; s &lt; Nepicormic; s++) {</div>
-<div class="line"><a id="l03038" name="l03038"></a><span class="lineno"> 3038</span>                    <span class="keywordtype">float</span> internode_radius = shoot_types.at(epicormic_shoot_label).internode_radius_initial.val();</div>
-<div class="line"><a id="l03039" name="l03039"></a><span class="lineno"> 3039</span>                    shoot_types.at(epicormic_shoot_label).internode_radius_initial.resample();</div>
-<div class="line"><a id="l03040" name="l03040"></a><span class="lineno"> 3040</span>                    <span class="keywordtype">float</span> internode_length_max = shoot_types.at(epicormic_shoot_label).internode_length_max.val();</div>
-<div class="line"><a id="l03041" name="l03041"></a><span class="lineno"> 3041</span>                    shoot_types.at(epicormic_shoot_label).internode_length_max.resample();</div>
-<div class="line"><a id="l03042" name="l03042"></a><span class="lineno"> 3042</span>                    std::cout &lt;&lt; <span class="stringliteral">&quot;Adding epicormic shoot&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03043" name="l03043"></a><span class="lineno"> 3043</span>                    <a class="code hl_function" href="class_plant_architecture.html#ade786dc8bb429eb033d29ccf9df6b254">addEpicormicShoot</a>(plantID, shoot-&gt;ID, epicormic_fraction.at(s), 1, 0, internode_radius, internode_length_max, 0.01, 0.01, 0, epicormic_shoot_label);</div>
-<div class="line"><a id="l03044" name="l03044"></a><span class="lineno"> 3044</span>                }</div>
-<div class="line"><a id="l03045" name="l03045"></a><span class="lineno"> 3045</span>            }</div>
-<div class="line"><a id="l03046" name="l03046"></a><span class="lineno"> 3046</span> </div>
-<div class="line"><a id="l03047" name="l03047"></a><span class="lineno"> 3047</span>            <span class="comment">// **** subtract maintenance carbon costs **** //</span></div>
-<div class="line"><a id="l03048" name="l03048"></a><span class="lineno"> 3048</span>            subtractShootMaintenanceCarbon(dt_max);</div>
-<div class="line"><a id="l03049" name="l03049"></a><span class="lineno"> 3049</span> </div>
-<div class="line"><a id="l03050" name="l03050"></a><span class="lineno"> 3050</span>            <span class="keywordflow">if</span>( output_object_data.find(<span class="stringliteral">&quot;carbohydrate_concentration&quot;</span>)!=output_object_data.end() ){</div>
-<div class="line"><a id="l03051" name="l03051"></a><span class="lineno"> 3051</span>                <span class="keywordtype">float</span> shoot_volume = shoot-&gt;calculateShootInternodeVolume();</div>
-<div class="line"><a id="l03052" name="l03052"></a><span class="lineno"> 3052</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>( shoot-&gt;internode_tube_objID, <span class="stringliteral">&quot;carbohydrate_concentration&quot;</span>, shoot-&gt;carbohydrate_pool_molC / shoot_volume );</div>
-<div class="line"><a id="l03053" name="l03053"></a><span class="lineno"> 3053</span>            }</div>
-<div class="line"><a id="l03054" name="l03054"></a><span class="lineno"> 3054</span> </div>
-<div class="line"><a id="l03055" name="l03055"></a><span class="lineno"> 3055</span>        }</div>
-<div class="line"><a id="l03056" name="l03056"></a><span class="lineno"> 3056</span> </div>
-<div class="line"><a id="l03057" name="l03057"></a><span class="lineno"> 3057</span>    }</div>
-<div class="line"><a id="l03058" name="l03058"></a><span class="lineno"> 3058</span> </div>
-<div class="line"><a id="l03059" name="l03059"></a><span class="lineno"> 3059</span>    <span class="comment">//update Context geometry</span></div>
-<div class="line"><a id="l03060" name="l03060"></a><span class="lineno"> 3060</span>    shoot_tree-&gt;front()-&gt;updateShootNodes(<span class="keyword">true</span>);</div>
-<div class="line"><a id="l03061" name="l03061"></a><span class="lineno"> 3061</span> </div>
-<div class="line"><a id="l03062" name="l03062"></a><span class="lineno"> 3062</span>}</div>
+<div class="line"><a id="l02694" name="l02694"></a><span class="lineno"> 2694</span> </div>
+<div class="foldopen" id="foldopen02695" data-start="{" data-end="}">
+<div class="line"><a id="l02695" name="l02695"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#ad366a5288f6b07f0114b1603507e887f"> 2695</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#afac9e51e48de17afa485128dbea39019">PlantArchitecture::advanceTime</a>( uint plantID, <span class="keywordtype">float</span> dt ) {</div>
+<div class="line"><a id="l02696" name="l02696"></a><span class="lineno"> 2696</span> </div>
+<div class="line"><a id="l02697" name="l02697"></a><span class="lineno"> 2697</span>    <span class="keywordflow">if</span>( plant_instances.find(plantID) == plant_instances.end() ){</div>
+<div class="line"><a id="l02698" name="l02698"></a><span class="lineno"> 2698</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (PlantArchitecture::advanceTime): Plant with ID of &quot;</span> + std::to_string(plantID) + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l02699" name="l02699"></a><span class="lineno"> 2699</span>    }</div>
+<div class="line"><a id="l02700" name="l02700"></a><span class="lineno"> 2700</span> </div>
+<div class="line"><a id="l02701" name="l02701"></a><span class="lineno"> 2701</span>    <a class="code hl_struct" href="struct_plant_instance.html">PlantInstance</a>&amp; plant_instance = plant_instances.at(plantID);</div>
+<div class="line"><a id="l02702" name="l02702"></a><span class="lineno"> 2702</span> </div>
+<div class="line"><a id="l02703" name="l02703"></a><span class="lineno"> 2703</span>    <span class="keyword">auto</span> shoot_tree = &amp;plant_instance.shoot_tree;</div>
+<div class="line"><a id="l02704" name="l02704"></a><span class="lineno"> 2704</span> </div>
+<div class="line"><a id="l02705" name="l02705"></a><span class="lineno"> 2705</span>    <span class="keywordflow">if</span>( shoot_tree-&gt;empty() ){</div>
+<div class="line"><a id="l02706" name="l02706"></a><span class="lineno"> 2706</span>        <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l02707" name="l02707"></a><span class="lineno"> 2707</span>    }</div>
+<div class="line"><a id="l02708" name="l02708"></a><span class="lineno"> 2708</span> </div>
+<div class="line"><a id="l02709" name="l02709"></a><span class="lineno"> 2709</span>    <span class="comment">//accounting for case of dt&gt;phyllochron</span></div>
+<div class="line"><a id="l02710" name="l02710"></a><span class="lineno"> 2710</span>    <span class="keywordtype">float</span> phyllochron_min = shoot_tree-&gt;front()-&gt;shoot_parameters.phyllochron.val();</div>
+<div class="line"><a id="l02711" name="l02711"></a><span class="lineno"> 2711</span>    <span class="keywordflow">for</span> ( <span class="keywordtype">int</span> i=1; i&lt;shoot_tree-&gt;size(); i++ ){</div>
+<div class="line"><a id="l02712" name="l02712"></a><span class="lineno"> 2712</span>        <span class="keywordflow">if</span>( shoot_tree-&gt;at(i)-&gt;shoot_parameters.phyllochron.val() &lt; phyllochron_min ){</div>
+<div class="line"><a id="l02713" name="l02713"></a><span class="lineno"> 2713</span>            phyllochron_min = shoot_tree-&gt;at(i)-&gt;shoot_parameters.phyllochron.val();</div>
+<div class="line"><a id="l02714" name="l02714"></a><span class="lineno"> 2714</span>        }</div>
+<div class="line"><a id="l02715" name="l02715"></a><span class="lineno"> 2715</span>    }</div>
+<div class="line"><a id="l02716" name="l02716"></a><span class="lineno"> 2716</span> </div>
+<div class="line"><a id="l02717" name="l02717"></a><span class="lineno"> 2717</span>    <span class="keywordtype">int</span> Nsteps = std::floor(dt/phyllochron_min);</div>
+<div class="line"><a id="l02718" name="l02718"></a><span class="lineno"> 2718</span>    <span class="keywordtype">float</span> remainder_time = dt-phyllochron_min*float(Nsteps);</div>
+<div class="line"><a id="l02719" name="l02719"></a><span class="lineno"> 2719</span>    <span class="keywordflow">if</span>( remainder_time&gt;0.f ){</div>
+<div class="line"><a id="l02720" name="l02720"></a><span class="lineno"> 2720</span>        Nsteps++;</div>
+<div class="line"><a id="l02721" name="l02721"></a><span class="lineno"> 2721</span>    }</div>
+<div class="line"><a id="l02722" name="l02722"></a><span class="lineno"> 2722</span> </div>
+<div class="line"><a id="l02723" name="l02723"></a><span class="lineno"> 2723</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> timestep=0; timestep&lt;Nsteps; timestep++ ) {</div>
+<div class="line"><a id="l02724" name="l02724"></a><span class="lineno"> 2724</span> </div>
+<div class="line"><a id="l02725" name="l02725"></a><span class="lineno"> 2725</span>        <span class="keywordtype">float</span> dt_max = phyllochron_min;</div>
+<div class="line"><a id="l02726" name="l02726"></a><span class="lineno"> 2726</span>        <span class="keywordflow">if</span> (timestep == Nsteps - 1 &amp;&amp; remainder_time != 0.f ) {</div>
+<div class="line"><a id="l02727" name="l02727"></a><span class="lineno"> 2727</span>            dt_max = remainder_time;</div>
+<div class="line"><a id="l02728" name="l02728"></a><span class="lineno"> 2728</span>        }</div>
+<div class="line"><a id="l02729" name="l02729"></a><span class="lineno"> 2729</span> </div>
+<div class="line"><a id="l02730" name="l02730"></a><span class="lineno"> 2730</span>        plant_instance.current_age += dt_max;</div>
+<div class="line"><a id="l02731" name="l02731"></a><span class="lineno"> 2731</span> </div>
+<div class="line"><a id="l02732" name="l02732"></a><span class="lineno"> 2732</span>        <span class="keywordflow">if</span>( plant_instance.current_age &gt; plant_instance.dd_to_senescence ){</div>
+<div class="line"><a id="l02733" name="l02733"></a><span class="lineno"> 2733</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;Going dormant&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02734" name="l02734"></a><span class="lineno"> 2734</span>            <span class="keywordflow">for</span> (<span class="keyword">const</span> <span class="keyword">auto</span>&amp; shoot : *shoot_tree) {</div>
+<div class="line"><a id="l02735" name="l02735"></a><span class="lineno"> 2735</span>                shoot-&gt;makeDormant();</div>
+<div class="line"><a id="l02736" name="l02736"></a><span class="lineno"> 2736</span>                shoot-&gt;carbohydrate_pool_molC = 100;</div>
+<div class="line"><a id="l02737" name="l02737"></a><span class="lineno"> 2737</span>                plant_instance.current_age = 0;</div>
+<div class="line"><a id="l02738" name="l02738"></a><span class="lineno"> 2738</span>            }</div>
+<div class="line"><a id="l02739" name="l02739"></a><span class="lineno"> 2739</span>            harvestPlant(plantID);</div>
+<div class="line"><a id="l02740" name="l02740"></a><span class="lineno"> 2740</span>            <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l02741" name="l02741"></a><span class="lineno"> 2741</span>        }</div>
+<div class="line"><a id="l02742" name="l02742"></a><span class="lineno"> 2742</span> </div>
+<div class="line"><a id="l02743" name="l02743"></a><span class="lineno"> 2743</span>        <span class="keywordtype">size_t</span> shoot_count = shoot_tree-&gt;size();</div>
+<div class="line"><a id="l02744" name="l02744"></a><span class="lineno"> 2744</span>        <span class="keywordflow">for</span> ( <span class="keywordtype">int</span> i=0; i&lt;shoot_count; i++ ){</div>
+<div class="line"><a id="l02745" name="l02745"></a><span class="lineno"> 2745</span> </div>
+<div class="line"><a id="l02746" name="l02746"></a><span class="lineno"> 2746</span>            <span class="keyword">auto</span> shoot = shoot_tree-&gt;at(i);</div>
+<div class="line"><a id="l02747" name="l02747"></a><span class="lineno"> 2747</span> </div>
+<div class="line"><a id="l02748" name="l02748"></a><span class="lineno"> 2748</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;phytomer : shoot-&gt;phytomers ){</div>
+<div class="line"><a id="l02749" name="l02749"></a><span class="lineno"> 2749</span> </div>
+<div class="line"><a id="l02750" name="l02750"></a><span class="lineno"> 2750</span>                phytomer-&gt;age += dt_max;</div>
+<div class="line"><a id="l02751" name="l02751"></a><span class="lineno"> 2751</span> </div>
+<div class="line"><a id="l02752" name="l02752"></a><span class="lineno"> 2752</span>                <span class="keywordflow">if</span>(phytomer-&gt;phytomer_parameters.phytomer_callback_function != <span class="keyword">nullptr</span> ) {</div>
+<div class="line"><a id="l02753" name="l02753"></a><span class="lineno"> 2753</span>                    phytomer-&gt;phytomer_parameters.phytomer_callback_function(phytomer);</div>
+<div class="line"><a id="l02754" name="l02754"></a><span class="lineno"> 2754</span>                }</div>
+<div class="line"><a id="l02755" name="l02755"></a><span class="lineno"> 2755</span>            }</div>
+<div class="line"><a id="l02756" name="l02756"></a><span class="lineno"> 2756</span> </div>
+<div class="line"><a id="l02757" name="l02757"></a><span class="lineno"> 2757</span>            <span class="comment">// ****** PHENOLOGICAL TRANSITIONS ****** //</span></div>
+<div class="line"><a id="l02758" name="l02758"></a><span class="lineno"> 2758</span> </div>
+<div class="line"><a id="l02759" name="l02759"></a><span class="lineno"> 2759</span>            <span class="comment">// breaking dormancy</span></div>
+<div class="line"><a id="l02760" name="l02760"></a><span class="lineno"> 2760</span>            <span class="keywordtype">bool</span> dormancy_broken_this_timestep = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02761" name="l02761"></a><span class="lineno"> 2761</span>            <span class="keywordflow">if</span> (shoot-&gt;isdormant &amp;&amp; plant_instance.current_age &gt;= plant_instance.dd_to_dormancy_break) {</div>
+<div class="line"><a id="l02762" name="l02762"></a><span class="lineno"> 2762</span>                shoot-&gt;breakDormancy();</div>
+<div class="line"><a id="l02763" name="l02763"></a><span class="lineno"> 2763</span>                dormancy_broken_this_timestep = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l02764" name="l02764"></a><span class="lineno"> 2764</span>                shoot-&gt;carbohydrate_pool_molC = 1e6;</div>
+<div class="line"><a id="l02765" name="l02765"></a><span class="lineno"> 2765</span>            }</div>
+<div class="line"><a id="l02766" name="l02766"></a><span class="lineno"> 2766</span> </div>
+<div class="line"><a id="l02767" name="l02767"></a><span class="lineno"> 2767</span>            <span class="keywordflow">if</span> (shoot-&gt;isdormant) { <span class="comment">//dormant, don&#39;t do anything</span></div>
+<div class="line"><a id="l02768" name="l02768"></a><span class="lineno"> 2768</span>                <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l02769" name="l02769"></a><span class="lineno"> 2769</span>            }</div>
+<div class="line"><a id="l02770" name="l02770"></a><span class="lineno"> 2770</span> </div>
+<div class="line"><a id="l02771" name="l02771"></a><span class="lineno"> 2771</span>            <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;phytomer: shoot-&gt;phytomers) {</div>
+<div class="line"><a id="l02772" name="l02772"></a><span class="lineno"> 2772</span> </div>
+<div class="line"><a id="l02773" name="l02773"></a><span class="lineno"> 2773</span>                <span class="keywordflow">if</span> (!shoot-&gt;isdormant) {</div>
+<div class="line"><a id="l02774" name="l02774"></a><span class="lineno"> 2774</span>                    phytomer-&gt;time_since_dormancy += dt_max;</div>
+<div class="line"><a id="l02775" name="l02775"></a><span class="lineno"> 2775</span>                }</div>
+<div class="line"><a id="l02776" name="l02776"></a><span class="lineno"> 2776</span> </div>
+<div class="line"><a id="l02777" name="l02777"></a><span class="lineno"> 2777</span>                <span class="keywordflow">if</span> (phytomer-&gt;floral_buds.empty() ) { <span class="comment">//no floral buds - skip this phytomer</span></div>
+<div class="line"><a id="l02778" name="l02778"></a><span class="lineno"> 2778</span>                    <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l02779" name="l02779"></a><span class="lineno"> 2779</span>                }</div>
+<div class="line"><a id="l02780" name="l02780"></a><span class="lineno"> 2780</span> </div>
+<div class="line"><a id="l02781" name="l02781"></a><span class="lineno"> 2781</span>                <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;petiole: phytomer-&gt;floral_buds) {</div>
+<div class="line"><a id="l02782" name="l02782"></a><span class="lineno"> 2782</span>                    <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;fbud: petiole) {</div>
+<div class="line"><a id="l02783" name="l02783"></a><span class="lineno"> 2783</span> </div>
+<div class="line"><a id="l02784" name="l02784"></a><span class="lineno"> 2784</span>                        <span class="keywordflow">if</span> (fbud.state != BUD_DORMANT &amp;&amp; fbud.state != BUD_DEAD) {</div>
+<div class="line"><a id="l02785" name="l02785"></a><span class="lineno"> 2785</span>                            fbud.time_counter += dt_max;</div>
+<div class="line"><a id="l02786" name="l02786"></a><span class="lineno"> 2786</span>                        }</div>
+<div class="line"><a id="l02787" name="l02787"></a><span class="lineno"> 2787</span> </div>
+<div class="line"><a id="l02788" name="l02788"></a><span class="lineno"> 2788</span>                        <span class="comment">// -- Flowering -- //</span></div>
+<div class="line"><a id="l02789" name="l02789"></a><span class="lineno"> 2789</span>                        <span class="keywordflow">if</span> (shoot-&gt;shoot_parameters.phytomer_parameters.inflorescence.flower_prototype_function != <span class="keyword">nullptr</span>) { <span class="comment">//user defined a flower prototype function</span></div>
+<div class="line"><a id="l02790" name="l02790"></a><span class="lineno"> 2790</span>                            <span class="comment">// -- Flower initiation (closed flowers) -- //</span></div>
+<div class="line"><a id="l02791" name="l02791"></a><span class="lineno"> 2791</span>                            <span class="keywordflow">if</span> (fbud.state == BUD_ACTIVE &amp;&amp; plant_instance.dd_to_flower_initiation &gt;= 0.f) { <span class="comment">//bud is active and flower initiation is enabled</span></div>
+<div class="line"><a id="l02792" name="l02792"></a><span class="lineno"> 2792</span>                                <span class="keywordflow">if</span> ((!shoot-&gt;shoot_parameters.flowers_require_dormancy &amp;&amp; plant_instance.current_age &gt;= plant_instance.dd_to_flower_initiation) ||</div>
+<div class="line"><a id="l02793" name="l02793"></a><span class="lineno"> 2793</span>                                    (shoot-&gt;shoot_parameters.flowers_require_dormancy &amp;&amp; phytomer-&gt;time_since_dormancy &gt;= plant_instance.dd_to_flower_initiation)) {</div>
+<div class="line"><a id="l02794" name="l02794"></a><span class="lineno"> 2794</span>                                    fbud.time_counter = 0;</div>
+<div class="line"><a id="l02795" name="l02795"></a><span class="lineno"> 2795</span>                                    <span class="keywordflow">if</span> (context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>() &lt; shoot-&gt;shoot_parameters.flower_bud_break_probability.val() ) {</div>
+<div class="line"><a id="l02796" name="l02796"></a><span class="lineno"> 2796</span>                                        phytomer-&gt;setFloralBudState(BUD_FLOWER_CLOSED, fbud);</div>
+<div class="line"><a id="l02797" name="l02797"></a><span class="lineno"> 2797</span>                                    } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l02798" name="l02798"></a><span class="lineno"> 2798</span>                                        phytomer-&gt;setFloralBudState(BUD_DEAD, fbud);</div>
+<div class="line"><a id="l02799" name="l02799"></a><span class="lineno"> 2799</span>                                    }</div>
+<div class="line"><a id="l02800" name="l02800"></a><span class="lineno"> 2800</span>                                    <span class="keywordflow">if</span> (shoot-&gt;shoot_parameters.determinate_shoot_growth) {</div>
+<div class="line"><a id="l02801" name="l02801"></a><span class="lineno"> 2801</span>                                        shoot-&gt;terminateApicalBud();</div>
+<div class="line"><a id="l02802" name="l02802"></a><span class="lineno"> 2802</span>                                        shoot-&gt;terminateAxillaryVegetativeBuds();</div>
+<div class="line"><a id="l02803" name="l02803"></a><span class="lineno"> 2803</span>                                    }</div>
+<div class="line"><a id="l02804" name="l02804"></a><span class="lineno"> 2804</span>                                }</div>
+<div class="line"><a id="l02805" name="l02805"></a><span class="lineno"> 2805</span> </div>
+<div class="line"><a id="l02806" name="l02806"></a><span class="lineno"> 2806</span>                                <span class="comment">// -- Flower opening -- //</span></div>
+<div class="line"><a id="l02807" name="l02807"></a><span class="lineno"> 2807</span>                            } <span class="keywordflow">else</span> <span class="keywordflow">if</span> ((fbud.state == BUD_FLOWER_CLOSED &amp;&amp; plant_instance.dd_to_flower_opening &gt;= 0.f) ||</div>
+<div class="line"><a id="l02808" name="l02808"></a><span class="lineno"> 2808</span>                                       (fbud.state == BUD_ACTIVE &amp;&amp; plant_instance.dd_to_flower_initiation &lt; 0.f &amp;&amp; plant_instance.dd_to_flower_opening &gt;= 0.f)) {</div>
+<div class="line"><a id="l02809" name="l02809"></a><span class="lineno"> 2809</span>                                <span class="keywordflow">if</span> (fbud.time_counter &gt;= plant_instance.dd_to_flower_opening) {</div>
+<div class="line"><a id="l02810" name="l02810"></a><span class="lineno"> 2810</span>                                    fbud.time_counter = 0;</div>
+<div class="line"><a id="l02811" name="l02811"></a><span class="lineno"> 2811</span>                                    <span class="keywordflow">if</span>( fbud.state == BUD_FLOWER_CLOSED ) {</div>
+<div class="line"><a id="l02812" name="l02812"></a><span class="lineno"> 2812</span>                                        phytomer-&gt;setFloralBudState(BUD_FLOWER_OPEN, fbud);</div>
+<div class="line"><a id="l02813" name="l02813"></a><span class="lineno"> 2813</span>                                    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l02814" name="l02814"></a><span class="lineno"> 2814</span>                                        <span class="keywordflow">if</span> (context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>() &lt; shoot-&gt;shoot_parameters.flower_bud_break_probability.val() ) {</div>
+<div class="line"><a id="l02815" name="l02815"></a><span class="lineno"> 2815</span>                                            phytomer-&gt;setFloralBudState(BUD_FLOWER_OPEN, fbud);</div>
+<div class="line"><a id="l02816" name="l02816"></a><span class="lineno"> 2816</span>                                        } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l02817" name="l02817"></a><span class="lineno"> 2817</span>                                            phytomer-&gt;setFloralBudState(BUD_DEAD, fbud);</div>
+<div class="line"><a id="l02818" name="l02818"></a><span class="lineno"> 2818</span>                                        }</div>
+<div class="line"><a id="l02819" name="l02819"></a><span class="lineno"> 2819</span>                                    }</div>
+<div class="line"><a id="l02820" name="l02820"></a><span class="lineno"> 2820</span>                                    <span class="keywordflow">if</span> (shoot-&gt;shoot_parameters.determinate_shoot_growth) {</div>
+<div class="line"><a id="l02821" name="l02821"></a><span class="lineno"> 2821</span>                                        shoot-&gt;terminateApicalBud();</div>
+<div class="line"><a id="l02822" name="l02822"></a><span class="lineno"> 2822</span>                                        shoot-&gt;terminateAxillaryVegetativeBuds();</div>
+<div class="line"><a id="l02823" name="l02823"></a><span class="lineno"> 2823</span>                                    }</div>
+<div class="line"><a id="l02824" name="l02824"></a><span class="lineno"> 2824</span>                                }</div>
+<div class="line"><a id="l02825" name="l02825"></a><span class="lineno"> 2825</span>                            }</div>
+<div class="line"><a id="l02826" name="l02826"></a><span class="lineno"> 2826</span>                        }</div>
+<div class="line"><a id="l02827" name="l02827"></a><span class="lineno"> 2827</span> </div>
+<div class="line"><a id="l02828" name="l02828"></a><span class="lineno"> 2828</span>                        <span class="comment">// -- Fruit Set -- //</span></div>
+<div class="line"><a id="l02829" name="l02829"></a><span class="lineno"> 2829</span>                        <span class="comment">// If the flower bud is in a &#39;flowering&#39; state, the fruit set occurs after a certain amount of time</span></div>
+<div class="line"><a id="l02830" name="l02830"></a><span class="lineno"> 2830</span>                        <span class="keywordflow">if</span> (shoot-&gt;shoot_parameters.phytomer_parameters.inflorescence.fruit_prototype_function != <span class="keyword">nullptr</span>) {</div>
+<div class="line"><a id="l02831" name="l02831"></a><span class="lineno"> 2831</span>                            <span class="keywordflow">if</span> ((fbud.state == BUD_FLOWER_OPEN &amp;&amp; plant_instance.dd_to_fruit_set &gt;= 0.f) || <span class="comment">//flower opened and fruit set is enabled</span></div>
+<div class="line"><a id="l02832" name="l02832"></a><span class="lineno"> 2832</span>                                (fbud.state == BUD_ACTIVE &amp;&amp; plant_instance.dd_to_flower_initiation &lt; 0.f &amp;&amp; plant_instance.dd_to_flower_opening &lt; 0.f &amp;&amp; plant_instance.dd_to_fruit_set &gt;= 0.f) || <span class="comment">//jumped straight to fruit set with no flowering</span></div>
+<div class="line"><a id="l02833" name="l02833"></a><span class="lineno"> 2833</span>                                (fbud.state == BUD_FLOWER_CLOSED &amp;&amp; plant_instance.dd_to_flower_opening &lt; 0.f &amp;&amp; plant_instance.dd_to_fruit_set &gt;= 0.f)) { <span class="comment">//jumped from closed flower to fruit set with no flower opening</span></div>
+<div class="line"><a id="l02834" name="l02834"></a><span class="lineno"> 2834</span>                                <span class="keywordflow">if</span> (fbud.time_counter &gt;= plant_instance.dd_to_fruit_set) {</div>
+<div class="line"><a id="l02835" name="l02835"></a><span class="lineno"> 2835</span>                                    fbud.time_counter = 0;</div>
+<div class="line"><a id="l02836" name="l02836"></a><span class="lineno"> 2836</span>                                    <span class="keywordflow">if</span> (context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>() &lt; shoot-&gt;shoot_parameters.fruit_set_probability.val() ) {</div>
+<div class="line"><a id="l02837" name="l02837"></a><span class="lineno"> 2837</span>                                        phytomer-&gt;setFloralBudState(BUD_FRUITING, fbud);</div>
+<div class="line"><a id="l02838" name="l02838"></a><span class="lineno"> 2838</span>                                    } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l02839" name="l02839"></a><span class="lineno"> 2839</span>                                        phytomer-&gt;setFloralBudState(BUD_DEAD, fbud);</div>
+<div class="line"><a id="l02840" name="l02840"></a><span class="lineno"> 2840</span>                                    }</div>
+<div class="line"><a id="l02841" name="l02841"></a><span class="lineno"> 2841</span>                                    <span class="keywordflow">if</span> (shoot-&gt;shoot_parameters.determinate_shoot_growth) {</div>
+<div class="line"><a id="l02842" name="l02842"></a><span class="lineno"> 2842</span>                                        shoot-&gt;terminateApicalBud();</div>
+<div class="line"><a id="l02843" name="l02843"></a><span class="lineno"> 2843</span>                                        shoot-&gt;terminateAxillaryVegetativeBuds();</div>
+<div class="line"><a id="l02844" name="l02844"></a><span class="lineno"> 2844</span>                                    }</div>
+<div class="line"><a id="l02845" name="l02845"></a><span class="lineno"> 2845</span>                                }</div>
+<div class="line"><a id="l02846" name="l02846"></a><span class="lineno"> 2846</span>                            }</div>
+<div class="line"><a id="l02847" name="l02847"></a><span class="lineno"> 2847</span>                        }</div>
+<div class="line"><a id="l02848" name="l02848"></a><span class="lineno"> 2848</span> </div>
+<div class="line"><a id="l02849" name="l02849"></a><span class="lineno"> 2849</span>                    }</div>
+<div class="line"><a id="l02850" name="l02850"></a><span class="lineno"> 2850</span>                }</div>
+<div class="line"><a id="l02851" name="l02851"></a><span class="lineno"> 2851</span> </div>
+<div class="line"><a id="l02852" name="l02852"></a><span class="lineno"> 2852</span>            }</div>
+<div class="line"><a id="l02853" name="l02853"></a><span class="lineno"> 2853</span> </div>
+<div class="line"><a id="l02854" name="l02854"></a><span class="lineno"> 2854</span>            <span class="comment">// ****** GROWTH/SCALING OF CURRENT PHYTOMERS/FRUIT ****** //</span></div>
+<div class="line"><a id="l02855" name="l02855"></a><span class="lineno"> 2855</span> </div>
+<div class="line"><a id="l02856" name="l02856"></a><span class="lineno"> 2856</span>            <span class="keywordtype">int</span> node_index = 0;</div>
+<div class="line"><a id="l02857" name="l02857"></a><span class="lineno"> 2857</span>            <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;phytomer: shoot-&gt;phytomers) {</div>
+<div class="line"><a id="l02858" name="l02858"></a><span class="lineno"> 2858</span> </div>
+<div class="line"><a id="l02859" name="l02859"></a><span class="lineno"> 2859</span>                <span class="comment">//scale internode length</span></div>
+<div class="line"><a id="l02860" name="l02860"></a><span class="lineno"> 2860</span>                <span class="keywordflow">if</span> (phytomer-&gt;current_internode_scale_factor &lt; 1) {</div>
+<div class="line"><a id="l02861" name="l02861"></a><span class="lineno"> 2861</span>                    <span class="keywordtype">float</span> dL_internode = dt_max * shoot-&gt;shoot_parameters.elongation_rate.val() * phytomer-&gt;internode_length_max;</div>
+<div class="line"><a id="l02862" name="l02862"></a><span class="lineno"> 2862</span>                    <span class="keywordtype">float</span> length_scale = fmin(1.f, (phytomer-&gt;getInternodeLength() + dL_internode) / phytomer-&gt;internode_length_max);</div>
+<div class="line"><a id="l02863" name="l02863"></a><span class="lineno"> 2863</span>                     phytomer-&gt;setInternodeLengthScaleFraction(length_scale, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l02864" name="l02864"></a><span class="lineno"> 2864</span>                }</div>
+<div class="line"><a id="l02865" name="l02865"></a><span class="lineno"> 2865</span> </div>
+<div class="line"><a id="l02866" name="l02866"></a><span class="lineno"> 2866</span>                <span class="comment">//scale internode girth</span></div>
+<div class="line"><a id="l02867" name="l02867"></a><span class="lineno"> 2867</span>                <span class="keywordtype">float</span> inode_radius = phytomer-&gt;getInternodeRadius();</div>
+<div class="line"><a id="l02868" name="l02868"></a><span class="lineno"> 2868</span>                <span class="keywordflow">if</span> (inode_radius &lt; phytomer-&gt;internode_radius_max &amp;&amp; shoot-&gt;shoot_parameters.girth_area_factor.val()&gt;0.f ) {</div>
+<div class="line"><a id="l02869" name="l02869"></a><span class="lineno"> 2869</span>                    incrementPhytomerInternodeGirth(plantID, shoot-&gt;ID, node_index, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l02870" name="l02870"></a><span class="lineno"> 2870</span>                }</div>
+<div class="line"><a id="l02871" name="l02871"></a><span class="lineno"> 2871</span> </div>
+<div class="line"><a id="l02872" name="l02872"></a><span class="lineno"> 2872</span>                node_index++;</div>
+<div class="line"><a id="l02873" name="l02873"></a><span class="lineno"> 2873</span>            }</div>
+<div class="line"><a id="l02874" name="l02874"></a><span class="lineno"> 2874</span> </div>
+<div class="line"><a id="l02875" name="l02875"></a><span class="lineno"> 2875</span>            node_index = 0;</div>
+<div class="line"><a id="l02876" name="l02876"></a><span class="lineno"> 2876</span>            <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;phytomer: shoot-&gt;phytomers) {</div>
+<div class="line"><a id="l02877" name="l02877"></a><span class="lineno"> 2877</span> </div>
+<div class="line"><a id="l02878" name="l02878"></a><span class="lineno"> 2878</span>                <span class="comment">//scale petiole/leaves</span></div>
+<div class="line"><a id="l02879" name="l02879"></a><span class="lineno"> 2879</span>                <span class="keywordflow">if</span> (phytomer-&gt;hasLeaf() &amp;&amp; phytomer-&gt;current_leaf_scale_factor &lt;= 1) {</div>
+<div class="line"><a id="l02880" name="l02880"></a><span class="lineno"> 2880</span>                    <span class="keywordtype">float</span> tip_ind = ceil(<span class="keywordtype">float</span>(phytomer-&gt;leaf_size_max.front().size()-1)/2.f);</div>
+<div class="line"><a id="l02881" name="l02881"></a><span class="lineno"> 2881</span>                    <span class="keywordtype">float</span> leaf_length = phytomer-&gt;current_leaf_scale_factor * phytomer-&gt;leaf_size_max.front().at(tip_ind);</div>
+<div class="line"><a id="l02882" name="l02882"></a><span class="lineno"> 2882</span>                    <span class="keywordtype">float</span> dL_leaf = dt_max * shoot-&gt;shoot_parameters.elongation_rate.val() * phytomer-&gt;leaf_size_max.front().at(tip_ind);</div>
+<div class="line"><a id="l02883" name="l02883"></a><span class="lineno"> 2883</span>                    <span class="keywordtype">float</span> scale = fmin(1.f, (leaf_length + dL_leaf) / phytomer-&gt;phytomer_parameters.leaf.prototype_scale.val() );</div>
+<div class="line"><a id="l02884" name="l02884"></a><span class="lineno"> 2884</span>                    phytomer-&gt;phytomer_parameters.leaf.prototype_scale.resample();</div>
+<div class="line"><a id="l02885" name="l02885"></a><span class="lineno"> 2885</span>                    phytomer-&gt;setLeafScaleFraction(scale);</div>
+<div class="line"><a id="l02886" name="l02886"></a><span class="lineno"> 2886</span>                }</div>
+<div class="line"><a id="l02887" name="l02887"></a><span class="lineno"> 2887</span> </div>
+<div class="line"><a id="l02888" name="l02888"></a><span class="lineno"> 2888</span>                <span class="comment">//Fruit Growth</span></div>
+<div class="line"><a id="l02889" name="l02889"></a><span class="lineno"> 2889</span>                <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;petiole: phytomer-&gt;floral_buds) {</div>
+<div class="line"><a id="l02890" name="l02890"></a><span class="lineno"> 2890</span>                    <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;fbud: petiole) {</div>
+<div class="line"><a id="l02891" name="l02891"></a><span class="lineno"> 2891</span> </div>
+<div class="line"><a id="l02892" name="l02892"></a><span class="lineno"> 2892</span>                        <span class="comment">// If the floral bud it in a &#39;fruiting&#39; state, the fruit grows with time</span></div>
+<div class="line"><a id="l02893" name="l02893"></a><span class="lineno"> 2893</span>                        <span class="keywordflow">if</span> (fbud.state == BUD_FRUITING &amp;&amp; fbud.time_counter &gt; 0) {</div>
+<div class="line"><a id="l02894" name="l02894"></a><span class="lineno"> 2894</span>                            <span class="keywordtype">float</span> scale = fmin(1, 0.25f + 0.75f * fbud.time_counter / plant_instance.dd_to_fruit_maturity);</div>
+<div class="line"><a id="l02895" name="l02895"></a><span class="lineno"> 2895</span>                            phytomer-&gt;setInflorescenceScaleFraction(fbud, scale);</div>
+<div class="line"><a id="l02896" name="l02896"></a><span class="lineno"> 2896</span>                        }</div>
+<div class="line"><a id="l02897" name="l02897"></a><span class="lineno"> 2897</span>                    }</div>
+<div class="line"><a id="l02898" name="l02898"></a><span class="lineno"> 2898</span>                }</div>
+<div class="line"><a id="l02899" name="l02899"></a><span class="lineno"> 2899</span> </div>
+<div class="line"><a id="l02900" name="l02900"></a><span class="lineno"> 2900</span>                <span class="comment">// ****** NEW CHILD SHOOTS FROM VEGETATIVE BUDS ****** //</span></div>
+<div class="line"><a id="l02901" name="l02901"></a><span class="lineno"> 2901</span>                uint parent_petiole_index = 0;</div>
+<div class="line"><a id="l02902" name="l02902"></a><span class="lineno"> 2902</span>                <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;petiole: phytomer-&gt;axillary_vegetative_buds) {</div>
+<div class="line"><a id="l02903" name="l02903"></a><span class="lineno"> 2903</span>                    <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;vbud: petiole) {</div>
+<div class="line"><a id="l02904" name="l02904"></a><span class="lineno"> 2904</span> </div>
+<div class="line"><a id="l02905" name="l02905"></a><span class="lineno"> 2905</span>                        <span class="keywordflow">if</span> (vbud.state == BUD_ACTIVE &amp;&amp; phytomer-&gt;age + dt_max &gt; shoot-&gt;shoot_parameters.vegetative_bud_break_time.val()) {</div>
+<div class="line"><a id="l02906" name="l02906"></a><span class="lineno"> 2906</span> </div>
+<div class="line"><a id="l02907" name="l02907"></a><span class="lineno"> 2907</span>                            <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> *new_shoot_parameters = &amp;shoot_types.at(vbud.shoot_type_label);</div>
+<div class="line"><a id="l02908" name="l02908"></a><span class="lineno"> 2908</span>                            <span class="keywordtype">int</span> parent_node_count = shoot-&gt;current_node_number;</div>
+<div class="line"><a id="l02909" name="l02909"></a><span class="lineno"> 2909</span> </div>
+<div class="line"><a id="l02910" name="l02910"></a><span class="lineno"> 2910</span><span class="comment">//                            float insertion_angle_adjustment = fmin(new_shoot_parameters-&gt;insertion_angle_tip.val() + new_shoot_parameters-&gt;insertion_angle_decay_rate.val() * float(parent_node_count - phytomer-&gt;shoot_index.x - 1), 90.f);</span></div>
+<div class="line"><a id="l02911" name="l02911"></a><span class="lineno"> 2911</span><span class="comment">//                            AxisRotation base_rotation = make_AxisRotation(deg2rad(insertion_angle_adjustment), deg2rad(new_shoot_parameters-&gt;base_yaw.val()), deg2rad(new_shoot_parameters-&gt;base_roll.val()));</span></div>
+<div class="line"><a id="l02912" name="l02912"></a><span class="lineno"> 2912</span><span class="comment">//                            new_shoot_parameters-&gt;base_yaw.resample();</span></div>
+<div class="line"><a id="l02913" name="l02913"></a><span class="lineno"> 2913</span><span class="comment">//                            if( new_shoot_parameters-&gt;insertion_angle_decay_rate.val()==0 ){</span></div>
+<div class="line"><a id="l02914" name="l02914"></a><span class="lineno"> 2914</span><span class="comment">//                                new_shoot_parameters-&gt;insertion_angle_tip.resample();</span></div>
+<div class="line"><a id="l02915" name="l02915"></a><span class="lineno"> 2915</span><span class="comment">//                            }</span></div>
+<div class="line"><a id="l02916" name="l02916"></a><span class="lineno"> 2916</span>                            <span class="keywordtype">float</span> insertion_angle_adjustment = fmin(shoot-&gt;shoot_parameters.insertion_angle_tip.val() + shoot-&gt;shoot_parameters.insertion_angle_decay_rate.val() * <span class="keywordtype">float</span>(parent_node_count - phytomer-&gt;shoot_index.x - 1), 90.f);</div>
+<div class="line"><a id="l02917" name="l02917"></a><span class="lineno"> 2917</span>                            <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> base_rotation = make_AxisRotation(<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(insertion_angle_adjustment), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(new_shoot_parameters-&gt;base_yaw.val()), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(new_shoot_parameters-&gt;base_roll.val()));</div>
+<div class="line"><a id="l02918" name="l02918"></a><span class="lineno"> 2918</span>                            new_shoot_parameters-&gt;base_yaw.resample();</div>
+<div class="line"><a id="l02919" name="l02919"></a><span class="lineno"> 2919</span>                            <span class="keywordflow">if</span>( shoot-&gt;shoot_parameters.insertion_angle_decay_rate.val()==0 ){</div>
+<div class="line"><a id="l02920" name="l02920"></a><span class="lineno"> 2920</span>                                shoot-&gt;shoot_parameters.insertion_angle_tip.resample();</div>
+<div class="line"><a id="l02921" name="l02921"></a><span class="lineno"> 2921</span>                            }</div>
+<div class="line"><a id="l02922" name="l02922"></a><span class="lineno"> 2922</span> </div>
+<div class="line"><a id="l02923" name="l02923"></a><span class="lineno"> 2923</span>                            <span class="comment">//scale the shoot internode length based on proximity from the tip</span></div>
+<div class="line"><a id="l02924" name="l02924"></a><span class="lineno"> 2924</span>                            <span class="keywordtype">float</span> internode_length_max;</div>
+<div class="line"><a id="l02925" name="l02925"></a><span class="lineno"> 2925</span>                            <span class="keywordflow">if</span> (new_shoot_parameters-&gt;growth_requires_dormancy) {</div>
+<div class="line"><a id="l02926" name="l02926"></a><span class="lineno"> 2926</span>                                internode_length_max = fmax(new_shoot_parameters-&gt;internode_length_max.val() - new_shoot_parameters-&gt;internode_length_decay_rate.val() * <span class="keywordtype">float</span>(parent_node_count - phytomer-&gt;shoot_index.x - 1),</div>
+<div class="line"><a id="l02927" name="l02927"></a><span class="lineno"> 2927</span>                                                            new_shoot_parameters-&gt;internode_length_min.val());</div>
+<div class="line"><a id="l02928" name="l02928"></a><span class="lineno"> 2928</span>                            } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l02929" name="l02929"></a><span class="lineno"> 2929</span>                                internode_length_max = new_shoot_parameters-&gt;internode_length_max.val();</div>
+<div class="line"><a id="l02930" name="l02930"></a><span class="lineno"> 2930</span>                            }</div>
+<div class="line"><a id="l02931" name="l02931"></a><span class="lineno"> 2931</span> </div>
+<div class="line"><a id="l02932" name="l02932"></a><span class="lineno"> 2932</span>                            <span class="keywordtype">float</span> internode_radius = shoot_types.at(vbud.shoot_type_label).internode_radius_initial.val();</div>
+<div class="line"><a id="l02933" name="l02933"></a><span class="lineno"> 2933</span> </div>
+<div class="line"><a id="l02934" name="l02934"></a><span class="lineno"> 2934</span><span class="comment">//                                std::cout &lt;&lt; &quot;Adding child shoot of type &quot; &lt;&lt; vbud.shoot_type_label &lt;&lt; std::endl;</span></div>
+<div class="line"><a id="l02935" name="l02935"></a><span class="lineno"> 2935</span> </div>
+<div class="line"><a id="l02936" name="l02936"></a><span class="lineno"> 2936</span>                            uint childID = <a class="code hl_function" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">addChildShoot</a>(plantID, shoot-&gt;ID, node_index, 1, base_rotation, internode_radius, internode_length_max, 0.01, 0.01, 0, vbud.shoot_type_label, parent_petiole_index);</div>
+<div class="line"><a id="l02937" name="l02937"></a><span class="lineno"> 2937</span> </div>
+<div class="line"><a id="l02938" name="l02938"></a><span class="lineno"> 2938</span>                            phytomer-&gt;setVegetativeBudState( BUD_DEAD, vbud );</div>
+<div class="line"><a id="l02939" name="l02939"></a><span class="lineno"> 2939</span>                            vbud.shoot_ID = childID;</div>
+<div class="line"><a id="l02940" name="l02940"></a><span class="lineno"> 2940</span>                            shoot_tree-&gt;at(childID)-&gt;isdormant = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02941" name="l02941"></a><span class="lineno"> 2941</span> </div>
+<div class="line"><a id="l02942" name="l02942"></a><span class="lineno"> 2942</span>                        }</div>
+<div class="line"><a id="l02943" name="l02943"></a><span class="lineno"> 2943</span> </div>
+<div class="line"><a id="l02944" name="l02944"></a><span class="lineno"> 2944</span>                    }</div>
+<div class="line"><a id="l02945" name="l02945"></a><span class="lineno"> 2945</span>                    parent_petiole_index++;</div>
+<div class="line"><a id="l02946" name="l02946"></a><span class="lineno"> 2946</span>                }</div>
+<div class="line"><a id="l02947" name="l02947"></a><span class="lineno"> 2947</span> </div>
+<div class="line"><a id="l02948" name="l02948"></a><span class="lineno"> 2948</span>                <span class="comment">// check for ground collisions</span></div>
+<div class="line"><a id="l02949" name="l02949"></a><span class="lineno"> 2949</span>                <span class="keywordflow">if</span>( ground_clipping_height!=-99999  ){</div>
+<div class="line"><a id="l02950" name="l02950"></a><span class="lineno"> 2950</span> </div>
+<div class="line"><a id="l02951" name="l02951"></a><span class="lineno"> 2951</span>                    <span class="comment">// internode</span></div>
+<div class="line"><a id="l02952" name="l02952"></a><span class="lineno"> 2952</span>                    <span class="keywordflow">if</span> ( (phytomer-&gt;shoot_index.x==0 &amp;&amp; phytomer-&gt;rank&gt;0 ) &amp;&amp; context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">doesObjectExist</a>(shoot-&gt;internode_tube_objID) &amp;&amp; detectGroundCollision( shoot-&gt;internode_tube_objID ) ) {</div>
+<div class="line"><a id="l02953" name="l02953"></a><span class="lineno"> 2953</span>                        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(shoot-&gt;internode_tube_objID);</div>
+<div class="line"><a id="l02954" name="l02954"></a><span class="lineno"> 2954</span>                        shoot-&gt;terminateApicalBud();</div>
+<div class="line"><a id="l02955" name="l02955"></a><span class="lineno"> 2955</span>                    }</div>
+<div class="line"><a id="l02956" name="l02956"></a><span class="lineno"> 2956</span> </div>
+<div class="line"><a id="l02957" name="l02957"></a><span class="lineno"> 2957</span>                    <span class="comment">// leaves</span></div>
+<div class="line"><a id="l02958" name="l02958"></a><span class="lineno"> 2958</span>                    <span class="keywordflow">for</span>( uint petiole=0; petiole&lt;phytomer-&gt;leaf_objIDs.size(); petiole++ ) {</div>
+<div class="line"><a id="l02959" name="l02959"></a><span class="lineno"> 2959</span> </div>
+<div class="line"><a id="l02960" name="l02960"></a><span class="lineno"> 2960</span>                        <span class="keywordflow">if</span> ( detectGroundCollision(phytomer-&gt;leaf_objIDs.at(petiole)) ) {</div>
+<div class="line"><a id="l02961" name="l02961"></a><span class="lineno"> 2961</span>                            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(phytomer-&gt;leaf_objIDs.at(petiole));</div>
+<div class="line"><a id="l02962" name="l02962"></a><span class="lineno"> 2962</span>                            phytomer-&gt;leaf_objIDs.at(petiole).clear();</div>
+<div class="line"><a id="l02963" name="l02963"></a><span class="lineno"> 2963</span>                            phytomer-&gt;leaf_bases.at(petiole).clear();</div>
+<div class="line"><a id="l02964" name="l02964"></a><span class="lineno"> 2964</span>                            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(phytomer-&gt;petiole_objIDs.at(petiole));</div>
+<div class="line"><a id="l02965" name="l02965"></a><span class="lineno"> 2965</span>                            phytomer-&gt;petiole_objIDs.at(petiole).clear();</div>
+<div class="line"><a id="l02966" name="l02966"></a><span class="lineno"> 2966</span>                        }</div>
+<div class="line"><a id="l02967" name="l02967"></a><span class="lineno"> 2967</span> </div>
+<div class="line"><a id="l02968" name="l02968"></a><span class="lineno"> 2968</span>                    }</div>
+<div class="line"><a id="l02969" name="l02969"></a><span class="lineno"> 2969</span> </div>
+<div class="line"><a id="l02970" name="l02970"></a><span class="lineno"> 2970</span>                    <span class="comment">//inflorescence</span></div>
+<div class="line"><a id="l02971" name="l02971"></a><span class="lineno"> 2971</span>                    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;petiole : phytomer-&gt;floral_buds ) {</div>
+<div class="line"><a id="l02972" name="l02972"></a><span class="lineno"> 2972</span>                        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;fbud : petiole ){</div>
+<div class="line"><a id="l02973" name="l02973"></a><span class="lineno"> 2973</span>                            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> p=fbud.inflorescence_objIDs.size()-1; p&gt;=0; p-- ){</div>
+<div class="line"><a id="l02974" name="l02974"></a><span class="lineno"> 2974</span>                                uint objID = fbud.inflorescence_objIDs.at(p);</div>
+<div class="line"><a id="l02975" name="l02975"></a><span class="lineno"> 2975</span>                                <span class="keywordflow">if</span> ( detectGroundCollision(objID) ) {</div>
+<div class="line"><a id="l02976" name="l02976"></a><span class="lineno"> 2976</span>                                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(objID);</div>
+<div class="line"><a id="l02977" name="l02977"></a><span class="lineno"> 2977</span>                                    fbud.inflorescence_objIDs.erase( fbud.inflorescence_objIDs.begin()+p );</div>
+<div class="line"><a id="l02978" name="l02978"></a><span class="lineno"> 2978</span>                                }</div>
+<div class="line"><a id="l02979" name="l02979"></a><span class="lineno"> 2979</span>                            }</div>
+<div class="line"><a id="l02980" name="l02980"></a><span class="lineno"> 2980</span>                            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> p=fbud.peduncle_objIDs.size()-1; p&gt;=0; p-- ){</div>
+<div class="line"><a id="l02981" name="l02981"></a><span class="lineno"> 2981</span>                                uint objID = fbud.peduncle_objIDs.at(p);</div>
+<div class="line"><a id="l02982" name="l02982"></a><span class="lineno"> 2982</span>                                <span class="keywordflow">if</span> ( detectGroundCollision(objID) ) {</div>
+<div class="line"><a id="l02983" name="l02983"></a><span class="lineno"> 2983</span>                                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(fbud.peduncle_objIDs);</div>
+<div class="line"><a id="l02984" name="l02984"></a><span class="lineno"> 2984</span>                                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aaae58688c97d14257223911be4bb13e6">deleteObject</a>(fbud.inflorescence_objIDs);</div>
+<div class="line"><a id="l02985" name="l02985"></a><span class="lineno"> 2985</span>                                    fbud.peduncle_objIDs.clear();</div>
+<div class="line"><a id="l02986" name="l02986"></a><span class="lineno"> 2986</span>                                    fbud.inflorescence_objIDs.clear();</div>
+<div class="line"><a id="l02987" name="l02987"></a><span class="lineno"> 2987</span>                                    <span class="keywordflow">break</span>;</div>
+<div class="line"><a id="l02988" name="l02988"></a><span class="lineno"> 2988</span>                                }</div>
+<div class="line"><a id="l02989" name="l02989"></a><span class="lineno"> 2989</span>                            }</div>
+<div class="line"><a id="l02990" name="l02990"></a><span class="lineno"> 2990</span>                        }</div>
+<div class="line"><a id="l02991" name="l02991"></a><span class="lineno"> 2991</span>                    }</div>
+<div class="line"><a id="l02992" name="l02992"></a><span class="lineno"> 2992</span> </div>
+<div class="line"><a id="l02993" name="l02993"></a><span class="lineno"> 2993</span>                }</div>
+<div class="line"><a id="l02994" name="l02994"></a><span class="lineno"> 2994</span> </div>
+<div class="line"><a id="l02995" name="l02995"></a><span class="lineno"> 2995</span>                <span class="keywordflow">if</span>( output_object_data.at(<span class="stringliteral">&quot;age&quot;</span>) ) {</div>
+<div class="line"><a id="l02996" name="l02996"></a><span class="lineno"> 2996</span>                    <span class="keywordflow">if</span> (shoot-&gt;build_context_geometry_internode) {</div>
+<div class="line"><a id="l02997" name="l02997"></a><span class="lineno"> 2997</span>                        <span class="comment">//\todo This is redundant and only needs to be done once per shoot</span></div>
+<div class="line"><a id="l02998" name="l02998"></a><span class="lineno"> 2998</span>                        <span class="keywordflow">if</span>( context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">doesObjectExist</a>(shoot-&gt;internode_tube_objID) ) {</div>
+<div class="line"><a id="l02999" name="l02999"></a><span class="lineno"> 2999</span>                            context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>(shoot-&gt;internode_tube_objID, <span class="stringliteral">&quot;age&quot;</span>, phytomer-&gt;age);</div>
+<div class="line"><a id="l03000" name="l03000"></a><span class="lineno"> 3000</span>                        }</div>
+<div class="line"><a id="l03001" name="l03001"></a><span class="lineno"> 3001</span>                    }</div>
+<div class="line"><a id="l03002" name="l03002"></a><span class="lineno"> 3002</span>                    <span class="keywordflow">if</span> (phytomer-&gt;build_context_geometry_petiole) {</div>
+<div class="line"><a id="l03003" name="l03003"></a><span class="lineno"> 3003</span>                        context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>(phytomer-&gt;petiole_objIDs, <span class="stringliteral">&quot;age&quot;</span>, phytomer-&gt;age);</div>
+<div class="line"><a id="l03004" name="l03004"></a><span class="lineno"> 3004</span>                    }</div>
+<div class="line"><a id="l03005" name="l03005"></a><span class="lineno"> 3005</span>                    context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>(phytomer-&gt;leaf_objIDs, <span class="stringliteral">&quot;age&quot;</span>, phytomer-&gt;age);</div>
+<div class="line"><a id="l03006" name="l03006"></a><span class="lineno"> 3006</span>                }</div>
+<div class="line"><a id="l03007" name="l03007"></a><span class="lineno"> 3007</span> </div>
+<div class="line"><a id="l03008" name="l03008"></a><span class="lineno"> 3008</span>                node_index++;</div>
+<div class="line"><a id="l03009" name="l03009"></a><span class="lineno"> 3009</span>            }</div>
+<div class="line"><a id="l03010" name="l03010"></a><span class="lineno"> 3010</span> </div>
+<div class="line"><a id="l03011" name="l03011"></a><span class="lineno"> 3011</span>            <span class="comment">// if shoot has reached max_nodes, stop apical growth</span></div>
+<div class="line"><a id="l03012" name="l03012"></a><span class="lineno"> 3012</span>            <span class="keywordflow">if</span> (shoot-&gt;current_node_number &gt;= shoot-&gt;shoot_parameters.max_nodes.val()) {</div>
+<div class="line"><a id="l03013" name="l03013"></a><span class="lineno"> 3013</span>                shoot-&gt;terminateApicalBud();</div>
+<div class="line"><a id="l03014" name="l03014"></a><span class="lineno"> 3014</span>            }</div>
+<div class="line"><a id="l03015" name="l03015"></a><span class="lineno"> 3015</span> </div>
+<div class="line"><a id="l03016" name="l03016"></a><span class="lineno"> 3016</span>            <span class="comment">// If the apical bud is dead, don&#39;t do anything more with the shoot</span></div>
+<div class="line"><a id="l03017" name="l03017"></a><span class="lineno"> 3017</span>            <span class="keywordflow">if</span> (!shoot-&gt;meristem_is_alive) {</div>
+<div class="line"><a id="l03018" name="l03018"></a><span class="lineno"> 3018</span>                <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l03019" name="l03019"></a><span class="lineno"> 3019</span>            }</div>
+<div class="line"><a id="l03020" name="l03020"></a><span class="lineno"> 3020</span> </div>
+<div class="line"><a id="l03021" name="l03021"></a><span class="lineno"> 3021</span>            <span class="comment">// ****** PHYLLOCHRON - NEW PHYTOMERS ****** //</span></div>
+<div class="line"><a id="l03022" name="l03022"></a><span class="lineno"> 3022</span>            shoot-&gt;phyllochron_counter += dt_max;</div>
+<div class="line"><a id="l03023" name="l03023"></a><span class="lineno"> 3023</span>            <span class="keywordflow">if</span> (shoot-&gt;phyllochron_counter &gt;= <span class="keywordtype">float</span>(shoot-&gt;shoot_parameters.leaf_flush_count) * shoot-&gt;shoot_parameters.phyllochron.val()) {</div>
+<div class="line"><a id="l03024" name="l03024"></a><span class="lineno"> 3024</span>                <span class="keywordtype">float</span> internode_radius = shoot-&gt;shoot_parameters.internode_radius_initial.val();</div>
+<div class="line"><a id="l03025" name="l03025"></a><span class="lineno"> 3025</span>                <span class="keywordtype">float</span> internode_length_max = shoot-&gt;internode_length_max_shoot_initial;</div>
+<div class="line"><a id="l03026" name="l03026"></a><span class="lineno"> 3026</span>                <span class="keywordflow">for</span> (<span class="keywordtype">int</span> leaf = 0; leaf &lt; shoot-&gt;shoot_parameters.leaf_flush_count; leaf++) {</div>
+<div class="line"><a id="l03027" name="l03027"></a><span class="lineno"> 3027</span>                    <a class="code hl_function" href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">appendPhytomerToShoot</a>(plantID, shoot-&gt;ID, shoot_types.at(shoot-&gt;shoot_type_label).phytomer_parameters, internode_radius, internode_length_max, 0.01, 0.01); <span class="comment">//\todo These factors should be set to be consistent with the shoot</span></div>
+<div class="line"><a id="l03028" name="l03028"></a><span class="lineno"> 3028</span>                }</div>
+<div class="line"><a id="l03029" name="l03029"></a><span class="lineno"> 3029</span>                shoot-&gt;shoot_parameters.phyllochron.resample();</div>
+<div class="line"><a id="l03030" name="l03030"></a><span class="lineno"> 3030</span>                shoot-&gt;phyllochron_counter = shoot-&gt;phyllochron_counter - float(shoot-&gt;shoot_parameters.leaf_flush_count) * shoot-&gt;shoot_parameters.phyllochron.val();</div>
+<div class="line"><a id="l03031" name="l03031"></a><span class="lineno"> 3031</span>            }</div>
+<div class="line"><a id="l03032" name="l03032"></a><span class="lineno"> 3032</span> </div>
+<div class="line"><a id="l03033" name="l03033"></a><span class="lineno"> 3033</span>            <span class="comment">// ****** EPICORMIC SHOOTS ****** //</span></div>
+<div class="line"><a id="l03034" name="l03034"></a><span class="lineno"> 3034</span>            std::string epicormic_shoot_label = plant_instance.epicormic_shoot_probability_perlength_per_day.first;</div>
+<div class="line"><a id="l03035" name="l03035"></a><span class="lineno"> 3035</span>            <span class="keywordflow">if</span>( !epicormic_shoot_label.empty() ) {</div>
+<div class="line"><a id="l03036" name="l03036"></a><span class="lineno"> 3036</span>                std::vector&lt;float&gt; epicormic_fraction;</div>
+<div class="line"><a id="l03037" name="l03037"></a><span class="lineno"> 3037</span>                uint Nepicormic = shoot-&gt;sampleEpicormicShoot(dt, epicormic_fraction);</div>
+<div class="line"><a id="l03038" name="l03038"></a><span class="lineno"> 3038</span>                <span class="keywordflow">for</span> (<span class="keywordtype">int</span> s = 0; s &lt; Nepicormic; s++) {</div>
+<div class="line"><a id="l03039" name="l03039"></a><span class="lineno"> 3039</span>                    <span class="keywordtype">float</span> internode_radius = shoot_types.at(epicormic_shoot_label).internode_radius_initial.val();</div>
+<div class="line"><a id="l03040" name="l03040"></a><span class="lineno"> 3040</span>                    shoot_types.at(epicormic_shoot_label).internode_radius_initial.resample();</div>
+<div class="line"><a id="l03041" name="l03041"></a><span class="lineno"> 3041</span>                    <span class="keywordtype">float</span> internode_length_max = shoot_types.at(epicormic_shoot_label).internode_length_max.val();</div>
+<div class="line"><a id="l03042" name="l03042"></a><span class="lineno"> 3042</span>                    shoot_types.at(epicormic_shoot_label).internode_length_max.resample();</div>
+<div class="line"><a id="l03043" name="l03043"></a><span class="lineno"> 3043</span>                    std::cout &lt;&lt; <span class="stringliteral">&quot;Adding epicormic shoot&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03044" name="l03044"></a><span class="lineno"> 3044</span>                    <a class="code hl_function" href="class_plant_architecture.html#ade786dc8bb429eb033d29ccf9df6b254">addEpicormicShoot</a>(plantID, shoot-&gt;ID, epicormic_fraction.at(s), 1, 0, internode_radius, internode_length_max, 0.01, 0.01, 0, epicormic_shoot_label);</div>
+<div class="line"><a id="l03045" name="l03045"></a><span class="lineno"> 3045</span>                }</div>
+<div class="line"><a id="l03046" name="l03046"></a><span class="lineno"> 3046</span>            }</div>
+<div class="line"><a id="l03047" name="l03047"></a><span class="lineno"> 3047</span> </div>
+<div class="line"><a id="l03048" name="l03048"></a><span class="lineno"> 3048</span>            <span class="comment">// **** subtract maintenance carbon costs **** //</span></div>
+<div class="line"><a id="l03049" name="l03049"></a><span class="lineno"> 3049</span>            subtractShootMaintenanceCarbon(dt_max);</div>
+<div class="line"><a id="l03050" name="l03050"></a><span class="lineno"> 3050</span> </div>
+<div class="line"><a id="l03051" name="l03051"></a><span class="lineno"> 3051</span>            <span class="keywordflow">if</span>( output_object_data.find(<span class="stringliteral">&quot;carbohydrate_concentration&quot;</span>)!=output_object_data.end() ){</div>
+<div class="line"><a id="l03052" name="l03052"></a><span class="lineno"> 3052</span>                <span class="keywordtype">float</span> shoot_volume = shoot-&gt;calculateShootInternodeVolume();</div>
+<div class="line"><a id="l03053" name="l03053"></a><span class="lineno"> 3053</span>                context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6ad7971a0c42fcf3b185d92354cb95b2">setObjectData</a>( shoot-&gt;internode_tube_objID, <span class="stringliteral">&quot;carbohydrate_concentration&quot;</span>, shoot-&gt;carbohydrate_pool_molC / shoot_volume );</div>
+<div class="line"><a id="l03054" name="l03054"></a><span class="lineno"> 3054</span>            }</div>
+<div class="line"><a id="l03055" name="l03055"></a><span class="lineno"> 3055</span> </div>
+<div class="line"><a id="l03056" name="l03056"></a><span class="lineno"> 3056</span>        }</div>
+<div class="line"><a id="l03057" name="l03057"></a><span class="lineno"> 3057</span> </div>
+<div class="line"><a id="l03058" name="l03058"></a><span class="lineno"> 3058</span>    }</div>
+<div class="line"><a id="l03059" name="l03059"></a><span class="lineno"> 3059</span> </div>
+<div class="line"><a id="l03060" name="l03060"></a><span class="lineno"> 3060</span>    <span class="comment">//update Context geometry</span></div>
+<div class="line"><a id="l03061" name="l03061"></a><span class="lineno"> 3061</span>    shoot_tree-&gt;front()-&gt;updateShootNodes(<span class="keyword">true</span>);</div>
+<div class="line"><a id="l03062" name="l03062"></a><span class="lineno"> 3062</span> </div>
+<div class="line"><a id="l03063" name="l03063"></a><span class="lineno"> 3063</span>}</div>
 </div>
-<div class="line"><a id="l03063" name="l03063"></a><span class="lineno"> 3063</span> </div>
-<div class="line"><a id="l03064" name="l03064"></a><span class="lineno"> 3064</span>std::vector&lt;uint&gt; <a class="code hl_function" href="_plant_architecture_8h.html#a90314e1f16ad76c838da858b9bf0ae86">makeTubeFromCones</a>(uint radial_subdivisions, <span class="keyword">const</span> std::vector&lt;helios::vec3&gt; &amp;vertices, <span class="keyword">const</span> std::vector&lt;float&gt; &amp;radii, <span class="keyword">const</span> std::vector&lt;helios::RGBcolor&gt; &amp;colors, <a class="code hl_class" href="classhelios_1_1_context.html">helios::Context</a> *context_ptr) {</div>
-<div class="line"><a id="l03065" name="l03065"></a><span class="lineno"> 3065</span> </div>
-<div class="line"><a id="l03066" name="l03066"></a><span class="lineno"> 3066</span>    uint Nverts = vertices.size();</div>
-<div class="line"><a id="l03067" name="l03067"></a><span class="lineno"> 3067</span> </div>
-<div class="line"><a id="l03068" name="l03068"></a><span class="lineno"> 3068</span>    <span class="keywordflow">if</span>( radii.size()!=Nverts || colors.size()!=Nverts ){</div>
-<div class="line"><a id="l03069" name="l03069"></a><span class="lineno"> 3069</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (makeTubeFromCones): Length of vertex vectors is not consistent.&quot;</span>);</div>
-<div class="line"><a id="l03070" name="l03070"></a><span class="lineno"> 3070</span>    }</div>
-<div class="line"><a id="l03071" name="l03071"></a><span class="lineno"> 3071</span> </div>
-<div class="line"><a id="l03072" name="l03072"></a><span class="lineno"> 3072</span>    std::vector&lt;uint&gt; objIDs(Nverts-1);</div>
-<div class="line"><a id="l03073" name="l03073"></a><span class="lineno"> 3073</span> </div>
-<div class="line"><a id="l03074" name="l03074"></a><span class="lineno"> 3074</span>    <span class="keywordflow">for</span>( uint v=0; v&lt;Nverts-1; v++ ){</div>
-<div class="line"><a id="l03075" name="l03075"></a><span class="lineno"> 3075</span> </div>
-<div class="line"><a id="l03076" name="l03076"></a><span class="lineno"> 3076</span>        objIDs.at(v) = context_ptr-&gt;<a class="code hl_function" href="group__compoundobjects.html#ga91e46b44e9d7ece5a7e75e739cac4610">addConeObject</a>(radial_subdivisions, vertices.at(v), vertices.at(v + 1), radii.at(v), radii.at(v + 1), colors.at(v) );</div>
-<div class="line"><a id="l03077" name="l03077"></a><span class="lineno"> 3077</span> </div>
-<div class="line"><a id="l03078" name="l03078"></a><span class="lineno"> 3078</span>    }</div>
-<div class="line"><a id="l03079" name="l03079"></a><span class="lineno"> 3079</span> </div>
-<div class="line"><a id="l03080" name="l03080"></a><span class="lineno"> 3080</span>    <span class="keywordflow">return</span> objIDs;</div>
-<div class="line"><a id="l03081" name="l03081"></a><span class="lineno"> 3081</span> </div>
-<div class="line"><a id="l03082" name="l03082"></a><span class="lineno"> 3082</span>}</div>
-<div class="line"><a id="l03083" name="l03083"></a><span class="lineno"> 3083</span> </div>
-<div class="line"><a id="l03084" name="l03084"></a><span class="lineno"> 3084</span><span class="keywordtype">bool</span> PlantArchitecture::detectGroundCollision(uint objID) {</div>
-<div class="line"><a id="l03085" name="l03085"></a><span class="lineno"> 3085</span>    std::vector&lt;uint&gt; objIDs = {objID};</div>
-<div class="line"><a id="l03086" name="l03086"></a><span class="lineno"> 3086</span>    <span class="keywordflow">return</span> detectGroundCollision(objIDs);</div>
-<div class="line"><a id="l03087" name="l03087"></a><span class="lineno"> 3087</span>}</div>
-<div class="line"><a id="l03088" name="l03088"></a><span class="lineno"> 3088</span> </div>
-<div class="line"><a id="l03089" name="l03089"></a><span class="lineno"> 3089</span><span class="keywordtype">bool</span> PlantArchitecture::detectGroundCollision(<span class="keyword">const</span> std::vector&lt;uint&gt; &amp;objID) {</div>
-<div class="line"><a id="l03090" name="l03090"></a><span class="lineno"> 3090</span> </div>
-<div class="line"><a id="l03091" name="l03091"></a><span class="lineno"> 3091</span>    <span class="keywordflow">for</span>( uint ID : objID ){</div>
-<div class="line"><a id="l03092" name="l03092"></a><span class="lineno"> 3092</span>        <span class="keywordflow">if</span>( context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">doesObjectExist</a>(ID) ) {</div>
-<div class="line"><a id="l03093" name="l03093"></a><span class="lineno"> 3093</span>            <span class="keyword">const</span> std::vector&lt;uint&gt; &amp;UUIDs = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a7d0b3a6ca36b02702b06208a735a3b03">getObjectPrimitiveUUIDs</a>(ID);</div>
-<div class="line"><a id="l03094" name="l03094"></a><span class="lineno"> 3094</span>            <span class="keywordflow">for</span> (uint UUID: UUIDs) {</div>
-<div class="line"><a id="l03095" name="l03095"></a><span class="lineno"> 3095</span>                <span class="keyword">const</span> std::vector&lt;vec3&gt; &amp;vertices = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ae8542fd1452150d3302675a0a3d991ed">getPrimitiveVertices</a>(UUID);</div>
-<div class="line"><a id="l03096" name="l03096"></a><span class="lineno"> 3096</span>                <span class="keywordflow">for</span> (<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;v: vertices) {</div>
-<div class="line"><a id="l03097" name="l03097"></a><span class="lineno"> 3097</span>                    <span class="keywordflow">if</span> (v.z &lt; ground_clipping_height) {</div>
-<div class="line"><a id="l03098" name="l03098"></a><span class="lineno"> 3098</span>                        <span class="keywordflow">return</span> <span class="keyword">true</span>;</div>
-<div class="line"><a id="l03099" name="l03099"></a><span class="lineno"> 3099</span>                    }</div>
-<div class="line"><a id="l03100" name="l03100"></a><span class="lineno"> 3100</span>                }</div>
-<div class="line"><a id="l03101" name="l03101"></a><span class="lineno"> 3101</span>            }</div>
-<div class="line"><a id="l03102" name="l03102"></a><span class="lineno"> 3102</span>        }</div>
-<div class="line"><a id="l03103" name="l03103"></a><span class="lineno"> 3103</span>    }</div>
-<div class="line"><a id="l03104" name="l03104"></a><span class="lineno"> 3104</span>    <span class="keywordflow">return</span> <span class="keyword">false</span>;</div>
-<div class="line"><a id="l03105" name="l03105"></a><span class="lineno"> 3105</span> </div>
-<div class="line"><a id="l03106" name="l03106"></a><span class="lineno"> 3106</span>}</div>
-<div class="line"><a id="l03107" name="l03107"></a><span class="lineno"> 3107</span> </div>
-<div class="foldopen" id="foldopen03108" data-start="{" data-end="}">
-<div class="line"><a id="l03108" name="l03108"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#acc53c4a5dd259f25b2b4a26907f8b749"> 3108</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#acc53c4a5dd259f25b2b4a26907f8b749">PlantArchitecture::optionalOutputObjectData</a>( <span class="keyword">const</span> std::string &amp;object_data_label ){</div>
-<div class="line"><a id="l03109" name="l03109"></a><span class="lineno"> 3109</span>    <span class="keywordflow">if</span>( output_object_data.find(object_data_label)==output_object_data.end() ){</div>
-<div class="line"><a id="l03110" name="l03110"></a><span class="lineno"> 3110</span>        std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (PlantArchitecture::optionalOutputObjectData): Output object data of &#39;&quot;</span> &lt;&lt; object_data_label &lt;&lt; <span class="stringliteral">&quot;&#39; is not a valid option.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03111" name="l03111"></a><span class="lineno"> 3111</span>        <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l03112" name="l03112"></a><span class="lineno"> 3112</span>    }</div>
-<div class="line"><a id="l03113" name="l03113"></a><span class="lineno"> 3113</span>    output_object_data.at(object_data_label) = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l03114" name="l03114"></a><span class="lineno"> 3114</span>}</div>
+<div class="line"><a id="l03064" name="l03064"></a><span class="lineno"> 3064</span> </div>
+<div class="line"><a id="l03065" name="l03065"></a><span class="lineno"> 3065</span>std::vector&lt;uint&gt; <a class="code hl_function" href="_plant_architecture_8h.html#a90314e1f16ad76c838da858b9bf0ae86">makeTubeFromCones</a>(uint radial_subdivisions, <span class="keyword">const</span> std::vector&lt;helios::vec3&gt; &amp;vertices, <span class="keyword">const</span> std::vector&lt;float&gt; &amp;radii, <span class="keyword">const</span> std::vector&lt;helios::RGBcolor&gt; &amp;colors, <a class="code hl_class" href="classhelios_1_1_context.html">helios::Context</a> *context_ptr) {</div>
+<div class="line"><a id="l03066" name="l03066"></a><span class="lineno"> 3066</span> </div>
+<div class="line"><a id="l03067" name="l03067"></a><span class="lineno"> 3067</span>    uint Nverts = vertices.size();</div>
+<div class="line"><a id="l03068" name="l03068"></a><span class="lineno"> 3068</span> </div>
+<div class="line"><a id="l03069" name="l03069"></a><span class="lineno"> 3069</span>    <span class="keywordflow">if</span>( radii.size()!=Nverts || colors.size()!=Nverts ){</div>
+<div class="line"><a id="l03070" name="l03070"></a><span class="lineno"> 3070</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (makeTubeFromCones): Length of vertex vectors is not consistent.&quot;</span>);</div>
+<div class="line"><a id="l03071" name="l03071"></a><span class="lineno"> 3071</span>    }</div>
+<div class="line"><a id="l03072" name="l03072"></a><span class="lineno"> 3072</span> </div>
+<div class="line"><a id="l03073" name="l03073"></a><span class="lineno"> 3073</span>    std::vector&lt;uint&gt; objIDs(Nverts-1);</div>
+<div class="line"><a id="l03074" name="l03074"></a><span class="lineno"> 3074</span> </div>
+<div class="line"><a id="l03075" name="l03075"></a><span class="lineno"> 3075</span>    <span class="keywordflow">for</span>( uint v=0; v&lt;Nverts-1; v++ ){</div>
+<div class="line"><a id="l03076" name="l03076"></a><span class="lineno"> 3076</span> </div>
+<div class="line"><a id="l03077" name="l03077"></a><span class="lineno"> 3077</span>        objIDs.at(v) = context_ptr-&gt;<a class="code hl_function" href="group__compoundobjects.html#ga91e46b44e9d7ece5a7e75e739cac4610">addConeObject</a>(radial_subdivisions, vertices.at(v), vertices.at(v + 1), radii.at(v), radii.at(v + 1), colors.at(v) );</div>
+<div class="line"><a id="l03078" name="l03078"></a><span class="lineno"> 3078</span> </div>
+<div class="line"><a id="l03079" name="l03079"></a><span class="lineno"> 3079</span>    }</div>
+<div class="line"><a id="l03080" name="l03080"></a><span class="lineno"> 3080</span> </div>
+<div class="line"><a id="l03081" name="l03081"></a><span class="lineno"> 3081</span>    <span class="keywordflow">return</span> objIDs;</div>
+<div class="line"><a id="l03082" name="l03082"></a><span class="lineno"> 3082</span> </div>
+<div class="line"><a id="l03083" name="l03083"></a><span class="lineno"> 3083</span>}</div>
+<div class="line"><a id="l03084" name="l03084"></a><span class="lineno"> 3084</span> </div>
+<div class="line"><a id="l03085" name="l03085"></a><span class="lineno"> 3085</span><span class="keywordtype">bool</span> PlantArchitecture::detectGroundCollision(uint objID) {</div>
+<div class="line"><a id="l03086" name="l03086"></a><span class="lineno"> 3086</span>    std::vector&lt;uint&gt; objIDs = {objID};</div>
+<div class="line"><a id="l03087" name="l03087"></a><span class="lineno"> 3087</span>    <span class="keywordflow">return</span> detectGroundCollision(objIDs);</div>
+<div class="line"><a id="l03088" name="l03088"></a><span class="lineno"> 3088</span>}</div>
+<div class="line"><a id="l03089" name="l03089"></a><span class="lineno"> 3089</span> </div>
+<div class="line"><a id="l03090" name="l03090"></a><span class="lineno"> 3090</span><span class="keywordtype">bool</span> PlantArchitecture::detectGroundCollision(<span class="keyword">const</span> std::vector&lt;uint&gt; &amp;objID) {</div>
+<div class="line"><a id="l03091" name="l03091"></a><span class="lineno"> 3091</span> </div>
+<div class="line"><a id="l03092" name="l03092"></a><span class="lineno"> 3092</span>    <span class="keywordflow">for</span>( uint ID : objID ){</div>
+<div class="line"><a id="l03093" name="l03093"></a><span class="lineno"> 3093</span>        <span class="keywordflow">if</span>( context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">doesObjectExist</a>(ID) ) {</div>
+<div class="line"><a id="l03094" name="l03094"></a><span class="lineno"> 3094</span>            <span class="keyword">const</span> std::vector&lt;uint&gt; &amp;UUIDs = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a7d0b3a6ca36b02702b06208a735a3b03">getObjectPrimitiveUUIDs</a>(ID);</div>
+<div class="line"><a id="l03095" name="l03095"></a><span class="lineno"> 3095</span>            <span class="keywordflow">for</span> (uint UUID: UUIDs) {</div>
+<div class="line"><a id="l03096" name="l03096"></a><span class="lineno"> 3096</span>                <span class="keyword">const</span> std::vector&lt;vec3&gt; &amp;vertices = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ae8542fd1452150d3302675a0a3d991ed">getPrimitiveVertices</a>(UUID);</div>
+<div class="line"><a id="l03097" name="l03097"></a><span class="lineno"> 3097</span>                <span class="keywordflow">for</span> (<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> &amp;v: vertices) {</div>
+<div class="line"><a id="l03098" name="l03098"></a><span class="lineno"> 3098</span>                    <span class="keywordflow">if</span> (v.z &lt; ground_clipping_height) {</div>
+<div class="line"><a id="l03099" name="l03099"></a><span class="lineno"> 3099</span>                        <span class="keywordflow">return</span> <span class="keyword">true</span>;</div>
+<div class="line"><a id="l03100" name="l03100"></a><span class="lineno"> 3100</span>                    }</div>
+<div class="line"><a id="l03101" name="l03101"></a><span class="lineno"> 3101</span>                }</div>
+<div class="line"><a id="l03102" name="l03102"></a><span class="lineno"> 3102</span>            }</div>
+<div class="line"><a id="l03103" name="l03103"></a><span class="lineno"> 3103</span>        }</div>
+<div class="line"><a id="l03104" name="l03104"></a><span class="lineno"> 3104</span>    }</div>
+<div class="line"><a id="l03105" name="l03105"></a><span class="lineno"> 3105</span>    <span class="keywordflow">return</span> <span class="keyword">false</span>;</div>
+<div class="line"><a id="l03106" name="l03106"></a><span class="lineno"> 3106</span> </div>
+<div class="line"><a id="l03107" name="l03107"></a><span class="lineno"> 3107</span>}</div>
+<div class="line"><a id="l03108" name="l03108"></a><span class="lineno"> 3108</span> </div>
+<div class="foldopen" id="foldopen03109" data-start="{" data-end="}">
+<div class="line"><a id="l03109" name="l03109"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#acc53c4a5dd259f25b2b4a26907f8b749"> 3109</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#acc53c4a5dd259f25b2b4a26907f8b749">PlantArchitecture::optionalOutputObjectData</a>( <span class="keyword">const</span> std::string &amp;object_data_label ){</div>
+<div class="line"><a id="l03110" name="l03110"></a><span class="lineno"> 3110</span>    <span class="keywordflow">if</span>( output_object_data.find(object_data_label)==output_object_data.end() ){</div>
+<div class="line"><a id="l03111" name="l03111"></a><span class="lineno"> 3111</span>        std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (PlantArchitecture::optionalOutputObjectData): Output object data of &#39;&quot;</span> &lt;&lt; object_data_label &lt;&lt; <span class="stringliteral">&quot;&#39; is not a valid option.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03112" name="l03112"></a><span class="lineno"> 3112</span>        <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l03113" name="l03113"></a><span class="lineno"> 3113</span>    }</div>
+<div class="line"><a id="l03114" name="l03114"></a><span class="lineno"> 3114</span>    output_object_data.at(object_data_label) = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l03115" name="l03115"></a><span class="lineno"> 3115</span>}</div>
 </div>
-<div class="line"><a id="l03115" name="l03115"></a><span class="lineno"> 3115</span> </div>
-<div class="foldopen" id="foldopen03116" data-start="{" data-end="}">
-<div class="line"><a id="l03116" name="l03116"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a435b4a07a5ce3ed4e0de58b286c5b883"> 3116</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#acc53c4a5dd259f25b2b4a26907f8b749">PlantArchitecture::optionalOutputObjectData</a>( <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;object_data_labels ){</div>
-<div class="line"><a id="l03117" name="l03117"></a><span class="lineno"> 3117</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;label : object_data_labels){</div>
-<div class="line"><a id="l03118" name="l03118"></a><span class="lineno"> 3118</span>        <span class="keywordflow">if</span>( output_object_data.find(label)==output_object_data.end() ){</div>
-<div class="line"><a id="l03119" name="l03119"></a><span class="lineno"> 3119</span>            std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (PlantArchitecture::optionalOutputObjectData): Output object data of &#39;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;&#39; is not a valid option.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03120" name="l03120"></a><span class="lineno"> 3120</span>            <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l03121" name="l03121"></a><span class="lineno"> 3121</span>        }</div>
-<div class="line"><a id="l03122" name="l03122"></a><span class="lineno"> 3122</span>        output_object_data.at(label) = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l03123" name="l03123"></a><span class="lineno"> 3123</span>    }</div>
-<div class="line"><a id="l03124" name="l03124"></a><span class="lineno"> 3124</span>}</div>
+<div class="line"><a id="l03116" name="l03116"></a><span class="lineno"> 3116</span> </div>
+<div class="foldopen" id="foldopen03117" data-start="{" data-end="}">
+<div class="line"><a id="l03117" name="l03117"></a><span class="lineno"><a class="line" href="class_plant_architecture.html#a435b4a07a5ce3ed4e0de58b286c5b883"> 3117</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_plant_architecture.html#acc53c4a5dd259f25b2b4a26907f8b749">PlantArchitecture::optionalOutputObjectData</a>( <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;object_data_labels ){</div>
+<div class="line"><a id="l03118" name="l03118"></a><span class="lineno"> 3118</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;label : object_data_labels){</div>
+<div class="line"><a id="l03119" name="l03119"></a><span class="lineno"> 3119</span>        <span class="keywordflow">if</span>( output_object_data.find(label)==output_object_data.end() ){</div>
+<div class="line"><a id="l03120" name="l03120"></a><span class="lineno"> 3120</span>            std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (PlantArchitecture::optionalOutputObjectData): Output object data of &#39;&quot;</span> &lt;&lt; label &lt;&lt; <span class="stringliteral">&quot;&#39; is not a valid option.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03121" name="l03121"></a><span class="lineno"> 3121</span>            <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l03122" name="l03122"></a><span class="lineno"> 3122</span>        }</div>
+<div class="line"><a id="l03123" name="l03123"></a><span class="lineno"> 3123</span>        output_object_data.at(label) = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l03124" name="l03124"></a><span class="lineno"> 3124</span>    }</div>
+<div class="line"><a id="l03125" name="l03125"></a><span class="lineno"> 3125</span>}</div>
 </div>
 <div class="ttc" id="a_canopy_generator_8h_html_a339d165bb0c396a75ce255fbe16a20d4"><div class="ttname"><a href="_canopy_generator_8h.html#a339d165bb0c396a75ce255fbe16a20d4">interpolateTube</a></div><div class="ttdeci">helios::vec3 interpolateTube(const std::vector&lt; helios::vec3 &gt; &amp;P, float frac)</div><div class="ttdoc">Interpolate the position of a point along a tube.</div><div class="ttdef"><b>Definition</b> <a href="_canopy_generator_8cpp_source.html#l03226">CanopyGenerator.cpp:3226</a></div></div>
 <div class="ttc" id="a_plant_architecture_8cpp_html_a3d09d2e054283f9202ad662a2c131018"><div class="ttname"><a href="_plant_architecture_8cpp.html#a3d09d2e054283f9202ad662a2c131018">interpolateTube</a></div><div class="ttdeci">float interpolateTube(const std::vector&lt; float &gt; &amp;P, float frac)</div><div class="ttdoc">Interpolate the radius of a point along a tube.</div><div class="ttdef"><b>Definition</b> <a href="#l00022">PlantArchitecture.cpp:22</a></div></div>
 <div class="ttc" id="a_plant_architecture_8h_html"><div class="ttname"><a href="_plant_architecture_8h.html">PlantArchitecture.h</a></div></div>
 <div class="ttc" id="a_plant_architecture_8h_html_a90314e1f16ad76c838da858b9bf0ae86"><div class="ttname"><a href="_plant_architecture_8h.html#a90314e1f16ad76c838da858b9bf0ae86">makeTubeFromCones</a></div><div class="ttdeci">std::vector&lt; uint &gt; makeTubeFromCones(uint radial_subdivisions, const std::vector&lt; helios::vec3 &gt; &amp;vertices, const std::vector&lt; float &gt; &amp;radii, const std::vector&lt; helios::RGBcolor &gt; &amp;colors, helios::Context *context_ptr)</div><div class="ttdoc">Add geometry to the Context consisting of a series of Cone objects to form a tube-like shape.</div></div>
 <div class="ttc" id="aclass_plant_architecture_html"><div class="ttname"><a href="class_plant_architecture.html">PlantArchitecture</a></div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8h_source.html#l00936">PlantArchitecture.h:936</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a046541b573d8e03845a2038370cd6665"><div class="ttname"><a href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">PlantArchitecture::addPlantInstance</a></div><div class="ttdeci">uint addPlantInstance(const helios::vec3 &amp;base_position, float current_age)</div><div class="ttdoc">Create an instance of a plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02568">PlantArchitecture.cpp:2568</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a0832e7e5e15d64c3ee52ea3d640dee27"><div class="ttname"><a href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">PlantArchitecture::addChildShoot</a></div><div class="ttdeci">uint addChildShoot(uint plantID, int parent_shoot_ID, uint parent_node_index, uint current_node_number, const AxisRotation &amp;shoot_base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label, uint petiole_index=0)</div><div class="ttdoc">Manually add a child shoot at the axillary bud of a phytomer.</div><div class="ttdef"><b>Definition</b> <a href="#l01976">PlantArchitecture.cpp:1976</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a122fad48603e2e0f2fe6d870c691bfd1"><div class="ttname"><a href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">PlantArchitecture::appendPhytomerToShoot</a></div><div class="ttdeci">int appendPhytomerToShoot(uint plantID, uint shootID, const PhytomerParameters &amp;phytomer_parameters, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction)</div><div class="ttdoc">Add a new phytomer at the terminal bud of a shoot.</div><div class="ttdef"><b>Definition</b> <a href="#l02058">PlantArchitecture.cpp:2058</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a1cb3e4ba93c7a94558c3c07496e550c2"><div class="ttname"><a href="class_plant_architecture.html#a1cb3e4ba93c7a94558c3c07496e550c2">PlantArchitecture::getPlantFlowerObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantFlowerObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all inflorescence objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02514">PlantArchitecture.cpp:2514</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a25a69b3eee4eab6501a8bedc777b8c55"><div class="ttname"><a href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55">PlantArchitecture::appendShoot</a></div><div class="ttdeci">uint appendShoot(uint plantID, int parent_shoot_ID, uint current_node_number, const AxisRotation &amp;base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Manually append a new shoot at the end of an existing shoot. This is used when the characteristics of...</div><div class="ttdef"><b>Definition</b> <a href="#l01931">PlantArchitecture.cpp:1931</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a27dd2c46b6bb9f5c922d18acb6d9ba69"><div class="ttname"><a href="class_plant_architecture.html#a27dd2c46b6bb9f5c922d18acb6d9ba69">PlantArchitecture::enableGroundClipping</a></div><div class="ttdeci">void enableGroundClipping(float ground_height=0.f)</div><div class="ttdoc">Enable automatic removal of organs that are below the ground plane.</div><div class="ttdef"><b>Definition</b> <a href="#l02133">PlantArchitecture.cpp:2133</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a32e88ebd4d0bb468f6c0a2655833bff6"><div class="ttname"><a href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">PlantArchitecture::addBaseStemShoot</a></div><div class="ttdeci">uint addBaseStemShoot(uint plantID, uint current_node_number, const AxisRotation &amp;base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Define the stem/trunk shoot (base of plant) to start a new plant. This requires a plant instance has ...</div><div class="ttdef"><b>Definition</b> <a href="#l01899">PlantArchitecture.cpp:1899</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a3bdffb4e53fe0da836a40de80946d31f"><div class="ttname"><a href="class_plant_architecture.html#a3bdffb4e53fe0da836a40de80946d31f">PlantArchitecture::getAllPlantUUIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getAllPlantUUIDs(uint plantID) const</div><div class="ttdoc">Get primitive UUIDs for all primitives in a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02426">PlantArchitecture.cpp:2426</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a48af3a5e39855f6c79459146dd2b9089"><div class="ttname"><a href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">PlantArchitecture::setPlantPhenologicalThresholds</a></div><div class="ttdeci">void setPlantPhenologicalThresholds(uint plantID, float time_to_dormancy_break, float time_to_flower_initiation, float time_to_flower_opening, float time_to_fruit_set, float time_to_fruit_maturity, float time_to_senescence, bool is_evergreen=false)</div><div class="ttdoc">Specify the threshold values for plant phenological stages.</div><div class="ttdef"><b>Definition</b> <a href="#l02657">PlantArchitecture.cpp:2657</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a53967340a1c9b88f4b804522f081ce62"><div class="ttname"><a href="class_plant_architecture.html#a53967340a1c9b88f4b804522f081ce62">PlantArchitecture::getPlantInternodeObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantInternodeObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all internode (Tube) objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02430">PlantArchitecture.cpp:2430</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a046541b573d8e03845a2038370cd6665"><div class="ttname"><a href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">PlantArchitecture::addPlantInstance</a></div><div class="ttdeci">uint addPlantInstance(const helios::vec3 &amp;base_position, float current_age)</div><div class="ttdoc">Create an instance of a plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02569">PlantArchitecture.cpp:2569</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a0832e7e5e15d64c3ee52ea3d640dee27"><div class="ttname"><a href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">PlantArchitecture::addChildShoot</a></div><div class="ttdeci">uint addChildShoot(uint plantID, int parent_shoot_ID, uint parent_node_index, uint current_node_number, const AxisRotation &amp;shoot_base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label, uint petiole_index=0)</div><div class="ttdoc">Manually add a child shoot at the axillary bud of a phytomer.</div><div class="ttdef"><b>Definition</b> <a href="#l01977">PlantArchitecture.cpp:1977</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a122fad48603e2e0f2fe6d870c691bfd1"><div class="ttname"><a href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">PlantArchitecture::appendPhytomerToShoot</a></div><div class="ttdeci">int appendPhytomerToShoot(uint plantID, uint shootID, const PhytomerParameters &amp;phytomer_parameters, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction)</div><div class="ttdoc">Add a new phytomer at the terminal bud of a shoot.</div><div class="ttdef"><b>Definition</b> <a href="#l02059">PlantArchitecture.cpp:2059</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a1cb3e4ba93c7a94558c3c07496e550c2"><div class="ttname"><a href="class_plant_architecture.html#a1cb3e4ba93c7a94558c3c07496e550c2">PlantArchitecture::getPlantFlowerObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantFlowerObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all inflorescence objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02515">PlantArchitecture.cpp:2515</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a25a69b3eee4eab6501a8bedc777b8c55"><div class="ttname"><a href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55">PlantArchitecture::appendShoot</a></div><div class="ttdeci">uint appendShoot(uint plantID, int parent_shoot_ID, uint current_node_number, const AxisRotation &amp;base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Manually append a new shoot at the end of an existing shoot. This is used when the characteristics of...</div><div class="ttdef"><b>Definition</b> <a href="#l01932">PlantArchitecture.cpp:1932</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a27dd2c46b6bb9f5c922d18acb6d9ba69"><div class="ttname"><a href="class_plant_architecture.html#a27dd2c46b6bb9f5c922d18acb6d9ba69">PlantArchitecture::enableGroundClipping</a></div><div class="ttdeci">void enableGroundClipping(float ground_height=0.f)</div><div class="ttdoc">Enable automatic removal of organs that are below the ground plane.</div><div class="ttdef"><b>Definition</b> <a href="#l02134">PlantArchitecture.cpp:2134</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a32e88ebd4d0bb468f6c0a2655833bff6"><div class="ttname"><a href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">PlantArchitecture::addBaseStemShoot</a></div><div class="ttdeci">uint addBaseStemShoot(uint plantID, uint current_node_number, const AxisRotation &amp;base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Define the stem/trunk shoot (base of plant) to start a new plant. This requires a plant instance has ...</div><div class="ttdef"><b>Definition</b> <a href="#l01900">PlantArchitecture.cpp:1900</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a3bdffb4e53fe0da836a40de80946d31f"><div class="ttname"><a href="class_plant_architecture.html#a3bdffb4e53fe0da836a40de80946d31f">PlantArchitecture::getAllPlantUUIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getAllPlantUUIDs(uint plantID) const</div><div class="ttdoc">Get primitive UUIDs for all primitives in a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02427">PlantArchitecture.cpp:2427</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a48af3a5e39855f6c79459146dd2b9089"><div class="ttname"><a href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">PlantArchitecture::setPlantPhenologicalThresholds</a></div><div class="ttdeci">void setPlantPhenologicalThresholds(uint plantID, float time_to_dormancy_break, float time_to_flower_initiation, float time_to_flower_opening, float time_to_fruit_set, float time_to_fruit_maturity, float time_to_senescence, bool is_evergreen=false)</div><div class="ttdoc">Specify the threshold values for plant phenological stages.</div><div class="ttdef"><b>Definition</b> <a href="#l02658">PlantArchitecture.cpp:2658</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a53967340a1c9b88f4b804522f081ce62"><div class="ttname"><a href="class_plant_architecture.html#a53967340a1c9b88f4b804522f081ce62">PlantArchitecture::getPlantInternodeObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantInternodeObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all internode (Tube) objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02431">PlantArchitecture.cpp:2431</a></div></div>
 <div class="ttc" id="aclass_plant_architecture_html_a5488e0b6ea210ebe4dc8270bd6a9664d"><div class="ttname"><a href="class_plant_architecture.html#a5488e0b6ea210ebe4dc8270bd6a9664d">PlantArchitecture::buildPlantCanopyFromLibrary</a></div><div class="ttdeci">std::vector&lt; uint &gt; buildPlantCanopyFromLibrary(const helios::vec3 &amp;canopy_center_position, const helios::vec2 &amp;plant_spacing_xy, const helios::int2 &amp;plant_count_xy, float age)</div><div class="ttdoc">Build a canopy of regularly spaced plants based on the model currently loaded from the library.</div><div class="ttdef"><b>Definition</b> <a href="#l00216">PlantArchitecture.cpp:216</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a71918ef58e5257e4a8a338dba4f9b328"><div class="ttname"><a href="class_plant_architecture.html#a71918ef58e5257e4a8a338dba4f9b328">PlantArchitecture::disablePeduncleContextBuild</a></div><div class="ttdeci">void disablePeduncleContextBuild()</div><div class="ttdoc">Do not build peduncle primitive geometry in the Context.</div><div class="ttdef"><b>Definition</b> <a href="#l02129">PlantArchitecture.cpp:2129</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a892ccc80c958b43d7528fa07006117e7"><div class="ttname"><a href="class_plant_architecture.html#a892ccc80c958b43d7528fa07006117e7">PlantArchitecture::deletePlantInstance</a></div><div class="ttdeci">void deletePlantInstance(uint plantID)</div><div class="ttdoc">Delete an existing plant instance.</div><div class="ttdef"><b>Definition</b> <a href="#l02637">PlantArchitecture.cpp:2637</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a8fc29c4a5b44430a34fc780180a01e8b"><div class="ttname"><a href="class_plant_architecture.html#a8fc29c4a5b44430a34fc780180a01e8b">PlantArchitecture::enableEpicormicChildShoots</a></div><div class="ttdeci">void enableEpicormicChildShoots(uint plantID, const std::string &amp;epicormic_shoot_type_label, float epicormic_probability_perlength_perday)</div><div class="ttdoc">Enable shoot type to produce epicormic child shoots (water sprouts)</div><div class="ttdef"><b>Definition</b> <a href="#l02107">PlantArchitecture.cpp:2107</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a71918ef58e5257e4a8a338dba4f9b328"><div class="ttname"><a href="class_plant_architecture.html#a71918ef58e5257e4a8a338dba4f9b328">PlantArchitecture::disablePeduncleContextBuild</a></div><div class="ttdeci">void disablePeduncleContextBuild()</div><div class="ttdoc">Do not build peduncle primitive geometry in the Context.</div><div class="ttdef"><b>Definition</b> <a href="#l02130">PlantArchitecture.cpp:2130</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a892ccc80c958b43d7528fa07006117e7"><div class="ttname"><a href="class_plant_architecture.html#a892ccc80c958b43d7528fa07006117e7">PlantArchitecture::deletePlantInstance</a></div><div class="ttdeci">void deletePlantInstance(uint plantID)</div><div class="ttdoc">Delete an existing plant instance.</div><div class="ttdef"><b>Definition</b> <a href="#l02638">PlantArchitecture.cpp:2638</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a8fc29c4a5b44430a34fc780180a01e8b"><div class="ttname"><a href="class_plant_architecture.html#a8fc29c4a5b44430a34fc780180a01e8b">PlantArchitecture::enableEpicormicChildShoots</a></div><div class="ttdeci">void enableEpicormicChildShoots(uint plantID, const std::string &amp;epicormic_shoot_type_label, float epicormic_probability_perlength_perday)</div><div class="ttdoc">Enable shoot type to produce epicormic child shoots (water sprouts)</div><div class="ttdef"><b>Definition</b> <a href="#l02108">PlantArchitecture.cpp:2108</a></div></div>
 <div class="ttc" id="aclass_plant_architecture_html_a9700f223b8f60bf37852ad87d30e7fc0"><div class="ttname"><a href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">PlantArchitecture::defineShootType</a></div><div class="ttdeci">void defineShootType(const std::string &amp;shoot_type_label, const ShootParameters &amp;shoot_params)</div><div class="ttdoc">Define a new shoot type based on a set of ShootParameters.</div><div class="ttdef"><b>Definition</b> <a href="#l00235">PlantArchitecture.cpp:235</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_aac602c603ac136c3aaffad052bd844d4"><div class="ttname"><a href="class_plant_architecture.html#aac602c603ac136c3aaffad052bd844d4">PlantArchitecture::getPlantFruitObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantFruitObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all fruit objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02541">PlantArchitecture.cpp:2541</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_ab4ae495e7aebc365826f2a2f02a24338"><div class="ttname"><a href="class_plant_architecture.html#ab4ae495e7aebc365826f2a2f02a24338">PlantArchitecture::disablePetioleContextBuild</a></div><div class="ttdeci">void disablePetioleContextBuild()</div><div class="ttdoc">Do not build petiole primitive geometry in the Context.</div><div class="ttdef"><b>Definition</b> <a href="#l02125">PlantArchitecture.cpp:2125</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_aac602c603ac136c3aaffad052bd844d4"><div class="ttname"><a href="class_plant_architecture.html#aac602c603ac136c3aaffad052bd844d4">PlantArchitecture::getPlantFruitObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantFruitObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all fruit objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02542">PlantArchitecture.cpp:2542</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_ab4ae495e7aebc365826f2a2f02a24338"><div class="ttname"><a href="class_plant_architecture.html#ab4ae495e7aebc365826f2a2f02a24338">PlantArchitecture::disablePetioleContextBuild</a></div><div class="ttdeci">void disablePetioleContextBuild()</div><div class="ttdoc">Do not build petiole primitive geometry in the Context.</div><div class="ttdef"><b>Definition</b> <a href="#l02126">PlantArchitecture.cpp:2126</a></div></div>
 <div class="ttc" id="aclass_plant_architecture_html_ab55c86604c49abcedde90adb395074e9"><div class="ttname"><a href="class_plant_architecture.html#ab55c86604c49abcedde90adb395074e9">PlantArchitecture::PlantArchitecture</a></div><div class="ttdeci">PlantArchitecture(helios::Context *context_ptr)</div><div class="ttdoc">Main architectural model class constructor.</div><div class="ttdef"><b>Definition</b> <a href="#l00087">PlantArchitecture.cpp:87</a></div></div>
 <div class="ttc" id="aclass_plant_architecture_html_ab98a62363a5e4553c5052a23e39711ba"><div class="ttname"><a href="class_plant_architecture.html#ab98a62363a5e4553c5052a23e39711ba">PlantArchitecture::buildPlantInstanceFromLibrary</a></div><div class="ttdeci">uint buildPlantInstanceFromLibrary(const helios::vec3 &amp;base_position, float age)</div><div class="ttdoc">Build a plant instance based on the model currently loaded from the library.</div><div class="ttdef"><b>Definition</b> <a href="_plant_library_8cpp_source.html#l00027">PlantLibrary.cpp:27</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_acc53c4a5dd259f25b2b4a26907f8b749"><div class="ttname"><a href="class_plant_architecture.html#acc53c4a5dd259f25b2b4a26907f8b749">PlantArchitecture::optionalOutputObjectData</a></div><div class="ttdeci">void optionalOutputObjectData(const std::string &amp;object_data_label)</div><div class="ttdoc">Add optional output object data values to the Context.</div><div class="ttdef"><b>Definition</b> <a href="#l03108">PlantArchitecture.cpp:3108</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_acd6de0d13dbc534992b94a203a16b76d"><div class="ttname"><a href="class_plant_architecture.html#acd6de0d13dbc534992b94a203a16b76d">PlantArchitecture::duplicatePlantInstance</a></div><div class="ttdeci">uint duplicatePlantInstance(uint plantID, const helios::vec3 &amp;base_position, const AxisRotation &amp;base_rotation, float current_age)</div><div class="ttdoc">Duplicate an existing plant instance and specify its base position and age.</div><div class="ttdef"><b>Definition</b> <a href="#l02584">PlantArchitecture.cpp:2584</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_acf9855048c790d30d8d4de7fa1dc3550"><div class="ttname"><a href="class_plant_architecture.html#acf9855048c790d30d8d4de7fa1dc3550">PlantArchitecture::getAllPlantObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getAllPlantObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all organs objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02396">PlantArchitecture.cpp:2396</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_ade786dc8bb429eb033d29ccf9df6b254"><div class="ttname"><a href="class_plant_architecture.html#ade786dc8bb429eb033d29ccf9df6b254">PlantArchitecture::addEpicormicShoot</a></div><div class="ttdeci">uint addEpicormicShoot(uint plantID, int parent_shoot_ID, float parent_position_fraction, uint current_node_number, float zenith_perturbation_degrees, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Manually add a child epicormic shoot (water sprout) at an arbitrary position along the shoot.</div><div class="ttdef"><b>Definition</b> <a href="#l02020">PlantArchitecture.cpp:2020</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_ae8be24e5a963c49e7ab9ce5641fddec6"><div class="ttname"><a href="class_plant_architecture.html#ae8be24e5a963c49e7ab9ce5641fddec6">PlantArchitecture::sumPlantLeafArea</a></div><div class="ttdeci">float sumPlantLeafArea(uint plantID) const</div><div class="ttdoc">Sum the one-sided leaf area of all leaves in the plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02263">PlantArchitecture.cpp:2263</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_aee2486b87dca29982dd1b380aa3510fb"><div class="ttname"><a href="class_plant_architecture.html#aee2486b87dca29982dd1b380aa3510fb">PlantArchitecture::getPlantPetioleObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantPetioleObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all petiole (Tube) objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02448">PlantArchitecture.cpp:2448</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_af66af0968daf0fef4135b4434c61dc60"><div class="ttname"><a href="class_plant_architecture.html#af66af0968daf0fef4135b4434c61dc60">PlantArchitecture::disableInternodeContextBuild</a></div><div class="ttdeci">void disableInternodeContextBuild()</div><div class="ttdoc">Do not build internode primitive geometry in the Context.</div><div class="ttdef"><b>Definition</b> <a href="#l02121">PlantArchitecture.cpp:2121</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_af8a9f26212baf6695d71d44b982e6adf"><div class="ttname"><a href="class_plant_architecture.html#af8a9f26212baf6695d71d44b982e6adf">PlantArchitecture::getPlantPeduncleObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantPeduncleObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all peduncle (Tube) objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02490">PlantArchitecture.cpp:2490</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_afac9e51e48de17afa485128dbea39019"><div class="ttname"><a href="class_plant_architecture.html#afac9e51e48de17afa485128dbea39019">PlantArchitecture::advanceTime</a></div><div class="ttdeci">void advanceTime(float dt)</div><div class="ttdoc">Advance plant growth by a specified time interval for all plants.</div><div class="ttdef"><b>Definition</b> <a href="#l02682">PlantArchitecture.cpp:2682</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_afcdea7f14c6ca722d39d94ff19ba87b4"><div class="ttname"><a href="class_plant_architecture.html#afcdea7f14c6ca722d39d94ff19ba87b4">PlantArchitecture::getPlantLeafObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantLeafObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all leaf objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02469">PlantArchitecture.cpp:2469</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_acc53c4a5dd259f25b2b4a26907f8b749"><div class="ttname"><a href="class_plant_architecture.html#acc53c4a5dd259f25b2b4a26907f8b749">PlantArchitecture::optionalOutputObjectData</a></div><div class="ttdeci">void optionalOutputObjectData(const std::string &amp;object_data_label)</div><div class="ttdoc">Add optional output object data values to the Context.</div><div class="ttdef"><b>Definition</b> <a href="#l03109">PlantArchitecture.cpp:3109</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_acd6de0d13dbc534992b94a203a16b76d"><div class="ttname"><a href="class_plant_architecture.html#acd6de0d13dbc534992b94a203a16b76d">PlantArchitecture::duplicatePlantInstance</a></div><div class="ttdeci">uint duplicatePlantInstance(uint plantID, const helios::vec3 &amp;base_position, const AxisRotation &amp;base_rotation, float current_age)</div><div class="ttdoc">Duplicate an existing plant instance and specify its base position and age.</div><div class="ttdef"><b>Definition</b> <a href="#l02585">PlantArchitecture.cpp:2585</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_acf9855048c790d30d8d4de7fa1dc3550"><div class="ttname"><a href="class_plant_architecture.html#acf9855048c790d30d8d4de7fa1dc3550">PlantArchitecture::getAllPlantObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getAllPlantObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all organs objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02397">PlantArchitecture.cpp:2397</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_ade786dc8bb429eb033d29ccf9df6b254"><div class="ttname"><a href="class_plant_architecture.html#ade786dc8bb429eb033d29ccf9df6b254">PlantArchitecture::addEpicormicShoot</a></div><div class="ttdeci">uint addEpicormicShoot(uint plantID, int parent_shoot_ID, float parent_position_fraction, uint current_node_number, float zenith_perturbation_degrees, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Manually add a child epicormic shoot (water sprout) at an arbitrary position along the shoot.</div><div class="ttdef"><b>Definition</b> <a href="#l02021">PlantArchitecture.cpp:2021</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_ae8be24e5a963c49e7ab9ce5641fddec6"><div class="ttname"><a href="class_plant_architecture.html#ae8be24e5a963c49e7ab9ce5641fddec6">PlantArchitecture::sumPlantLeafArea</a></div><div class="ttdeci">float sumPlantLeafArea(uint plantID) const</div><div class="ttdoc">Sum the one-sided leaf area of all leaves in the plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02264">PlantArchitecture.cpp:2264</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_aee2486b87dca29982dd1b380aa3510fb"><div class="ttname"><a href="class_plant_architecture.html#aee2486b87dca29982dd1b380aa3510fb">PlantArchitecture::getPlantPetioleObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantPetioleObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all petiole (Tube) objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02449">PlantArchitecture.cpp:2449</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_af66af0968daf0fef4135b4434c61dc60"><div class="ttname"><a href="class_plant_architecture.html#af66af0968daf0fef4135b4434c61dc60">PlantArchitecture::disableInternodeContextBuild</a></div><div class="ttdeci">void disableInternodeContextBuild()</div><div class="ttdoc">Do not build internode primitive geometry in the Context.</div><div class="ttdef"><b>Definition</b> <a href="#l02122">PlantArchitecture.cpp:2122</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_af8a9f26212baf6695d71d44b982e6adf"><div class="ttname"><a href="class_plant_architecture.html#af8a9f26212baf6695d71d44b982e6adf">PlantArchitecture::getPlantPeduncleObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantPeduncleObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all peduncle (Tube) objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02491">PlantArchitecture.cpp:2491</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_afac9e51e48de17afa485128dbea39019"><div class="ttname"><a href="class_plant_architecture.html#afac9e51e48de17afa485128dbea39019">PlantArchitecture::advanceTime</a></div><div class="ttdeci">void advanceTime(float dt)</div><div class="ttdoc">Advance plant growth by a specified time interval for all plants.</div><div class="ttdef"><b>Definition</b> <a href="#l02683">PlantArchitecture.cpp:2683</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_afcdea7f14c6ca722d39d94ff19ba87b4"><div class="ttname"><a href="class_plant_architecture.html#afcdea7f14c6ca722d39d94ff19ba87b4">PlantArchitecture::getPlantLeafObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantLeafObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all leaf objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="#l02470">PlantArchitecture.cpp:2470</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_cone_html_aaefa3caee5b8e46ca46650031d0bee0a"><div class="ttname"><a href="classhelios_1_1_cone.html#aaefa3caee5b8e46ca46650031d0bee0a">helios::Cone::scaleLength</a></div><div class="ttdeci">void scaleLength(float S)</div><div class="ttdoc">Method to scale the length of the cone.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l04174">Context.cpp:4174</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_cone_html_ad40b7cda9baac86be967058736b2bb78"><div class="ttname"><a href="classhelios_1_1_cone.html#ad40b7cda9baac86be967058736b2bb78">helios::Cone::scaleGirth</a></div><div class="ttdeci">void scaleGirth(float S)</div><div class="ttdoc">Method to scale the girth of the cone.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l04223">Context.cpp:4223</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html"><div class="ttname"><a href="classhelios_1_1_context.html">helios::Context</a></div><div class="ttdoc">Stores the state associated with simulation.</div><div class="ttdef"><b>Definition</b> <a href="_context_8h_source.html#l01882">Context.h:1882</a></div></div>
@@ -3379,22 +3380,22 @@
 <div class="ttc" id="ahelios__vector__types_8h_html_aa4e7459e7404915c12903a5c08588f5b"><div class="ttname"><a href="helios__vector__types_8h.html#aa4e7459e7404915c12903a5c08588f5b">helios::cross</a></div><div class="ttdeci">vec3 cross(const vec3 &amp;a, const vec3 &amp;b)</div><div class="ttdoc">Cross product of two vec3 vectors.</div><div class="ttdef"><b>Definition</b> <a href="helios__vector__types_8h_source.html#l00599">helios_vector_types.h:599</a></div></div>
 <div class="ttc" id="astruct_axis_rotation_html"><div class="ttname"><a href="struct_axis_rotation.html">AxisRotation</a></div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8h_source.html#l00221">PlantArchitecture.h:221</a></div></div>
 <div class="ttc" id="astruct_floral_bud_html"><div class="ttname"><a href="struct_floral_bud.html">FloralBud</a></div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8h_source.html#l00292">PlantArchitecture.h:292</a></div></div>
-<div class="ttc" id="astruct_phytomer_html_a25a09ac7a2eb07d34fed5c6d9fad213e"><div class="ttname"><a href="struct_phytomer.html#a25a09ac7a2eb07d34fed5c6d9fad213e">Phytomer::setInternodeMaxLength</a></div><div class="ttdeci">void setInternodeMaxLength(float internode_length_max_new)</div><div class="ttdoc">Set the fully-elongated (maximum) internode length.</div><div class="ttdef"><b>Definition</b> <a href="#l01597">PlantArchitecture.cpp:1597</a></div></div>
+<div class="ttc" id="astruct_phytomer_html_a25a09ac7a2eb07d34fed5c6d9fad213e"><div class="ttname"><a href="struct_phytomer.html#a25a09ac7a2eb07d34fed5c6d9fad213e">Phytomer::setInternodeMaxLength</a></div><div class="ttdeci">void setInternodeMaxLength(float internode_length_max_new)</div><div class="ttdoc">Set the fully-elongated (maximum) internode length.</div><div class="ttdef"><b>Definition</b> <a href="#l01598">PlantArchitecture.cpp:1598</a></div></div>
 <div class="ttc" id="astruct_phytomer_html_a63c1deff7ef09e41bddc155cb4e22861"><div class="ttname"><a href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">Phytomer::petiole_vertices</a></div><div class="ttdeci">std::vector&lt; std::vector&lt; helios::vec3 &gt; &gt; petiole_vertices</div><div class="ttdoc">Coordinates of internode tube segments. Index is tube segment within internode.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8h_source.html#l00746">PlantArchitecture.h:746</a></div></div>
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-<div class="ttc" id="aclass_plant_architecture_html_a046541b573d8e03845a2038370cd6665"><div class="ttname"><a href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">PlantArchitecture::addPlantInstance</a></div><div class="ttdeci">uint addPlantInstance(const helios::vec3 &amp;base_position, float current_age)</div><div class="ttdoc">Create an instance of a plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02568">PlantArchitecture.cpp:2568</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a0832e7e5e15d64c3ee52ea3d640dee27"><div class="ttname"><a href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">PlantArchitecture::addChildShoot</a></div><div class="ttdeci">uint addChildShoot(uint plantID, int parent_shoot_ID, uint parent_node_index, uint current_node_number, const AxisRotation &amp;shoot_base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label, uint petiole_index=0)</div><div class="ttdoc">Manually add a child shoot at the axillary bud of a phytomer.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01976">PlantArchitecture.cpp:1976</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a122fad48603e2e0f2fe6d870c691bfd1"><div class="ttname"><a href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">PlantArchitecture::appendPhytomerToShoot</a></div><div class="ttdeci">int appendPhytomerToShoot(uint plantID, uint shootID, const PhytomerParameters &amp;phytomer_parameters, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction)</div><div class="ttdoc">Add a new phytomer at the terminal bud of a shoot.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02058">PlantArchitecture.cpp:2058</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a046541b573d8e03845a2038370cd6665"><div class="ttname"><a href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">PlantArchitecture::addPlantInstance</a></div><div class="ttdeci">uint addPlantInstance(const helios::vec3 &amp;base_position, float current_age)</div><div class="ttdoc">Create an instance of a plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02569">PlantArchitecture.cpp:2569</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a0832e7e5e15d64c3ee52ea3d640dee27"><div class="ttname"><a href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">PlantArchitecture::addChildShoot</a></div><div class="ttdeci">uint addChildShoot(uint plantID, int parent_shoot_ID, uint parent_node_index, uint current_node_number, const AxisRotation &amp;shoot_base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label, uint petiole_index=0)</div><div class="ttdoc">Manually add a child shoot at the axillary bud of a phytomer.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01977">PlantArchitecture.cpp:1977</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a122fad48603e2e0f2fe6d870c691bfd1"><div class="ttname"><a href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">PlantArchitecture::appendPhytomerToShoot</a></div><div class="ttdeci">int appendPhytomerToShoot(uint plantID, uint shootID, const PhytomerParameters &amp;phytomer_parameters, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction)</div><div class="ttdoc">Add a new phytomer at the terminal bud of a shoot.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02059">PlantArchitecture.cpp:2059</a></div></div>
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+<div class="ttc" id="aclass_plant_architecture_html_a1cb3e4ba93c7a94558c3c07496e550c2"><div class="ttname"><a href="class_plant_architecture.html#a1cb3e4ba93c7a94558c3c07496e550c2">PlantArchitecture::getPlantFlowerObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantFlowerObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all inflorescence objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02515">PlantArchitecture.cpp:2515</a></div></div>
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-<div class="ttc" id="aclass_plant_architecture_html_a32e88ebd4d0bb468f6c0a2655833bff6"><div class="ttname"><a href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">PlantArchitecture::addBaseStemShoot</a></div><div class="ttdeci">uint addBaseStemShoot(uint plantID, uint current_node_number, const AxisRotation &amp;base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Define the stem/trunk shoot (base of plant) to start a new plant. This requires a plant instance has ...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01899">PlantArchitecture.cpp:1899</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a3bdffb4e53fe0da836a40de80946d31f"><div class="ttname"><a href="class_plant_architecture.html#a3bdffb4e53fe0da836a40de80946d31f">PlantArchitecture::getAllPlantUUIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getAllPlantUUIDs(uint plantID) const</div><div class="ttdoc">Get primitive UUIDs for all primitives in a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02426">PlantArchitecture.cpp:2426</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a48af3a5e39855f6c79459146dd2b9089"><div class="ttname"><a href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">PlantArchitecture::setPlantPhenologicalThresholds</a></div><div class="ttdeci">void setPlantPhenologicalThresholds(uint plantID, float time_to_dormancy_break, float time_to_flower_initiation, float time_to_flower_opening, float time_to_fruit_set, float time_to_fruit_maturity, float time_to_senescence, bool is_evergreen=false)</div><div class="ttdoc">Specify the threshold values for plant phenological stages.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02657">PlantArchitecture.cpp:2657</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a53967340a1c9b88f4b804522f081ce62"><div class="ttname"><a href="class_plant_architecture.html#a53967340a1c9b88f4b804522f081ce62">PlantArchitecture::getPlantInternodeObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantInternodeObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all internode (Tube) objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02430">PlantArchitecture.cpp:2430</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a25a69b3eee4eab6501a8bedc777b8c55"><div class="ttname"><a href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55">PlantArchitecture::appendShoot</a></div><div class="ttdeci">uint appendShoot(uint plantID, int parent_shoot_ID, uint current_node_number, const AxisRotation &amp;base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Manually append a new shoot at the end of an existing shoot. This is used when the characteristics of...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01932">PlantArchitecture.cpp:1932</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a27dd2c46b6bb9f5c922d18acb6d9ba69"><div class="ttname"><a href="class_plant_architecture.html#a27dd2c46b6bb9f5c922d18acb6d9ba69">PlantArchitecture::enableGroundClipping</a></div><div class="ttdeci">void enableGroundClipping(float ground_height=0.f)</div><div class="ttdoc">Enable automatic removal of organs that are below the ground plane.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02134">PlantArchitecture.cpp:2134</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a32e88ebd4d0bb468f6c0a2655833bff6"><div class="ttname"><a href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">PlantArchitecture::addBaseStemShoot</a></div><div class="ttdeci">uint addBaseStemShoot(uint plantID, uint current_node_number, const AxisRotation &amp;base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Define the stem/trunk shoot (base of plant) to start a new plant. This requires a plant instance has ...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01900">PlantArchitecture.cpp:1900</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a3bdffb4e53fe0da836a40de80946d31f"><div class="ttname"><a href="class_plant_architecture.html#a3bdffb4e53fe0da836a40de80946d31f">PlantArchitecture::getAllPlantUUIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getAllPlantUUIDs(uint plantID) const</div><div class="ttdoc">Get primitive UUIDs for all primitives in a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02427">PlantArchitecture.cpp:2427</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a48af3a5e39855f6c79459146dd2b9089"><div class="ttname"><a href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">PlantArchitecture::setPlantPhenologicalThresholds</a></div><div class="ttdeci">void setPlantPhenologicalThresholds(uint plantID, float time_to_dormancy_break, float time_to_flower_initiation, float time_to_flower_opening, float time_to_fruit_set, float time_to_fruit_maturity, float time_to_senescence, bool is_evergreen=false)</div><div class="ttdoc">Specify the threshold values for plant phenological stages.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02658">PlantArchitecture.cpp:2658</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a53967340a1c9b88f4b804522f081ce62"><div class="ttname"><a href="class_plant_architecture.html#a53967340a1c9b88f4b804522f081ce62">PlantArchitecture::getPlantInternodeObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantInternodeObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all internode (Tube) objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02431">PlantArchitecture.cpp:2431</a></div></div>
 <div class="ttc" id="aclass_plant_architecture_html_a5488e0b6ea210ebe4dc8270bd6a9664d"><div class="ttname"><a href="class_plant_architecture.html#a5488e0b6ea210ebe4dc8270bd6a9664d">PlantArchitecture::buildPlantCanopyFromLibrary</a></div><div class="ttdeci">std::vector&lt; uint &gt; buildPlantCanopyFromLibrary(const helios::vec3 &amp;canopy_center_position, const helios::vec2 &amp;plant_spacing_xy, const helios::int2 &amp;plant_count_xy, float age)</div><div class="ttdoc">Build a canopy of regularly spaced plants based on the model currently loaded from the library.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l00216">PlantArchitecture.cpp:216</a></div></div>
 <div class="ttc" id="aclass_plant_architecture_html_a6b3134c58139507a4dcdce7c523ce039"><div class="ttname"><a href="class_plant_architecture.html#a6b3134c58139507a4dcdce7c523ce039">PlantArchitecture::selfTest</a></div><div class="ttdeci">static int selfTest()</div><div class="ttdoc">Unit test routines.</div><div class="ttdef"><b>Definition</b> <a href="plugins_2plantarchitecture_2src_2self_test_8cpp_source.html#l00021">selfTest.cpp:21</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a71918ef58e5257e4a8a338dba4f9b328"><div class="ttname"><a href="class_plant_architecture.html#a71918ef58e5257e4a8a338dba4f9b328">PlantArchitecture::disablePeduncleContextBuild</a></div><div class="ttdeci">void disablePeduncleContextBuild()</div><div class="ttdoc">Do not build peduncle primitive geometry in the Context.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02129">PlantArchitecture.cpp:2129</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a892ccc80c958b43d7528fa07006117e7"><div class="ttname"><a href="class_plant_architecture.html#a892ccc80c958b43d7528fa07006117e7">PlantArchitecture::deletePlantInstance</a></div><div class="ttdeci">void deletePlantInstance(uint plantID)</div><div class="ttdoc">Delete an existing plant instance.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02637">PlantArchitecture.cpp:2637</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a8fc29c4a5b44430a34fc780180a01e8b"><div class="ttname"><a href="class_plant_architecture.html#a8fc29c4a5b44430a34fc780180a01e8b">PlantArchitecture::enableEpicormicChildShoots</a></div><div class="ttdeci">void enableEpicormicChildShoots(uint plantID, const std::string &amp;epicormic_shoot_type_label, float epicormic_probability_perlength_perday)</div><div class="ttdoc">Enable shoot type to produce epicormic child shoots (water sprouts)</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02107">PlantArchitecture.cpp:2107</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a71918ef58e5257e4a8a338dba4f9b328"><div class="ttname"><a href="class_plant_architecture.html#a71918ef58e5257e4a8a338dba4f9b328">PlantArchitecture::disablePeduncleContextBuild</a></div><div class="ttdeci">void disablePeduncleContextBuild()</div><div class="ttdoc">Do not build peduncle primitive geometry in the Context.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02130">PlantArchitecture.cpp:2130</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a892ccc80c958b43d7528fa07006117e7"><div class="ttname"><a href="class_plant_architecture.html#a892ccc80c958b43d7528fa07006117e7">PlantArchitecture::deletePlantInstance</a></div><div class="ttdeci">void deletePlantInstance(uint plantID)</div><div class="ttdoc">Delete an existing plant instance.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02638">PlantArchitecture.cpp:2638</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a8fc29c4a5b44430a34fc780180a01e8b"><div class="ttname"><a href="class_plant_architecture.html#a8fc29c4a5b44430a34fc780180a01e8b">PlantArchitecture::enableEpicormicChildShoots</a></div><div class="ttdeci">void enableEpicormicChildShoots(uint plantID, const std::string &amp;epicormic_shoot_type_label, float epicormic_probability_perlength_perday)</div><div class="ttdoc">Enable shoot type to produce epicormic child shoots (water sprouts)</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02108">PlantArchitecture.cpp:2108</a></div></div>
 <div class="ttc" id="aclass_plant_architecture_html_a9700f223b8f60bf37852ad87d30e7fc0"><div class="ttname"><a href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">PlantArchitecture::defineShootType</a></div><div class="ttdeci">void defineShootType(const std::string &amp;shoot_type_label, const ShootParameters &amp;shoot_params)</div><div class="ttdoc">Define a new shoot type based on a set of ShootParameters.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l00235">PlantArchitecture.cpp:235</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_aac602c603ac136c3aaffad052bd844d4"><div class="ttname"><a href="class_plant_architecture.html#aac602c603ac136c3aaffad052bd844d4">PlantArchitecture::getPlantFruitObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantFruitObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all fruit objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02541">PlantArchitecture.cpp:2541</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_ab4ae495e7aebc365826f2a2f02a24338"><div class="ttname"><a href="class_plant_architecture.html#ab4ae495e7aebc365826f2a2f02a24338">PlantArchitecture::disablePetioleContextBuild</a></div><div class="ttdeci">void disablePetioleContextBuild()</div><div class="ttdoc">Do not build petiole primitive geometry in the Context.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02125">PlantArchitecture.cpp:2125</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_aac602c603ac136c3aaffad052bd844d4"><div class="ttname"><a href="class_plant_architecture.html#aac602c603ac136c3aaffad052bd844d4">PlantArchitecture::getPlantFruitObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantFruitObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all fruit objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02542">PlantArchitecture.cpp:2542</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_ab4ae495e7aebc365826f2a2f02a24338"><div class="ttname"><a href="class_plant_architecture.html#ab4ae495e7aebc365826f2a2f02a24338">PlantArchitecture::disablePetioleContextBuild</a></div><div class="ttdeci">void disablePetioleContextBuild()</div><div class="ttdoc">Do not build petiole primitive geometry in the Context.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02126">PlantArchitecture.cpp:2126</a></div></div>
 <div class="ttc" id="aclass_plant_architecture_html_ab55c86604c49abcedde90adb395074e9"><div class="ttname"><a href="class_plant_architecture.html#ab55c86604c49abcedde90adb395074e9">PlantArchitecture::PlantArchitecture</a></div><div class="ttdeci">PlantArchitecture(helios::Context *context_ptr)</div><div class="ttdoc">Main architectural model class constructor.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l00087">PlantArchitecture.cpp:87</a></div></div>
 <div class="ttc" id="aclass_plant_architecture_html_ab98a62363a5e4553c5052a23e39711ba"><div class="ttname"><a href="class_plant_architecture.html#ab98a62363a5e4553c5052a23e39711ba">PlantArchitecture::buildPlantInstanceFromLibrary</a></div><div class="ttdeci">uint buildPlantInstanceFromLibrary(const helios::vec3 &amp;base_position, float age)</div><div class="ttdoc">Build a plant instance based on the model currently loaded from the library.</div><div class="ttdef"><b>Definition</b> <a href="_plant_library_8cpp_source.html#l00027">PlantLibrary.cpp:27</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_acc53c4a5dd259f25b2b4a26907f8b749"><div class="ttname"><a href="class_plant_architecture.html#acc53c4a5dd259f25b2b4a26907f8b749">PlantArchitecture::optionalOutputObjectData</a></div><div class="ttdeci">void optionalOutputObjectData(const std::string &amp;object_data_label)</div><div class="ttdoc">Add optional output object data values to the Context.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l03108">PlantArchitecture.cpp:3108</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_acd6de0d13dbc534992b94a203a16b76d"><div class="ttname"><a href="class_plant_architecture.html#acd6de0d13dbc534992b94a203a16b76d">PlantArchitecture::duplicatePlantInstance</a></div><div class="ttdeci">uint duplicatePlantInstance(uint plantID, const helios::vec3 &amp;base_position, const AxisRotation &amp;base_rotation, float current_age)</div><div class="ttdoc">Duplicate an existing plant instance and specify its base position and age.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02584">PlantArchitecture.cpp:2584</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_acf9855048c790d30d8d4de7fa1dc3550"><div class="ttname"><a href="class_plant_architecture.html#acf9855048c790d30d8d4de7fa1dc3550">PlantArchitecture::getAllPlantObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getAllPlantObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all organs objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02396">PlantArchitecture.cpp:2396</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_acc53c4a5dd259f25b2b4a26907f8b749"><div class="ttname"><a href="class_plant_architecture.html#acc53c4a5dd259f25b2b4a26907f8b749">PlantArchitecture::optionalOutputObjectData</a></div><div class="ttdeci">void optionalOutputObjectData(const std::string &amp;object_data_label)</div><div class="ttdoc">Add optional output object data values to the Context.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l03109">PlantArchitecture.cpp:3109</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_acd6de0d13dbc534992b94a203a16b76d"><div class="ttname"><a href="class_plant_architecture.html#acd6de0d13dbc534992b94a203a16b76d">PlantArchitecture::duplicatePlantInstance</a></div><div class="ttdeci">uint duplicatePlantInstance(uint plantID, const helios::vec3 &amp;base_position, const AxisRotation &amp;base_rotation, float current_age)</div><div class="ttdoc">Duplicate an existing plant instance and specify its base position and age.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02585">PlantArchitecture.cpp:2585</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_acf9855048c790d30d8d4de7fa1dc3550"><div class="ttname"><a href="class_plant_architecture.html#acf9855048c790d30d8d4de7fa1dc3550">PlantArchitecture::getAllPlantObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getAllPlantObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all organs objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02397">PlantArchitecture.cpp:2397</a></div></div>
 <div class="ttc" id="aclass_plant_architecture_html_adc41de628e65a52f560b4d0685c64c3a"><div class="ttname"><a href="class_plant_architecture.html#adc41de628e65a52f560b4d0685c64c3a">PlantArchitecture::loadPlantModelFromLibrary</a></div><div class="ttdeci">void loadPlantModelFromLibrary(const std::string &amp;plant_label)</div><div class="ttdoc">Load an existing plant model from the library.</div><div class="ttdef"><b>Definition</b> <a href="_plant_library_8cpp_source.html#l00020">PlantLibrary.cpp:20</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_ade786dc8bb429eb033d29ccf9df6b254"><div class="ttname"><a href="class_plant_architecture.html#ade786dc8bb429eb033d29ccf9df6b254">PlantArchitecture::addEpicormicShoot</a></div><div class="ttdeci">uint addEpicormicShoot(uint plantID, int parent_shoot_ID, float parent_position_fraction, uint current_node_number, float zenith_perturbation_degrees, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Manually add a child epicormic shoot (water sprout) at an arbitrary position along the shoot.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02020">PlantArchitecture.cpp:2020</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_ae8be24e5a963c49e7ab9ce5641fddec6"><div class="ttname"><a href="class_plant_architecture.html#ae8be24e5a963c49e7ab9ce5641fddec6">PlantArchitecture::sumPlantLeafArea</a></div><div class="ttdeci">float sumPlantLeafArea(uint plantID) const</div><div class="ttdoc">Sum the one-sided leaf area of all leaves in the plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02263">PlantArchitecture.cpp:2263</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_aee2486b87dca29982dd1b380aa3510fb"><div class="ttname"><a href="class_plant_architecture.html#aee2486b87dca29982dd1b380aa3510fb">PlantArchitecture::getPlantPetioleObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantPetioleObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all petiole (Tube) objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02448">PlantArchitecture.cpp:2448</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_af66af0968daf0fef4135b4434c61dc60"><div class="ttname"><a href="class_plant_architecture.html#af66af0968daf0fef4135b4434c61dc60">PlantArchitecture::disableInternodeContextBuild</a></div><div class="ttdeci">void disableInternodeContextBuild()</div><div class="ttdoc">Do not build internode primitive geometry in the Context.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02121">PlantArchitecture.cpp:2121</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_af8a9f26212baf6695d71d44b982e6adf"><div class="ttname"><a href="class_plant_architecture.html#af8a9f26212baf6695d71d44b982e6adf">PlantArchitecture::getPlantPeduncleObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantPeduncleObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all peduncle (Tube) objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02490">PlantArchitecture.cpp:2490</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_afac9e51e48de17afa485128dbea39019"><div class="ttname"><a href="class_plant_architecture.html#afac9e51e48de17afa485128dbea39019">PlantArchitecture::advanceTime</a></div><div class="ttdeci">void advanceTime(float dt)</div><div class="ttdoc">Advance plant growth by a specified time interval for all plants.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02682">PlantArchitecture.cpp:2682</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_afcdea7f14c6ca722d39d94ff19ba87b4"><div class="ttname"><a href="class_plant_architecture.html#afcdea7f14c6ca722d39d94ff19ba87b4">PlantArchitecture::getPlantLeafObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantLeafObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all leaf objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02469">PlantArchitecture.cpp:2469</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_ade786dc8bb429eb033d29ccf9df6b254"><div class="ttname"><a href="class_plant_architecture.html#ade786dc8bb429eb033d29ccf9df6b254">PlantArchitecture::addEpicormicShoot</a></div><div class="ttdeci">uint addEpicormicShoot(uint plantID, int parent_shoot_ID, float parent_position_fraction, uint current_node_number, float zenith_perturbation_degrees, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Manually add a child epicormic shoot (water sprout) at an arbitrary position along the shoot.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02021">PlantArchitecture.cpp:2021</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_ae8be24e5a963c49e7ab9ce5641fddec6"><div class="ttname"><a href="class_plant_architecture.html#ae8be24e5a963c49e7ab9ce5641fddec6">PlantArchitecture::sumPlantLeafArea</a></div><div class="ttdeci">float sumPlantLeafArea(uint plantID) const</div><div class="ttdoc">Sum the one-sided leaf area of all leaves in the plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02264">PlantArchitecture.cpp:2264</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_aee2486b87dca29982dd1b380aa3510fb"><div class="ttname"><a href="class_plant_architecture.html#aee2486b87dca29982dd1b380aa3510fb">PlantArchitecture::getPlantPetioleObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantPetioleObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all petiole (Tube) objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02449">PlantArchitecture.cpp:2449</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_af66af0968daf0fef4135b4434c61dc60"><div class="ttname"><a href="class_plant_architecture.html#af66af0968daf0fef4135b4434c61dc60">PlantArchitecture::disableInternodeContextBuild</a></div><div class="ttdeci">void disableInternodeContextBuild()</div><div class="ttdoc">Do not build internode primitive geometry in the Context.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02122">PlantArchitecture.cpp:2122</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_af8a9f26212baf6695d71d44b982e6adf"><div class="ttname"><a href="class_plant_architecture.html#af8a9f26212baf6695d71d44b982e6adf">PlantArchitecture::getPlantPeduncleObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantPeduncleObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all peduncle (Tube) objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02491">PlantArchitecture.cpp:2491</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_afac9e51e48de17afa485128dbea39019"><div class="ttname"><a href="class_plant_architecture.html#afac9e51e48de17afa485128dbea39019">PlantArchitecture::advanceTime</a></div><div class="ttdeci">void advanceTime(float dt)</div><div class="ttdoc">Advance plant growth by a specified time interval for all plants.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02683">PlantArchitecture.cpp:2683</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_afcdea7f14c6ca722d39d94ff19ba87b4"><div class="ttname"><a href="class_plant_architecture.html#afcdea7f14c6ca722d39d94ff19ba87b4">PlantArchitecture::getPlantLeafObjectIDs</a></div><div class="ttdeci">std::vector&lt; uint &gt; getPlantLeafObjectIDs(uint plantID) const</div><div class="ttdoc">Get object IDs for all leaf objects for a given plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02470">PlantArchitecture.cpp:2470</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html"><div class="ttname"><a href="classhelios_1_1_context.html">helios::Context</a></div><div class="ttdoc">Stores the state associated with simulation.</div><div class="ttdef"><b>Definition</b> <a href="_context_8h_source.html#l01882">Context.h:1882</a></div></div>
 <div class="ttc" id="agroup__functions_html_gadfcde1fcf4db2a62012ed5ddf43c943d"><div class="ttname"><a href="group__functions.html#gadfcde1fcf4db2a62012ed5ddf43c943d">helios::mean</a></div><div class="ttdeci">float mean(const std::vector&lt; float &gt; &amp;vect)</div><div class="ttdoc">Mean value of a vector of floats.</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l01002">global.cpp:1002</a></div></div>
 <div class="ttc" id="astruct_axis_rotation_html"><div class="ttname"><a href="struct_axis_rotation.html">AxisRotation</a></div><div class="ttdef"><b>Definition</b> <a href="#l00221">PlantArchitecture.h:221</a></div></div>
 <div class="ttc" id="astruct_floral_bud_html"><div class="ttname"><a href="struct_floral_bud.html">FloralBud</a></div><div class="ttdef"><b>Definition</b> <a href="#l00292">PlantArchitecture.h:292</a></div></div>
 <div class="ttc" id="astruct_phytomer_html"><div class="ttname"><a href="struct_phytomer.html">Phytomer</a></div><div class="ttdef"><b>Definition</b> <a href="#l00651">PlantArchitecture.h:651</a></div></div>
-<div class="ttc" id="astruct_phytomer_html_a25a09ac7a2eb07d34fed5c6d9fad213e"><div class="ttname"><a href="struct_phytomer.html#a25a09ac7a2eb07d34fed5c6d9fad213e">Phytomer::setInternodeMaxLength</a></div><div class="ttdeci">void setInternodeMaxLength(float internode_length_max_new)</div><div class="ttdoc">Set the fully-elongated (maximum) internode length.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01597">PlantArchitecture.cpp:1597</a></div></div>
+<div class="ttc" id="astruct_phytomer_html_a25a09ac7a2eb07d34fed5c6d9fad213e"><div class="ttname"><a href="struct_phytomer.html#a25a09ac7a2eb07d34fed5c6d9fad213e">Phytomer::setInternodeMaxLength</a></div><div class="ttdeci">void setInternodeMaxLength(float internode_length_max_new)</div><div class="ttdoc">Set the fully-elongated (maximum) internode length.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01598">PlantArchitecture.cpp:1598</a></div></div>
 <div class="ttc" id="astruct_phytomer_html_a63c1deff7ef09e41bddc155cb4e22861"><div class="ttname"><a href="struct_phytomer.html#a63c1deff7ef09e41bddc155cb4e22861">Phytomer::petiole_vertices</a></div><div class="ttdeci">std::vector&lt; std::vector&lt; helios::vec3 &gt; &gt; petiole_vertices</div><div class="ttdoc">Coordinates of internode tube segments. Index is tube segment within internode.</div><div class="ttdef"><b>Definition</b> <a href="#l00746">PlantArchitecture.h:746</a></div></div>
-<div class="ttc" id="astruct_phytomer_html_a70aa0f62afdf829d9f2af6167d30f8ca"><div class="ttname"><a href="struct_phytomer.html#a70aa0f62afdf829d9f2af6167d30f8ca">Phytomer::setInternodeMaxRadius</a></div><div class="ttdeci">void setInternodeMaxRadius(float internode_radius_max_new)</div><div class="ttdoc">Set the maximum radius of the internode.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01602">PlantArchitecture.cpp:1602</a></div></div>
+<div class="ttc" id="astruct_phytomer_html_a70aa0f62afdf829d9f2af6167d30f8ca"><div class="ttname"><a href="struct_phytomer.html#a70aa0f62afdf829d9f2af6167d30f8ca">Phytomer::setInternodeMaxRadius</a></div><div class="ttdeci">void setInternodeMaxRadius(float internode_radius_max_new)</div><div class="ttdoc">Set the maximum radius of the internode.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01603">PlantArchitecture.cpp:1603</a></div></div>
 <div class="ttc" id="astruct_phytomer_html_a9f3c67277fb42771267f2f73f47f3e9f"><div class="ttname"><a href="struct_phytomer.html#a9f3c67277fb42771267f2f73f47f3e9f">Phytomer::time_since_dormancy</a></div><div class="ttdeci">float time_since_dormancy</div><div class="ttdoc">Time since the phytomer last broke dormancy (=0 if currently dormant)</div><div class="ttdef"><b>Definition</b> <a href="#l00776">PlantArchitecture.h:776</a></div></div>
 <div class="ttc" id="astruct_phytomer_html_aa35d5da6c2d3ae761d1b4ce491db2e17"><div class="ttname"><a href="struct_phytomer.html#aa35d5da6c2d3ae761d1b4ce491db2e17">Phytomer::shoot_index</a></div><div class="ttdeci">helios::int3 shoot_index</div><div class="ttdoc">.x = index of phytomer along shoot, .y = current number of phytomers on parent shoot,...</div><div class="ttdef"><b>Definition</b> <a href="#l00767">PlantArchitecture.h:767</a></div></div>
-<div class="ttc" id="astruct_phytomer_html_ab089057c5102fd40a09a92d5a424bfdb"><div class="ttname"><a href="struct_phytomer.html#ab089057c5102fd40a09a92d5a424bfdb">Phytomer::setLeafScaleFraction</a></div><div class="ttdeci">void setLeafScaleFraction(float leaf_scale_factor_fraction)</div><div class="ttdoc">Set the leaf scale as a fraction of its total fully-elongated scale factor. Value is uniformly applie...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01608">PlantArchitecture.cpp:1608</a></div></div>
+<div class="ttc" id="astruct_phytomer_html_ab089057c5102fd40a09a92d5a424bfdb"><div class="ttname"><a href="struct_phytomer.html#ab089057c5102fd40a09a92d5a424bfdb">Phytomer::setLeafScaleFraction</a></div><div class="ttdeci">void setLeafScaleFraction(float leaf_scale_factor_fraction)</div><div class="ttdoc">Set the leaf scale as a fraction of its total fully-elongated scale factor. Value is uniformly applie...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01609">PlantArchitecture.cpp:1609</a></div></div>
 <div class="ttc" id="astruct_phytomer_html_adca1542efc0d16f0117d533f86c849e5"><div class="ttname"><a href="struct_phytomer.html#adca1542efc0d16f0117d533f86c849e5">Phytomer::age</a></div><div class="ttdeci">float age</div><div class="ttdoc">Time since the phytomer was created.</div><div class="ttdef"><b>Definition</b> <a href="#l00774">PlantArchitecture.h:774</a></div></div>
-<div class="ttc" id="astruct_phytomer_html_ae6bbbd7dcf85fb3b11062e2b0cb415e3"><div class="ttname"><a href="struct_phytomer.html#ae6bbbd7dcf85fb3b11062e2b0cb415e3">Phytomer::setLeafPrototypeScale</a></div><div class="ttdeci">void setLeafPrototypeScale(float leaf_prototype_scale)</div><div class="ttdoc">Set the fully-elongated (maximum) leaf prototype scale. Value is uniformly applied for all leaves/lea...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01678">PlantArchitecture.cpp:1678</a></div></div>
-<div class="ttc" id="astruct_phytomer_html_aecc6f52f3490562f4daf581bec7f4260"><div class="ttname"><a href="struct_phytomer.html#aecc6f52f3490562f4daf581bec7f4260">Phytomer::scaleInternodeMaxLength</a></div><div class="ttdeci">void scaleInternodeMaxLength(float scale_factor)</div><div class="ttdoc">Scale the fully-elongated (maximum) internode length as a fraction of its current fully-elongated len...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01586">PlantArchitecture.cpp:1586</a></div></div>
+<div class="ttc" id="astruct_phytomer_html_ae6bbbd7dcf85fb3b11062e2b0cb415e3"><div class="ttname"><a href="struct_phytomer.html#ae6bbbd7dcf85fb3b11062e2b0cb415e3">Phytomer::setLeafPrototypeScale</a></div><div class="ttdeci">void setLeafPrototypeScale(float leaf_prototype_scale)</div><div class="ttdoc">Set the fully-elongated (maximum) leaf prototype scale. Value is uniformly applied for all leaves/lea...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01679">PlantArchitecture.cpp:1679</a></div></div>
+<div class="ttc" id="astruct_phytomer_html_aecc6f52f3490562f4daf581bec7f4260"><div class="ttname"><a href="struct_phytomer.html#aecc6f52f3490562f4daf581bec7f4260">Phytomer::scaleInternodeMaxLength</a></div><div class="ttdeci">void scaleInternodeMaxLength(float scale_factor)</div><div class="ttdoc">Scale the fully-elongated (maximum) internode length as a fraction of its current fully-elongated len...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01587">PlantArchitecture.cpp:1587</a></div></div>
 <div class="ttc" id="astruct_phytomer_parameters_html"><div class="ttname"><a href="struct_phytomer_parameters.html">PhytomerParameters</a></div><div class="ttdef"><b>Definition</b> <a href="#l00320">PlantArchitecture.h:320</a></div></div>
 <div class="ttc" id="astruct_phytomer_parameters_html_a00985415187962da3e18fbc024595277"><div class="ttname"><a href="struct_phytomer_parameters.html#a00985415187962da3e18fbc024595277">PhytomerParameters::PhytomerParameters</a></div><div class="ttdeci">PhytomerParameters()</div><div class="ttdoc">Default constructor - does not set random number generator.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l00101">PlantArchitecture.cpp:101</a></div></div>
 <div class="ttc" id="astruct_phytomer_parameters_html_a4460d1a8a04f27ad90908a4752c33cfb"><div class="ttname"><a href="struct_phytomer_parameters.html#a4460d1a8a04f27ad90908a4752c33cfb">PhytomerParameters::phytomer_callback_function</a></div><div class="ttdeci">void(* phytomer_callback_function)(std::shared_ptr&lt; Phytomer &gt; phytomer_ptr)</div><div class="ttdef"><b>Definition</b> <a href="#l00502">PlantArchitecture.h:502</a></div></div>
@@ -1371,9 +1371,9 @@
 <div class="ttc" id="astruct_random_parameter__int_html"><div class="ttname"><a href="struct_random_parameter__int.html">RandomParameter_int</a></div><div class="ttdef"><b>Definition</b> <a href="#l00143">PlantArchitecture.h:143</a></div></div>
 <div class="ttc" id="astruct_shoot_html"><div class="ttname"><a href="struct_shoot.html">Shoot</a></div><div class="ttdef"><b>Definition</b> <a href="#l00810">PlantArchitecture.h:810</a></div></div>
 <div class="ttc" id="astruct_shoot_html_a19eb5d6e3248c45de08774d11cbf329b"><div class="ttname"><a href="struct_shoot.html#a19eb5d6e3248c45de08774d11cbf329b">Shoot::updateShootNodes</a></div><div class="ttdeci">void updateShootNodes(bool update_context_geometry=true)</div><div class="ttdoc">Recalculate and apply the shoot's origin position and shift all downstream shoots.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l00679">PlantArchitecture.cpp:679</a></div></div>
-<div class="ttc" id="astruct_shoot_html_a72773ed6bd25881df4ecfe707ebbdcb1"><div class="ttname"><a href="struct_shoot.html#a72773ed6bd25881df4ecfe707ebbdcb1">Shoot::sampleChildShootType</a></div><div class="ttdeci">bool sampleChildShootType(std::string &amp;child_shoot_type_label) const</div><div class="ttdoc">Randomly sample the type of a child shoot based on the probabilities defined in the shoot parameters.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01812">PlantArchitecture.cpp:1812</a></div></div>
+<div class="ttc" id="astruct_shoot_html_a72773ed6bd25881df4ecfe707ebbdcb1"><div class="ttname"><a href="struct_shoot.html#a72773ed6bd25881df4ecfe707ebbdcb1">Shoot::sampleChildShootType</a></div><div class="ttdeci">bool sampleChildShootType(std::string &amp;child_shoot_type_label) const</div><div class="ttdoc">Randomly sample the type of a child shoot based on the probabilities defined in the shoot parameters.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01813">PlantArchitecture.cpp:1813</a></div></div>
 <div class="ttc" id="astruct_shoot_html_aa501b313aa5ee8daf94667fdfc51fb9b"><div class="ttname"><a href="struct_shoot.html#aa501b313aa5ee8daf94667fdfc51fb9b">Shoot::appendPhytomer</a></div><div class="ttdeci">int appendPhytomer(float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction)</div><div class="ttdoc">Append a phytomer at the shoot apex.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l00407">PlantArchitecture.cpp:407</a></div></div>
-<div class="ttc" id="astruct_shoot_html_afe4fa0bc2d46f94087c88b658d8aef13"><div class="ttname"><a href="struct_shoot.html#afe4fa0bc2d46f94087c88b658d8aef13">Shoot::sampleEpicormicShoot</a></div><div class="ttdeci">uint sampleEpicormicShoot(float dt, std::vector&lt; float &gt; &amp;epicormic_positions_fraction)</div><div class="ttdoc">Randomly sample whether the shoot should produce an epicormic shoot (water sprout) over timestep.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01854">PlantArchitecture.cpp:1854</a></div></div>
+<div class="ttc" id="astruct_shoot_html_afe4fa0bc2d46f94087c88b658d8aef13"><div class="ttname"><a href="struct_shoot.html#afe4fa0bc2d46f94087c88b658d8aef13">Shoot::sampleEpicormicShoot</a></div><div class="ttdeci">uint sampleEpicormicShoot(float dt, std::vector&lt; float &gt; &amp;epicormic_positions_fraction)</div><div class="ttdoc">Randomly sample whether the shoot should produce an epicormic shoot (water sprout) over timestep.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01855">PlantArchitecture.cpp:1855</a></div></div>
 <div class="ttc" id="astruct_shoot_parameters_html"><div class="ttname"><a href="struct_shoot_parameters.html">ShootParameters</a></div><div class="ttdef"><b>Definition</b> <a href="#l00517">PlantArchitecture.h:517</a></div></div>
 <div class="ttc" id="astruct_shoot_parameters_html_ab3003af230c520f6ff26010ca3ef850e"><div class="ttname"><a href="struct_shoot_parameters.html#ab3003af230c520f6ff26010ca3ef850e">ShootParameters::ShootParameters</a></div><div class="ttdeci">ShootParameters()</div><div class="ttdoc">Default constructor - does not set random number generator.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l00156">PlantArchitecture.cpp:156</a></div></div>
 <div class="ttc" id="astruct_vegetative_bud_html"><div class="ttname"><a href="struct_vegetative_bud.html">VegetativeBud</a></div><div class="ttdef"><b>Definition</b> <a href="#l00281">PlantArchitecture.h:281</a></div></div>
diff --git a/doc/html/_plant_architecture_doc.html b/doc/html/_plant_architecture_doc.html
index dd907f9a4..922429bdf 100644
--- a/doc/html/_plant_architecture_doc.html
+++ b/doc/html/_plant_architecture_doc.html
@@ -38,7 +38,7 @@
  <tr id="projectrow">
   <td id="projectlogo"><img alt="Logo" src="Helios_logo_small.png"/></td>
   <td id="projectalign">
-   <div id="projectname"><span id="projectnumber">&#160;v1.3.20</span>
+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
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   </td>
  </tr>
@@ -472,7 +472,7 @@ <h2><a class="anchor" id="PlantArchOrgans"></a>
 <div class="line">std::vector&lt;uint&gt; UUIDs = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">loadOBJ</a>( <span class="stringliteral">&quot;plugins/plantarchitecture/assets/obj/AlmondLeaf.obj&quot;</span>, make_vec3(0,0,0), 0, nullrotation, RGB::black, <span class="stringliteral">&quot;ZUP&quot;</span>, <span class="keyword">true</span> );</div>
 <div class="line"><span class="keywordflow">return</span> context_ptr-&gt;<a class="code hl_function" href="group__compoundobjects.html#gababf99153757527880fe3866cc23fd1b">addPolymeshObject</a>( UUIDs );</div>
 <div class="line">}</div>
-<div class="ttc" id="aclasshelios_1_1_context_html_a8657240a0b2926e8c73b083f0fdc339d"><div class="ttname"><a href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">helios::Context::loadOBJ</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadOBJ(const char *filename, bool silent=false)</div><div class="ttdoc">Load geometry contained in a Wavefront OBJ file (.obj). Model will be placed at the origin without an...</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l03734">Context_fileIO.cpp:3734</a></div></div>
+<div class="ttc" id="aclasshelios_1_1_context_html_a8657240a0b2926e8c73b083f0fdc339d"><div class="ttname"><a href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">helios::Context::loadOBJ</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadOBJ(const char *filename, bool silent=false)</div><div class="ttdoc">Load geometry contained in a Wavefront OBJ file (.obj). Model will be placed at the origin without an...</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l03742">Context_fileIO.cpp:3742</a></div></div>
 <div class="ttc" id="agroup__compoundobjects_html_gababf99153757527880fe3866cc23fd1b"><div class="ttname"><a href="group__compoundobjects.html#gababf99153757527880fe3866cc23fd1b">helios::Context::addPolymeshObject</a></div><div class="ttdeci">uint addPolymeshObject(const std::vector&lt; uint &gt; &amp;UUIDs)</div><div class="ttdoc">Add new Polymesh Compound Object.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l05343">Context.cpp:5343</a></div></div>
 </div><!-- fragment --><p>A generic leaf prototype function is given in the file <a class="el" href="_assets_8cpp.html">Assets.cpp</a>, which creates a leaf from a mesh of triangles, and has adjustable parameters to add leaf curvature, folding, and waves. The advantage of this approach is that each leaf will have random variation, since the leaf is generated procedurally. The disadvantage is that it may not look as detailed as a leaf created outside Helios (e.g., in Blender) that has detailed sculpting of leaf texture, for example.</p>
 <div class="fragment"><div class="line">uint someLeafPrototype( <a class="code hl_class" href="classhelios_1_1_context.html">helios::Context</a>* context_ptr, uint subdivisions, <span class="keywordtype">int</span> compound_leaf_index, uint shoot_node_index, uint shoot_max_nodes ){</div>
@@ -530,7 +530,7 @@ <h1><a class="anchor" id="PlantArchShoot"></a>
 <tr class="markdownTableRowOdd">
 <td class="markdownTableBodyNone">internode_radius_initial   </td><td class="markdownTableBodyNone"><a class="el" href="struct_random_parameter__float.html">RandomParameter_float</a>   </td><td class="markdownTableBodyNone">0.001   </td><td class="markdownTableBodyNone">meters   </td><td class="markdownTableBodyNone">Initial radius of the internode when it is created.    </td></tr>
 <tr class="markdownTableRowEven">
-<td class="markdownTableBodyNone">internode_radius_max   </td><td class="markdownTableBodyNone"><a class="el" href="struct_random_parameter__float.html">RandomParameter_float</a>   </td><td class="markdownTableBodyNone">unlimited   </td><td class="markdownTableBodyNone">meters   </td><td class="markdownTableBodyNone">Maximum internode radius for girth growth. For some species like grasses, girth growth stops at some radius. By default, girth growth will continue indefinitely.    </td></tr>
+<td class="markdownTableBodyNone">internode_radius_max   </td><td class="markdownTableBodyNone"><a class="el" href="struct_random_parameter__float.html">RandomParameter_float</a>   </td><td class="markdownTableBodyNone">unlimited   </td><td class="markdownTableBodyNone">meters   </td><td class="markdownTableBodyNone">Maximum internode radius for girth growth expansion.    </td></tr>
 <tr class="markdownTableRowOdd">
 <td class="markdownTableBodyNone">insertion_angle_tip   </td><td class="markdownTableBodyNone"><a class="el" href="struct_random_parameter__float.html">RandomParameter_float</a>   </td><td class="markdownTableBodyNone">20   </td><td class="markdownTableBodyNone">degrees   </td><td class="markdownTableBodyNone">Angle of the child shoot with respect to the parent shoot at the tip of the parent shoot.    </td></tr>
 <tr class="markdownTableRowEven">
@@ -548,7 +548,7 @@ <h1><a class="anchor" id="PlantArchShoot"></a>
 <tr class="markdownTableRowEven">
 <td class="markdownTableBodyNone">gravitropic_curvature   </td><td class="markdownTableBodyNone"><a class="el" href="struct_random_parameter__float.html">RandomParameter_float</a>   </td><td class="markdownTableBodyNone">0   </td><td class="markdownTableBodyNone">degrees/meter   </td><td class="markdownTableBodyNone">Curvature angle of the shoot per unit length of shoot. If curvature is positive, shoot curves upward toward vertical. If negative, curvature is downward.    </td></tr>
 <tr class="markdownTableRowOdd">
-<td class="markdownTableBodyNone">tortuosity   </td><td class="markdownTableBodyNone"><a class="el" href="struct_random_parameter__float.html">RandomParameter_float</a>   </td><td class="markdownTableBodyNone">0   </td><td class="markdownTableBodyNone">-   </td><td class="markdownTableBodyNone">Factor determining the amount of random "wiggle" in internode growth along the shoot.    </td></tr>
+<td class="markdownTableBodyNone">tortuosity   </td><td class="markdownTableBodyNone"><a class="el" href="struct_random_parameter__float.html">RandomParameter_float</a>   </td><td class="markdownTableBodyNone">0   </td><td class="markdownTableBodyNone">degrees/(meters)^0.5   </td><td class="markdownTableBodyNone">Factor determining the amount of random "wiggle" in internode growth along the shoot.    </td></tr>
 <tr class="markdownTableRowEven">
 <td class="markdownTableBodyNone" colspan="5">&mdash; <b>Growth Parameters</b> &mdash;    </td></tr>
 <tr class="markdownTableRowOdd">
@@ -612,8 +612,8 @@ <h3><a class="anchor" id="ShootParam_tortuosity"></a>
 <p>Random "wiggle" can be added to shoot growth using the  <font face="courier" color="blue">tortuosity</font> parameter. Each time a phytomer is added to the shoot, some constant amount of differential curvature is added according to the parameter  <font face="courier" color="blue">gravitropic_curvature</font>. To introduce random variation, an additional amount of noise is added to the curvature based on a <a href="https://en.wikipedia.org/wiki/Langevin_equation">Langevin</a>-like equation (Brownian motion):</p>
 <p class="formulaDsp">
 <img class="formulaDsp" alt="\[
-    d\theta = \frac{1}{2}\left(C_g-\theta\right)dL + T\xi(dL)
-\]" src="form_162.png" width="191" height="32"/>
+    d\theta = -\frac{1}{2}\left(\theta\right)dL + T\xi(dL)
+\]" src="form_162.png" width="165" height="32"/>
 </p>
 <p>where <img class="formulaInl" alt="$d\theta$" src="form_163.png" width="15" height="12"/> is the change in curvature angle of the current phytomer internode relative to the previous internode, <img class="formulaInl" alt="$\theta$" src="form_19.png" width="8" height="12"/> is the integrated curvature angle relative to the base of the shoot, <img class="formulaInl" alt="$dL$" src="form_164.png" width="18" height="12"/> is the internode length, <img class="formulaInl" alt="$T$" src="form_165.png" width="12" height="11"/> is the tortuosity, and <img class="formulaInl" alt="$\xi (dL)$" src="form_166.png" width="38" height="17"/> is a Gaussian process with variance of <img class="formulaInl" alt="$dL$" src="form_164.png" width="18" height="12"/>.</p>
 <h2><a class="anchor" id="ShootParametersGrowth"></a>
diff --git a/doc/html/_plant_library_8cpp.html b/doc/html/_plant_library_8cpp.html
index 2848ff711..4132fcc5d 100644
--- a/doc/html/_plant_library_8cpp.html
+++ b/doc/html/_plant_library_8cpp.html
@@ -38,7 +38,7 @@
  <tr id="projectrow">
   <td id="projectlogo"><img alt="Logo" src="Helios_logo_small.png"/></td>
   <td id="projectalign">
-   <div id="projectname"><span id="projectnumber">&#160;v1.3.20</span>
+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
    </div>
   </td>
  </tr>
diff --git a/doc/html/_plant_library_8cpp_source.html b/doc/html/_plant_library_8cpp_source.html
index 794932df3..c4d9339f8 100644
--- a/doc/html/_plant_library_8cpp_source.html
+++ b/doc/html/_plant_library_8cpp_source.html
@@ -38,7 +38,7 @@
  <tr id="projectrow">
   <td id="projectlogo"><img alt="Logo" src="Helios_logo_small.png"/></td>
   <td id="projectalign">
-   <div id="projectname"><span id="projectnumber">&#160;v1.3.20</span>
+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
    </div>
   </td>
  </tr>
@@ -304,7 +304,7 @@
 <div class="line"><a id="l00200" name="l00200"></a><span class="lineno">  200</span>    shoot_parameters_trunk.phytomer_parameters.internode.phyllotactic_angle = 0;</div>
 <div class="line"><a id="l00201" name="l00201"></a><span class="lineno">  201</span>    shoot_parameters_trunk.phytomer_parameters.internode.radial_subdivisions = 24;</div>
 <div class="line"><a id="l00202" name="l00202"></a><span class="lineno">  202</span>    shoot_parameters_trunk.max_nodes = 20;</div>
-<div class="line"><a id="l00203" name="l00203"></a><span class="lineno">  203</span>    shoot_parameters_trunk.girth_area_factor = 35.f;</div>
+<div class="line"><a id="l00203" name="l00203"></a><span class="lineno">  203</span>    shoot_parameters_trunk.girth_area_factor = 15.f;</div>
 <div class="line"><a id="l00204" name="l00204"></a><span class="lineno">  204</span>    shoot_parameters_trunk.internode_radius_initial = 0.01;</div>
 <div class="line"><a id="l00205" name="l00205"></a><span class="lineno">  205</span>    shoot_parameters_trunk.vegetative_bud_break_probability = 0;</div>
 <div class="line"><a id="l00206" name="l00206"></a><span class="lineno">  206</span>    shoot_parameters_trunk.vegetative_bud_break_time = 0;</div>
@@ -322,7 +322,7 @@
 <div class="line"><a id="l00218" name="l00218"></a><span class="lineno">  218</span>    shoot_parameters_proleptic.max_nodes = 40;</div>
 <div class="line"><a id="l00219" name="l00219"></a><span class="lineno">  219</span>    shoot_parameters_proleptic.phyllochron = 0.9;</div>
 <div class="line"><a id="l00220" name="l00220"></a><span class="lineno">  220</span>    shoot_parameters_proleptic.elongation_rate = 0.25;</div>
-<div class="line"><a id="l00221" name="l00221"></a><span class="lineno">  221</span>    shoot_parameters_proleptic.girth_area_factor = 35.f;</div>
+<div class="line"><a id="l00221" name="l00221"></a><span class="lineno">  221</span>    shoot_parameters_proleptic.girth_area_factor = 15.f;</div>
 <div class="line"><a id="l00222" name="l00222"></a><span class="lineno">  222</span>    shoot_parameters_proleptic.vegetative_bud_break_probability = 0.15;</div>
 <div class="line"><a id="l00223" name="l00223"></a><span class="lineno">  223</span>    shoot_parameters_proleptic.vegetative_bud_break_time = 0;</div>
 <div class="line"><a id="l00224" name="l00224"></a><span class="lineno">  224</span>    shoot_parameters_proleptic.leaf_flush_count = 1;</div>
@@ -439,7 +439,7 @@
 <div class="line"><a id="l00335" name="l00335"></a><span class="lineno">  335</span>    phytomer_parameters_apple.internode.max_floral_buds_per_petiole = 1;</div>
 <div class="line"><a id="l00336" name="l00336"></a><span class="lineno">  336</span> </div>
 <div class="line"><a id="l00337" name="l00337"></a><span class="lineno">  337</span>    phytomer_parameters_apple.petiole.petioles_per_internode = 1;</div>
-<div class="line"><a id="l00338" name="l00338"></a><span class="lineno">  338</span>    phytomer_parameters_apple.petiole.pitch.uniformDistribution(-25,-40);</div>
+<div class="line"><a id="l00338" name="l00338"></a><span class="lineno">  338</span>    phytomer_parameters_apple.petiole.pitch.uniformDistribution(-40,-25);</div>
 <div class="line"><a id="l00339" name="l00339"></a><span class="lineno">  339</span>    phytomer_parameters_apple.petiole.taper = 0.1;</div>
 <div class="line"><a id="l00340" name="l00340"></a><span class="lineno">  340</span>    phytomer_parameters_apple.petiole.curvature = 0;</div>
 <div class="line"><a id="l00341" name="l00341"></a><span class="lineno">  341</span>    phytomer_parameters_apple.petiole.length = 0.04;</div>
@@ -476,11 +476,11 @@
 <div class="line"><a id="l00372" name="l00372"></a><span class="lineno">  372</span>    shoot_parameters_trunk.phytomer_parameters.internode.phyllotactic_angle = 0;</div>
 <div class="line"><a id="l00373" name="l00373"></a><span class="lineno">  373</span>    shoot_parameters_trunk.phytomer_parameters.internode.radial_subdivisions = 24;</div>
 <div class="line"><a id="l00374" name="l00374"></a><span class="lineno">  374</span>    shoot_parameters_trunk.max_nodes = 20;</div>
-<div class="line"><a id="l00375" name="l00375"></a><span class="lineno">  375</span>    shoot_parameters_trunk.girth_area_factor = 16.f;</div>
+<div class="line"><a id="l00375" name="l00375"></a><span class="lineno">  375</span>    shoot_parameters_trunk.girth_area_factor = 12.f;</div>
 <div class="line"><a id="l00376" name="l00376"></a><span class="lineno">  376</span>    shoot_parameters_trunk.internode_radius_initial = 0.01;</div>
 <div class="line"><a id="l00377" name="l00377"></a><span class="lineno">  377</span>    shoot_parameters_trunk.vegetative_bud_break_probability = 0;</div>
 <div class="line"><a id="l00378" name="l00378"></a><span class="lineno">  378</span>    shoot_parameters_trunk.vegetative_bud_break_time = 0;</div>
-<div class="line"><a id="l00379" name="l00379"></a><span class="lineno">  379</span>    shoot_parameters_trunk.tortuosity = 6;</div>
+<div class="line"><a id="l00379" name="l00379"></a><span class="lineno">  379</span>    shoot_parameters_trunk.tortuosity = 4;</div>
 <div class="line"><a id="l00380" name="l00380"></a><span class="lineno">  380</span>    shoot_parameters_trunk.internode_length_max = 0.05;</div>
 <div class="line"><a id="l00381" name="l00381"></a><span class="lineno">  381</span>    shoot_parameters_trunk.internode_length_decay_rate = 0;</div>
 <div class="line"><a id="l00382" name="l00382"></a><span class="lineno">  382</span>    shoot_parameters_trunk.defineChildShootTypes({<span class="stringliteral">&quot;scaffold&quot;</span>},{1});</div>
@@ -499,7 +499,7 @@
 <div class="line"><a id="l00395" name="l00395"></a><span class="lineno">  395</span>    shoot_parameters_proleptic.vegetative_bud_break_time = 0;</div>
 <div class="line"><a id="l00396" name="l00396"></a><span class="lineno">  396</span>    shoot_parameters_proleptic.leaf_flush_count = 1;</div>
 <div class="line"><a id="l00397" name="l00397"></a><span class="lineno">  397</span>    shoot_parameters_proleptic.gravitropic_curvature = 500;</div>
-<div class="line"><a id="l00398" name="l00398"></a><span class="lineno">  398</span>    shoot_parameters_proleptic.tortuosity = 20;</div>
+<div class="line"><a id="l00398" name="l00398"></a><span class="lineno">  398</span>    shoot_parameters_proleptic.tortuosity = 10;</div>
 <div class="line"><a id="l00399" name="l00399"></a><span class="lineno">  399</span>    shoot_parameters_proleptic.internode_radius_initial = 0.006;</div>
 <div class="line"><a id="l00400" name="l00400"></a><span class="lineno">  400</span>    shoot_parameters_proleptic.insertion_angle_tip.uniformDistribution( 20, 25);</div>
 <div class="line"><a id="l00401" name="l00401"></a><span class="lineno">  401</span>    shoot_parameters_proleptic.insertion_angle_decay_rate = 20;</div>
@@ -534,7 +534,7 @@
 <div class="line"><a id="l00430" name="l00430"></a><span class="lineno">  430</span>    shoot_parameters_scaffold.max_nodes = 40;</div>
 <div class="line"><a id="l00431" name="l00431"></a><span class="lineno">  431</span>    shoot_parameters_scaffold.gravitropic_curvature = 400;</div>
 <div class="line"><a id="l00432" name="l00432"></a><span class="lineno">  432</span>    shoot_parameters_scaffold.internode_length_max = 0.04;</div>
-<div class="line"><a id="l00433" name="l00433"></a><span class="lineno">  433</span>    shoot_parameters_scaffold.tortuosity = 10;</div>
+<div class="line"><a id="l00433" name="l00433"></a><span class="lineno">  433</span>    shoot_parameters_scaffold.tortuosity = 6;</div>
 <div class="line"><a id="l00434" name="l00434"></a><span class="lineno">  434</span>    shoot_parameters_scaffold.defineChildShootTypes({<span class="stringliteral">&quot;proleptic&quot;</span>},{1.0});</div>
 <div class="line"><a id="l00435" name="l00435"></a><span class="lineno">  435</span> </div>
 <div class="line"><a id="l00436" name="l00436"></a><span class="lineno">  436</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;trunk&quot;</span>, shoot_parameters_trunk);</div>
@@ -1193,9 +1193,9 @@
 <div class="line"><a id="l01089" name="l01089"></a><span class="lineno"> 1089</span>    shoot_parameters_main.vegetative_bud_break_time = 1;</div>
 <div class="line"><a id="l01090" name="l01090"></a><span class="lineno"> 1090</span>    shoot_parameters_main.phyllochron = 0.5;</div>
 <div class="line"><a id="l01091" name="l01091"></a><span class="lineno"> 1091</span>    shoot_parameters_main.elongation_rate = 0.15;</div>
-<div class="line"><a id="l01092" name="l01092"></a><span class="lineno"> 1092</span>    shoot_parameters_main.girth_area_factor = 4.f;</div>
+<div class="line"><a id="l01092" name="l01092"></a><span class="lineno"> 1092</span>    shoot_parameters_main.girth_area_factor = 2.f;</div>
 <div class="line"><a id="l01093" name="l01093"></a><span class="lineno"> 1093</span>    shoot_parameters_main.gravitropic_curvature = 300;</div>
-<div class="line"><a id="l01094" name="l01094"></a><span class="lineno"> 1094</span>    shoot_parameters_main.tortuosity = 20;</div>
+<div class="line"><a id="l01094" name="l01094"></a><span class="lineno"> 1094</span>    shoot_parameters_main.tortuosity = 10;</div>
 <div class="line"><a id="l01095" name="l01095"></a><span class="lineno"> 1095</span>    shoot_parameters_main.internode_length_max.uniformDistribution(0.075,0.1);</div>
 <div class="line"><a id="l01096" name="l01096"></a><span class="lineno"> 1096</span>    shoot_parameters_main.internode_length_decay_rate = 0;</div>
 <div class="line"><a id="l01097" name="l01097"></a><span class="lineno"> 1097</span>    shoot_parameters_main.insertion_angle_tip = 45;</div>
@@ -1221,1335 +1221,1336 @@
 <div class="line"><a id="l01117" name="l01117"></a><span class="lineno"> 1117</span>    shoot_parameters_cane.internode_radius_max = 0.1;</div>
 <div class="line"><a id="l01118" name="l01118"></a><span class="lineno"> 1118</span>    shoot_parameters_cane.insertion_angle_tip.uniformDistribution(60, 120);</div>
 <div class="line"><a id="l01119" name="l01119"></a><span class="lineno"> 1119</span>    shoot_parameters_cane.max_nodes = 9;</div>
-<div class="line"><a id="l01120" name="l01120"></a><span class="lineno"> 1120</span>    shoot_parameters_cane.tortuosity = 1.5;</div>
-<div class="line"><a id="l01121" name="l01121"></a><span class="lineno"> 1121</span>    shoot_parameters_cane.gravitropic_curvature = 10;</div>
-<div class="line"><a id="l01122" name="l01122"></a><span class="lineno"> 1122</span>    shoot_parameters_cane.vegetative_bud_break_probability = 1.0;</div>
-<div class="line"><a id="l01123" name="l01123"></a><span class="lineno"> 1123</span>    shoot_parameters_cane.defineChildShootTypes({<span class="stringliteral">&quot;grapevine_shoot&quot;</span>},{1.f});</div>
-<div class="line"><a id="l01124" name="l01124"></a><span class="lineno"> 1124</span> </div>
-<div class="line"><a id="l01125" name="l01125"></a><span class="lineno"> 1125</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_trunk = shoot_parameters_main;</div>
-<div class="line"><a id="l01126" name="l01126"></a><span class="lineno"> 1126</span>    shoot_parameters_trunk.phytomer_parameters.internode.image_texture = <span class="stringliteral">&quot;plugins/plantarchitecture/assets/textures/GrapeBark.jpg&quot;</span>;</div>
-<div class="line"><a id="l01127" name="l01127"></a><span class="lineno"> 1127</span>    shoot_parameters_trunk.phytomer_parameters.internode.pitch = 0;</div>
-<div class="line"><a id="l01128" name="l01128"></a><span class="lineno"> 1128</span>    shoot_parameters_trunk.phytomer_parameters.internode.phyllotactic_angle = 0;</div>
-<div class="line"><a id="l01129" name="l01129"></a><span class="lineno"> 1129</span>    shoot_parameters_trunk.phytomer_parameters.internode.radial_subdivisions = 25;</div>
-<div class="line"><a id="l01130" name="l01130"></a><span class="lineno"> 1130</span>    shoot_parameters_trunk.phytomer_parameters.internode.max_floral_buds_per_petiole = 0;</div>
-<div class="line"><a id="l01131" name="l01131"></a><span class="lineno"> 1131</span>    shoot_parameters_trunk.internode_radius_max = 1;</div>
-<div class="line"><a id="l01132" name="l01132"></a><span class="lineno"> 1132</span>    shoot_parameters_trunk.phyllochron = 1.25;</div>
-<div class="line"><a id="l01133" name="l01133"></a><span class="lineno"> 1133</span>    shoot_parameters_trunk.insertion_angle_tip = 90;</div>
-<div class="line"><a id="l01134" name="l01134"></a><span class="lineno"> 1134</span>    shoot_parameters_trunk.max_nodes = 18;</div>
-<div class="line"><a id="l01135" name="l01135"></a><span class="lineno"> 1135</span>    shoot_parameters_trunk.tortuosity = 1;</div>
-<div class="line"><a id="l01136" name="l01136"></a><span class="lineno"> 1136</span>    shoot_parameters_trunk.vegetative_bud_break_probability = 0;</div>
-<div class="line"><a id="l01137" name="l01137"></a><span class="lineno"> 1137</span>    shoot_parameters_trunk.defineChildShootTypes({<span class="stringliteral">&quot;grapevine_shoot&quot;</span>},{1.f});</div>
-<div class="line"><a id="l01138" name="l01138"></a><span class="lineno"> 1138</span> </div>
-<div class="line"><a id="l01139" name="l01139"></a><span class="lineno"> 1139</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;grapevine_trunk&quot;</span>, shoot_parameters_trunk);</div>
-<div class="line"><a id="l01140" name="l01140"></a><span class="lineno"> 1140</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;grapevine_cane&quot;</span>, shoot_parameters_cane);</div>
-<div class="line"><a id="l01141" name="l01141"></a><span class="lineno"> 1141</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;grapevine_shoot&quot;</span>, shoot_parameters_main);</div>
-<div class="line"><a id="l01142" name="l01142"></a><span class="lineno"> 1142</span> </div>
-<div class="line"><a id="l01143" name="l01143"></a><span class="lineno"> 1143</span>}</div>
-<div class="line"><a id="l01144" name="l01144"></a><span class="lineno"> 1144</span> </div>
-<div class="line"><a id="l01145" name="l01145"></a><span class="lineno"> 1145</span>uint PlantArchitecture::buildGrapevineVSP(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
-<div class="line"><a id="l01146" name="l01146"></a><span class="lineno"> 1146</span> </div>
-<div class="line"><a id="l01147" name="l01147"></a><span class="lineno"> 1147</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
-<div class="line"><a id="l01148" name="l01148"></a><span class="lineno"> 1148</span>        <span class="comment">//automatically initialize redbud plant shoots</span></div>
-<div class="line"><a id="l01149" name="l01149"></a><span class="lineno"> 1149</span>        initializeGrapevineVSPShoots();</div>
-<div class="line"><a id="l01150" name="l01150"></a><span class="lineno"> 1150</span>    }</div>
-<div class="line"><a id="l01151" name="l01151"></a><span class="lineno"> 1151</span> </div>
-<div class="line"><a id="l01152" name="l01152"></a><span class="lineno"> 1152</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
-<div class="line"><a id="l01153" name="l01153"></a><span class="lineno"> 1153</span> </div>
-<div class="line"><a id="l01154" name="l01154"></a><span class="lineno"> 1154</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 17, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0,0.05*M_PI), 0, 0), 0.04, 0.05, 1, 1, 0.1, <span class="stringliteral">&quot;grapevine_trunk&quot;</span>);</div>
-<div class="line"><a id="l01155" name="l01155"></a><span class="lineno"> 1155</span>    <span class="comment">//appendPhytomerToShoot( plantID, uID_stem, getCurrentShootParameters(&quot;grapevine_trunk&quot;).phytomer_parameters, 1e-3, 0.1, 1, 1 );</span></div>
-<div class="line"><a id="l01156" name="l01156"></a><span class="lineno"> 1156</span> </div>
-<div class="line"><a id="l01157" name="l01157"></a><span class="lineno"> 1157</span>    uint uID_cane_L = <a class="code hl_function" href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55">appendShoot</a>( plantID, uID_stem, 8, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(<span class="keywordtype">float</span>(0.45f*M_PI),0.52f*M_PI),0,M_PI), 0.015, 0.15, 1, 1, 0.6, <span class="stringliteral">&quot;grapevine_cane&quot;</span> );</div>
-<div class="line"><a id="l01158" name="l01158"></a><span class="lineno"> 1158</span>    uint uID_cane_R = <a class="code hl_function" href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55">appendShoot</a>( plantID, uID_stem, 8, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(<span class="keywordtype">float</span>(0.45f*M_PI),0.52f*M_PI),M_PI,M_PI), 0.015, 0.15, 1, 1, 0.6, <span class="stringliteral">&quot;grapevine_cane&quot;</span> );</div>
-<div class="line"><a id="l01159" name="l01159"></a><span class="lineno"> 1159</span> </div>
-<div class="line"><a id="l01160" name="l01160"></a><span class="lineno"> 1160</span><span class="comment">//    makePlantDormant(plantID);</span></div>
-<div class="line"><a id="l01161" name="l01161"></a><span class="lineno"> 1161</span> </div>
-<div class="line"><a id="l01162" name="l01162"></a><span class="lineno"> 1162</span>    removeShootLeaves( plantID, uID_stem );</div>
-<div class="line"><a id="l01163" name="l01163"></a><span class="lineno"> 1163</span>    removeShootLeaves( plantID, uID_cane_L );</div>
-<div class="line"><a id="l01164" name="l01164"></a><span class="lineno"> 1164</span>    removeShootLeaves( plantID, uID_cane_R );</div>
-<div class="line"><a id="l01165" name="l01165"></a><span class="lineno"> 1165</span> </div>
-<div class="line"><a id="l01166" name="l01166"></a><span class="lineno"> 1166</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, -1, 5, 8, 25, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l01167" name="l01167"></a><span class="lineno"> 1167</span> </div>
-<div class="line"><a id="l01168" name="l01168"></a><span class="lineno"> 1168</span>    <span class="keywordflow">return</span> plantID;</div>
-<div class="line"><a id="l01169" name="l01169"></a><span class="lineno"> 1169</span> </div>
-<div class="line"><a id="l01170" name="l01170"></a><span class="lineno"> 1170</span>}</div>
-<div class="line"><a id="l01171" name="l01171"></a><span class="lineno"> 1171</span> </div>
-<div class="line"><a id="l01172" name="l01172"></a><span class="lineno"> 1172</span><span class="keywordtype">void</span> PlantArchitecture::initializeOliveTreeShoots(){</div>
-<div class="line"><a id="l01173" name="l01173"></a><span class="lineno"> 1173</span> </div>
-<div class="line"><a id="l01174" name="l01174"></a><span class="lineno"> 1174</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
-<div class="line"><a id="l01175" name="l01175"></a><span class="lineno"> 1175</span> </div>
-<div class="line"><a id="l01176" name="l01176"></a><span class="lineno"> 1176</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_olive(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01177" name="l01177"></a><span class="lineno"> 1177</span> </div>
-<div class="line"><a id="l01178" name="l01178"></a><span class="lineno"> 1178</span>    phytomer_parameters_olive.internode.pitch = 0;</div>
-<div class="line"><a id="l01179" name="l01179"></a><span class="lineno"> 1179</span>    phytomer_parameters_olive.internode.phyllotactic_angle.uniformDistribution(80, 100 );</div>
-<div class="line"><a id="l01180" name="l01180"></a><span class="lineno"> 1180</span>    phytomer_parameters_olive.internode.length_segments = 1;</div>
-<div class="line"><a id="l01181" name="l01181"></a><span class="lineno"> 1181</span>    phytomer_parameters_olive.internode.image_texture = <span class="stringliteral">&quot;plugins/plantarchitecture/assets/textures/OliveBark.jpg&quot;</span>;</div>
-<div class="line"><a id="l01182" name="l01182"></a><span class="lineno"> 1182</span>    phytomer_parameters_olive.internode.max_floral_buds_per_petiole = 3;</div>
-<div class="line"><a id="l01183" name="l01183"></a><span class="lineno"> 1183</span> </div>
-<div class="line"><a id="l01184" name="l01184"></a><span class="lineno"> 1184</span>    phytomer_parameters_olive.petiole.petioles_per_internode = 2;</div>
-<div class="line"><a id="l01185" name="l01185"></a><span class="lineno"> 1185</span>    phytomer_parameters_olive.petiole.pitch.uniformDistribution(-40,-20);</div>
-<div class="line"><a id="l01186" name="l01186"></a><span class="lineno"> 1186</span>    phytomer_parameters_olive.petiole.taper = 0.1;</div>
-<div class="line"><a id="l01187" name="l01187"></a><span class="lineno"> 1187</span>    phytomer_parameters_olive.petiole.curvature = 0;</div>
-<div class="line"><a id="l01188" name="l01188"></a><span class="lineno"> 1188</span>    phytomer_parameters_olive.petiole.length = 0.01;</div>
-<div class="line"><a id="l01189" name="l01189"></a><span class="lineno"> 1189</span>    phytomer_parameters_olive.petiole.radius = 0.0005;</div>
-<div class="line"><a id="l01190" name="l01190"></a><span class="lineno"> 1190</span>    phytomer_parameters_olive.petiole.length_segments = 1;</div>
-<div class="line"><a id="l01191" name="l01191"></a><span class="lineno"> 1191</span>    phytomer_parameters_olive.petiole.radial_subdivisions = 3;</div>
-<div class="line"><a id="l01192" name="l01192"></a><span class="lineno"> 1192</span>    phytomer_parameters_olive.petiole.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.61, 0.5, 0.24);</div>
-<div class="line"><a id="l01193" name="l01193"></a><span class="lineno"> 1193</span> </div>
-<div class="line"><a id="l01194" name="l01194"></a><span class="lineno"> 1194</span>    phytomer_parameters_olive.leaf.leaves_per_petiole = 1;</div>
-<div class="line"><a id="l01195" name="l01195"></a><span class="lineno"> 1195</span>    phytomer_parameters_olive.leaf.prototype_function = OliveLeafPrototype;</div>
-<div class="line"><a id="l01196" name="l01196"></a><span class="lineno"> 1196</span>    phytomer_parameters_olive.leaf.prototype_scale = 0.07;</div>
-<div class="line"><a id="l01197" name="l01197"></a><span class="lineno"> 1197</span>    phytomer_parameters_olive.leaf.unique_prototypes = 1;</div>
-<div class="line"><a id="l01198" name="l01198"></a><span class="lineno"> 1198</span>    phytomer_parameters_olive.leaf.subdivisions = 1;</div>
-<div class="line"><a id="l01199" name="l01199"></a><span class="lineno"> 1199</span> </div>
-<div class="line"><a id="l01200" name="l01200"></a><span class="lineno"> 1200</span>    phytomer_parameters_olive.peduncle.length = 0.065;</div>
-<div class="line"><a id="l01201" name="l01201"></a><span class="lineno"> 1201</span>    phytomer_parameters_olive.peduncle.radius = 0.001;</div>
-<div class="line"><a id="l01202" name="l01202"></a><span class="lineno"> 1202</span>    phytomer_parameters_olive.peduncle.pitch = 60;</div>
-<div class="line"><a id="l01203" name="l01203"></a><span class="lineno"> 1203</span>    phytomer_parameters_olive.peduncle.roll = 0;</div>
-<div class="line"><a id="l01204" name="l01204"></a><span class="lineno"> 1204</span>    phytomer_parameters_olive.peduncle.length_segments = 1;</div>
-<div class="line"><a id="l01205" name="l01205"></a><span class="lineno"> 1205</span>    phytomer_parameters_olive.peduncle.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.7, 0.72, 0.7);</div>
-<div class="line"><a id="l01206" name="l01206"></a><span class="lineno"> 1206</span> </div>
-<div class="line"><a id="l01207" name="l01207"></a><span class="lineno"> 1207</span>    phytomer_parameters_olive.inflorescence.flowers_per_peduncle = 10;</div>
-<div class="line"><a id="l01208" name="l01208"></a><span class="lineno"> 1208</span>    phytomer_parameters_olive.inflorescence.flower_offset = 0.13;</div>
-<div class="line"><a id="l01209" name="l01209"></a><span class="lineno"> 1209</span>    phytomer_parameters_olive.inflorescence.pitch.uniformDistribution(80,100);</div>
-<div class="line"><a id="l01210" name="l01210"></a><span class="lineno"> 1210</span>    phytomer_parameters_olive.inflorescence.roll.uniformDistribution(0,360);</div>
-<div class="line"><a id="l01211" name="l01211"></a><span class="lineno"> 1211</span>    phytomer_parameters_olive.inflorescence.flower_prototype_scale = 0.01;</div>
-<div class="line"><a id="l01212" name="l01212"></a><span class="lineno"> 1212</span><span class="comment">//    phytomer_parameters_olive.inflorescence.flower_prototype_function = OliveFlowerPrototype;</span></div>
-<div class="line"><a id="l01213" name="l01213"></a><span class="lineno"> 1213</span>    phytomer_parameters_olive.inflorescence.fruit_prototype_scale = 0.025;</div>
-<div class="line"><a id="l01214" name="l01214"></a><span class="lineno"> 1214</span>    phytomer_parameters_olive.inflorescence.fruit_prototype_function = OliveFruitPrototype;</div>
-<div class="line"><a id="l01215" name="l01215"></a><span class="lineno"> 1215</span> </div>
-<div class="line"><a id="l01216" name="l01216"></a><span class="lineno"> 1216</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
-<div class="line"><a id="l01217" name="l01217"></a><span class="lineno"> 1217</span> </div>
-<div class="line"><a id="l01218" name="l01218"></a><span class="lineno"> 1218</span>    <span class="comment">// Trunk</span></div>
-<div class="line"><a id="l01219" name="l01219"></a><span class="lineno"> 1219</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_trunk(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01220" name="l01220"></a><span class="lineno"> 1220</span>    shoot_parameters_trunk.phytomer_parameters = phytomer_parameters_olive;</div>
-<div class="line"><a id="l01221" name="l01221"></a><span class="lineno"> 1221</span>    shoot_parameters_trunk.phytomer_parameters.internode.phyllotactic_angle = 0;</div>
-<div class="line"><a id="l01222" name="l01222"></a><span class="lineno"> 1222</span>    shoot_parameters_trunk.phytomer_parameters.internode.radial_subdivisions = 20;</div>
-<div class="line"><a id="l01223" name="l01223"></a><span class="lineno"> 1223</span>    shoot_parameters_trunk.max_nodes = 20;</div>
-<div class="line"><a id="l01224" name="l01224"></a><span class="lineno"> 1224</span>    shoot_parameters_trunk.girth_area_factor = 3.f;</div>
-<div class="line"><a id="l01225" name="l01225"></a><span class="lineno"> 1225</span>    shoot_parameters_trunk.internode_radius_initial = 0.01;</div>
-<div class="line"><a id="l01226" name="l01226"></a><span class="lineno"> 1226</span>    shoot_parameters_trunk.vegetative_bud_break_probability = 0;</div>
-<div class="line"><a id="l01227" name="l01227"></a><span class="lineno"> 1227</span>    shoot_parameters_trunk.vegetative_bud_break_time = 0;</div>
-<div class="line"><a id="l01228" name="l01228"></a><span class="lineno"> 1228</span>    shoot_parameters_trunk.tortuosity = 6;</div>
-<div class="line"><a id="l01229" name="l01229"></a><span class="lineno"> 1229</span>    shoot_parameters_trunk.internode_length_max = 0.05;</div>
-<div class="line"><a id="l01230" name="l01230"></a><span class="lineno"> 1230</span>    shoot_parameters_trunk.internode_length_decay_rate = 0;</div>
-<div class="line"><a id="l01231" name="l01231"></a><span class="lineno"> 1231</span>    shoot_parameters_trunk.defineChildShootTypes({<span class="stringliteral">&quot;scaffold&quot;</span>},{1});</div>
-<div class="line"><a id="l01232" name="l01232"></a><span class="lineno"> 1232</span> </div>
-<div class="line"><a id="l01233" name="l01233"></a><span class="lineno"> 1233</span>    <span class="comment">// Proleptic shoots</span></div>
-<div class="line"><a id="l01234" name="l01234"></a><span class="lineno"> 1234</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_proleptic(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01235" name="l01235"></a><span class="lineno"> 1235</span>    shoot_parameters_proleptic.phytomer_parameters = phytomer_parameters_olive;</div>
-<div class="line"><a id="l01236" name="l01236"></a><span class="lineno"> 1236</span><span class="comment">//    shoot_parameters_proleptic.phytomer_parameters.phytomer_creation_function = OlivePhytomerCreationFunction;</span></div>
-<div class="line"><a id="l01237" name="l01237"></a><span class="lineno"> 1237</span>    shoot_parameters_proleptic.phytomer_parameters.phytomer_callback_function = OlivePhytomerCallbackFunction;</div>
-<div class="line"><a id="l01238" name="l01238"></a><span class="lineno"> 1238</span>    shoot_parameters_proleptic.max_nodes = 20;</div>
-<div class="line"><a id="l01239" name="l01239"></a><span class="lineno"> 1239</span>    shoot_parameters_proleptic.phyllochron = 1.0;</div>
-<div class="line"><a id="l01240" name="l01240"></a><span class="lineno"> 1240</span>    shoot_parameters_proleptic.elongation_rate = 0.25;</div>
-<div class="line"><a id="l01241" name="l01241"></a><span class="lineno"> 1241</span>    shoot_parameters_proleptic.girth_area_factor = 5.f;</div>
-<div class="line"><a id="l01242" name="l01242"></a><span class="lineno"> 1242</span>    shoot_parameters_proleptic.vegetative_bud_break_probability = 0.15;</div>
-<div class="line"><a id="l01243" name="l01243"></a><span class="lineno"> 1243</span>    shoot_parameters_proleptic.vegetative_bud_break_time = 0;</div>
-<div class="line"><a id="l01244" name="l01244"></a><span class="lineno"> 1244</span>    shoot_parameters_proleptic.leaf_flush_count = 1;</div>
-<div class="line"><a id="l01245" name="l01245"></a><span class="lineno"> 1245</span>    shoot_parameters_proleptic.gravitropic_curvature = 450;</div>
-<div class="line"><a id="l01246" name="l01246"></a><span class="lineno"> 1246</span>    shoot_parameters_proleptic.tortuosity = 25;</div>
-<div class="line"><a id="l01247" name="l01247"></a><span class="lineno"> 1247</span>    shoot_parameters_proleptic.internode_radius_initial = 0.002;</div>
-<div class="line"><a id="l01248" name="l01248"></a><span class="lineno"> 1248</span>    shoot_parameters_proleptic.insertion_angle_tip.uniformDistribution( 15, 25);</div>
-<div class="line"><a id="l01249" name="l01249"></a><span class="lineno"> 1249</span>    shoot_parameters_proleptic.insertion_angle_decay_rate = 2;</div>
-<div class="line"><a id="l01250" name="l01250"></a><span class="lineno"> 1250</span>    shoot_parameters_proleptic.internode_length_max = 0.05;</div>
-<div class="line"><a id="l01251" name="l01251"></a><span class="lineno"> 1251</span>    shoot_parameters_proleptic.internode_length_min = 0.03;</div>
-<div class="line"><a id="l01252" name="l01252"></a><span class="lineno"> 1252</span>    shoot_parameters_proleptic.internode_length_decay_rate = 0.004;</div>
-<div class="line"><a id="l01253" name="l01253"></a><span class="lineno"> 1253</span>    shoot_parameters_proleptic.fruit_set_probability = 0.25;</div>
-<div class="line"><a id="l01254" name="l01254"></a><span class="lineno"> 1254</span>    shoot_parameters_proleptic.flower_bud_break_probability = 0.25;</div>
-<div class="line"><a id="l01255" name="l01255"></a><span class="lineno"> 1255</span>    shoot_parameters_proleptic.max_terminal_floral_buds = 4;</div>
-<div class="line"><a id="l01256" name="l01256"></a><span class="lineno"> 1256</span>    shoot_parameters_proleptic.flowers_require_dormancy = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l01257" name="l01257"></a><span class="lineno"> 1257</span>    shoot_parameters_proleptic.growth_requires_dormancy = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l01258" name="l01258"></a><span class="lineno"> 1258</span>    shoot_parameters_proleptic.determinate_shoot_growth = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01259" name="l01259"></a><span class="lineno"> 1259</span>    shoot_parameters_proleptic.defineChildShootTypes({<span class="stringliteral">&quot;proleptic&quot;</span>},{1.0});</div>
-<div class="line"><a id="l01260" name="l01260"></a><span class="lineno"> 1260</span> </div>
-<div class="line"><a id="l01261" name="l01261"></a><span class="lineno"> 1261</span>    <span class="comment">// Main scaffolds</span></div>
-<div class="line"><a id="l01262" name="l01262"></a><span class="lineno"> 1262</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_scaffold = shoot_parameters_proleptic;</div>
-<div class="line"><a id="l01263" name="l01263"></a><span class="lineno"> 1263</span>    shoot_parameters_scaffold.phytomer_parameters.internode.radial_subdivisions = 10;</div>
-<div class="line"><a id="l01264" name="l01264"></a><span class="lineno"> 1264</span>    shoot_parameters_scaffold.max_nodes = 12;</div>
-<div class="line"><a id="l01265" name="l01265"></a><span class="lineno"> 1265</span>    shoot_parameters_scaffold.gravitropic_curvature = 700;</div>
-<div class="line"><a id="l01266" name="l01266"></a><span class="lineno"> 1266</span>    shoot_parameters_scaffold.internode_length_max = 0.04;</div>
-<div class="line"><a id="l01267" name="l01267"></a><span class="lineno"> 1267</span>    shoot_parameters_scaffold.tortuosity = 10;</div>
-<div class="line"><a id="l01268" name="l01268"></a><span class="lineno"> 1268</span>    shoot_parameters_scaffold.defineChildShootTypes({<span class="stringliteral">&quot;proleptic&quot;</span>},{1.0});</div>
-<div class="line"><a id="l01269" name="l01269"></a><span class="lineno"> 1269</span> </div>
-<div class="line"><a id="l01270" name="l01270"></a><span class="lineno"> 1270</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;trunk&quot;</span>, shoot_parameters_trunk);</div>
-<div class="line"><a id="l01271" name="l01271"></a><span class="lineno"> 1271</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;scaffold&quot;</span>, shoot_parameters_scaffold);</div>
-<div class="line"><a id="l01272" name="l01272"></a><span class="lineno"> 1272</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;proleptic&quot;</span>, shoot_parameters_proleptic);</div>
-<div class="line"><a id="l01273" name="l01273"></a><span class="lineno"> 1273</span> </div>
-<div class="line"><a id="l01274" name="l01274"></a><span class="lineno"> 1274</span>}</div>
-<div class="line"><a id="l01275" name="l01275"></a><span class="lineno"> 1275</span> </div>
-<div class="line"><a id="l01276" name="l01276"></a><span class="lineno"> 1276</span>uint PlantArchitecture::buildOliveTree(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
-<div class="line"><a id="l01277" name="l01277"></a><span class="lineno"> 1277</span> </div>
-<div class="line"><a id="l01278" name="l01278"></a><span class="lineno"> 1278</span>    <span class="keywordflow">if</span>( shoot_types.empty() ){</div>
-<div class="line"><a id="l01279" name="l01279"></a><span class="lineno"> 1279</span>        <span class="comment">//automatically initialize almond tree shoots</span></div>
-<div class="line"><a id="l01280" name="l01280"></a><span class="lineno"> 1280</span>        initializeOliveTreeShoots();</div>
-<div class="line"><a id="l01281" name="l01281"></a><span class="lineno"> 1281</span>    }</div>
-<div class="line"><a id="l01282" name="l01282"></a><span class="lineno"> 1282</span> </div>
-<div class="line"><a id="l01283" name="l01283"></a><span class="lineno"> 1283</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
-<div class="line"><a id="l01284" name="l01284"></a><span class="lineno"> 1284</span> </div>
-<div class="line"><a id="l01285" name="l01285"></a><span class="lineno"> 1285</span>    uint uID_trunk = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 19, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 0.05f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI)), 0.015, 0.008, 1.f, 1.f, 0, <span class="stringliteral">&quot;trunk&quot;</span>);</div>
-<div class="line"><a id="l01286" name="l01286"></a><span class="lineno"> 1286</span>    <a class="code hl_function" href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">appendPhytomerToShoot</a>( plantID, uID_trunk, shoot_types.at(<span class="stringliteral">&quot;trunk&quot;</span>).phytomer_parameters, 0, 0.01, 1, 1);</div>
-<div class="line"><a id="l01287" name="l01287"></a><span class="lineno"> 1287</span> </div>
-<div class="line"><a id="l01288" name="l01288"></a><span class="lineno"> 1288</span>    plant_instances.at(plantID).shoot_tree.at(uID_trunk)-&gt;meristem_is_alive = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01289" name="l01289"></a><span class="lineno"> 1289</span> </div>
-<div class="line"><a id="l01290" name="l01290"></a><span class="lineno"> 1290</span>    <span class="keyword">auto</span> phytomers = plant_instances.at(plantID).shoot_tree.at(uID_trunk)-&gt;phytomers;</div>
-<div class="line"><a id="l01291" name="l01291"></a><span class="lineno"> 1291</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp; phytomer : phytomers ){</div>
-<div class="line"><a id="l01292" name="l01292"></a><span class="lineno"> 1292</span>        phytomer-&gt;removeLeaf();</div>
-<div class="line"><a id="l01293" name="l01293"></a><span class="lineno"> 1293</span>        phytomer-&gt;setVegetativeBudState(BUD_DEAD);</div>
-<div class="line"><a id="l01294" name="l01294"></a><span class="lineno"> 1294</span>        phytomer-&gt;setFloralBudState(BUD_DEAD);</div>
-<div class="line"><a id="l01295" name="l01295"></a><span class="lineno"> 1295</span>    }</div>
-<div class="line"><a id="l01296" name="l01296"></a><span class="lineno"> 1296</span> </div>
-<div class="line"><a id="l01297" name="l01297"></a><span class="lineno"> 1297</span>    uint Nscaffolds = 4;<span class="comment">//context_ptr-&gt;randu(4,5);</span></div>
-<div class="line"><a id="l01298" name="l01298"></a><span class="lineno"> 1298</span> </div>
-<div class="line"><a id="l01299" name="l01299"></a><span class="lineno"> 1299</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;Nscaffolds; i++ ) {</div>
-<div class="line"><a id="l01300" name="l01300"></a><span class="lineno"> 1300</span>        <span class="keywordtype">float</span> pitch = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(30), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(35));</div>
-<div class="line"><a id="l01301" name="l01301"></a><span class="lineno"> 1301</span>        uint uID_shoot = <a class="code hl_function" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">addChildShoot</a>( plantID, uID_trunk, getShootNodeCount(plantID,uID_trunk)-i-1, context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(5, 7), make_AxisRotation(pitch, (<span class="keywordtype">float</span>(i) + context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(-0.2f, 0.2f)) / <span class="keywordtype">float</span>(Nscaffolds) * 2 * M_PI, 0), 0.007, 0.06, 1.f, 1.f, 0.5, <span class="stringliteral">&quot;scaffold&quot;</span>, 0);</div>
-<div class="line"><a id="l01302" name="l01302"></a><span class="lineno"> 1302</span> </div>
-<div class="line"><a id="l01303" name="l01303"></a><span class="lineno"> 1303</span>    }</div>
-<div class="line"><a id="l01304" name="l01304"></a><span class="lineno"> 1304</span> </div>
-<div class="line"><a id="l01305" name="l01305"></a><span class="lineno"> 1305</span>    makePlantDormant(plantID);</div>
-<div class="line"><a id="l01306" name="l01306"></a><span class="lineno"> 1306</span> </div>
-<div class="line"><a id="l01307" name="l01307"></a><span class="lineno"> 1307</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, 1, 3, 8, 20, <span class="keyword">true</span>);</div>
-<div class="line"><a id="l01308" name="l01308"></a><span class="lineno"> 1308</span> </div>
-<div class="line"><a id="l01309" name="l01309"></a><span class="lineno"> 1309</span>    <span class="keywordflow">return</span> plantID;</div>
-<div class="line"><a id="l01310" name="l01310"></a><span class="lineno"> 1310</span> </div>
-<div class="line"><a id="l01311" name="l01311"></a><span class="lineno"> 1311</span>}</div>
-<div class="line"><a id="l01312" name="l01312"></a><span class="lineno"> 1312</span> </div>
-<div class="line"><a id="l01313" name="l01313"></a><span class="lineno"> 1313</span><span class="keywordtype">void</span> PlantArchitecture::initializePistachioTreeShoots(){</div>
-<div class="line"><a id="l01314" name="l01314"></a><span class="lineno"> 1314</span> </div>
-<div class="line"><a id="l01315" name="l01315"></a><span class="lineno"> 1315</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
-<div class="line"><a id="l01316" name="l01316"></a><span class="lineno"> 1316</span> </div>
-<div class="line"><a id="l01317" name="l01317"></a><span class="lineno"> 1317</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_pistachio(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01318" name="l01318"></a><span class="lineno"> 1318</span> </div>
-<div class="line"><a id="l01319" name="l01319"></a><span class="lineno"> 1319</span>    phytomer_parameters_pistachio.internode.pitch = 0;</div>
-<div class="line"><a id="l01320" name="l01320"></a><span class="lineno"> 1320</span>    phytomer_parameters_pistachio.internode.phyllotactic_angle.uniformDistribution(160, 200);</div>
-<div class="line"><a id="l01321" name="l01321"></a><span class="lineno"> 1321</span>    phytomer_parameters_pistachio.internode.length_segments = 1;</div>
-<div class="line"><a id="l01322" name="l01322"></a><span class="lineno"> 1322</span>    phytomer_parameters_pistachio.internode.image_texture = <span class="stringliteral">&quot;plugins/plantarchitecture/assets/textures/OliveBark.jpg&quot;</span>;</div>
-<div class="line"><a id="l01323" name="l01323"></a><span class="lineno"> 1323</span>    phytomer_parameters_pistachio.internode.max_floral_buds_per_petiole = 3;</div>
-<div class="line"><a id="l01324" name="l01324"></a><span class="lineno"> 1324</span> </div>
-<div class="line"><a id="l01325" name="l01325"></a><span class="lineno"> 1325</span>    phytomer_parameters_pistachio.petiole.petioles_per_internode = 2;</div>
-<div class="line"><a id="l01326" name="l01326"></a><span class="lineno"> 1326</span>    phytomer_parameters_pistachio.petiole.pitch.uniformDistribution(-45, -60);</div>
-<div class="line"><a id="l01327" name="l01327"></a><span class="lineno"> 1327</span>    phytomer_parameters_pistachio.petiole.taper = 0.1;</div>
-<div class="line"><a id="l01328" name="l01328"></a><span class="lineno"> 1328</span>    phytomer_parameters_pistachio.petiole.curvature.uniformDistribution(-800,800);</div>
-<div class="line"><a id="l01329" name="l01329"></a><span class="lineno"> 1329</span>    phytomer_parameters_pistachio.petiole.length = 0.075;</div>
-<div class="line"><a id="l01330" name="l01330"></a><span class="lineno"> 1330</span>    phytomer_parameters_pistachio.petiole.radius = 0.001;</div>
-<div class="line"><a id="l01331" name="l01331"></a><span class="lineno"> 1331</span>    phytomer_parameters_pistachio.petiole.length_segments = 1;</div>
-<div class="line"><a id="l01332" name="l01332"></a><span class="lineno"> 1332</span>    phytomer_parameters_pistachio.petiole.radial_subdivisions = 3;</div>
-<div class="line"><a id="l01333" name="l01333"></a><span class="lineno"> 1333</span>    phytomer_parameters_pistachio.petiole.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.6, 0.6, 0.4);</div>
-<div class="line"><a id="l01334" name="l01334"></a><span class="lineno"> 1334</span> </div>
-<div class="line"><a id="l01335" name="l01335"></a><span class="lineno"> 1335</span>    phytomer_parameters_pistachio.leaf.leaves_per_petiole = 3;</div>
-<div class="line"><a id="l01336" name="l01336"></a><span class="lineno"> 1336</span>    phytomer_parameters_pistachio.leaf.prototype_function = PistachioLeafPrototype;</div>
-<div class="line"><a id="l01337" name="l01337"></a><span class="lineno"> 1337</span>    phytomer_parameters_pistachio.leaf.prototype_scale = 0.08;</div>
-<div class="line"><a id="l01338" name="l01338"></a><span class="lineno"> 1338</span>    phytomer_parameters_pistachio.leaf.leaflet_offset = 0.3;</div>
-<div class="line"><a id="l01339" name="l01339"></a><span class="lineno"> 1339</span>    phytomer_parameters_pistachio.leaf.leaflet_scale = 0.75;</div>
-<div class="line"><a id="l01340" name="l01340"></a><span class="lineno"> 1340</span>    phytomer_parameters_pistachio.leaf.pitch.uniformDistribution(-20,20);</div>
-<div class="line"><a id="l01341" name="l01341"></a><span class="lineno"> 1341</span>    phytomer_parameters_pistachio.leaf.roll.uniformDistribution(-20,20);</div>
-<div class="line"><a id="l01342" name="l01342"></a><span class="lineno"> 1342</span>    phytomer_parameters_pistachio.leaf.unique_prototypes = 5;</div>
-<div class="line"><a id="l01343" name="l01343"></a><span class="lineno"> 1343</span>    phytomer_parameters_pistachio.leaf.subdivisions = 3;</div>
-<div class="line"><a id="l01344" name="l01344"></a><span class="lineno"> 1344</span> </div>
-<div class="line"><a id="l01345" name="l01345"></a><span class="lineno"> 1345</span>    phytomer_parameters_pistachio.peduncle.length = 0.1;</div>
-<div class="line"><a id="l01346" name="l01346"></a><span class="lineno"> 1346</span>    phytomer_parameters_pistachio.peduncle.radius = 0.001;</div>
-<div class="line"><a id="l01347" name="l01347"></a><span class="lineno"> 1347</span>    phytomer_parameters_pistachio.peduncle.pitch = 60;</div>
-<div class="line"><a id="l01348" name="l01348"></a><span class="lineno"> 1348</span>    phytomer_parameters_pistachio.peduncle.roll = 0;</div>
-<div class="line"><a id="l01349" name="l01349"></a><span class="lineno"> 1349</span>    phytomer_parameters_pistachio.peduncle.length_segments = 1;</div>
-<div class="line"><a id="l01350" name="l01350"></a><span class="lineno"> 1350</span>    phytomer_parameters_pistachio.peduncle.curvature.uniformDistribution(500,900);</div>
-<div class="line"><a id="l01351" name="l01351"></a><span class="lineno"> 1351</span>    phytomer_parameters_pistachio.peduncle.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.7, 0.72, 0.7);</div>
-<div class="line"><a id="l01352" name="l01352"></a><span class="lineno"> 1352</span> </div>
-<div class="line"><a id="l01353" name="l01353"></a><span class="lineno"> 1353</span>    phytomer_parameters_pistachio.inflorescence.flowers_per_peduncle = 16;</div>
-<div class="line"><a id="l01354" name="l01354"></a><span class="lineno"> 1354</span>    phytomer_parameters_pistachio.inflorescence.flower_offset = 0.08;</div>
-<div class="line"><a id="l01355" name="l01355"></a><span class="lineno"> 1355</span>    phytomer_parameters_pistachio.inflorescence.pitch.uniformDistribution(50, 70);</div>
-<div class="line"><a id="l01356" name="l01356"></a><span class="lineno"> 1356</span>    phytomer_parameters_pistachio.inflorescence.roll.uniformDistribution(0, 360);</div>
-<div class="line"><a id="l01357" name="l01357"></a><span class="lineno"> 1357</span>    phytomer_parameters_pistachio.inflorescence.flower_prototype_scale = 0.025;</div>
-<div class="line"><a id="l01358" name="l01358"></a><span class="lineno"> 1358</span><span class="comment">//    phytomer_parameters_pistachio.inflorescence.flower_prototype_function = PistachioFlowerPrototype;</span></div>
-<div class="line"><a id="l01359" name="l01359"></a><span class="lineno"> 1359</span>    phytomer_parameters_pistachio.inflorescence.fruit_prototype_scale = 0.025;</div>
-<div class="line"><a id="l01360" name="l01360"></a><span class="lineno"> 1360</span>    phytomer_parameters_pistachio.inflorescence.fruit_prototype_function = PistachioFruitPrototype;</div>
-<div class="line"><a id="l01361" name="l01361"></a><span class="lineno"> 1361</span> </div>
-<div class="line"><a id="l01362" name="l01362"></a><span class="lineno"> 1362</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
-<div class="line"><a id="l01363" name="l01363"></a><span class="lineno"> 1363</span> </div>
-<div class="line"><a id="l01364" name="l01364"></a><span class="lineno"> 1364</span>    <span class="comment">// Trunk</span></div>
-<div class="line"><a id="l01365" name="l01365"></a><span class="lineno"> 1365</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_trunk(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01366" name="l01366"></a><span class="lineno"> 1366</span>    shoot_parameters_trunk.phytomer_parameters = phytomer_parameters_pistachio;</div>
-<div class="line"><a id="l01367" name="l01367"></a><span class="lineno"> 1367</span>    shoot_parameters_trunk.phytomer_parameters.internode.phyllotactic_angle = 180;</div>
-<div class="line"><a id="l01368" name="l01368"></a><span class="lineno"> 1368</span>    shoot_parameters_trunk.phytomer_parameters.internode.radial_subdivisions = 20;</div>
-<div class="line"><a id="l01369" name="l01369"></a><span class="lineno"> 1369</span>    shoot_parameters_trunk.max_nodes = 20;</div>
-<div class="line"><a id="l01370" name="l01370"></a><span class="lineno"> 1370</span>    shoot_parameters_trunk.girth_area_factor = 5.f;</div>
-<div class="line"><a id="l01371" name="l01371"></a><span class="lineno"> 1371</span>    shoot_parameters_trunk.internode_radius_initial = 0.01;</div>
-<div class="line"><a id="l01372" name="l01372"></a><span class="lineno"> 1372</span>    shoot_parameters_trunk.vegetative_bud_break_probability = 0;</div>
-<div class="line"><a id="l01373" name="l01373"></a><span class="lineno"> 1373</span>    shoot_parameters_trunk.vegetative_bud_break_time = 0;</div>
-<div class="line"><a id="l01374" name="l01374"></a><span class="lineno"> 1374</span>    shoot_parameters_trunk.tortuosity = 5;</div>
-<div class="line"><a id="l01375" name="l01375"></a><span class="lineno"> 1375</span>    shoot_parameters_trunk.internode_length_max = 0.05;</div>
-<div class="line"><a id="l01376" name="l01376"></a><span class="lineno"> 1376</span>    shoot_parameters_trunk.internode_length_decay_rate = 0;</div>
-<div class="line"><a id="l01377" name="l01377"></a><span class="lineno"> 1377</span>    shoot_parameters_trunk.defineChildShootTypes({<span class="stringliteral">&quot;proleptic&quot;</span>},{1});</div>
-<div class="line"><a id="l01378" name="l01378"></a><span class="lineno"> 1378</span> </div>
-<div class="line"><a id="l01379" name="l01379"></a><span class="lineno"> 1379</span>    <span class="comment">// Proleptic shoots</span></div>
-<div class="line"><a id="l01380" name="l01380"></a><span class="lineno"> 1380</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_proleptic(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01381" name="l01381"></a><span class="lineno"> 1381</span>    shoot_parameters_proleptic.phytomer_parameters = phytomer_parameters_pistachio;</div>
-<div class="line"><a id="l01382" name="l01382"></a><span class="lineno"> 1382</span>    shoot_parameters_proleptic.phytomer_parameters.phytomer_creation_function = PistachioPhytomerCreationFunction;</div>
-<div class="line"><a id="l01383" name="l01383"></a><span class="lineno"> 1383</span>    shoot_parameters_proleptic.phytomer_parameters.phytomer_callback_function = PistachioPhytomerCallbackFunction;</div>
-<div class="line"><a id="l01384" name="l01384"></a><span class="lineno"> 1384</span>    shoot_parameters_proleptic.max_nodes = 20;</div>
-<div class="line"><a id="l01385" name="l01385"></a><span class="lineno"> 1385</span>    shoot_parameters_proleptic.phyllochron = 1;</div>
-<div class="line"><a id="l01386" name="l01386"></a><span class="lineno"> 1386</span>    shoot_parameters_proleptic.elongation_rate = 0.25;</div>
-<div class="line"><a id="l01387" name="l01387"></a><span class="lineno"> 1387</span>    shoot_parameters_proleptic.girth_area_factor = 10.f;</div>
-<div class="line"><a id="l01388" name="l01388"></a><span class="lineno"> 1388</span>    shoot_parameters_proleptic.vegetative_bud_break_probability = 0.15;</div>
-<div class="line"><a id="l01389" name="l01389"></a><span class="lineno"> 1389</span>    shoot_parameters_proleptic.vegetative_bud_break_time = 0;</div>
-<div class="line"><a id="l01390" name="l01390"></a><span class="lineno"> 1390</span>    shoot_parameters_proleptic.leaf_flush_count = 1;</div>
-<div class="line"><a id="l01391" name="l01391"></a><span class="lineno"> 1391</span>    shoot_parameters_proleptic.gravitropic_curvature = 500;</div>
-<div class="line"><a id="l01392" name="l01392"></a><span class="lineno"> 1392</span>    shoot_parameters_proleptic.tortuosity = 15;</div>
-<div class="line"><a id="l01393" name="l01393"></a><span class="lineno"> 1393</span>    shoot_parameters_proleptic.internode_radius_initial = 0.002;</div>
-<div class="line"><a id="l01394" name="l01394"></a><span class="lineno"> 1394</span>    shoot_parameters_proleptic.insertion_angle_tip.uniformDistribution( 45, 55);</div>
-<div class="line"><a id="l01395" name="l01395"></a><span class="lineno"> 1395</span>    shoot_parameters_proleptic.insertion_angle_decay_rate = 10;</div>
-<div class="line"><a id="l01396" name="l01396"></a><span class="lineno"> 1396</span>    shoot_parameters_proleptic.internode_length_max = 0.04;</div>
-<div class="line"><a id="l01397" name="l01397"></a><span class="lineno"> 1397</span>    shoot_parameters_proleptic.internode_length_min = 0.02;</div>
-<div class="line"><a id="l01398" name="l01398"></a><span class="lineno"> 1398</span>    shoot_parameters_proleptic.internode_length_decay_rate = 0.005;</div>
-<div class="line"><a id="l01399" name="l01399"></a><span class="lineno"> 1399</span>    shoot_parameters_proleptic.fruit_set_probability = 0.35;</div>
-<div class="line"><a id="l01400" name="l01400"></a><span class="lineno"> 1400</span>    shoot_parameters_proleptic.flower_bud_break_probability = 0.35;</div>
-<div class="line"><a id="l01401" name="l01401"></a><span class="lineno"> 1401</span>    shoot_parameters_proleptic.max_terminal_floral_buds = 4;</div>
-<div class="line"><a id="l01402" name="l01402"></a><span class="lineno"> 1402</span>    shoot_parameters_proleptic.flowers_require_dormancy = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l01403" name="l01403"></a><span class="lineno"> 1403</span>    shoot_parameters_proleptic.growth_requires_dormancy = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l01404" name="l01404"></a><span class="lineno"> 1404</span>    shoot_parameters_proleptic.determinate_shoot_growth = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01405" name="l01405"></a><span class="lineno"> 1405</span> </div>
-<div class="line"><a id="l01406" name="l01406"></a><span class="lineno"> 1406</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;trunk&quot;</span>, shoot_parameters_trunk);</div>
-<div class="line"><a id="l01407" name="l01407"></a><span class="lineno"> 1407</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;proleptic&quot;</span>, shoot_parameters_proleptic);</div>
-<div class="line"><a id="l01408" name="l01408"></a><span class="lineno"> 1408</span> </div>
-<div class="line"><a id="l01409" name="l01409"></a><span class="lineno"> 1409</span>}</div>
-<div class="line"><a id="l01410" name="l01410"></a><span class="lineno"> 1410</span> </div>
-<div class="line"><a id="l01411" name="l01411"></a><span class="lineno"> 1411</span>uint PlantArchitecture::buildPistachioTree(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
-<div class="line"><a id="l01412" name="l01412"></a><span class="lineno"> 1412</span> </div>
-<div class="line"><a id="l01413" name="l01413"></a><span class="lineno"> 1413</span>    <span class="keywordflow">if</span>( shoot_types.empty() ){</div>
-<div class="line"><a id="l01414" name="l01414"></a><span class="lineno"> 1414</span>        <span class="comment">//automatically initialize almond tree shoots</span></div>
-<div class="line"><a id="l01415" name="l01415"></a><span class="lineno"> 1415</span>        initializePistachioTreeShoots();</div>
-<div class="line"><a id="l01416" name="l01416"></a><span class="lineno"> 1416</span>    }</div>
-<div class="line"><a id="l01417" name="l01417"></a><span class="lineno"> 1417</span> </div>
-<div class="line"><a id="l01418" name="l01418"></a><span class="lineno"> 1418</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
-<div class="line"><a id="l01419" name="l01419"></a><span class="lineno"> 1419</span> </div>
-<div class="line"><a id="l01420" name="l01420"></a><span class="lineno"> 1420</span>    uint uID_trunk = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 19, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 0.05f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI)), 0.015, 0.03, 1.f, 1.f, 0, <span class="stringliteral">&quot;trunk&quot;</span>);</div>
-<div class="line"><a id="l01421" name="l01421"></a><span class="lineno"> 1421</span>    <a class="code hl_function" href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">appendPhytomerToShoot</a>( plantID, uID_trunk, shoot_types.at(<span class="stringliteral">&quot;trunk&quot;</span>).phytomer_parameters, 0, 0.01, 1, 1);</div>
-<div class="line"><a id="l01422" name="l01422"></a><span class="lineno"> 1422</span> </div>
-<div class="line"><a id="l01423" name="l01423"></a><span class="lineno"> 1423</span>    plant_instances.at(plantID).shoot_tree.at(uID_trunk)-&gt;meristem_is_alive = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01424" name="l01424"></a><span class="lineno"> 1424</span> </div>
-<div class="line"><a id="l01425" name="l01425"></a><span class="lineno"> 1425</span>    <span class="keyword">auto</span> phytomers = plant_instances.at(plantID).shoot_tree.at(uID_trunk)-&gt;phytomers;</div>
-<div class="line"><a id="l01426" name="l01426"></a><span class="lineno"> 1426</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp; phytomer : phytomers ){</div>
-<div class="line"><a id="l01427" name="l01427"></a><span class="lineno"> 1427</span>        phytomer-&gt;removeLeaf();</div>
-<div class="line"><a id="l01428" name="l01428"></a><span class="lineno"> 1428</span>        phytomer-&gt;setVegetativeBudState(BUD_DEAD);</div>
-<div class="line"><a id="l01429" name="l01429"></a><span class="lineno"> 1429</span>        phytomer-&gt;setFloralBudState(BUD_DEAD);</div>
-<div class="line"><a id="l01430" name="l01430"></a><span class="lineno"> 1430</span>    }</div>
-<div class="line"><a id="l01431" name="l01431"></a><span class="lineno"> 1431</span> </div>
-<div class="line"><a id="l01432" name="l01432"></a><span class="lineno"> 1432</span>    uint Nscaffolds = 4;<span class="comment">//context_ptr-&gt;randu(4,5);</span></div>
-<div class="line"><a id="l01433" name="l01433"></a><span class="lineno"> 1433</span> </div>
-<div class="line"><a id="l01434" name="l01434"></a><span class="lineno"> 1434</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;Nscaffolds; i++ ) {</div>
-<div class="line"><a id="l01435" name="l01435"></a><span class="lineno"> 1435</span>        <span class="keywordtype">float</span> pitch = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(65), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(80));</div>
-<div class="line"><a id="l01436" name="l01436"></a><span class="lineno"> 1436</span>        uint uID_shoot = <a class="code hl_function" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">addChildShoot</a>( plantID, uID_trunk, getShootNodeCount(plantID,uID_trunk)-i-1, 1, make_AxisRotation(pitch, (<span class="keywordtype">float</span>(i) + context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(-0.2f, 0.2f)) / <span class="keywordtype">float</span>(Nscaffolds) * 2 * M_PI, 0), 0.007, 0.06, 1.f, 1.f, 0.5, <span class="stringliteral">&quot;proleptic&quot;</span>, 0);</div>
-<div class="line"><a id="l01437" name="l01437"></a><span class="lineno"> 1437</span> </div>
-<div class="line"><a id="l01438" name="l01438"></a><span class="lineno"> 1438</span>    }</div>
-<div class="line"><a id="l01439" name="l01439"></a><span class="lineno"> 1439</span> </div>
-<div class="line"><a id="l01440" name="l01440"></a><span class="lineno"> 1440</span>    makePlantDormant(plantID);</div>
-<div class="line"><a id="l01441" name="l01441"></a><span class="lineno"> 1441</span> </div>
-<div class="line"><a id="l01442" name="l01442"></a><span class="lineno"> 1442</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, -1, 4, 8, 20, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l01443" name="l01443"></a><span class="lineno"> 1443</span> </div>
-<div class="line"><a id="l01444" name="l01444"></a><span class="lineno"> 1444</span>    <span class="keywordflow">return</span> plantID;</div>
-<div class="line"><a id="l01445" name="l01445"></a><span class="lineno"> 1445</span> </div>
-<div class="line"><a id="l01446" name="l01446"></a><span class="lineno"> 1446</span>}</div>
-<div class="line"><a id="l01447" name="l01447"></a><span class="lineno"> 1447</span> </div>
-<div class="line"><a id="l01448" name="l01448"></a><span class="lineno"> 1448</span><span class="keywordtype">void</span> PlantArchitecture::initializePuncturevineShoots() {</div>
-<div class="line"><a id="l01449" name="l01449"></a><span class="lineno"> 1449</span> </div>
-<div class="line"><a id="l01450" name="l01450"></a><span class="lineno"> 1450</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
-<div class="line"><a id="l01451" name="l01451"></a><span class="lineno"> 1451</span> </div>
-<div class="line"><a id="l01452" name="l01452"></a><span class="lineno"> 1452</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_puncturevine(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01453" name="l01453"></a><span class="lineno"> 1453</span> </div>
-<div class="line"><a id="l01454" name="l01454"></a><span class="lineno"> 1454</span>    phytomer_parameters_puncturevine.internode.pitch.uniformDistribution(0,15);</div>
-<div class="line"><a id="l01455" name="l01455"></a><span class="lineno"> 1455</span>    phytomer_parameters_puncturevine.internode.phyllotactic_angle = 180.f;</div>
-<div class="line"><a id="l01456" name="l01456"></a><span class="lineno"> 1456</span>    phytomer_parameters_puncturevine.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.55, 0.52, 0.39);</div>
-<div class="line"><a id="l01457" name="l01457"></a><span class="lineno"> 1457</span>    phytomer_parameters_puncturevine.internode.length_segments = 1;</div>
-<div class="line"><a id="l01458" name="l01458"></a><span class="lineno"> 1458</span> </div>
-<div class="line"><a id="l01459" name="l01459"></a><span class="lineno"> 1459</span>    phytomer_parameters_puncturevine.petiole.petioles_per_internode = 1;</div>
-<div class="line"><a id="l01460" name="l01460"></a><span class="lineno"> 1460</span>    phytomer_parameters_puncturevine.petiole.pitch.uniformDistribution(80, 100);</div>
-<div class="line"><a id="l01461" name="l01461"></a><span class="lineno"> 1461</span>    phytomer_parameters_puncturevine.petiole.radius = 0.0003;</div>
-<div class="line"><a id="l01462" name="l01462"></a><span class="lineno"> 1462</span>    phytomer_parameters_puncturevine.petiole.length = 0.025;</div>
-<div class="line"><a id="l01463" name="l01463"></a><span class="lineno"> 1463</span>    phytomer_parameters_puncturevine.petiole.taper = 0;</div>
-<div class="line"><a id="l01464" name="l01464"></a><span class="lineno"> 1464</span>    phytomer_parameters_puncturevine.petiole.curvature = 0;</div>
-<div class="line"><a id="l01465" name="l01465"></a><span class="lineno"> 1465</span>    phytomer_parameters_puncturevine.petiole.color = phytomer_parameters_puncturevine.internode.color;</div>
-<div class="line"><a id="l01466" name="l01466"></a><span class="lineno"> 1466</span>    phytomer_parameters_puncturevine.petiole.length_segments = 1;</div>
-<div class="line"><a id="l01467" name="l01467"></a><span class="lineno"> 1467</span> </div>
-<div class="line"><a id="l01468" name="l01468"></a><span class="lineno"> 1468</span>    phytomer_parameters_puncturevine.leaf.leaves_per_petiole = 11;</div>
-<div class="line"><a id="l01469" name="l01469"></a><span class="lineno"> 1469</span>    phytomer_parameters_puncturevine.leaf.pitch.uniformDistribution(-10,10);</div>
-<div class="line"><a id="l01470" name="l01470"></a><span class="lineno"> 1470</span>    phytomer_parameters_puncturevine.leaf.yaw = 30;</div>
-<div class="line"><a id="l01471" name="l01471"></a><span class="lineno"> 1471</span>    phytomer_parameters_puncturevine.leaf.roll.uniformDistribution(-5,5);</div>
-<div class="line"><a id="l01472" name="l01472"></a><span class="lineno"> 1472</span>    phytomer_parameters_puncturevine.leaf.prototype_function = PuncturevineLeafPrototype;</div>
-<div class="line"><a id="l01473" name="l01473"></a><span class="lineno"> 1473</span>    phytomer_parameters_puncturevine.leaf.prototype_scale = 0.008;</div>
-<div class="line"><a id="l01474" name="l01474"></a><span class="lineno"> 1474</span>    phytomer_parameters_puncturevine.leaf.leaflet_offset = 0.15;</div>
-<div class="line"><a id="l01475" name="l01475"></a><span class="lineno"> 1475</span>    phytomer_parameters_puncturevine.leaf.leaflet_scale = 1;</div>
-<div class="line"><a id="l01476" name="l01476"></a><span class="lineno"> 1476</span>    phytomer_parameters_puncturevine.leaf.subdivisions = 3;</div>
-<div class="line"><a id="l01477" name="l01477"></a><span class="lineno"> 1477</span> </div>
-<div class="line"><a id="l01478" name="l01478"></a><span class="lineno"> 1478</span>    phytomer_parameters_puncturevine.peduncle.length = 0.001;</div>
-<div class="line"><a id="l01479" name="l01479"></a><span class="lineno"> 1479</span>    phytomer_parameters_puncturevine.inflorescence.flowers_per_peduncle = 1;</div>
-<div class="line"><a id="l01480" name="l01480"></a><span class="lineno"> 1480</span>    phytomer_parameters_puncturevine.inflorescence.pitch = -90.f;</div>
-<div class="line"><a id="l01481" name="l01481"></a><span class="lineno"> 1481</span>    phytomer_parameters_puncturevine.inflorescence.flower_prototype_function = PuncturevineFlowerPrototype;</div>
-<div class="line"><a id="l01482" name="l01482"></a><span class="lineno"> 1482</span>    phytomer_parameters_puncturevine.inflorescence.flower_prototype_scale = 0.006;</div>
-<div class="line"><a id="l01483" name="l01483"></a><span class="lineno"> 1483</span> </div>
-<div class="line"><a id="l01484" name="l01484"></a><span class="lineno"> 1484</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
-<div class="line"><a id="l01485" name="l01485"></a><span class="lineno"> 1485</span> </div>
-<div class="line"><a id="l01486" name="l01486"></a><span class="lineno"> 1486</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_primary(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01487" name="l01487"></a><span class="lineno"> 1487</span>    shoot_parameters_primary.phytomer_parameters = phytomer_parameters_puncturevine;</div>
-<div class="line"><a id="l01488" name="l01488"></a><span class="lineno"> 1488</span>    shoot_parameters_primary.vegetative_bud_break_probability = 0.3;</div>
-<div class="line"><a id="l01489" name="l01489"></a><span class="lineno"> 1489</span>    shoot_parameters_primary.vegetative_bud_break_time = 3;</div>
-<div class="line"><a id="l01490" name="l01490"></a><span class="lineno"> 1490</span>    shoot_parameters_primary.base_roll = 90;</div>
-<div class="line"><a id="l01491" name="l01491"></a><span class="lineno"> 1491</span>    shoot_parameters_primary.internode_radius_initial = 0.001;</div>
-<div class="line"><a id="l01492" name="l01492"></a><span class="lineno"> 1492</span>    shoot_parameters_primary.phyllochron = 1;</div>
-<div class="line"><a id="l01493" name="l01493"></a><span class="lineno"> 1493</span>    shoot_parameters_primary.elongation_rate = 0.2;</div>
-<div class="line"><a id="l01494" name="l01494"></a><span class="lineno"> 1494</span>    shoot_parameters_primary.girth_area_factor = 0.f;</div>
-<div class="line"><a id="l01495" name="l01495"></a><span class="lineno"> 1495</span>    shoot_parameters_primary.internode_length_max = 0.02;</div>
-<div class="line"><a id="l01496" name="l01496"></a><span class="lineno"> 1496</span>    shoot_parameters_primary.internode_length_decay_rate = 0;</div>
-<div class="line"><a id="l01497" name="l01497"></a><span class="lineno"> 1497</span>    shoot_parameters_primary.insertion_angle_tip.uniformDistribution(50, 80);</div>
-<div class="line"><a id="l01498" name="l01498"></a><span class="lineno"> 1498</span>    shoot_parameters_primary.flowers_require_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01499" name="l01499"></a><span class="lineno"> 1499</span>    shoot_parameters_primary.growth_requires_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01500" name="l01500"></a><span class="lineno"> 1500</span>    shoot_parameters_primary.flower_bud_break_probability = 0.2;</div>
-<div class="line"><a id="l01501" name="l01501"></a><span class="lineno"> 1501</span>    shoot_parameters_primary.determinate_shoot_growth = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01502" name="l01502"></a><span class="lineno"> 1502</span>    shoot_parameters_primary.max_nodes = 15;</div>
-<div class="line"><a id="l01503" name="l01503"></a><span class="lineno"> 1503</span>    shoot_parameters_primary.gravitropic_curvature = 20;</div>
-<div class="line"><a id="l01504" name="l01504"></a><span class="lineno"> 1504</span>    shoot_parameters_primary.tortuosity = 0;</div>
-<div class="line"><a id="l01505" name="l01505"></a><span class="lineno"> 1505</span>    shoot_parameters_primary.defineChildShootTypes({<span class="stringliteral">&quot;secondary_puncturevine&quot;</span>}, {1.f});</div>
-<div class="line"><a id="l01506" name="l01506"></a><span class="lineno"> 1506</span> </div>
-<div class="line"><a id="l01507" name="l01507"></a><span class="lineno"> 1507</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_base = shoot_parameters_primary;</div>
-<div class="line"><a id="l01508" name="l01508"></a><span class="lineno"> 1508</span>    shoot_parameters_base.phytomer_parameters = phytomer_parameters_puncturevine;</div>
-<div class="line"><a id="l01509" name="l01509"></a><span class="lineno"> 1509</span>    shoot_parameters_base.phytomer_parameters.internode.phyllotactic_angle.uniformDistribution(137.5-10,137.5+10);</div>
-<div class="line"><a id="l01510" name="l01510"></a><span class="lineno"> 1510</span>    shoot_parameters_base.phytomer_parameters.petiole.petioles_per_internode = 0;</div>
-<div class="line"><a id="l01511" name="l01511"></a><span class="lineno"> 1511</span>    shoot_parameters_base.phytomer_parameters.internode.pitch = 0;</div>
-<div class="line"><a id="l01512" name="l01512"></a><span class="lineno"> 1512</span>    shoot_parameters_base.phytomer_parameters.petiole.pitch = 0;</div>
-<div class="line"><a id="l01513" name="l01513"></a><span class="lineno"> 1513</span>    shoot_parameters_base.vegetative_bud_break_probability = 1;</div>
-<div class="line"><a id="l01514" name="l01514"></a><span class="lineno"> 1514</span>    shoot_parameters_base.vegetative_bud_break_time = 1;</div>
-<div class="line"><a id="l01515" name="l01515"></a><span class="lineno"> 1515</span>    shoot_parameters_base.internode_radius_initial = 0.001;</div>
-<div class="line"><a id="l01516" name="l01516"></a><span class="lineno"> 1516</span>    shoot_parameters_base.phyllochron = 1;</div>
-<div class="line"><a id="l01517" name="l01517"></a><span class="lineno"> 1517</span>    shoot_parameters_base.elongation_rate = 0.25;</div>
-<div class="line"><a id="l01518" name="l01518"></a><span class="lineno"> 1518</span>    shoot_parameters_base.gravitropic_curvature = 0;</div>
-<div class="line"><a id="l01519" name="l01519"></a><span class="lineno"> 1519</span>    shoot_parameters_base.internode_length_max = 0.01;</div>
-<div class="line"><a id="l01520" name="l01520"></a><span class="lineno"> 1520</span>    shoot_parameters_base.internode_length_decay_rate = 0;</div>
-<div class="line"><a id="l01521" name="l01521"></a><span class="lineno"> 1521</span>    shoot_parameters_base.insertion_angle_tip = 90;</div>
-<div class="line"><a id="l01522" name="l01522"></a><span class="lineno"> 1522</span>    shoot_parameters_base.insertion_angle_decay_rate = 0;</div>
-<div class="line"><a id="l01523" name="l01523"></a><span class="lineno"> 1523</span>    shoot_parameters_base.internode_radius_initial = 0.0005;</div>
-<div class="line"><a id="l01524" name="l01524"></a><span class="lineno"> 1524</span>    shoot_parameters_base.flowers_require_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01525" name="l01525"></a><span class="lineno"> 1525</span>    shoot_parameters_base.growth_requires_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01526" name="l01526"></a><span class="lineno"> 1526</span>    shoot_parameters_base.flower_bud_break_probability = 0.0;</div>
-<div class="line"><a id="l01527" name="l01527"></a><span class="lineno"> 1527</span>    shoot_parameters_base.max_nodes.uniformDistribution(3,5);</div>
-<div class="line"><a id="l01528" name="l01528"></a><span class="lineno"> 1528</span>    shoot_parameters_base.defineChildShootTypes({<span class="stringliteral">&quot;primary_puncturevine&quot;</span>},{1.f});</div>
-<div class="line"><a id="l01529" name="l01529"></a><span class="lineno"> 1529</span> </div>
-<div class="line"><a id="l01530" name="l01530"></a><span class="lineno"> 1530</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_children = shoot_parameters_primary;</div>
-<div class="line"><a id="l01531" name="l01531"></a><span class="lineno"> 1531</span>    shoot_parameters_children.base_roll = 0;</div>
-<div class="line"><a id="l01532" name="l01532"></a><span class="lineno"> 1532</span> </div>
-<div class="line"><a id="l01533" name="l01533"></a><span class="lineno"> 1533</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;base_puncturevine&quot;</span>, shoot_parameters_base);</div>
-<div class="line"><a id="l01534" name="l01534"></a><span class="lineno"> 1534</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;primary_puncturevine&quot;</span>, shoot_parameters_primary);</div>
-<div class="line"><a id="l01535" name="l01535"></a><span class="lineno"> 1535</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;secondary_puncturevine&quot;</span>, shoot_parameters_children);</div>
-<div class="line"><a id="l01536" name="l01536"></a><span class="lineno"> 1536</span> </div>
-<div class="line"><a id="l01537" name="l01537"></a><span class="lineno"> 1537</span>}</div>
-<div class="line"><a id="l01538" name="l01538"></a><span class="lineno"> 1538</span> </div>
-<div class="line"><a id="l01539" name="l01539"></a><span class="lineno"> 1539</span>uint PlantArchitecture::buildPuncturevinePlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
-<div class="line"><a id="l01540" name="l01540"></a><span class="lineno"> 1540</span> </div>
-<div class="line"><a id="l01541" name="l01541"></a><span class="lineno"> 1541</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
-<div class="line"><a id="l01542" name="l01542"></a><span class="lineno"> 1542</span>        <span class="comment">//automatically initialize puncturevine plant shoots</span></div>
-<div class="line"><a id="l01543" name="l01543"></a><span class="lineno"> 1543</span>        initializePuncturevineShoots();</div>
-<div class="line"><a id="l01544" name="l01544"></a><span class="lineno"> 1544</span>    }</div>
-<div class="line"><a id="l01545" name="l01545"></a><span class="lineno"> 1545</span> </div>
-<div class="line"><a id="l01546" name="l01546"></a><span class="lineno"> 1546</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
-<div class="line"><a id="l01547" name="l01547"></a><span class="lineno"> 1547</span> </div>
-<div class="line"><a id="l01548" name="l01548"></a><span class="lineno"> 1548</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 3, make_AxisRotation(0, 0.f, 0.f), 0.001, 0.001, 1, 1, 0, <span class="stringliteral">&quot;base_puncturevine&quot;</span>);</div>
-<div class="line"><a id="l01549" name="l01549"></a><span class="lineno"> 1549</span> </div>
-<div class="line"><a id="l01550" name="l01550"></a><span class="lineno"> 1550</span>    breakPlantDormancy(plantID);</div>
-<div class="line"><a id="l01551" name="l01551"></a><span class="lineno"> 1551</span> </div>
-<div class="line"><a id="l01552" name="l01552"></a><span class="lineno"> 1552</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, 7, 1000, 5, 100, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l01553" name="l01553"></a><span class="lineno"> 1553</span> </div>
-<div class="line"><a id="l01554" name="l01554"></a><span class="lineno"> 1554</span>    <span class="keywordflow">return</span> plantID;</div>
-<div class="line"><a id="l01555" name="l01555"></a><span class="lineno"> 1555</span> </div>
-<div class="line"><a id="l01556" name="l01556"></a><span class="lineno"> 1556</span>}</div>
-<div class="line"><a id="l01557" name="l01557"></a><span class="lineno"> 1557</span> </div>
-<div class="line"><a id="l01558" name="l01558"></a><span class="lineno"> 1558</span><span class="keywordtype">void</span> PlantArchitecture::initializeEasternRedbudShoots() {</div>
-<div class="line"><a id="l01559" name="l01559"></a><span class="lineno"> 1559</span> </div>
-<div class="line"><a id="l01560" name="l01560"></a><span class="lineno"> 1560</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
-<div class="line"><a id="l01561" name="l01561"></a><span class="lineno"> 1561</span> </div>
-<div class="line"><a id="l01562" name="l01562"></a><span class="lineno"> 1562</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_redbud(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01563" name="l01563"></a><span class="lineno"> 1563</span> </div>
-<div class="line"><a id="l01564" name="l01564"></a><span class="lineno"> 1564</span>    phytomer_parameters_redbud.internode.pitch = 15;</div>
-<div class="line"><a id="l01565" name="l01565"></a><span class="lineno"> 1565</span>    phytomer_parameters_redbud.internode.phyllotactic_angle.uniformDistribution(170,190);</div>
-<div class="line"><a id="l01566" name="l01566"></a><span class="lineno"> 1566</span><span class="comment">//    phytomer_parameters_redbud.internode.color = make_RGBcolor(0.55, 0.52, 0.39);</span></div>
-<div class="line"><a id="l01567" name="l01567"></a><span class="lineno"> 1567</span>    phytomer_parameters_redbud.internode.image_texture = <span class="stringliteral">&quot;plugins/plantarchitecture/assets/textures/WesternRedbudBark.jpg&quot;</span>;</div>
-<div class="line"><a id="l01568" name="l01568"></a><span class="lineno"> 1568</span>    phytomer_parameters_redbud.internode.color.scale(0.3);</div>
-<div class="line"><a id="l01569" name="l01569"></a><span class="lineno"> 1569</span>    phytomer_parameters_redbud.internode.length_segments = 1;</div>
-<div class="line"><a id="l01570" name="l01570"></a><span class="lineno"> 1570</span>    phytomer_parameters_redbud.internode.max_floral_buds_per_petiole = 5;</div>
-<div class="line"><a id="l01571" name="l01571"></a><span class="lineno"> 1571</span> </div>
-<div class="line"><a id="l01572" name="l01572"></a><span class="lineno"> 1572</span>    phytomer_parameters_redbud.petiole.petioles_per_internode = 1;</div>
-<div class="line"><a id="l01573" name="l01573"></a><span class="lineno"> 1573</span>    phytomer_parameters_redbud.petiole.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.65, 0.52, 0.39);</div>
-<div class="line"><a id="l01574" name="l01574"></a><span class="lineno"> 1574</span>    phytomer_parameters_redbud.petiole.pitch.uniformDistribution(20, 40);</div>
-<div class="line"><a id="l01575" name="l01575"></a><span class="lineno"> 1575</span>    phytomer_parameters_redbud.petiole.radius = 0.0017;</div>
-<div class="line"><a id="l01576" name="l01576"></a><span class="lineno"> 1576</span>    phytomer_parameters_redbud.petiole.length = 0.05;</div>
-<div class="line"><a id="l01577" name="l01577"></a><span class="lineno"> 1577</span>    phytomer_parameters_redbud.petiole.taper = 0;</div>
-<div class="line"><a id="l01578" name="l01578"></a><span class="lineno"> 1578</span>    phytomer_parameters_redbud.petiole.curvature = 0;</div>
-<div class="line"><a id="l01579" name="l01579"></a><span class="lineno"> 1579</span>    phytomer_parameters_redbud.petiole.length_segments = 1;</div>
-<div class="line"><a id="l01580" name="l01580"></a><span class="lineno"> 1580</span> </div>
-<div class="line"><a id="l01581" name="l01581"></a><span class="lineno"> 1581</span>    phytomer_parameters_redbud.leaf.leaves_per_petiole = 1;</div>
-<div class="line"><a id="l01582" name="l01582"></a><span class="lineno"> 1582</span>    phytomer_parameters_redbud.leaf.pitch.uniformDistribution(-110, -80);</div>
-<div class="line"><a id="l01583" name="l01583"></a><span class="lineno"> 1583</span>    phytomer_parameters_redbud.leaf.yaw = 0;</div>
-<div class="line"><a id="l01584" name="l01584"></a><span class="lineno"> 1584</span>    phytomer_parameters_redbud.leaf.roll.uniformDistribution(-5, 5);</div>
-<div class="line"><a id="l01585" name="l01585"></a><span class="lineno"> 1585</span>    phytomer_parameters_redbud.leaf.prototype_function = RedbudLeafPrototype;</div>
-<div class="line"><a id="l01586" name="l01586"></a><span class="lineno"> 1586</span>    phytomer_parameters_redbud.leaf.prototype_scale = 0.1;</div>
-<div class="line"><a id="l01587" name="l01587"></a><span class="lineno"> 1587</span>    phytomer_parameters_redbud.leaf.subdivisions = 5;</div>
-<div class="line"><a id="l01588" name="l01588"></a><span class="lineno"> 1588</span> </div>
-<div class="line"><a id="l01589" name="l01589"></a><span class="lineno"> 1589</span>    phytomer_parameters_redbud.peduncle.length = 0.02;</div>
-<div class="line"><a id="l01590" name="l01590"></a><span class="lineno"> 1590</span>    phytomer_parameters_redbud.peduncle.pitch.uniformDistribution(50,90);</div>
-<div class="line"><a id="l01591" name="l01591"></a><span class="lineno"> 1591</span>    phytomer_parameters_redbud.peduncle.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.32, 0.05, 0.13);</div>
-<div class="line"><a id="l01592" name="l01592"></a><span class="lineno"> 1592</span> </div>
-<div class="line"><a id="l01593" name="l01593"></a><span class="lineno"> 1593</span>    phytomer_parameters_redbud.inflorescence.flowers_per_peduncle = 1;</div>
-<div class="line"><a id="l01594" name="l01594"></a><span class="lineno"> 1594</span>    phytomer_parameters_redbud.inflorescence.pitch = 0;</div>
-<div class="line"><a id="l01595" name="l01595"></a><span class="lineno"> 1595</span>    phytomer_parameters_redbud.inflorescence.flower_prototype_function = RedbudFlowerPrototype;</div>
-<div class="line"><a id="l01596" name="l01596"></a><span class="lineno"> 1596</span>    phytomer_parameters_redbud.inflorescence.flower_prototype_scale = 0.04;</div>
-<div class="line"><a id="l01597" name="l01597"></a><span class="lineno"> 1597</span>    phytomer_parameters_redbud.inflorescence.fruit_prototype_function = RedbudFruitPrototype;</div>
-<div class="line"><a id="l01598" name="l01598"></a><span class="lineno"> 1598</span>    phytomer_parameters_redbud.inflorescence.fruit_prototype_scale = 0.1;</div>
-<div class="line"><a id="l01599" name="l01599"></a><span class="lineno"> 1599</span>    phytomer_parameters_redbud.inflorescence.fruit_gravity_factor_fraction = 0.7;</div>
-<div class="line"><a id="l01600" name="l01600"></a><span class="lineno"> 1600</span> </div>
-<div class="line"><a id="l01601" name="l01601"></a><span class="lineno"> 1601</span>    phytomer_parameters_redbud.phytomer_creation_function = RedbudPhytomerCreationFunction;</div>
-<div class="line"><a id="l01602" name="l01602"></a><span class="lineno"> 1602</span>    phytomer_parameters_redbud.phytomer_callback_function = RedbudPhytomerCallbackFunction;</div>
-<div class="line"><a id="l01603" name="l01603"></a><span class="lineno"> 1603</span> </div>
-<div class="line"><a id="l01604" name="l01604"></a><span class="lineno"> 1604</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
-<div class="line"><a id="l01605" name="l01605"></a><span class="lineno"> 1605</span> </div>
-<div class="line"><a id="l01606" name="l01606"></a><span class="lineno"> 1606</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_main(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01607" name="l01607"></a><span class="lineno"> 1607</span>    shoot_parameters_main.phytomer_parameters = phytomer_parameters_redbud;</div>
-<div class="line"><a id="l01608" name="l01608"></a><span class="lineno"> 1608</span>    shoot_parameters_main.vegetative_bud_break_probability = 1.0;</div>
-<div class="line"><a id="l01609" name="l01609"></a><span class="lineno"> 1609</span>    shoot_parameters_main.vegetative_bud_break_time = 1;</div>
-<div class="line"><a id="l01610" name="l01610"></a><span class="lineno"> 1610</span>    shoot_parameters_main.phyllochron = 1.5;</div>
-<div class="line"><a id="l01611" name="l01611"></a><span class="lineno"> 1611</span>    shoot_parameters_main.elongation_rate = 0.17;</div>
-<div class="line"><a id="l01612" name="l01612"></a><span class="lineno"> 1612</span>    shoot_parameters_main.girth_area_factor = 3.f;</div>
-<div class="line"><a id="l01613" name="l01613"></a><span class="lineno"> 1613</span>    shoot_parameters_main.gravitropic_curvature = 300;</div>
-<div class="line"><a id="l01614" name="l01614"></a><span class="lineno"> 1614</span>    shoot_parameters_main.tortuosity = 20;</div>
-<div class="line"><a id="l01615" name="l01615"></a><span class="lineno"> 1615</span>    shoot_parameters_main.internode_length_max = 0.04;</div>
-<div class="line"><a id="l01616" name="l01616"></a><span class="lineno"> 1616</span>    shoot_parameters_main.internode_length_decay_rate = 0.005;</div>
-<div class="line"><a id="l01617" name="l01617"></a><span class="lineno"> 1617</span>    shoot_parameters_main.insertion_angle_tip = 75;</div>
-<div class="line"><a id="l01618" name="l01618"></a><span class="lineno"> 1618</span>    shoot_parameters_main.insertion_angle_decay_rate = 10;</div>
-<div class="line"><a id="l01619" name="l01619"></a><span class="lineno"> 1619</span>    shoot_parameters_main.internode_radius_initial = 0.0015;</div>
-<div class="line"><a id="l01620" name="l01620"></a><span class="lineno"> 1620</span>    shoot_parameters_main.internode_radius_max = 0.02;</div>
-<div class="line"><a id="l01621" name="l01621"></a><span class="lineno"> 1621</span>    shoot_parameters_main.flowers_require_dormancy = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l01622" name="l01622"></a><span class="lineno"> 1622</span>    shoot_parameters_main.growth_requires_dormancy = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l01623" name="l01623"></a><span class="lineno"> 1623</span>    shoot_parameters_main.determinate_shoot_growth = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01624" name="l01624"></a><span class="lineno"> 1624</span>    shoot_parameters_main.max_terminal_floral_buds = 0;</div>
-<div class="line"><a id="l01625" name="l01625"></a><span class="lineno"> 1625</span>    shoot_parameters_main.flower_bud_break_probability = 0.8;</div>
-<div class="line"><a id="l01626" name="l01626"></a><span class="lineno"> 1626</span>    shoot_parameters_main.fruit_set_probability = 0.3;</div>
-<div class="line"><a id="l01627" name="l01627"></a><span class="lineno"> 1627</span>    shoot_parameters_main.max_nodes = 30;</div>
-<div class="line"><a id="l01628" name="l01628"></a><span class="lineno"> 1628</span>    shoot_parameters_main.base_roll = 90;</div>
-<div class="line"><a id="l01629" name="l01629"></a><span class="lineno"> 1629</span> </div>
-<div class="line"><a id="l01630" name="l01630"></a><span class="lineno"> 1630</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_trunk = shoot_parameters_main;</div>
-<div class="line"><a id="l01631" name="l01631"></a><span class="lineno"> 1631</span>    shoot_parameters_trunk.phytomer_parameters.internode.pitch = 0;</div>
-<div class="line"><a id="l01632" name="l01632"></a><span class="lineno"> 1632</span>    shoot_parameters_trunk.phytomer_parameters.internode.radial_subdivisions = 15;</div>
-<div class="line"><a id="l01633" name="l01633"></a><span class="lineno"> 1633</span>    shoot_parameters_trunk.phytomer_parameters.internode.max_floral_buds_per_petiole = 0;</div>
-<div class="line"><a id="l01634" name="l01634"></a><span class="lineno"> 1634</span>    shoot_parameters_trunk.internode_radius_max = 1;</div>
-<div class="line"><a id="l01635" name="l01635"></a><span class="lineno"> 1635</span>    shoot_parameters_trunk.phyllochron = 1.25;</div>
-<div class="line"><a id="l01636" name="l01636"></a><span class="lineno"> 1636</span>    shoot_parameters_trunk.insertion_angle_tip = 60;</div>
-<div class="line"><a id="l01637" name="l01637"></a><span class="lineno"> 1637</span>    shoot_parameters_trunk.max_nodes = 45;</div>
-<div class="line"><a id="l01638" name="l01638"></a><span class="lineno"> 1638</span>    shoot_parameters_trunk.tortuosity = 5;</div>
-<div class="line"><a id="l01639" name="l01639"></a><span class="lineno"> 1639</span>    shoot_parameters_trunk.defineChildShootTypes({<span class="stringliteral">&quot;eastern_redbud_shoot&quot;</span>},{1.f});</div>
-<div class="line"><a id="l01640" name="l01640"></a><span class="lineno"> 1640</span> </div>
-<div class="line"><a id="l01641" name="l01641"></a><span class="lineno"> 1641</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;eastern_redbud_trunk&quot;</span>, shoot_parameters_trunk);</div>
-<div class="line"><a id="l01642" name="l01642"></a><span class="lineno"> 1642</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;eastern_redbud_shoot&quot;</span>, shoot_parameters_main);</div>
-<div class="line"><a id="l01643" name="l01643"></a><span class="lineno"> 1643</span> </div>
-<div class="line"><a id="l01644" name="l01644"></a><span class="lineno"> 1644</span>}</div>
-<div class="line"><a id="l01645" name="l01645"></a><span class="lineno"> 1645</span> </div>
-<div class="line"><a id="l01646" name="l01646"></a><span class="lineno"> 1646</span>uint PlantArchitecture::buildEasternRedbudPlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
-<div class="line"><a id="l01647" name="l01647"></a><span class="lineno"> 1647</span> </div>
-<div class="line"><a id="l01648" name="l01648"></a><span class="lineno"> 1648</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
-<div class="line"><a id="l01649" name="l01649"></a><span class="lineno"> 1649</span>        <span class="comment">//automatically initialize redbud plant shoots</span></div>
-<div class="line"><a id="l01650" name="l01650"></a><span class="lineno"> 1650</span>        initializeEasternRedbudShoots();</div>
-<div class="line"><a id="l01651" name="l01651"></a><span class="lineno"> 1651</span>    }</div>
-<div class="line"><a id="l01652" name="l01652"></a><span class="lineno"> 1652</span> </div>
-<div class="line"><a id="l01653" name="l01653"></a><span class="lineno"> 1653</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
-<div class="line"><a id="l01654" name="l01654"></a><span class="lineno"> 1654</span> </div>
-<div class="line"><a id="l01655" name="l01655"></a><span class="lineno"> 1655</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 16, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0,0.1*M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0,2*M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0,2*M_PI)), 0.0075, 0.05, 1, 1, 0.4, <span class="stringliteral">&quot;eastern_redbud_trunk&quot;</span>);</div>
-<div class="line"><a id="l01656" name="l01656"></a><span class="lineno"> 1656</span> </div>
-<div class="line"><a id="l01657" name="l01657"></a><span class="lineno"> 1657</span>    makePlantDormant(plantID);</div>
-<div class="line"><a id="l01658" name="l01658"></a><span class="lineno"> 1658</span> </div>
-<div class="line"><a id="l01659" name="l01659"></a><span class="lineno"> 1659</span>    removeShootLeaves( plantID, uID_stem );</div>
-<div class="line"><a id="l01660" name="l01660"></a><span class="lineno"> 1660</span> </div>
-<div class="line"><a id="l01661" name="l01661"></a><span class="lineno"> 1661</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, 1, 3, 3, 12, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l01662" name="l01662"></a><span class="lineno"> 1662</span> </div>
-<div class="line"><a id="l01663" name="l01663"></a><span class="lineno"> 1663</span>    <span class="keywordflow">return</span> plantID;</div>
-<div class="line"><a id="l01664" name="l01664"></a><span class="lineno"> 1664</span> </div>
-<div class="line"><a id="l01665" name="l01665"></a><span class="lineno"> 1665</span>}</div>
-<div class="line"><a id="l01666" name="l01666"></a><span class="lineno"> 1666</span> </div>
-<div class="line"><a id="l01667" name="l01667"></a><span class="lineno"> 1667</span><span class="keywordtype">void</span> PlantArchitecture::initializeRomaineLettuceShoots() {</div>
-<div class="line"><a id="l01668" name="l01668"></a><span class="lineno"> 1668</span> </div>
-<div class="line"><a id="l01669" name="l01669"></a><span class="lineno"> 1669</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
-<div class="line"><a id="l01670" name="l01670"></a><span class="lineno"> 1670</span> </div>
-<div class="line"><a id="l01671" name="l01671"></a><span class="lineno"> 1671</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01672" name="l01672"></a><span class="lineno"> 1672</span> </div>
-<div class="line"><a id="l01673" name="l01673"></a><span class="lineno"> 1673</span>    phytomer_parameters.internode.pitch = 0;</div>
-<div class="line"><a id="l01674" name="l01674"></a><span class="lineno"> 1674</span>    phytomer_parameters.internode.phyllotactic_angle = 137.5;</div>
-<div class="line"><a id="l01675" name="l01675"></a><span class="lineno"> 1675</span>    phytomer_parameters.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.402,0.423,0.413);</div>
-<div class="line"><a id="l01676" name="l01676"></a><span class="lineno"> 1676</span>    phytomer_parameters.internode.length_segments = 1;</div>
-<div class="line"><a id="l01677" name="l01677"></a><span class="lineno"> 1677</span>    phytomer_parameters.internode.radial_subdivisions = 10;</div>
-<div class="line"><a id="l01678" name="l01678"></a><span class="lineno"> 1678</span> </div>
-<div class="line"><a id="l01679" name="l01679"></a><span class="lineno"> 1679</span>    phytomer_parameters.petiole.petioles_per_internode = 1;</div>
-<div class="line"><a id="l01680" name="l01680"></a><span class="lineno"> 1680</span>    phytomer_parameters.petiole.pitch.uniformDistribution(0,30);</div>
-<div class="line"><a id="l01681" name="l01681"></a><span class="lineno"> 1681</span>    phytomer_parameters.petiole.radius = 0.001;</div>
-<div class="line"><a id="l01682" name="l01682"></a><span class="lineno"> 1682</span>    phytomer_parameters.petiole.length = 0.001;</div>
-<div class="line"><a id="l01683" name="l01683"></a><span class="lineno"> 1683</span>    phytomer_parameters.petiole.length_segments = 1;</div>
-<div class="line"><a id="l01684" name="l01684"></a><span class="lineno"> 1684</span>    phytomer_parameters.petiole.radial_subdivisions = 3;</div>
-<div class="line"><a id="l01685" name="l01685"></a><span class="lineno"> 1685</span>    phytomer_parameters.petiole.color = RGB::red;</div>
-<div class="line"><a id="l01686" name="l01686"></a><span class="lineno"> 1686</span> </div>
-<div class="line"><a id="l01687" name="l01687"></a><span class="lineno"> 1687</span>    phytomer_parameters.leaf.leaves_per_petiole = 1;</div>
-<div class="line"><a id="l01688" name="l01688"></a><span class="lineno"> 1688</span>    phytomer_parameters.leaf.pitch = 0;</div>
-<div class="line"><a id="l01689" name="l01689"></a><span class="lineno"> 1689</span>    phytomer_parameters.leaf.yaw = 0;</div>
-<div class="line"><a id="l01690" name="l01690"></a><span class="lineno"> 1690</span>    phytomer_parameters.leaf.roll = 0;</div>
-<div class="line"><a id="l01691" name="l01691"></a><span class="lineno"> 1691</span>    phytomer_parameters.leaf.prototype_function = RomaineLettuceLeafPrototype;</div>
-<div class="line"><a id="l01692" name="l01692"></a><span class="lineno"> 1692</span>    phytomer_parameters.leaf.prototype_scale.uniformDistribution(0.15,0.25);</div>
-<div class="line"><a id="l01693" name="l01693"></a><span class="lineno"> 1693</span>    phytomer_parameters.leaf.subdivisions = 30;</div>
-<div class="line"><a id="l01694" name="l01694"></a><span class="lineno"> 1694</span> </div>
-<div class="line"><a id="l01695" name="l01695"></a><span class="lineno"> 1695</span>    phytomer_parameters.phytomer_creation_function = RomaineLettucePhytomerCreationFunction;</div>
-<div class="line"><a id="l01696" name="l01696"></a><span class="lineno"> 1696</span> </div>
-<div class="line"><a id="l01697" name="l01697"></a><span class="lineno"> 1697</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
-<div class="line"><a id="l01698" name="l01698"></a><span class="lineno"> 1698</span> </div>
-<div class="line"><a id="l01699" name="l01699"></a><span class="lineno"> 1699</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_mainstem(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01700" name="l01700"></a><span class="lineno"> 1700</span>    shoot_parameters_mainstem.phytomer_parameters = phytomer_parameters;</div>
-<div class="line"><a id="l01701" name="l01701"></a><span class="lineno"> 1701</span>    shoot_parameters_mainstem.vegetative_bud_break_probability = 0;</div>
-<div class="line"><a id="l01702" name="l01702"></a><span class="lineno"> 1702</span>    shoot_parameters_mainstem.internode_radius_initial = 0.01;</div>
-<div class="line"><a id="l01703" name="l01703"></a><span class="lineno"> 1703</span>    shoot_parameters_mainstem.phyllochron = 1;</div>
-<div class="line"><a id="l01704" name="l01704"></a><span class="lineno"> 1704</span>    shoot_parameters_mainstem.elongation_rate = 0.15;</div>
-<div class="line"><a id="l01705" name="l01705"></a><span class="lineno"> 1705</span>    shoot_parameters_mainstem.girth_area_factor = 0.f;</div>
-<div class="line"><a id="l01706" name="l01706"></a><span class="lineno"> 1706</span>    shoot_parameters_mainstem.gravitropic_curvature = 10;</div>
-<div class="line"><a id="l01707" name="l01707"></a><span class="lineno"> 1707</span>    shoot_parameters_mainstem.internode_length_max = 0.001;</div>
-<div class="line"><a id="l01708" name="l01708"></a><span class="lineno"> 1708</span>    shoot_parameters_mainstem.internode_length_decay_rate = 0;</div>
-<div class="line"><a id="l01709" name="l01709"></a><span class="lineno"> 1709</span>    shoot_parameters_mainstem.flowers_require_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01710" name="l01710"></a><span class="lineno"> 1710</span>    shoot_parameters_mainstem.growth_requires_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01711" name="l01711"></a><span class="lineno"> 1711</span>    shoot_parameters_mainstem.flower_bud_break_probability = 0.0;</div>
-<div class="line"><a id="l01712" name="l01712"></a><span class="lineno"> 1712</span>    shoot_parameters_mainstem.max_nodes = 25;</div>
-<div class="line"><a id="l01713" name="l01713"></a><span class="lineno"> 1713</span> </div>
-<div class="line"><a id="l01714" name="l01714"></a><span class="lineno"> 1714</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;mainstem&quot;</span>,shoot_parameters_mainstem);</div>
-<div class="line"><a id="l01715" name="l01715"></a><span class="lineno"> 1715</span> </div>
+<div class="line"><a id="l01120" name="l01120"></a><span class="lineno"> 1120</span>    shoot_parameters_cane.gravitropic_curvature.uniformDistribution(-20,20);</div>
+<div class="line"><a id="l01121" name="l01121"></a><span class="lineno"> 1121</span>    shoot_parameters_cane.tortuosity = 1;</div>
+<div class="line"><a id="l01122" name="l01122"></a><span class="lineno"> 1122</span>    shoot_parameters_cane.gravitropic_curvature = 10;</div>
+<div class="line"><a id="l01123" name="l01123"></a><span class="lineno"> 1123</span>    shoot_parameters_cane.vegetative_bud_break_probability = 1.0;</div>
+<div class="line"><a id="l01124" name="l01124"></a><span class="lineno"> 1124</span>    shoot_parameters_cane.defineChildShootTypes({<span class="stringliteral">&quot;grapevine_shoot&quot;</span>},{1.f});</div>
+<div class="line"><a id="l01125" name="l01125"></a><span class="lineno"> 1125</span> </div>
+<div class="line"><a id="l01126" name="l01126"></a><span class="lineno"> 1126</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_trunk = shoot_parameters_main;</div>
+<div class="line"><a id="l01127" name="l01127"></a><span class="lineno"> 1127</span>    shoot_parameters_trunk.phytomer_parameters.internode.image_texture = <span class="stringliteral">&quot;plugins/plantarchitecture/assets/textures/GrapeBark.jpg&quot;</span>;</div>
+<div class="line"><a id="l01128" name="l01128"></a><span class="lineno"> 1128</span>    shoot_parameters_trunk.phytomer_parameters.internode.pitch = 0;</div>
+<div class="line"><a id="l01129" name="l01129"></a><span class="lineno"> 1129</span>    shoot_parameters_trunk.phytomer_parameters.internode.phyllotactic_angle = 0;</div>
+<div class="line"><a id="l01130" name="l01130"></a><span class="lineno"> 1130</span>    shoot_parameters_trunk.phytomer_parameters.internode.radial_subdivisions = 25;</div>
+<div class="line"><a id="l01131" name="l01131"></a><span class="lineno"> 1131</span>    shoot_parameters_trunk.phytomer_parameters.internode.max_floral_buds_per_petiole = 0;</div>
+<div class="line"><a id="l01132" name="l01132"></a><span class="lineno"> 1132</span>    shoot_parameters_trunk.internode_radius_max = 1;</div>
+<div class="line"><a id="l01133" name="l01133"></a><span class="lineno"> 1133</span>    shoot_parameters_trunk.phyllochron = 1.25;</div>
+<div class="line"><a id="l01134" name="l01134"></a><span class="lineno"> 1134</span>    shoot_parameters_trunk.insertion_angle_tip = 90;</div>
+<div class="line"><a id="l01135" name="l01135"></a><span class="lineno"> 1135</span>    shoot_parameters_trunk.max_nodes = 18;</div>
+<div class="line"><a id="l01136" name="l01136"></a><span class="lineno"> 1136</span>    shoot_parameters_trunk.tortuosity = 0;</div>
+<div class="line"><a id="l01137" name="l01137"></a><span class="lineno"> 1137</span>    shoot_parameters_trunk.vegetative_bud_break_probability = 0;</div>
+<div class="line"><a id="l01138" name="l01138"></a><span class="lineno"> 1138</span>    shoot_parameters_trunk.defineChildShootTypes({<span class="stringliteral">&quot;grapevine_shoot&quot;</span>},{1.f});</div>
+<div class="line"><a id="l01139" name="l01139"></a><span class="lineno"> 1139</span> </div>
+<div class="line"><a id="l01140" name="l01140"></a><span class="lineno"> 1140</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;grapevine_trunk&quot;</span>, shoot_parameters_trunk);</div>
+<div class="line"><a id="l01141" name="l01141"></a><span class="lineno"> 1141</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;grapevine_cane&quot;</span>, shoot_parameters_cane);</div>
+<div class="line"><a id="l01142" name="l01142"></a><span class="lineno"> 1142</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;grapevine_shoot&quot;</span>, shoot_parameters_main);</div>
+<div class="line"><a id="l01143" name="l01143"></a><span class="lineno"> 1143</span> </div>
+<div class="line"><a id="l01144" name="l01144"></a><span class="lineno"> 1144</span>}</div>
+<div class="line"><a id="l01145" name="l01145"></a><span class="lineno"> 1145</span> </div>
+<div class="line"><a id="l01146" name="l01146"></a><span class="lineno"> 1146</span>uint PlantArchitecture::buildGrapevineVSP(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
+<div class="line"><a id="l01147" name="l01147"></a><span class="lineno"> 1147</span> </div>
+<div class="line"><a id="l01148" name="l01148"></a><span class="lineno"> 1148</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
+<div class="line"><a id="l01149" name="l01149"></a><span class="lineno"> 1149</span>        <span class="comment">//automatically initialize redbud plant shoots</span></div>
+<div class="line"><a id="l01150" name="l01150"></a><span class="lineno"> 1150</span>        initializeGrapevineVSPShoots();</div>
+<div class="line"><a id="l01151" name="l01151"></a><span class="lineno"> 1151</span>    }</div>
+<div class="line"><a id="l01152" name="l01152"></a><span class="lineno"> 1152</span> </div>
+<div class="line"><a id="l01153" name="l01153"></a><span class="lineno"> 1153</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
+<div class="line"><a id="l01154" name="l01154"></a><span class="lineno"> 1154</span> </div>
+<div class="line"><a id="l01155" name="l01155"></a><span class="lineno"> 1155</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 17, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0,0.05*M_PI), 0, 0), 0.04, 0.05, 1, 1, 0.1, <span class="stringliteral">&quot;grapevine_trunk&quot;</span>);</div>
+<div class="line"><a id="l01156" name="l01156"></a><span class="lineno"> 1156</span>    <span class="comment">//appendPhytomerToShoot( plantID, uID_stem, getCurrentShootParameters(&quot;grapevine_trunk&quot;).phytomer_parameters, 1e-3, 0.1, 1, 1 );</span></div>
+<div class="line"><a id="l01157" name="l01157"></a><span class="lineno"> 1157</span> </div>
+<div class="line"><a id="l01158" name="l01158"></a><span class="lineno"> 1158</span>    uint uID_cane_L = <a class="code hl_function" href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55">appendShoot</a>( plantID, uID_stem, 8, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(<span class="keywordtype">float</span>(0.45f*M_PI),0.52f*M_PI),0,M_PI), 0.005, 0.15, 1, 1, 0.5, <span class="stringliteral">&quot;grapevine_cane&quot;</span> );</div>
+<div class="line"><a id="l01159" name="l01159"></a><span class="lineno"> 1159</span>    uint uID_cane_R = <a class="code hl_function" href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55">appendShoot</a>( plantID, uID_stem, 8, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(<span class="keywordtype">float</span>(0.45f*M_PI),0.52f*M_PI),M_PI,M_PI), 0.005, 0.15, 1, 1, 0.5, <span class="stringliteral">&quot;grapevine_cane&quot;</span> );</div>
+<div class="line"><a id="l01160" name="l01160"></a><span class="lineno"> 1160</span> </div>
+<div class="line"><a id="l01161" name="l01161"></a><span class="lineno"> 1161</span><span class="comment">//    makePlantDormant(plantID);</span></div>
+<div class="line"><a id="l01162" name="l01162"></a><span class="lineno"> 1162</span> </div>
+<div class="line"><a id="l01163" name="l01163"></a><span class="lineno"> 1163</span>    removeShootLeaves( plantID, uID_stem );</div>
+<div class="line"><a id="l01164" name="l01164"></a><span class="lineno"> 1164</span>    removeShootLeaves( plantID, uID_cane_L );</div>
+<div class="line"><a id="l01165" name="l01165"></a><span class="lineno"> 1165</span>    removeShootLeaves( plantID, uID_cane_R );</div>
+<div class="line"><a id="l01166" name="l01166"></a><span class="lineno"> 1166</span> </div>
+<div class="line"><a id="l01167" name="l01167"></a><span class="lineno"> 1167</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, -1, 5, 8, 25, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l01168" name="l01168"></a><span class="lineno"> 1168</span> </div>
+<div class="line"><a id="l01169" name="l01169"></a><span class="lineno"> 1169</span>    <span class="keywordflow">return</span> plantID;</div>
+<div class="line"><a id="l01170" name="l01170"></a><span class="lineno"> 1170</span> </div>
+<div class="line"><a id="l01171" name="l01171"></a><span class="lineno"> 1171</span>}</div>
+<div class="line"><a id="l01172" name="l01172"></a><span class="lineno"> 1172</span> </div>
+<div class="line"><a id="l01173" name="l01173"></a><span class="lineno"> 1173</span><span class="keywordtype">void</span> PlantArchitecture::initializeOliveTreeShoots(){</div>
+<div class="line"><a id="l01174" name="l01174"></a><span class="lineno"> 1174</span> </div>
+<div class="line"><a id="l01175" name="l01175"></a><span class="lineno"> 1175</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
+<div class="line"><a id="l01176" name="l01176"></a><span class="lineno"> 1176</span> </div>
+<div class="line"><a id="l01177" name="l01177"></a><span class="lineno"> 1177</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_olive(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01178" name="l01178"></a><span class="lineno"> 1178</span> </div>
+<div class="line"><a id="l01179" name="l01179"></a><span class="lineno"> 1179</span>    phytomer_parameters_olive.internode.pitch = 0;</div>
+<div class="line"><a id="l01180" name="l01180"></a><span class="lineno"> 1180</span>    phytomer_parameters_olive.internode.phyllotactic_angle.uniformDistribution(80, 100 );</div>
+<div class="line"><a id="l01181" name="l01181"></a><span class="lineno"> 1181</span>    phytomer_parameters_olive.internode.length_segments = 1;</div>
+<div class="line"><a id="l01182" name="l01182"></a><span class="lineno"> 1182</span>    phytomer_parameters_olive.internode.image_texture = <span class="stringliteral">&quot;plugins/plantarchitecture/assets/textures/OliveBark.jpg&quot;</span>;</div>
+<div class="line"><a id="l01183" name="l01183"></a><span class="lineno"> 1183</span>    phytomer_parameters_olive.internode.max_floral_buds_per_petiole = 3;</div>
+<div class="line"><a id="l01184" name="l01184"></a><span class="lineno"> 1184</span> </div>
+<div class="line"><a id="l01185" name="l01185"></a><span class="lineno"> 1185</span>    phytomer_parameters_olive.petiole.petioles_per_internode = 2;</div>
+<div class="line"><a id="l01186" name="l01186"></a><span class="lineno"> 1186</span>    phytomer_parameters_olive.petiole.pitch.uniformDistribution(-40,-20);</div>
+<div class="line"><a id="l01187" name="l01187"></a><span class="lineno"> 1187</span>    phytomer_parameters_olive.petiole.taper = 0.1;</div>
+<div class="line"><a id="l01188" name="l01188"></a><span class="lineno"> 1188</span>    phytomer_parameters_olive.petiole.curvature = 0;</div>
+<div class="line"><a id="l01189" name="l01189"></a><span class="lineno"> 1189</span>    phytomer_parameters_olive.petiole.length = 0.01;</div>
+<div class="line"><a id="l01190" name="l01190"></a><span class="lineno"> 1190</span>    phytomer_parameters_olive.petiole.radius = 0.0005;</div>
+<div class="line"><a id="l01191" name="l01191"></a><span class="lineno"> 1191</span>    phytomer_parameters_olive.petiole.length_segments = 1;</div>
+<div class="line"><a id="l01192" name="l01192"></a><span class="lineno"> 1192</span>    phytomer_parameters_olive.petiole.radial_subdivisions = 3;</div>
+<div class="line"><a id="l01193" name="l01193"></a><span class="lineno"> 1193</span>    phytomer_parameters_olive.petiole.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.61, 0.5, 0.24);</div>
+<div class="line"><a id="l01194" name="l01194"></a><span class="lineno"> 1194</span> </div>
+<div class="line"><a id="l01195" name="l01195"></a><span class="lineno"> 1195</span>    phytomer_parameters_olive.leaf.leaves_per_petiole = 1;</div>
+<div class="line"><a id="l01196" name="l01196"></a><span class="lineno"> 1196</span>    phytomer_parameters_olive.leaf.prototype_function = OliveLeafPrototype;</div>
+<div class="line"><a id="l01197" name="l01197"></a><span class="lineno"> 1197</span>    phytomer_parameters_olive.leaf.prototype_scale = 0.07;</div>
+<div class="line"><a id="l01198" name="l01198"></a><span class="lineno"> 1198</span>    phytomer_parameters_olive.leaf.unique_prototypes = 1;</div>
+<div class="line"><a id="l01199" name="l01199"></a><span class="lineno"> 1199</span>    phytomer_parameters_olive.leaf.subdivisions = 1;</div>
+<div class="line"><a id="l01200" name="l01200"></a><span class="lineno"> 1200</span> </div>
+<div class="line"><a id="l01201" name="l01201"></a><span class="lineno"> 1201</span>    phytomer_parameters_olive.peduncle.length = 0.065;</div>
+<div class="line"><a id="l01202" name="l01202"></a><span class="lineno"> 1202</span>    phytomer_parameters_olive.peduncle.radius = 0.001;</div>
+<div class="line"><a id="l01203" name="l01203"></a><span class="lineno"> 1203</span>    phytomer_parameters_olive.peduncle.pitch = 60;</div>
+<div class="line"><a id="l01204" name="l01204"></a><span class="lineno"> 1204</span>    phytomer_parameters_olive.peduncle.roll = 0;</div>
+<div class="line"><a id="l01205" name="l01205"></a><span class="lineno"> 1205</span>    phytomer_parameters_olive.peduncle.length_segments = 1;</div>
+<div class="line"><a id="l01206" name="l01206"></a><span class="lineno"> 1206</span>    phytomer_parameters_olive.peduncle.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.7, 0.72, 0.7);</div>
+<div class="line"><a id="l01207" name="l01207"></a><span class="lineno"> 1207</span> </div>
+<div class="line"><a id="l01208" name="l01208"></a><span class="lineno"> 1208</span>    phytomer_parameters_olive.inflorescence.flowers_per_peduncle = 10;</div>
+<div class="line"><a id="l01209" name="l01209"></a><span class="lineno"> 1209</span>    phytomer_parameters_olive.inflorescence.flower_offset = 0.13;</div>
+<div class="line"><a id="l01210" name="l01210"></a><span class="lineno"> 1210</span>    phytomer_parameters_olive.inflorescence.pitch.uniformDistribution(80,100);</div>
+<div class="line"><a id="l01211" name="l01211"></a><span class="lineno"> 1211</span>    phytomer_parameters_olive.inflorescence.roll.uniformDistribution(0,360);</div>
+<div class="line"><a id="l01212" name="l01212"></a><span class="lineno"> 1212</span>    phytomer_parameters_olive.inflorescence.flower_prototype_scale = 0.01;</div>
+<div class="line"><a id="l01213" name="l01213"></a><span class="lineno"> 1213</span><span class="comment">//    phytomer_parameters_olive.inflorescence.flower_prototype_function = OliveFlowerPrototype;</span></div>
+<div class="line"><a id="l01214" name="l01214"></a><span class="lineno"> 1214</span>    phytomer_parameters_olive.inflorescence.fruit_prototype_scale = 0.025;</div>
+<div class="line"><a id="l01215" name="l01215"></a><span class="lineno"> 1215</span>    phytomer_parameters_olive.inflorescence.fruit_prototype_function = OliveFruitPrototype;</div>
+<div class="line"><a id="l01216" name="l01216"></a><span class="lineno"> 1216</span> </div>
+<div class="line"><a id="l01217" name="l01217"></a><span class="lineno"> 1217</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
+<div class="line"><a id="l01218" name="l01218"></a><span class="lineno"> 1218</span> </div>
+<div class="line"><a id="l01219" name="l01219"></a><span class="lineno"> 1219</span>    <span class="comment">// Trunk</span></div>
+<div class="line"><a id="l01220" name="l01220"></a><span class="lineno"> 1220</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_trunk(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01221" name="l01221"></a><span class="lineno"> 1221</span>    shoot_parameters_trunk.phytomer_parameters = phytomer_parameters_olive;</div>
+<div class="line"><a id="l01222" name="l01222"></a><span class="lineno"> 1222</span>    shoot_parameters_trunk.phytomer_parameters.internode.phyllotactic_angle = 0;</div>
+<div class="line"><a id="l01223" name="l01223"></a><span class="lineno"> 1223</span>    shoot_parameters_trunk.phytomer_parameters.internode.radial_subdivisions = 20;</div>
+<div class="line"><a id="l01224" name="l01224"></a><span class="lineno"> 1224</span>    shoot_parameters_trunk.max_nodes = 20;</div>
+<div class="line"><a id="l01225" name="l01225"></a><span class="lineno"> 1225</span>    shoot_parameters_trunk.girth_area_factor = 3.f;</div>
+<div class="line"><a id="l01226" name="l01226"></a><span class="lineno"> 1226</span>    shoot_parameters_trunk.internode_radius_initial = 0.01;</div>
+<div class="line"><a id="l01227" name="l01227"></a><span class="lineno"> 1227</span>    shoot_parameters_trunk.vegetative_bud_break_probability = 0;</div>
+<div class="line"><a id="l01228" name="l01228"></a><span class="lineno"> 1228</span>    shoot_parameters_trunk.vegetative_bud_break_time = 0;</div>
+<div class="line"><a id="l01229" name="l01229"></a><span class="lineno"> 1229</span>    shoot_parameters_trunk.tortuosity = 1;</div>
+<div class="line"><a id="l01230" name="l01230"></a><span class="lineno"> 1230</span>    shoot_parameters_trunk.internode_length_max = 0.05;</div>
+<div class="line"><a id="l01231" name="l01231"></a><span class="lineno"> 1231</span>    shoot_parameters_trunk.internode_length_decay_rate = 0;</div>
+<div class="line"><a id="l01232" name="l01232"></a><span class="lineno"> 1232</span>    shoot_parameters_trunk.defineChildShootTypes({<span class="stringliteral">&quot;scaffold&quot;</span>},{1});</div>
+<div class="line"><a id="l01233" name="l01233"></a><span class="lineno"> 1233</span> </div>
+<div class="line"><a id="l01234" name="l01234"></a><span class="lineno"> 1234</span>    <span class="comment">// Proleptic shoots</span></div>
+<div class="line"><a id="l01235" name="l01235"></a><span class="lineno"> 1235</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_proleptic(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01236" name="l01236"></a><span class="lineno"> 1236</span>    shoot_parameters_proleptic.phytomer_parameters = phytomer_parameters_olive;</div>
+<div class="line"><a id="l01237" name="l01237"></a><span class="lineno"> 1237</span><span class="comment">//    shoot_parameters_proleptic.phytomer_parameters.phytomer_creation_function = OlivePhytomerCreationFunction;</span></div>
+<div class="line"><a id="l01238" name="l01238"></a><span class="lineno"> 1238</span>    shoot_parameters_proleptic.phytomer_parameters.phytomer_callback_function = OlivePhytomerCallbackFunction;</div>
+<div class="line"><a id="l01239" name="l01239"></a><span class="lineno"> 1239</span>    shoot_parameters_proleptic.max_nodes = 20;</div>
+<div class="line"><a id="l01240" name="l01240"></a><span class="lineno"> 1240</span>    shoot_parameters_proleptic.phyllochron = 1.0;</div>
+<div class="line"><a id="l01241" name="l01241"></a><span class="lineno"> 1241</span>    shoot_parameters_proleptic.elongation_rate = 0.25;</div>
+<div class="line"><a id="l01242" name="l01242"></a><span class="lineno"> 1242</span>    shoot_parameters_proleptic.girth_area_factor = 5.f;</div>
+<div class="line"><a id="l01243" name="l01243"></a><span class="lineno"> 1243</span>    shoot_parameters_proleptic.vegetative_bud_break_probability = 0.15;</div>
+<div class="line"><a id="l01244" name="l01244"></a><span class="lineno"> 1244</span>    shoot_parameters_proleptic.vegetative_bud_break_time = 0;</div>
+<div class="line"><a id="l01245" name="l01245"></a><span class="lineno"> 1245</span>    shoot_parameters_proleptic.leaf_flush_count = 1;</div>
+<div class="line"><a id="l01246" name="l01246"></a><span class="lineno"> 1246</span>    shoot_parameters_proleptic.gravitropic_curvature = 450;</div>
+<div class="line"><a id="l01247" name="l01247"></a><span class="lineno"> 1247</span>    shoot_parameters_proleptic.tortuosity = 6;</div>
+<div class="line"><a id="l01248" name="l01248"></a><span class="lineno"> 1248</span>    shoot_parameters_proleptic.internode_radius_initial = 0.002;</div>
+<div class="line"><a id="l01249" name="l01249"></a><span class="lineno"> 1249</span>    shoot_parameters_proleptic.insertion_angle_tip.uniformDistribution( 15, 25);</div>
+<div class="line"><a id="l01250" name="l01250"></a><span class="lineno"> 1250</span>    shoot_parameters_proleptic.insertion_angle_decay_rate = 2;</div>
+<div class="line"><a id="l01251" name="l01251"></a><span class="lineno"> 1251</span>    shoot_parameters_proleptic.internode_length_max = 0.05;</div>
+<div class="line"><a id="l01252" name="l01252"></a><span class="lineno"> 1252</span>    shoot_parameters_proleptic.internode_length_min = 0.03;</div>
+<div class="line"><a id="l01253" name="l01253"></a><span class="lineno"> 1253</span>    shoot_parameters_proleptic.internode_length_decay_rate = 0.004;</div>
+<div class="line"><a id="l01254" name="l01254"></a><span class="lineno"> 1254</span>    shoot_parameters_proleptic.fruit_set_probability = 0.25;</div>
+<div class="line"><a id="l01255" name="l01255"></a><span class="lineno"> 1255</span>    shoot_parameters_proleptic.flower_bud_break_probability = 0.25;</div>
+<div class="line"><a id="l01256" name="l01256"></a><span class="lineno"> 1256</span>    shoot_parameters_proleptic.max_terminal_floral_buds = 4;</div>
+<div class="line"><a id="l01257" name="l01257"></a><span class="lineno"> 1257</span>    shoot_parameters_proleptic.flowers_require_dormancy = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l01258" name="l01258"></a><span class="lineno"> 1258</span>    shoot_parameters_proleptic.growth_requires_dormancy = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l01259" name="l01259"></a><span class="lineno"> 1259</span>    shoot_parameters_proleptic.determinate_shoot_growth = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01260" name="l01260"></a><span class="lineno"> 1260</span>    shoot_parameters_proleptic.defineChildShootTypes({<span class="stringliteral">&quot;proleptic&quot;</span>},{1.0});</div>
+<div class="line"><a id="l01261" name="l01261"></a><span class="lineno"> 1261</span> </div>
+<div class="line"><a id="l01262" name="l01262"></a><span class="lineno"> 1262</span>    <span class="comment">// Main scaffolds</span></div>
+<div class="line"><a id="l01263" name="l01263"></a><span class="lineno"> 1263</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_scaffold = shoot_parameters_proleptic;</div>
+<div class="line"><a id="l01264" name="l01264"></a><span class="lineno"> 1264</span>    shoot_parameters_scaffold.phytomer_parameters.internode.radial_subdivisions = 10;</div>
+<div class="line"><a id="l01265" name="l01265"></a><span class="lineno"> 1265</span>    shoot_parameters_scaffold.max_nodes = 12;</div>
+<div class="line"><a id="l01266" name="l01266"></a><span class="lineno"> 1266</span>    shoot_parameters_scaffold.gravitropic_curvature = 700;</div>
+<div class="line"><a id="l01267" name="l01267"></a><span class="lineno"> 1267</span>    shoot_parameters_scaffold.internode_length_max = 0.04;</div>
+<div class="line"><a id="l01268" name="l01268"></a><span class="lineno"> 1268</span>    shoot_parameters_scaffold.tortuosity = 3;</div>
+<div class="line"><a id="l01269" name="l01269"></a><span class="lineno"> 1269</span>    shoot_parameters_scaffold.defineChildShootTypes({<span class="stringliteral">&quot;proleptic&quot;</span>},{1.0});</div>
+<div class="line"><a id="l01270" name="l01270"></a><span class="lineno"> 1270</span> </div>
+<div class="line"><a id="l01271" name="l01271"></a><span class="lineno"> 1271</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;trunk&quot;</span>, shoot_parameters_trunk);</div>
+<div class="line"><a id="l01272" name="l01272"></a><span class="lineno"> 1272</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;scaffold&quot;</span>, shoot_parameters_scaffold);</div>
+<div class="line"><a id="l01273" name="l01273"></a><span class="lineno"> 1273</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;proleptic&quot;</span>, shoot_parameters_proleptic);</div>
+<div class="line"><a id="l01274" name="l01274"></a><span class="lineno"> 1274</span> </div>
+<div class="line"><a id="l01275" name="l01275"></a><span class="lineno"> 1275</span>}</div>
+<div class="line"><a id="l01276" name="l01276"></a><span class="lineno"> 1276</span> </div>
+<div class="line"><a id="l01277" name="l01277"></a><span class="lineno"> 1277</span>uint PlantArchitecture::buildOliveTree(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
+<div class="line"><a id="l01278" name="l01278"></a><span class="lineno"> 1278</span> </div>
+<div class="line"><a id="l01279" name="l01279"></a><span class="lineno"> 1279</span>    <span class="keywordflow">if</span>( shoot_types.empty() ){</div>
+<div class="line"><a id="l01280" name="l01280"></a><span class="lineno"> 1280</span>        <span class="comment">//automatically initialize almond tree shoots</span></div>
+<div class="line"><a id="l01281" name="l01281"></a><span class="lineno"> 1281</span>        initializeOliveTreeShoots();</div>
+<div class="line"><a id="l01282" name="l01282"></a><span class="lineno"> 1282</span>    }</div>
+<div class="line"><a id="l01283" name="l01283"></a><span class="lineno"> 1283</span> </div>
+<div class="line"><a id="l01284" name="l01284"></a><span class="lineno"> 1284</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
+<div class="line"><a id="l01285" name="l01285"></a><span class="lineno"> 1285</span> </div>
+<div class="line"><a id="l01286" name="l01286"></a><span class="lineno"> 1286</span>    uint uID_trunk = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 19, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 0.05f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI)), 0.015, 0.008, 1.f, 1.f, 0, <span class="stringliteral">&quot;trunk&quot;</span>);</div>
+<div class="line"><a id="l01287" name="l01287"></a><span class="lineno"> 1287</span>    <a class="code hl_function" href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">appendPhytomerToShoot</a>( plantID, uID_trunk, shoot_types.at(<span class="stringliteral">&quot;trunk&quot;</span>).phytomer_parameters, 0, 0.01, 1, 1);</div>
+<div class="line"><a id="l01288" name="l01288"></a><span class="lineno"> 1288</span> </div>
+<div class="line"><a id="l01289" name="l01289"></a><span class="lineno"> 1289</span>    plant_instances.at(plantID).shoot_tree.at(uID_trunk)-&gt;meristem_is_alive = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01290" name="l01290"></a><span class="lineno"> 1290</span> </div>
+<div class="line"><a id="l01291" name="l01291"></a><span class="lineno"> 1291</span>    <span class="keyword">auto</span> phytomers = plant_instances.at(plantID).shoot_tree.at(uID_trunk)-&gt;phytomers;</div>
+<div class="line"><a id="l01292" name="l01292"></a><span class="lineno"> 1292</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp; phytomer : phytomers ){</div>
+<div class="line"><a id="l01293" name="l01293"></a><span class="lineno"> 1293</span>        phytomer-&gt;removeLeaf();</div>
+<div class="line"><a id="l01294" name="l01294"></a><span class="lineno"> 1294</span>        phytomer-&gt;setVegetativeBudState(BUD_DEAD);</div>
+<div class="line"><a id="l01295" name="l01295"></a><span class="lineno"> 1295</span>        phytomer-&gt;setFloralBudState(BUD_DEAD);</div>
+<div class="line"><a id="l01296" name="l01296"></a><span class="lineno"> 1296</span>    }</div>
+<div class="line"><a id="l01297" name="l01297"></a><span class="lineno"> 1297</span> </div>
+<div class="line"><a id="l01298" name="l01298"></a><span class="lineno"> 1298</span>    uint Nscaffolds = 4;<span class="comment">//context_ptr-&gt;randu(4,5);</span></div>
+<div class="line"><a id="l01299" name="l01299"></a><span class="lineno"> 1299</span> </div>
+<div class="line"><a id="l01300" name="l01300"></a><span class="lineno"> 1300</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;Nscaffolds; i++ ) {</div>
+<div class="line"><a id="l01301" name="l01301"></a><span class="lineno"> 1301</span>        <span class="keywordtype">float</span> pitch = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(30), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(35));</div>
+<div class="line"><a id="l01302" name="l01302"></a><span class="lineno"> 1302</span>        uint uID_shoot = <a class="code hl_function" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">addChildShoot</a>( plantID, uID_trunk, getShootNodeCount(plantID,uID_trunk)-i-1, context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(5, 7), make_AxisRotation(pitch, (<span class="keywordtype">float</span>(i) + context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(-0.2f, 0.2f)) / <span class="keywordtype">float</span>(Nscaffolds) * 2 * M_PI, 0), 0.007, 0.06, 1.f, 1.f, 0.5, <span class="stringliteral">&quot;scaffold&quot;</span>, 0);</div>
+<div class="line"><a id="l01303" name="l01303"></a><span class="lineno"> 1303</span> </div>
+<div class="line"><a id="l01304" name="l01304"></a><span class="lineno"> 1304</span>    }</div>
+<div class="line"><a id="l01305" name="l01305"></a><span class="lineno"> 1305</span> </div>
+<div class="line"><a id="l01306" name="l01306"></a><span class="lineno"> 1306</span>    makePlantDormant(plantID);</div>
+<div class="line"><a id="l01307" name="l01307"></a><span class="lineno"> 1307</span> </div>
+<div class="line"><a id="l01308" name="l01308"></a><span class="lineno"> 1308</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, 1, 3, 8, 20, <span class="keyword">true</span>);</div>
+<div class="line"><a id="l01309" name="l01309"></a><span class="lineno"> 1309</span> </div>
+<div class="line"><a id="l01310" name="l01310"></a><span class="lineno"> 1310</span>    <span class="keywordflow">return</span> plantID;</div>
+<div class="line"><a id="l01311" name="l01311"></a><span class="lineno"> 1311</span> </div>
+<div class="line"><a id="l01312" name="l01312"></a><span class="lineno"> 1312</span>}</div>
+<div class="line"><a id="l01313" name="l01313"></a><span class="lineno"> 1313</span> </div>
+<div class="line"><a id="l01314" name="l01314"></a><span class="lineno"> 1314</span><span class="keywordtype">void</span> PlantArchitecture::initializePistachioTreeShoots(){</div>
+<div class="line"><a id="l01315" name="l01315"></a><span class="lineno"> 1315</span> </div>
+<div class="line"><a id="l01316" name="l01316"></a><span class="lineno"> 1316</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
+<div class="line"><a id="l01317" name="l01317"></a><span class="lineno"> 1317</span> </div>
+<div class="line"><a id="l01318" name="l01318"></a><span class="lineno"> 1318</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_pistachio(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01319" name="l01319"></a><span class="lineno"> 1319</span> </div>
+<div class="line"><a id="l01320" name="l01320"></a><span class="lineno"> 1320</span>    phytomer_parameters_pistachio.internode.pitch = 0;</div>
+<div class="line"><a id="l01321" name="l01321"></a><span class="lineno"> 1321</span>    phytomer_parameters_pistachio.internode.phyllotactic_angle.uniformDistribution(160, 200);</div>
+<div class="line"><a id="l01322" name="l01322"></a><span class="lineno"> 1322</span>    phytomer_parameters_pistachio.internode.length_segments = 1;</div>
+<div class="line"><a id="l01323" name="l01323"></a><span class="lineno"> 1323</span>    phytomer_parameters_pistachio.internode.image_texture = <span class="stringliteral">&quot;plugins/plantarchitecture/assets/textures/OliveBark.jpg&quot;</span>;</div>
+<div class="line"><a id="l01324" name="l01324"></a><span class="lineno"> 1324</span>    phytomer_parameters_pistachio.internode.max_floral_buds_per_petiole = 3;</div>
+<div class="line"><a id="l01325" name="l01325"></a><span class="lineno"> 1325</span> </div>
+<div class="line"><a id="l01326" name="l01326"></a><span class="lineno"> 1326</span>    phytomer_parameters_pistachio.petiole.petioles_per_internode = 2;</div>
+<div class="line"><a id="l01327" name="l01327"></a><span class="lineno"> 1327</span>    phytomer_parameters_pistachio.petiole.pitch.uniformDistribution(-60, -45);</div>
+<div class="line"><a id="l01328" name="l01328"></a><span class="lineno"> 1328</span>    phytomer_parameters_pistachio.petiole.taper = 0.1;</div>
+<div class="line"><a id="l01329" name="l01329"></a><span class="lineno"> 1329</span>    phytomer_parameters_pistachio.petiole.curvature.uniformDistribution(-800,800);</div>
+<div class="line"><a id="l01330" name="l01330"></a><span class="lineno"> 1330</span>    phytomer_parameters_pistachio.petiole.length = 0.075;</div>
+<div class="line"><a id="l01331" name="l01331"></a><span class="lineno"> 1331</span>    phytomer_parameters_pistachio.petiole.radius = 0.001;</div>
+<div class="line"><a id="l01332" name="l01332"></a><span class="lineno"> 1332</span>    phytomer_parameters_pistachio.petiole.length_segments = 1;</div>
+<div class="line"><a id="l01333" name="l01333"></a><span class="lineno"> 1333</span>    phytomer_parameters_pistachio.petiole.radial_subdivisions = 3;</div>
+<div class="line"><a id="l01334" name="l01334"></a><span class="lineno"> 1334</span>    phytomer_parameters_pistachio.petiole.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.6, 0.6, 0.4);</div>
+<div class="line"><a id="l01335" name="l01335"></a><span class="lineno"> 1335</span> </div>
+<div class="line"><a id="l01336" name="l01336"></a><span class="lineno"> 1336</span>    phytomer_parameters_pistachio.leaf.leaves_per_petiole = 3;</div>
+<div class="line"><a id="l01337" name="l01337"></a><span class="lineno"> 1337</span>    phytomer_parameters_pistachio.leaf.prototype_function = PistachioLeafPrototype;</div>
+<div class="line"><a id="l01338" name="l01338"></a><span class="lineno"> 1338</span>    phytomer_parameters_pistachio.leaf.prototype_scale = 0.08;</div>
+<div class="line"><a id="l01339" name="l01339"></a><span class="lineno"> 1339</span>    phytomer_parameters_pistachio.leaf.leaflet_offset = 0.3;</div>
+<div class="line"><a id="l01340" name="l01340"></a><span class="lineno"> 1340</span>    phytomer_parameters_pistachio.leaf.leaflet_scale = 0.75;</div>
+<div class="line"><a id="l01341" name="l01341"></a><span class="lineno"> 1341</span>    phytomer_parameters_pistachio.leaf.pitch.uniformDistribution(-20,20);</div>
+<div class="line"><a id="l01342" name="l01342"></a><span class="lineno"> 1342</span>    phytomer_parameters_pistachio.leaf.roll.uniformDistribution(-20,20);</div>
+<div class="line"><a id="l01343" name="l01343"></a><span class="lineno"> 1343</span>    phytomer_parameters_pistachio.leaf.unique_prototypes = 5;</div>
+<div class="line"><a id="l01344" name="l01344"></a><span class="lineno"> 1344</span>    phytomer_parameters_pistachio.leaf.subdivisions = 3;</div>
+<div class="line"><a id="l01345" name="l01345"></a><span class="lineno"> 1345</span> </div>
+<div class="line"><a id="l01346" name="l01346"></a><span class="lineno"> 1346</span>    phytomer_parameters_pistachio.peduncle.length = 0.1;</div>
+<div class="line"><a id="l01347" name="l01347"></a><span class="lineno"> 1347</span>    phytomer_parameters_pistachio.peduncle.radius = 0.001;</div>
+<div class="line"><a id="l01348" name="l01348"></a><span class="lineno"> 1348</span>    phytomer_parameters_pistachio.peduncle.pitch = 60;</div>
+<div class="line"><a id="l01349" name="l01349"></a><span class="lineno"> 1349</span>    phytomer_parameters_pistachio.peduncle.roll = 0;</div>
+<div class="line"><a id="l01350" name="l01350"></a><span class="lineno"> 1350</span>    phytomer_parameters_pistachio.peduncle.length_segments = 1;</div>
+<div class="line"><a id="l01351" name="l01351"></a><span class="lineno"> 1351</span>    phytomer_parameters_pistachio.peduncle.curvature.uniformDistribution(500,900);</div>
+<div class="line"><a id="l01352" name="l01352"></a><span class="lineno"> 1352</span>    phytomer_parameters_pistachio.peduncle.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.7, 0.72, 0.7);</div>
+<div class="line"><a id="l01353" name="l01353"></a><span class="lineno"> 1353</span> </div>
+<div class="line"><a id="l01354" name="l01354"></a><span class="lineno"> 1354</span>    phytomer_parameters_pistachio.inflorescence.flowers_per_peduncle = 16;</div>
+<div class="line"><a id="l01355" name="l01355"></a><span class="lineno"> 1355</span>    phytomer_parameters_pistachio.inflorescence.flower_offset = 0.08;</div>
+<div class="line"><a id="l01356" name="l01356"></a><span class="lineno"> 1356</span>    phytomer_parameters_pistachio.inflorescence.pitch.uniformDistribution(50, 70);</div>
+<div class="line"><a id="l01357" name="l01357"></a><span class="lineno"> 1357</span>    phytomer_parameters_pistachio.inflorescence.roll.uniformDistribution(0, 360);</div>
+<div class="line"><a id="l01358" name="l01358"></a><span class="lineno"> 1358</span>    phytomer_parameters_pistachio.inflorescence.flower_prototype_scale = 0.025;</div>
+<div class="line"><a id="l01359" name="l01359"></a><span class="lineno"> 1359</span><span class="comment">//    phytomer_parameters_pistachio.inflorescence.flower_prototype_function = PistachioFlowerPrototype;</span></div>
+<div class="line"><a id="l01360" name="l01360"></a><span class="lineno"> 1360</span>    phytomer_parameters_pistachio.inflorescence.fruit_prototype_scale = 0.025;</div>
+<div class="line"><a id="l01361" name="l01361"></a><span class="lineno"> 1361</span>    phytomer_parameters_pistachio.inflorescence.fruit_prototype_function = PistachioFruitPrototype;</div>
+<div class="line"><a id="l01362" name="l01362"></a><span class="lineno"> 1362</span> </div>
+<div class="line"><a id="l01363" name="l01363"></a><span class="lineno"> 1363</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
+<div class="line"><a id="l01364" name="l01364"></a><span class="lineno"> 1364</span> </div>
+<div class="line"><a id="l01365" name="l01365"></a><span class="lineno"> 1365</span>    <span class="comment">// Trunk</span></div>
+<div class="line"><a id="l01366" name="l01366"></a><span class="lineno"> 1366</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_trunk(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01367" name="l01367"></a><span class="lineno"> 1367</span>    shoot_parameters_trunk.phytomer_parameters = phytomer_parameters_pistachio;</div>
+<div class="line"><a id="l01368" name="l01368"></a><span class="lineno"> 1368</span>    shoot_parameters_trunk.phytomer_parameters.internode.phyllotactic_angle = 180;</div>
+<div class="line"><a id="l01369" name="l01369"></a><span class="lineno"> 1369</span>    shoot_parameters_trunk.phytomer_parameters.internode.radial_subdivisions = 20;</div>
+<div class="line"><a id="l01370" name="l01370"></a><span class="lineno"> 1370</span>    shoot_parameters_trunk.max_nodes = 20;</div>
+<div class="line"><a id="l01371" name="l01371"></a><span class="lineno"> 1371</span>    shoot_parameters_trunk.girth_area_factor = 5.f;</div>
+<div class="line"><a id="l01372" name="l01372"></a><span class="lineno"> 1372</span>    shoot_parameters_trunk.internode_radius_initial = 0.01;</div>
+<div class="line"><a id="l01373" name="l01373"></a><span class="lineno"> 1373</span>    shoot_parameters_trunk.vegetative_bud_break_probability = 0;</div>
+<div class="line"><a id="l01374" name="l01374"></a><span class="lineno"> 1374</span>    shoot_parameters_trunk.vegetative_bud_break_time = 0;</div>
+<div class="line"><a id="l01375" name="l01375"></a><span class="lineno"> 1375</span>    shoot_parameters_trunk.tortuosity = 2;</div>
+<div class="line"><a id="l01376" name="l01376"></a><span class="lineno"> 1376</span>    shoot_parameters_trunk.internode_length_max = 0.05;</div>
+<div class="line"><a id="l01377" name="l01377"></a><span class="lineno"> 1377</span>    shoot_parameters_trunk.internode_length_decay_rate = 0;</div>
+<div class="line"><a id="l01378" name="l01378"></a><span class="lineno"> 1378</span>    shoot_parameters_trunk.defineChildShootTypes({<span class="stringliteral">&quot;proleptic&quot;</span>},{1});</div>
+<div class="line"><a id="l01379" name="l01379"></a><span class="lineno"> 1379</span> </div>
+<div class="line"><a id="l01380" name="l01380"></a><span class="lineno"> 1380</span>    <span class="comment">// Proleptic shoots</span></div>
+<div class="line"><a id="l01381" name="l01381"></a><span class="lineno"> 1381</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_proleptic(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01382" name="l01382"></a><span class="lineno"> 1382</span>    shoot_parameters_proleptic.phytomer_parameters = phytomer_parameters_pistachio;</div>
+<div class="line"><a id="l01383" name="l01383"></a><span class="lineno"> 1383</span>    shoot_parameters_proleptic.phytomer_parameters.phytomer_creation_function = PistachioPhytomerCreationFunction;</div>
+<div class="line"><a id="l01384" name="l01384"></a><span class="lineno"> 1384</span>    shoot_parameters_proleptic.phytomer_parameters.phytomer_callback_function = PistachioPhytomerCallbackFunction;</div>
+<div class="line"><a id="l01385" name="l01385"></a><span class="lineno"> 1385</span>    shoot_parameters_proleptic.max_nodes = 20;</div>
+<div class="line"><a id="l01386" name="l01386"></a><span class="lineno"> 1386</span>    shoot_parameters_proleptic.phyllochron = 1;</div>
+<div class="line"><a id="l01387" name="l01387"></a><span class="lineno"> 1387</span>    shoot_parameters_proleptic.elongation_rate = 0.25;</div>
+<div class="line"><a id="l01388" name="l01388"></a><span class="lineno"> 1388</span>    shoot_parameters_proleptic.girth_area_factor = 10.f;</div>
+<div class="line"><a id="l01389" name="l01389"></a><span class="lineno"> 1389</span>    shoot_parameters_proleptic.vegetative_bud_break_probability = 0.15;</div>
+<div class="line"><a id="l01390" name="l01390"></a><span class="lineno"> 1390</span>    shoot_parameters_proleptic.vegetative_bud_break_time = 0;</div>
+<div class="line"><a id="l01391" name="l01391"></a><span class="lineno"> 1391</span>    shoot_parameters_proleptic.leaf_flush_count = 1;</div>
+<div class="line"><a id="l01392" name="l01392"></a><span class="lineno"> 1392</span>    shoot_parameters_proleptic.gravitropic_curvature = 500;</div>
+<div class="line"><a id="l01393" name="l01393"></a><span class="lineno"> 1393</span>    shoot_parameters_proleptic.tortuosity = 10;</div>
+<div class="line"><a id="l01394" name="l01394"></a><span class="lineno"> 1394</span>    shoot_parameters_proleptic.internode_radius_initial = 0.002;</div>
+<div class="line"><a id="l01395" name="l01395"></a><span class="lineno"> 1395</span>    shoot_parameters_proleptic.insertion_angle_tip.uniformDistribution( 45, 55);</div>
+<div class="line"><a id="l01396" name="l01396"></a><span class="lineno"> 1396</span>    shoot_parameters_proleptic.insertion_angle_decay_rate = 10;</div>
+<div class="line"><a id="l01397" name="l01397"></a><span class="lineno"> 1397</span>    shoot_parameters_proleptic.internode_length_max = 0.04;</div>
+<div class="line"><a id="l01398" name="l01398"></a><span class="lineno"> 1398</span>    shoot_parameters_proleptic.internode_length_min = 0.02;</div>
+<div class="line"><a id="l01399" name="l01399"></a><span class="lineno"> 1399</span>    shoot_parameters_proleptic.internode_length_decay_rate = 0.005;</div>
+<div class="line"><a id="l01400" name="l01400"></a><span class="lineno"> 1400</span>    shoot_parameters_proleptic.fruit_set_probability = 0.35;</div>
+<div class="line"><a id="l01401" name="l01401"></a><span class="lineno"> 1401</span>    shoot_parameters_proleptic.flower_bud_break_probability = 0.35;</div>
+<div class="line"><a id="l01402" name="l01402"></a><span class="lineno"> 1402</span>    shoot_parameters_proleptic.max_terminal_floral_buds = 4;</div>
+<div class="line"><a id="l01403" name="l01403"></a><span class="lineno"> 1403</span>    shoot_parameters_proleptic.flowers_require_dormancy = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l01404" name="l01404"></a><span class="lineno"> 1404</span>    shoot_parameters_proleptic.growth_requires_dormancy = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l01405" name="l01405"></a><span class="lineno"> 1405</span>    shoot_parameters_proleptic.determinate_shoot_growth = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01406" name="l01406"></a><span class="lineno"> 1406</span> </div>
+<div class="line"><a id="l01407" name="l01407"></a><span class="lineno"> 1407</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;trunk&quot;</span>, shoot_parameters_trunk);</div>
+<div class="line"><a id="l01408" name="l01408"></a><span class="lineno"> 1408</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;proleptic&quot;</span>, shoot_parameters_proleptic);</div>
+<div class="line"><a id="l01409" name="l01409"></a><span class="lineno"> 1409</span> </div>
+<div class="line"><a id="l01410" name="l01410"></a><span class="lineno"> 1410</span>}</div>
+<div class="line"><a id="l01411" name="l01411"></a><span class="lineno"> 1411</span> </div>
+<div class="line"><a id="l01412" name="l01412"></a><span class="lineno"> 1412</span>uint PlantArchitecture::buildPistachioTree(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
+<div class="line"><a id="l01413" name="l01413"></a><span class="lineno"> 1413</span> </div>
+<div class="line"><a id="l01414" name="l01414"></a><span class="lineno"> 1414</span>    <span class="keywordflow">if</span>( shoot_types.empty() ){</div>
+<div class="line"><a id="l01415" name="l01415"></a><span class="lineno"> 1415</span>        <span class="comment">//automatically initialize almond tree shoots</span></div>
+<div class="line"><a id="l01416" name="l01416"></a><span class="lineno"> 1416</span>        initializePistachioTreeShoots();</div>
+<div class="line"><a id="l01417" name="l01417"></a><span class="lineno"> 1417</span>    }</div>
+<div class="line"><a id="l01418" name="l01418"></a><span class="lineno"> 1418</span> </div>
+<div class="line"><a id="l01419" name="l01419"></a><span class="lineno"> 1419</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
+<div class="line"><a id="l01420" name="l01420"></a><span class="lineno"> 1420</span> </div>
+<div class="line"><a id="l01421" name="l01421"></a><span class="lineno"> 1421</span>    uint uID_trunk = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 19, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 0.05f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI)), 0.015, 0.03, 1.f, 1.f, 0, <span class="stringliteral">&quot;trunk&quot;</span>);</div>
+<div class="line"><a id="l01422" name="l01422"></a><span class="lineno"> 1422</span>    <a class="code hl_function" href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">appendPhytomerToShoot</a>( plantID, uID_trunk, shoot_types.at(<span class="stringliteral">&quot;trunk&quot;</span>).phytomer_parameters, 0, 0.01, 1, 1);</div>
+<div class="line"><a id="l01423" name="l01423"></a><span class="lineno"> 1423</span> </div>
+<div class="line"><a id="l01424" name="l01424"></a><span class="lineno"> 1424</span>    plant_instances.at(plantID).shoot_tree.at(uID_trunk)-&gt;meristem_is_alive = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01425" name="l01425"></a><span class="lineno"> 1425</span> </div>
+<div class="line"><a id="l01426" name="l01426"></a><span class="lineno"> 1426</span>    <span class="keyword">auto</span> phytomers = plant_instances.at(plantID).shoot_tree.at(uID_trunk)-&gt;phytomers;</div>
+<div class="line"><a id="l01427" name="l01427"></a><span class="lineno"> 1427</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp; phytomer : phytomers ){</div>
+<div class="line"><a id="l01428" name="l01428"></a><span class="lineno"> 1428</span>        phytomer-&gt;removeLeaf();</div>
+<div class="line"><a id="l01429" name="l01429"></a><span class="lineno"> 1429</span>        phytomer-&gt;setVegetativeBudState(BUD_DEAD);</div>
+<div class="line"><a id="l01430" name="l01430"></a><span class="lineno"> 1430</span>        phytomer-&gt;setFloralBudState(BUD_DEAD);</div>
+<div class="line"><a id="l01431" name="l01431"></a><span class="lineno"> 1431</span>    }</div>
+<div class="line"><a id="l01432" name="l01432"></a><span class="lineno"> 1432</span> </div>
+<div class="line"><a id="l01433" name="l01433"></a><span class="lineno"> 1433</span>    uint Nscaffolds = 4;<span class="comment">//context_ptr-&gt;randu(4,5);</span></div>
+<div class="line"><a id="l01434" name="l01434"></a><span class="lineno"> 1434</span> </div>
+<div class="line"><a id="l01435" name="l01435"></a><span class="lineno"> 1435</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;Nscaffolds; i++ ) {</div>
+<div class="line"><a id="l01436" name="l01436"></a><span class="lineno"> 1436</span>        <span class="keywordtype">float</span> pitch = context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(<a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(65), <a class="code hl_function" href="group__functions.html#ga60f429b247883516de80687774f4155c">deg2rad</a>(80));</div>
+<div class="line"><a id="l01437" name="l01437"></a><span class="lineno"> 1437</span>        uint uID_shoot = <a class="code hl_function" href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">addChildShoot</a>( plantID, uID_trunk, getShootNodeCount(plantID,uID_trunk)-i-1, 1, make_AxisRotation(pitch, (<span class="keywordtype">float</span>(i) + context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(-0.2f, 0.2f)) / <span class="keywordtype">float</span>(Nscaffolds) * 2 * M_PI, 0), 0.007, 0.06, 1.f, 1.f, 0.5, <span class="stringliteral">&quot;proleptic&quot;</span>, 0);</div>
+<div class="line"><a id="l01438" name="l01438"></a><span class="lineno"> 1438</span> </div>
+<div class="line"><a id="l01439" name="l01439"></a><span class="lineno"> 1439</span>    }</div>
+<div class="line"><a id="l01440" name="l01440"></a><span class="lineno"> 1440</span> </div>
+<div class="line"><a id="l01441" name="l01441"></a><span class="lineno"> 1441</span>    makePlantDormant(plantID);</div>
+<div class="line"><a id="l01442" name="l01442"></a><span class="lineno"> 1442</span> </div>
+<div class="line"><a id="l01443" name="l01443"></a><span class="lineno"> 1443</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, -1, 4, 8, 20, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l01444" name="l01444"></a><span class="lineno"> 1444</span> </div>
+<div class="line"><a id="l01445" name="l01445"></a><span class="lineno"> 1445</span>    <span class="keywordflow">return</span> plantID;</div>
+<div class="line"><a id="l01446" name="l01446"></a><span class="lineno"> 1446</span> </div>
+<div class="line"><a id="l01447" name="l01447"></a><span class="lineno"> 1447</span>}</div>
+<div class="line"><a id="l01448" name="l01448"></a><span class="lineno"> 1448</span> </div>
+<div class="line"><a id="l01449" name="l01449"></a><span class="lineno"> 1449</span><span class="keywordtype">void</span> PlantArchitecture::initializePuncturevineShoots() {</div>
+<div class="line"><a id="l01450" name="l01450"></a><span class="lineno"> 1450</span> </div>
+<div class="line"><a id="l01451" name="l01451"></a><span class="lineno"> 1451</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
+<div class="line"><a id="l01452" name="l01452"></a><span class="lineno"> 1452</span> </div>
+<div class="line"><a id="l01453" name="l01453"></a><span class="lineno"> 1453</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_puncturevine(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01454" name="l01454"></a><span class="lineno"> 1454</span> </div>
+<div class="line"><a id="l01455" name="l01455"></a><span class="lineno"> 1455</span>    phytomer_parameters_puncturevine.internode.pitch.uniformDistribution(0,15);</div>
+<div class="line"><a id="l01456" name="l01456"></a><span class="lineno"> 1456</span>    phytomer_parameters_puncturevine.internode.phyllotactic_angle = 180.f;</div>
+<div class="line"><a id="l01457" name="l01457"></a><span class="lineno"> 1457</span>    phytomer_parameters_puncturevine.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.55, 0.52, 0.39);</div>
+<div class="line"><a id="l01458" name="l01458"></a><span class="lineno"> 1458</span>    phytomer_parameters_puncturevine.internode.length_segments = 1;</div>
+<div class="line"><a id="l01459" name="l01459"></a><span class="lineno"> 1459</span> </div>
+<div class="line"><a id="l01460" name="l01460"></a><span class="lineno"> 1460</span>    phytomer_parameters_puncturevine.petiole.petioles_per_internode = 1;</div>
+<div class="line"><a id="l01461" name="l01461"></a><span class="lineno"> 1461</span>    phytomer_parameters_puncturevine.petiole.pitch.uniformDistribution(80, 100);</div>
+<div class="line"><a id="l01462" name="l01462"></a><span class="lineno"> 1462</span>    phytomer_parameters_puncturevine.petiole.radius = 0.0003;</div>
+<div class="line"><a id="l01463" name="l01463"></a><span class="lineno"> 1463</span>    phytomer_parameters_puncturevine.petiole.length = 0.025;</div>
+<div class="line"><a id="l01464" name="l01464"></a><span class="lineno"> 1464</span>    phytomer_parameters_puncturevine.petiole.taper = 0;</div>
+<div class="line"><a id="l01465" name="l01465"></a><span class="lineno"> 1465</span>    phytomer_parameters_puncturevine.petiole.curvature = 0;</div>
+<div class="line"><a id="l01466" name="l01466"></a><span class="lineno"> 1466</span>    phytomer_parameters_puncturevine.petiole.color = phytomer_parameters_puncturevine.internode.color;</div>
+<div class="line"><a id="l01467" name="l01467"></a><span class="lineno"> 1467</span>    phytomer_parameters_puncturevine.petiole.length_segments = 1;</div>
+<div class="line"><a id="l01468" name="l01468"></a><span class="lineno"> 1468</span> </div>
+<div class="line"><a id="l01469" name="l01469"></a><span class="lineno"> 1469</span>    phytomer_parameters_puncturevine.leaf.leaves_per_petiole = 11;</div>
+<div class="line"><a id="l01470" name="l01470"></a><span class="lineno"> 1470</span>    phytomer_parameters_puncturevine.leaf.pitch.uniformDistribution(-10,10);</div>
+<div class="line"><a id="l01471" name="l01471"></a><span class="lineno"> 1471</span>    phytomer_parameters_puncturevine.leaf.yaw = 30;</div>
+<div class="line"><a id="l01472" name="l01472"></a><span class="lineno"> 1472</span>    phytomer_parameters_puncturevine.leaf.roll.uniformDistribution(-5,5);</div>
+<div class="line"><a id="l01473" name="l01473"></a><span class="lineno"> 1473</span>    phytomer_parameters_puncturevine.leaf.prototype_function = PuncturevineLeafPrototype;</div>
+<div class="line"><a id="l01474" name="l01474"></a><span class="lineno"> 1474</span>    phytomer_parameters_puncturevine.leaf.prototype_scale = 0.008;</div>
+<div class="line"><a id="l01475" name="l01475"></a><span class="lineno"> 1475</span>    phytomer_parameters_puncturevine.leaf.leaflet_offset = 0.15;</div>
+<div class="line"><a id="l01476" name="l01476"></a><span class="lineno"> 1476</span>    phytomer_parameters_puncturevine.leaf.leaflet_scale = 1;</div>
+<div class="line"><a id="l01477" name="l01477"></a><span class="lineno"> 1477</span>    phytomer_parameters_puncturevine.leaf.subdivisions = 3;</div>
+<div class="line"><a id="l01478" name="l01478"></a><span class="lineno"> 1478</span> </div>
+<div class="line"><a id="l01479" name="l01479"></a><span class="lineno"> 1479</span>    phytomer_parameters_puncturevine.peduncle.length = 0.001;</div>
+<div class="line"><a id="l01480" name="l01480"></a><span class="lineno"> 1480</span>    phytomer_parameters_puncturevine.inflorescence.flowers_per_peduncle = 1;</div>
+<div class="line"><a id="l01481" name="l01481"></a><span class="lineno"> 1481</span>    phytomer_parameters_puncturevine.inflorescence.pitch = -90.f;</div>
+<div class="line"><a id="l01482" name="l01482"></a><span class="lineno"> 1482</span>    phytomer_parameters_puncturevine.inflorescence.flower_prototype_function = PuncturevineFlowerPrototype;</div>
+<div class="line"><a id="l01483" name="l01483"></a><span class="lineno"> 1483</span>    phytomer_parameters_puncturevine.inflorescence.flower_prototype_scale = 0.006;</div>
+<div class="line"><a id="l01484" name="l01484"></a><span class="lineno"> 1484</span> </div>
+<div class="line"><a id="l01485" name="l01485"></a><span class="lineno"> 1485</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
+<div class="line"><a id="l01486" name="l01486"></a><span class="lineno"> 1486</span> </div>
+<div class="line"><a id="l01487" name="l01487"></a><span class="lineno"> 1487</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_primary(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01488" name="l01488"></a><span class="lineno"> 1488</span>    shoot_parameters_primary.phytomer_parameters = phytomer_parameters_puncturevine;</div>
+<div class="line"><a id="l01489" name="l01489"></a><span class="lineno"> 1489</span>    shoot_parameters_primary.vegetative_bud_break_probability = 0.3;</div>
+<div class="line"><a id="l01490" name="l01490"></a><span class="lineno"> 1490</span>    shoot_parameters_primary.vegetative_bud_break_time = 3;</div>
+<div class="line"><a id="l01491" name="l01491"></a><span class="lineno"> 1491</span>    shoot_parameters_primary.base_roll = 90;</div>
+<div class="line"><a id="l01492" name="l01492"></a><span class="lineno"> 1492</span>    shoot_parameters_primary.internode_radius_initial = 0.001;</div>
+<div class="line"><a id="l01493" name="l01493"></a><span class="lineno"> 1493</span>    shoot_parameters_primary.phyllochron = 1;</div>
+<div class="line"><a id="l01494" name="l01494"></a><span class="lineno"> 1494</span>    shoot_parameters_primary.elongation_rate = 0.2;</div>
+<div class="line"><a id="l01495" name="l01495"></a><span class="lineno"> 1495</span>    shoot_parameters_primary.girth_area_factor = 0.f;</div>
+<div class="line"><a id="l01496" name="l01496"></a><span class="lineno"> 1496</span>    shoot_parameters_primary.internode_length_max = 0.02;</div>
+<div class="line"><a id="l01497" name="l01497"></a><span class="lineno"> 1497</span>    shoot_parameters_primary.internode_length_decay_rate = 0;</div>
+<div class="line"><a id="l01498" name="l01498"></a><span class="lineno"> 1498</span>    shoot_parameters_primary.insertion_angle_tip.uniformDistribution(50, 80);</div>
+<div class="line"><a id="l01499" name="l01499"></a><span class="lineno"> 1499</span>    shoot_parameters_primary.flowers_require_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01500" name="l01500"></a><span class="lineno"> 1500</span>    shoot_parameters_primary.growth_requires_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01501" name="l01501"></a><span class="lineno"> 1501</span>    shoot_parameters_primary.flower_bud_break_probability = 0.2;</div>
+<div class="line"><a id="l01502" name="l01502"></a><span class="lineno"> 1502</span>    shoot_parameters_primary.determinate_shoot_growth = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01503" name="l01503"></a><span class="lineno"> 1503</span>    shoot_parameters_primary.max_nodes = 15;</div>
+<div class="line"><a id="l01504" name="l01504"></a><span class="lineno"> 1504</span>    shoot_parameters_primary.gravitropic_curvature = 20;</div>
+<div class="line"><a id="l01505" name="l01505"></a><span class="lineno"> 1505</span>    shoot_parameters_primary.tortuosity = 0;</div>
+<div class="line"><a id="l01506" name="l01506"></a><span class="lineno"> 1506</span>    shoot_parameters_primary.defineChildShootTypes({<span class="stringliteral">&quot;secondary_puncturevine&quot;</span>}, {1.f});</div>
+<div class="line"><a id="l01507" name="l01507"></a><span class="lineno"> 1507</span> </div>
+<div class="line"><a id="l01508" name="l01508"></a><span class="lineno"> 1508</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_base = shoot_parameters_primary;</div>
+<div class="line"><a id="l01509" name="l01509"></a><span class="lineno"> 1509</span>    shoot_parameters_base.phytomer_parameters = phytomer_parameters_puncturevine;</div>
+<div class="line"><a id="l01510" name="l01510"></a><span class="lineno"> 1510</span>    shoot_parameters_base.phytomer_parameters.internode.phyllotactic_angle.uniformDistribution(137.5-10,137.5+10);</div>
+<div class="line"><a id="l01511" name="l01511"></a><span class="lineno"> 1511</span>    shoot_parameters_base.phytomer_parameters.petiole.petioles_per_internode = 0;</div>
+<div class="line"><a id="l01512" name="l01512"></a><span class="lineno"> 1512</span>    shoot_parameters_base.phytomer_parameters.internode.pitch = 0;</div>
+<div class="line"><a id="l01513" name="l01513"></a><span class="lineno"> 1513</span>    shoot_parameters_base.phytomer_parameters.petiole.pitch = 0;</div>
+<div class="line"><a id="l01514" name="l01514"></a><span class="lineno"> 1514</span>    shoot_parameters_base.vegetative_bud_break_probability = 1;</div>
+<div class="line"><a id="l01515" name="l01515"></a><span class="lineno"> 1515</span>    shoot_parameters_base.vegetative_bud_break_time = 1;</div>
+<div class="line"><a id="l01516" name="l01516"></a><span class="lineno"> 1516</span>    shoot_parameters_base.internode_radius_initial = 0.001;</div>
+<div class="line"><a id="l01517" name="l01517"></a><span class="lineno"> 1517</span>    shoot_parameters_base.phyllochron = 1;</div>
+<div class="line"><a id="l01518" name="l01518"></a><span class="lineno"> 1518</span>    shoot_parameters_base.elongation_rate = 0.25;</div>
+<div class="line"><a id="l01519" name="l01519"></a><span class="lineno"> 1519</span>    shoot_parameters_base.gravitropic_curvature = 0;</div>
+<div class="line"><a id="l01520" name="l01520"></a><span class="lineno"> 1520</span>    shoot_parameters_base.internode_length_max = 0.01;</div>
+<div class="line"><a id="l01521" name="l01521"></a><span class="lineno"> 1521</span>    shoot_parameters_base.internode_length_decay_rate = 0;</div>
+<div class="line"><a id="l01522" name="l01522"></a><span class="lineno"> 1522</span>    shoot_parameters_base.insertion_angle_tip = 90;</div>
+<div class="line"><a id="l01523" name="l01523"></a><span class="lineno"> 1523</span>    shoot_parameters_base.insertion_angle_decay_rate = 0;</div>
+<div class="line"><a id="l01524" name="l01524"></a><span class="lineno"> 1524</span>    shoot_parameters_base.internode_radius_initial = 0.0005;</div>
+<div class="line"><a id="l01525" name="l01525"></a><span class="lineno"> 1525</span>    shoot_parameters_base.flowers_require_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01526" name="l01526"></a><span class="lineno"> 1526</span>    shoot_parameters_base.growth_requires_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01527" name="l01527"></a><span class="lineno"> 1527</span>    shoot_parameters_base.flower_bud_break_probability = 0.0;</div>
+<div class="line"><a id="l01528" name="l01528"></a><span class="lineno"> 1528</span>    shoot_parameters_base.max_nodes.uniformDistribution(3,5);</div>
+<div class="line"><a id="l01529" name="l01529"></a><span class="lineno"> 1529</span>    shoot_parameters_base.defineChildShootTypes({<span class="stringliteral">&quot;primary_puncturevine&quot;</span>},{1.f});</div>
+<div class="line"><a id="l01530" name="l01530"></a><span class="lineno"> 1530</span> </div>
+<div class="line"><a id="l01531" name="l01531"></a><span class="lineno"> 1531</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_children = shoot_parameters_primary;</div>
+<div class="line"><a id="l01532" name="l01532"></a><span class="lineno"> 1532</span>    shoot_parameters_children.base_roll = 0;</div>
+<div class="line"><a id="l01533" name="l01533"></a><span class="lineno"> 1533</span> </div>
+<div class="line"><a id="l01534" name="l01534"></a><span class="lineno"> 1534</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;base_puncturevine&quot;</span>, shoot_parameters_base);</div>
+<div class="line"><a id="l01535" name="l01535"></a><span class="lineno"> 1535</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;primary_puncturevine&quot;</span>, shoot_parameters_primary);</div>
+<div class="line"><a id="l01536" name="l01536"></a><span class="lineno"> 1536</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;secondary_puncturevine&quot;</span>, shoot_parameters_children);</div>
+<div class="line"><a id="l01537" name="l01537"></a><span class="lineno"> 1537</span> </div>
+<div class="line"><a id="l01538" name="l01538"></a><span class="lineno"> 1538</span>}</div>
+<div class="line"><a id="l01539" name="l01539"></a><span class="lineno"> 1539</span> </div>
+<div class="line"><a id="l01540" name="l01540"></a><span class="lineno"> 1540</span>uint PlantArchitecture::buildPuncturevinePlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
+<div class="line"><a id="l01541" name="l01541"></a><span class="lineno"> 1541</span> </div>
+<div class="line"><a id="l01542" name="l01542"></a><span class="lineno"> 1542</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
+<div class="line"><a id="l01543" name="l01543"></a><span class="lineno"> 1543</span>        <span class="comment">//automatically initialize puncturevine plant shoots</span></div>
+<div class="line"><a id="l01544" name="l01544"></a><span class="lineno"> 1544</span>        initializePuncturevineShoots();</div>
+<div class="line"><a id="l01545" name="l01545"></a><span class="lineno"> 1545</span>    }</div>
+<div class="line"><a id="l01546" name="l01546"></a><span class="lineno"> 1546</span> </div>
+<div class="line"><a id="l01547" name="l01547"></a><span class="lineno"> 1547</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
+<div class="line"><a id="l01548" name="l01548"></a><span class="lineno"> 1548</span> </div>
+<div class="line"><a id="l01549" name="l01549"></a><span class="lineno"> 1549</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 3, make_AxisRotation(0, 0.f, 0.f), 0.001, 0.001, 1, 1, 0, <span class="stringliteral">&quot;base_puncturevine&quot;</span>);</div>
+<div class="line"><a id="l01550" name="l01550"></a><span class="lineno"> 1550</span> </div>
+<div class="line"><a id="l01551" name="l01551"></a><span class="lineno"> 1551</span>    breakPlantDormancy(plantID);</div>
+<div class="line"><a id="l01552" name="l01552"></a><span class="lineno"> 1552</span> </div>
+<div class="line"><a id="l01553" name="l01553"></a><span class="lineno"> 1553</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, 7, 1000, 5, 100, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l01554" name="l01554"></a><span class="lineno"> 1554</span> </div>
+<div class="line"><a id="l01555" name="l01555"></a><span class="lineno"> 1555</span>    <span class="keywordflow">return</span> plantID;</div>
+<div class="line"><a id="l01556" name="l01556"></a><span class="lineno"> 1556</span> </div>
+<div class="line"><a id="l01557" name="l01557"></a><span class="lineno"> 1557</span>}</div>
+<div class="line"><a id="l01558" name="l01558"></a><span class="lineno"> 1558</span> </div>
+<div class="line"><a id="l01559" name="l01559"></a><span class="lineno"> 1559</span><span class="keywordtype">void</span> PlantArchitecture::initializeEasternRedbudShoots() {</div>
+<div class="line"><a id="l01560" name="l01560"></a><span class="lineno"> 1560</span> </div>
+<div class="line"><a id="l01561" name="l01561"></a><span class="lineno"> 1561</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
+<div class="line"><a id="l01562" name="l01562"></a><span class="lineno"> 1562</span> </div>
+<div class="line"><a id="l01563" name="l01563"></a><span class="lineno"> 1563</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_redbud(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01564" name="l01564"></a><span class="lineno"> 1564</span> </div>
+<div class="line"><a id="l01565" name="l01565"></a><span class="lineno"> 1565</span>    phytomer_parameters_redbud.internode.pitch = 15;</div>
+<div class="line"><a id="l01566" name="l01566"></a><span class="lineno"> 1566</span>    phytomer_parameters_redbud.internode.phyllotactic_angle.uniformDistribution(170,190);</div>
+<div class="line"><a id="l01567" name="l01567"></a><span class="lineno"> 1567</span><span class="comment">//    phytomer_parameters_redbud.internode.color = make_RGBcolor(0.55, 0.52, 0.39);</span></div>
+<div class="line"><a id="l01568" name="l01568"></a><span class="lineno"> 1568</span>    phytomer_parameters_redbud.internode.image_texture = <span class="stringliteral">&quot;plugins/plantarchitecture/assets/textures/WesternRedbudBark.jpg&quot;</span>;</div>
+<div class="line"><a id="l01569" name="l01569"></a><span class="lineno"> 1569</span>    phytomer_parameters_redbud.internode.color.scale(0.3);</div>
+<div class="line"><a id="l01570" name="l01570"></a><span class="lineno"> 1570</span>    phytomer_parameters_redbud.internode.length_segments = 1;</div>
+<div class="line"><a id="l01571" name="l01571"></a><span class="lineno"> 1571</span>    phytomer_parameters_redbud.internode.max_floral_buds_per_petiole = 5;</div>
+<div class="line"><a id="l01572" name="l01572"></a><span class="lineno"> 1572</span> </div>
+<div class="line"><a id="l01573" name="l01573"></a><span class="lineno"> 1573</span>    phytomer_parameters_redbud.petiole.petioles_per_internode = 1;</div>
+<div class="line"><a id="l01574" name="l01574"></a><span class="lineno"> 1574</span>    phytomer_parameters_redbud.petiole.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.65, 0.52, 0.39);</div>
+<div class="line"><a id="l01575" name="l01575"></a><span class="lineno"> 1575</span>    phytomer_parameters_redbud.petiole.pitch.uniformDistribution(20, 40);</div>
+<div class="line"><a id="l01576" name="l01576"></a><span class="lineno"> 1576</span>    phytomer_parameters_redbud.petiole.radius = 0.0017;</div>
+<div class="line"><a id="l01577" name="l01577"></a><span class="lineno"> 1577</span>    phytomer_parameters_redbud.petiole.length = 0.05;</div>
+<div class="line"><a id="l01578" name="l01578"></a><span class="lineno"> 1578</span>    phytomer_parameters_redbud.petiole.taper = 0;</div>
+<div class="line"><a id="l01579" name="l01579"></a><span class="lineno"> 1579</span>    phytomer_parameters_redbud.petiole.curvature = 0;</div>
+<div class="line"><a id="l01580" name="l01580"></a><span class="lineno"> 1580</span>    phytomer_parameters_redbud.petiole.length_segments = 1;</div>
+<div class="line"><a id="l01581" name="l01581"></a><span class="lineno"> 1581</span> </div>
+<div class="line"><a id="l01582" name="l01582"></a><span class="lineno"> 1582</span>    phytomer_parameters_redbud.leaf.leaves_per_petiole = 1;</div>
+<div class="line"><a id="l01583" name="l01583"></a><span class="lineno"> 1583</span>    phytomer_parameters_redbud.leaf.pitch.uniformDistribution(-110, -80);</div>
+<div class="line"><a id="l01584" name="l01584"></a><span class="lineno"> 1584</span>    phytomer_parameters_redbud.leaf.yaw = 0;</div>
+<div class="line"><a id="l01585" name="l01585"></a><span class="lineno"> 1585</span>    phytomer_parameters_redbud.leaf.roll.uniformDistribution(-5, 5);</div>
+<div class="line"><a id="l01586" name="l01586"></a><span class="lineno"> 1586</span>    phytomer_parameters_redbud.leaf.prototype_function = RedbudLeafPrototype;</div>
+<div class="line"><a id="l01587" name="l01587"></a><span class="lineno"> 1587</span>    phytomer_parameters_redbud.leaf.prototype_scale = 0.1;</div>
+<div class="line"><a id="l01588" name="l01588"></a><span class="lineno"> 1588</span>    phytomer_parameters_redbud.leaf.subdivisions = 5;</div>
+<div class="line"><a id="l01589" name="l01589"></a><span class="lineno"> 1589</span> </div>
+<div class="line"><a id="l01590" name="l01590"></a><span class="lineno"> 1590</span>    phytomer_parameters_redbud.peduncle.length = 0.02;</div>
+<div class="line"><a id="l01591" name="l01591"></a><span class="lineno"> 1591</span>    phytomer_parameters_redbud.peduncle.pitch.uniformDistribution(50,90);</div>
+<div class="line"><a id="l01592" name="l01592"></a><span class="lineno"> 1592</span>    phytomer_parameters_redbud.peduncle.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.32, 0.05, 0.13);</div>
+<div class="line"><a id="l01593" name="l01593"></a><span class="lineno"> 1593</span> </div>
+<div class="line"><a id="l01594" name="l01594"></a><span class="lineno"> 1594</span>    phytomer_parameters_redbud.inflorescence.flowers_per_peduncle = 1;</div>
+<div class="line"><a id="l01595" name="l01595"></a><span class="lineno"> 1595</span>    phytomer_parameters_redbud.inflorescence.pitch = 0;</div>
+<div class="line"><a id="l01596" name="l01596"></a><span class="lineno"> 1596</span>    phytomer_parameters_redbud.inflorescence.flower_prototype_function = RedbudFlowerPrototype;</div>
+<div class="line"><a id="l01597" name="l01597"></a><span class="lineno"> 1597</span>    phytomer_parameters_redbud.inflorescence.flower_prototype_scale = 0.04;</div>
+<div class="line"><a id="l01598" name="l01598"></a><span class="lineno"> 1598</span>    phytomer_parameters_redbud.inflorescence.fruit_prototype_function = RedbudFruitPrototype;</div>
+<div class="line"><a id="l01599" name="l01599"></a><span class="lineno"> 1599</span>    phytomer_parameters_redbud.inflorescence.fruit_prototype_scale = 0.1;</div>
+<div class="line"><a id="l01600" name="l01600"></a><span class="lineno"> 1600</span>    phytomer_parameters_redbud.inflorescence.fruit_gravity_factor_fraction = 0.7;</div>
+<div class="line"><a id="l01601" name="l01601"></a><span class="lineno"> 1601</span> </div>
+<div class="line"><a id="l01602" name="l01602"></a><span class="lineno"> 1602</span>    phytomer_parameters_redbud.phytomer_creation_function = RedbudPhytomerCreationFunction;</div>
+<div class="line"><a id="l01603" name="l01603"></a><span class="lineno"> 1603</span>    phytomer_parameters_redbud.phytomer_callback_function = RedbudPhytomerCallbackFunction;</div>
+<div class="line"><a id="l01604" name="l01604"></a><span class="lineno"> 1604</span> </div>
+<div class="line"><a id="l01605" name="l01605"></a><span class="lineno"> 1605</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
+<div class="line"><a id="l01606" name="l01606"></a><span class="lineno"> 1606</span> </div>
+<div class="line"><a id="l01607" name="l01607"></a><span class="lineno"> 1607</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_main(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01608" name="l01608"></a><span class="lineno"> 1608</span>    shoot_parameters_main.phytomer_parameters = phytomer_parameters_redbud;</div>
+<div class="line"><a id="l01609" name="l01609"></a><span class="lineno"> 1609</span>    shoot_parameters_main.vegetative_bud_break_probability = 1.0;</div>
+<div class="line"><a id="l01610" name="l01610"></a><span class="lineno"> 1610</span>    shoot_parameters_main.vegetative_bud_break_time = 1;</div>
+<div class="line"><a id="l01611" name="l01611"></a><span class="lineno"> 1611</span>    shoot_parameters_main.phyllochron = 1.5;</div>
+<div class="line"><a id="l01612" name="l01612"></a><span class="lineno"> 1612</span>    shoot_parameters_main.elongation_rate = 0.17;</div>
+<div class="line"><a id="l01613" name="l01613"></a><span class="lineno"> 1613</span>    shoot_parameters_main.girth_area_factor = 5.f;</div>
+<div class="line"><a id="l01614" name="l01614"></a><span class="lineno"> 1614</span>    shoot_parameters_main.gravitropic_curvature = 300;</div>
+<div class="line"><a id="l01615" name="l01615"></a><span class="lineno"> 1615</span>    shoot_parameters_main.tortuosity = 10;</div>
+<div class="line"><a id="l01616" name="l01616"></a><span class="lineno"> 1616</span>    shoot_parameters_main.internode_length_max = 0.04;</div>
+<div class="line"><a id="l01617" name="l01617"></a><span class="lineno"> 1617</span>    shoot_parameters_main.internode_length_decay_rate = 0.005;</div>
+<div class="line"><a id="l01618" name="l01618"></a><span class="lineno"> 1618</span>    shoot_parameters_main.insertion_angle_tip = 75;</div>
+<div class="line"><a id="l01619" name="l01619"></a><span class="lineno"> 1619</span>    shoot_parameters_main.insertion_angle_decay_rate = 10;</div>
+<div class="line"><a id="l01620" name="l01620"></a><span class="lineno"> 1620</span>    shoot_parameters_main.internode_radius_initial = 0.0015;</div>
+<div class="line"><a id="l01621" name="l01621"></a><span class="lineno"> 1621</span>    shoot_parameters_main.internode_radius_max = 0.02;</div>
+<div class="line"><a id="l01622" name="l01622"></a><span class="lineno"> 1622</span>    shoot_parameters_main.flowers_require_dormancy = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l01623" name="l01623"></a><span class="lineno"> 1623</span>    shoot_parameters_main.growth_requires_dormancy = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l01624" name="l01624"></a><span class="lineno"> 1624</span>    shoot_parameters_main.determinate_shoot_growth = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01625" name="l01625"></a><span class="lineno"> 1625</span>    shoot_parameters_main.max_terminal_floral_buds = 0;</div>
+<div class="line"><a id="l01626" name="l01626"></a><span class="lineno"> 1626</span>    shoot_parameters_main.flower_bud_break_probability = 0.8;</div>
+<div class="line"><a id="l01627" name="l01627"></a><span class="lineno"> 1627</span>    shoot_parameters_main.fruit_set_probability = 0.3;</div>
+<div class="line"><a id="l01628" name="l01628"></a><span class="lineno"> 1628</span>    shoot_parameters_main.max_nodes = 30;</div>
+<div class="line"><a id="l01629" name="l01629"></a><span class="lineno"> 1629</span>    shoot_parameters_main.base_roll = 90;</div>
+<div class="line"><a id="l01630" name="l01630"></a><span class="lineno"> 1630</span> </div>
+<div class="line"><a id="l01631" name="l01631"></a><span class="lineno"> 1631</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_trunk = shoot_parameters_main;</div>
+<div class="line"><a id="l01632" name="l01632"></a><span class="lineno"> 1632</span>    shoot_parameters_trunk.phytomer_parameters.internode.pitch = 0;</div>
+<div class="line"><a id="l01633" name="l01633"></a><span class="lineno"> 1633</span>    shoot_parameters_trunk.phytomer_parameters.internode.radial_subdivisions = 15;</div>
+<div class="line"><a id="l01634" name="l01634"></a><span class="lineno"> 1634</span>    shoot_parameters_trunk.phytomer_parameters.internode.max_floral_buds_per_petiole = 0;</div>
+<div class="line"><a id="l01635" name="l01635"></a><span class="lineno"> 1635</span>    shoot_parameters_trunk.internode_radius_max = 1;</div>
+<div class="line"><a id="l01636" name="l01636"></a><span class="lineno"> 1636</span>    shoot_parameters_trunk.phyllochron = 1.25;</div>
+<div class="line"><a id="l01637" name="l01637"></a><span class="lineno"> 1637</span>    shoot_parameters_trunk.insertion_angle_tip = 60;</div>
+<div class="line"><a id="l01638" name="l01638"></a><span class="lineno"> 1638</span>    shoot_parameters_trunk.max_nodes = 45;</div>
+<div class="line"><a id="l01639" name="l01639"></a><span class="lineno"> 1639</span>    shoot_parameters_trunk.tortuosity = 0.5;</div>
+<div class="line"><a id="l01640" name="l01640"></a><span class="lineno"> 1640</span>    shoot_parameters_trunk.defineChildShootTypes({<span class="stringliteral">&quot;eastern_redbud_shoot&quot;</span>},{1.f});</div>
+<div class="line"><a id="l01641" name="l01641"></a><span class="lineno"> 1641</span> </div>
+<div class="line"><a id="l01642" name="l01642"></a><span class="lineno"> 1642</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;eastern_redbud_trunk&quot;</span>, shoot_parameters_trunk);</div>
+<div class="line"><a id="l01643" name="l01643"></a><span class="lineno"> 1643</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;eastern_redbud_shoot&quot;</span>, shoot_parameters_main);</div>
+<div class="line"><a id="l01644" name="l01644"></a><span class="lineno"> 1644</span> </div>
+<div class="line"><a id="l01645" name="l01645"></a><span class="lineno"> 1645</span>}</div>
+<div class="line"><a id="l01646" name="l01646"></a><span class="lineno"> 1646</span> </div>
+<div class="line"><a id="l01647" name="l01647"></a><span class="lineno"> 1647</span>uint PlantArchitecture::buildEasternRedbudPlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
+<div class="line"><a id="l01648" name="l01648"></a><span class="lineno"> 1648</span> </div>
+<div class="line"><a id="l01649" name="l01649"></a><span class="lineno"> 1649</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
+<div class="line"><a id="l01650" name="l01650"></a><span class="lineno"> 1650</span>        <span class="comment">//automatically initialize redbud plant shoots</span></div>
+<div class="line"><a id="l01651" name="l01651"></a><span class="lineno"> 1651</span>        initializeEasternRedbudShoots();</div>
+<div class="line"><a id="l01652" name="l01652"></a><span class="lineno"> 1652</span>    }</div>
+<div class="line"><a id="l01653" name="l01653"></a><span class="lineno"> 1653</span> </div>
+<div class="line"><a id="l01654" name="l01654"></a><span class="lineno"> 1654</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
+<div class="line"><a id="l01655" name="l01655"></a><span class="lineno"> 1655</span> </div>
+<div class="line"><a id="l01656" name="l01656"></a><span class="lineno"> 1656</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 16, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0,0.1*M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0,2*M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0,2*M_PI)), 0.0075, 0.05, 1, 1, 0.4, <span class="stringliteral">&quot;eastern_redbud_trunk&quot;</span>);</div>
+<div class="line"><a id="l01657" name="l01657"></a><span class="lineno"> 1657</span> </div>
+<div class="line"><a id="l01658" name="l01658"></a><span class="lineno"> 1658</span>    makePlantDormant(plantID);</div>
+<div class="line"><a id="l01659" name="l01659"></a><span class="lineno"> 1659</span> </div>
+<div class="line"><a id="l01660" name="l01660"></a><span class="lineno"> 1660</span>    removeShootLeaves( plantID, uID_stem );</div>
+<div class="line"><a id="l01661" name="l01661"></a><span class="lineno"> 1661</span> </div>
+<div class="line"><a id="l01662" name="l01662"></a><span class="lineno"> 1662</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, 1, 3, 3, 12, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l01663" name="l01663"></a><span class="lineno"> 1663</span> </div>
+<div class="line"><a id="l01664" name="l01664"></a><span class="lineno"> 1664</span>    <span class="keywordflow">return</span> plantID;</div>
+<div class="line"><a id="l01665" name="l01665"></a><span class="lineno"> 1665</span> </div>
+<div class="line"><a id="l01666" name="l01666"></a><span class="lineno"> 1666</span>}</div>
+<div class="line"><a id="l01667" name="l01667"></a><span class="lineno"> 1667</span> </div>
+<div class="line"><a id="l01668" name="l01668"></a><span class="lineno"> 1668</span><span class="keywordtype">void</span> PlantArchitecture::initializeRomaineLettuceShoots() {</div>
+<div class="line"><a id="l01669" name="l01669"></a><span class="lineno"> 1669</span> </div>
+<div class="line"><a id="l01670" name="l01670"></a><span class="lineno"> 1670</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
+<div class="line"><a id="l01671" name="l01671"></a><span class="lineno"> 1671</span> </div>
+<div class="line"><a id="l01672" name="l01672"></a><span class="lineno"> 1672</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01673" name="l01673"></a><span class="lineno"> 1673</span> </div>
+<div class="line"><a id="l01674" name="l01674"></a><span class="lineno"> 1674</span>    phytomer_parameters.internode.pitch = 0;</div>
+<div class="line"><a id="l01675" name="l01675"></a><span class="lineno"> 1675</span>    phytomer_parameters.internode.phyllotactic_angle = 137.5;</div>
+<div class="line"><a id="l01676" name="l01676"></a><span class="lineno"> 1676</span>    phytomer_parameters.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.402,0.423,0.413);</div>
+<div class="line"><a id="l01677" name="l01677"></a><span class="lineno"> 1677</span>    phytomer_parameters.internode.length_segments = 1;</div>
+<div class="line"><a id="l01678" name="l01678"></a><span class="lineno"> 1678</span>    phytomer_parameters.internode.radial_subdivisions = 10;</div>
+<div class="line"><a id="l01679" name="l01679"></a><span class="lineno"> 1679</span> </div>
+<div class="line"><a id="l01680" name="l01680"></a><span class="lineno"> 1680</span>    phytomer_parameters.petiole.petioles_per_internode = 1;</div>
+<div class="line"><a id="l01681" name="l01681"></a><span class="lineno"> 1681</span>    phytomer_parameters.petiole.pitch.uniformDistribution(0,30);</div>
+<div class="line"><a id="l01682" name="l01682"></a><span class="lineno"> 1682</span>    phytomer_parameters.petiole.radius = 0.001;</div>
+<div class="line"><a id="l01683" name="l01683"></a><span class="lineno"> 1683</span>    phytomer_parameters.petiole.length = 0.001;</div>
+<div class="line"><a id="l01684" name="l01684"></a><span class="lineno"> 1684</span>    phytomer_parameters.petiole.length_segments = 1;</div>
+<div class="line"><a id="l01685" name="l01685"></a><span class="lineno"> 1685</span>    phytomer_parameters.petiole.radial_subdivisions = 3;</div>
+<div class="line"><a id="l01686" name="l01686"></a><span class="lineno"> 1686</span>    phytomer_parameters.petiole.color = RGB::red;</div>
+<div class="line"><a id="l01687" name="l01687"></a><span class="lineno"> 1687</span> </div>
+<div class="line"><a id="l01688" name="l01688"></a><span class="lineno"> 1688</span>    phytomer_parameters.leaf.leaves_per_petiole = 1;</div>
+<div class="line"><a id="l01689" name="l01689"></a><span class="lineno"> 1689</span>    phytomer_parameters.leaf.pitch = 0;</div>
+<div class="line"><a id="l01690" name="l01690"></a><span class="lineno"> 1690</span>    phytomer_parameters.leaf.yaw = 0;</div>
+<div class="line"><a id="l01691" name="l01691"></a><span class="lineno"> 1691</span>    phytomer_parameters.leaf.roll = 0;</div>
+<div class="line"><a id="l01692" name="l01692"></a><span class="lineno"> 1692</span>    phytomer_parameters.leaf.prototype_function = RomaineLettuceLeafPrototype;</div>
+<div class="line"><a id="l01693" name="l01693"></a><span class="lineno"> 1693</span>    phytomer_parameters.leaf.prototype_scale.uniformDistribution(0.15,0.25);</div>
+<div class="line"><a id="l01694" name="l01694"></a><span class="lineno"> 1694</span>    phytomer_parameters.leaf.subdivisions = 30;</div>
+<div class="line"><a id="l01695" name="l01695"></a><span class="lineno"> 1695</span> </div>
+<div class="line"><a id="l01696" name="l01696"></a><span class="lineno"> 1696</span>    phytomer_parameters.phytomer_creation_function = RomaineLettucePhytomerCreationFunction;</div>
+<div class="line"><a id="l01697" name="l01697"></a><span class="lineno"> 1697</span> </div>
+<div class="line"><a id="l01698" name="l01698"></a><span class="lineno"> 1698</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
+<div class="line"><a id="l01699" name="l01699"></a><span class="lineno"> 1699</span> </div>
+<div class="line"><a id="l01700" name="l01700"></a><span class="lineno"> 1700</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_mainstem(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01701" name="l01701"></a><span class="lineno"> 1701</span>    shoot_parameters_mainstem.phytomer_parameters = phytomer_parameters;</div>
+<div class="line"><a id="l01702" name="l01702"></a><span class="lineno"> 1702</span>    shoot_parameters_mainstem.vegetative_bud_break_probability = 0;</div>
+<div class="line"><a id="l01703" name="l01703"></a><span class="lineno"> 1703</span>    shoot_parameters_mainstem.internode_radius_initial = 0.01;</div>
+<div class="line"><a id="l01704" name="l01704"></a><span class="lineno"> 1704</span>    shoot_parameters_mainstem.phyllochron = 1;</div>
+<div class="line"><a id="l01705" name="l01705"></a><span class="lineno"> 1705</span>    shoot_parameters_mainstem.elongation_rate = 0.15;</div>
+<div class="line"><a id="l01706" name="l01706"></a><span class="lineno"> 1706</span>    shoot_parameters_mainstem.girth_area_factor = 0.f;</div>
+<div class="line"><a id="l01707" name="l01707"></a><span class="lineno"> 1707</span>    shoot_parameters_mainstem.gravitropic_curvature = 10;</div>
+<div class="line"><a id="l01708" name="l01708"></a><span class="lineno"> 1708</span>    shoot_parameters_mainstem.internode_length_max = 0.001;</div>
+<div class="line"><a id="l01709" name="l01709"></a><span class="lineno"> 1709</span>    shoot_parameters_mainstem.internode_length_decay_rate = 0;</div>
+<div class="line"><a id="l01710" name="l01710"></a><span class="lineno"> 1710</span>    shoot_parameters_mainstem.flowers_require_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01711" name="l01711"></a><span class="lineno"> 1711</span>    shoot_parameters_mainstem.growth_requires_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01712" name="l01712"></a><span class="lineno"> 1712</span>    shoot_parameters_mainstem.flower_bud_break_probability = 0.0;</div>
+<div class="line"><a id="l01713" name="l01713"></a><span class="lineno"> 1713</span>    shoot_parameters_mainstem.max_nodes = 25;</div>
+<div class="line"><a id="l01714" name="l01714"></a><span class="lineno"> 1714</span> </div>
+<div class="line"><a id="l01715" name="l01715"></a><span class="lineno"> 1715</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;mainstem&quot;</span>,shoot_parameters_mainstem);</div>
 <div class="line"><a id="l01716" name="l01716"></a><span class="lineno"> 1716</span> </div>
-<div class="line"><a id="l01717" name="l01717"></a><span class="lineno"> 1717</span>}</div>
-<div class="line"><a id="l01718" name="l01718"></a><span class="lineno"> 1718</span> </div>
-<div class="line"><a id="l01719" name="l01719"></a><span class="lineno"> 1719</span>uint PlantArchitecture::buildRomaineLettucePlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
-<div class="line"><a id="l01720" name="l01720"></a><span class="lineno"> 1720</span> </div>
-<div class="line"><a id="l01721" name="l01721"></a><span class="lineno"> 1721</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
-<div class="line"><a id="l01722" name="l01722"></a><span class="lineno"> 1722</span>        <span class="comment">//automatically initialize sugarbeet plant shoots</span></div>
-<div class="line"><a id="l01723" name="l01723"></a><span class="lineno"> 1723</span>        initializeSugarbeetShoots();</div>
-<div class="line"><a id="l01724" name="l01724"></a><span class="lineno"> 1724</span>    }</div>
-<div class="line"><a id="l01725" name="l01725"></a><span class="lineno"> 1725</span> </div>
-<div class="line"><a id="l01726" name="l01726"></a><span class="lineno"> 1726</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
-<div class="line"><a id="l01727" name="l01727"></a><span class="lineno"> 1727</span> </div>
-<div class="line"><a id="l01728" name="l01728"></a><span class="lineno"> 1728</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 3, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 0.03f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), 0.25f * M_PI), 0.005, 0.001, 1, 1, 0, <span class="stringliteral">&quot;mainstem&quot;</span>);</div>
-<div class="line"><a id="l01729" name="l01729"></a><span class="lineno"> 1729</span> </div>
-<div class="line"><a id="l01730" name="l01730"></a><span class="lineno"> 1730</span>    breakPlantDormancy(plantID);</div>
-<div class="line"><a id="l01731" name="l01731"></a><span class="lineno"> 1731</span> </div>
-<div class="line"><a id="l01732" name="l01732"></a><span class="lineno"> 1732</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, 1000, 10, 60, 5, 100, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l01733" name="l01733"></a><span class="lineno"> 1733</span> </div>
-<div class="line"><a id="l01734" name="l01734"></a><span class="lineno"> 1734</span>    <span class="keywordflow">return</span> plantID;</div>
-<div class="line"><a id="l01735" name="l01735"></a><span class="lineno"> 1735</span> </div>
-<div class="line"><a id="l01736" name="l01736"></a><span class="lineno"> 1736</span>}</div>
-<div class="line"><a id="l01737" name="l01737"></a><span class="lineno"> 1737</span> </div>
-<div class="line"><a id="l01738" name="l01738"></a><span class="lineno"> 1738</span><span class="keywordtype">void</span> PlantArchitecture::initializeSorghumShoots() {</div>
-<div class="line"><a id="l01739" name="l01739"></a><span class="lineno"> 1739</span> </div>
-<div class="line"><a id="l01740" name="l01740"></a><span class="lineno"> 1740</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
-<div class="line"><a id="l01741" name="l01741"></a><span class="lineno"> 1741</span> </div>
-<div class="line"><a id="l01742" name="l01742"></a><span class="lineno"> 1742</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_sorghum(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01743" name="l01743"></a><span class="lineno"> 1743</span> </div>
-<div class="line"><a id="l01744" name="l01744"></a><span class="lineno"> 1744</span>    phytomer_parameters_sorghum.internode.pitch = 0;</div>
-<div class="line"><a id="l01745" name="l01745"></a><span class="lineno"> 1745</span>    phytomer_parameters_sorghum.internode.phyllotactic_angle.uniformDistribution(170,190);</div>
-<div class="line"><a id="l01746" name="l01746"></a><span class="lineno"> 1746</span>    phytomer_parameters_sorghum.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.09,0.13,0.06);</div>
-<div class="line"><a id="l01747" name="l01747"></a><span class="lineno"> 1747</span>    phytomer_parameters_sorghum.internode.length_segments = 2;</div>
-<div class="line"><a id="l01748" name="l01748"></a><span class="lineno"> 1748</span>    phytomer_parameters_sorghum.internode.radial_subdivisions = 10;</div>
-<div class="line"><a id="l01749" name="l01749"></a><span class="lineno"> 1749</span>    phytomer_parameters_sorghum.internode.max_floral_buds_per_petiole = 0;</div>
-<div class="line"><a id="l01750" name="l01750"></a><span class="lineno"> 1750</span>    phytomer_parameters_sorghum.internode.max_vegetative_buds_per_petiole = 0;</div>
-<div class="line"><a id="l01751" name="l01751"></a><span class="lineno"> 1751</span> </div>
-<div class="line"><a id="l01752" name="l01752"></a><span class="lineno"> 1752</span>    phytomer_parameters_sorghum.petiole.petioles_per_internode = 1;</div>
-<div class="line"><a id="l01753" name="l01753"></a><span class="lineno"> 1753</span>    phytomer_parameters_sorghum.petiole.pitch.uniformDistribution(-40,-20);</div>
-<div class="line"><a id="l01754" name="l01754"></a><span class="lineno"> 1754</span>    phytomer_parameters_sorghum.petiole.radius = 0.0;</div>
-<div class="line"><a id="l01755" name="l01755"></a><span class="lineno"> 1755</span>    phytomer_parameters_sorghum.petiole.length = 0.05;</div>
-<div class="line"><a id="l01756" name="l01756"></a><span class="lineno"> 1756</span>    phytomer_parameters_sorghum.petiole.taper = 0;</div>
-<div class="line"><a id="l01757" name="l01757"></a><span class="lineno"> 1757</span>    phytomer_parameters_sorghum.petiole.curvature = 0;</div>
-<div class="line"><a id="l01758" name="l01758"></a><span class="lineno"> 1758</span>    phytomer_parameters_sorghum.petiole.length_segments = 1;</div>
-<div class="line"><a id="l01759" name="l01759"></a><span class="lineno"> 1759</span> </div>
-<div class="line"><a id="l01760" name="l01760"></a><span class="lineno"> 1760</span>    phytomer_parameters_sorghum.leaf.leaves_per_petiole = 1;</div>
-<div class="line"><a id="l01761" name="l01761"></a><span class="lineno"> 1761</span>    phytomer_parameters_sorghum.leaf.pitch = 0;</div>
-<div class="line"><a id="l01762" name="l01762"></a><span class="lineno"> 1762</span>    phytomer_parameters_sorghum.leaf.yaw = 0;</div>
-<div class="line"><a id="l01763" name="l01763"></a><span class="lineno"> 1763</span>    phytomer_parameters_sorghum.leaf.roll = 0;</div>
-<div class="line"><a id="l01764" name="l01764"></a><span class="lineno"> 1764</span>    phytomer_parameters_sorghum.leaf.prototype_function = SorghumLeafPrototype;</div>
-<div class="line"><a id="l01765" name="l01765"></a><span class="lineno"> 1765</span>    phytomer_parameters_sorghum.leaf.prototype_scale = 0.6;</div>
-<div class="line"><a id="l01766" name="l01766"></a><span class="lineno"> 1766</span>    phytomer_parameters_sorghum.leaf.subdivisions = 50;</div>
-<div class="line"><a id="l01767" name="l01767"></a><span class="lineno"> 1767</span>    phytomer_parameters_sorghum.leaf.unique_prototypes = 10;</div>
-<div class="line"><a id="l01768" name="l01768"></a><span class="lineno"> 1768</span> </div>
-<div class="line"><a id="l01769" name="l01769"></a><span class="lineno"> 1769</span>    phytomer_parameters_sorghum.peduncle.length = 0.3;</div>
-<div class="line"><a id="l01770" name="l01770"></a><span class="lineno"> 1770</span>    phytomer_parameters_sorghum.peduncle.radius = 0.008;</div>
-<div class="line"><a id="l01771" name="l01771"></a><span class="lineno"> 1771</span>    phytomer_parameters_sorghum.peduncle.color = phytomer_parameters_sorghum.internode.color;</div>
-<div class="line"><a id="l01772" name="l01772"></a><span class="lineno"> 1772</span>    phytomer_parameters_sorghum.peduncle.radial_subdivisions = 10;</div>
-<div class="line"><a id="l01773" name="l01773"></a><span class="lineno"> 1773</span> </div>
-<div class="line"><a id="l01774" name="l01774"></a><span class="lineno"> 1774</span>    phytomer_parameters_sorghum.inflorescence.flowers_per_peduncle = 1;</div>
-<div class="line"><a id="l01775" name="l01775"></a><span class="lineno"> 1775</span>    phytomer_parameters_sorghum.inflorescence.pitch = 0;</div>
-<div class="line"><a id="l01776" name="l01776"></a><span class="lineno"> 1776</span>    phytomer_parameters_sorghum.inflorescence.roll = 0;</div>
-<div class="line"><a id="l01777" name="l01777"></a><span class="lineno"> 1777</span>    phytomer_parameters_sorghum.inflorescence.fruit_prototype_scale = 0.16;</div>
-<div class="line"><a id="l01778" name="l01778"></a><span class="lineno"> 1778</span>    phytomer_parameters_sorghum.inflorescence.fruit_prototype_function = SorghumPaniclePrototype;</div>
-<div class="line"><a id="l01779" name="l01779"></a><span class="lineno"> 1779</span> </div>
-<div class="line"><a id="l01780" name="l01780"></a><span class="lineno"> 1780</span>    phytomer_parameters_sorghum.phytomer_creation_function = SorghumPhytomerCreationFunction;</div>
-<div class="line"><a id="l01781" name="l01781"></a><span class="lineno"> 1781</span> </div>
-<div class="line"><a id="l01782" name="l01782"></a><span class="lineno"> 1782</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
-<div class="line"><a id="l01783" name="l01783"></a><span class="lineno"> 1783</span> </div>
-<div class="line"><a id="l01784" name="l01784"></a><span class="lineno"> 1784</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_mainstem(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01785" name="l01785"></a><span class="lineno"> 1785</span>    shoot_parameters_mainstem.phytomer_parameters = phytomer_parameters_sorghum;</div>
-<div class="line"><a id="l01786" name="l01786"></a><span class="lineno"> 1786</span>    shoot_parameters_mainstem.vegetative_bud_break_probability = 0;</div>
-<div class="line"><a id="l01787" name="l01787"></a><span class="lineno"> 1787</span>    shoot_parameters_mainstem.flower_bud_break_probability = 1;</div>
-<div class="line"><a id="l01788" name="l01788"></a><span class="lineno"> 1788</span>    shoot_parameters_mainstem.internode_radius_initial = 0.003;</div>
-<div class="line"><a id="l01789" name="l01789"></a><span class="lineno"> 1789</span>    shoot_parameters_mainstem.phyllochron = 1;</div>
-<div class="line"><a id="l01790" name="l01790"></a><span class="lineno"> 1790</span>    shoot_parameters_mainstem.elongation_rate = 0.15;</div>
-<div class="line"><a id="l01791" name="l01791"></a><span class="lineno"> 1791</span>    shoot_parameters_mainstem.girth_area_factor = 5.f;</div>
-<div class="line"><a id="l01792" name="l01792"></a><span class="lineno"> 1792</span>    shoot_parameters_mainstem.internode_radius_max = 0.015;</div>
-<div class="line"><a id="l01793" name="l01793"></a><span class="lineno"> 1793</span>    shoot_parameters_mainstem.gravitropic_curvature.uniformDistribution(-1000,-400);</div>
-<div class="line"><a id="l01794" name="l01794"></a><span class="lineno"> 1794</span>    shoot_parameters_mainstem.internode_length_max = 0.26;</div>
-<div class="line"><a id="l01795" name="l01795"></a><span class="lineno"> 1795</span>    shoot_parameters_mainstem.internode_length_decay_rate = 0;</div>
-<div class="line"><a id="l01796" name="l01796"></a><span class="lineno"> 1796</span>    shoot_parameters_mainstem.flowers_require_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01797" name="l01797"></a><span class="lineno"> 1797</span>    shoot_parameters_mainstem.growth_requires_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01798" name="l01798"></a><span class="lineno"> 1798</span>    shoot_parameters_mainstem.determinate_shoot_growth = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01799" name="l01799"></a><span class="lineno"> 1799</span>    shoot_parameters_mainstem.flower_bud_break_probability = 1.0;</div>
-<div class="line"><a id="l01800" name="l01800"></a><span class="lineno"> 1800</span>    shoot_parameters_mainstem.fruit_set_probability  = 1.0;</div>
-<div class="line"><a id="l01801" name="l01801"></a><span class="lineno"> 1801</span>    shoot_parameters_mainstem.defineChildShootTypes({<span class="stringliteral">&quot;mainstem&quot;</span>},{1.0});</div>
-<div class="line"><a id="l01802" name="l01802"></a><span class="lineno"> 1802</span>    shoot_parameters_mainstem.max_nodes = 15;</div>
-<div class="line"><a id="l01803" name="l01803"></a><span class="lineno"> 1803</span>    shoot_parameters_mainstem.max_terminal_floral_buds = 1;</div>
-<div class="line"><a id="l01804" name="l01804"></a><span class="lineno"> 1804</span> </div>
-<div class="line"><a id="l01805" name="l01805"></a><span class="lineno"> 1805</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;mainstem&quot;</span>,shoot_parameters_mainstem);</div>
-<div class="line"><a id="l01806" name="l01806"></a><span class="lineno"> 1806</span> </div>
-<div class="line"><a id="l01807" name="l01807"></a><span class="lineno"> 1807</span>}</div>
-<div class="line"><a id="l01808" name="l01808"></a><span class="lineno"> 1808</span> </div>
-<div class="line"><a id="l01809" name="l01809"></a><span class="lineno"> 1809</span>uint PlantArchitecture::buildSorghumPlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
-<div class="line"><a id="l01810" name="l01810"></a><span class="lineno"> 1810</span> </div>
-<div class="line"><a id="l01811" name="l01811"></a><span class="lineno"> 1811</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
-<div class="line"><a id="l01812" name="l01812"></a><span class="lineno"> 1812</span>        <span class="comment">//automatically initialize sorghum plant shoots</span></div>
-<div class="line"><a id="l01813" name="l01813"></a><span class="lineno"> 1813</span>        initializeSorghumShoots();</div>
-<div class="line"><a id="l01814" name="l01814"></a><span class="lineno"> 1814</span>    }</div>
-<div class="line"><a id="l01815" name="l01815"></a><span class="lineno"> 1815</span> </div>
-<div class="line"><a id="l01816" name="l01816"></a><span class="lineno"> 1816</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position - <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,0.025), 0);</div>
-<div class="line"><a id="l01817" name="l01817"></a><span class="lineno"> 1817</span> </div>
-<div class="line"><a id="l01818" name="l01818"></a><span class="lineno"> 1818</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 1, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 0.075f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI)), 0.003, 0.06, 0.01, 0.01, 0, <span class="stringliteral">&quot;mainstem&quot;</span>);</div>
-<div class="line"><a id="l01819" name="l01819"></a><span class="lineno"> 1819</span> </div>
-<div class="line"><a id="l01820" name="l01820"></a><span class="lineno"> 1820</span>    breakPlantDormancy(plantID);</div>
-<div class="line"><a id="l01821" name="l01821"></a><span class="lineno"> 1821</span> </div>
-<div class="line"><a id="l01822" name="l01822"></a><span class="lineno"> 1822</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, -1, 2, 5, 100, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l01823" name="l01823"></a><span class="lineno"> 1823</span> </div>
-<div class="line"><a id="l01824" name="l01824"></a><span class="lineno"> 1824</span>    <span class="keywordflow">return</span> plantID;</div>
-<div class="line"><a id="l01825" name="l01825"></a><span class="lineno"> 1825</span> </div>
-<div class="line"><a id="l01826" name="l01826"></a><span class="lineno"> 1826</span>}</div>
-<div class="line"><a id="l01827" name="l01827"></a><span class="lineno"> 1827</span> </div>
-<div class="line"><a id="l01828" name="l01828"></a><span class="lineno"> 1828</span><span class="keywordtype">void</span> PlantArchitecture::initializeSoybeanShoots() {</div>
-<div class="line"><a id="l01829" name="l01829"></a><span class="lineno"> 1829</span> </div>
-<div class="line"><a id="l01830" name="l01830"></a><span class="lineno"> 1830</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_trifoliate(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01831" name="l01831"></a><span class="lineno"> 1831</span> </div>
-<div class="line"><a id="l01832" name="l01832"></a><span class="lineno"> 1832</span>    phytomer_parameters_trifoliate.internode.pitch = 20;</div>
-<div class="line"><a id="l01833" name="l01833"></a><span class="lineno"> 1833</span>    phytomer_parameters_trifoliate.internode.phyllotactic_angle.uniformDistribution(145, 215);</div>
-<div class="line"><a id="l01834" name="l01834"></a><span class="lineno"> 1834</span>    phytomer_parameters_trifoliate.internode.max_floral_buds_per_petiole = 1;</div>
-<div class="line"><a id="l01835" name="l01835"></a><span class="lineno"> 1835</span>    phytomer_parameters_trifoliate.internode.max_vegetative_buds_per_petiole = 1;</div>
-<div class="line"><a id="l01836" name="l01836"></a><span class="lineno"> 1836</span>    phytomer_parameters_trifoliate.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.2,0.25,0.05);</div>
-<div class="line"><a id="l01837" name="l01837"></a><span class="lineno"> 1837</span>    phytomer_parameters_trifoliate.internode.length_segments = 5;</div>
-<div class="line"><a id="l01838" name="l01838"></a><span class="lineno"> 1838</span> </div>
-<div class="line"><a id="l01839" name="l01839"></a><span class="lineno"> 1839</span>    phytomer_parameters_trifoliate.petiole.petioles_per_internode = 1;</div>
-<div class="line"><a id="l01840" name="l01840"></a><span class="lineno"> 1840</span>    phytomer_parameters_trifoliate.petiole.pitch.uniformDistribution(25,50);</div>
-<div class="line"><a id="l01841" name="l01841"></a><span class="lineno"> 1841</span>    phytomer_parameters_trifoliate.petiole.radius = 0.003;</div>
-<div class="line"><a id="l01842" name="l01842"></a><span class="lineno"> 1842</span>    phytomer_parameters_trifoliate.petiole.length.uniformDistribution(0.12,0.16);</div>
-<div class="line"><a id="l01843" name="l01843"></a><span class="lineno"> 1843</span>    phytomer_parameters_trifoliate.petiole.taper = 0.25;</div>
-<div class="line"><a id="l01844" name="l01844"></a><span class="lineno"> 1844</span>    phytomer_parameters_trifoliate.petiole.curvature.uniformDistribution(-250,450);</div>
-<div class="line"><a id="l01845" name="l01845"></a><span class="lineno"> 1845</span>    phytomer_parameters_trifoliate.petiole.color = phytomer_parameters_trifoliate.internode.color;</div>
-<div class="line"><a id="l01846" name="l01846"></a><span class="lineno"> 1846</span>    phytomer_parameters_trifoliate.petiole.length_segments = 5;</div>
-<div class="line"><a id="l01847" name="l01847"></a><span class="lineno"> 1847</span>    phytomer_parameters_trifoliate.petiole.radial_subdivisions = 6;</div>
-<div class="line"><a id="l01848" name="l01848"></a><span class="lineno"> 1848</span> </div>
-<div class="line"><a id="l01849" name="l01849"></a><span class="lineno"> 1849</span>    phytomer_parameters_trifoliate.leaf.leaves_per_petiole = 3;</div>
-<div class="line"><a id="l01850" name="l01850"></a><span class="lineno"> 1850</span>    phytomer_parameters_trifoliate.leaf.pitch.uniformDistribution(-10, 20);</div>
-<div class="line"><a id="l01851" name="l01851"></a><span class="lineno"> 1851</span>    phytomer_parameters_trifoliate.leaf.yaw = 10;</div>
-<div class="line"><a id="l01852" name="l01852"></a><span class="lineno"> 1852</span>    phytomer_parameters_trifoliate.leaf.roll = -15;</div>
-<div class="line"><a id="l01853" name="l01853"></a><span class="lineno"> 1853</span>    phytomer_parameters_trifoliate.leaf.leaflet_offset = 0.5;</div>
-<div class="line"><a id="l01854" name="l01854"></a><span class="lineno"> 1854</span>    phytomer_parameters_trifoliate.leaf.leaflet_scale = 0.9;</div>
-<div class="line"><a id="l01855" name="l01855"></a><span class="lineno"> 1855</span>    phytomer_parameters_trifoliate.leaf.prototype_function = SoybeanLeafPrototype_trifoliate;</div>
-<div class="line"><a id="l01856" name="l01856"></a><span class="lineno"> 1856</span>    phytomer_parameters_trifoliate.leaf.prototype_scale.uniformDistribution(0.12,0.16);</div>
-<div class="line"><a id="l01857" name="l01857"></a><span class="lineno"> 1857</span>    phytomer_parameters_trifoliate.leaf.subdivisions = 8;</div>
-<div class="line"><a id="l01858" name="l01858"></a><span class="lineno"> 1858</span>    phytomer_parameters_trifoliate.leaf.unique_prototypes = 5;</div>
-<div class="line"><a id="l01859" name="l01859"></a><span class="lineno"> 1859</span> </div>
-<div class="line"><a id="l01860" name="l01860"></a><span class="lineno"> 1860</span>    phytomer_parameters_trifoliate.peduncle.length = 0.01;</div>
-<div class="line"><a id="l01861" name="l01861"></a><span class="lineno"> 1861</span>    phytomer_parameters_trifoliate.peduncle.radius = 0.001;</div>
-<div class="line"><a id="l01862" name="l01862"></a><span class="lineno"> 1862</span>    phytomer_parameters_trifoliate.peduncle.pitch.uniformDistribution(0, 40);</div>
-<div class="line"><a id="l01863" name="l01863"></a><span class="lineno"> 1863</span>    phytomer_parameters_trifoliate.peduncle.roll = 90;</div>
-<div class="line"><a id="l01864" name="l01864"></a><span class="lineno"> 1864</span>    phytomer_parameters_trifoliate.peduncle.curvature.uniformDistribution(-500, 500);</div>
-<div class="line"><a id="l01865" name="l01865"></a><span class="lineno"> 1865</span>    phytomer_parameters_trifoliate.peduncle.length_segments = 1;</div>
-<div class="line"><a id="l01866" name="l01866"></a><span class="lineno"> 1866</span>    phytomer_parameters_trifoliate.peduncle.radial_subdivisions = 6;</div>
-<div class="line"><a id="l01867" name="l01867"></a><span class="lineno"> 1867</span> </div>
-<div class="line"><a id="l01868" name="l01868"></a><span class="lineno"> 1868</span>    phytomer_parameters_trifoliate.inflorescence.flowers_per_peduncle.uniformDistribution(1, 4);</div>
-<div class="line"><a id="l01869" name="l01869"></a><span class="lineno"> 1869</span>    phytomer_parameters_trifoliate.inflorescence.flower_offset = 0.2;</div>
-<div class="line"><a id="l01870" name="l01870"></a><span class="lineno"> 1870</span>    phytomer_parameters_trifoliate.inflorescence.pitch.uniformDistribution(50,70);</div>
-<div class="line"><a id="l01871" name="l01871"></a><span class="lineno"> 1871</span>    phytomer_parameters_trifoliate.inflorescence.roll.uniformDistribution(-20,20);</div>
-<div class="line"><a id="l01872" name="l01872"></a><span class="lineno"> 1872</span>    phytomer_parameters_trifoliate.inflorescence.flower_prototype_scale = 0.015;</div>
-<div class="line"><a id="l01873" name="l01873"></a><span class="lineno"> 1873</span>    phytomer_parameters_trifoliate.inflorescence.flower_prototype_function = SoybeanFlowerPrototype;</div>
-<div class="line"><a id="l01874" name="l01874"></a><span class="lineno"> 1874</span>    phytomer_parameters_trifoliate.inflorescence.fruit_prototype_scale.uniformDistribution(0.08,0.1);</div>
-<div class="line"><a id="l01875" name="l01875"></a><span class="lineno"> 1875</span>    phytomer_parameters_trifoliate.inflorescence.fruit_prototype_function = SoybeanFruitPrototype;</div>
-<div class="line"><a id="l01876" name="l01876"></a><span class="lineno"> 1876</span>    phytomer_parameters_trifoliate.inflorescence.fruit_gravity_factor_fraction.uniformDistribution(0.8,1.0);</div>
-<div class="line"><a id="l01877" name="l01877"></a><span class="lineno"> 1877</span> </div>
-<div class="line"><a id="l01878" name="l01878"></a><span class="lineno"> 1878</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_unifoliate = phytomer_parameters_trifoliate;</div>
-<div class="line"><a id="l01879" name="l01879"></a><span class="lineno"> 1879</span>    phytomer_parameters_unifoliate.internode.pitch = 0;</div>
-<div class="line"><a id="l01880" name="l01880"></a><span class="lineno"> 1880</span>    phytomer_parameters_unifoliate.internode.max_vegetative_buds_per_petiole = 0;</div>
-<div class="line"><a id="l01881" name="l01881"></a><span class="lineno"> 1881</span>    phytomer_parameters_unifoliate.internode.max_floral_buds_per_petiole = 0;</div>
-<div class="line"><a id="l01882" name="l01882"></a><span class="lineno"> 1882</span>    phytomer_parameters_unifoliate.petiole.petioles_per_internode = 2;</div>
-<div class="line"><a id="l01883" name="l01883"></a><span class="lineno"> 1883</span>    phytomer_parameters_unifoliate.petiole.length = 0.01;</div>
-<div class="line"><a id="l01884" name="l01884"></a><span class="lineno"> 1884</span>    phytomer_parameters_unifoliate.petiole.radius = 0.001;</div>
-<div class="line"><a id="l01885" name="l01885"></a><span class="lineno"> 1885</span>    phytomer_parameters_unifoliate.petiole.pitch.uniformDistribution(60,80);</div>
-<div class="line"><a id="l01886" name="l01886"></a><span class="lineno"> 1886</span>    phytomer_parameters_unifoliate.leaf.leaves_per_petiole = 1;</div>
-<div class="line"><a id="l01887" name="l01887"></a><span class="lineno"> 1887</span>    phytomer_parameters_unifoliate.leaf.prototype_scale = 0.02;</div>
-<div class="line"><a id="l01888" name="l01888"></a><span class="lineno"> 1888</span>    phytomer_parameters_unifoliate.leaf.pitch.uniformDistribution(-10, 10);</div>
-<div class="line"><a id="l01889" name="l01889"></a><span class="lineno"> 1889</span>    phytomer_parameters_unifoliate.leaf.prototype_function = SoybeanLeafPrototype_unifoliate;</div>
-<div class="line"><a id="l01890" name="l01890"></a><span class="lineno"> 1890</span> </div>
-<div class="line"><a id="l01891" name="l01891"></a><span class="lineno"> 1891</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
-<div class="line"><a id="l01892" name="l01892"></a><span class="lineno"> 1892</span> </div>
-<div class="line"><a id="l01893" name="l01893"></a><span class="lineno"> 1893</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_trifoliate(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l01894" name="l01894"></a><span class="lineno"> 1894</span>    shoot_parameters_trifoliate.phytomer_parameters = phytomer_parameters_trifoliate;</div>
-<div class="line"><a id="l01895" name="l01895"></a><span class="lineno"> 1895</span>    shoot_parameters_trifoliate.phytomer_parameters.phytomer_creation_function = BeanPhytomerCreationFunction;</div>
-<div class="line"><a id="l01896" name="l01896"></a><span class="lineno"> 1896</span> </div>
-<div class="line"><a id="l01897" name="l01897"></a><span class="lineno"> 1897</span>    shoot_parameters_trifoliate.max_nodes = 20;</div>
-<div class="line"><a id="l01898" name="l01898"></a><span class="lineno"> 1898</span>    shoot_parameters_trifoliate.internode_radius_initial = 0.001;</div>
-<div class="line"><a id="l01899" name="l01899"></a><span class="lineno"> 1899</span>    shoot_parameters_trifoliate.internode_radius_max = 0.004;</div>
-<div class="line"><a id="l01900" name="l01900"></a><span class="lineno"> 1900</span>    shoot_parameters_trifoliate.insertion_angle_tip.uniformDistribution(40,60);</div>
-<div class="line"><a id="l01901" name="l01901"></a><span class="lineno"> 1901</span><span class="comment">//    shoot_parameters_trifoliate.child_insertion_angle_decay_rate = 0; (default)</span></div>
-<div class="line"><a id="l01902" name="l01902"></a><span class="lineno"> 1902</span>    shoot_parameters_trifoliate.internode_length_max = 0.035;</div>
-<div class="line"><a id="l01903" name="l01903"></a><span class="lineno"> 1903</span><span class="comment">//    shoot_parameters_trifoliate.child_internode_length_min = 0.0; (default)</span></div>
-<div class="line"><a id="l01904" name="l01904"></a><span class="lineno"> 1904</span><span class="comment">//    shoot_parameters_trifoliate.child_internode_length_decay_rate = 0; (default)</span></div>
-<div class="line"><a id="l01905" name="l01905"></a><span class="lineno"> 1905</span>    shoot_parameters_trifoliate.base_roll = 90;</div>
-<div class="line"><a id="l01906" name="l01906"></a><span class="lineno"> 1906</span>    shoot_parameters_trifoliate.base_yaw.uniformDistribution(-20,20);</div>
-<div class="line"><a id="l01907" name="l01907"></a><span class="lineno"> 1907</span>    shoot_parameters_trifoliate.gravitropic_curvature = 200;</div>
-<div class="line"><a id="l01908" name="l01908"></a><span class="lineno"> 1908</span> </div>
-<div class="line"><a id="l01909" name="l01909"></a><span class="lineno"> 1909</span>    shoot_parameters_trifoliate.phyllochron = 1;</div>
-<div class="line"><a id="l01910" name="l01910"></a><span class="lineno"> 1910</span><span class="comment">//    shoot_parameters_trifoliate.leaf_flush_count = 1; (default)</span></div>
-<div class="line"><a id="l01911" name="l01911"></a><span class="lineno"> 1911</span>    shoot_parameters_trifoliate.elongation_rate = 0.15;</div>
-<div class="line"><a id="l01912" name="l01912"></a><span class="lineno"> 1912</span>    shoot_parameters_trifoliate.girth_area_factor = 25.f;</div>
-<div class="line"><a id="l01913" name="l01913"></a><span class="lineno"> 1913</span>    shoot_parameters_trifoliate.vegetative_bud_break_time = 3;</div>
-<div class="line"><a id="l01914" name="l01914"></a><span class="lineno"> 1914</span>    shoot_parameters_trifoliate.vegetative_bud_break_probability = 0.25;</div>
-<div class="line"><a id="l01915" name="l01915"></a><span class="lineno"> 1915</span><span class="comment">//    shoot_parameters_trifoliate.max_terminal_floral_buds = 0; (default)</span></div>
-<div class="line"><a id="l01916" name="l01916"></a><span class="lineno"> 1916</span>    shoot_parameters_trifoliate.flower_bud_break_probability.uniformDistribution(0.8,1.0);</div>
-<div class="line"><a id="l01917" name="l01917"></a><span class="lineno"> 1917</span>    shoot_parameters_trifoliate.fruit_set_probability = 0.4;</div>
-<div class="line"><a id="l01918" name="l01918"></a><span class="lineno"> 1918</span><span class="comment">//    shoot_parameters_trifoliate.flowers_require_dormancy = false; (default)</span></div>
-<div class="line"><a id="l01919" name="l01919"></a><span class="lineno"> 1919</span><span class="comment">//    shoot_parameters_trifoliate.growth_requires_dormancy = false; (default)</span></div>
-<div class="line"><a id="l01920" name="l01920"></a><span class="lineno"> 1920</span><span class="comment">//    shoot_parameters_trifoliate.determinate_shoot_growth = true; (default)</span></div>
-<div class="line"><a id="l01921" name="l01921"></a><span class="lineno"> 1921</span> </div>
-<div class="line"><a id="l01922" name="l01922"></a><span class="lineno"> 1922</span>    shoot_parameters_trifoliate.defineChildShootTypes({<span class="stringliteral">&quot;trifoliate&quot;</span>},{1.0});</div>
-<div class="line"><a id="l01923" name="l01923"></a><span class="lineno"> 1923</span> </div>
+<div class="line"><a id="l01717" name="l01717"></a><span class="lineno"> 1717</span> </div>
+<div class="line"><a id="l01718" name="l01718"></a><span class="lineno"> 1718</span>}</div>
+<div class="line"><a id="l01719" name="l01719"></a><span class="lineno"> 1719</span> </div>
+<div class="line"><a id="l01720" name="l01720"></a><span class="lineno"> 1720</span>uint PlantArchitecture::buildRomaineLettucePlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
+<div class="line"><a id="l01721" name="l01721"></a><span class="lineno"> 1721</span> </div>
+<div class="line"><a id="l01722" name="l01722"></a><span class="lineno"> 1722</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
+<div class="line"><a id="l01723" name="l01723"></a><span class="lineno"> 1723</span>        <span class="comment">//automatically initialize sugarbeet plant shoots</span></div>
+<div class="line"><a id="l01724" name="l01724"></a><span class="lineno"> 1724</span>        initializeSugarbeetShoots();</div>
+<div class="line"><a id="l01725" name="l01725"></a><span class="lineno"> 1725</span>    }</div>
+<div class="line"><a id="l01726" name="l01726"></a><span class="lineno"> 1726</span> </div>
+<div class="line"><a id="l01727" name="l01727"></a><span class="lineno"> 1727</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
+<div class="line"><a id="l01728" name="l01728"></a><span class="lineno"> 1728</span> </div>
+<div class="line"><a id="l01729" name="l01729"></a><span class="lineno"> 1729</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 3, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 0.03f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), 0.25f * M_PI), 0.005, 0.001, 1, 1, 0, <span class="stringliteral">&quot;mainstem&quot;</span>);</div>
+<div class="line"><a id="l01730" name="l01730"></a><span class="lineno"> 1730</span> </div>
+<div class="line"><a id="l01731" name="l01731"></a><span class="lineno"> 1731</span>    breakPlantDormancy(plantID);</div>
+<div class="line"><a id="l01732" name="l01732"></a><span class="lineno"> 1732</span> </div>
+<div class="line"><a id="l01733" name="l01733"></a><span class="lineno"> 1733</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, 1000, 10, 60, 5, 100, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l01734" name="l01734"></a><span class="lineno"> 1734</span> </div>
+<div class="line"><a id="l01735" name="l01735"></a><span class="lineno"> 1735</span>    <span class="keywordflow">return</span> plantID;</div>
+<div class="line"><a id="l01736" name="l01736"></a><span class="lineno"> 1736</span> </div>
+<div class="line"><a id="l01737" name="l01737"></a><span class="lineno"> 1737</span>}</div>
+<div class="line"><a id="l01738" name="l01738"></a><span class="lineno"> 1738</span> </div>
+<div class="line"><a id="l01739" name="l01739"></a><span class="lineno"> 1739</span><span class="keywordtype">void</span> PlantArchitecture::initializeSorghumShoots() {</div>
+<div class="line"><a id="l01740" name="l01740"></a><span class="lineno"> 1740</span> </div>
+<div class="line"><a id="l01741" name="l01741"></a><span class="lineno"> 1741</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
+<div class="line"><a id="l01742" name="l01742"></a><span class="lineno"> 1742</span> </div>
+<div class="line"><a id="l01743" name="l01743"></a><span class="lineno"> 1743</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_sorghum(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01744" name="l01744"></a><span class="lineno"> 1744</span> </div>
+<div class="line"><a id="l01745" name="l01745"></a><span class="lineno"> 1745</span>    phytomer_parameters_sorghum.internode.pitch = 0;</div>
+<div class="line"><a id="l01746" name="l01746"></a><span class="lineno"> 1746</span>    phytomer_parameters_sorghum.internode.phyllotactic_angle.uniformDistribution(170,190);</div>
+<div class="line"><a id="l01747" name="l01747"></a><span class="lineno"> 1747</span>    phytomer_parameters_sorghum.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.09,0.13,0.06);</div>
+<div class="line"><a id="l01748" name="l01748"></a><span class="lineno"> 1748</span>    phytomer_parameters_sorghum.internode.length_segments = 2;</div>
+<div class="line"><a id="l01749" name="l01749"></a><span class="lineno"> 1749</span>    phytomer_parameters_sorghum.internode.radial_subdivisions = 10;</div>
+<div class="line"><a id="l01750" name="l01750"></a><span class="lineno"> 1750</span>    phytomer_parameters_sorghum.internode.max_floral_buds_per_petiole = 0;</div>
+<div class="line"><a id="l01751" name="l01751"></a><span class="lineno"> 1751</span>    phytomer_parameters_sorghum.internode.max_vegetative_buds_per_petiole = 0;</div>
+<div class="line"><a id="l01752" name="l01752"></a><span class="lineno"> 1752</span> </div>
+<div class="line"><a id="l01753" name="l01753"></a><span class="lineno"> 1753</span>    phytomer_parameters_sorghum.petiole.petioles_per_internode = 1;</div>
+<div class="line"><a id="l01754" name="l01754"></a><span class="lineno"> 1754</span>    phytomer_parameters_sorghum.petiole.pitch.uniformDistribution(-40,-20);</div>
+<div class="line"><a id="l01755" name="l01755"></a><span class="lineno"> 1755</span>    phytomer_parameters_sorghum.petiole.radius = 0.0;</div>
+<div class="line"><a id="l01756" name="l01756"></a><span class="lineno"> 1756</span>    phytomer_parameters_sorghum.petiole.length = 0.05;</div>
+<div class="line"><a id="l01757" name="l01757"></a><span class="lineno"> 1757</span>    phytomer_parameters_sorghum.petiole.taper = 0;</div>
+<div class="line"><a id="l01758" name="l01758"></a><span class="lineno"> 1758</span>    phytomer_parameters_sorghum.petiole.curvature = 0;</div>
+<div class="line"><a id="l01759" name="l01759"></a><span class="lineno"> 1759</span>    phytomer_parameters_sorghum.petiole.length_segments = 1;</div>
+<div class="line"><a id="l01760" name="l01760"></a><span class="lineno"> 1760</span> </div>
+<div class="line"><a id="l01761" name="l01761"></a><span class="lineno"> 1761</span>    phytomer_parameters_sorghum.leaf.leaves_per_petiole = 1;</div>
+<div class="line"><a id="l01762" name="l01762"></a><span class="lineno"> 1762</span>    phytomer_parameters_sorghum.leaf.pitch = 0;</div>
+<div class="line"><a id="l01763" name="l01763"></a><span class="lineno"> 1763</span>    phytomer_parameters_sorghum.leaf.yaw = 0;</div>
+<div class="line"><a id="l01764" name="l01764"></a><span class="lineno"> 1764</span>    phytomer_parameters_sorghum.leaf.roll = 0;</div>
+<div class="line"><a id="l01765" name="l01765"></a><span class="lineno"> 1765</span>    phytomer_parameters_sorghum.leaf.prototype_function = SorghumLeafPrototype;</div>
+<div class="line"><a id="l01766" name="l01766"></a><span class="lineno"> 1766</span>    phytomer_parameters_sorghum.leaf.prototype_scale = 0.6;</div>
+<div class="line"><a id="l01767" name="l01767"></a><span class="lineno"> 1767</span>    phytomer_parameters_sorghum.leaf.subdivisions = 50;</div>
+<div class="line"><a id="l01768" name="l01768"></a><span class="lineno"> 1768</span>    phytomer_parameters_sorghum.leaf.unique_prototypes = 10;</div>
+<div class="line"><a id="l01769" name="l01769"></a><span class="lineno"> 1769</span> </div>
+<div class="line"><a id="l01770" name="l01770"></a><span class="lineno"> 1770</span>    phytomer_parameters_sorghum.peduncle.length = 0.3;</div>
+<div class="line"><a id="l01771" name="l01771"></a><span class="lineno"> 1771</span>    phytomer_parameters_sorghum.peduncle.radius = 0.008;</div>
+<div class="line"><a id="l01772" name="l01772"></a><span class="lineno"> 1772</span>    phytomer_parameters_sorghum.peduncle.color = phytomer_parameters_sorghum.internode.color;</div>
+<div class="line"><a id="l01773" name="l01773"></a><span class="lineno"> 1773</span>    phytomer_parameters_sorghum.peduncle.radial_subdivisions = 10;</div>
+<div class="line"><a id="l01774" name="l01774"></a><span class="lineno"> 1774</span> </div>
+<div class="line"><a id="l01775" name="l01775"></a><span class="lineno"> 1775</span>    phytomer_parameters_sorghum.inflorescence.flowers_per_peduncle = 1;</div>
+<div class="line"><a id="l01776" name="l01776"></a><span class="lineno"> 1776</span>    phytomer_parameters_sorghum.inflorescence.pitch = 0;</div>
+<div class="line"><a id="l01777" name="l01777"></a><span class="lineno"> 1777</span>    phytomer_parameters_sorghum.inflorescence.roll = 0;</div>
+<div class="line"><a id="l01778" name="l01778"></a><span class="lineno"> 1778</span>    phytomer_parameters_sorghum.inflorescence.fruit_prototype_scale = 0.16;</div>
+<div class="line"><a id="l01779" name="l01779"></a><span class="lineno"> 1779</span>    phytomer_parameters_sorghum.inflorescence.fruit_prototype_function = SorghumPaniclePrototype;</div>
+<div class="line"><a id="l01780" name="l01780"></a><span class="lineno"> 1780</span> </div>
+<div class="line"><a id="l01781" name="l01781"></a><span class="lineno"> 1781</span>    phytomer_parameters_sorghum.phytomer_creation_function = SorghumPhytomerCreationFunction;</div>
+<div class="line"><a id="l01782" name="l01782"></a><span class="lineno"> 1782</span> </div>
+<div class="line"><a id="l01783" name="l01783"></a><span class="lineno"> 1783</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
+<div class="line"><a id="l01784" name="l01784"></a><span class="lineno"> 1784</span> </div>
+<div class="line"><a id="l01785" name="l01785"></a><span class="lineno"> 1785</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_mainstem(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01786" name="l01786"></a><span class="lineno"> 1786</span>    shoot_parameters_mainstem.phytomer_parameters = phytomer_parameters_sorghum;</div>
+<div class="line"><a id="l01787" name="l01787"></a><span class="lineno"> 1787</span>    shoot_parameters_mainstem.vegetative_bud_break_probability = 0;</div>
+<div class="line"><a id="l01788" name="l01788"></a><span class="lineno"> 1788</span>    shoot_parameters_mainstem.flower_bud_break_probability = 1;</div>
+<div class="line"><a id="l01789" name="l01789"></a><span class="lineno"> 1789</span>    shoot_parameters_mainstem.internode_radius_initial = 0.003;</div>
+<div class="line"><a id="l01790" name="l01790"></a><span class="lineno"> 1790</span>    shoot_parameters_mainstem.phyllochron = 1;</div>
+<div class="line"><a id="l01791" name="l01791"></a><span class="lineno"> 1791</span>    shoot_parameters_mainstem.elongation_rate = 0.15;</div>
+<div class="line"><a id="l01792" name="l01792"></a><span class="lineno"> 1792</span>    shoot_parameters_mainstem.girth_area_factor = 5.f;</div>
+<div class="line"><a id="l01793" name="l01793"></a><span class="lineno"> 1793</span>    shoot_parameters_mainstem.internode_radius_max = 0.015;</div>
+<div class="line"><a id="l01794" name="l01794"></a><span class="lineno"> 1794</span>    shoot_parameters_mainstem.gravitropic_curvature.uniformDistribution(-1000,-400);</div>
+<div class="line"><a id="l01795" name="l01795"></a><span class="lineno"> 1795</span>    shoot_parameters_mainstem.internode_length_max = 0.26;</div>
+<div class="line"><a id="l01796" name="l01796"></a><span class="lineno"> 1796</span>    shoot_parameters_mainstem.internode_length_decay_rate = 0;</div>
+<div class="line"><a id="l01797" name="l01797"></a><span class="lineno"> 1797</span>    shoot_parameters_mainstem.flowers_require_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01798" name="l01798"></a><span class="lineno"> 1798</span>    shoot_parameters_mainstem.growth_requires_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01799" name="l01799"></a><span class="lineno"> 1799</span>    shoot_parameters_mainstem.determinate_shoot_growth = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01800" name="l01800"></a><span class="lineno"> 1800</span>    shoot_parameters_mainstem.flower_bud_break_probability = 1.0;</div>
+<div class="line"><a id="l01801" name="l01801"></a><span class="lineno"> 1801</span>    shoot_parameters_mainstem.fruit_set_probability  = 1.0;</div>
+<div class="line"><a id="l01802" name="l01802"></a><span class="lineno"> 1802</span>    shoot_parameters_mainstem.defineChildShootTypes({<span class="stringliteral">&quot;mainstem&quot;</span>},{1.0});</div>
+<div class="line"><a id="l01803" name="l01803"></a><span class="lineno"> 1803</span>    shoot_parameters_mainstem.max_nodes = 15;</div>
+<div class="line"><a id="l01804" name="l01804"></a><span class="lineno"> 1804</span>    shoot_parameters_mainstem.max_terminal_floral_buds = 1;</div>
+<div class="line"><a id="l01805" name="l01805"></a><span class="lineno"> 1805</span> </div>
+<div class="line"><a id="l01806" name="l01806"></a><span class="lineno"> 1806</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;mainstem&quot;</span>,shoot_parameters_mainstem);</div>
+<div class="line"><a id="l01807" name="l01807"></a><span class="lineno"> 1807</span> </div>
+<div class="line"><a id="l01808" name="l01808"></a><span class="lineno"> 1808</span>}</div>
+<div class="line"><a id="l01809" name="l01809"></a><span class="lineno"> 1809</span> </div>
+<div class="line"><a id="l01810" name="l01810"></a><span class="lineno"> 1810</span>uint PlantArchitecture::buildSorghumPlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
+<div class="line"><a id="l01811" name="l01811"></a><span class="lineno"> 1811</span> </div>
+<div class="line"><a id="l01812" name="l01812"></a><span class="lineno"> 1812</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
+<div class="line"><a id="l01813" name="l01813"></a><span class="lineno"> 1813</span>        <span class="comment">//automatically initialize sorghum plant shoots</span></div>
+<div class="line"><a id="l01814" name="l01814"></a><span class="lineno"> 1814</span>        initializeSorghumShoots();</div>
+<div class="line"><a id="l01815" name="l01815"></a><span class="lineno"> 1815</span>    }</div>
+<div class="line"><a id="l01816" name="l01816"></a><span class="lineno"> 1816</span> </div>
+<div class="line"><a id="l01817" name="l01817"></a><span class="lineno"> 1817</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position - <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,0.025), 0);</div>
+<div class="line"><a id="l01818" name="l01818"></a><span class="lineno"> 1818</span> </div>
+<div class="line"><a id="l01819" name="l01819"></a><span class="lineno"> 1819</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 1, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 0.075f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI)), 0.003, 0.06, 0.01, 0.01, 0, <span class="stringliteral">&quot;mainstem&quot;</span>);</div>
+<div class="line"><a id="l01820" name="l01820"></a><span class="lineno"> 1820</span> </div>
+<div class="line"><a id="l01821" name="l01821"></a><span class="lineno"> 1821</span>    breakPlantDormancy(plantID);</div>
+<div class="line"><a id="l01822" name="l01822"></a><span class="lineno"> 1822</span> </div>
+<div class="line"><a id="l01823" name="l01823"></a><span class="lineno"> 1823</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, -1, 2, 5, 100, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l01824" name="l01824"></a><span class="lineno"> 1824</span> </div>
+<div class="line"><a id="l01825" name="l01825"></a><span class="lineno"> 1825</span>    <span class="keywordflow">return</span> plantID;</div>
+<div class="line"><a id="l01826" name="l01826"></a><span class="lineno"> 1826</span> </div>
+<div class="line"><a id="l01827" name="l01827"></a><span class="lineno"> 1827</span>}</div>
+<div class="line"><a id="l01828" name="l01828"></a><span class="lineno"> 1828</span> </div>
+<div class="line"><a id="l01829" name="l01829"></a><span class="lineno"> 1829</span><span class="keywordtype">void</span> PlantArchitecture::initializeSoybeanShoots() {</div>
+<div class="line"><a id="l01830" name="l01830"></a><span class="lineno"> 1830</span> </div>
+<div class="line"><a id="l01831" name="l01831"></a><span class="lineno"> 1831</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_trifoliate(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01832" name="l01832"></a><span class="lineno"> 1832</span> </div>
+<div class="line"><a id="l01833" name="l01833"></a><span class="lineno"> 1833</span>    phytomer_parameters_trifoliate.internode.pitch = 20;</div>
+<div class="line"><a id="l01834" name="l01834"></a><span class="lineno"> 1834</span>    phytomer_parameters_trifoliate.internode.phyllotactic_angle.uniformDistribution(145, 215);</div>
+<div class="line"><a id="l01835" name="l01835"></a><span class="lineno"> 1835</span>    phytomer_parameters_trifoliate.internode.max_floral_buds_per_petiole = 1;</div>
+<div class="line"><a id="l01836" name="l01836"></a><span class="lineno"> 1836</span>    phytomer_parameters_trifoliate.internode.max_vegetative_buds_per_petiole = 1;</div>
+<div class="line"><a id="l01837" name="l01837"></a><span class="lineno"> 1837</span>    phytomer_parameters_trifoliate.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.2,0.25,0.05);</div>
+<div class="line"><a id="l01838" name="l01838"></a><span class="lineno"> 1838</span>    phytomer_parameters_trifoliate.internode.length_segments = 5;</div>
+<div class="line"><a id="l01839" name="l01839"></a><span class="lineno"> 1839</span> </div>
+<div class="line"><a id="l01840" name="l01840"></a><span class="lineno"> 1840</span>    phytomer_parameters_trifoliate.petiole.petioles_per_internode = 1;</div>
+<div class="line"><a id="l01841" name="l01841"></a><span class="lineno"> 1841</span>    phytomer_parameters_trifoliate.petiole.pitch.uniformDistribution(25,50);</div>
+<div class="line"><a id="l01842" name="l01842"></a><span class="lineno"> 1842</span>    phytomer_parameters_trifoliate.petiole.radius = 0.003;</div>
+<div class="line"><a id="l01843" name="l01843"></a><span class="lineno"> 1843</span>    phytomer_parameters_trifoliate.petiole.length.uniformDistribution(0.12,0.16);</div>
+<div class="line"><a id="l01844" name="l01844"></a><span class="lineno"> 1844</span>    phytomer_parameters_trifoliate.petiole.taper = 0.25;</div>
+<div class="line"><a id="l01845" name="l01845"></a><span class="lineno"> 1845</span>    phytomer_parameters_trifoliate.petiole.curvature.uniformDistribution(-250,450);</div>
+<div class="line"><a id="l01846" name="l01846"></a><span class="lineno"> 1846</span>    phytomer_parameters_trifoliate.petiole.color = phytomer_parameters_trifoliate.internode.color;</div>
+<div class="line"><a id="l01847" name="l01847"></a><span class="lineno"> 1847</span>    phytomer_parameters_trifoliate.petiole.length_segments = 5;</div>
+<div class="line"><a id="l01848" name="l01848"></a><span class="lineno"> 1848</span>    phytomer_parameters_trifoliate.petiole.radial_subdivisions = 6;</div>
+<div class="line"><a id="l01849" name="l01849"></a><span class="lineno"> 1849</span> </div>
+<div class="line"><a id="l01850" name="l01850"></a><span class="lineno"> 1850</span>    phytomer_parameters_trifoliate.leaf.leaves_per_petiole = 3;</div>
+<div class="line"><a id="l01851" name="l01851"></a><span class="lineno"> 1851</span>    phytomer_parameters_trifoliate.leaf.pitch.uniformDistribution(-10, 20);</div>
+<div class="line"><a id="l01852" name="l01852"></a><span class="lineno"> 1852</span>    phytomer_parameters_trifoliate.leaf.yaw = 10;</div>
+<div class="line"><a id="l01853" name="l01853"></a><span class="lineno"> 1853</span>    phytomer_parameters_trifoliate.leaf.roll = -15;</div>
+<div class="line"><a id="l01854" name="l01854"></a><span class="lineno"> 1854</span>    phytomer_parameters_trifoliate.leaf.leaflet_offset = 0.5;</div>
+<div class="line"><a id="l01855" name="l01855"></a><span class="lineno"> 1855</span>    phytomer_parameters_trifoliate.leaf.leaflet_scale = 0.9;</div>
+<div class="line"><a id="l01856" name="l01856"></a><span class="lineno"> 1856</span>    phytomer_parameters_trifoliate.leaf.prototype_function = SoybeanLeafPrototype_trifoliate;</div>
+<div class="line"><a id="l01857" name="l01857"></a><span class="lineno"> 1857</span>    phytomer_parameters_trifoliate.leaf.prototype_scale.uniformDistribution(0.12,0.16);</div>
+<div class="line"><a id="l01858" name="l01858"></a><span class="lineno"> 1858</span>    phytomer_parameters_trifoliate.leaf.subdivisions = 8;</div>
+<div class="line"><a id="l01859" name="l01859"></a><span class="lineno"> 1859</span>    phytomer_parameters_trifoliate.leaf.unique_prototypes = 5;</div>
+<div class="line"><a id="l01860" name="l01860"></a><span class="lineno"> 1860</span> </div>
+<div class="line"><a id="l01861" name="l01861"></a><span class="lineno"> 1861</span>    phytomer_parameters_trifoliate.peduncle.length = 0.01;</div>
+<div class="line"><a id="l01862" name="l01862"></a><span class="lineno"> 1862</span>    phytomer_parameters_trifoliate.peduncle.radius = 0.001;</div>
+<div class="line"><a id="l01863" name="l01863"></a><span class="lineno"> 1863</span>    phytomer_parameters_trifoliate.peduncle.pitch.uniformDistribution(0, 40);</div>
+<div class="line"><a id="l01864" name="l01864"></a><span class="lineno"> 1864</span>    phytomer_parameters_trifoliate.peduncle.roll = 90;</div>
+<div class="line"><a id="l01865" name="l01865"></a><span class="lineno"> 1865</span>    phytomer_parameters_trifoliate.peduncle.curvature.uniformDistribution(-500, 500);</div>
+<div class="line"><a id="l01866" name="l01866"></a><span class="lineno"> 1866</span>    phytomer_parameters_trifoliate.peduncle.length_segments = 1;</div>
+<div class="line"><a id="l01867" name="l01867"></a><span class="lineno"> 1867</span>    phytomer_parameters_trifoliate.peduncle.radial_subdivisions = 6;</div>
+<div class="line"><a id="l01868" name="l01868"></a><span class="lineno"> 1868</span> </div>
+<div class="line"><a id="l01869" name="l01869"></a><span class="lineno"> 1869</span>    phytomer_parameters_trifoliate.inflorescence.flowers_per_peduncle.uniformDistribution(1, 4);</div>
+<div class="line"><a id="l01870" name="l01870"></a><span class="lineno"> 1870</span>    phytomer_parameters_trifoliate.inflorescence.flower_offset = 0.2;</div>
+<div class="line"><a id="l01871" name="l01871"></a><span class="lineno"> 1871</span>    phytomer_parameters_trifoliate.inflorescence.pitch.uniformDistribution(50,70);</div>
+<div class="line"><a id="l01872" name="l01872"></a><span class="lineno"> 1872</span>    phytomer_parameters_trifoliate.inflorescence.roll.uniformDistribution(-20,20);</div>
+<div class="line"><a id="l01873" name="l01873"></a><span class="lineno"> 1873</span>    phytomer_parameters_trifoliate.inflorescence.flower_prototype_scale = 0.015;</div>
+<div class="line"><a id="l01874" name="l01874"></a><span class="lineno"> 1874</span>    phytomer_parameters_trifoliate.inflorescence.flower_prototype_function = SoybeanFlowerPrototype;</div>
+<div class="line"><a id="l01875" name="l01875"></a><span class="lineno"> 1875</span>    phytomer_parameters_trifoliate.inflorescence.fruit_prototype_scale.uniformDistribution(0.08,0.1);</div>
+<div class="line"><a id="l01876" name="l01876"></a><span class="lineno"> 1876</span>    phytomer_parameters_trifoliate.inflorescence.fruit_prototype_function = SoybeanFruitPrototype;</div>
+<div class="line"><a id="l01877" name="l01877"></a><span class="lineno"> 1877</span>    phytomer_parameters_trifoliate.inflorescence.fruit_gravity_factor_fraction.uniformDistribution(0.8,1.0);</div>
+<div class="line"><a id="l01878" name="l01878"></a><span class="lineno"> 1878</span> </div>
+<div class="line"><a id="l01879" name="l01879"></a><span class="lineno"> 1879</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_unifoliate = phytomer_parameters_trifoliate;</div>
+<div class="line"><a id="l01880" name="l01880"></a><span class="lineno"> 1880</span>    phytomer_parameters_unifoliate.internode.pitch = 0;</div>
+<div class="line"><a id="l01881" name="l01881"></a><span class="lineno"> 1881</span>    phytomer_parameters_unifoliate.internode.max_vegetative_buds_per_petiole = 0;</div>
+<div class="line"><a id="l01882" name="l01882"></a><span class="lineno"> 1882</span>    phytomer_parameters_unifoliate.internode.max_floral_buds_per_petiole = 0;</div>
+<div class="line"><a id="l01883" name="l01883"></a><span class="lineno"> 1883</span>    phytomer_parameters_unifoliate.petiole.petioles_per_internode = 2;</div>
+<div class="line"><a id="l01884" name="l01884"></a><span class="lineno"> 1884</span>    phytomer_parameters_unifoliate.petiole.length = 0.01;</div>
+<div class="line"><a id="l01885" name="l01885"></a><span class="lineno"> 1885</span>    phytomer_parameters_unifoliate.petiole.radius = 0.001;</div>
+<div class="line"><a id="l01886" name="l01886"></a><span class="lineno"> 1886</span>    phytomer_parameters_unifoliate.petiole.pitch.uniformDistribution(60,80);</div>
+<div class="line"><a id="l01887" name="l01887"></a><span class="lineno"> 1887</span>    phytomer_parameters_unifoliate.leaf.leaves_per_petiole = 1;</div>
+<div class="line"><a id="l01888" name="l01888"></a><span class="lineno"> 1888</span>    phytomer_parameters_unifoliate.leaf.prototype_scale = 0.02;</div>
+<div class="line"><a id="l01889" name="l01889"></a><span class="lineno"> 1889</span>    phytomer_parameters_unifoliate.leaf.pitch.uniformDistribution(-10, 10);</div>
+<div class="line"><a id="l01890" name="l01890"></a><span class="lineno"> 1890</span>    phytomer_parameters_unifoliate.leaf.prototype_function = SoybeanLeafPrototype_unifoliate;</div>
+<div class="line"><a id="l01891" name="l01891"></a><span class="lineno"> 1891</span> </div>
+<div class="line"><a id="l01892" name="l01892"></a><span class="lineno"> 1892</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
+<div class="line"><a id="l01893" name="l01893"></a><span class="lineno"> 1893</span> </div>
+<div class="line"><a id="l01894" name="l01894"></a><span class="lineno"> 1894</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_trifoliate(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l01895" name="l01895"></a><span class="lineno"> 1895</span>    shoot_parameters_trifoliate.phytomer_parameters = phytomer_parameters_trifoliate;</div>
+<div class="line"><a id="l01896" name="l01896"></a><span class="lineno"> 1896</span>    shoot_parameters_trifoliate.phytomer_parameters.phytomer_creation_function = BeanPhytomerCreationFunction;</div>
+<div class="line"><a id="l01897" name="l01897"></a><span class="lineno"> 1897</span> </div>
+<div class="line"><a id="l01898" name="l01898"></a><span class="lineno"> 1898</span>    shoot_parameters_trifoliate.max_nodes = 20;</div>
+<div class="line"><a id="l01899" name="l01899"></a><span class="lineno"> 1899</span>    shoot_parameters_trifoliate.internode_radius_initial = 0.001;</div>
+<div class="line"><a id="l01900" name="l01900"></a><span class="lineno"> 1900</span>    shoot_parameters_trifoliate.internode_radius_max = 0.004;</div>
+<div class="line"><a id="l01901" name="l01901"></a><span class="lineno"> 1901</span>    shoot_parameters_trifoliate.insertion_angle_tip.uniformDistribution(40,60);</div>
+<div class="line"><a id="l01902" name="l01902"></a><span class="lineno"> 1902</span><span class="comment">//    shoot_parameters_trifoliate.child_insertion_angle_decay_rate = 0; (default)</span></div>
+<div class="line"><a id="l01903" name="l01903"></a><span class="lineno"> 1903</span>    shoot_parameters_trifoliate.internode_length_max = 0.035;</div>
+<div class="line"><a id="l01904" name="l01904"></a><span class="lineno"> 1904</span><span class="comment">//    shoot_parameters_trifoliate.child_internode_length_min = 0.0; (default)</span></div>
+<div class="line"><a id="l01905" name="l01905"></a><span class="lineno"> 1905</span><span class="comment">//    shoot_parameters_trifoliate.child_internode_length_decay_rate = 0; (default)</span></div>
+<div class="line"><a id="l01906" name="l01906"></a><span class="lineno"> 1906</span>    shoot_parameters_trifoliate.base_roll = 90;</div>
+<div class="line"><a id="l01907" name="l01907"></a><span class="lineno"> 1907</span>    shoot_parameters_trifoliate.base_yaw.uniformDistribution(-20,20);</div>
+<div class="line"><a id="l01908" name="l01908"></a><span class="lineno"> 1908</span>    shoot_parameters_trifoliate.gravitropic_curvature = 200;</div>
+<div class="line"><a id="l01909" name="l01909"></a><span class="lineno"> 1909</span> </div>
+<div class="line"><a id="l01910" name="l01910"></a><span class="lineno"> 1910</span>    shoot_parameters_trifoliate.phyllochron = 1;</div>
+<div class="line"><a id="l01911" name="l01911"></a><span class="lineno"> 1911</span><span class="comment">//    shoot_parameters_trifoliate.leaf_flush_count = 1; (default)</span></div>
+<div class="line"><a id="l01912" name="l01912"></a><span class="lineno"> 1912</span>    shoot_parameters_trifoliate.elongation_rate = 0.15;</div>
+<div class="line"><a id="l01913" name="l01913"></a><span class="lineno"> 1913</span>    shoot_parameters_trifoliate.girth_area_factor = 25.f;</div>
+<div class="line"><a id="l01914" name="l01914"></a><span class="lineno"> 1914</span>    shoot_parameters_trifoliate.vegetative_bud_break_time = 3;</div>
+<div class="line"><a id="l01915" name="l01915"></a><span class="lineno"> 1915</span>    shoot_parameters_trifoliate.vegetative_bud_break_probability = 0.25;</div>
+<div class="line"><a id="l01916" name="l01916"></a><span class="lineno"> 1916</span><span class="comment">//    shoot_parameters_trifoliate.max_terminal_floral_buds = 0; (default)</span></div>
+<div class="line"><a id="l01917" name="l01917"></a><span class="lineno"> 1917</span>    shoot_parameters_trifoliate.flower_bud_break_probability.uniformDistribution(0.8,1.0);</div>
+<div class="line"><a id="l01918" name="l01918"></a><span class="lineno"> 1918</span>    shoot_parameters_trifoliate.fruit_set_probability = 0.4;</div>
+<div class="line"><a id="l01919" name="l01919"></a><span class="lineno"> 1919</span><span class="comment">//    shoot_parameters_trifoliate.flowers_require_dormancy = false; (default)</span></div>
+<div class="line"><a id="l01920" name="l01920"></a><span class="lineno"> 1920</span><span class="comment">//    shoot_parameters_trifoliate.growth_requires_dormancy = false; (default)</span></div>
+<div class="line"><a id="l01921" name="l01921"></a><span class="lineno"> 1921</span><span class="comment">//    shoot_parameters_trifoliate.determinate_shoot_growth = true; (default)</span></div>
+<div class="line"><a id="l01922" name="l01922"></a><span class="lineno"> 1922</span> </div>
+<div class="line"><a id="l01923" name="l01923"></a><span class="lineno"> 1923</span>    shoot_parameters_trifoliate.defineChildShootTypes({<span class="stringliteral">&quot;trifoliate&quot;</span>},{1.0});</div>
 <div class="line"><a id="l01924" name="l01924"></a><span class="lineno"> 1924</span> </div>
-<div class="line"><a id="l01925" name="l01925"></a><span class="lineno"> 1925</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_unifoliate = shoot_parameters_trifoliate;</div>
-<div class="line"><a id="l01926" name="l01926"></a><span class="lineno"> 1926</span>    shoot_parameters_unifoliate.phytomer_parameters = phytomer_parameters_unifoliate;</div>
-<div class="line"><a id="l01927" name="l01927"></a><span class="lineno"> 1927</span>    shoot_parameters_unifoliate.max_nodes = 1;</div>
-<div class="line"><a id="l01928" name="l01928"></a><span class="lineno"> 1928</span>    shoot_parameters_unifoliate.vegetative_bud_break_probability = 0;</div>
-<div class="line"><a id="l01929" name="l01929"></a><span class="lineno"> 1929</span>    shoot_parameters_unifoliate.flower_bud_break_probability = 0;</div>
-<div class="line"><a id="l01930" name="l01930"></a><span class="lineno"> 1930</span>    shoot_parameters_unifoliate.insertion_angle_tip = 0;</div>
-<div class="line"><a id="l01931" name="l01931"></a><span class="lineno"> 1931</span>    shoot_parameters_unifoliate.insertion_angle_decay_rate = 0;</div>
-<div class="line"><a id="l01932" name="l01932"></a><span class="lineno"> 1932</span>    shoot_parameters_unifoliate.vegetative_bud_break_time = 1;</div>
-<div class="line"><a id="l01933" name="l01933"></a><span class="lineno"> 1933</span>    shoot_parameters_unifoliate.defineChildShootTypes({<span class="stringliteral">&quot;trifoliate&quot;</span>},{1.0});</div>
-<div class="line"><a id="l01934" name="l01934"></a><span class="lineno"> 1934</span> </div>
-<div class="line"><a id="l01935" name="l01935"></a><span class="lineno"> 1935</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;unifoliate&quot;</span>,shoot_parameters_unifoliate);</div>
-<div class="line"><a id="l01936" name="l01936"></a><span class="lineno"> 1936</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;trifoliate&quot;</span>,shoot_parameters_trifoliate);</div>
-<div class="line"><a id="l01937" name="l01937"></a><span class="lineno"> 1937</span> </div>
-<div class="line"><a id="l01938" name="l01938"></a><span class="lineno"> 1938</span><span class="comment">//    PhytomerParameters phytomer_parameters_trifoliate(context_ptr-&gt;getRandomGenerator());</span></div>
-<div class="line"><a id="l01939" name="l01939"></a><span class="lineno"> 1939</span><span class="comment">//</span></div>
-<div class="line"><a id="l01940" name="l01940"></a><span class="lineno"> 1940</span><span class="comment">//    phytomer_parameters_trifoliate.internode.pitch = 20;</span></div>
-<div class="line"><a id="l01941" name="l01941"></a><span class="lineno"> 1941</span><span class="comment">//    phytomer_parameters_trifoliate.internode.phyllotactic_angle.uniformDistribution(145, 215);</span></div>
-<div class="line"><a id="l01942" name="l01942"></a><span class="lineno"> 1942</span><span class="comment">//    phytomer_parameters_trifoliate.internode.max_floral_buds_per_petiole = 1;</span></div>
-<div class="line"><a id="l01943" name="l01943"></a><span class="lineno"> 1943</span><span class="comment">//    phytomer_parameters_trifoliate.internode.max_vegetative_buds_per_petiole = 1;</span></div>
-<div class="line"><a id="l01944" name="l01944"></a><span class="lineno"> 1944</span><span class="comment">//    phytomer_parameters_trifoliate.internode.color = make_RGBcolor(0.2,0.25,0.05);</span></div>
-<div class="line"><a id="l01945" name="l01945"></a><span class="lineno"> 1945</span><span class="comment">//    phytomer_parameters_trifoliate.internode.length_segments = 5;</span></div>
-<div class="line"><a id="l01946" name="l01946"></a><span class="lineno"> 1946</span><span class="comment">//</span></div>
-<div class="line"><a id="l01947" name="l01947"></a><span class="lineno"> 1947</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.petioles_per_internode = 1;</span></div>
-<div class="line"><a id="l01948" name="l01948"></a><span class="lineno"> 1948</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.pitch.uniformDistribution(30,70);</span></div>
-<div class="line"><a id="l01949" name="l01949"></a><span class="lineno"> 1949</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.radius = 0.003;</span></div>
-<div class="line"><a id="l01950" name="l01950"></a><span class="lineno"> 1950</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.length.uniformDistribution(0.12,0.16);</span></div>
-<div class="line"><a id="l01951" name="l01951"></a><span class="lineno"> 1951</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.taper = 0.25;</span></div>
-<div class="line"><a id="l01952" name="l01952"></a><span class="lineno"> 1952</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.curvature.uniformDistribution(-100,200);</span></div>
-<div class="line"><a id="l01953" name="l01953"></a><span class="lineno"> 1953</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.color = make_RGBcolor(0.28,0.35,0.07);</span></div>
-<div class="line"><a id="l01954" name="l01954"></a><span class="lineno"> 1954</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.length_segments = 5;</span></div>
-<div class="line"><a id="l01955" name="l01955"></a><span class="lineno"> 1955</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.radial_subdivisions = 6;</span></div>
-<div class="line"><a id="l01956" name="l01956"></a><span class="lineno"> 1956</span><span class="comment">//</span></div>
-<div class="line"><a id="l01957" name="l01957"></a><span class="lineno"> 1957</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.leaves_per_petiole = 3;</span></div>
-<div class="line"><a id="l01958" name="l01958"></a><span class="lineno"> 1958</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.pitch.normalDistribution(0, 10);</span></div>
-<div class="line"><a id="l01959" name="l01959"></a><span class="lineno"> 1959</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.yaw = 10;</span></div>
-<div class="line"><a id="l01960" name="l01960"></a><span class="lineno"> 1960</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.roll = -15;</span></div>
-<div class="line"><a id="l01961" name="l01961"></a><span class="lineno"> 1961</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.leaflet_offset = 0.2;</span></div>
-<div class="line"><a id="l01962" name="l01962"></a><span class="lineno"> 1962</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.leaflet_scale = 0.9;</span></div>
-<div class="line"><a id="l01963" name="l01963"></a><span class="lineno"> 1963</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.prototype_function = SoybeanLeafPrototype_trifoliate;</span></div>
-<div class="line"><a id="l01964" name="l01964"></a><span class="lineno"> 1964</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.prototype_scale.uniformDistribution(0.11,0.13);</span></div>
-<div class="line"><a id="l01965" name="l01965"></a><span class="lineno"> 1965</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.subdivisions = 10;</span></div>
-<div class="line"><a id="l01966" name="l01966"></a><span class="lineno"> 1966</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.unique_prototypes = 5;</span></div>
-<div class="line"><a id="l01967" name="l01967"></a><span class="lineno"> 1967</span><span class="comment">//</span></div>
-<div class="line"><a id="l01968" name="l01968"></a><span class="lineno"> 1968</span><span class="comment">//    phytomer_parameters_trifoliate.peduncle.length = 0.04;</span></div>
-<div class="line"><a id="l01969" name="l01969"></a><span class="lineno"> 1969</span><span class="comment">//    phytomer_parameters_trifoliate.peduncle.radius = 0.001;</span></div>
-<div class="line"><a id="l01970" name="l01970"></a><span class="lineno"> 1970</span><span class="comment">//    phytomer_parameters_trifoliate.peduncle.pitch.uniformDistribution(0, 40);</span></div>
-<div class="line"><a id="l01971" name="l01971"></a><span class="lineno"> 1971</span><span class="comment">//    phytomer_parameters_trifoliate.peduncle.roll = 90;</span></div>
-<div class="line"><a id="l01972" name="l01972"></a><span class="lineno"> 1972</span><span class="comment">//    phytomer_parameters_trifoliate.peduncle.curvature.uniformDistribution(-500, 500);</span></div>
-<div class="line"><a id="l01973" name="l01973"></a><span class="lineno"> 1973</span><span class="comment">//    phytomer_parameters_trifoliate.peduncle.length_segments = 1;</span></div>
-<div class="line"><a id="l01974" name="l01974"></a><span class="lineno"> 1974</span><span class="comment">//    phytomer_parameters_trifoliate.peduncle.radial_subdivisions = 6;</span></div>
-<div class="line"><a id="l01975" name="l01975"></a><span class="lineno"> 1975</span><span class="comment">//</span></div>
-<div class="line"><a id="l01976" name="l01976"></a><span class="lineno"> 1976</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.flowers_per_rachis.uniformDistribution(1, 4);</span></div>
-<div class="line"><a id="l01977" name="l01977"></a><span class="lineno"> 1977</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.flower_offset = 0.2;</span></div>
-<div class="line"><a id="l01978" name="l01978"></a><span class="lineno"> 1978</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.flower_arrangement_pattern = &quot;opposite&quot;;</span></div>
-<div class="line"><a id="l01979" name="l01979"></a><span class="lineno"> 1979</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.pitch.uniformDistribution(50,70);</span></div>
-<div class="line"><a id="l01980" name="l01980"></a><span class="lineno"> 1980</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.roll.uniformDistribution(-20,20);</span></div>
-<div class="line"><a id="l01981" name="l01981"></a><span class="lineno"> 1981</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.flower_prototype_scale = 0.015;</span></div>
-<div class="line"><a id="l01982" name="l01982"></a><span class="lineno"> 1982</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.flower_prototype_function = BeanFlowerPrototype;</span></div>
-<div class="line"><a id="l01983" name="l01983"></a><span class="lineno"> 1983</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.fruit_prototype_scale.uniformDistribution(0.08,0.1);</span></div>
-<div class="line"><a id="l01984" name="l01984"></a><span class="lineno"> 1984</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.fruit_prototype_function = BeanFruitPrototype;</span></div>
-<div class="line"><a id="l01985" name="l01985"></a><span class="lineno"> 1985</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.fruit_gravity_factor_fraction.uniformDistribution(0.8,1.0);</span></div>
-<div class="line"><a id="l01986" name="l01986"></a><span class="lineno"> 1986</span><span class="comment">//</span></div>
-<div class="line"><a id="l01987" name="l01987"></a><span class="lineno"> 1987</span><span class="comment">//    PhytomerParameters phytomer_parameters_unifoliate = phytomer_parameters_trifoliate;</span></div>
-<div class="line"><a id="l01988" name="l01988"></a><span class="lineno"> 1988</span><span class="comment">//    phytomer_parameters_unifoliate.internode.pitch = 0;</span></div>
-<div class="line"><a id="l01989" name="l01989"></a><span class="lineno"> 1989</span><span class="comment">//    phytomer_parameters_unifoliate.internode.max_vegetative_buds_per_petiole = 0;</span></div>
-<div class="line"><a id="l01990" name="l01990"></a><span class="lineno"> 1990</span><span class="comment">//    phytomer_parameters_unifoliate.internode.max_floral_buds_per_petiole = 0;</span></div>
-<div class="line"><a id="l01991" name="l01991"></a><span class="lineno"> 1991</span><span class="comment">//    phytomer_parameters_unifoliate.petiole.petioles_per_internode = 2;</span></div>
-<div class="line"><a id="l01992" name="l01992"></a><span class="lineno"> 1992</span><span class="comment">//    phytomer_parameters_unifoliate.petiole.length = 0.001;</span></div>
-<div class="line"><a id="l01993" name="l01993"></a><span class="lineno"> 1993</span><span class="comment">//    phytomer_parameters_unifoliate.petiole.radius = 0.0004;</span></div>
-<div class="line"><a id="l01994" name="l01994"></a><span class="lineno"> 1994</span><span class="comment">//    phytomer_parameters_unifoliate.petiole.pitch.uniformDistribution(60,80);</span></div>
-<div class="line"><a id="l01995" name="l01995"></a><span class="lineno"> 1995</span><span class="comment">//    phytomer_parameters_unifoliate.leaf.leaves_per_petiole = 1;</span></div>
-<div class="line"><a id="l01996" name="l01996"></a><span class="lineno"> 1996</span><span class="comment">//    phytomer_parameters_unifoliate.leaf.prototype_scale = 0.02;</span></div>
-<div class="line"><a id="l01997" name="l01997"></a><span class="lineno"> 1997</span><span class="comment">//    phytomer_parameters_unifoliate.leaf.pitch.uniformDistribution(-10, 10);</span></div>
-<div class="line"><a id="l01998" name="l01998"></a><span class="lineno"> 1998</span><span class="comment">//    phytomer_parameters_unifoliate.leaf.prototype_function = BeanLeafPrototype_unifoliate;</span></div>
-<div class="line"><a id="l01999" name="l01999"></a><span class="lineno"> 1999</span><span class="comment">//</span></div>
-<div class="line"><a id="l02000" name="l02000"></a><span class="lineno"> 2000</span><span class="comment">//    // ---- Shoot Parameters ---- //</span></div>
-<div class="line"><a id="l02001" name="l02001"></a><span class="lineno"> 2001</span><span class="comment">//</span></div>
-<div class="line"><a id="l02002" name="l02002"></a><span class="lineno"> 2002</span><span class="comment">//    ShootParameters shoot_parameters_trifoliate(context_ptr-&gt;getRandomGenerator());</span></div>
-<div class="line"><a id="l02003" name="l02003"></a><span class="lineno"> 2003</span><span class="comment">//    shoot_parameters_trifoliate.phytomer_parameters = phytomer_parameters_trifoliate;</span></div>
-<div class="line"><a id="l02004" name="l02004"></a><span class="lineno"> 2004</span><span class="comment">//    shoot_parameters_trifoliate.phytomer_parameters.phytomer_creation_function = BeanPhytomerCreationFunction;</span></div>
-<div class="line"><a id="l02005" name="l02005"></a><span class="lineno"> 2005</span><span class="comment">//</span></div>
-<div class="line"><a id="l02006" name="l02006"></a><span class="lineno"> 2006</span><span class="comment">//    shoot_parameters_trifoliate.max_nodes = 25;</span></div>
-<div class="line"><a id="l02007" name="l02007"></a><span class="lineno"> 2007</span><span class="comment">//    shoot_parameters_trifoliate.internode_radius_initial = 0.0005;</span></div>
-<div class="line"><a id="l02008" name="l02008"></a><span class="lineno"> 2008</span><span class="comment">//    shoot_parameters_trifoliate.internode_radius_max = 0.003;</span></div>
-<div class="line"><a id="l02009" name="l02009"></a><span class="lineno"> 2009</span><span class="comment">//    shoot_parameters_trifoliate.insertion_angle_tip.uniformDistribution(40,60);</span></div>
-<div class="line"><a id="l02011" name="l02011"></a><span class="lineno"> 2011</span><span class="comment">//    shoot_parameters_trifoliate.internode_length_max = 0.03;</span></div>
-<div class="line"><a id="l02014" name="l02014"></a><span class="lineno"> 2014</span><span class="comment">//    shoot_parameters_trifoliate.base_roll = 90;</span></div>
-<div class="line"><a id="l02015" name="l02015"></a><span class="lineno"> 2015</span><span class="comment">//    shoot_parameters_trifoliate.base_yaw.uniformDistribution(-20,20);</span></div>
-<div class="line"><a id="l02016" name="l02016"></a><span class="lineno"> 2016</span><span class="comment">//    shoot_parameters_trifoliate.gravitropic_curvature = 300;</span></div>
-<div class="line"><a id="l02017" name="l02017"></a><span class="lineno"> 2017</span><span class="comment">//</span></div>
-<div class="line"><a id="l02018" name="l02018"></a><span class="lineno"> 2018</span><span class="comment">//    shoot_parameters_trifoliate.phyllochron = 1;</span></div>
-<div class="line"><a id="l02020" name="l02020"></a><span class="lineno"> 2020</span><span class="comment">//    shoot_parameters_trifoliate.elongation_rate = 0.1;</span></div>
-<div class="line"><a id="l02021" name="l02021"></a><span class="lineno"> 2021</span><span class="comment">//    shoot_parameters_trifoliate.girth_growth_rate = 0.00025;</span></div>
-<div class="line"><a id="l02022" name="l02022"></a><span class="lineno"> 2022</span><span class="comment">//    shoot_parameters_trifoliate.vegetative_bud_break_time = 3;</span></div>
-<div class="line"><a id="l02023" name="l02023"></a><span class="lineno"> 2023</span><span class="comment">//    shoot_parameters_trifoliate.vegetative_bud_break_probability = 0.25;</span></div>
-<div class="line"><a id="l02025" name="l02025"></a><span class="lineno"> 2025</span><span class="comment">//    shoot_parameters_trifoliate.flower_bud_break_probability.uniformDistribution(0.8,1.0);</span></div>
-<div class="line"><a id="l02026" name="l02026"></a><span class="lineno"> 2026</span><span class="comment">//    shoot_parameters_trifoliate.fruit_set_probability = 0.4;</span></div>
-<div class="line"><a id="l02030" name="l02030"></a><span class="lineno"> 2030</span><span class="comment">//</span></div>
-<div class="line"><a id="l02031" name="l02031"></a><span class="lineno"> 2031</span><span class="comment">//    shoot_parameters_trifoliate.defineChildShootTypes({&quot;trifoliate&quot;},{1.0});</span></div>
-<div class="line"><a id="l02032" name="l02032"></a><span class="lineno"> 2032</span><span class="comment">//</span></div>
+<div class="line"><a id="l01925" name="l01925"></a><span class="lineno"> 1925</span> </div>
+<div class="line"><a id="l01926" name="l01926"></a><span class="lineno"> 1926</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_unifoliate = shoot_parameters_trifoliate;</div>
+<div class="line"><a id="l01927" name="l01927"></a><span class="lineno"> 1927</span>    shoot_parameters_unifoliate.phytomer_parameters = phytomer_parameters_unifoliate;</div>
+<div class="line"><a id="l01928" name="l01928"></a><span class="lineno"> 1928</span>    shoot_parameters_unifoliate.max_nodes = 1;</div>
+<div class="line"><a id="l01929" name="l01929"></a><span class="lineno"> 1929</span>    shoot_parameters_unifoliate.vegetative_bud_break_probability = 0;</div>
+<div class="line"><a id="l01930" name="l01930"></a><span class="lineno"> 1930</span>    shoot_parameters_unifoliate.flower_bud_break_probability = 0;</div>
+<div class="line"><a id="l01931" name="l01931"></a><span class="lineno"> 1931</span>    shoot_parameters_unifoliate.insertion_angle_tip = 0;</div>
+<div class="line"><a id="l01932" name="l01932"></a><span class="lineno"> 1932</span>    shoot_parameters_unifoliate.insertion_angle_decay_rate = 0;</div>
+<div class="line"><a id="l01933" name="l01933"></a><span class="lineno"> 1933</span>    shoot_parameters_unifoliate.vegetative_bud_break_time = 1;</div>
+<div class="line"><a id="l01934" name="l01934"></a><span class="lineno"> 1934</span>    shoot_parameters_unifoliate.defineChildShootTypes({<span class="stringliteral">&quot;trifoliate&quot;</span>},{1.0});</div>
+<div class="line"><a id="l01935" name="l01935"></a><span class="lineno"> 1935</span> </div>
+<div class="line"><a id="l01936" name="l01936"></a><span class="lineno"> 1936</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;unifoliate&quot;</span>,shoot_parameters_unifoliate);</div>
+<div class="line"><a id="l01937" name="l01937"></a><span class="lineno"> 1937</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;trifoliate&quot;</span>,shoot_parameters_trifoliate);</div>
+<div class="line"><a id="l01938" name="l01938"></a><span class="lineno"> 1938</span> </div>
+<div class="line"><a id="l01939" name="l01939"></a><span class="lineno"> 1939</span><span class="comment">//    PhytomerParameters phytomer_parameters_trifoliate(context_ptr-&gt;getRandomGenerator());</span></div>
+<div class="line"><a id="l01940" name="l01940"></a><span class="lineno"> 1940</span><span class="comment">//</span></div>
+<div class="line"><a id="l01941" name="l01941"></a><span class="lineno"> 1941</span><span class="comment">//    phytomer_parameters_trifoliate.internode.pitch = 20;</span></div>
+<div class="line"><a id="l01942" name="l01942"></a><span class="lineno"> 1942</span><span class="comment">//    phytomer_parameters_trifoliate.internode.phyllotactic_angle.uniformDistribution(145, 215);</span></div>
+<div class="line"><a id="l01943" name="l01943"></a><span class="lineno"> 1943</span><span class="comment">//    phytomer_parameters_trifoliate.internode.max_floral_buds_per_petiole = 1;</span></div>
+<div class="line"><a id="l01944" name="l01944"></a><span class="lineno"> 1944</span><span class="comment">//    phytomer_parameters_trifoliate.internode.max_vegetative_buds_per_petiole = 1;</span></div>
+<div class="line"><a id="l01945" name="l01945"></a><span class="lineno"> 1945</span><span class="comment">//    phytomer_parameters_trifoliate.internode.color = make_RGBcolor(0.2,0.25,0.05);</span></div>
+<div class="line"><a id="l01946" name="l01946"></a><span class="lineno"> 1946</span><span class="comment">//    phytomer_parameters_trifoliate.internode.length_segments = 5;</span></div>
+<div class="line"><a id="l01947" name="l01947"></a><span class="lineno"> 1947</span><span class="comment">//</span></div>
+<div class="line"><a id="l01948" name="l01948"></a><span class="lineno"> 1948</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.petioles_per_internode = 1;</span></div>
+<div class="line"><a id="l01949" name="l01949"></a><span class="lineno"> 1949</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.pitch.uniformDistribution(30,70);</span></div>
+<div class="line"><a id="l01950" name="l01950"></a><span class="lineno"> 1950</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.radius = 0.003;</span></div>
+<div class="line"><a id="l01951" name="l01951"></a><span class="lineno"> 1951</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.length.uniformDistribution(0.12,0.16);</span></div>
+<div class="line"><a id="l01952" name="l01952"></a><span class="lineno"> 1952</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.taper = 0.25;</span></div>
+<div class="line"><a id="l01953" name="l01953"></a><span class="lineno"> 1953</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.curvature.uniformDistribution(-100,200);</span></div>
+<div class="line"><a id="l01954" name="l01954"></a><span class="lineno"> 1954</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.color = make_RGBcolor(0.28,0.35,0.07);</span></div>
+<div class="line"><a id="l01955" name="l01955"></a><span class="lineno"> 1955</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.length_segments = 5;</span></div>
+<div class="line"><a id="l01956" name="l01956"></a><span class="lineno"> 1956</span><span class="comment">//    phytomer_parameters_trifoliate.petiole.radial_subdivisions = 6;</span></div>
+<div class="line"><a id="l01957" name="l01957"></a><span class="lineno"> 1957</span><span class="comment">//</span></div>
+<div class="line"><a id="l01958" name="l01958"></a><span class="lineno"> 1958</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.leaves_per_petiole = 3;</span></div>
+<div class="line"><a id="l01959" name="l01959"></a><span class="lineno"> 1959</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.pitch.normalDistribution(0, 10);</span></div>
+<div class="line"><a id="l01960" name="l01960"></a><span class="lineno"> 1960</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.yaw = 10;</span></div>
+<div class="line"><a id="l01961" name="l01961"></a><span class="lineno"> 1961</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.roll = -15;</span></div>
+<div class="line"><a id="l01962" name="l01962"></a><span class="lineno"> 1962</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.leaflet_offset = 0.2;</span></div>
+<div class="line"><a id="l01963" name="l01963"></a><span class="lineno"> 1963</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.leaflet_scale = 0.9;</span></div>
+<div class="line"><a id="l01964" name="l01964"></a><span class="lineno"> 1964</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.prototype_function = SoybeanLeafPrototype_trifoliate;</span></div>
+<div class="line"><a id="l01965" name="l01965"></a><span class="lineno"> 1965</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.prototype_scale.uniformDistribution(0.11,0.13);</span></div>
+<div class="line"><a id="l01966" name="l01966"></a><span class="lineno"> 1966</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.subdivisions = 10;</span></div>
+<div class="line"><a id="l01967" name="l01967"></a><span class="lineno"> 1967</span><span class="comment">//    phytomer_parameters_trifoliate.leaf.unique_prototypes = 5;</span></div>
+<div class="line"><a id="l01968" name="l01968"></a><span class="lineno"> 1968</span><span class="comment">//</span></div>
+<div class="line"><a id="l01969" name="l01969"></a><span class="lineno"> 1969</span><span class="comment">//    phytomer_parameters_trifoliate.peduncle.length = 0.04;</span></div>
+<div class="line"><a id="l01970" name="l01970"></a><span class="lineno"> 1970</span><span class="comment">//    phytomer_parameters_trifoliate.peduncle.radius = 0.001;</span></div>
+<div class="line"><a id="l01971" name="l01971"></a><span class="lineno"> 1971</span><span class="comment">//    phytomer_parameters_trifoliate.peduncle.pitch.uniformDistribution(0, 40);</span></div>
+<div class="line"><a id="l01972" name="l01972"></a><span class="lineno"> 1972</span><span class="comment">//    phytomer_parameters_trifoliate.peduncle.roll = 90;</span></div>
+<div class="line"><a id="l01973" name="l01973"></a><span class="lineno"> 1973</span><span class="comment">//    phytomer_parameters_trifoliate.peduncle.curvature.uniformDistribution(-500, 500);</span></div>
+<div class="line"><a id="l01974" name="l01974"></a><span class="lineno"> 1974</span><span class="comment">//    phytomer_parameters_trifoliate.peduncle.length_segments = 1;</span></div>
+<div class="line"><a id="l01975" name="l01975"></a><span class="lineno"> 1975</span><span class="comment">//    phytomer_parameters_trifoliate.peduncle.radial_subdivisions = 6;</span></div>
+<div class="line"><a id="l01976" name="l01976"></a><span class="lineno"> 1976</span><span class="comment">//</span></div>
+<div class="line"><a id="l01977" name="l01977"></a><span class="lineno"> 1977</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.flowers_per_rachis.uniformDistribution(1, 4);</span></div>
+<div class="line"><a id="l01978" name="l01978"></a><span class="lineno"> 1978</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.flower_offset = 0.2;</span></div>
+<div class="line"><a id="l01979" name="l01979"></a><span class="lineno"> 1979</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.flower_arrangement_pattern = &quot;opposite&quot;;</span></div>
+<div class="line"><a id="l01980" name="l01980"></a><span class="lineno"> 1980</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.pitch.uniformDistribution(50,70);</span></div>
+<div class="line"><a id="l01981" name="l01981"></a><span class="lineno"> 1981</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.roll.uniformDistribution(-20,20);</span></div>
+<div class="line"><a id="l01982" name="l01982"></a><span class="lineno"> 1982</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.flower_prototype_scale = 0.015;</span></div>
+<div class="line"><a id="l01983" name="l01983"></a><span class="lineno"> 1983</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.flower_prototype_function = BeanFlowerPrototype;</span></div>
+<div class="line"><a id="l01984" name="l01984"></a><span class="lineno"> 1984</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.fruit_prototype_scale.uniformDistribution(0.08,0.1);</span></div>
+<div class="line"><a id="l01985" name="l01985"></a><span class="lineno"> 1985</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.fruit_prototype_function = BeanFruitPrototype;</span></div>
+<div class="line"><a id="l01986" name="l01986"></a><span class="lineno"> 1986</span><span class="comment">//    phytomer_parameters_trifoliate.inflorescence.fruit_gravity_factor_fraction.uniformDistribution(0.8,1.0);</span></div>
+<div class="line"><a id="l01987" name="l01987"></a><span class="lineno"> 1987</span><span class="comment">//</span></div>
+<div class="line"><a id="l01988" name="l01988"></a><span class="lineno"> 1988</span><span class="comment">//    PhytomerParameters phytomer_parameters_unifoliate = phytomer_parameters_trifoliate;</span></div>
+<div class="line"><a id="l01989" name="l01989"></a><span class="lineno"> 1989</span><span class="comment">//    phytomer_parameters_unifoliate.internode.pitch = 0;</span></div>
+<div class="line"><a id="l01990" name="l01990"></a><span class="lineno"> 1990</span><span class="comment">//    phytomer_parameters_unifoliate.internode.max_vegetative_buds_per_petiole = 0;</span></div>
+<div class="line"><a id="l01991" name="l01991"></a><span class="lineno"> 1991</span><span class="comment">//    phytomer_parameters_unifoliate.internode.max_floral_buds_per_petiole = 0;</span></div>
+<div class="line"><a id="l01992" name="l01992"></a><span class="lineno"> 1992</span><span class="comment">//    phytomer_parameters_unifoliate.petiole.petioles_per_internode = 2;</span></div>
+<div class="line"><a id="l01993" name="l01993"></a><span class="lineno"> 1993</span><span class="comment">//    phytomer_parameters_unifoliate.petiole.length = 0.001;</span></div>
+<div class="line"><a id="l01994" name="l01994"></a><span class="lineno"> 1994</span><span class="comment">//    phytomer_parameters_unifoliate.petiole.radius = 0.0004;</span></div>
+<div class="line"><a id="l01995" name="l01995"></a><span class="lineno"> 1995</span><span class="comment">//    phytomer_parameters_unifoliate.petiole.pitch.uniformDistribution(60,80);</span></div>
+<div class="line"><a id="l01996" name="l01996"></a><span class="lineno"> 1996</span><span class="comment">//    phytomer_parameters_unifoliate.leaf.leaves_per_petiole = 1;</span></div>
+<div class="line"><a id="l01997" name="l01997"></a><span class="lineno"> 1997</span><span class="comment">//    phytomer_parameters_unifoliate.leaf.prototype_scale = 0.02;</span></div>
+<div class="line"><a id="l01998" name="l01998"></a><span class="lineno"> 1998</span><span class="comment">//    phytomer_parameters_unifoliate.leaf.pitch.uniformDistribution(-10, 10);</span></div>
+<div class="line"><a id="l01999" name="l01999"></a><span class="lineno"> 1999</span><span class="comment">//    phytomer_parameters_unifoliate.leaf.prototype_function = BeanLeafPrototype_unifoliate;</span></div>
+<div class="line"><a id="l02000" name="l02000"></a><span class="lineno"> 2000</span><span class="comment">//</span></div>
+<div class="line"><a id="l02001" name="l02001"></a><span class="lineno"> 2001</span><span class="comment">//    // ---- Shoot Parameters ---- //</span></div>
+<div class="line"><a id="l02002" name="l02002"></a><span class="lineno"> 2002</span><span class="comment">//</span></div>
+<div class="line"><a id="l02003" name="l02003"></a><span class="lineno"> 2003</span><span class="comment">//    ShootParameters shoot_parameters_trifoliate(context_ptr-&gt;getRandomGenerator());</span></div>
+<div class="line"><a id="l02004" name="l02004"></a><span class="lineno"> 2004</span><span class="comment">//    shoot_parameters_trifoliate.phytomer_parameters = phytomer_parameters_trifoliate;</span></div>
+<div class="line"><a id="l02005" name="l02005"></a><span class="lineno"> 2005</span><span class="comment">//    shoot_parameters_trifoliate.phytomer_parameters.phytomer_creation_function = BeanPhytomerCreationFunction;</span></div>
+<div class="line"><a id="l02006" name="l02006"></a><span class="lineno"> 2006</span><span class="comment">//</span></div>
+<div class="line"><a id="l02007" name="l02007"></a><span class="lineno"> 2007</span><span class="comment">//    shoot_parameters_trifoliate.max_nodes = 25;</span></div>
+<div class="line"><a id="l02008" name="l02008"></a><span class="lineno"> 2008</span><span class="comment">//    shoot_parameters_trifoliate.internode_radius_initial = 0.0005;</span></div>
+<div class="line"><a id="l02009" name="l02009"></a><span class="lineno"> 2009</span><span class="comment">//    shoot_parameters_trifoliate.internode_radius_max = 0.003;</span></div>
+<div class="line"><a id="l02010" name="l02010"></a><span class="lineno"> 2010</span><span class="comment">//    shoot_parameters_trifoliate.insertion_angle_tip.uniformDistribution(40,60);</span></div>
+<div class="line"><a id="l02012" name="l02012"></a><span class="lineno"> 2012</span><span class="comment">//    shoot_parameters_trifoliate.internode_length_max = 0.03;</span></div>
+<div class="line"><a id="l02015" name="l02015"></a><span class="lineno"> 2015</span><span class="comment">//    shoot_parameters_trifoliate.base_roll = 90;</span></div>
+<div class="line"><a id="l02016" name="l02016"></a><span class="lineno"> 2016</span><span class="comment">//    shoot_parameters_trifoliate.base_yaw.uniformDistribution(-20,20);</span></div>
+<div class="line"><a id="l02017" name="l02017"></a><span class="lineno"> 2017</span><span class="comment">//    shoot_parameters_trifoliate.gravitropic_curvature = 300;</span></div>
+<div class="line"><a id="l02018" name="l02018"></a><span class="lineno"> 2018</span><span class="comment">//</span></div>
+<div class="line"><a id="l02019" name="l02019"></a><span class="lineno"> 2019</span><span class="comment">//    shoot_parameters_trifoliate.phyllochron = 1;</span></div>
+<div class="line"><a id="l02021" name="l02021"></a><span class="lineno"> 2021</span><span class="comment">//    shoot_parameters_trifoliate.elongation_rate = 0.1;</span></div>
+<div class="line"><a id="l02022" name="l02022"></a><span class="lineno"> 2022</span><span class="comment">//    shoot_parameters_trifoliate.girth_growth_rate = 0.00025;</span></div>
+<div class="line"><a id="l02023" name="l02023"></a><span class="lineno"> 2023</span><span class="comment">//    shoot_parameters_trifoliate.vegetative_bud_break_time = 3;</span></div>
+<div class="line"><a id="l02024" name="l02024"></a><span class="lineno"> 2024</span><span class="comment">//    shoot_parameters_trifoliate.vegetative_bud_break_probability = 0.25;</span></div>
+<div class="line"><a id="l02026" name="l02026"></a><span class="lineno"> 2026</span><span class="comment">//    shoot_parameters_trifoliate.flower_bud_break_probability.uniformDistribution(0.8,1.0);</span></div>
+<div class="line"><a id="l02027" name="l02027"></a><span class="lineno"> 2027</span><span class="comment">//    shoot_parameters_trifoliate.fruit_set_probability = 0.4;</span></div>
+<div class="line"><a id="l02031" name="l02031"></a><span class="lineno"> 2031</span><span class="comment">//</span></div>
+<div class="line"><a id="l02032" name="l02032"></a><span class="lineno"> 2032</span><span class="comment">//    shoot_parameters_trifoliate.defineChildShootTypes({&quot;trifoliate&quot;},{1.0});</span></div>
 <div class="line"><a id="l02033" name="l02033"></a><span class="lineno"> 2033</span><span class="comment">//</span></div>
-<div class="line"><a id="l02034" name="l02034"></a><span class="lineno"> 2034</span><span class="comment">//    ShootParameters shoot_parameters_unifoliate = shoot_parameters_trifoliate;</span></div>
-<div class="line"><a id="l02035" name="l02035"></a><span class="lineno"> 2035</span><span class="comment">//    shoot_parameters_unifoliate.phytomer_parameters = phytomer_parameters_unifoliate;</span></div>
-<div class="line"><a id="l02036" name="l02036"></a><span class="lineno"> 2036</span><span class="comment">//    shoot_parameters_unifoliate.max_nodes = 1;</span></div>
-<div class="line"><a id="l02037" name="l02037"></a><span class="lineno"> 2037</span><span class="comment">//    shoot_parameters_unifoliate.vegetative_bud_break_probability = 0;</span></div>
-<div class="line"><a id="l02038" name="l02038"></a><span class="lineno"> 2038</span><span class="comment">//    shoot_parameters_unifoliate.flower_bud_break_probability = 0;</span></div>
-<div class="line"><a id="l02039" name="l02039"></a><span class="lineno"> 2039</span><span class="comment">//    shoot_parameters_unifoliate.insertion_angle_tip = 0;</span></div>
-<div class="line"><a id="l02040" name="l02040"></a><span class="lineno"> 2040</span><span class="comment">//    shoot_parameters_unifoliate.insertion_angle_decay_rate = 0;</span></div>
-<div class="line"><a id="l02041" name="l02041"></a><span class="lineno"> 2041</span><span class="comment">//    shoot_parameters_unifoliate.vegetative_bud_break_time = 1;</span></div>
-<div class="line"><a id="l02042" name="l02042"></a><span class="lineno"> 2042</span><span class="comment">//    shoot_parameters_unifoliate.defineChildShootTypes({&quot;trifoliate&quot;},{1.0});</span></div>
-<div class="line"><a id="l02043" name="l02043"></a><span class="lineno"> 2043</span><span class="comment">//</span></div>
-<div class="line"><a id="l02044" name="l02044"></a><span class="lineno"> 2044</span><span class="comment">//    defineShootType(&quot;unifoliate&quot;,shoot_parameters_unifoliate);</span></div>
-<div class="line"><a id="l02045" name="l02045"></a><span class="lineno"> 2045</span><span class="comment">//    defineShootType(&quot;trifoliate&quot;,shoot_parameters_trifoliate);</span></div>
-<div class="line"><a id="l02046" name="l02046"></a><span class="lineno"> 2046</span> </div>
+<div class="line"><a id="l02034" name="l02034"></a><span class="lineno"> 2034</span><span class="comment">//</span></div>
+<div class="line"><a id="l02035" name="l02035"></a><span class="lineno"> 2035</span><span class="comment">//    ShootParameters shoot_parameters_unifoliate = shoot_parameters_trifoliate;</span></div>
+<div class="line"><a id="l02036" name="l02036"></a><span class="lineno"> 2036</span><span class="comment">//    shoot_parameters_unifoliate.phytomer_parameters = phytomer_parameters_unifoliate;</span></div>
+<div class="line"><a id="l02037" name="l02037"></a><span class="lineno"> 2037</span><span class="comment">//    shoot_parameters_unifoliate.max_nodes = 1;</span></div>
+<div class="line"><a id="l02038" name="l02038"></a><span class="lineno"> 2038</span><span class="comment">//    shoot_parameters_unifoliate.vegetative_bud_break_probability = 0;</span></div>
+<div class="line"><a id="l02039" name="l02039"></a><span class="lineno"> 2039</span><span class="comment">//    shoot_parameters_unifoliate.flower_bud_break_probability = 0;</span></div>
+<div class="line"><a id="l02040" name="l02040"></a><span class="lineno"> 2040</span><span class="comment">//    shoot_parameters_unifoliate.insertion_angle_tip = 0;</span></div>
+<div class="line"><a id="l02041" name="l02041"></a><span class="lineno"> 2041</span><span class="comment">//    shoot_parameters_unifoliate.insertion_angle_decay_rate = 0;</span></div>
+<div class="line"><a id="l02042" name="l02042"></a><span class="lineno"> 2042</span><span class="comment">//    shoot_parameters_unifoliate.vegetative_bud_break_time = 1;</span></div>
+<div class="line"><a id="l02043" name="l02043"></a><span class="lineno"> 2043</span><span class="comment">//    shoot_parameters_unifoliate.defineChildShootTypes({&quot;trifoliate&quot;},{1.0});</span></div>
+<div class="line"><a id="l02044" name="l02044"></a><span class="lineno"> 2044</span><span class="comment">//</span></div>
+<div class="line"><a id="l02045" name="l02045"></a><span class="lineno"> 2045</span><span class="comment">//    defineShootType(&quot;unifoliate&quot;,shoot_parameters_unifoliate);</span></div>
+<div class="line"><a id="l02046" name="l02046"></a><span class="lineno"> 2046</span><span class="comment">//    defineShootType(&quot;trifoliate&quot;,shoot_parameters_trifoliate);</span></div>
 <div class="line"><a id="l02047" name="l02047"></a><span class="lineno"> 2047</span> </div>
-<div class="line"><a id="l02048" name="l02048"></a><span class="lineno"> 2048</span>}</div>
-<div class="line"><a id="l02049" name="l02049"></a><span class="lineno"> 2049</span> </div>
-<div class="line"><a id="l02050" name="l02050"></a><span class="lineno"> 2050</span>uint PlantArchitecture::buildSoybeanPlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
-<div class="line"><a id="l02051" name="l02051"></a><span class="lineno"> 2051</span> </div>
-<div class="line"><a id="l02052" name="l02052"></a><span class="lineno"> 2052</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
-<div class="line"><a id="l02053" name="l02053"></a><span class="lineno"> 2053</span>        <span class="comment">//automatically initialize bean plant shoots</span></div>
-<div class="line"><a id="l02054" name="l02054"></a><span class="lineno"> 2054</span>        initializeSoybeanShoots();</div>
-<div class="line"><a id="l02055" name="l02055"></a><span class="lineno"> 2055</span>    }</div>
-<div class="line"><a id="l02056" name="l02056"></a><span class="lineno"> 2056</span> </div>
-<div class="line"><a id="l02057" name="l02057"></a><span class="lineno"> 2057</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
-<div class="line"><a id="l02058" name="l02058"></a><span class="lineno"> 2058</span> </div>
-<div class="line"><a id="l02059" name="l02059"></a><span class="lineno"> 2059</span>    <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> base_rotation = make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 0.05f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI));</div>
-<div class="line"><a id="l02060" name="l02060"></a><span class="lineno"> 2060</span>    uint uID_unifoliate = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 1, base_rotation, 0.0005, 0.01, 0.01, 0.01, 0, <span class="stringliteral">&quot;unifoliate&quot;</span>);</div>
-<div class="line"><a id="l02061" name="l02061"></a><span class="lineno"> 2061</span> </div>
-<div class="line"><a id="l02062" name="l02062"></a><span class="lineno"> 2062</span>    <a class="code hl_function" href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55">appendShoot</a>(plantID, uID_unifoliate, 1, make_AxisRotation(0, 0, 0.5f * M_PI), shoot_types.at(<span class="stringliteral">&quot;trifoliate&quot;</span>).internode_radius_initial.val(), shoot_types.at(<span class="stringliteral">&quot;trifoliate&quot;</span>).internode_length_max.val(), 0.1, 0.1, 0, <span class="stringliteral">&quot;trifoliate&quot;</span>);</div>
-<div class="line"><a id="l02063" name="l02063"></a><span class="lineno"> 2063</span> </div>
-<div class="line"><a id="l02064" name="l02064"></a><span class="lineno"> 2064</span>    breakPlantDormancy(plantID);</div>
-<div class="line"><a id="l02065" name="l02065"></a><span class="lineno"> 2065</span> </div>
-<div class="line"><a id="l02066" name="l02066"></a><span class="lineno"> 2066</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, 15, 3, 3, 5, 100, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l02067" name="l02067"></a><span class="lineno"> 2067</span> </div>
-<div class="line"><a id="l02068" name="l02068"></a><span class="lineno"> 2068</span>    <span class="keywordflow">return</span> plantID;</div>
-<div class="line"><a id="l02069" name="l02069"></a><span class="lineno"> 2069</span> </div>
-<div class="line"><a id="l02070" name="l02070"></a><span class="lineno"> 2070</span>}</div>
-<div class="line"><a id="l02071" name="l02071"></a><span class="lineno"> 2071</span> </div>
-<div class="line"><a id="l02072" name="l02072"></a><span class="lineno"> 2072</span><span class="keywordtype">void</span> PlantArchitecture::initializeStrawberryShoots() {</div>
-<div class="line"><a id="l02073" name="l02073"></a><span class="lineno"> 2073</span> </div>
-<div class="line"><a id="l02074" name="l02074"></a><span class="lineno"> 2074</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
-<div class="line"><a id="l02075" name="l02075"></a><span class="lineno"> 2075</span> </div>
-<div class="line"><a id="l02076" name="l02076"></a><span class="lineno"> 2076</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l02077" name="l02077"></a><span class="lineno"> 2077</span> </div>
-<div class="line"><a id="l02078" name="l02078"></a><span class="lineno"> 2078</span>    phytomer_parameters.internode.pitch = 10;</div>
-<div class="line"><a id="l02079" name="l02079"></a><span class="lineno"> 2079</span>    phytomer_parameters.internode.phyllotactic_angle.uniformDistribution(80,100);</div>
-<div class="line"><a id="l02080" name="l02080"></a><span class="lineno"> 2080</span>    phytomer_parameters.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.38, 0.48, 0.1);</div>
-<div class="line"><a id="l02081" name="l02081"></a><span class="lineno"> 2081</span>    phytomer_parameters.internode.length_segments = 1;</div>
-<div class="line"><a id="l02082" name="l02082"></a><span class="lineno"> 2082</span> </div>
-<div class="line"><a id="l02083" name="l02083"></a><span class="lineno"> 2083</span>    phytomer_parameters.petiole.petioles_per_internode = 1;</div>
-<div class="line"><a id="l02084" name="l02084"></a><span class="lineno"> 2084</span>    phytomer_parameters.petiole.pitch.uniformDistribution(10,45);</div>
-<div class="line"><a id="l02085" name="l02085"></a><span class="lineno"> 2085</span>    phytomer_parameters.petiole.radius = 0.003;</div>
-<div class="line"><a id="l02086" name="l02086"></a><span class="lineno"> 2086</span>    phytomer_parameters.petiole.length = 0.2;</div>
-<div class="line"><a id="l02087" name="l02087"></a><span class="lineno"> 2087</span>    phytomer_parameters.petiole.taper = 0.5;</div>
-<div class="line"><a id="l02088" name="l02088"></a><span class="lineno"> 2088</span>    phytomer_parameters.petiole.curvature.uniformDistribution(-200,100);</div>
-<div class="line"><a id="l02089" name="l02089"></a><span class="lineno"> 2089</span>    phytomer_parameters.petiole.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.24, 0.28, 0.08);</div>
-<div class="line"><a id="l02090" name="l02090"></a><span class="lineno"> 2090</span>    phytomer_parameters.petiole.length_segments = 5;</div>
-<div class="line"><a id="l02091" name="l02091"></a><span class="lineno"> 2091</span> </div>
-<div class="line"><a id="l02092" name="l02092"></a><span class="lineno"> 2092</span>    phytomer_parameters.leaf.leaves_per_petiole = 3;</div>
-<div class="line"><a id="l02093" name="l02093"></a><span class="lineno"> 2093</span>    phytomer_parameters.leaf.pitch.uniformDistribution(-30,-15);</div>
-<div class="line"><a id="l02094" name="l02094"></a><span class="lineno"> 2094</span>    phytomer_parameters.leaf.yaw = 20;</div>
-<div class="line"><a id="l02095" name="l02095"></a><span class="lineno"> 2095</span>    phytomer_parameters.leaf.roll = -30;</div>
-<div class="line"><a id="l02096" name="l02096"></a><span class="lineno"> 2096</span>    phytomer_parameters.leaf.leaflet_offset = 0.01;</div>
-<div class="line"><a id="l02097" name="l02097"></a><span class="lineno"> 2097</span>    phytomer_parameters.leaf.leaflet_scale = 1.0;</div>
-<div class="line"><a id="l02098" name="l02098"></a><span class="lineno"> 2098</span>    phytomer_parameters.leaf.prototype_function = StrawberryLeafPrototype;</div>
-<div class="line"><a id="l02099" name="l02099"></a><span class="lineno"> 2099</span>    phytomer_parameters.leaf.prototype_scale = 0.1;</div>
-<div class="line"><a id="l02100" name="l02100"></a><span class="lineno"> 2100</span>    phytomer_parameters.leaf.subdivisions = 6;</div>
-<div class="line"><a id="l02101" name="l02101"></a><span class="lineno"> 2101</span>    phytomer_parameters.leaf.unique_prototypes = 5;</div>
-<div class="line"><a id="l02102" name="l02102"></a><span class="lineno"> 2102</span> </div>
-<div class="line"><a id="l02103" name="l02103"></a><span class="lineno"> 2103</span>    phytomer_parameters.peduncle.length = 0.17;</div>
-<div class="line"><a id="l02104" name="l02104"></a><span class="lineno"> 2104</span>    phytomer_parameters.peduncle.radius = 0.00075;</div>
-<div class="line"><a id="l02105" name="l02105"></a><span class="lineno"> 2105</span>    phytomer_parameters.peduncle.pitch = 35;</div>
-<div class="line"><a id="l02106" name="l02106"></a><span class="lineno"> 2106</span>    phytomer_parameters.peduncle.roll = 0;</div>
-<div class="line"><a id="l02107" name="l02107"></a><span class="lineno"> 2107</span>    phytomer_parameters.peduncle.curvature = -200;</div>
-<div class="line"><a id="l02108" name="l02108"></a><span class="lineno"> 2108</span>    phytomer_parameters.peduncle.length_segments = 5;</div>
-<div class="line"><a id="l02109" name="l02109"></a><span class="lineno"> 2109</span>    phytomer_parameters.peduncle.radial_subdivisions = 6;</div>
-<div class="line"><a id="l02110" name="l02110"></a><span class="lineno"> 2110</span>    phytomer_parameters.peduncle.color = phytomer_parameters.petiole.color;</div>
-<div class="line"><a id="l02111" name="l02111"></a><span class="lineno"> 2111</span> </div>
-<div class="line"><a id="l02112" name="l02112"></a><span class="lineno"> 2112</span>    phytomer_parameters.inflorescence.flowers_per_peduncle.uniformDistribution(1, 3);</div>
-<div class="line"><a id="l02113" name="l02113"></a><span class="lineno"> 2113</span>    phytomer_parameters.inflorescence.flower_offset = 0.2;</div>
-<div class="line"><a id="l02114" name="l02114"></a><span class="lineno"> 2114</span>    phytomer_parameters.inflorescence.pitch = 70;</div>
-<div class="line"><a id="l02115" name="l02115"></a><span class="lineno"> 2115</span>    phytomer_parameters.inflorescence.roll = 90;</div>
-<div class="line"><a id="l02116" name="l02116"></a><span class="lineno"> 2116</span>    phytomer_parameters.inflorescence.flower_prototype_scale = 0.04;</div>
-<div class="line"><a id="l02117" name="l02117"></a><span class="lineno"> 2117</span>    phytomer_parameters.inflorescence.flower_prototype_function = StrawberryFlowerPrototype;</div>
-<div class="line"><a id="l02118" name="l02118"></a><span class="lineno"> 2118</span>    phytomer_parameters.inflorescence.fruit_prototype_scale = 0.06;</div>
-<div class="line"><a id="l02119" name="l02119"></a><span class="lineno"> 2119</span>    phytomer_parameters.inflorescence.fruit_prototype_function = StrawberryFruitPrototype;</div>
-<div class="line"><a id="l02120" name="l02120"></a><span class="lineno"> 2120</span>    phytomer_parameters.inflorescence.fruit_gravity_factor_fraction = 0.65;</div>
-<div class="line"><a id="l02121" name="l02121"></a><span class="lineno"> 2121</span> </div>
-<div class="line"><a id="l02122" name="l02122"></a><span class="lineno"> 2122</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
-<div class="line"><a id="l02123" name="l02123"></a><span class="lineno"> 2123</span> </div>
-<div class="line"><a id="l02124" name="l02124"></a><span class="lineno"> 2124</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l02125" name="l02125"></a><span class="lineno"> 2125</span>    shoot_parameters.phytomer_parameters = phytomer_parameters;</div>
-<div class="line"><a id="l02126" name="l02126"></a><span class="lineno"> 2126</span> </div>
-<div class="line"><a id="l02127" name="l02127"></a><span class="lineno"> 2127</span>    shoot_parameters.max_nodes = 15;</div>
-<div class="line"><a id="l02128" name="l02128"></a><span class="lineno"> 2128</span>    shoot_parameters.internode_radius_initial = 0.001;</div>
-<div class="line"><a id="l02129" name="l02129"></a><span class="lineno"> 2129</span>    shoot_parameters.internode_radius_max = 0.005;</div>
-<div class="line"><a id="l02130" name="l02130"></a><span class="lineno"> 2130</span>    shoot_parameters.insertion_angle_tip = 40;</div>
-<div class="line"><a id="l02131" name="l02131"></a><span class="lineno"> 2131</span>    shoot_parameters.insertion_angle_decay_rate = 0;</div>
-<div class="line"><a id="l02132" name="l02132"></a><span class="lineno"> 2132</span>    shoot_parameters.internode_length_max = 0.01;</div>
-<div class="line"><a id="l02133" name="l02133"></a><span class="lineno"> 2133</span>    shoot_parameters.internode_length_decay_rate = 0;</div>
-<div class="line"><a id="l02134" name="l02134"></a><span class="lineno"> 2134</span>    shoot_parameters.internode_length_min = 0.0;</div>
-<div class="line"><a id="l02135" name="l02135"></a><span class="lineno"> 2135</span>    shoot_parameters.base_roll = 90;</div>
-<div class="line"><a id="l02136" name="l02136"></a><span class="lineno"> 2136</span>    shoot_parameters.base_yaw.uniformDistribution(-20,20);</div>
-<div class="line"><a id="l02137" name="l02137"></a><span class="lineno"> 2137</span>    shoot_parameters.gravitropic_curvature.uniformDistribution(-10,0);</div>
-<div class="line"><a id="l02138" name="l02138"></a><span class="lineno"> 2138</span>    shoot_parameters.tortuosity = 0;</div>
-<div class="line"><a id="l02139" name="l02139"></a><span class="lineno"> 2139</span> </div>
-<div class="line"><a id="l02140" name="l02140"></a><span class="lineno"> 2140</span>    shoot_parameters.phyllochron = 1.;</div>
-<div class="line"><a id="l02141" name="l02141"></a><span class="lineno"> 2141</span>    shoot_parameters.leaf_flush_count = 1;</div>
-<div class="line"><a id="l02142" name="l02142"></a><span class="lineno"> 2142</span>    shoot_parameters.elongation_rate = 0.1;</div>
-<div class="line"><a id="l02143" name="l02143"></a><span class="lineno"> 2143</span>    shoot_parameters.girth_area_factor = 10.f;</div>
-<div class="line"><a id="l02144" name="l02144"></a><span class="lineno"> 2144</span>    shoot_parameters.vegetative_bud_break_time = 3;</div>
-<div class="line"><a id="l02145" name="l02145"></a><span class="lineno"> 2145</span>    shoot_parameters.vegetative_bud_break_probability = 0.25;</div>
-<div class="line"><a id="l02146" name="l02146"></a><span class="lineno"> 2146</span>    shoot_parameters.flower_bud_break_probability = 1;</div>
-<div class="line"><a id="l02147" name="l02147"></a><span class="lineno"> 2147</span>    shoot_parameters.fruit_set_probability = 0.5;</div>
-<div class="line"><a id="l02148" name="l02148"></a><span class="lineno"> 2148</span>    shoot_parameters.flowers_require_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02149" name="l02149"></a><span class="lineno"> 2149</span>    shoot_parameters.growth_requires_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02150" name="l02150"></a><span class="lineno"> 2150</span>    shoot_parameters.determinate_shoot_growth = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l02151" name="l02151"></a><span class="lineno"> 2151</span> </div>
-<div class="line"><a id="l02152" name="l02152"></a><span class="lineno"> 2152</span>    shoot_parameters.defineChildShootTypes({<span class="stringliteral">&quot;mainstem&quot;</span>},{1.0});</div>
-<div class="line"><a id="l02153" name="l02153"></a><span class="lineno"> 2153</span> </div>
-<div class="line"><a id="l02154" name="l02154"></a><span class="lineno"> 2154</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;mainstem&quot;</span>,shoot_parameters);</div>
-<div class="line"><a id="l02155" name="l02155"></a><span class="lineno"> 2155</span> </div>
-<div class="line"><a id="l02156" name="l02156"></a><span class="lineno"> 2156</span>}</div>
-<div class="line"><a id="l02157" name="l02157"></a><span class="lineno"> 2157</span> </div>
-<div class="line"><a id="l02158" name="l02158"></a><span class="lineno"> 2158</span>uint PlantArchitecture::buildStrawberryPlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
-<div class="line"><a id="l02159" name="l02159"></a><span class="lineno"> 2159</span> </div>
-<div class="line"><a id="l02160" name="l02160"></a><span class="lineno"> 2160</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
-<div class="line"><a id="l02161" name="l02161"></a><span class="lineno"> 2161</span>        <span class="comment">//automatically initialize strawberry plant shoots</span></div>
-<div class="line"><a id="l02162" name="l02162"></a><span class="lineno"> 2162</span>        initializeStrawberryShoots();</div>
-<div class="line"><a id="l02163" name="l02163"></a><span class="lineno"> 2163</span>    }</div>
-<div class="line"><a id="l02164" name="l02164"></a><span class="lineno"> 2164</span> </div>
-<div class="line"><a id="l02165" name="l02165"></a><span class="lineno"> 2165</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
-<div class="line"><a id="l02166" name="l02166"></a><span class="lineno"> 2166</span> </div>
-<div class="line"><a id="l02167" name="l02167"></a><span class="lineno"> 2167</span>    <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> base_rotation = make_AxisRotation(0, context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI));</div>
-<div class="line"><a id="l02168" name="l02168"></a><span class="lineno"> 2168</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 1, base_rotation, 0.001, 0.004, 0.01, 0.01, 0, <span class="stringliteral">&quot;mainstem&quot;</span>);</div>
-<div class="line"><a id="l02169" name="l02169"></a><span class="lineno"> 2169</span> </div>
-<div class="line"><a id="l02170" name="l02170"></a><span class="lineno"> 2170</span>    breakPlantDormancy(plantID);</div>
-<div class="line"><a id="l02171" name="l02171"></a><span class="lineno"> 2171</span> </div>
-<div class="line"><a id="l02172" name="l02172"></a><span class="lineno"> 2172</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, 10, 3, 1, 100, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l02173" name="l02173"></a><span class="lineno"> 2173</span> </div>
-<div class="line"><a id="l02174" name="l02174"></a><span class="lineno"> 2174</span>    <span class="keywordflow">return</span> plantID;</div>
-<div class="line"><a id="l02175" name="l02175"></a><span class="lineno"> 2175</span> </div>
-<div class="line"><a id="l02176" name="l02176"></a><span class="lineno"> 2176</span>}</div>
-<div class="line"><a id="l02177" name="l02177"></a><span class="lineno"> 2177</span> </div>
-<div class="line"><a id="l02178" name="l02178"></a><span class="lineno"> 2178</span><span class="keywordtype">void</span> PlantArchitecture::initializeSugarbeetShoots() {</div>
-<div class="line"><a id="l02179" name="l02179"></a><span class="lineno"> 2179</span> </div>
-<div class="line"><a id="l02180" name="l02180"></a><span class="lineno"> 2180</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
-<div class="line"><a id="l02181" name="l02181"></a><span class="lineno"> 2181</span> </div>
-<div class="line"><a id="l02182" name="l02182"></a><span class="lineno"> 2182</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_sugarbeet(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l02183" name="l02183"></a><span class="lineno"> 2183</span> </div>
-<div class="line"><a id="l02184" name="l02184"></a><span class="lineno"> 2184</span>    phytomer_parameters_sugarbeet.internode.pitch = 0;</div>
-<div class="line"><a id="l02185" name="l02185"></a><span class="lineno"> 2185</span>    phytomer_parameters_sugarbeet.internode.phyllotactic_angle = 137.5;</div>
-<div class="line"><a id="l02186" name="l02186"></a><span class="lineno"> 2186</span>    phytomer_parameters_sugarbeet.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.44,0.58,0.19);</div>
-<div class="line"><a id="l02187" name="l02187"></a><span class="lineno"> 2187</span>    phytomer_parameters_sugarbeet.internode.length_segments = 2;</div>
-<div class="line"><a id="l02188" name="l02188"></a><span class="lineno"> 2188</span> </div>
-<div class="line"><a id="l02189" name="l02189"></a><span class="lineno"> 2189</span>    phytomer_parameters_sugarbeet.petiole.petioles_per_internode = 1;</div>
-<div class="line"><a id="l02190" name="l02190"></a><span class="lineno"> 2190</span>    phytomer_parameters_sugarbeet.petiole.pitch.uniformDistribution(0,40);</div>
-<div class="line"><a id="l02191" name="l02191"></a><span class="lineno"> 2191</span>    phytomer_parameters_sugarbeet.petiole.radius = 0.005;</div>
-<div class="line"><a id="l02192" name="l02192"></a><span class="lineno"> 2192</span>    phytomer_parameters_sugarbeet.petiole.length.uniformDistribution(0.15,0.2);</div>
-<div class="line"><a id="l02193" name="l02193"></a><span class="lineno"> 2193</span>    phytomer_parameters_sugarbeet.petiole.taper = 0.6;</div>
-<div class="line"><a id="l02194" name="l02194"></a><span class="lineno"> 2194</span>    phytomer_parameters_sugarbeet.petiole.curvature.uniformDistribution(-300,100);</div>
-<div class="line"><a id="l02195" name="l02195"></a><span class="lineno"> 2195</span>    phytomer_parameters_sugarbeet.petiole.color = phytomer_parameters_sugarbeet.internode.color;</div>
-<div class="line"><a id="l02196" name="l02196"></a><span class="lineno"> 2196</span>    phytomer_parameters_sugarbeet.petiole.length_segments = 8;</div>
-<div class="line"><a id="l02197" name="l02197"></a><span class="lineno"> 2197</span> </div>
-<div class="line"><a id="l02198" name="l02198"></a><span class="lineno"> 2198</span>    phytomer_parameters_sugarbeet.leaf.leaves_per_petiole = 1;</div>
-<div class="line"><a id="l02199" name="l02199"></a><span class="lineno"> 2199</span>    phytomer_parameters_sugarbeet.leaf.pitch.uniformDistribution(-10,0);</div>
-<div class="line"><a id="l02200" name="l02200"></a><span class="lineno"> 2200</span>    phytomer_parameters_sugarbeet.leaf.yaw.uniformDistribution(-5,5);</div>
-<div class="line"><a id="l02201" name="l02201"></a><span class="lineno"> 2201</span>    phytomer_parameters_sugarbeet.leaf.roll.uniformDistribution(-15,15);</div>
-<div class="line"><a id="l02202" name="l02202"></a><span class="lineno"> 2202</span>    phytomer_parameters_sugarbeet.leaf.prototype_function = SugarbeetLeafPrototype;</div>
-<div class="line"><a id="l02203" name="l02203"></a><span class="lineno"> 2203</span>    phytomer_parameters_sugarbeet.leaf.prototype_scale.uniformDistribution(0.15,0.25);</div>
-<div class="line"><a id="l02204" name="l02204"></a><span class="lineno"> 2204</span>    phytomer_parameters_sugarbeet.leaf.subdivisions = 40;</div>
-<div class="line"><a id="l02205" name="l02205"></a><span class="lineno"> 2205</span> </div>
-<div class="line"><a id="l02206" name="l02206"></a><span class="lineno"> 2206</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
-<div class="line"><a id="l02207" name="l02207"></a><span class="lineno"> 2207</span> </div>
-<div class="line"><a id="l02208" name="l02208"></a><span class="lineno"> 2208</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_mainstem(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l02209" name="l02209"></a><span class="lineno"> 2209</span>    shoot_parameters_mainstem.phytomer_parameters = phytomer_parameters_sugarbeet;</div>
-<div class="line"><a id="l02210" name="l02210"></a><span class="lineno"> 2210</span>    shoot_parameters_mainstem.vegetative_bud_break_probability = 0;</div>
-<div class="line"><a id="l02211" name="l02211"></a><span class="lineno"> 2211</span>    shoot_parameters_mainstem.internode_radius_initial = 0.005;</div>
-<div class="line"><a id="l02212" name="l02212"></a><span class="lineno"> 2212</span>    shoot_parameters_mainstem.phyllochron = 1;</div>
-<div class="line"><a id="l02213" name="l02213"></a><span class="lineno"> 2213</span>    shoot_parameters_mainstem.elongation_rate = 0.25;</div>
-<div class="line"><a id="l02214" name="l02214"></a><span class="lineno"> 2214</span>    shoot_parameters_mainstem.girth_area_factor = 20.f;</div>
-<div class="line"><a id="l02215" name="l02215"></a><span class="lineno"> 2215</span>    shoot_parameters_mainstem.gravitropic_curvature = 10;</div>
-<div class="line"><a id="l02216" name="l02216"></a><span class="lineno"> 2216</span>    shoot_parameters_mainstem.internode_length_max = 0.001;</div>
-<div class="line"><a id="l02217" name="l02217"></a><span class="lineno"> 2217</span>    shoot_parameters_mainstem.internode_length_decay_rate = 0;</div>
-<div class="line"><a id="l02218" name="l02218"></a><span class="lineno"> 2218</span>    shoot_parameters_mainstem.flowers_require_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02219" name="l02219"></a><span class="lineno"> 2219</span>    shoot_parameters_mainstem.growth_requires_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02220" name="l02220"></a><span class="lineno"> 2220</span>    shoot_parameters_mainstem.flower_bud_break_probability = 0.0;</div>
-<div class="line"><a id="l02221" name="l02221"></a><span class="lineno"> 2221</span>    shoot_parameters_mainstem.max_nodes = 30;</div>
-<div class="line"><a id="l02222" name="l02222"></a><span class="lineno"> 2222</span> </div>
-<div class="line"><a id="l02223" name="l02223"></a><span class="lineno"> 2223</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;mainstem&quot;</span>,shoot_parameters_mainstem);</div>
-<div class="line"><a id="l02224" name="l02224"></a><span class="lineno"> 2224</span> </div>
+<div class="line"><a id="l02048" name="l02048"></a><span class="lineno"> 2048</span> </div>
+<div class="line"><a id="l02049" name="l02049"></a><span class="lineno"> 2049</span>}</div>
+<div class="line"><a id="l02050" name="l02050"></a><span class="lineno"> 2050</span> </div>
+<div class="line"><a id="l02051" name="l02051"></a><span class="lineno"> 2051</span>uint PlantArchitecture::buildSoybeanPlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
+<div class="line"><a id="l02052" name="l02052"></a><span class="lineno"> 2052</span> </div>
+<div class="line"><a id="l02053" name="l02053"></a><span class="lineno"> 2053</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
+<div class="line"><a id="l02054" name="l02054"></a><span class="lineno"> 2054</span>        <span class="comment">//automatically initialize bean plant shoots</span></div>
+<div class="line"><a id="l02055" name="l02055"></a><span class="lineno"> 2055</span>        initializeSoybeanShoots();</div>
+<div class="line"><a id="l02056" name="l02056"></a><span class="lineno"> 2056</span>    }</div>
+<div class="line"><a id="l02057" name="l02057"></a><span class="lineno"> 2057</span> </div>
+<div class="line"><a id="l02058" name="l02058"></a><span class="lineno"> 2058</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
+<div class="line"><a id="l02059" name="l02059"></a><span class="lineno"> 2059</span> </div>
+<div class="line"><a id="l02060" name="l02060"></a><span class="lineno"> 2060</span>    <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> base_rotation = make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 0.05f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI));</div>
+<div class="line"><a id="l02061" name="l02061"></a><span class="lineno"> 2061</span>    uint uID_unifoliate = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 1, base_rotation, 0.0005, 0.01, 0.01, 0.01, 0, <span class="stringliteral">&quot;unifoliate&quot;</span>);</div>
+<div class="line"><a id="l02062" name="l02062"></a><span class="lineno"> 2062</span> </div>
+<div class="line"><a id="l02063" name="l02063"></a><span class="lineno"> 2063</span>    <a class="code hl_function" href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55">appendShoot</a>(plantID, uID_unifoliate, 1, make_AxisRotation(0, 0, 0.5f * M_PI), shoot_types.at(<span class="stringliteral">&quot;trifoliate&quot;</span>).internode_radius_initial.val(), shoot_types.at(<span class="stringliteral">&quot;trifoliate&quot;</span>).internode_length_max.val(), 0.1, 0.1, 0, <span class="stringliteral">&quot;trifoliate&quot;</span>);</div>
+<div class="line"><a id="l02064" name="l02064"></a><span class="lineno"> 2064</span> </div>
+<div class="line"><a id="l02065" name="l02065"></a><span class="lineno"> 2065</span>    breakPlantDormancy(plantID);</div>
+<div class="line"><a id="l02066" name="l02066"></a><span class="lineno"> 2066</span> </div>
+<div class="line"><a id="l02067" name="l02067"></a><span class="lineno"> 2067</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, 15, 3, 3, 5, 100, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l02068" name="l02068"></a><span class="lineno"> 2068</span> </div>
+<div class="line"><a id="l02069" name="l02069"></a><span class="lineno"> 2069</span>    <span class="keywordflow">return</span> plantID;</div>
+<div class="line"><a id="l02070" name="l02070"></a><span class="lineno"> 2070</span> </div>
+<div class="line"><a id="l02071" name="l02071"></a><span class="lineno"> 2071</span>}</div>
+<div class="line"><a id="l02072" name="l02072"></a><span class="lineno"> 2072</span> </div>
+<div class="line"><a id="l02073" name="l02073"></a><span class="lineno"> 2073</span><span class="keywordtype">void</span> PlantArchitecture::initializeStrawberryShoots() {</div>
+<div class="line"><a id="l02074" name="l02074"></a><span class="lineno"> 2074</span> </div>
+<div class="line"><a id="l02075" name="l02075"></a><span class="lineno"> 2075</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
+<div class="line"><a id="l02076" name="l02076"></a><span class="lineno"> 2076</span> </div>
+<div class="line"><a id="l02077" name="l02077"></a><span class="lineno"> 2077</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l02078" name="l02078"></a><span class="lineno"> 2078</span> </div>
+<div class="line"><a id="l02079" name="l02079"></a><span class="lineno"> 2079</span>    phytomer_parameters.internode.pitch = 10;</div>
+<div class="line"><a id="l02080" name="l02080"></a><span class="lineno"> 2080</span>    phytomer_parameters.internode.phyllotactic_angle.uniformDistribution(80,100);</div>
+<div class="line"><a id="l02081" name="l02081"></a><span class="lineno"> 2081</span>    phytomer_parameters.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.38, 0.48, 0.1);</div>
+<div class="line"><a id="l02082" name="l02082"></a><span class="lineno"> 2082</span>    phytomer_parameters.internode.length_segments = 1;</div>
+<div class="line"><a id="l02083" name="l02083"></a><span class="lineno"> 2083</span> </div>
+<div class="line"><a id="l02084" name="l02084"></a><span class="lineno"> 2084</span>    phytomer_parameters.petiole.petioles_per_internode = 1;</div>
+<div class="line"><a id="l02085" name="l02085"></a><span class="lineno"> 2085</span>    phytomer_parameters.petiole.pitch.uniformDistribution(10,45);</div>
+<div class="line"><a id="l02086" name="l02086"></a><span class="lineno"> 2086</span>    phytomer_parameters.petiole.radius = 0.003;</div>
+<div class="line"><a id="l02087" name="l02087"></a><span class="lineno"> 2087</span>    phytomer_parameters.petiole.length = 0.2;</div>
+<div class="line"><a id="l02088" name="l02088"></a><span class="lineno"> 2088</span>    phytomer_parameters.petiole.taper = 0.5;</div>
+<div class="line"><a id="l02089" name="l02089"></a><span class="lineno"> 2089</span>    phytomer_parameters.petiole.curvature.uniformDistribution(-200,100);</div>
+<div class="line"><a id="l02090" name="l02090"></a><span class="lineno"> 2090</span>    phytomer_parameters.petiole.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.24, 0.28, 0.08);</div>
+<div class="line"><a id="l02091" name="l02091"></a><span class="lineno"> 2091</span>    phytomer_parameters.petiole.length_segments = 5;</div>
+<div class="line"><a id="l02092" name="l02092"></a><span class="lineno"> 2092</span> </div>
+<div class="line"><a id="l02093" name="l02093"></a><span class="lineno"> 2093</span>    phytomer_parameters.leaf.leaves_per_petiole = 3;</div>
+<div class="line"><a id="l02094" name="l02094"></a><span class="lineno"> 2094</span>    phytomer_parameters.leaf.pitch.uniformDistribution(-30,-15);</div>
+<div class="line"><a id="l02095" name="l02095"></a><span class="lineno"> 2095</span>    phytomer_parameters.leaf.yaw = 20;</div>
+<div class="line"><a id="l02096" name="l02096"></a><span class="lineno"> 2096</span>    phytomer_parameters.leaf.roll = -30;</div>
+<div class="line"><a id="l02097" name="l02097"></a><span class="lineno"> 2097</span>    phytomer_parameters.leaf.leaflet_offset = 0.01;</div>
+<div class="line"><a id="l02098" name="l02098"></a><span class="lineno"> 2098</span>    phytomer_parameters.leaf.leaflet_scale = 1.0;</div>
+<div class="line"><a id="l02099" name="l02099"></a><span class="lineno"> 2099</span>    phytomer_parameters.leaf.prototype_function = StrawberryLeafPrototype;</div>
+<div class="line"><a id="l02100" name="l02100"></a><span class="lineno"> 2100</span>    phytomer_parameters.leaf.prototype_scale = 0.1;</div>
+<div class="line"><a id="l02101" name="l02101"></a><span class="lineno"> 2101</span>    phytomer_parameters.leaf.subdivisions = 6;</div>
+<div class="line"><a id="l02102" name="l02102"></a><span class="lineno"> 2102</span>    phytomer_parameters.leaf.unique_prototypes = 5;</div>
+<div class="line"><a id="l02103" name="l02103"></a><span class="lineno"> 2103</span> </div>
+<div class="line"><a id="l02104" name="l02104"></a><span class="lineno"> 2104</span>    phytomer_parameters.peduncle.length = 0.17;</div>
+<div class="line"><a id="l02105" name="l02105"></a><span class="lineno"> 2105</span>    phytomer_parameters.peduncle.radius = 0.00075;</div>
+<div class="line"><a id="l02106" name="l02106"></a><span class="lineno"> 2106</span>    phytomer_parameters.peduncle.pitch = 35;</div>
+<div class="line"><a id="l02107" name="l02107"></a><span class="lineno"> 2107</span>    phytomer_parameters.peduncle.roll = 0;</div>
+<div class="line"><a id="l02108" name="l02108"></a><span class="lineno"> 2108</span>    phytomer_parameters.peduncle.curvature = -200;</div>
+<div class="line"><a id="l02109" name="l02109"></a><span class="lineno"> 2109</span>    phytomer_parameters.peduncle.length_segments = 5;</div>
+<div class="line"><a id="l02110" name="l02110"></a><span class="lineno"> 2110</span>    phytomer_parameters.peduncle.radial_subdivisions = 6;</div>
+<div class="line"><a id="l02111" name="l02111"></a><span class="lineno"> 2111</span>    phytomer_parameters.peduncle.color = phytomer_parameters.petiole.color;</div>
+<div class="line"><a id="l02112" name="l02112"></a><span class="lineno"> 2112</span> </div>
+<div class="line"><a id="l02113" name="l02113"></a><span class="lineno"> 2113</span>    phytomer_parameters.inflorescence.flowers_per_peduncle.uniformDistribution(1, 3);</div>
+<div class="line"><a id="l02114" name="l02114"></a><span class="lineno"> 2114</span>    phytomer_parameters.inflorescence.flower_offset = 0.2;</div>
+<div class="line"><a id="l02115" name="l02115"></a><span class="lineno"> 2115</span>    phytomer_parameters.inflorescence.pitch = 70;</div>
+<div class="line"><a id="l02116" name="l02116"></a><span class="lineno"> 2116</span>    phytomer_parameters.inflorescence.roll = 90;</div>
+<div class="line"><a id="l02117" name="l02117"></a><span class="lineno"> 2117</span>    phytomer_parameters.inflorescence.flower_prototype_scale = 0.04;</div>
+<div class="line"><a id="l02118" name="l02118"></a><span class="lineno"> 2118</span>    phytomer_parameters.inflorescence.flower_prototype_function = StrawberryFlowerPrototype;</div>
+<div class="line"><a id="l02119" name="l02119"></a><span class="lineno"> 2119</span>    phytomer_parameters.inflorescence.fruit_prototype_scale = 0.06;</div>
+<div class="line"><a id="l02120" name="l02120"></a><span class="lineno"> 2120</span>    phytomer_parameters.inflorescence.fruit_prototype_function = StrawberryFruitPrototype;</div>
+<div class="line"><a id="l02121" name="l02121"></a><span class="lineno"> 2121</span>    phytomer_parameters.inflorescence.fruit_gravity_factor_fraction = 0.65;</div>
+<div class="line"><a id="l02122" name="l02122"></a><span class="lineno"> 2122</span> </div>
+<div class="line"><a id="l02123" name="l02123"></a><span class="lineno"> 2123</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
+<div class="line"><a id="l02124" name="l02124"></a><span class="lineno"> 2124</span> </div>
+<div class="line"><a id="l02125" name="l02125"></a><span class="lineno"> 2125</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l02126" name="l02126"></a><span class="lineno"> 2126</span>    shoot_parameters.phytomer_parameters = phytomer_parameters;</div>
+<div class="line"><a id="l02127" name="l02127"></a><span class="lineno"> 2127</span> </div>
+<div class="line"><a id="l02128" name="l02128"></a><span class="lineno"> 2128</span>    shoot_parameters.max_nodes = 15;</div>
+<div class="line"><a id="l02129" name="l02129"></a><span class="lineno"> 2129</span>    shoot_parameters.internode_radius_initial = 0.001;</div>
+<div class="line"><a id="l02130" name="l02130"></a><span class="lineno"> 2130</span>    shoot_parameters.internode_radius_max = 0.005;</div>
+<div class="line"><a id="l02131" name="l02131"></a><span class="lineno"> 2131</span>    shoot_parameters.insertion_angle_tip = 40;</div>
+<div class="line"><a id="l02132" name="l02132"></a><span class="lineno"> 2132</span>    shoot_parameters.insertion_angle_decay_rate = 0;</div>
+<div class="line"><a id="l02133" name="l02133"></a><span class="lineno"> 2133</span>    shoot_parameters.internode_length_max = 0.01;</div>
+<div class="line"><a id="l02134" name="l02134"></a><span class="lineno"> 2134</span>    shoot_parameters.internode_length_decay_rate = 0;</div>
+<div class="line"><a id="l02135" name="l02135"></a><span class="lineno"> 2135</span>    shoot_parameters.internode_length_min = 0.0;</div>
+<div class="line"><a id="l02136" name="l02136"></a><span class="lineno"> 2136</span>    shoot_parameters.base_roll = 90;</div>
+<div class="line"><a id="l02137" name="l02137"></a><span class="lineno"> 2137</span>    shoot_parameters.base_yaw.uniformDistribution(-20,20);</div>
+<div class="line"><a id="l02138" name="l02138"></a><span class="lineno"> 2138</span>    shoot_parameters.gravitropic_curvature.uniformDistribution(-10,0);</div>
+<div class="line"><a id="l02139" name="l02139"></a><span class="lineno"> 2139</span>    shoot_parameters.tortuosity = 0;</div>
+<div class="line"><a id="l02140" name="l02140"></a><span class="lineno"> 2140</span> </div>
+<div class="line"><a id="l02141" name="l02141"></a><span class="lineno"> 2141</span>    shoot_parameters.phyllochron = 1.;</div>
+<div class="line"><a id="l02142" name="l02142"></a><span class="lineno"> 2142</span>    shoot_parameters.leaf_flush_count = 1;</div>
+<div class="line"><a id="l02143" name="l02143"></a><span class="lineno"> 2143</span>    shoot_parameters.elongation_rate = 0.1;</div>
+<div class="line"><a id="l02144" name="l02144"></a><span class="lineno"> 2144</span>    shoot_parameters.girth_area_factor = 10.f;</div>
+<div class="line"><a id="l02145" name="l02145"></a><span class="lineno"> 2145</span>    shoot_parameters.vegetative_bud_break_time = 3;</div>
+<div class="line"><a id="l02146" name="l02146"></a><span class="lineno"> 2146</span>    shoot_parameters.vegetative_bud_break_probability = 0.25;</div>
+<div class="line"><a id="l02147" name="l02147"></a><span class="lineno"> 2147</span>    shoot_parameters.flower_bud_break_probability = 1;</div>
+<div class="line"><a id="l02148" name="l02148"></a><span class="lineno"> 2148</span>    shoot_parameters.fruit_set_probability = 0.5;</div>
+<div class="line"><a id="l02149" name="l02149"></a><span class="lineno"> 2149</span>    shoot_parameters.flowers_require_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02150" name="l02150"></a><span class="lineno"> 2150</span>    shoot_parameters.growth_requires_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02151" name="l02151"></a><span class="lineno"> 2151</span>    shoot_parameters.determinate_shoot_growth = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l02152" name="l02152"></a><span class="lineno"> 2152</span> </div>
+<div class="line"><a id="l02153" name="l02153"></a><span class="lineno"> 2153</span>    shoot_parameters.defineChildShootTypes({<span class="stringliteral">&quot;mainstem&quot;</span>},{1.0});</div>
+<div class="line"><a id="l02154" name="l02154"></a><span class="lineno"> 2154</span> </div>
+<div class="line"><a id="l02155" name="l02155"></a><span class="lineno"> 2155</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;mainstem&quot;</span>,shoot_parameters);</div>
+<div class="line"><a id="l02156" name="l02156"></a><span class="lineno"> 2156</span> </div>
+<div class="line"><a id="l02157" name="l02157"></a><span class="lineno"> 2157</span>}</div>
+<div class="line"><a id="l02158" name="l02158"></a><span class="lineno"> 2158</span> </div>
+<div class="line"><a id="l02159" name="l02159"></a><span class="lineno"> 2159</span>uint PlantArchitecture::buildStrawberryPlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
+<div class="line"><a id="l02160" name="l02160"></a><span class="lineno"> 2160</span> </div>
+<div class="line"><a id="l02161" name="l02161"></a><span class="lineno"> 2161</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
+<div class="line"><a id="l02162" name="l02162"></a><span class="lineno"> 2162</span>        <span class="comment">//automatically initialize strawberry plant shoots</span></div>
+<div class="line"><a id="l02163" name="l02163"></a><span class="lineno"> 2163</span>        initializeStrawberryShoots();</div>
+<div class="line"><a id="l02164" name="l02164"></a><span class="lineno"> 2164</span>    }</div>
+<div class="line"><a id="l02165" name="l02165"></a><span class="lineno"> 2165</span> </div>
+<div class="line"><a id="l02166" name="l02166"></a><span class="lineno"> 2166</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
+<div class="line"><a id="l02167" name="l02167"></a><span class="lineno"> 2167</span> </div>
+<div class="line"><a id="l02168" name="l02168"></a><span class="lineno"> 2168</span>    <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> base_rotation = make_AxisRotation(0, context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI));</div>
+<div class="line"><a id="l02169" name="l02169"></a><span class="lineno"> 2169</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 1, base_rotation, 0.001, 0.004, 0.01, 0.01, 0, <span class="stringliteral">&quot;mainstem&quot;</span>);</div>
+<div class="line"><a id="l02170" name="l02170"></a><span class="lineno"> 2170</span> </div>
+<div class="line"><a id="l02171" name="l02171"></a><span class="lineno"> 2171</span>    breakPlantDormancy(plantID);</div>
+<div class="line"><a id="l02172" name="l02172"></a><span class="lineno"> 2172</span> </div>
+<div class="line"><a id="l02173" name="l02173"></a><span class="lineno"> 2173</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, 10, 3, 1, 100, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l02174" name="l02174"></a><span class="lineno"> 2174</span> </div>
+<div class="line"><a id="l02175" name="l02175"></a><span class="lineno"> 2175</span>    <span class="keywordflow">return</span> plantID;</div>
+<div class="line"><a id="l02176" name="l02176"></a><span class="lineno"> 2176</span> </div>
+<div class="line"><a id="l02177" name="l02177"></a><span class="lineno"> 2177</span>}</div>
+<div class="line"><a id="l02178" name="l02178"></a><span class="lineno"> 2178</span> </div>
+<div class="line"><a id="l02179" name="l02179"></a><span class="lineno"> 2179</span><span class="keywordtype">void</span> PlantArchitecture::initializeSugarbeetShoots() {</div>
+<div class="line"><a id="l02180" name="l02180"></a><span class="lineno"> 2180</span> </div>
+<div class="line"><a id="l02181" name="l02181"></a><span class="lineno"> 2181</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
+<div class="line"><a id="l02182" name="l02182"></a><span class="lineno"> 2182</span> </div>
+<div class="line"><a id="l02183" name="l02183"></a><span class="lineno"> 2183</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_sugarbeet(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l02184" name="l02184"></a><span class="lineno"> 2184</span> </div>
+<div class="line"><a id="l02185" name="l02185"></a><span class="lineno"> 2185</span>    phytomer_parameters_sugarbeet.internode.pitch = 0;</div>
+<div class="line"><a id="l02186" name="l02186"></a><span class="lineno"> 2186</span>    phytomer_parameters_sugarbeet.internode.phyllotactic_angle = 137.5;</div>
+<div class="line"><a id="l02187" name="l02187"></a><span class="lineno"> 2187</span>    phytomer_parameters_sugarbeet.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.44,0.58,0.19);</div>
+<div class="line"><a id="l02188" name="l02188"></a><span class="lineno"> 2188</span>    phytomer_parameters_sugarbeet.internode.length_segments = 2;</div>
+<div class="line"><a id="l02189" name="l02189"></a><span class="lineno"> 2189</span> </div>
+<div class="line"><a id="l02190" name="l02190"></a><span class="lineno"> 2190</span>    phytomer_parameters_sugarbeet.petiole.petioles_per_internode = 1;</div>
+<div class="line"><a id="l02191" name="l02191"></a><span class="lineno"> 2191</span>    phytomer_parameters_sugarbeet.petiole.pitch.uniformDistribution(0,40);</div>
+<div class="line"><a id="l02192" name="l02192"></a><span class="lineno"> 2192</span>    phytomer_parameters_sugarbeet.petiole.radius = 0.005;</div>
+<div class="line"><a id="l02193" name="l02193"></a><span class="lineno"> 2193</span>    phytomer_parameters_sugarbeet.petiole.length.uniformDistribution(0.15,0.2);</div>
+<div class="line"><a id="l02194" name="l02194"></a><span class="lineno"> 2194</span>    phytomer_parameters_sugarbeet.petiole.taper = 0.6;</div>
+<div class="line"><a id="l02195" name="l02195"></a><span class="lineno"> 2195</span>    phytomer_parameters_sugarbeet.petiole.curvature.uniformDistribution(-300,100);</div>
+<div class="line"><a id="l02196" name="l02196"></a><span class="lineno"> 2196</span>    phytomer_parameters_sugarbeet.petiole.color = phytomer_parameters_sugarbeet.internode.color;</div>
+<div class="line"><a id="l02197" name="l02197"></a><span class="lineno"> 2197</span>    phytomer_parameters_sugarbeet.petiole.length_segments = 8;</div>
+<div class="line"><a id="l02198" name="l02198"></a><span class="lineno"> 2198</span> </div>
+<div class="line"><a id="l02199" name="l02199"></a><span class="lineno"> 2199</span>    phytomer_parameters_sugarbeet.leaf.leaves_per_petiole = 1;</div>
+<div class="line"><a id="l02200" name="l02200"></a><span class="lineno"> 2200</span>    phytomer_parameters_sugarbeet.leaf.pitch.uniformDistribution(-10,0);</div>
+<div class="line"><a id="l02201" name="l02201"></a><span class="lineno"> 2201</span>    phytomer_parameters_sugarbeet.leaf.yaw.uniformDistribution(-5,5);</div>
+<div class="line"><a id="l02202" name="l02202"></a><span class="lineno"> 2202</span>    phytomer_parameters_sugarbeet.leaf.roll.uniformDistribution(-15,15);</div>
+<div class="line"><a id="l02203" name="l02203"></a><span class="lineno"> 2203</span>    phytomer_parameters_sugarbeet.leaf.prototype_function = SugarbeetLeafPrototype;</div>
+<div class="line"><a id="l02204" name="l02204"></a><span class="lineno"> 2204</span>    phytomer_parameters_sugarbeet.leaf.prototype_scale.uniformDistribution(0.15,0.25);</div>
+<div class="line"><a id="l02205" name="l02205"></a><span class="lineno"> 2205</span>    phytomer_parameters_sugarbeet.leaf.subdivisions = 40;</div>
+<div class="line"><a id="l02206" name="l02206"></a><span class="lineno"> 2206</span> </div>
+<div class="line"><a id="l02207" name="l02207"></a><span class="lineno"> 2207</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
+<div class="line"><a id="l02208" name="l02208"></a><span class="lineno"> 2208</span> </div>
+<div class="line"><a id="l02209" name="l02209"></a><span class="lineno"> 2209</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_mainstem(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l02210" name="l02210"></a><span class="lineno"> 2210</span>    shoot_parameters_mainstem.phytomer_parameters = phytomer_parameters_sugarbeet;</div>
+<div class="line"><a id="l02211" name="l02211"></a><span class="lineno"> 2211</span>    shoot_parameters_mainstem.vegetative_bud_break_probability = 0;</div>
+<div class="line"><a id="l02212" name="l02212"></a><span class="lineno"> 2212</span>    shoot_parameters_mainstem.internode_radius_initial = 0.005;</div>
+<div class="line"><a id="l02213" name="l02213"></a><span class="lineno"> 2213</span>    shoot_parameters_mainstem.phyllochron = 1;</div>
+<div class="line"><a id="l02214" name="l02214"></a><span class="lineno"> 2214</span>    shoot_parameters_mainstem.elongation_rate = 0.25;</div>
+<div class="line"><a id="l02215" name="l02215"></a><span class="lineno"> 2215</span>    shoot_parameters_mainstem.girth_area_factor = 20.f;</div>
+<div class="line"><a id="l02216" name="l02216"></a><span class="lineno"> 2216</span>    shoot_parameters_mainstem.gravitropic_curvature = 10;</div>
+<div class="line"><a id="l02217" name="l02217"></a><span class="lineno"> 2217</span>    shoot_parameters_mainstem.internode_length_max = 0.001;</div>
+<div class="line"><a id="l02218" name="l02218"></a><span class="lineno"> 2218</span>    shoot_parameters_mainstem.internode_length_decay_rate = 0;</div>
+<div class="line"><a id="l02219" name="l02219"></a><span class="lineno"> 2219</span>    shoot_parameters_mainstem.flowers_require_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02220" name="l02220"></a><span class="lineno"> 2220</span>    shoot_parameters_mainstem.growth_requires_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02221" name="l02221"></a><span class="lineno"> 2221</span>    shoot_parameters_mainstem.flower_bud_break_probability = 0.0;</div>
+<div class="line"><a id="l02222" name="l02222"></a><span class="lineno"> 2222</span>    shoot_parameters_mainstem.max_nodes = 30;</div>
+<div class="line"><a id="l02223" name="l02223"></a><span class="lineno"> 2223</span> </div>
+<div class="line"><a id="l02224" name="l02224"></a><span class="lineno"> 2224</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;mainstem&quot;</span>,shoot_parameters_mainstem);</div>
 <div class="line"><a id="l02225" name="l02225"></a><span class="lineno"> 2225</span> </div>
-<div class="line"><a id="l02226" name="l02226"></a><span class="lineno"> 2226</span>}</div>
-<div class="line"><a id="l02227" name="l02227"></a><span class="lineno"> 2227</span> </div>
-<div class="line"><a id="l02228" name="l02228"></a><span class="lineno"> 2228</span>uint PlantArchitecture::buildSugarbeetPlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
-<div class="line"><a id="l02229" name="l02229"></a><span class="lineno"> 2229</span> </div>
-<div class="line"><a id="l02230" name="l02230"></a><span class="lineno"> 2230</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
-<div class="line"><a id="l02231" name="l02231"></a><span class="lineno"> 2231</span>        <span class="comment">//automatically initialize sugarbeet plant shoots</span></div>
-<div class="line"><a id="l02232" name="l02232"></a><span class="lineno"> 2232</span>        initializeSugarbeetShoots();</div>
-<div class="line"><a id="l02233" name="l02233"></a><span class="lineno"> 2233</span>    }</div>
-<div class="line"><a id="l02234" name="l02234"></a><span class="lineno"> 2234</span> </div>
-<div class="line"><a id="l02235" name="l02235"></a><span class="lineno"> 2235</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
-<div class="line"><a id="l02236" name="l02236"></a><span class="lineno"> 2236</span> </div>
-<div class="line"><a id="l02237" name="l02237"></a><span class="lineno"> 2237</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 3, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 0.01f * M_PI), 0.f * context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), 0.25f * M_PI), 0.005, 0.001, 1, 1, 0, <span class="stringliteral">&quot;mainstem&quot;</span>);</div>
-<div class="line"><a id="l02238" name="l02238"></a><span class="lineno"> 2238</span> </div>
-<div class="line"><a id="l02239" name="l02239"></a><span class="lineno"> 2239</span>    breakPlantDormancy(plantID);</div>
-<div class="line"><a id="l02240" name="l02240"></a><span class="lineno"> 2240</span> </div>
-<div class="line"><a id="l02241" name="l02241"></a><span class="lineno"> 2241</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, 1000, 10, 60, 5, 100, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l02242" name="l02242"></a><span class="lineno"> 2242</span> </div>
-<div class="line"><a id="l02243" name="l02243"></a><span class="lineno"> 2243</span>    <span class="keywordflow">return</span> plantID;</div>
-<div class="line"><a id="l02244" name="l02244"></a><span class="lineno"> 2244</span> </div>
-<div class="line"><a id="l02245" name="l02245"></a><span class="lineno"> 2245</span>}</div>
-<div class="line"><a id="l02246" name="l02246"></a><span class="lineno"> 2246</span> </div>
-<div class="line"><a id="l02247" name="l02247"></a><span class="lineno"> 2247</span><span class="keywordtype">void</span> PlantArchitecture::initializeTomatoShoots() {</div>
-<div class="line"><a id="l02248" name="l02248"></a><span class="lineno"> 2248</span> </div>
-<div class="line"><a id="l02249" name="l02249"></a><span class="lineno"> 2249</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
-<div class="line"><a id="l02250" name="l02250"></a><span class="lineno"> 2250</span> </div>
-<div class="line"><a id="l02251" name="l02251"></a><span class="lineno"> 2251</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l02252" name="l02252"></a><span class="lineno"> 2252</span> </div>
-<div class="line"><a id="l02253" name="l02253"></a><span class="lineno"> 2253</span>    phytomer_parameters.internode.pitch = 10;</div>
-<div class="line"><a id="l02254" name="l02254"></a><span class="lineno"> 2254</span>    phytomer_parameters.internode.phyllotactic_angle.uniformDistribution(145, 215);</div>
-<div class="line"><a id="l02255" name="l02255"></a><span class="lineno"> 2255</span>    phytomer_parameters.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.213, 0.270, 0.056);</div>
-<div class="line"><a id="l02256" name="l02256"></a><span class="lineno"> 2256</span>    phytomer_parameters.internode.length_segments = 1;</div>
-<div class="line"><a id="l02257" name="l02257"></a><span class="lineno"> 2257</span> </div>
-<div class="line"><a id="l02258" name="l02258"></a><span class="lineno"> 2258</span>    phytomer_parameters.petiole.petioles_per_internode = 1;</div>
-<div class="line"><a id="l02259" name="l02259"></a><span class="lineno"> 2259</span>    phytomer_parameters.petiole.pitch.uniformDistribution(45,60);</div>
-<div class="line"><a id="l02260" name="l02260"></a><span class="lineno"> 2260</span>    phytomer_parameters.petiole.radius = 0.002;</div>
-<div class="line"><a id="l02261" name="l02261"></a><span class="lineno"> 2261</span>    phytomer_parameters.petiole.length = 0.2;</div>
-<div class="line"><a id="l02262" name="l02262"></a><span class="lineno"> 2262</span>    phytomer_parameters.petiole.taper = 0.15;</div>
-<div class="line"><a id="l02263" name="l02263"></a><span class="lineno"> 2263</span>    phytomer_parameters.petiole.curvature.uniformDistribution(-150,-50);</div>
-<div class="line"><a id="l02264" name="l02264"></a><span class="lineno"> 2264</span>    phytomer_parameters.petiole.color = phytomer_parameters.internode.color;</div>
-<div class="line"><a id="l02265" name="l02265"></a><span class="lineno"> 2265</span>    phytomer_parameters.petiole.length_segments = 5;</div>
-<div class="line"><a id="l02266" name="l02266"></a><span class="lineno"> 2266</span> </div>
-<div class="line"><a id="l02267" name="l02267"></a><span class="lineno"> 2267</span>    phytomer_parameters.leaf.leaves_per_petiole = 7;</div>
-<div class="line"><a id="l02268" name="l02268"></a><span class="lineno"> 2268</span>    phytomer_parameters.leaf.pitch.uniformDistribution(-30, 5);</div>
-<div class="line"><a id="l02269" name="l02269"></a><span class="lineno"> 2269</span>    phytomer_parameters.leaf.yaw = 10;</div>
-<div class="line"><a id="l02270" name="l02270"></a><span class="lineno"> 2270</span>    phytomer_parameters.leaf.roll = 0;</div>
-<div class="line"><a id="l02271" name="l02271"></a><span class="lineno"> 2271</span>    phytomer_parameters.leaf.leaflet_offset = 0.15;</div>
-<div class="line"><a id="l02272" name="l02272"></a><span class="lineno"> 2272</span>    phytomer_parameters.leaf.leaflet_scale = 0.7;</div>
-<div class="line"><a id="l02273" name="l02273"></a><span class="lineno"> 2273</span>    phytomer_parameters.leaf.prototype_function = TomatoLeafPrototype;</div>
-<div class="line"><a id="l02274" name="l02274"></a><span class="lineno"> 2274</span>    phytomer_parameters.leaf.prototype_scale.uniformDistribution(0.1,0.14);</div>
-<div class="line"><a id="l02275" name="l02275"></a><span class="lineno"> 2275</span>    phytomer_parameters.leaf.subdivisions = 6;</div>
-<div class="line"><a id="l02276" name="l02276"></a><span class="lineno"> 2276</span>    phytomer_parameters.leaf.unique_prototypes = 5;</div>
-<div class="line"><a id="l02277" name="l02277"></a><span class="lineno"> 2277</span> </div>
-<div class="line"><a id="l02278" name="l02278"></a><span class="lineno"> 2278</span>    phytomer_parameters.peduncle.length = 0.16;</div>
-<div class="line"><a id="l02279" name="l02279"></a><span class="lineno"> 2279</span>    phytomer_parameters.peduncle.radius = 0.0015;</div>
-<div class="line"><a id="l02280" name="l02280"></a><span class="lineno"> 2280</span>    phytomer_parameters.peduncle.pitch = 20;</div>
-<div class="line"><a id="l02281" name="l02281"></a><span class="lineno"> 2281</span>    phytomer_parameters.peduncle.roll = 0;</div>
-<div class="line"><a id="l02282" name="l02282"></a><span class="lineno"> 2282</span>    phytomer_parameters.peduncle.curvature = -700;</div>
-<div class="line"><a id="l02283" name="l02283"></a><span class="lineno"> 2283</span>    phytomer_parameters.peduncle.color = phytomer_parameters.internode.color;</div>
-<div class="line"><a id="l02284" name="l02284"></a><span class="lineno"> 2284</span>    phytomer_parameters.peduncle.length_segments = 5;</div>
-<div class="line"><a id="l02285" name="l02285"></a><span class="lineno"> 2285</span>    phytomer_parameters.peduncle.radial_subdivisions = 8;</div>
-<div class="line"><a id="l02286" name="l02286"></a><span class="lineno"> 2286</span> </div>
-<div class="line"><a id="l02287" name="l02287"></a><span class="lineno"> 2287</span>    phytomer_parameters.inflorescence.flowers_per_peduncle = 8;</div>
-<div class="line"><a id="l02288" name="l02288"></a><span class="lineno"> 2288</span>    phytomer_parameters.inflorescence.flower_offset = 0.15;</div>
-<div class="line"><a id="l02289" name="l02289"></a><span class="lineno"> 2289</span>    phytomer_parameters.inflorescence.pitch = 90;</div>
-<div class="line"><a id="l02290" name="l02290"></a><span class="lineno"> 2290</span>    phytomer_parameters.inflorescence.roll.uniformDistribution(-30,30);</div>
-<div class="line"><a id="l02291" name="l02291"></a><span class="lineno"> 2291</span>    phytomer_parameters.inflorescence.flower_prototype_scale = 0.03;</div>
-<div class="line"><a id="l02292" name="l02292"></a><span class="lineno"> 2292</span>    phytomer_parameters.inflorescence.flower_prototype_function = TomatoFlowerPrototype;</div>
-<div class="line"><a id="l02293" name="l02293"></a><span class="lineno"> 2293</span>    phytomer_parameters.inflorescence.fruit_prototype_scale = 0.04;</div>
-<div class="line"><a id="l02294" name="l02294"></a><span class="lineno"> 2294</span>    phytomer_parameters.inflorescence.fruit_prototype_function = TomatoFruitPrototype;</div>
-<div class="line"><a id="l02295" name="l02295"></a><span class="lineno"> 2295</span>    phytomer_parameters.inflorescence.fruit_gravity_factor_fraction = 0.5;</div>
-<div class="line"><a id="l02296" name="l02296"></a><span class="lineno"> 2296</span> </div>
-<div class="line"><a id="l02297" name="l02297"></a><span class="lineno"> 2297</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
-<div class="line"><a id="l02298" name="l02298"></a><span class="lineno"> 2298</span> </div>
-<div class="line"><a id="l02299" name="l02299"></a><span class="lineno"> 2299</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l02300" name="l02300"></a><span class="lineno"> 2300</span>    shoot_parameters.phytomer_parameters = phytomer_parameters;</div>
-<div class="line"><a id="l02301" name="l02301"></a><span class="lineno"> 2301</span>    shoot_parameters.phytomer_parameters.phytomer_creation_function = TomatoPhytomerCreationFunction;</div>
-<div class="line"><a id="l02302" name="l02302"></a><span class="lineno"> 2302</span> </div>
-<div class="line"><a id="l02303" name="l02303"></a><span class="lineno"> 2303</span>    shoot_parameters.max_nodes = 20;</div>
-<div class="line"><a id="l02304" name="l02304"></a><span class="lineno"> 2304</span>    shoot_parameters.internode_radius_initial = 0.001;</div>
-<div class="line"><a id="l02305" name="l02305"></a><span class="lineno"> 2305</span>    shoot_parameters.internode_radius_max = 0.009;</div>
-<div class="line"><a id="l02306" name="l02306"></a><span class="lineno"> 2306</span>    shoot_parameters.insertion_angle_tip = 30;</div>
-<div class="line"><a id="l02307" name="l02307"></a><span class="lineno"> 2307</span>    shoot_parameters.insertion_angle_decay_rate = 0;</div>
-<div class="line"><a id="l02308" name="l02308"></a><span class="lineno"> 2308</span>    shoot_parameters.internode_length_max = 0.04;</div>
-<div class="line"><a id="l02309" name="l02309"></a><span class="lineno"> 2309</span>    shoot_parameters.internode_length_min = 0.0;</div>
-<div class="line"><a id="l02310" name="l02310"></a><span class="lineno"> 2310</span>    shoot_parameters.internode_length_decay_rate = 0;</div>
-<div class="line"><a id="l02311" name="l02311"></a><span class="lineno"> 2311</span>    shoot_parameters.base_roll = 90;</div>
-<div class="line"><a id="l02312" name="l02312"></a><span class="lineno"> 2312</span>    shoot_parameters.base_yaw.uniformDistribution(-20,20);</div>
-<div class="line"><a id="l02313" name="l02313"></a><span class="lineno"> 2313</span>    shoot_parameters.gravitropic_curvature = -20;</div>
-<div class="line"><a id="l02314" name="l02314"></a><span class="lineno"> 2314</span>    shoot_parameters.tortuosity = 0;</div>
-<div class="line"><a id="l02315" name="l02315"></a><span class="lineno"> 2315</span> </div>
-<div class="line"><a id="l02316" name="l02316"></a><span class="lineno"> 2316</span>    shoot_parameters.phyllochron = 1;</div>
-<div class="line"><a id="l02317" name="l02317"></a><span class="lineno"> 2317</span>    shoot_parameters.leaf_flush_count = 1;</div>
-<div class="line"><a id="l02318" name="l02318"></a><span class="lineno"> 2318</span>    shoot_parameters.elongation_rate = 0.1;</div>
-<div class="line"><a id="l02319" name="l02319"></a><span class="lineno"> 2319</span>    shoot_parameters.girth_area_factor = 3.f;</div>
-<div class="line"><a id="l02320" name="l02320"></a><span class="lineno"> 2320</span>    shoot_parameters.vegetative_bud_break_time = 3;</div>
-<div class="line"><a id="l02321" name="l02321"></a><span class="lineno"> 2321</span>    shoot_parameters.vegetative_bud_break_probability = 0.6;</div>
-<div class="line"><a id="l02322" name="l02322"></a><span class="lineno"> 2322</span>    shoot_parameters.flower_bud_break_probability = 0.5;</div>
-<div class="line"><a id="l02323" name="l02323"></a><span class="lineno"> 2323</span>    shoot_parameters.fruit_set_probability = 0.5;</div>
-<div class="line"><a id="l02324" name="l02324"></a><span class="lineno"> 2324</span>    shoot_parameters.flowers_require_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02325" name="l02325"></a><span class="lineno"> 2325</span>    shoot_parameters.growth_requires_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02326" name="l02326"></a><span class="lineno"> 2326</span>    shoot_parameters.determinate_shoot_growth = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l02327" name="l02327"></a><span class="lineno"> 2327</span> </div>
-<div class="line"><a id="l02328" name="l02328"></a><span class="lineno"> 2328</span>    shoot_parameters.defineChildShootTypes({<span class="stringliteral">&quot;mainstem&quot;</span>},{1.0});</div>
-<div class="line"><a id="l02329" name="l02329"></a><span class="lineno"> 2329</span> </div>
-<div class="line"><a id="l02330" name="l02330"></a><span class="lineno"> 2330</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;mainstem&quot;</span>,shoot_parameters);</div>
-<div class="line"><a id="l02331" name="l02331"></a><span class="lineno"> 2331</span> </div>
-<div class="line"><a id="l02332" name="l02332"></a><span class="lineno"> 2332</span>}</div>
-<div class="line"><a id="l02333" name="l02333"></a><span class="lineno"> 2333</span> </div>
-<div class="line"><a id="l02334" name="l02334"></a><span class="lineno"> 2334</span>uint PlantArchitecture::buildTomatoPlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
-<div class="line"><a id="l02335" name="l02335"></a><span class="lineno"> 2335</span> </div>
-<div class="line"><a id="l02336" name="l02336"></a><span class="lineno"> 2336</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
-<div class="line"><a id="l02337" name="l02337"></a><span class="lineno"> 2337</span>        <span class="comment">//automatically initialize tomato plant shoots</span></div>
-<div class="line"><a id="l02338" name="l02338"></a><span class="lineno"> 2338</span>        initializeTomatoShoots();</div>
-<div class="line"><a id="l02339" name="l02339"></a><span class="lineno"> 2339</span>    }</div>
-<div class="line"><a id="l02340" name="l02340"></a><span class="lineno"> 2340</span> </div>
-<div class="line"><a id="l02341" name="l02341"></a><span class="lineno"> 2341</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
-<div class="line"><a id="l02342" name="l02342"></a><span class="lineno"> 2342</span> </div>
-<div class="line"><a id="l02343" name="l02343"></a><span class="lineno"> 2343</span>    <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> base_rotation = make_AxisRotation(0, context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI));</div>
-<div class="line"><a id="l02344" name="l02344"></a><span class="lineno"> 2344</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 1, base_rotation, 0.002, 0.04, 0.01, 0.01, 0, <span class="stringliteral">&quot;mainstem&quot;</span>);</div>
-<div class="line"><a id="l02345" name="l02345"></a><span class="lineno"> 2345</span> </div>
-<div class="line"><a id="l02346" name="l02346"></a><span class="lineno"> 2346</span>    breakPlantDormancy(plantID);</div>
-<div class="line"><a id="l02347" name="l02347"></a><span class="lineno"> 2347</span> </div>
-<div class="line"><a id="l02348" name="l02348"></a><span class="lineno"> 2348</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, 10, 3, 2, 100, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l02349" name="l02349"></a><span class="lineno"> 2349</span> </div>
-<div class="line"><a id="l02350" name="l02350"></a><span class="lineno"> 2350</span>    <span class="keywordflow">return</span> plantID;</div>
-<div class="line"><a id="l02351" name="l02351"></a><span class="lineno"> 2351</span> </div>
-<div class="line"><a id="l02352" name="l02352"></a><span class="lineno"> 2352</span>}</div>
-<div class="line"><a id="l02353" name="l02353"></a><span class="lineno"> 2353</span> </div>
-<div class="line"><a id="l02354" name="l02354"></a><span class="lineno"> 2354</span><span class="keywordtype">void</span> PlantArchitecture::initializeWheatShoots() {</div>
-<div class="line"><a id="l02355" name="l02355"></a><span class="lineno"> 2355</span> </div>
-<div class="line"><a id="l02356" name="l02356"></a><span class="lineno"> 2356</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
-<div class="line"><a id="l02357" name="l02357"></a><span class="lineno"> 2357</span> </div>
-<div class="line"><a id="l02358" name="l02358"></a><span class="lineno"> 2358</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_wheat(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l02359" name="l02359"></a><span class="lineno"> 2359</span> </div>
-<div class="line"><a id="l02360" name="l02360"></a><span class="lineno"> 2360</span>    phytomer_parameters_wheat.internode.pitch = 0;</div>
-<div class="line"><a id="l02361" name="l02361"></a><span class="lineno"> 2361</span>    phytomer_parameters_wheat.internode.phyllotactic_angle.uniformDistribution(67,77);</div>
-<div class="line"><a id="l02362" name="l02362"></a><span class="lineno"> 2362</span>    phytomer_parameters_wheat.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.27,0.31,0.16);</div>
-<div class="line"><a id="l02363" name="l02363"></a><span class="lineno"> 2363</span>    phytomer_parameters_wheat.internode.length_segments = 1;</div>
-<div class="line"><a id="l02364" name="l02364"></a><span class="lineno"> 2364</span>    phytomer_parameters_wheat.internode.radial_subdivisions = 6;</div>
-<div class="line"><a id="l02365" name="l02365"></a><span class="lineno"> 2365</span>    phytomer_parameters_wheat.internode.max_floral_buds_per_petiole = 0;</div>
-<div class="line"><a id="l02366" name="l02366"></a><span class="lineno"> 2366</span>    phytomer_parameters_wheat.internode.max_vegetative_buds_per_petiole = 0;</div>
-<div class="line"><a id="l02367" name="l02367"></a><span class="lineno"> 2367</span> </div>
-<div class="line"><a id="l02368" name="l02368"></a><span class="lineno"> 2368</span>    phytomer_parameters_wheat.petiole.petioles_per_internode = 1;</div>
-<div class="line"><a id="l02369" name="l02369"></a><span class="lineno"> 2369</span>    phytomer_parameters_wheat.petiole.pitch.uniformDistribution(-40,-20);</div>
-<div class="line"><a id="l02370" name="l02370"></a><span class="lineno"> 2370</span>    phytomer_parameters_wheat.petiole.radius = 0.0;</div>
-<div class="line"><a id="l02371" name="l02371"></a><span class="lineno"> 2371</span>    phytomer_parameters_wheat.petiole.length = 0.01;</div>
-<div class="line"><a id="l02372" name="l02372"></a><span class="lineno"> 2372</span>    phytomer_parameters_wheat.petiole.taper = 0;</div>
-<div class="line"><a id="l02373" name="l02373"></a><span class="lineno"> 2373</span>    phytomer_parameters_wheat.petiole.curvature = 0;</div>
-<div class="line"><a id="l02374" name="l02374"></a><span class="lineno"> 2374</span>    phytomer_parameters_wheat.petiole.length_segments = 1;</div>
-<div class="line"><a id="l02375" name="l02375"></a><span class="lineno"> 2375</span> </div>
-<div class="line"><a id="l02376" name="l02376"></a><span class="lineno"> 2376</span>    phytomer_parameters_wheat.leaf.leaves_per_petiole = 1;</div>
-<div class="line"><a id="l02377" name="l02377"></a><span class="lineno"> 2377</span>    phytomer_parameters_wheat.leaf.pitch = 0;</div>
-<div class="line"><a id="l02378" name="l02378"></a><span class="lineno"> 2378</span>    phytomer_parameters_wheat.leaf.yaw = 0;</div>
-<div class="line"><a id="l02379" name="l02379"></a><span class="lineno"> 2379</span>    phytomer_parameters_wheat.leaf.roll = 0;</div>
-<div class="line"><a id="l02380" name="l02380"></a><span class="lineno"> 2380</span>    phytomer_parameters_wheat.leaf.prototype_function = WheatLeafPrototype;</div>
-<div class="line"><a id="l02381" name="l02381"></a><span class="lineno"> 2381</span>    phytomer_parameters_wheat.leaf.prototype_scale = 0.1;</div>
-<div class="line"><a id="l02382" name="l02382"></a><span class="lineno"> 2382</span>    phytomer_parameters_wheat.leaf.subdivisions = 20;</div>
-<div class="line"><a id="l02383" name="l02383"></a><span class="lineno"> 2383</span>    phytomer_parameters_wheat.leaf.unique_prototypes = 10;</div>
-<div class="line"><a id="l02384" name="l02384"></a><span class="lineno"> 2384</span> </div>
-<div class="line"><a id="l02385" name="l02385"></a><span class="lineno"> 2385</span>    phytomer_parameters_wheat.peduncle.length = 0.07;</div>
-<div class="line"><a id="l02386" name="l02386"></a><span class="lineno"> 2386</span>    phytomer_parameters_wheat.peduncle.radius = 0.002;</div>
-<div class="line"><a id="l02387" name="l02387"></a><span class="lineno"> 2387</span>    phytomer_parameters_wheat.peduncle.color = phytomer_parameters_wheat.internode.color;</div>
-<div class="line"><a id="l02388" name="l02388"></a><span class="lineno"> 2388</span>    phytomer_parameters_wheat.peduncle.curvature = -200;</div>
-<div class="line"><a id="l02389" name="l02389"></a><span class="lineno"> 2389</span>    phytomer_parameters_wheat.peduncle.radial_subdivisions = 6;</div>
-<div class="line"><a id="l02390" name="l02390"></a><span class="lineno"> 2390</span> </div>
-<div class="line"><a id="l02391" name="l02391"></a><span class="lineno"> 2391</span>    phytomer_parameters_wheat.inflorescence.flowers_per_peduncle = 1;</div>
-<div class="line"><a id="l02392" name="l02392"></a><span class="lineno"> 2392</span>    phytomer_parameters_wheat.inflorescence.pitch = 0;</div>
-<div class="line"><a id="l02393" name="l02393"></a><span class="lineno"> 2393</span>    phytomer_parameters_wheat.inflorescence.roll = 0;</div>
-<div class="line"><a id="l02394" name="l02394"></a><span class="lineno"> 2394</span>    phytomer_parameters_wheat.inflorescence.fruit_prototype_scale = 0.1;</div>
-<div class="line"><a id="l02395" name="l02395"></a><span class="lineno"> 2395</span>    phytomer_parameters_wheat.inflorescence.fruit_prototype_function = WheatSpikePrototype;</div>
-<div class="line"><a id="l02396" name="l02396"></a><span class="lineno"> 2396</span> </div>
-<div class="line"><a id="l02397" name="l02397"></a><span class="lineno"> 2397</span>    phytomer_parameters_wheat.phytomer_creation_function = WheatPhytomerCreationFunction;</div>
-<div class="line"><a id="l02398" name="l02398"></a><span class="lineno"> 2398</span> </div>
-<div class="line"><a id="l02399" name="l02399"></a><span class="lineno"> 2399</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
-<div class="line"><a id="l02400" name="l02400"></a><span class="lineno"> 2400</span> </div>
-<div class="line"><a id="l02401" name="l02401"></a><span class="lineno"> 2401</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_mainstem(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
-<div class="line"><a id="l02402" name="l02402"></a><span class="lineno"> 2402</span>    shoot_parameters_mainstem.phytomer_parameters = phytomer_parameters_wheat;</div>
-<div class="line"><a id="l02403" name="l02403"></a><span class="lineno"> 2403</span>    shoot_parameters_mainstem.vegetative_bud_break_probability = 0;</div>
-<div class="line"><a id="l02404" name="l02404"></a><span class="lineno"> 2404</span>    shoot_parameters_mainstem.flower_bud_break_probability = 1;</div>
-<div class="line"><a id="l02405" name="l02405"></a><span class="lineno"> 2405</span>    shoot_parameters_mainstem.internode_radius_initial = 0.001;</div>
-<div class="line"><a id="l02406" name="l02406"></a><span class="lineno"> 2406</span>    shoot_parameters_mainstem.phyllochron = 1;</div>
-<div class="line"><a id="l02407" name="l02407"></a><span class="lineno"> 2407</span>    shoot_parameters_mainstem.elongation_rate = 0.15;</div>
-<div class="line"><a id="l02408" name="l02408"></a><span class="lineno"> 2408</span>    shoot_parameters_mainstem.girth_area_factor = 7.f;</div>
-<div class="line"><a id="l02409" name="l02409"></a><span class="lineno"> 2409</span>    shoot_parameters_mainstem.internode_radius_max = 0.0025;</div>
-<div class="line"><a id="l02410" name="l02410"></a><span class="lineno"> 2410</span>    shoot_parameters_mainstem.gravitropic_curvature.uniformDistribution(-2000,-800);</div>
-<div class="line"><a id="l02411" name="l02411"></a><span class="lineno"> 2411</span>    shoot_parameters_mainstem.internode_length_max = 0.025;</div>
-<div class="line"><a id="l02412" name="l02412"></a><span class="lineno"> 2412</span>    shoot_parameters_mainstem.internode_length_decay_rate = 0;</div>
-<div class="line"><a id="l02413" name="l02413"></a><span class="lineno"> 2413</span>    shoot_parameters_mainstem.flowers_require_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02414" name="l02414"></a><span class="lineno"> 2414</span>    shoot_parameters_mainstem.growth_requires_dormancy = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02415" name="l02415"></a><span class="lineno"> 2415</span>    shoot_parameters_mainstem.determinate_shoot_growth = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02416" name="l02416"></a><span class="lineno"> 2416</span>    shoot_parameters_mainstem.flower_bud_break_probability = 1.0;</div>
-<div class="line"><a id="l02417" name="l02417"></a><span class="lineno"> 2417</span>    shoot_parameters_mainstem.fruit_set_probability  = 1.0;</div>
-<div class="line"><a id="l02418" name="l02418"></a><span class="lineno"> 2418</span>    shoot_parameters_mainstem.defineChildShootTypes({<span class="stringliteral">&quot;mainstem&quot;</span>},{1.0});</div>
-<div class="line"><a id="l02419" name="l02419"></a><span class="lineno"> 2419</span>    shoot_parameters_mainstem.max_nodes = 15;</div>
-<div class="line"><a id="l02420" name="l02420"></a><span class="lineno"> 2420</span>    shoot_parameters_mainstem.max_terminal_floral_buds = 1;</div>
-<div class="line"><a id="l02421" name="l02421"></a><span class="lineno"> 2421</span> </div>
-<div class="line"><a id="l02422" name="l02422"></a><span class="lineno"> 2422</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;mainstem&quot;</span>,shoot_parameters_mainstem);</div>
-<div class="line"><a id="l02423" name="l02423"></a><span class="lineno"> 2423</span> </div>
-<div class="line"><a id="l02424" name="l02424"></a><span class="lineno"> 2424</span>}</div>
-<div class="line"><a id="l02425" name="l02425"></a><span class="lineno"> 2425</span> </div>
-<div class="line"><a id="l02426" name="l02426"></a><span class="lineno"> 2426</span>uint PlantArchitecture::buildWheatPlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
-<div class="line"><a id="l02427" name="l02427"></a><span class="lineno"> 2427</span> </div>
-<div class="line"><a id="l02428" name="l02428"></a><span class="lineno"> 2428</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
-<div class="line"><a id="l02429" name="l02429"></a><span class="lineno"> 2429</span>        <span class="comment">//automatically initialize wheat plant shoots</span></div>
-<div class="line"><a id="l02430" name="l02430"></a><span class="lineno"> 2430</span>        initializeWheatShoots();</div>
-<div class="line"><a id="l02431" name="l02431"></a><span class="lineno"> 2431</span>    }</div>
-<div class="line"><a id="l02432" name="l02432"></a><span class="lineno"> 2432</span> </div>
-<div class="line"><a id="l02433" name="l02433"></a><span class="lineno"> 2433</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position - <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,0.025), 0);</div>
-<div class="line"><a id="l02434" name="l02434"></a><span class="lineno"> 2434</span> </div>
-<div class="line"><a id="l02435" name="l02435"></a><span class="lineno"> 2435</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 1, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 0.1f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI)), 0.001, 0.025, 0.01, 0.01, 0, <span class="stringliteral">&quot;mainstem&quot;</span>);</div>
-<div class="line"><a id="l02436" name="l02436"></a><span class="lineno"> 2436</span> </div>
-<div class="line"><a id="l02437" name="l02437"></a><span class="lineno"> 2437</span>    breakPlantDormancy(plantID);</div>
-<div class="line"><a id="l02438" name="l02438"></a><span class="lineno"> 2438</span> </div>
-<div class="line"><a id="l02439" name="l02439"></a><span class="lineno"> 2439</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, -1, 2, 5, 100, <span class="keyword">false</span>);</div>
-<div class="line"><a id="l02440" name="l02440"></a><span class="lineno"> 2440</span> </div>
-<div class="line"><a id="l02441" name="l02441"></a><span class="lineno"> 2441</span>    <span class="keywordflow">return</span> plantID;</div>
-<div class="line"><a id="l02442" name="l02442"></a><span class="lineno"> 2442</span> </div>
-<div class="line"><a id="l02443" name="l02443"></a><span class="lineno"> 2443</span>}</div>
+<div class="line"><a id="l02226" name="l02226"></a><span class="lineno"> 2226</span> </div>
+<div class="line"><a id="l02227" name="l02227"></a><span class="lineno"> 2227</span>}</div>
+<div class="line"><a id="l02228" name="l02228"></a><span class="lineno"> 2228</span> </div>
+<div class="line"><a id="l02229" name="l02229"></a><span class="lineno"> 2229</span>uint PlantArchitecture::buildSugarbeetPlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
+<div class="line"><a id="l02230" name="l02230"></a><span class="lineno"> 2230</span> </div>
+<div class="line"><a id="l02231" name="l02231"></a><span class="lineno"> 2231</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
+<div class="line"><a id="l02232" name="l02232"></a><span class="lineno"> 2232</span>        <span class="comment">//automatically initialize sugarbeet plant shoots</span></div>
+<div class="line"><a id="l02233" name="l02233"></a><span class="lineno"> 2233</span>        initializeSugarbeetShoots();</div>
+<div class="line"><a id="l02234" name="l02234"></a><span class="lineno"> 2234</span>    }</div>
+<div class="line"><a id="l02235" name="l02235"></a><span class="lineno"> 2235</span> </div>
+<div class="line"><a id="l02236" name="l02236"></a><span class="lineno"> 2236</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
+<div class="line"><a id="l02237" name="l02237"></a><span class="lineno"> 2237</span> </div>
+<div class="line"><a id="l02238" name="l02238"></a><span class="lineno"> 2238</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 3, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 0.01f * M_PI), 0.f * context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), 0.25f * M_PI), 0.005, 0.001, 1, 1, 0, <span class="stringliteral">&quot;mainstem&quot;</span>);</div>
+<div class="line"><a id="l02239" name="l02239"></a><span class="lineno"> 2239</span> </div>
+<div class="line"><a id="l02240" name="l02240"></a><span class="lineno"> 2240</span>    breakPlantDormancy(plantID);</div>
+<div class="line"><a id="l02241" name="l02241"></a><span class="lineno"> 2241</span> </div>
+<div class="line"><a id="l02242" name="l02242"></a><span class="lineno"> 2242</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, 1000, 10, 60, 5, 100, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l02243" name="l02243"></a><span class="lineno"> 2243</span> </div>
+<div class="line"><a id="l02244" name="l02244"></a><span class="lineno"> 2244</span>    <span class="keywordflow">return</span> plantID;</div>
+<div class="line"><a id="l02245" name="l02245"></a><span class="lineno"> 2245</span> </div>
+<div class="line"><a id="l02246" name="l02246"></a><span class="lineno"> 2246</span>}</div>
+<div class="line"><a id="l02247" name="l02247"></a><span class="lineno"> 2247</span> </div>
+<div class="line"><a id="l02248" name="l02248"></a><span class="lineno"> 2248</span><span class="keywordtype">void</span> PlantArchitecture::initializeTomatoShoots() {</div>
+<div class="line"><a id="l02249" name="l02249"></a><span class="lineno"> 2249</span> </div>
+<div class="line"><a id="l02250" name="l02250"></a><span class="lineno"> 2250</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
+<div class="line"><a id="l02251" name="l02251"></a><span class="lineno"> 2251</span> </div>
+<div class="line"><a id="l02252" name="l02252"></a><span class="lineno"> 2252</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l02253" name="l02253"></a><span class="lineno"> 2253</span> </div>
+<div class="line"><a id="l02254" name="l02254"></a><span class="lineno"> 2254</span>    phytomer_parameters.internode.pitch = 10;</div>
+<div class="line"><a id="l02255" name="l02255"></a><span class="lineno"> 2255</span>    phytomer_parameters.internode.phyllotactic_angle.uniformDistribution(145, 215);</div>
+<div class="line"><a id="l02256" name="l02256"></a><span class="lineno"> 2256</span>    phytomer_parameters.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.213, 0.270, 0.056);</div>
+<div class="line"><a id="l02257" name="l02257"></a><span class="lineno"> 2257</span>    phytomer_parameters.internode.length_segments = 1;</div>
+<div class="line"><a id="l02258" name="l02258"></a><span class="lineno"> 2258</span> </div>
+<div class="line"><a id="l02259" name="l02259"></a><span class="lineno"> 2259</span>    phytomer_parameters.petiole.petioles_per_internode = 1;</div>
+<div class="line"><a id="l02260" name="l02260"></a><span class="lineno"> 2260</span>    phytomer_parameters.petiole.pitch.uniformDistribution(45,60);</div>
+<div class="line"><a id="l02261" name="l02261"></a><span class="lineno"> 2261</span>    phytomer_parameters.petiole.radius = 0.002;</div>
+<div class="line"><a id="l02262" name="l02262"></a><span class="lineno"> 2262</span>    phytomer_parameters.petiole.length = 0.2;</div>
+<div class="line"><a id="l02263" name="l02263"></a><span class="lineno"> 2263</span>    phytomer_parameters.petiole.taper = 0.15;</div>
+<div class="line"><a id="l02264" name="l02264"></a><span class="lineno"> 2264</span>    phytomer_parameters.petiole.curvature.uniformDistribution(-150,-50);</div>
+<div class="line"><a id="l02265" name="l02265"></a><span class="lineno"> 2265</span>    phytomer_parameters.petiole.color = phytomer_parameters.internode.color;</div>
+<div class="line"><a id="l02266" name="l02266"></a><span class="lineno"> 2266</span>    phytomer_parameters.petiole.length_segments = 5;</div>
+<div class="line"><a id="l02267" name="l02267"></a><span class="lineno"> 2267</span> </div>
+<div class="line"><a id="l02268" name="l02268"></a><span class="lineno"> 2268</span>    phytomer_parameters.leaf.leaves_per_petiole = 7;</div>
+<div class="line"><a id="l02269" name="l02269"></a><span class="lineno"> 2269</span>    phytomer_parameters.leaf.pitch.uniformDistribution(-30, 5);</div>
+<div class="line"><a id="l02270" name="l02270"></a><span class="lineno"> 2270</span>    phytomer_parameters.leaf.yaw = 10;</div>
+<div class="line"><a id="l02271" name="l02271"></a><span class="lineno"> 2271</span>    phytomer_parameters.leaf.roll = 0;</div>
+<div class="line"><a id="l02272" name="l02272"></a><span class="lineno"> 2272</span>    phytomer_parameters.leaf.leaflet_offset = 0.15;</div>
+<div class="line"><a id="l02273" name="l02273"></a><span class="lineno"> 2273</span>    phytomer_parameters.leaf.leaflet_scale = 0.7;</div>
+<div class="line"><a id="l02274" name="l02274"></a><span class="lineno"> 2274</span>    phytomer_parameters.leaf.prototype_function = TomatoLeafPrototype;</div>
+<div class="line"><a id="l02275" name="l02275"></a><span class="lineno"> 2275</span>    phytomer_parameters.leaf.prototype_scale.uniformDistribution(0.1,0.14);</div>
+<div class="line"><a id="l02276" name="l02276"></a><span class="lineno"> 2276</span>    phytomer_parameters.leaf.subdivisions = 6;</div>
+<div class="line"><a id="l02277" name="l02277"></a><span class="lineno"> 2277</span>    phytomer_parameters.leaf.unique_prototypes = 5;</div>
+<div class="line"><a id="l02278" name="l02278"></a><span class="lineno"> 2278</span> </div>
+<div class="line"><a id="l02279" name="l02279"></a><span class="lineno"> 2279</span>    phytomer_parameters.peduncle.length = 0.16;</div>
+<div class="line"><a id="l02280" name="l02280"></a><span class="lineno"> 2280</span>    phytomer_parameters.peduncle.radius = 0.0015;</div>
+<div class="line"><a id="l02281" name="l02281"></a><span class="lineno"> 2281</span>    phytomer_parameters.peduncle.pitch = 20;</div>
+<div class="line"><a id="l02282" name="l02282"></a><span class="lineno"> 2282</span>    phytomer_parameters.peduncle.roll = 0;</div>
+<div class="line"><a id="l02283" name="l02283"></a><span class="lineno"> 2283</span>    phytomer_parameters.peduncle.curvature = -700;</div>
+<div class="line"><a id="l02284" name="l02284"></a><span class="lineno"> 2284</span>    phytomer_parameters.peduncle.color = phytomer_parameters.internode.color;</div>
+<div class="line"><a id="l02285" name="l02285"></a><span class="lineno"> 2285</span>    phytomer_parameters.peduncle.length_segments = 5;</div>
+<div class="line"><a id="l02286" name="l02286"></a><span class="lineno"> 2286</span>    phytomer_parameters.peduncle.radial_subdivisions = 8;</div>
+<div class="line"><a id="l02287" name="l02287"></a><span class="lineno"> 2287</span> </div>
+<div class="line"><a id="l02288" name="l02288"></a><span class="lineno"> 2288</span>    phytomer_parameters.inflorescence.flowers_per_peduncle = 8;</div>
+<div class="line"><a id="l02289" name="l02289"></a><span class="lineno"> 2289</span>    phytomer_parameters.inflorescence.flower_offset = 0.15;</div>
+<div class="line"><a id="l02290" name="l02290"></a><span class="lineno"> 2290</span>    phytomer_parameters.inflorescence.pitch = 90;</div>
+<div class="line"><a id="l02291" name="l02291"></a><span class="lineno"> 2291</span>    phytomer_parameters.inflorescence.roll.uniformDistribution(-30,30);</div>
+<div class="line"><a id="l02292" name="l02292"></a><span class="lineno"> 2292</span>    phytomer_parameters.inflorescence.flower_prototype_scale = 0.03;</div>
+<div class="line"><a id="l02293" name="l02293"></a><span class="lineno"> 2293</span>    phytomer_parameters.inflorescence.flower_prototype_function = TomatoFlowerPrototype;</div>
+<div class="line"><a id="l02294" name="l02294"></a><span class="lineno"> 2294</span>    phytomer_parameters.inflorescence.fruit_prototype_scale = 0.04;</div>
+<div class="line"><a id="l02295" name="l02295"></a><span class="lineno"> 2295</span>    phytomer_parameters.inflorescence.fruit_prototype_function = TomatoFruitPrototype;</div>
+<div class="line"><a id="l02296" name="l02296"></a><span class="lineno"> 2296</span>    phytomer_parameters.inflorescence.fruit_gravity_factor_fraction = 0.5;</div>
+<div class="line"><a id="l02297" name="l02297"></a><span class="lineno"> 2297</span> </div>
+<div class="line"><a id="l02298" name="l02298"></a><span class="lineno"> 2298</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
+<div class="line"><a id="l02299" name="l02299"></a><span class="lineno"> 2299</span> </div>
+<div class="line"><a id="l02300" name="l02300"></a><span class="lineno"> 2300</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l02301" name="l02301"></a><span class="lineno"> 2301</span>    shoot_parameters.phytomer_parameters = phytomer_parameters;</div>
+<div class="line"><a id="l02302" name="l02302"></a><span class="lineno"> 2302</span>    shoot_parameters.phytomer_parameters.phytomer_creation_function = TomatoPhytomerCreationFunction;</div>
+<div class="line"><a id="l02303" name="l02303"></a><span class="lineno"> 2303</span> </div>
+<div class="line"><a id="l02304" name="l02304"></a><span class="lineno"> 2304</span>    shoot_parameters.max_nodes = 20;</div>
+<div class="line"><a id="l02305" name="l02305"></a><span class="lineno"> 2305</span>    shoot_parameters.internode_radius_initial = 0.001;</div>
+<div class="line"><a id="l02306" name="l02306"></a><span class="lineno"> 2306</span>    shoot_parameters.internode_radius_max = 0.009;</div>
+<div class="line"><a id="l02307" name="l02307"></a><span class="lineno"> 2307</span>    shoot_parameters.insertion_angle_tip = 30;</div>
+<div class="line"><a id="l02308" name="l02308"></a><span class="lineno"> 2308</span>    shoot_parameters.insertion_angle_decay_rate = 0;</div>
+<div class="line"><a id="l02309" name="l02309"></a><span class="lineno"> 2309</span>    shoot_parameters.internode_length_max = 0.04;</div>
+<div class="line"><a id="l02310" name="l02310"></a><span class="lineno"> 2310</span>    shoot_parameters.internode_length_min = 0.0;</div>
+<div class="line"><a id="l02311" name="l02311"></a><span class="lineno"> 2311</span>    shoot_parameters.internode_length_decay_rate = 0;</div>
+<div class="line"><a id="l02312" name="l02312"></a><span class="lineno"> 2312</span>    shoot_parameters.base_roll = 90;</div>
+<div class="line"><a id="l02313" name="l02313"></a><span class="lineno"> 2313</span>    shoot_parameters.base_yaw.uniformDistribution(-20,20);</div>
+<div class="line"><a id="l02314" name="l02314"></a><span class="lineno"> 2314</span>    shoot_parameters.gravitropic_curvature = -20;</div>
+<div class="line"><a id="l02315" name="l02315"></a><span class="lineno"> 2315</span>    shoot_parameters.tortuosity = 0;</div>
+<div class="line"><a id="l02316" name="l02316"></a><span class="lineno"> 2316</span> </div>
+<div class="line"><a id="l02317" name="l02317"></a><span class="lineno"> 2317</span>    shoot_parameters.phyllochron = 1;</div>
+<div class="line"><a id="l02318" name="l02318"></a><span class="lineno"> 2318</span>    shoot_parameters.leaf_flush_count = 1;</div>
+<div class="line"><a id="l02319" name="l02319"></a><span class="lineno"> 2319</span>    shoot_parameters.elongation_rate = 0.1;</div>
+<div class="line"><a id="l02320" name="l02320"></a><span class="lineno"> 2320</span>    shoot_parameters.girth_area_factor = 3.f;</div>
+<div class="line"><a id="l02321" name="l02321"></a><span class="lineno"> 2321</span>    shoot_parameters.vegetative_bud_break_time = 3;</div>
+<div class="line"><a id="l02322" name="l02322"></a><span class="lineno"> 2322</span>    shoot_parameters.vegetative_bud_break_probability = 0.6;</div>
+<div class="line"><a id="l02323" name="l02323"></a><span class="lineno"> 2323</span>    shoot_parameters.flower_bud_break_probability = 0.5;</div>
+<div class="line"><a id="l02324" name="l02324"></a><span class="lineno"> 2324</span>    shoot_parameters.fruit_set_probability = 0.5;</div>
+<div class="line"><a id="l02325" name="l02325"></a><span class="lineno"> 2325</span>    shoot_parameters.flowers_require_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02326" name="l02326"></a><span class="lineno"> 2326</span>    shoot_parameters.growth_requires_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02327" name="l02327"></a><span class="lineno"> 2327</span>    shoot_parameters.determinate_shoot_growth = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l02328" name="l02328"></a><span class="lineno"> 2328</span> </div>
+<div class="line"><a id="l02329" name="l02329"></a><span class="lineno"> 2329</span>    shoot_parameters.defineChildShootTypes({<span class="stringliteral">&quot;mainstem&quot;</span>},{1.0});</div>
+<div class="line"><a id="l02330" name="l02330"></a><span class="lineno"> 2330</span> </div>
+<div class="line"><a id="l02331" name="l02331"></a><span class="lineno"> 2331</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;mainstem&quot;</span>,shoot_parameters);</div>
+<div class="line"><a id="l02332" name="l02332"></a><span class="lineno"> 2332</span> </div>
+<div class="line"><a id="l02333" name="l02333"></a><span class="lineno"> 2333</span>}</div>
+<div class="line"><a id="l02334" name="l02334"></a><span class="lineno"> 2334</span> </div>
+<div class="line"><a id="l02335" name="l02335"></a><span class="lineno"> 2335</span>uint PlantArchitecture::buildTomatoPlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
+<div class="line"><a id="l02336" name="l02336"></a><span class="lineno"> 2336</span> </div>
+<div class="line"><a id="l02337" name="l02337"></a><span class="lineno"> 2337</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
+<div class="line"><a id="l02338" name="l02338"></a><span class="lineno"> 2338</span>        <span class="comment">//automatically initialize tomato plant shoots</span></div>
+<div class="line"><a id="l02339" name="l02339"></a><span class="lineno"> 2339</span>        initializeTomatoShoots();</div>
+<div class="line"><a id="l02340" name="l02340"></a><span class="lineno"> 2340</span>    }</div>
+<div class="line"><a id="l02341" name="l02341"></a><span class="lineno"> 2341</span> </div>
+<div class="line"><a id="l02342" name="l02342"></a><span class="lineno"> 2342</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position, 0);</div>
+<div class="line"><a id="l02343" name="l02343"></a><span class="lineno"> 2343</span> </div>
+<div class="line"><a id="l02344" name="l02344"></a><span class="lineno"> 2344</span>    <a class="code hl_struct" href="struct_axis_rotation.html">AxisRotation</a> base_rotation = make_AxisRotation(0, context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI));</div>
+<div class="line"><a id="l02345" name="l02345"></a><span class="lineno"> 2345</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 1, base_rotation, 0.002, 0.04, 0.01, 0.01, 0, <span class="stringliteral">&quot;mainstem&quot;</span>);</div>
+<div class="line"><a id="l02346" name="l02346"></a><span class="lineno"> 2346</span> </div>
+<div class="line"><a id="l02347" name="l02347"></a><span class="lineno"> 2347</span>    breakPlantDormancy(plantID);</div>
+<div class="line"><a id="l02348" name="l02348"></a><span class="lineno"> 2348</span> </div>
+<div class="line"><a id="l02349" name="l02349"></a><span class="lineno"> 2349</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, 10, 3, 2, 100, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l02350" name="l02350"></a><span class="lineno"> 2350</span> </div>
+<div class="line"><a id="l02351" name="l02351"></a><span class="lineno"> 2351</span>    <span class="keywordflow">return</span> plantID;</div>
+<div class="line"><a id="l02352" name="l02352"></a><span class="lineno"> 2352</span> </div>
+<div class="line"><a id="l02353" name="l02353"></a><span class="lineno"> 2353</span>}</div>
+<div class="line"><a id="l02354" name="l02354"></a><span class="lineno"> 2354</span> </div>
+<div class="line"><a id="l02355" name="l02355"></a><span class="lineno"> 2355</span><span class="keywordtype">void</span> PlantArchitecture::initializeWheatShoots() {</div>
+<div class="line"><a id="l02356" name="l02356"></a><span class="lineno"> 2356</span> </div>
+<div class="line"><a id="l02357" name="l02357"></a><span class="lineno"> 2357</span>    <span class="comment">// ---- Phytomer Parameters ---- //</span></div>
+<div class="line"><a id="l02358" name="l02358"></a><span class="lineno"> 2358</span> </div>
+<div class="line"><a id="l02359" name="l02359"></a><span class="lineno"> 2359</span>    <a class="code hl_struct" href="struct_phytomer_parameters.html">PhytomerParameters</a> phytomer_parameters_wheat(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l02360" name="l02360"></a><span class="lineno"> 2360</span> </div>
+<div class="line"><a id="l02361" name="l02361"></a><span class="lineno"> 2361</span>    phytomer_parameters_wheat.internode.pitch = 0;</div>
+<div class="line"><a id="l02362" name="l02362"></a><span class="lineno"> 2362</span>    phytomer_parameters_wheat.internode.phyllotactic_angle.uniformDistribution(67,77);</div>
+<div class="line"><a id="l02363" name="l02363"></a><span class="lineno"> 2363</span>    phytomer_parameters_wheat.internode.color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(0.27,0.31,0.16);</div>
+<div class="line"><a id="l02364" name="l02364"></a><span class="lineno"> 2364</span>    phytomer_parameters_wheat.internode.length_segments = 1;</div>
+<div class="line"><a id="l02365" name="l02365"></a><span class="lineno"> 2365</span>    phytomer_parameters_wheat.internode.radial_subdivisions = 6;</div>
+<div class="line"><a id="l02366" name="l02366"></a><span class="lineno"> 2366</span>    phytomer_parameters_wheat.internode.max_floral_buds_per_petiole = 0;</div>
+<div class="line"><a id="l02367" name="l02367"></a><span class="lineno"> 2367</span>    phytomer_parameters_wheat.internode.max_vegetative_buds_per_petiole = 0;</div>
+<div class="line"><a id="l02368" name="l02368"></a><span class="lineno"> 2368</span> </div>
+<div class="line"><a id="l02369" name="l02369"></a><span class="lineno"> 2369</span>    phytomer_parameters_wheat.petiole.petioles_per_internode = 1;</div>
+<div class="line"><a id="l02370" name="l02370"></a><span class="lineno"> 2370</span>    phytomer_parameters_wheat.petiole.pitch.uniformDistribution(-40,-20);</div>
+<div class="line"><a id="l02371" name="l02371"></a><span class="lineno"> 2371</span>    phytomer_parameters_wheat.petiole.radius = 0.0;</div>
+<div class="line"><a id="l02372" name="l02372"></a><span class="lineno"> 2372</span>    phytomer_parameters_wheat.petiole.length = 0.01;</div>
+<div class="line"><a id="l02373" name="l02373"></a><span class="lineno"> 2373</span>    phytomer_parameters_wheat.petiole.taper = 0;</div>
+<div class="line"><a id="l02374" name="l02374"></a><span class="lineno"> 2374</span>    phytomer_parameters_wheat.petiole.curvature = 0;</div>
+<div class="line"><a id="l02375" name="l02375"></a><span class="lineno"> 2375</span>    phytomer_parameters_wheat.petiole.length_segments = 1;</div>
+<div class="line"><a id="l02376" name="l02376"></a><span class="lineno"> 2376</span> </div>
+<div class="line"><a id="l02377" name="l02377"></a><span class="lineno"> 2377</span>    phytomer_parameters_wheat.leaf.leaves_per_petiole = 1;</div>
+<div class="line"><a id="l02378" name="l02378"></a><span class="lineno"> 2378</span>    phytomer_parameters_wheat.leaf.pitch = 0;</div>
+<div class="line"><a id="l02379" name="l02379"></a><span class="lineno"> 2379</span>    phytomer_parameters_wheat.leaf.yaw = 0;</div>
+<div class="line"><a id="l02380" name="l02380"></a><span class="lineno"> 2380</span>    phytomer_parameters_wheat.leaf.roll = 0;</div>
+<div class="line"><a id="l02381" name="l02381"></a><span class="lineno"> 2381</span>    phytomer_parameters_wheat.leaf.prototype_function = WheatLeafPrototype;</div>
+<div class="line"><a id="l02382" name="l02382"></a><span class="lineno"> 2382</span>    phytomer_parameters_wheat.leaf.prototype_scale = 0.1;</div>
+<div class="line"><a id="l02383" name="l02383"></a><span class="lineno"> 2383</span>    phytomer_parameters_wheat.leaf.subdivisions = 20;</div>
+<div class="line"><a id="l02384" name="l02384"></a><span class="lineno"> 2384</span>    phytomer_parameters_wheat.leaf.unique_prototypes = 10;</div>
+<div class="line"><a id="l02385" name="l02385"></a><span class="lineno"> 2385</span> </div>
+<div class="line"><a id="l02386" name="l02386"></a><span class="lineno"> 2386</span>    phytomer_parameters_wheat.peduncle.length = 0.07;</div>
+<div class="line"><a id="l02387" name="l02387"></a><span class="lineno"> 2387</span>    phytomer_parameters_wheat.peduncle.radius = 0.002;</div>
+<div class="line"><a id="l02388" name="l02388"></a><span class="lineno"> 2388</span>    phytomer_parameters_wheat.peduncle.color = phytomer_parameters_wheat.internode.color;</div>
+<div class="line"><a id="l02389" name="l02389"></a><span class="lineno"> 2389</span>    phytomer_parameters_wheat.peduncle.curvature = -200;</div>
+<div class="line"><a id="l02390" name="l02390"></a><span class="lineno"> 2390</span>    phytomer_parameters_wheat.peduncle.radial_subdivisions = 6;</div>
+<div class="line"><a id="l02391" name="l02391"></a><span class="lineno"> 2391</span> </div>
+<div class="line"><a id="l02392" name="l02392"></a><span class="lineno"> 2392</span>    phytomer_parameters_wheat.inflorescence.flowers_per_peduncle = 1;</div>
+<div class="line"><a id="l02393" name="l02393"></a><span class="lineno"> 2393</span>    phytomer_parameters_wheat.inflorescence.pitch = 0;</div>
+<div class="line"><a id="l02394" name="l02394"></a><span class="lineno"> 2394</span>    phytomer_parameters_wheat.inflorescence.roll = 0;</div>
+<div class="line"><a id="l02395" name="l02395"></a><span class="lineno"> 2395</span>    phytomer_parameters_wheat.inflorescence.fruit_prototype_scale = 0.1;</div>
+<div class="line"><a id="l02396" name="l02396"></a><span class="lineno"> 2396</span>    phytomer_parameters_wheat.inflorescence.fruit_prototype_function = WheatSpikePrototype;</div>
+<div class="line"><a id="l02397" name="l02397"></a><span class="lineno"> 2397</span> </div>
+<div class="line"><a id="l02398" name="l02398"></a><span class="lineno"> 2398</span>    phytomer_parameters_wheat.phytomer_creation_function = WheatPhytomerCreationFunction;</div>
+<div class="line"><a id="l02399" name="l02399"></a><span class="lineno"> 2399</span> </div>
+<div class="line"><a id="l02400" name="l02400"></a><span class="lineno"> 2400</span>    <span class="comment">// ---- Shoot Parameters ---- //</span></div>
+<div class="line"><a id="l02401" name="l02401"></a><span class="lineno"> 2401</span> </div>
+<div class="line"><a id="l02402" name="l02402"></a><span class="lineno"> 2402</span>    <a class="code hl_struct" href="struct_shoot_parameters.html">ShootParameters</a> shoot_parameters_mainstem(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a96a928fa28d3d771ba310f798b56bd63">getRandomGenerator</a>());</div>
+<div class="line"><a id="l02403" name="l02403"></a><span class="lineno"> 2403</span>    shoot_parameters_mainstem.phytomer_parameters = phytomer_parameters_wheat;</div>
+<div class="line"><a id="l02404" name="l02404"></a><span class="lineno"> 2404</span>    shoot_parameters_mainstem.vegetative_bud_break_probability = 0;</div>
+<div class="line"><a id="l02405" name="l02405"></a><span class="lineno"> 2405</span>    shoot_parameters_mainstem.flower_bud_break_probability = 1;</div>
+<div class="line"><a id="l02406" name="l02406"></a><span class="lineno"> 2406</span>    shoot_parameters_mainstem.internode_radius_initial = 0.001;</div>
+<div class="line"><a id="l02407" name="l02407"></a><span class="lineno"> 2407</span>    shoot_parameters_mainstem.phyllochron = 1;</div>
+<div class="line"><a id="l02408" name="l02408"></a><span class="lineno"> 2408</span>    shoot_parameters_mainstem.elongation_rate = 0.15;</div>
+<div class="line"><a id="l02409" name="l02409"></a><span class="lineno"> 2409</span>    shoot_parameters_mainstem.girth_area_factor = 7.f;</div>
+<div class="line"><a id="l02410" name="l02410"></a><span class="lineno"> 2410</span>    shoot_parameters_mainstem.internode_radius_max = 0.0025;</div>
+<div class="line"><a id="l02411" name="l02411"></a><span class="lineno"> 2411</span>    shoot_parameters_mainstem.gravitropic_curvature.uniformDistribution(-2000,-800);</div>
+<div class="line"><a id="l02412" name="l02412"></a><span class="lineno"> 2412</span>    shoot_parameters_mainstem.internode_length_max = 0.025;</div>
+<div class="line"><a id="l02413" name="l02413"></a><span class="lineno"> 2413</span>    shoot_parameters_mainstem.internode_length_decay_rate = 0;</div>
+<div class="line"><a id="l02414" name="l02414"></a><span class="lineno"> 2414</span>    shoot_parameters_mainstem.flowers_require_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02415" name="l02415"></a><span class="lineno"> 2415</span>    shoot_parameters_mainstem.growth_requires_dormancy = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02416" name="l02416"></a><span class="lineno"> 2416</span>    shoot_parameters_mainstem.determinate_shoot_growth = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02417" name="l02417"></a><span class="lineno"> 2417</span>    shoot_parameters_mainstem.flower_bud_break_probability = 1.0;</div>
+<div class="line"><a id="l02418" name="l02418"></a><span class="lineno"> 2418</span>    shoot_parameters_mainstem.fruit_set_probability  = 1.0;</div>
+<div class="line"><a id="l02419" name="l02419"></a><span class="lineno"> 2419</span>    shoot_parameters_mainstem.defineChildShootTypes({<span class="stringliteral">&quot;mainstem&quot;</span>},{1.0});</div>
+<div class="line"><a id="l02420" name="l02420"></a><span class="lineno"> 2420</span>    shoot_parameters_mainstem.max_nodes = 15;</div>
+<div class="line"><a id="l02421" name="l02421"></a><span class="lineno"> 2421</span>    shoot_parameters_mainstem.max_terminal_floral_buds = 1;</div>
+<div class="line"><a id="l02422" name="l02422"></a><span class="lineno"> 2422</span> </div>
+<div class="line"><a id="l02423" name="l02423"></a><span class="lineno"> 2423</span>    <a class="code hl_function" href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">defineShootType</a>(<span class="stringliteral">&quot;mainstem&quot;</span>,shoot_parameters_mainstem);</div>
+<div class="line"><a id="l02424" name="l02424"></a><span class="lineno"> 2424</span> </div>
+<div class="line"><a id="l02425" name="l02425"></a><span class="lineno"> 2425</span>}</div>
+<div class="line"><a id="l02426" name="l02426"></a><span class="lineno"> 2426</span> </div>
+<div class="line"><a id="l02427" name="l02427"></a><span class="lineno"> 2427</span>uint PlantArchitecture::buildWheatPlant(<span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> &amp;base_position) {</div>
+<div class="line"><a id="l02428" name="l02428"></a><span class="lineno"> 2428</span> </div>
+<div class="line"><a id="l02429" name="l02429"></a><span class="lineno"> 2429</span>    <span class="keywordflow">if</span> (shoot_types.empty()) {</div>
+<div class="line"><a id="l02430" name="l02430"></a><span class="lineno"> 2430</span>        <span class="comment">//automatically initialize wheat plant shoots</span></div>
+<div class="line"><a id="l02431" name="l02431"></a><span class="lineno"> 2431</span>        initializeWheatShoots();</div>
+<div class="line"><a id="l02432" name="l02432"></a><span class="lineno"> 2432</span>    }</div>
+<div class="line"><a id="l02433" name="l02433"></a><span class="lineno"> 2433</span> </div>
+<div class="line"><a id="l02434" name="l02434"></a><span class="lineno"> 2434</span>    uint plantID = <a class="code hl_function" href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">addPlantInstance</a>(base_position - <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,0.025), 0);</div>
+<div class="line"><a id="l02435" name="l02435"></a><span class="lineno"> 2435</span> </div>
+<div class="line"><a id="l02436" name="l02436"></a><span class="lineno"> 2436</span>    uint uID_stem = <a class="code hl_function" href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">addBaseStemShoot</a>(plantID, 1, make_AxisRotation(context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 0.1f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI), context_ptr-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4caa001e21890bca8bb952e1206153dc">randu</a>(0.f, 2.f * M_PI)), 0.001, 0.025, 0.01, 0.01, 0, <span class="stringliteral">&quot;mainstem&quot;</span>);</div>
+<div class="line"><a id="l02437" name="l02437"></a><span class="lineno"> 2437</span> </div>
+<div class="line"><a id="l02438" name="l02438"></a><span class="lineno"> 2438</span>    breakPlantDormancy(plantID);</div>
+<div class="line"><a id="l02439" name="l02439"></a><span class="lineno"> 2439</span> </div>
+<div class="line"><a id="l02440" name="l02440"></a><span class="lineno"> 2440</span>    <a class="code hl_function" href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">setPlantPhenologicalThresholds</a>(plantID, 0, -1, -1, 2, 5, 100, <span class="keyword">false</span>);</div>
+<div class="line"><a id="l02441" name="l02441"></a><span class="lineno"> 2441</span> </div>
+<div class="line"><a id="l02442" name="l02442"></a><span class="lineno"> 2442</span>    <span class="keywordflow">return</span> plantID;</div>
+<div class="line"><a id="l02443" name="l02443"></a><span class="lineno"> 2443</span> </div>
+<div class="line"><a id="l02444" name="l02444"></a><span class="lineno"> 2444</span>}</div>
 <div class="ttc" id="a_plant_architecture_8h_html"><div class="ttname"><a href="_plant_architecture_8h.html">PlantArchitecture.h</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a046541b573d8e03845a2038370cd6665"><div class="ttname"><a href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">PlantArchitecture::addPlantInstance</a></div><div class="ttdeci">uint addPlantInstance(const helios::vec3 &amp;base_position, float current_age)</div><div class="ttdoc">Create an instance of a plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02568">PlantArchitecture.cpp:2568</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a0832e7e5e15d64c3ee52ea3d640dee27"><div class="ttname"><a href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">PlantArchitecture::addChildShoot</a></div><div class="ttdeci">uint addChildShoot(uint plantID, int parent_shoot_ID, uint parent_node_index, uint current_node_number, const AxisRotation &amp;shoot_base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label, uint petiole_index=0)</div><div class="ttdoc">Manually add a child shoot at the axillary bud of a phytomer.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01976">PlantArchitecture.cpp:1976</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a122fad48603e2e0f2fe6d870c691bfd1"><div class="ttname"><a href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">PlantArchitecture::appendPhytomerToShoot</a></div><div class="ttdeci">int appendPhytomerToShoot(uint plantID, uint shootID, const PhytomerParameters &amp;phytomer_parameters, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction)</div><div class="ttdoc">Add a new phytomer at the terminal bud of a shoot.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02058">PlantArchitecture.cpp:2058</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a046541b573d8e03845a2038370cd6665"><div class="ttname"><a href="class_plant_architecture.html#a046541b573d8e03845a2038370cd6665">PlantArchitecture::addPlantInstance</a></div><div class="ttdeci">uint addPlantInstance(const helios::vec3 &amp;base_position, float current_age)</div><div class="ttdoc">Create an instance of a plant.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02569">PlantArchitecture.cpp:2569</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a0832e7e5e15d64c3ee52ea3d640dee27"><div class="ttname"><a href="class_plant_architecture.html#a0832e7e5e15d64c3ee52ea3d640dee27">PlantArchitecture::addChildShoot</a></div><div class="ttdeci">uint addChildShoot(uint plantID, int parent_shoot_ID, uint parent_node_index, uint current_node_number, const AxisRotation &amp;shoot_base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label, uint petiole_index=0)</div><div class="ttdoc">Manually add a child shoot at the axillary bud of a phytomer.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01977">PlantArchitecture.cpp:1977</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a122fad48603e2e0f2fe6d870c691bfd1"><div class="ttname"><a href="class_plant_architecture.html#a122fad48603e2e0f2fe6d870c691bfd1">PlantArchitecture::appendPhytomerToShoot</a></div><div class="ttdeci">int appendPhytomerToShoot(uint plantID, uint shootID, const PhytomerParameters &amp;phytomer_parameters, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction)</div><div class="ttdoc">Add a new phytomer at the terminal bud of a shoot.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02059">PlantArchitecture.cpp:2059</a></div></div>
 <div class="ttc" id="aclass_plant_architecture_html_a190d91f02c5cfcfad036879460b2e495"><div class="ttname"><a href="class_plant_architecture.html#a190d91f02c5cfcfad036879460b2e495">PlantArchitecture::getCurrentShootParameters</a></div><div class="ttdeci">std::map&lt; std::string, ShootParameters &gt; getCurrentShootParameters()</div><div class="ttdoc">Get the shoot parameters structure for all shoot types in the current plant model.</div><div class="ttdef"><b>Definition</b> <a href="#l00093">PlantLibrary.cpp:93</a></div></div>
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-<div class="ttc" id="aclass_plant_architecture_html_a25a69b3eee4eab6501a8bedc777b8c55"><div class="ttname"><a href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55">PlantArchitecture::appendShoot</a></div><div class="ttdeci">uint appendShoot(uint plantID, int parent_shoot_ID, uint current_node_number, const AxisRotation &amp;base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Manually append a new shoot at the end of an existing shoot. This is used when the characteristics of...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01931">PlantArchitecture.cpp:1931</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a32e88ebd4d0bb468f6c0a2655833bff6"><div class="ttname"><a href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">PlantArchitecture::addBaseStemShoot</a></div><div class="ttdeci">uint addBaseStemShoot(uint plantID, uint current_node_number, const AxisRotation &amp;base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Define the stem/trunk shoot (base of plant) to start a new plant. This requires a plant instance has ...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01899">PlantArchitecture.cpp:1899</a></div></div>
-<div class="ttc" id="aclass_plant_architecture_html_a48af3a5e39855f6c79459146dd2b9089"><div class="ttname"><a href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">PlantArchitecture::setPlantPhenologicalThresholds</a></div><div class="ttdeci">void setPlantPhenologicalThresholds(uint plantID, float time_to_dormancy_break, float time_to_flower_initiation, float time_to_flower_opening, float time_to_fruit_set, float time_to_fruit_maturity, float time_to_senescence, bool is_evergreen=false)</div><div class="ttdoc">Specify the threshold values for plant phenological stages.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02657">PlantArchitecture.cpp:2657</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a25a69b3eee4eab6501a8bedc777b8c55"><div class="ttname"><a href="class_plant_architecture.html#a25a69b3eee4eab6501a8bedc777b8c55">PlantArchitecture::appendShoot</a></div><div class="ttdeci">uint appendShoot(uint plantID, int parent_shoot_ID, uint current_node_number, const AxisRotation &amp;base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Manually append a new shoot at the end of an existing shoot. This is used when the characteristics of...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01932">PlantArchitecture.cpp:1932</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a32e88ebd4d0bb468f6c0a2655833bff6"><div class="ttname"><a href="class_plant_architecture.html#a32e88ebd4d0bb468f6c0a2655833bff6">PlantArchitecture::addBaseStemShoot</a></div><div class="ttdeci">uint addBaseStemShoot(uint plantID, uint current_node_number, const AxisRotation &amp;base_rotation, float internode_radius, float internode_length_max, float internode_length_scale_factor_fraction, float leaf_scale_factor_fraction, float radius_taper, const std::string &amp;shoot_type_label)</div><div class="ttdoc">Define the stem/trunk shoot (base of plant) to start a new plant. This requires a plant instance has ...</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l01900">PlantArchitecture.cpp:1900</a></div></div>
+<div class="ttc" id="aclass_plant_architecture_html_a48af3a5e39855f6c79459146dd2b9089"><div class="ttname"><a href="class_plant_architecture.html#a48af3a5e39855f6c79459146dd2b9089">PlantArchitecture::setPlantPhenologicalThresholds</a></div><div class="ttdeci">void setPlantPhenologicalThresholds(uint plantID, float time_to_dormancy_break, float time_to_flower_initiation, float time_to_flower_opening, float time_to_fruit_set, float time_to_fruit_maturity, float time_to_senescence, bool is_evergreen=false)</div><div class="ttdoc">Specify the threshold values for plant phenological stages.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02658">PlantArchitecture.cpp:2658</a></div></div>
 <div class="ttc" id="aclass_plant_architecture_html_a9700f223b8f60bf37852ad87d30e7fc0"><div class="ttname"><a href="class_plant_architecture.html#a9700f223b8f60bf37852ad87d30e7fc0">PlantArchitecture::defineShootType</a></div><div class="ttdeci">void defineShootType(const std::string &amp;shoot_type_label, const ShootParameters &amp;shoot_params)</div><div class="ttdoc">Define a new shoot type based on a set of ShootParameters.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l00235">PlantArchitecture.cpp:235</a></div></div>
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+<div class="ttc" id="aclass_plant_architecture_html_afac9e51e48de17afa485128dbea39019"><div class="ttname"><a href="class_plant_architecture.html#afac9e51e48de17afa485128dbea39019">PlantArchitecture::advanceTime</a></div><div class="ttdeci">void advanceTime(float dt)</div><div class="ttdoc">Advance plant growth by a specified time interval for all plants.</div><div class="ttdef"><b>Definition</b> <a href="_plant_architecture_8cpp_source.html#l02683">PlantArchitecture.cpp:2683</a></div></div>
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-<tr class="memitem:a2d93cfc62b5e610b18411a9e87547f81" id="r_a2d93cfc62b5e610b18411a9e87547f81"><td class="memItemLeft" align="right" valign="top">bool&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a2d93cfc62b5e610b18411a9e87547f81">validateOutputPath</a> (std::ostringstream &amp;output_directory)</td></tr>
-<tr class="memdesc:a2d93cfc62b5e610b18411a9e87547f81"><td class="mdescLeft">&#160;</td><td class="mdescRight">Validates the file path for output file writing by 1) making sure the directory string has a trailing slash, 2) creating the output directory if it does not exist.  <br /></td></tr>
-<tr class="separator:a2d93cfc62b5e610b18411a9e87547f81"><td class="memSeparator" colspan="2">&#160;</td></tr>
 <tr class="memitem:a8f548814a2063dac33088c5d812a7f0a" id="r_a8f548814a2063dac33088c5d812a7f0a"><td class="memItemLeft" align="right" valign="top">void&#160;</td><td class="memItemRight" valign="bottom"><a class="el" href="#a8f548814a2063dac33088c5d812a7f0a">sutilHandleError</a> (RTcontext context, RTresult code, const char *file, int line)</td></tr>
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@@ -157,7 +154,7 @@ <h2 class="memtitle"><span class="permalink"><a href="#a8f548814a2063dac33088c5d
       </table>
 </div><div class="memdoc">
 
-<p class="definition">Definition at line <a class="el" href="_radiation_model_8cpp_source.html#l05745">5745</a> of file <a class="el" href="_radiation_model_8cpp_source.html">RadiationModel.cpp</a>.</p>
+<p class="definition">Definition at line <a class="el" href="_radiation_model_8cpp_source.html#l05759">5759</a> of file <a class="el" href="_radiation_model_8cpp_source.html">RadiationModel.cpp</a>.</p>
 
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@@ -176,35 +173,7 @@ <h2 class="memtitle"><span class="permalink"><a href="#a2f058fd39b7589b0d11daedd
       </table>
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-<p class="definition">Definition at line <a class="el" href="_radiation_model_8cpp_source.html#l05755">5755</a> of file <a class="el" href="_radiation_model_8cpp_source.html">RadiationModel.cpp</a>.</p>
-
-</div>
-</div>
-<a id="a2d93cfc62b5e610b18411a9e87547f81" name="a2d93cfc62b5e610b18411a9e87547f81"></a>
-<h2 class="memtitle"><span class="permalink"><a href="#a2d93cfc62b5e610b18411a9e87547f81">&#9670;&#160;</a></span>validateOutputPath()</h2>
-
-<div class="memitem">
-<div class="memproto">
-      <table class="memname">
-        <tr>
-          <td class="memname">bool validateOutputPath </td>
-          <td>(</td>
-          <td class="paramtype">std::ostringstream &amp;</td>          <td class="paramname"><span class="paramname"><em>output_directory</em></span></td><td>)</td>
-          <td></td>
-        </tr>
-      </table>
-</div><div class="memdoc">
-
-<p>Validates the file path for output file writing by 1) making sure the directory string has a trailing slash, 2) creating the output directory if it does not exist. </p>
-<dl class="params"><dt>Parameters</dt><dd>
-  <table class="params">
-    <tr><td class="paramdir">[in,out]</td><td class="paramname">output_directory</td><td>Path to the directory where output files will be written. If the directory does not exist, it will be created. </td></tr>
-  </table>
-  </dd>
-</dl>
-<dl class="section return"><dt>Returns</dt><dd>True if the output directory is valid, false otherwise. </dd></dl>
-
-<p class="definition">Definition at line <a class="el" href="_radiation_model_8cpp_source.html#l05727">5727</a> of file <a class="el" href="_radiation_model_8cpp_source.html">RadiationModel.cpp</a>.</p>
+<p class="definition">Definition at line <a class="el" href="_radiation_model_8cpp_source.html#l05769">5769</a> of file <a class="el" href="_radiation_model_8cpp_source.html">RadiationModel.cpp</a>.</p>
 
 </div>
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diff --git a/doc/html/_radiation_model_8cpp_source.html b/doc/html/_radiation_model_8cpp_source.html
index 6eda15a53..8e22f9bf9 100644
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+++ b/doc/html/_radiation_model_8cpp_source.html
@@ -38,7 +38,7 @@
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+   <div id="projectname"><span id="projectnumber">&#160;v1.3.21</span>
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@@ -1583,4476 +1583,4488 @@
 <div class="line"><a id="l01340" name="l01340"></a><span class="lineno"> 1340</span>        frame_str = std::to_string(frame);</div>
 <div class="line"><a id="l01341" name="l01341"></a><span class="lineno"> 1341</span>    }</div>
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-<div class="line"><a id="l01343" name="l01343"></a><span class="lineno"> 1343</span>    std::ostringstream outfile;</div>
-<div class="line"><a id="l01344" name="l01344"></a><span class="lineno"> 1344</span> </div>
-<div class="line"><a id="l01345" name="l01345"></a><span class="lineno"> 1345</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="_radiation_model_8h.html#a2d93cfc62b5e610b18411a9e87547f81">validateOutputPath</a>(outfile) ){</div>
-<div class="line"><a id="l01346" name="l01346"></a><span class="lineno"> 1346</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImage): Invalid image output directory &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
-<div class="line"><a id="l01347" name="l01347"></a><span class="lineno"> 1347</span>    }</div>
-<div class="line"><a id="l01348" name="l01348"></a><span class="lineno"> 1348</span> </div>
-<div class="line"><a id="l01349" name="l01349"></a><span class="lineno"> 1349</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l01350" name="l01350"></a><span class="lineno"> 1350</span>        outfile &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.jpeg&quot;</span>;</div>
-<div class="line"><a id="l01351" name="l01351"></a><span class="lineno"> 1351</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l01352" name="l01352"></a><span class="lineno"> 1352</span>        outfile &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.jpeg&quot;</span>;</div>
-<div class="line"><a id="l01353" name="l01353"></a><span class="lineno"> 1353</span>    }</div>
-<div class="line"><a id="l01354" name="l01354"></a><span class="lineno"> 1354</span>    std::ofstream testfile(outfile.str());</div>
-<div class="line"><a id="l01355" name="l01355"></a><span class="lineno"> 1355</span> </div>
-<div class="line"><a id="l01356" name="l01356"></a><span class="lineno"> 1356</span>    <span class="keywordflow">if</span>( !testfile.is_open() ){</div>
-<div class="line"><a id="l01357" name="l01357"></a><span class="lineno"> 1357</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImage): image file &quot;</span> &lt;&lt; outfile.str() &lt;&lt; <span class="stringliteral">&quot; could not be opened. Check that the path exists and that you have write permission. Skipping image write for this camera.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l01358" name="l01358"></a><span class="lineno"> 1358</span>        <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l01359" name="l01359"></a><span class="lineno"> 1359</span>    }</div>
-<div class="line"><a id="l01360" name="l01360"></a><span class="lineno"> 1360</span>    testfile.close();</div>
-<div class="line"><a id="l01361" name="l01361"></a><span class="lineno"> 1361</span> </div>
-<div class="line"><a id="l01362" name="l01362"></a><span class="lineno"> 1362</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(camera).resolution;</div>
-<div class="line"><a id="l01363" name="l01363"></a><span class="lineno"> 1363</span> </div>
-<div class="line"><a id="l01364" name="l01364"></a><span class="lineno"> 1364</span>    std::vector&lt;RGBcolor&gt; pixel_data(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>);</div>
+<div class="line"><a id="l01343" name="l01343"></a><span class="lineno"> 1343</span>    std::string output_path = image_path;</div>
+<div class="line"><a id="l01344" name="l01344"></a><span class="lineno"> 1344</span>    <span class="keywordflow">if</span>( !image_path.empty() &amp;&amp; !<a class="code hl_function" href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9">validateOutputPath</a>(output_path) ){</div>
+<div class="line"><a id="l01345" name="l01345"></a><span class="lineno"> 1345</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImage): Invalid image output directory &#39;&quot;</span> + image_path + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
+<div class="line"><a id="l01346" name="l01346"></a><span class="lineno"> 1346</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902">getFileName</a>(output_path).empty() ){</div>
+<div class="line"><a id="l01347" name="l01347"></a><span class="lineno"> 1347</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR(RadiationModel::writeCameraImage): Image output directory contains a filename. This argument should be the path to a directory not a file.&quot;</span>);</div>
+<div class="line"><a id="l01348" name="l01348"></a><span class="lineno"> 1348</span>    }</div>
+<div class="line"><a id="l01349" name="l01349"></a><span class="lineno"> 1349</span> </div>
+<div class="line"><a id="l01350" name="l01350"></a><span class="lineno"> 1350</span>    std::ostringstream outfile;</div>
+<div class="line"><a id="l01351" name="l01351"></a><span class="lineno"> 1351</span>    outfile &lt;&lt; output_path;</div>
+<div class="line"><a id="l01352" name="l01352"></a><span class="lineno"> 1352</span> </div>
+<div class="line"><a id="l01353" name="l01353"></a><span class="lineno"> 1353</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l01354" name="l01354"></a><span class="lineno"> 1354</span>        outfile &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.jpeg&quot;</span>;</div>
+<div class="line"><a id="l01355" name="l01355"></a><span class="lineno"> 1355</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l01356" name="l01356"></a><span class="lineno"> 1356</span>        outfile &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.jpeg&quot;</span>;</div>
+<div class="line"><a id="l01357" name="l01357"></a><span class="lineno"> 1357</span>    }</div>
+<div class="line"><a id="l01358" name="l01358"></a><span class="lineno"> 1358</span>    std::ofstream testfile(outfile.str());</div>
+<div class="line"><a id="l01359" name="l01359"></a><span class="lineno"> 1359</span> </div>
+<div class="line"><a id="l01360" name="l01360"></a><span class="lineno"> 1360</span>    <span class="keywordflow">if</span>( !testfile.is_open() ){</div>
+<div class="line"><a id="l01361" name="l01361"></a><span class="lineno"> 1361</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImage): image file &quot;</span> &lt;&lt; outfile.str() &lt;&lt; <span class="stringliteral">&quot; could not be opened. Check that the path exists and that you have write permission. Skipping image write for this camera.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l01362" name="l01362"></a><span class="lineno"> 1362</span>        <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l01363" name="l01363"></a><span class="lineno"> 1363</span>    }</div>
+<div class="line"><a id="l01364" name="l01364"></a><span class="lineno"> 1364</span>    testfile.close();</div>
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-<div class="line"><a id="l01366" name="l01366"></a><span class="lineno"> 1366</span>    <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> pixel_color;</div>
-<div class="line"><a id="l01367" name="l01367"></a><span class="lineno"> 1367</span>    <span class="keywordflow">for</span> (uint j = 0; j &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++) {</div>
-<div class="line"><a id="l01368" name="l01368"></a><span class="lineno"> 1368</span>        <span class="keywordflow">for</span> (uint i=0; i &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>; i++) {</div>
-<div class="line"><a id="l01369" name="l01369"></a><span class="lineno"> 1369</span>            <span class="keywordflow">if</span>( camera_data.size()==1 ){</div>
-<div class="line"><a id="l01370" name="l01370"></a><span class="lineno"> 1370</span>                <span class="keywordtype">float</span> c = camera_data.front().at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i);</div>
-<div class="line"><a id="l01371" name="l01371"></a><span class="lineno"> 1371</span>                pixel_color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(c,c,c);</div>
-<div class="line"><a id="l01372" name="l01372"></a><span class="lineno"> 1372</span>            }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l01373" name="l01373"></a><span class="lineno"> 1373</span>                pixel_color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(camera_data.at(0).at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i),camera_data.at(1).at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i),camera_data.at(2).at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i));</div>
-<div class="line"><a id="l01374" name="l01374"></a><span class="lineno"> 1374</span>            }</div>
-<div class="line"><a id="l01375" name="l01375"></a><span class="lineno"> 1375</span>            pixel_color.<a class="code hl_function" href="structhelios_1_1_r_g_bcolor.html#a5b7b7b5734588bcf49444997b091f8b6">scale</a>( flux_to_pixel_conversion );</div>
-<div class="line"><a id="l01376" name="l01376"></a><span class="lineno"> 1376</span>            uint ii = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> - i -1;</div>
-<div class="line"><a id="l01377" name="l01377"></a><span class="lineno"> 1377</span>            uint jj = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> - j - 1;</div>
-<div class="line"><a id="l01378" name="l01378"></a><span class="lineno"> 1378</span>            pixel_data.at(jj * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + ii) = pixel_color;</div>
-<div class="line"><a id="l01379" name="l01379"></a><span class="lineno"> 1379</span>        }</div>
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-<div class="line"><a id="l01383" name="l01383"></a><span class="lineno"> 1383</span> </div>
-<div class="line"><a id="l01384" name="l01384"></a><span class="lineno"> 1384</span>}</div>
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+<div class="line"><a id="l01367" name="l01367"></a><span class="lineno"> 1367</span> </div>
+<div class="line"><a id="l01368" name="l01368"></a><span class="lineno"> 1368</span>    std::vector&lt;RGBcolor&gt; pixel_data(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>);</div>
+<div class="line"><a id="l01369" name="l01369"></a><span class="lineno"> 1369</span> </div>
+<div class="line"><a id="l01370" name="l01370"></a><span class="lineno"> 1370</span>    <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> pixel_color;</div>
+<div class="line"><a id="l01371" name="l01371"></a><span class="lineno"> 1371</span>    <span class="keywordflow">for</span> (uint j = 0; j &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++) {</div>
+<div class="line"><a id="l01372" name="l01372"></a><span class="lineno"> 1372</span>        <span class="keywordflow">for</span> (uint i=0; i &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>; i++) {</div>
+<div class="line"><a id="l01373" name="l01373"></a><span class="lineno"> 1373</span>            <span class="keywordflow">if</span>( camera_data.size()==1 ){</div>
+<div class="line"><a id="l01374" name="l01374"></a><span class="lineno"> 1374</span>                <span class="keywordtype">float</span> c = camera_data.front().at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i);</div>
+<div class="line"><a id="l01375" name="l01375"></a><span class="lineno"> 1375</span>                pixel_color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(c,c,c);</div>
+<div class="line"><a id="l01376" name="l01376"></a><span class="lineno"> 1376</span>            }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l01377" name="l01377"></a><span class="lineno"> 1377</span>                pixel_color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(camera_data.at(0).at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i),camera_data.at(1).at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i),camera_data.at(2).at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i));</div>
+<div class="line"><a id="l01378" name="l01378"></a><span class="lineno"> 1378</span>            }</div>
+<div class="line"><a id="l01379" name="l01379"></a><span class="lineno"> 1379</span>            pixel_color.<a class="code hl_function" href="structhelios_1_1_r_g_bcolor.html#a5b7b7b5734588bcf49444997b091f8b6">scale</a>( flux_to_pixel_conversion );</div>
+<div class="line"><a id="l01380" name="l01380"></a><span class="lineno"> 1380</span>            uint ii = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> - i -1;</div>
+<div class="line"><a id="l01381" name="l01381"></a><span class="lineno"> 1381</span>            uint jj = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> - j - 1;</div>
+<div class="line"><a id="l01382" name="l01382"></a><span class="lineno"> 1382</span>            pixel_data.at(jj * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + ii) = pixel_color;</div>
+<div class="line"><a id="l01383" name="l01383"></a><span class="lineno"> 1383</span>        }</div>
+<div class="line"><a id="l01384" name="l01384"></a><span class="lineno"> 1384</span>    }</div>
 <div class="line"><a id="l01385" name="l01385"></a><span class="lineno"> 1385</span> </div>
-<div class="foldopen" id="foldopen01386" data-start="{" data-end="}">
-<div class="line"><a id="l01386" name="l01386"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a61abdff90fd75f3ebebc6b8f189cdac9"> 1386</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a61abdff90fd75f3ebebc6b8f189cdac9">RadiationModel::writeNormCameraImage</a>(<span class="keyword">const</span> std::string &amp;camera, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;bands, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">int</span> frame){</div>
-<div class="line"><a id="l01387" name="l01387"></a><span class="lineno"> 1387</span>    <span class="keywordtype">float</span> maxval = 0;</div>
-<div class="line"><a id="l01388" name="l01388"></a><span class="lineno"> 1388</span>    <span class="comment">// Find maximum mean value over all bands</span></div>
-<div class="line"><a id="l01389" name="l01389"></a><span class="lineno"> 1389</span>    <span class="keywordflow">for</span> (<span class="keyword">const</span> std::string&amp; band: bands){</div>
-<div class="line"><a id="l01390" name="l01390"></a><span class="lineno"> 1390</span>        std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + camera + <span class="stringliteral">&quot;_&quot;</span> + band;</div>
-<div class="line"><a id="l01391" name="l01391"></a><span class="lineno"> 1391</span>        <span class="keywordflow">if</span> (std::find(cameras.at(camera).band_labels.begin(), cameras.at(camera).band_labels.end(), band ) == cameras.at(camera).band_labels.end()) {</div>
-<div class="line"><a id="l01392" name="l01392"></a><span class="lineno"> 1392</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::writeNormCameraImage): camera &quot;</span> &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot; band with label &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot; does not exist. Skipping image write for this camera.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l01393" name="l01393"></a><span class="lineno"> 1393</span>            <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l01394" name="l01394"></a><span class="lineno"> 1394</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span> (!context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str())) {</div>
-<div class="line"><a id="l01395" name="l01395"></a><span class="lineno"> 1395</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::writeNormCameraImage): image data for camera &quot;</span> &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot;, band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot; has not been created. Did you run the radiation model? Skipping image write for this camera.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l01396" name="l01396"></a><span class="lineno"> 1396</span>            <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l01397" name="l01397"></a><span class="lineno"> 1397</span>        }</div>
-<div class="line"><a id="l01398" name="l01398"></a><span class="lineno"> 1398</span>        std::vector&lt;float&gt; cameradata;</div>
-<div class="line"><a id="l01399" name="l01399"></a><span class="lineno"> 1399</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), cameradata);</div>
-<div class="line"><a id="l01400" name="l01400"></a><span class="lineno"> 1400</span>        <span class="keywordflow">for</span> (<span class="keywordtype">float</span> val: cameradata){</div>
-<div class="line"><a id="l01401" name="l01401"></a><span class="lineno"> 1401</span>            <span class="keywordflow">if</span> (val &gt; maxval){</div>
-<div class="line"><a id="l01402" name="l01402"></a><span class="lineno"> 1402</span>                maxval = val;</div>
-<div class="line"><a id="l01403" name="l01403"></a><span class="lineno"> 1403</span>            }</div>
-<div class="line"><a id="l01404" name="l01404"></a><span class="lineno"> 1404</span>        }</div>
-<div class="line"><a id="l01405" name="l01405"></a><span class="lineno"> 1405</span>    }</div>
-<div class="line"><a id="l01406" name="l01406"></a><span class="lineno"> 1406</span>    <span class="comment">// Normalize all bands</span></div>
-<div class="line"><a id="l01407" name="l01407"></a><span class="lineno"> 1407</span>    <span class="keywordflow">for</span> (<span class="keyword">const</span> std::string&amp; band: bands) {</div>
-<div class="line"><a id="l01408" name="l01408"></a><span class="lineno"> 1408</span>        std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + camera + <span class="stringliteral">&quot;_&quot;</span> + band;</div>
-<div class="line"><a id="l01409" name="l01409"></a><span class="lineno"> 1409</span>        std::vector&lt;float&gt; cameradata;</div>
-<div class="line"><a id="l01410" name="l01410"></a><span class="lineno"> 1410</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), cameradata);</div>
-<div class="line"><a id="l01411" name="l01411"></a><span class="lineno"> 1411</span>        <span class="keywordflow">for</span> (<span class="keywordtype">float</span> &amp;val: cameradata) {</div>
-<div class="line"><a id="l01412" name="l01412"></a><span class="lineno"> 1412</span>            val = val / maxval;</div>
-<div class="line"><a id="l01413" name="l01413"></a><span class="lineno"> 1413</span>        }</div>
-<div class="line"><a id="l01414" name="l01414"></a><span class="lineno"> 1414</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(global_data_label.c_str(), <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a>, cameradata.size(), &amp;cameradata[0]);</div>
-<div class="line"><a id="l01415" name="l01415"></a><span class="lineno"> 1415</span>    }</div>
-<div class="line"><a id="l01416" name="l01416"></a><span class="lineno"> 1416</span> </div>
-<div class="line"><a id="l01417" name="l01417"></a><span class="lineno"> 1417</span>    <a class="code hl_function" href="class_radiation_model.html#aa30ec7ec3b6c3b109e9a9544b890e8de">RadiationModel::writeCameraImage</a>(camera, bands, imagefile_base, image_path, frame);</div>
-<div class="line"><a id="l01418" name="l01418"></a><span class="lineno"> 1418</span>}</div>
+<div class="line"><a id="l01386" name="l01386"></a><span class="lineno"> 1386</span>    <a class="code hl_function" href="global_8h.html#a95600894b45bcc627d66c3dd8c202cd8">writeJPEG</a>( outfile.str(), camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>, camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>, pixel_data );</div>
+<div class="line"><a id="l01387" name="l01387"></a><span class="lineno"> 1387</span> </div>
+<div class="line"><a id="l01388" name="l01388"></a><span class="lineno"> 1388</span>}</div>
 </div>
-<div class="line"><a id="l01419" name="l01419"></a><span class="lineno"> 1419</span> </div>
-<div class="foldopen" id="foldopen01420" data-start="{" data-end="}">
-<div class="line"><a id="l01420" name="l01420"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a546c959be8d158f17ab1cb9ada0ebe6d"> 1420</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a546c959be8d158f17ab1cb9ada0ebe6d">RadiationModel::writeCameraImageData</a>(<span class="keyword">const</span> std::string &amp;camera, <span class="keyword">const</span> std::string &amp;band, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">int</span> frame){</div>
-<div class="line"><a id="l01421" name="l01421"></a><span class="lineno"> 1421</span> </div>
-<div class="line"><a id="l01422" name="l01422"></a><span class="lineno"> 1422</span>    <span class="comment">//check if camera exists</span></div>
-<div class="line"><a id="l01423" name="l01423"></a><span class="lineno"> 1423</span>    <span class="keywordflow">if</span>( cameras.find(camera)==cameras.end() ){</div>
-<div class="line"><a id="l01424" name="l01424"></a><span class="lineno"> 1424</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImageData): camera with label &quot;</span> &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot; does not exist. Skipping image write for this camera.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l01425" name="l01425"></a><span class="lineno"> 1425</span>        <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l01426" name="l01426"></a><span class="lineno"> 1426</span>    }</div>
-<div class="line"><a id="l01427" name="l01427"></a><span class="lineno"> 1427</span> </div>
-<div class="line"><a id="l01428" name="l01428"></a><span class="lineno"> 1428</span>    std::vector&lt;float&gt; camera_data;</div>
-<div class="line"><a id="l01429" name="l01429"></a><span class="lineno"> 1429</span> </div>
-<div class="line"><a id="l01430" name="l01430"></a><span class="lineno"> 1430</span>    <span class="comment">//check if band exists</span></div>
-<div class="line"><a id="l01431" name="l01431"></a><span class="lineno"> 1431</span>    <span class="keywordflow">if</span> (std::find(cameras.at(camera).band_labels.begin(), cameras.at(camera).band_labels.end(), band) == cameras.at(camera).band_labels.end()) {</div>
-<div class="line"><a id="l01432" name="l01432"></a><span class="lineno"> 1432</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImageData): camera &quot;</span> &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot; band with label &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot; does not exist. Skipping image write for this camera.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l01433" name="l01433"></a><span class="lineno"> 1433</span>        <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l01434" name="l01434"></a><span class="lineno"> 1434</span>    }</div>
-<div class="line"><a id="l01435" name="l01435"></a><span class="lineno"> 1435</span> </div>
-<div class="line"><a id="l01436" name="l01436"></a><span class="lineno"> 1436</span>    std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + camera + <span class="stringliteral">&quot;_&quot;</span> + band;</div>
-<div class="line"><a id="l01437" name="l01437"></a><span class="lineno"> 1437</span> </div>
-<div class="line"><a id="l01438" name="l01438"></a><span class="lineno"> 1438</span>    <span class="keywordflow">if</span> (!context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str())) {</div>
-<div class="line"><a id="l01439" name="l01439"></a><span class="lineno"> 1439</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImageData): image data for camera &quot;</span> &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot;, band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot; has not been created. Did you run the radiation model? Skipping image write for this camera.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l01440" name="l01440"></a><span class="lineno"> 1440</span>        <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l01441" name="l01441"></a><span class="lineno"> 1441</span>    }</div>
-<div class="line"><a id="l01442" name="l01442"></a><span class="lineno"> 1442</span> </div>
-<div class="line"><a id="l01443" name="l01443"></a><span class="lineno"> 1443</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_data );</div>
-<div class="line"><a id="l01444" name="l01444"></a><span class="lineno"> 1444</span> </div>
-<div class="line"><a id="l01445" name="l01445"></a><span class="lineno"> 1445</span>    std::string frame_str;</div>
-<div class="line"><a id="l01446" name="l01446"></a><span class="lineno"> 1446</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l01447" name="l01447"></a><span class="lineno"> 1447</span>        frame_str = std::to_string(frame);</div>
-<div class="line"><a id="l01448" name="l01448"></a><span class="lineno"> 1448</span>    }</div>
-<div class="line"><a id="l01449" name="l01449"></a><span class="lineno"> 1449</span> </div>
-<div class="line"><a id="l01450" name="l01450"></a><span class="lineno"> 1450</span>    std::ostringstream outfile;</div>
-<div class="line"><a id="l01451" name="l01451"></a><span class="lineno"> 1451</span> </div>
-<div class="line"><a id="l01452" name="l01452"></a><span class="lineno"> 1452</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="_radiation_model_8h.html#a2d93cfc62b5e610b18411a9e87547f81">validateOutputPath</a>(outfile) ){</div>
-<div class="line"><a id="l01453" name="l01453"></a><span class="lineno"> 1453</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImage): Invalid image output directory &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
-<div class="line"><a id="l01454" name="l01454"></a><span class="lineno"> 1454</span>    }</div>
-<div class="line"><a id="l01455" name="l01455"></a><span class="lineno"> 1455</span> </div>
-<div class="line"><a id="l01456" name="l01456"></a><span class="lineno"> 1456</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l01457" name="l01457"></a><span class="lineno"> 1457</span>        outfile &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
-<div class="line"><a id="l01458" name="l01458"></a><span class="lineno"> 1458</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l01459" name="l01459"></a><span class="lineno"> 1459</span>        outfile &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
-<div class="line"><a id="l01460" name="l01460"></a><span class="lineno"> 1460</span>    }</div>
-<div class="line"><a id="l01461" name="l01461"></a><span class="lineno"> 1461</span> </div>
-<div class="line"><a id="l01462" name="l01462"></a><span class="lineno"> 1462</span>    std::ofstream outfilestream(outfile.str());</div>
-<div class="line"><a id="l01463" name="l01463"></a><span class="lineno"> 1463</span> </div>
-<div class="line"><a id="l01464" name="l01464"></a><span class="lineno"> 1464</span>    <span class="keywordflow">if</span>( !outfilestream.is_open() ){</div>
-<div class="line"><a id="l01465" name="l01465"></a><span class="lineno"> 1465</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImageData): image file &quot;</span> &lt;&lt; outfile.str() &lt;&lt; <span class="stringliteral">&quot; could not be opened. Check that the path exists and that you have write permission. Skipping image write for this camera.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l01466" name="l01466"></a><span class="lineno"> 1466</span>        <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l01467" name="l01467"></a><span class="lineno"> 1467</span>    }</div>
-<div class="line"><a id="l01468" name="l01468"></a><span class="lineno"> 1468</span> </div>
-<div class="line"><a id="l01469" name="l01469"></a><span class="lineno"> 1469</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(camera).resolution;</div>
-<div class="line"><a id="l01470" name="l01470"></a><span class="lineno"> 1470</span> </div>
-<div class="line"><a id="l01471" name="l01471"></a><span class="lineno"> 1471</span>    <span class="keywordflow">for</span> ( <span class="keywordtype">int</span> j = 0; j&lt;camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++ ) {</div>
-<div class="line"><a id="l01472" name="l01472"></a><span class="lineno"> 1472</span>        <span class="keywordflow">for</span> ( <span class="keywordtype">int</span> i = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>-1; i &gt;= 0; i-- ) {</div>
-<div class="line"><a id="l01473" name="l01473"></a><span class="lineno"> 1473</span>            outfilestream &lt;&lt; camera_data.at(j*camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i ) &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l01474" name="l01474"></a><span class="lineno"> 1474</span>        }</div>
-<div class="line"><a id="l01475" name="l01475"></a><span class="lineno"> 1475</span>        outfilestream &lt;&lt; <span class="stringliteral">&quot;\n&quot;</span>;</div>
-<div class="line"><a id="l01476" name="l01476"></a><span class="lineno"> 1476</span>    }</div>
-<div class="line"><a id="l01477" name="l01477"></a><span class="lineno"> 1477</span> </div>
-<div class="line"><a id="l01478" name="l01478"></a><span class="lineno"> 1478</span>    outfilestream.close();</div>
-<div class="line"><a id="l01479" name="l01479"></a><span class="lineno"> 1479</span> </div>
-<div class="line"><a id="l01480" name="l01480"></a><span class="lineno"> 1480</span>}</div>
+<div class="line"><a id="l01389" name="l01389"></a><span class="lineno"> 1389</span> </div>
+<div class="foldopen" id="foldopen01390" data-start="{" data-end="}">
+<div class="line"><a id="l01390" name="l01390"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a61abdff90fd75f3ebebc6b8f189cdac9"> 1390</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a61abdff90fd75f3ebebc6b8f189cdac9">RadiationModel::writeNormCameraImage</a>(<span class="keyword">const</span> std::string &amp;camera, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;bands, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">int</span> frame){</div>
+<div class="line"><a id="l01391" name="l01391"></a><span class="lineno"> 1391</span>    <span class="keywordtype">float</span> maxval = 0;</div>
+<div class="line"><a id="l01392" name="l01392"></a><span class="lineno"> 1392</span>    <span class="comment">// Find maximum mean value over all bands</span></div>
+<div class="line"><a id="l01393" name="l01393"></a><span class="lineno"> 1393</span>    <span class="keywordflow">for</span> (<span class="keyword">const</span> std::string&amp; band: bands){</div>
+<div class="line"><a id="l01394" name="l01394"></a><span class="lineno"> 1394</span>        std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + camera + <span class="stringliteral">&quot;_&quot;</span> + band;</div>
+<div class="line"><a id="l01395" name="l01395"></a><span class="lineno"> 1395</span>        <span class="keywordflow">if</span> (std::find(cameras.at(camera).band_labels.begin(), cameras.at(camera).band_labels.end(), band ) == cameras.at(camera).band_labels.end()) {</div>
+<div class="line"><a id="l01396" name="l01396"></a><span class="lineno"> 1396</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::writeNormCameraImage): camera &quot;</span> &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot; band with label &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot; does not exist. Skipping image write for this camera.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l01397" name="l01397"></a><span class="lineno"> 1397</span>            <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l01398" name="l01398"></a><span class="lineno"> 1398</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span> (!context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str())) {</div>
+<div class="line"><a id="l01399" name="l01399"></a><span class="lineno"> 1399</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::writeNormCameraImage): image data for camera &quot;</span> &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot;, band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot; has not been created. Did you run the radiation model? Skipping image write for this camera.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l01400" name="l01400"></a><span class="lineno"> 1400</span>            <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l01401" name="l01401"></a><span class="lineno"> 1401</span>        }</div>
+<div class="line"><a id="l01402" name="l01402"></a><span class="lineno"> 1402</span>        std::vector&lt;float&gt; cameradata;</div>
+<div class="line"><a id="l01403" name="l01403"></a><span class="lineno"> 1403</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), cameradata);</div>
+<div class="line"><a id="l01404" name="l01404"></a><span class="lineno"> 1404</span>        <span class="keywordflow">for</span> (<span class="keywordtype">float</span> val: cameradata){</div>
+<div class="line"><a id="l01405" name="l01405"></a><span class="lineno"> 1405</span>            <span class="keywordflow">if</span> (val &gt; maxval){</div>
+<div class="line"><a id="l01406" name="l01406"></a><span class="lineno"> 1406</span>                maxval = val;</div>
+<div class="line"><a id="l01407" name="l01407"></a><span class="lineno"> 1407</span>            }</div>
+<div class="line"><a id="l01408" name="l01408"></a><span class="lineno"> 1408</span>        }</div>
+<div class="line"><a id="l01409" name="l01409"></a><span class="lineno"> 1409</span>    }</div>
+<div class="line"><a id="l01410" name="l01410"></a><span class="lineno"> 1410</span>    <span class="comment">// Normalize all bands</span></div>
+<div class="line"><a id="l01411" name="l01411"></a><span class="lineno"> 1411</span>    <span class="keywordflow">for</span> (<span class="keyword">const</span> std::string&amp; band: bands) {</div>
+<div class="line"><a id="l01412" name="l01412"></a><span class="lineno"> 1412</span>        std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + camera + <span class="stringliteral">&quot;_&quot;</span> + band;</div>
+<div class="line"><a id="l01413" name="l01413"></a><span class="lineno"> 1413</span>        std::vector&lt;float&gt; cameradata;</div>
+<div class="line"><a id="l01414" name="l01414"></a><span class="lineno"> 1414</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), cameradata);</div>
+<div class="line"><a id="l01415" name="l01415"></a><span class="lineno"> 1415</span>        <span class="keywordflow">for</span> (<span class="keywordtype">float</span> &amp;val: cameradata) {</div>
+<div class="line"><a id="l01416" name="l01416"></a><span class="lineno"> 1416</span>            val = val / maxval;</div>
+<div class="line"><a id="l01417" name="l01417"></a><span class="lineno"> 1417</span>        }</div>
+<div class="line"><a id="l01418" name="l01418"></a><span class="lineno"> 1418</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(global_data_label.c_str(), <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a>, cameradata.size(), &amp;cameradata[0]);</div>
+<div class="line"><a id="l01419" name="l01419"></a><span class="lineno"> 1419</span>    }</div>
+<div class="line"><a id="l01420" name="l01420"></a><span class="lineno"> 1420</span> </div>
+<div class="line"><a id="l01421" name="l01421"></a><span class="lineno"> 1421</span>    <a class="code hl_function" href="class_radiation_model.html#aa30ec7ec3b6c3b109e9a9544b890e8de">RadiationModel::writeCameraImage</a>(camera, bands, imagefile_base, image_path, frame);</div>
+<div class="line"><a id="l01422" name="l01422"></a><span class="lineno"> 1422</span>}</div>
 </div>
-<div class="line"><a id="l01481" name="l01481"></a><span class="lineno"> 1481</span> </div>
-<div class="line"><a id="l01482" name="l01482"></a><span class="lineno"> 1482</span><span class="keywordtype">void</span> RadiationModel::initializeOptiX() {</div>
-<div class="line"><a id="l01483" name="l01483"></a><span class="lineno"> 1483</span> </div>
-<div class="line"><a id="l01484" name="l01484"></a><span class="lineno"> 1484</span>    <span class="comment">/* Context */</span></div>
-<div class="line"><a id="l01485" name="l01485"></a><span class="lineno"> 1485</span>    RT_CHECK_ERROR( rtContextCreate( &amp;OptiX_Context ) );</div>
-<div class="line"><a id="l01486" name="l01486"></a><span class="lineno"> 1486</span>    RT_CHECK_ERROR( rtContextSetPrintEnabled( OptiX_Context, 1 ) );</div>
+<div class="line"><a id="l01423" name="l01423"></a><span class="lineno"> 1423</span> </div>
+<div class="foldopen" id="foldopen01424" data-start="{" data-end="}">
+<div class="line"><a id="l01424" name="l01424"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a546c959be8d158f17ab1cb9ada0ebe6d"> 1424</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a546c959be8d158f17ab1cb9ada0ebe6d">RadiationModel::writeCameraImageData</a>(<span class="keyword">const</span> std::string &amp;camera, <span class="keyword">const</span> std::string &amp;band, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">int</span> frame){</div>
+<div class="line"><a id="l01425" name="l01425"></a><span class="lineno"> 1425</span> </div>
+<div class="line"><a id="l01426" name="l01426"></a><span class="lineno"> 1426</span>    <span class="comment">//check if camera exists</span></div>
+<div class="line"><a id="l01427" name="l01427"></a><span class="lineno"> 1427</span>    <span class="keywordflow">if</span>( cameras.find(camera)==cameras.end() ){</div>
+<div class="line"><a id="l01428" name="l01428"></a><span class="lineno"> 1428</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImageData): camera with label &quot;</span> &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot; does not exist. Skipping image write for this camera.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l01429" name="l01429"></a><span class="lineno"> 1429</span>        <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l01430" name="l01430"></a><span class="lineno"> 1430</span>    }</div>
+<div class="line"><a id="l01431" name="l01431"></a><span class="lineno"> 1431</span> </div>
+<div class="line"><a id="l01432" name="l01432"></a><span class="lineno"> 1432</span>    std::vector&lt;float&gt; camera_data;</div>
+<div class="line"><a id="l01433" name="l01433"></a><span class="lineno"> 1433</span> </div>
+<div class="line"><a id="l01434" name="l01434"></a><span class="lineno"> 1434</span>    <span class="comment">//check if band exists</span></div>
+<div class="line"><a id="l01435" name="l01435"></a><span class="lineno"> 1435</span>    <span class="keywordflow">if</span> (std::find(cameras.at(camera).band_labels.begin(), cameras.at(camera).band_labels.end(), band) == cameras.at(camera).band_labels.end()) {</div>
+<div class="line"><a id="l01436" name="l01436"></a><span class="lineno"> 1436</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImageData): camera &quot;</span> &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot; band with label &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot; does not exist. Skipping image write for this camera.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l01437" name="l01437"></a><span class="lineno"> 1437</span>        <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l01438" name="l01438"></a><span class="lineno"> 1438</span>    }</div>
+<div class="line"><a id="l01439" name="l01439"></a><span class="lineno"> 1439</span> </div>
+<div class="line"><a id="l01440" name="l01440"></a><span class="lineno"> 1440</span>    std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + camera + <span class="stringliteral">&quot;_&quot;</span> + band;</div>
+<div class="line"><a id="l01441" name="l01441"></a><span class="lineno"> 1441</span> </div>
+<div class="line"><a id="l01442" name="l01442"></a><span class="lineno"> 1442</span>    <span class="keywordflow">if</span> (!context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str())) {</div>
+<div class="line"><a id="l01443" name="l01443"></a><span class="lineno"> 1443</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImageData): image data for camera &quot;</span> &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot;, band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot; has not been created. Did you run the radiation model? Skipping image write for this camera.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l01444" name="l01444"></a><span class="lineno"> 1444</span>        <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l01445" name="l01445"></a><span class="lineno"> 1445</span>    }</div>
+<div class="line"><a id="l01446" name="l01446"></a><span class="lineno"> 1446</span> </div>
+<div class="line"><a id="l01447" name="l01447"></a><span class="lineno"> 1447</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_data );</div>
+<div class="line"><a id="l01448" name="l01448"></a><span class="lineno"> 1448</span> </div>
+<div class="line"><a id="l01449" name="l01449"></a><span class="lineno"> 1449</span>    std::string frame_str;</div>
+<div class="line"><a id="l01450" name="l01450"></a><span class="lineno"> 1450</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l01451" name="l01451"></a><span class="lineno"> 1451</span>        frame_str = std::to_string(frame);</div>
+<div class="line"><a id="l01452" name="l01452"></a><span class="lineno"> 1452</span>    }</div>
+<div class="line"><a id="l01453" name="l01453"></a><span class="lineno"> 1453</span> </div>
+<div class="line"><a id="l01454" name="l01454"></a><span class="lineno"> 1454</span>    std::string output_path = image_path;</div>
+<div class="line"><a id="l01455" name="l01455"></a><span class="lineno"> 1455</span>    <span class="keywordflow">if</span>( !image_path.empty() &amp;&amp; !<a class="code hl_function" href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9">validateOutputPath</a>(output_path) ){</div>
+<div class="line"><a id="l01456" name="l01456"></a><span class="lineno"> 1456</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImage): Invalid image output directory &#39;&quot;</span> + image_path + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
+<div class="line"><a id="l01457" name="l01457"></a><span class="lineno"> 1457</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902">getFileName</a>(output_path).empty() ){</div>
+<div class="line"><a id="l01458" name="l01458"></a><span class="lineno"> 1458</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR(RadiationModel::writeCameraImage): Image output directory contains a filename. This argument should be the path to a directory not a file.&quot;</span>);</div>
+<div class="line"><a id="l01459" name="l01459"></a><span class="lineno"> 1459</span>    }</div>
+<div class="line"><a id="l01460" name="l01460"></a><span class="lineno"> 1460</span> </div>
+<div class="line"><a id="l01461" name="l01461"></a><span class="lineno"> 1461</span>    std::ostringstream outfile;</div>
+<div class="line"><a id="l01462" name="l01462"></a><span class="lineno"> 1462</span>    outfile &lt;&lt; output_path;</div>
+<div class="line"><a id="l01463" name="l01463"></a><span class="lineno"> 1463</span> </div>
+<div class="line"><a id="l01464" name="l01464"></a><span class="lineno"> 1464</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l01465" name="l01465"></a><span class="lineno"> 1465</span>        outfile &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
+<div class="line"><a id="l01466" name="l01466"></a><span class="lineno"> 1466</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l01467" name="l01467"></a><span class="lineno"> 1467</span>        outfile &lt;&lt; camera &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
+<div class="line"><a id="l01468" name="l01468"></a><span class="lineno"> 1468</span>    }</div>
+<div class="line"><a id="l01469" name="l01469"></a><span class="lineno"> 1469</span> </div>
+<div class="line"><a id="l01470" name="l01470"></a><span class="lineno"> 1470</span>    std::ofstream outfilestream(outfile.str());</div>
+<div class="line"><a id="l01471" name="l01471"></a><span class="lineno"> 1471</span> </div>
+<div class="line"><a id="l01472" name="l01472"></a><span class="lineno"> 1472</span>    <span class="keywordflow">if</span>( !outfilestream.is_open() ){</div>
+<div class="line"><a id="l01473" name="l01473"></a><span class="lineno"> 1473</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImageData): image file &quot;</span> &lt;&lt; outfile.str() &lt;&lt; <span class="stringliteral">&quot; could not be opened. Check that the path exists and that you have write permission. Skipping image write for this camera.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l01474" name="l01474"></a><span class="lineno"> 1474</span>        <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l01475" name="l01475"></a><span class="lineno"> 1475</span>    }</div>
+<div class="line"><a id="l01476" name="l01476"></a><span class="lineno"> 1476</span> </div>
+<div class="line"><a id="l01477" name="l01477"></a><span class="lineno"> 1477</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(camera).resolution;</div>
+<div class="line"><a id="l01478" name="l01478"></a><span class="lineno"> 1478</span> </div>
+<div class="line"><a id="l01479" name="l01479"></a><span class="lineno"> 1479</span>    <span class="keywordflow">for</span> ( <span class="keywordtype">int</span> j = 0; j&lt;camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++ ) {</div>
+<div class="line"><a id="l01480" name="l01480"></a><span class="lineno"> 1480</span>        <span class="keywordflow">for</span> ( <span class="keywordtype">int</span> i = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>-1; i &gt;= 0; i-- ) {</div>
+<div class="line"><a id="l01481" name="l01481"></a><span class="lineno"> 1481</span>            outfilestream &lt;&lt; camera_data.at(j*camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i ) &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l01482" name="l01482"></a><span class="lineno"> 1482</span>        }</div>
+<div class="line"><a id="l01483" name="l01483"></a><span class="lineno"> 1483</span>        outfilestream &lt;&lt; <span class="stringliteral">&quot;\n&quot;</span>;</div>
+<div class="line"><a id="l01484" name="l01484"></a><span class="lineno"> 1484</span>    }</div>
+<div class="line"><a id="l01485" name="l01485"></a><span class="lineno"> 1485</span> </div>
+<div class="line"><a id="l01486" name="l01486"></a><span class="lineno"> 1486</span>    outfilestream.close();</div>
 <div class="line"><a id="l01487" name="l01487"></a><span class="lineno"> 1487</span> </div>
-<div class="line"><a id="l01488" name="l01488"></a><span class="lineno"> 1488</span>    RT_CHECK_ERROR( rtContextSetRayTypeCount( OptiX_Context, 4 ) );</div>
-<div class="line"><a id="l01489" name="l01489"></a><span class="lineno"> 1489</span>    <span class="comment">//ray types are:</span></div>
-<div class="line"><a id="l01490" name="l01490"></a><span class="lineno"> 1490</span>    <span class="comment">// 0: direct_ray_type</span></div>
-<div class="line"><a id="l01491" name="l01491"></a><span class="lineno"> 1491</span>    <span class="comment">// 1: diffuse_ray_type</span></div>
-<div class="line"><a id="l01492" name="l01492"></a><span class="lineno"> 1492</span>    <span class="comment">// 2: camera_ray_type</span></div>
-<div class="line"><a id="l01493" name="l01493"></a><span class="lineno"> 1493</span>    <span class="comment">// 3: pixel_label_ray_type</span></div>
-<div class="line"><a id="l01494" name="l01494"></a><span class="lineno"> 1494</span> </div>
-<div class="line"><a id="l01495" name="l01495"></a><span class="lineno"> 1495</span>    RT_CHECK_ERROR( rtContextSetEntryPointCount( OptiX_Context, 4 ) );</div>
-<div class="line"><a id="l01496" name="l01496"></a><span class="lineno"> 1496</span>    <span class="comment">//ray entery points are</span></div>
-<div class="line"><a id="l01497" name="l01497"></a><span class="lineno"> 1497</span>    <span class="comment">// 0: direct_raygen</span></div>
-<div class="line"><a id="l01498" name="l01498"></a><span class="lineno"> 1498</span>    <span class="comment">// 1: diffuse_raygen</span></div>
-<div class="line"><a id="l01499" name="l01499"></a><span class="lineno"> 1499</span>    <span class="comment">// 2: camera_raygen</span></div>
-<div class="line"><a id="l01500" name="l01500"></a><span class="lineno"> 1500</span>    <span class="comment">// 3: pixel_label_raygen</span></div>
-<div class="line"><a id="l01501" name="l01501"></a><span class="lineno"> 1501</span> </div>
-<div class="line"><a id="l01502" name="l01502"></a><span class="lineno"> 1502</span>    <span class="comment">/* Ray Types */</span></div>
-<div class="line"><a id="l01503" name="l01503"></a><span class="lineno"> 1503</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;direct_ray_type&quot;</span>, &amp;direct_ray_type_RTvariable ) );</div>
-<div class="line"><a id="l01504" name="l01504"></a><span class="lineno"> 1504</span>    RT_CHECK_ERROR( rtVariableSet1ui( direct_ray_type_RTvariable, RAYTYPE_DIRECT ) );</div>
-<div class="line"><a id="l01505" name="l01505"></a><span class="lineno"> 1505</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;diffuse_ray_type&quot;</span>, &amp;diffuse_ray_type_RTvariable ) );</div>
-<div class="line"><a id="l01506" name="l01506"></a><span class="lineno"> 1506</span>    RT_CHECK_ERROR( rtVariableSet1ui( diffuse_ray_type_RTvariable, RAYTYPE_DIFFUSE ) );</div>
-<div class="line"><a id="l01507" name="l01507"></a><span class="lineno"> 1507</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;camera_ray_type&quot;</span>, &amp;camera_ray_type_RTvariable ) );</div>
-<div class="line"><a id="l01508" name="l01508"></a><span class="lineno"> 1508</span>    RT_CHECK_ERROR( rtVariableSet1ui( camera_ray_type_RTvariable, RAYTYPE_CAMERA ) );</div>
-<div class="line"><a id="l01509" name="l01509"></a><span class="lineno"> 1509</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;pixel_label_ray_type&quot;</span>, &amp;pixel_label_ray_type_RTvariable ) );</div>
-<div class="line"><a id="l01510" name="l01510"></a><span class="lineno"> 1510</span>    RT_CHECK_ERROR( rtVariableSet1ui( pixel_label_ray_type_RTvariable, RAYTYPE_PIXEL_LABEL ) );</div>
-<div class="line"><a id="l01511" name="l01511"></a><span class="lineno"> 1511</span> </div>
-<div class="line"><a id="l01512" name="l01512"></a><span class="lineno"> 1512</span>    <span class="comment">/* Ray Generation Program */</span></div>
-<div class="line"><a id="l01513" name="l01513"></a><span class="lineno"> 1513</span> </div>
-<div class="line"><a id="l01514" name="l01514"></a><span class="lineno"> 1514</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayGeneration.cu.ptx&quot;</span>, <span class="stringliteral">&quot;direct_raygen&quot;</span>, &amp;direct_raygen ) );</div>
-<div class="line"><a id="l01515" name="l01515"></a><span class="lineno"> 1515</span>    RT_CHECK_ERROR( rtContextSetRayGenerationProgram( OptiX_Context, RAYTYPE_DIRECT, direct_raygen ) );</div>
-<div class="line"><a id="l01516" name="l01516"></a><span class="lineno"> 1516</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayGeneration.cu.ptx&quot;</span>, <span class="stringliteral">&quot;diffuse_raygen&quot;</span>, &amp;diffuse_raygen ) );</div>
-<div class="line"><a id="l01517" name="l01517"></a><span class="lineno"> 1517</span>    RT_CHECK_ERROR( rtContextSetRayGenerationProgram( OptiX_Context, RAYTYPE_DIFFUSE, diffuse_raygen ) );</div>
-<div class="line"><a id="l01518" name="l01518"></a><span class="lineno"> 1518</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayGeneration.cu.ptx&quot;</span>, <span class="stringliteral">&quot;camera_raygen&quot;</span>, &amp;camera_raygen ) );</div>
-<div class="line"><a id="l01519" name="l01519"></a><span class="lineno"> 1519</span>    RT_CHECK_ERROR( rtContextSetRayGenerationProgram( OptiX_Context, RAYTYPE_CAMERA, camera_raygen ) );</div>
-<div class="line"><a id="l01520" name="l01520"></a><span class="lineno"> 1520</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayGeneration.cu.ptx&quot;</span>, <span class="stringliteral">&quot;pixel_label_raygen&quot;</span>, &amp;pixel_label_raygen ) );</div>
-<div class="line"><a id="l01521" name="l01521"></a><span class="lineno"> 1521</span>    RT_CHECK_ERROR( rtContextSetRayGenerationProgram( OptiX_Context, RAYTYPE_PIXEL_LABEL, pixel_label_raygen ) );</div>
-<div class="line"><a id="l01522" name="l01522"></a><span class="lineno"> 1522</span> </div>
-<div class="line"><a id="l01523" name="l01523"></a><span class="lineno"> 1523</span>    <span class="comment">/* Declare Buffers and Variables */</span></div>
-<div class="line"><a id="l01524" name="l01524"></a><span class="lineno"> 1524</span> </div>
-<div class="line"><a id="l01525" name="l01525"></a><span class="lineno"> 1525</span>    <span class="comment">//primitive reflectivity buffer</span></div>
-<div class="line"><a id="l01526" name="l01526"></a><span class="lineno"> 1526</span>    addBuffer( <span class="stringliteral">&quot;rho&quot;</span>, rho_RTbuffer, rho_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01527" name="l01527"></a><span class="lineno"> 1527</span>    <span class="comment">//primitive transmissivity buffer</span></div>
-<div class="line"><a id="l01528" name="l01528"></a><span class="lineno"> 1528</span>    addBuffer( <span class="stringliteral">&quot;tau&quot;</span>, tau_RTbuffer, tau_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01529" name="l01529"></a><span class="lineno"> 1529</span> </div>
-<div class="line"><a id="l01530" name="l01530"></a><span class="lineno"> 1530</span>    <span class="comment">//primitive reflectivity buffer</span></div>
-<div class="line"><a id="l01531" name="l01531"></a><span class="lineno"> 1531</span>    addBuffer( <span class="stringliteral">&quot;rho_cam&quot;</span>, rho_cam_RTbuffer, rho_cam_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01532" name="l01532"></a><span class="lineno"> 1532</span>    <span class="comment">//primitive transmissivity buffer</span></div>
-<div class="line"><a id="l01533" name="l01533"></a><span class="lineno"> 1533</span>    addBuffer( <span class="stringliteral">&quot;tau_cam&quot;</span>, tau_cam_RTbuffer, tau_cam_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01534" name="l01534"></a><span class="lineno"> 1534</span> </div>
-<div class="line"><a id="l01535" name="l01535"></a><span class="lineno"> 1535</span>    <span class="comment">//primitive transformation matrix buffer</span></div>
-<div class="line"><a id="l01536" name="l01536"></a><span class="lineno"> 1536</span>    addBuffer( <span class="stringliteral">&quot;transform_matrix&quot;</span>, transform_matrix_RTbuffer, transform_matrix_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 2 );</div>
+<div class="line"><a id="l01488" name="l01488"></a><span class="lineno"> 1488</span>}</div>
+</div>
+<div class="line"><a id="l01489" name="l01489"></a><span class="lineno"> 1489</span> </div>
+<div class="line"><a id="l01490" name="l01490"></a><span class="lineno"> 1490</span><span class="keywordtype">void</span> RadiationModel::initializeOptiX() {</div>
+<div class="line"><a id="l01491" name="l01491"></a><span class="lineno"> 1491</span> </div>
+<div class="line"><a id="l01492" name="l01492"></a><span class="lineno"> 1492</span>    <span class="comment">/* Context */</span></div>
+<div class="line"><a id="l01493" name="l01493"></a><span class="lineno"> 1493</span>    RT_CHECK_ERROR( rtContextCreate( &amp;OptiX_Context ) );</div>
+<div class="line"><a id="l01494" name="l01494"></a><span class="lineno"> 1494</span>    RT_CHECK_ERROR( rtContextSetPrintEnabled( OptiX_Context, 1 ) );</div>
+<div class="line"><a id="l01495" name="l01495"></a><span class="lineno"> 1495</span> </div>
+<div class="line"><a id="l01496" name="l01496"></a><span class="lineno"> 1496</span>    RT_CHECK_ERROR( rtContextSetRayTypeCount( OptiX_Context, 4 ) );</div>
+<div class="line"><a id="l01497" name="l01497"></a><span class="lineno"> 1497</span>    <span class="comment">//ray types are:</span></div>
+<div class="line"><a id="l01498" name="l01498"></a><span class="lineno"> 1498</span>    <span class="comment">// 0: direct_ray_type</span></div>
+<div class="line"><a id="l01499" name="l01499"></a><span class="lineno"> 1499</span>    <span class="comment">// 1: diffuse_ray_type</span></div>
+<div class="line"><a id="l01500" name="l01500"></a><span class="lineno"> 1500</span>    <span class="comment">// 2: camera_ray_type</span></div>
+<div class="line"><a id="l01501" name="l01501"></a><span class="lineno"> 1501</span>    <span class="comment">// 3: pixel_label_ray_type</span></div>
+<div class="line"><a id="l01502" name="l01502"></a><span class="lineno"> 1502</span> </div>
+<div class="line"><a id="l01503" name="l01503"></a><span class="lineno"> 1503</span>    RT_CHECK_ERROR( rtContextSetEntryPointCount( OptiX_Context, 4 ) );</div>
+<div class="line"><a id="l01504" name="l01504"></a><span class="lineno"> 1504</span>    <span class="comment">//ray entery points are</span></div>
+<div class="line"><a id="l01505" name="l01505"></a><span class="lineno"> 1505</span>    <span class="comment">// 0: direct_raygen</span></div>
+<div class="line"><a id="l01506" name="l01506"></a><span class="lineno"> 1506</span>    <span class="comment">// 1: diffuse_raygen</span></div>
+<div class="line"><a id="l01507" name="l01507"></a><span class="lineno"> 1507</span>    <span class="comment">// 2: camera_raygen</span></div>
+<div class="line"><a id="l01508" name="l01508"></a><span class="lineno"> 1508</span>    <span class="comment">// 3: pixel_label_raygen</span></div>
+<div class="line"><a id="l01509" name="l01509"></a><span class="lineno"> 1509</span> </div>
+<div class="line"><a id="l01510" name="l01510"></a><span class="lineno"> 1510</span>    <span class="comment">/* Ray Types */</span></div>
+<div class="line"><a id="l01511" name="l01511"></a><span class="lineno"> 1511</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;direct_ray_type&quot;</span>, &amp;direct_ray_type_RTvariable ) );</div>
+<div class="line"><a id="l01512" name="l01512"></a><span class="lineno"> 1512</span>    RT_CHECK_ERROR( rtVariableSet1ui( direct_ray_type_RTvariable, RAYTYPE_DIRECT ) );</div>
+<div class="line"><a id="l01513" name="l01513"></a><span class="lineno"> 1513</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;diffuse_ray_type&quot;</span>, &amp;diffuse_ray_type_RTvariable ) );</div>
+<div class="line"><a id="l01514" name="l01514"></a><span class="lineno"> 1514</span>    RT_CHECK_ERROR( rtVariableSet1ui( diffuse_ray_type_RTvariable, RAYTYPE_DIFFUSE ) );</div>
+<div class="line"><a id="l01515" name="l01515"></a><span class="lineno"> 1515</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;camera_ray_type&quot;</span>, &amp;camera_ray_type_RTvariable ) );</div>
+<div class="line"><a id="l01516" name="l01516"></a><span class="lineno"> 1516</span>    RT_CHECK_ERROR( rtVariableSet1ui( camera_ray_type_RTvariable, RAYTYPE_CAMERA ) );</div>
+<div class="line"><a id="l01517" name="l01517"></a><span class="lineno"> 1517</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;pixel_label_ray_type&quot;</span>, &amp;pixel_label_ray_type_RTvariable ) );</div>
+<div class="line"><a id="l01518" name="l01518"></a><span class="lineno"> 1518</span>    RT_CHECK_ERROR( rtVariableSet1ui( pixel_label_ray_type_RTvariable, RAYTYPE_PIXEL_LABEL ) );</div>
+<div class="line"><a id="l01519" name="l01519"></a><span class="lineno"> 1519</span> </div>
+<div class="line"><a id="l01520" name="l01520"></a><span class="lineno"> 1520</span>    <span class="comment">/* Ray Generation Program */</span></div>
+<div class="line"><a id="l01521" name="l01521"></a><span class="lineno"> 1521</span> </div>
+<div class="line"><a id="l01522" name="l01522"></a><span class="lineno"> 1522</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayGeneration.cu.ptx&quot;</span>, <span class="stringliteral">&quot;direct_raygen&quot;</span>, &amp;direct_raygen ) );</div>
+<div class="line"><a id="l01523" name="l01523"></a><span class="lineno"> 1523</span>    RT_CHECK_ERROR( rtContextSetRayGenerationProgram( OptiX_Context, RAYTYPE_DIRECT, direct_raygen ) );</div>
+<div class="line"><a id="l01524" name="l01524"></a><span class="lineno"> 1524</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayGeneration.cu.ptx&quot;</span>, <span class="stringliteral">&quot;diffuse_raygen&quot;</span>, &amp;diffuse_raygen ) );</div>
+<div class="line"><a id="l01525" name="l01525"></a><span class="lineno"> 1525</span>    RT_CHECK_ERROR( rtContextSetRayGenerationProgram( OptiX_Context, RAYTYPE_DIFFUSE, diffuse_raygen ) );</div>
+<div class="line"><a id="l01526" name="l01526"></a><span class="lineno"> 1526</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayGeneration.cu.ptx&quot;</span>, <span class="stringliteral">&quot;camera_raygen&quot;</span>, &amp;camera_raygen ) );</div>
+<div class="line"><a id="l01527" name="l01527"></a><span class="lineno"> 1527</span>    RT_CHECK_ERROR( rtContextSetRayGenerationProgram( OptiX_Context, RAYTYPE_CAMERA, camera_raygen ) );</div>
+<div class="line"><a id="l01528" name="l01528"></a><span class="lineno"> 1528</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayGeneration.cu.ptx&quot;</span>, <span class="stringliteral">&quot;pixel_label_raygen&quot;</span>, &amp;pixel_label_raygen ) );</div>
+<div class="line"><a id="l01529" name="l01529"></a><span class="lineno"> 1529</span>    RT_CHECK_ERROR( rtContextSetRayGenerationProgram( OptiX_Context, RAYTYPE_PIXEL_LABEL, pixel_label_raygen ) );</div>
+<div class="line"><a id="l01530" name="l01530"></a><span class="lineno"> 1530</span> </div>
+<div class="line"><a id="l01531" name="l01531"></a><span class="lineno"> 1531</span>    <span class="comment">/* Declare Buffers and Variables */</span></div>
+<div class="line"><a id="l01532" name="l01532"></a><span class="lineno"> 1532</span> </div>
+<div class="line"><a id="l01533" name="l01533"></a><span class="lineno"> 1533</span>    <span class="comment">//primitive reflectivity buffer</span></div>
+<div class="line"><a id="l01534" name="l01534"></a><span class="lineno"> 1534</span>    addBuffer( <span class="stringliteral">&quot;rho&quot;</span>, rho_RTbuffer, rho_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01535" name="l01535"></a><span class="lineno"> 1535</span>    <span class="comment">//primitive transmissivity buffer</span></div>
+<div class="line"><a id="l01536" name="l01536"></a><span class="lineno"> 1536</span>    addBuffer( <span class="stringliteral">&quot;tau&quot;</span>, tau_RTbuffer, tau_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
 <div class="line"><a id="l01537" name="l01537"></a><span class="lineno"> 1537</span> </div>
-<div class="line"><a id="l01538" name="l01538"></a><span class="lineno"> 1538</span>    <span class="comment">//primitive type buffer</span></div>
-<div class="line"><a id="l01539" name="l01539"></a><span class="lineno"> 1539</span>    addBuffer( <span class="stringliteral">&quot;primitive_type&quot;</span>, primitive_type_RTbuffer, primitive_type_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
-<div class="line"><a id="l01540" name="l01540"></a><span class="lineno"> 1540</span> </div>
-<div class="line"><a id="l01541" name="l01541"></a><span class="lineno"> 1541</span>    <span class="comment">//primitive area buffer</span></div>
-<div class="line"><a id="l01542" name="l01542"></a><span class="lineno"> 1542</span>    addBuffer( <span class="stringliteral">&quot;primitive_area&quot;</span>, primitive_area_RTbuffer, primitive_area_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01543" name="l01543"></a><span class="lineno"> 1543</span> </div>
-<div class="line"><a id="l01544" name="l01544"></a><span class="lineno"> 1544</span>    <span class="comment">//primitive UUID buffers</span></div>
-<div class="line"><a id="l01545" name="l01545"></a><span class="lineno"> 1545</span>    addBuffer( <span class="stringliteral">&quot;patch_UUID&quot;</span>, patch_UUID_RTbuffer, patch_UUID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
-<div class="line"><a id="l01546" name="l01546"></a><span class="lineno"> 1546</span>    addBuffer( <span class="stringliteral">&quot;triangle_UUID&quot;</span>, triangle_UUID_RTbuffer, triangle_UUID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
-<div class="line"><a id="l01547" name="l01547"></a><span class="lineno"> 1547</span>    addBuffer( <span class="stringliteral">&quot;disk_UUID&quot;</span>, disk_UUID_RTbuffer, disk_UUID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
-<div class="line"><a id="l01548" name="l01548"></a><span class="lineno"> 1548</span>    addBuffer( <span class="stringliteral">&quot;tile_UUID&quot;</span>, tile_UUID_RTbuffer, tile_UUID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
-<div class="line"><a id="l01549" name="l01549"></a><span class="lineno"> 1549</span>    addBuffer( <span class="stringliteral">&quot;voxel_UUID&quot;</span>, voxel_UUID_RTbuffer, voxel_UUID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
-<div class="line"><a id="l01550" name="l01550"></a><span class="lineno"> 1550</span> </div>
-<div class="line"><a id="l01551" name="l01551"></a><span class="lineno"> 1551</span>    <span class="comment">//Object ID Buffer</span></div>
-<div class="line"><a id="l01552" name="l01552"></a><span class="lineno"> 1552</span>    addBuffer( <span class="stringliteral">&quot;objectID&quot;</span>, objectID_RTbuffer, objectID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
-<div class="line"><a id="l01553" name="l01553"></a><span class="lineno"> 1553</span> </div>
-<div class="line"><a id="l01554" name="l01554"></a><span class="lineno"> 1554</span>    <span class="comment">//Primitive ID Buffer</span></div>
-<div class="line"><a id="l01555" name="l01555"></a><span class="lineno"> 1555</span>    addBuffer( <span class="stringliteral">&quot;primitiveID&quot;</span>, primitiveID_RTbuffer, primitiveID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
-<div class="line"><a id="l01556" name="l01556"></a><span class="lineno"> 1556</span> </div>
-<div class="line"><a id="l01557" name="l01557"></a><span class="lineno"> 1557</span>    <span class="comment">//primitive two-sided flag buffer</span></div>
-<div class="line"><a id="l01558" name="l01558"></a><span class="lineno"> 1558</span>    addBuffer( <span class="stringliteral">&quot;twosided_flag&quot;</span>, twosided_flag_RTbuffer, twosided_flag_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_BYTE, 1 );</div>
-<div class="line"><a id="l01559" name="l01559"></a><span class="lineno"> 1559</span> </div>
-<div class="line"><a id="l01560" name="l01560"></a><span class="lineno"> 1560</span>    <span class="comment">//patch buffers</span></div>
-<div class="line"><a id="l01561" name="l01561"></a><span class="lineno"> 1561</span>    addBuffer( <span class="stringliteral">&quot;patch_vertices&quot;</span>, patch_vertices_RTbuffer, patch_vertices_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 2 );</div>
-<div class="line"><a id="l01562" name="l01562"></a><span class="lineno"> 1562</span> </div>
-<div class="line"><a id="l01563" name="l01563"></a><span class="lineno"> 1563</span>    <span class="comment">//triangle buffers</span></div>
-<div class="line"><a id="l01564" name="l01564"></a><span class="lineno"> 1564</span>    addBuffer( <span class="stringliteral">&quot;triangle_vertices&quot;</span>, triangle_vertices_RTbuffer, triangle_vertices_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 2 );</div>
-<div class="line"><a id="l01565" name="l01565"></a><span class="lineno"> 1565</span> </div>
-<div class="line"><a id="l01566" name="l01566"></a><span class="lineno"> 1566</span>    <span class="comment">//disk buffers</span></div>
-<div class="line"><a id="l01567" name="l01567"></a><span class="lineno"> 1567</span>    addBuffer( <span class="stringliteral">&quot;disk_centers&quot;</span>, disk_centers_RTbuffer, disk_centers_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 1 );</div>
-<div class="line"><a id="l01568" name="l01568"></a><span class="lineno"> 1568</span>    addBuffer( <span class="stringliteral">&quot;disk_radii&quot;</span>, disk_radii_RTbuffer, disk_radii_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01569" name="l01569"></a><span class="lineno"> 1569</span>    addBuffer( <span class="stringliteral">&quot;disk_normals&quot;</span>, disk_normals_RTbuffer, disk_normals_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 1 );</div>
+<div class="line"><a id="l01538" name="l01538"></a><span class="lineno"> 1538</span>    <span class="comment">//primitive reflectivity buffer</span></div>
+<div class="line"><a id="l01539" name="l01539"></a><span class="lineno"> 1539</span>    addBuffer( <span class="stringliteral">&quot;rho_cam&quot;</span>, rho_cam_RTbuffer, rho_cam_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01540" name="l01540"></a><span class="lineno"> 1540</span>    <span class="comment">//primitive transmissivity buffer</span></div>
+<div class="line"><a id="l01541" name="l01541"></a><span class="lineno"> 1541</span>    addBuffer( <span class="stringliteral">&quot;tau_cam&quot;</span>, tau_cam_RTbuffer, tau_cam_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01542" name="l01542"></a><span class="lineno"> 1542</span> </div>
+<div class="line"><a id="l01543" name="l01543"></a><span class="lineno"> 1543</span>    <span class="comment">//primitive transformation matrix buffer</span></div>
+<div class="line"><a id="l01544" name="l01544"></a><span class="lineno"> 1544</span>    addBuffer( <span class="stringliteral">&quot;transform_matrix&quot;</span>, transform_matrix_RTbuffer, transform_matrix_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 2 );</div>
+<div class="line"><a id="l01545" name="l01545"></a><span class="lineno"> 1545</span> </div>
+<div class="line"><a id="l01546" name="l01546"></a><span class="lineno"> 1546</span>    <span class="comment">//primitive type buffer</span></div>
+<div class="line"><a id="l01547" name="l01547"></a><span class="lineno"> 1547</span>    addBuffer( <span class="stringliteral">&quot;primitive_type&quot;</span>, primitive_type_RTbuffer, primitive_type_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
+<div class="line"><a id="l01548" name="l01548"></a><span class="lineno"> 1548</span> </div>
+<div class="line"><a id="l01549" name="l01549"></a><span class="lineno"> 1549</span>    <span class="comment">//primitive area buffer</span></div>
+<div class="line"><a id="l01550" name="l01550"></a><span class="lineno"> 1550</span>    addBuffer( <span class="stringliteral">&quot;primitive_area&quot;</span>, primitive_area_RTbuffer, primitive_area_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01551" name="l01551"></a><span class="lineno"> 1551</span> </div>
+<div class="line"><a id="l01552" name="l01552"></a><span class="lineno"> 1552</span>    <span class="comment">//primitive UUID buffers</span></div>
+<div class="line"><a id="l01553" name="l01553"></a><span class="lineno"> 1553</span>    addBuffer( <span class="stringliteral">&quot;patch_UUID&quot;</span>, patch_UUID_RTbuffer, patch_UUID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
+<div class="line"><a id="l01554" name="l01554"></a><span class="lineno"> 1554</span>    addBuffer( <span class="stringliteral">&quot;triangle_UUID&quot;</span>, triangle_UUID_RTbuffer, triangle_UUID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
+<div class="line"><a id="l01555" name="l01555"></a><span class="lineno"> 1555</span>    addBuffer( <span class="stringliteral">&quot;disk_UUID&quot;</span>, disk_UUID_RTbuffer, disk_UUID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
+<div class="line"><a id="l01556" name="l01556"></a><span class="lineno"> 1556</span>    addBuffer( <span class="stringliteral">&quot;tile_UUID&quot;</span>, tile_UUID_RTbuffer, tile_UUID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
+<div class="line"><a id="l01557" name="l01557"></a><span class="lineno"> 1557</span>    addBuffer( <span class="stringliteral">&quot;voxel_UUID&quot;</span>, voxel_UUID_RTbuffer, voxel_UUID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
+<div class="line"><a id="l01558" name="l01558"></a><span class="lineno"> 1558</span> </div>
+<div class="line"><a id="l01559" name="l01559"></a><span class="lineno"> 1559</span>    <span class="comment">//Object ID Buffer</span></div>
+<div class="line"><a id="l01560" name="l01560"></a><span class="lineno"> 1560</span>    addBuffer( <span class="stringliteral">&quot;objectID&quot;</span>, objectID_RTbuffer, objectID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
+<div class="line"><a id="l01561" name="l01561"></a><span class="lineno"> 1561</span> </div>
+<div class="line"><a id="l01562" name="l01562"></a><span class="lineno"> 1562</span>    <span class="comment">//Primitive ID Buffer</span></div>
+<div class="line"><a id="l01563" name="l01563"></a><span class="lineno"> 1563</span>    addBuffer( <span class="stringliteral">&quot;primitiveID&quot;</span>, primitiveID_RTbuffer, primitiveID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
+<div class="line"><a id="l01564" name="l01564"></a><span class="lineno"> 1564</span> </div>
+<div class="line"><a id="l01565" name="l01565"></a><span class="lineno"> 1565</span>    <span class="comment">//primitive two-sided flag buffer</span></div>
+<div class="line"><a id="l01566" name="l01566"></a><span class="lineno"> 1566</span>    addBuffer( <span class="stringliteral">&quot;twosided_flag&quot;</span>, twosided_flag_RTbuffer, twosided_flag_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_BYTE, 1 );</div>
+<div class="line"><a id="l01567" name="l01567"></a><span class="lineno"> 1567</span> </div>
+<div class="line"><a id="l01568" name="l01568"></a><span class="lineno"> 1568</span>    <span class="comment">//patch buffers</span></div>
+<div class="line"><a id="l01569" name="l01569"></a><span class="lineno"> 1569</span>    addBuffer( <span class="stringliteral">&quot;patch_vertices&quot;</span>, patch_vertices_RTbuffer, patch_vertices_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 2 );</div>
 <div class="line"><a id="l01570" name="l01570"></a><span class="lineno"> 1570</span> </div>
-<div class="line"><a id="l01571" name="l01571"></a><span class="lineno"> 1571</span>    <span class="comment">//tile buffers</span></div>
-<div class="line"><a id="l01572" name="l01572"></a><span class="lineno"> 1572</span>    addBuffer( <span class="stringliteral">&quot;tile_vertices&quot;</span>, tile_vertices_RTbuffer, tile_vertices_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 2 );</div>
+<div class="line"><a id="l01571" name="l01571"></a><span class="lineno"> 1571</span>    <span class="comment">//triangle buffers</span></div>
+<div class="line"><a id="l01572" name="l01572"></a><span class="lineno"> 1572</span>    addBuffer( <span class="stringliteral">&quot;triangle_vertices&quot;</span>, triangle_vertices_RTbuffer, triangle_vertices_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 2 );</div>
 <div class="line"><a id="l01573" name="l01573"></a><span class="lineno"> 1573</span> </div>
-<div class="line"><a id="l01574" name="l01574"></a><span class="lineno"> 1574</span>    <span class="comment">//voxel buffers</span></div>
-<div class="line"><a id="l01575" name="l01575"></a><span class="lineno"> 1575</span>    addBuffer( <span class="stringliteral">&quot;voxel_vertices&quot;</span>, voxel_vertices_RTbuffer, voxel_vertices_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 2 );</div>
-<div class="line"><a id="l01576" name="l01576"></a><span class="lineno"> 1576</span> </div>
-<div class="line"><a id="l01577" name="l01577"></a><span class="lineno"> 1577</span>    <span class="comment">//object buffers</span></div>
-<div class="line"><a id="l01578" name="l01578"></a><span class="lineno"> 1578</span>    addBuffer( <span class="stringliteral">&quot;object_subdivisions&quot;</span>, object_subdivisions_RTbuffer, object_subdivisions_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_INT2, 1 );</div>
-<div class="line"><a id="l01579" name="l01579"></a><span class="lineno"> 1579</span> </div>
-<div class="line"><a id="l01580" name="l01580"></a><span class="lineno"> 1580</span>    <span class="comment">//radiation energy rate data buffers</span></div>
-<div class="line"><a id="l01581" name="l01581"></a><span class="lineno"> 1581</span>    <span class="comment">// - in - //</span></div>
-<div class="line"><a id="l01582" name="l01582"></a><span class="lineno"> 1582</span>    addBuffer( <span class="stringliteral">&quot;radiation_in&quot;</span>, radiation_in_RTbuffer, radiation_in_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01583" name="l01583"></a><span class="lineno"> 1583</span>    <span class="comment">// - out,top - //</span></div>
-<div class="line"><a id="l01584" name="l01584"></a><span class="lineno"> 1584</span>    addBuffer( <span class="stringliteral">&quot;radiation_out_top&quot;</span>, radiation_out_top_RTbuffer, radiation_out_top_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01585" name="l01585"></a><span class="lineno"> 1585</span>    <span class="comment">// - out,bottom - //</span></div>
-<div class="line"><a id="l01586" name="l01586"></a><span class="lineno"> 1586</span>    addBuffer( <span class="stringliteral">&quot;radiation_out_bottom&quot;</span>, radiation_out_bottom_RTbuffer, radiation_out_bottom_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01587" name="l01587"></a><span class="lineno"> 1587</span>    <span class="comment">// - camera - //</span></div>
-<div class="line"><a id="l01588" name="l01588"></a><span class="lineno"> 1588</span>    addBuffer( <span class="stringliteral">&quot;radiation_in_camera&quot;</span>, radiation_in_camera_RTbuffer, radiation_in_camera_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01589" name="l01589"></a><span class="lineno"> 1589</span>    addBuffer( <span class="stringliteral">&quot;camera_pixel_label&quot;</span>, camera_pixel_label_RTbuffer, camera_pixel_label_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
-<div class="line"><a id="l01590" name="l01590"></a><span class="lineno"> 1590</span>    addBuffer( <span class="stringliteral">&quot;camera_pixel_depth&quot;</span>, camera_pixel_depth_RTbuffer, camera_pixel_depth_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01591" name="l01591"></a><span class="lineno"> 1591</span> </div>
-<div class="line"><a id="l01592" name="l01592"></a><span class="lineno"> 1592</span>    <span class="comment">//primitive scattering buffers</span></div>
-<div class="line"><a id="l01593" name="l01593"></a><span class="lineno"> 1593</span>    <span class="comment">// - top - //</span></div>
-<div class="line"><a id="l01594" name="l01594"></a><span class="lineno"> 1594</span>    addBuffer( <span class="stringliteral">&quot;scatter_buff_top&quot;</span>, scatter_buff_top_RTbuffer, scatter_buff_top_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01595" name="l01595"></a><span class="lineno"> 1595</span>    <span class="comment">// - bottom - //</span></div>
-<div class="line"><a id="l01596" name="l01596"></a><span class="lineno"> 1596</span>    addBuffer( <span class="stringliteral">&quot;scatter_buff_bottom&quot;</span>, scatter_buff_bottom_RTbuffer, scatter_buff_bottom_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01597" name="l01597"></a><span class="lineno"> 1597</span> </div>
-<div class="line"><a id="l01598" name="l01598"></a><span class="lineno"> 1598</span>    <span class="comment">//Energy absorbed by &quot;sky&quot;</span></div>
-<div class="line"><a id="l01599" name="l01599"></a><span class="lineno"> 1599</span>    addBuffer( <span class="stringliteral">&quot;Rsky&quot;</span>, Rsky_RTbuffer, Rsky_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01600" name="l01600"></a><span class="lineno"> 1600</span> </div>
-<div class="line"><a id="l01601" name="l01601"></a><span class="lineno"> 1601</span>    <span class="comment">//number of external radiation sources</span></div>
-<div class="line"><a id="l01602" name="l01602"></a><span class="lineno"> 1602</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;Nsources&quot;</span>, &amp;Nsources_RTvariable ) );</div>
-<div class="line"><a id="l01603" name="l01603"></a><span class="lineno"> 1603</span>    RT_CHECK_ERROR( rtVariableSet1ui( Nsources_RTvariable,0 ) );</div>
-<div class="line"><a id="l01604" name="l01604"></a><span class="lineno"> 1604</span> </div>
-<div class="line"><a id="l01605" name="l01605"></a><span class="lineno"> 1605</span>    <span class="comment">//External radiation source positions</span></div>
-<div class="line"><a id="l01606" name="l01606"></a><span class="lineno"> 1606</span>    addBuffer( <span class="stringliteral">&quot;source_positions&quot;</span>, source_positions_RTbuffer, source_positions_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 1 );</div>
-<div class="line"><a id="l01607" name="l01607"></a><span class="lineno"> 1607</span> </div>
-<div class="line"><a id="l01608" name="l01608"></a><span class="lineno"> 1608</span>    <span class="comment">//External radiation source widths</span></div>
-<div class="line"><a id="l01609" name="l01609"></a><span class="lineno"> 1609</span>    addBuffer( <span class="stringliteral">&quot;source_widths&quot;</span>, source_widths_RTbuffer, source_widths_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT2, 1 );</div>
-<div class="line"><a id="l01610" name="l01610"></a><span class="lineno"> 1610</span> </div>
-<div class="line"><a id="l01611" name="l01611"></a><span class="lineno"> 1611</span>    <span class="comment">//External radiation source rotations</span></div>
-<div class="line"><a id="l01612" name="l01612"></a><span class="lineno"> 1612</span>    addBuffer( <span class="stringliteral">&quot;source_rotations&quot;</span>, source_rotations_RTbuffer, source_rotations_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 1 );</div>
-<div class="line"><a id="l01613" name="l01613"></a><span class="lineno"> 1613</span> </div>
-<div class="line"><a id="l01614" name="l01614"></a><span class="lineno"> 1614</span>    <span class="comment">//External radiation source types</span></div>
-<div class="line"><a id="l01615" name="l01615"></a><span class="lineno"> 1615</span>    addBuffer( <span class="stringliteral">&quot;source_types&quot;</span>, source_types_RTbuffer, source_types_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
-<div class="line"><a id="l01616" name="l01616"></a><span class="lineno"> 1616</span> </div>
-<div class="line"><a id="l01617" name="l01617"></a><span class="lineno"> 1617</span>    <span class="comment">//External radiation source fluxes</span></div>
-<div class="line"><a id="l01618" name="l01618"></a><span class="lineno"> 1618</span>    addBuffer( <span class="stringliteral">&quot;source_fluxes&quot;</span>, source_fluxes_RTbuffer, source_fluxes_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01619" name="l01619"></a><span class="lineno"> 1619</span> </div>
-<div class="line"><a id="l01620" name="l01620"></a><span class="lineno"> 1620</span>    <span class="comment">//number of radiation bands</span></div>
-<div class="line"><a id="l01621" name="l01621"></a><span class="lineno"> 1621</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;Nbands&quot;</span>, &amp;Nbands_RTvariable ) );</div>
-<div class="line"><a id="l01622" name="l01622"></a><span class="lineno"> 1622</span>    RT_CHECK_ERROR( rtVariableSet1ui( Nbands_RTvariable,0 ) );</div>
-<div class="line"><a id="l01623" name="l01623"></a><span class="lineno"> 1623</span> </div>
-<div class="line"><a id="l01624" name="l01624"></a><span class="lineno"> 1624</span>    <span class="comment">//flag to disable launches for certain bands</span></div>
-<div class="line"><a id="l01625" name="l01625"></a><span class="lineno"> 1625</span>    addBuffer( <span class="stringliteral">&quot;band_launch_flag&quot;</span>, band_launch_flag_RTbuffer, band_launch_flag_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_BYTE, 1 );</div>
-<div class="line"><a id="l01626" name="l01626"></a><span class="lineno"> 1626</span> </div>
-<div class="line"><a id="l01627" name="l01627"></a><span class="lineno"> 1627</span>    <span class="comment">//number of Context primitives</span></div>
-<div class="line"><a id="l01628" name="l01628"></a><span class="lineno"> 1628</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;Nprimitives&quot;</span>, &amp;Nprimitives_RTvariable ) );</div>
-<div class="line"><a id="l01629" name="l01629"></a><span class="lineno"> 1629</span>    RT_CHECK_ERROR( rtVariableSet1ui( Nprimitives_RTvariable,0 ) );</div>
-<div class="line"><a id="l01630" name="l01630"></a><span class="lineno"> 1630</span> </div>
-<div class="line"><a id="l01631" name="l01631"></a><span class="lineno"> 1631</span>    <span class="comment">//Flux of diffuse radiation</span></div>
-<div class="line"><a id="l01632" name="l01632"></a><span class="lineno"> 1632</span>    addBuffer( <span class="stringliteral">&quot;diffuse_flux&quot;</span>, diffuse_flux_RTbuffer, diffuse_flux_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01633" name="l01633"></a><span class="lineno"> 1633</span> </div>
-<div class="line"><a id="l01634" name="l01634"></a><span class="lineno"> 1634</span>    <span class="comment">//Diffuse distribution extinction coefficient of ambient diffuse radiation</span></div>
-<div class="line"><a id="l01635" name="l01635"></a><span class="lineno"> 1635</span>    addBuffer( <span class="stringliteral">&quot;diffuse_extinction&quot;</span>, diffuse_extinction_RTbuffer, diffuse_extinction_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01636" name="l01636"></a><span class="lineno"> 1636</span> </div>
-<div class="line"><a id="l01637" name="l01637"></a><span class="lineno"> 1637</span>    <span class="comment">//Direction of peak diffuse radiation</span></div>
-<div class="line"><a id="l01638" name="l01638"></a><span class="lineno"> 1638</span>    addBuffer( <span class="stringliteral">&quot;diffuse_peak_dir&quot;</span>, diffuse_peak_dir_RTbuffer, diffuse_peak_dir_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 1 );</div>
-<div class="line"><a id="l01639" name="l01639"></a><span class="lineno"> 1639</span> </div>
-<div class="line"><a id="l01640" name="l01640"></a><span class="lineno"> 1640</span>    <span class="comment">//Diffuse distribution normalization factor</span></div>
-<div class="line"><a id="l01641" name="l01641"></a><span class="lineno"> 1641</span>    addBuffer( <span class="stringliteral">&quot;diffuse_dist_norm&quot;</span>, diffuse_dist_norm_RTbuffer, diffuse_dist_norm_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01642" name="l01642"></a><span class="lineno"> 1642</span> </div>
-<div class="line"><a id="l01643" name="l01643"></a><span class="lineno"> 1643</span>    <span class="comment">//Bounding sphere radius and center</span></div>
-<div class="line"><a id="l01644" name="l01644"></a><span class="lineno"> 1644</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;bound_sphere_radius&quot;</span>, &amp;bound_sphere_radius_RTvariable ) );</div>
-<div class="line"><a id="l01645" name="l01645"></a><span class="lineno"> 1645</span>    RT_CHECK_ERROR( rtVariableSet1f( bound_sphere_radius_RTvariable, 0.f ));</div>
-<div class="line"><a id="l01646" name="l01646"></a><span class="lineno"> 1646</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;bound_sphere_center&quot;</span>, &amp;bound_sphere_center_RTvariable ) );</div>
-<div class="line"><a id="l01647" name="l01647"></a><span class="lineno"> 1647</span>    RT_CHECK_ERROR( rtVariableSet3f( bound_sphere_center_RTvariable, 0.f, 0.f, 0.f ));</div>
-<div class="line"><a id="l01648" name="l01648"></a><span class="lineno"> 1648</span> </div>
-<div class="line"><a id="l01649" name="l01649"></a><span class="lineno"> 1649</span>    <span class="comment">//Bounding Box</span></div>
-<div class="line"><a id="l01650" name="l01650"></a><span class="lineno"> 1650</span>    addBuffer( <span class="stringliteral">&quot;bbox_UUID&quot;</span>, bbox_UUID_RTbuffer, bbox_UUID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
-<div class="line"><a id="l01651" name="l01651"></a><span class="lineno"> 1651</span>    addBuffer( <span class="stringliteral">&quot;bbox_vertices&quot;</span>, bbox_vertices_RTbuffer, bbox_vertices_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 2 );</div>
-<div class="line"><a id="l01652" name="l01652"></a><span class="lineno"> 1652</span> </div>
-<div class="line"><a id="l01653" name="l01653"></a><span class="lineno"> 1653</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;periodic_flag&quot;</span>, &amp;periodic_flag_RTvariable ) );</div>
-<div class="line"><a id="l01654" name="l01654"></a><span class="lineno"> 1654</span>    RT_CHECK_ERROR( rtVariableSet2f( periodic_flag_RTvariable, 0.f, 0.f ));</div>
-<div class="line"><a id="l01655" name="l01655"></a><span class="lineno"> 1655</span> </div>
-<div class="line"><a id="l01656" name="l01656"></a><span class="lineno"> 1656</span>    <span class="comment">//Texture mask data</span></div>
-<div class="line"><a id="l01657" name="l01657"></a><span class="lineno"> 1657</span>    RT_CHECK_ERROR( rtBufferCreate( OptiX_Context, RT_BUFFER_INPUT, &amp;maskdata_RTbuffer ) );</div>
-<div class="line"><a id="l01658" name="l01658"></a><span class="lineno"> 1658</span>    RT_CHECK_ERROR( rtBufferSetFormat( maskdata_RTbuffer, RT_FORMAT_BYTE ) );</div>
-<div class="line"><a id="l01659" name="l01659"></a><span class="lineno"> 1659</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;maskdata&quot;</span>, &amp;maskdata_RTvariable ) );</div>
-<div class="line"><a id="l01660" name="l01660"></a><span class="lineno"> 1660</span>    RT_CHECK_ERROR( rtVariableSetObject( maskdata_RTvariable, maskdata_RTbuffer ) );</div>
-<div class="line"><a id="l01661" name="l01661"></a><span class="lineno"> 1661</span>    std::vector&lt;std::vector&lt;std::vector&lt;bool&gt; &gt; &gt; dummydata;</div>
-<div class="line"><a id="l01662" name="l01662"></a><span class="lineno"> 1662</span>    initializeBuffer3D( maskdata_RTbuffer, dummydata );</div>
+<div class="line"><a id="l01574" name="l01574"></a><span class="lineno"> 1574</span>    <span class="comment">//disk buffers</span></div>
+<div class="line"><a id="l01575" name="l01575"></a><span class="lineno"> 1575</span>    addBuffer( <span class="stringliteral">&quot;disk_centers&quot;</span>, disk_centers_RTbuffer, disk_centers_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 1 );</div>
+<div class="line"><a id="l01576" name="l01576"></a><span class="lineno"> 1576</span>    addBuffer( <span class="stringliteral">&quot;disk_radii&quot;</span>, disk_radii_RTbuffer, disk_radii_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01577" name="l01577"></a><span class="lineno"> 1577</span>    addBuffer( <span class="stringliteral">&quot;disk_normals&quot;</span>, disk_normals_RTbuffer, disk_normals_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 1 );</div>
+<div class="line"><a id="l01578" name="l01578"></a><span class="lineno"> 1578</span> </div>
+<div class="line"><a id="l01579" name="l01579"></a><span class="lineno"> 1579</span>    <span class="comment">//tile buffers</span></div>
+<div class="line"><a id="l01580" name="l01580"></a><span class="lineno"> 1580</span>    addBuffer( <span class="stringliteral">&quot;tile_vertices&quot;</span>, tile_vertices_RTbuffer, tile_vertices_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 2 );</div>
+<div class="line"><a id="l01581" name="l01581"></a><span class="lineno"> 1581</span> </div>
+<div class="line"><a id="l01582" name="l01582"></a><span class="lineno"> 1582</span>    <span class="comment">//voxel buffers</span></div>
+<div class="line"><a id="l01583" name="l01583"></a><span class="lineno"> 1583</span>    addBuffer( <span class="stringliteral">&quot;voxel_vertices&quot;</span>, voxel_vertices_RTbuffer, voxel_vertices_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 2 );</div>
+<div class="line"><a id="l01584" name="l01584"></a><span class="lineno"> 1584</span> </div>
+<div class="line"><a id="l01585" name="l01585"></a><span class="lineno"> 1585</span>    <span class="comment">//object buffers</span></div>
+<div class="line"><a id="l01586" name="l01586"></a><span class="lineno"> 1586</span>    addBuffer( <span class="stringliteral">&quot;object_subdivisions&quot;</span>, object_subdivisions_RTbuffer, object_subdivisions_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_INT2, 1 );</div>
+<div class="line"><a id="l01587" name="l01587"></a><span class="lineno"> 1587</span> </div>
+<div class="line"><a id="l01588" name="l01588"></a><span class="lineno"> 1588</span>    <span class="comment">//radiation energy rate data buffers</span></div>
+<div class="line"><a id="l01589" name="l01589"></a><span class="lineno"> 1589</span>    <span class="comment">// - in - //</span></div>
+<div class="line"><a id="l01590" name="l01590"></a><span class="lineno"> 1590</span>    addBuffer( <span class="stringliteral">&quot;radiation_in&quot;</span>, radiation_in_RTbuffer, radiation_in_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01591" name="l01591"></a><span class="lineno"> 1591</span>    <span class="comment">// - out,top - //</span></div>
+<div class="line"><a id="l01592" name="l01592"></a><span class="lineno"> 1592</span>    addBuffer( <span class="stringliteral">&quot;radiation_out_top&quot;</span>, radiation_out_top_RTbuffer, radiation_out_top_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01593" name="l01593"></a><span class="lineno"> 1593</span>    <span class="comment">// - out,bottom - //</span></div>
+<div class="line"><a id="l01594" name="l01594"></a><span class="lineno"> 1594</span>    addBuffer( <span class="stringliteral">&quot;radiation_out_bottom&quot;</span>, radiation_out_bottom_RTbuffer, radiation_out_bottom_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01595" name="l01595"></a><span class="lineno"> 1595</span>    <span class="comment">// - camera - //</span></div>
+<div class="line"><a id="l01596" name="l01596"></a><span class="lineno"> 1596</span>    addBuffer( <span class="stringliteral">&quot;radiation_in_camera&quot;</span>, radiation_in_camera_RTbuffer, radiation_in_camera_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01597" name="l01597"></a><span class="lineno"> 1597</span>    addBuffer( <span class="stringliteral">&quot;camera_pixel_label&quot;</span>, camera_pixel_label_RTbuffer, camera_pixel_label_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
+<div class="line"><a id="l01598" name="l01598"></a><span class="lineno"> 1598</span>    addBuffer( <span class="stringliteral">&quot;camera_pixel_depth&quot;</span>, camera_pixel_depth_RTbuffer, camera_pixel_depth_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01599" name="l01599"></a><span class="lineno"> 1599</span> </div>
+<div class="line"><a id="l01600" name="l01600"></a><span class="lineno"> 1600</span>    <span class="comment">//primitive scattering buffers</span></div>
+<div class="line"><a id="l01601" name="l01601"></a><span class="lineno"> 1601</span>    <span class="comment">// - top - //</span></div>
+<div class="line"><a id="l01602" name="l01602"></a><span class="lineno"> 1602</span>    addBuffer( <span class="stringliteral">&quot;scatter_buff_top&quot;</span>, scatter_buff_top_RTbuffer, scatter_buff_top_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01603" name="l01603"></a><span class="lineno"> 1603</span>    <span class="comment">// - bottom - //</span></div>
+<div class="line"><a id="l01604" name="l01604"></a><span class="lineno"> 1604</span>    addBuffer( <span class="stringliteral">&quot;scatter_buff_bottom&quot;</span>, scatter_buff_bottom_RTbuffer, scatter_buff_bottom_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01605" name="l01605"></a><span class="lineno"> 1605</span> </div>
+<div class="line"><a id="l01606" name="l01606"></a><span class="lineno"> 1606</span>    <span class="comment">//Energy absorbed by &quot;sky&quot;</span></div>
+<div class="line"><a id="l01607" name="l01607"></a><span class="lineno"> 1607</span>    addBuffer( <span class="stringliteral">&quot;Rsky&quot;</span>, Rsky_RTbuffer, Rsky_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01608" name="l01608"></a><span class="lineno"> 1608</span> </div>
+<div class="line"><a id="l01609" name="l01609"></a><span class="lineno"> 1609</span>    <span class="comment">//number of external radiation sources</span></div>
+<div class="line"><a id="l01610" name="l01610"></a><span class="lineno"> 1610</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;Nsources&quot;</span>, &amp;Nsources_RTvariable ) );</div>
+<div class="line"><a id="l01611" name="l01611"></a><span class="lineno"> 1611</span>    RT_CHECK_ERROR( rtVariableSet1ui( Nsources_RTvariable,0 ) );</div>
+<div class="line"><a id="l01612" name="l01612"></a><span class="lineno"> 1612</span> </div>
+<div class="line"><a id="l01613" name="l01613"></a><span class="lineno"> 1613</span>    <span class="comment">//External radiation source positions</span></div>
+<div class="line"><a id="l01614" name="l01614"></a><span class="lineno"> 1614</span>    addBuffer( <span class="stringliteral">&quot;source_positions&quot;</span>, source_positions_RTbuffer, source_positions_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 1 );</div>
+<div class="line"><a id="l01615" name="l01615"></a><span class="lineno"> 1615</span> </div>
+<div class="line"><a id="l01616" name="l01616"></a><span class="lineno"> 1616</span>    <span class="comment">//External radiation source widths</span></div>
+<div class="line"><a id="l01617" name="l01617"></a><span class="lineno"> 1617</span>    addBuffer( <span class="stringliteral">&quot;source_widths&quot;</span>, source_widths_RTbuffer, source_widths_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT2, 1 );</div>
+<div class="line"><a id="l01618" name="l01618"></a><span class="lineno"> 1618</span> </div>
+<div class="line"><a id="l01619" name="l01619"></a><span class="lineno"> 1619</span>    <span class="comment">//External radiation source rotations</span></div>
+<div class="line"><a id="l01620" name="l01620"></a><span class="lineno"> 1620</span>    addBuffer( <span class="stringliteral">&quot;source_rotations&quot;</span>, source_rotations_RTbuffer, source_rotations_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 1 );</div>
+<div class="line"><a id="l01621" name="l01621"></a><span class="lineno"> 1621</span> </div>
+<div class="line"><a id="l01622" name="l01622"></a><span class="lineno"> 1622</span>    <span class="comment">//External radiation source types</span></div>
+<div class="line"><a id="l01623" name="l01623"></a><span class="lineno"> 1623</span>    addBuffer( <span class="stringliteral">&quot;source_types&quot;</span>, source_types_RTbuffer, source_types_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
+<div class="line"><a id="l01624" name="l01624"></a><span class="lineno"> 1624</span> </div>
+<div class="line"><a id="l01625" name="l01625"></a><span class="lineno"> 1625</span>    <span class="comment">//External radiation source fluxes</span></div>
+<div class="line"><a id="l01626" name="l01626"></a><span class="lineno"> 1626</span>    addBuffer( <span class="stringliteral">&quot;source_fluxes&quot;</span>, source_fluxes_RTbuffer, source_fluxes_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01627" name="l01627"></a><span class="lineno"> 1627</span> </div>
+<div class="line"><a id="l01628" name="l01628"></a><span class="lineno"> 1628</span>    <span class="comment">//number of radiation bands</span></div>
+<div class="line"><a id="l01629" name="l01629"></a><span class="lineno"> 1629</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;Nbands&quot;</span>, &amp;Nbands_RTvariable ) );</div>
+<div class="line"><a id="l01630" name="l01630"></a><span class="lineno"> 1630</span>    RT_CHECK_ERROR( rtVariableSet1ui( Nbands_RTvariable,0 ) );</div>
+<div class="line"><a id="l01631" name="l01631"></a><span class="lineno"> 1631</span> </div>
+<div class="line"><a id="l01632" name="l01632"></a><span class="lineno"> 1632</span>    <span class="comment">//flag to disable launches for certain bands</span></div>
+<div class="line"><a id="l01633" name="l01633"></a><span class="lineno"> 1633</span>    addBuffer( <span class="stringliteral">&quot;band_launch_flag&quot;</span>, band_launch_flag_RTbuffer, band_launch_flag_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_BYTE, 1 );</div>
+<div class="line"><a id="l01634" name="l01634"></a><span class="lineno"> 1634</span> </div>
+<div class="line"><a id="l01635" name="l01635"></a><span class="lineno"> 1635</span>    <span class="comment">//number of Context primitives</span></div>
+<div class="line"><a id="l01636" name="l01636"></a><span class="lineno"> 1636</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;Nprimitives&quot;</span>, &amp;Nprimitives_RTvariable ) );</div>
+<div class="line"><a id="l01637" name="l01637"></a><span class="lineno"> 1637</span>    RT_CHECK_ERROR( rtVariableSet1ui( Nprimitives_RTvariable,0 ) );</div>
+<div class="line"><a id="l01638" name="l01638"></a><span class="lineno"> 1638</span> </div>
+<div class="line"><a id="l01639" name="l01639"></a><span class="lineno"> 1639</span>    <span class="comment">//Flux of diffuse radiation</span></div>
+<div class="line"><a id="l01640" name="l01640"></a><span class="lineno"> 1640</span>    addBuffer( <span class="stringliteral">&quot;diffuse_flux&quot;</span>, diffuse_flux_RTbuffer, diffuse_flux_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01641" name="l01641"></a><span class="lineno"> 1641</span> </div>
+<div class="line"><a id="l01642" name="l01642"></a><span class="lineno"> 1642</span>    <span class="comment">//Diffuse distribution extinction coefficient of ambient diffuse radiation</span></div>
+<div class="line"><a id="l01643" name="l01643"></a><span class="lineno"> 1643</span>    addBuffer( <span class="stringliteral">&quot;diffuse_extinction&quot;</span>, diffuse_extinction_RTbuffer, diffuse_extinction_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01644" name="l01644"></a><span class="lineno"> 1644</span> </div>
+<div class="line"><a id="l01645" name="l01645"></a><span class="lineno"> 1645</span>    <span class="comment">//Direction of peak diffuse radiation</span></div>
+<div class="line"><a id="l01646" name="l01646"></a><span class="lineno"> 1646</span>    addBuffer( <span class="stringliteral">&quot;diffuse_peak_dir&quot;</span>, diffuse_peak_dir_RTbuffer, diffuse_peak_dir_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 1 );</div>
+<div class="line"><a id="l01647" name="l01647"></a><span class="lineno"> 1647</span> </div>
+<div class="line"><a id="l01648" name="l01648"></a><span class="lineno"> 1648</span>    <span class="comment">//Diffuse distribution normalization factor</span></div>
+<div class="line"><a id="l01649" name="l01649"></a><span class="lineno"> 1649</span>    addBuffer( <span class="stringliteral">&quot;diffuse_dist_norm&quot;</span>, diffuse_dist_norm_RTbuffer, diffuse_dist_norm_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01650" name="l01650"></a><span class="lineno"> 1650</span> </div>
+<div class="line"><a id="l01651" name="l01651"></a><span class="lineno"> 1651</span>    <span class="comment">//Bounding sphere radius and center</span></div>
+<div class="line"><a id="l01652" name="l01652"></a><span class="lineno"> 1652</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;bound_sphere_radius&quot;</span>, &amp;bound_sphere_radius_RTvariable ) );</div>
+<div class="line"><a id="l01653" name="l01653"></a><span class="lineno"> 1653</span>    RT_CHECK_ERROR( rtVariableSet1f( bound_sphere_radius_RTvariable, 0.f ));</div>
+<div class="line"><a id="l01654" name="l01654"></a><span class="lineno"> 1654</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;bound_sphere_center&quot;</span>, &amp;bound_sphere_center_RTvariable ) );</div>
+<div class="line"><a id="l01655" name="l01655"></a><span class="lineno"> 1655</span>    RT_CHECK_ERROR( rtVariableSet3f( bound_sphere_center_RTvariable, 0.f, 0.f, 0.f ));</div>
+<div class="line"><a id="l01656" name="l01656"></a><span class="lineno"> 1656</span> </div>
+<div class="line"><a id="l01657" name="l01657"></a><span class="lineno"> 1657</span>    <span class="comment">//Bounding Box</span></div>
+<div class="line"><a id="l01658" name="l01658"></a><span class="lineno"> 1658</span>    addBuffer( <span class="stringliteral">&quot;bbox_UUID&quot;</span>, bbox_UUID_RTbuffer, bbox_UUID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_UNSIGNED_INT, 1 );</div>
+<div class="line"><a id="l01659" name="l01659"></a><span class="lineno"> 1659</span>    addBuffer( <span class="stringliteral">&quot;bbox_vertices&quot;</span>, bbox_vertices_RTbuffer, bbox_vertices_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT3, 2 );</div>
+<div class="line"><a id="l01660" name="l01660"></a><span class="lineno"> 1660</span> </div>
+<div class="line"><a id="l01661" name="l01661"></a><span class="lineno"> 1661</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;periodic_flag&quot;</span>, &amp;periodic_flag_RTvariable ) );</div>
+<div class="line"><a id="l01662" name="l01662"></a><span class="lineno"> 1662</span>    RT_CHECK_ERROR( rtVariableSet2f( periodic_flag_RTvariable, 0.f, 0.f ));</div>
 <div class="line"><a id="l01663" name="l01663"></a><span class="lineno"> 1663</span> </div>
-<div class="line"><a id="l01664" name="l01664"></a><span class="lineno"> 1664</span>    <span class="comment">//Texture mask size</span></div>
-<div class="line"><a id="l01665" name="l01665"></a><span class="lineno"> 1665</span>    addBuffer( <span class="stringliteral">&quot;masksize&quot;</span>, masksize_RTbuffer, masksize_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_INT2, 1 );</div>
-<div class="line"><a id="l01666" name="l01666"></a><span class="lineno"> 1666</span> </div>
-<div class="line"><a id="l01667" name="l01667"></a><span class="lineno"> 1667</span>    <span class="comment">//Texture mask ID</span></div>
-<div class="line"><a id="l01668" name="l01668"></a><span class="lineno"> 1668</span>    addBuffer( <span class="stringliteral">&quot;maskID&quot;</span>, maskID_RTbuffer, maskID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_INT, 1 );</div>
-<div class="line"><a id="l01669" name="l01669"></a><span class="lineno"> 1669</span> </div>
-<div class="line"><a id="l01670" name="l01670"></a><span class="lineno"> 1670</span>    <span class="comment">//Texture u,v data</span></div>
-<div class="line"><a id="l01671" name="l01671"></a><span class="lineno"> 1671</span>    addBuffer( <span class="stringliteral">&quot;uvdata&quot;</span>, uvdata_RTbuffer, uvdata_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT2, 2 );</div>
-<div class="line"><a id="l01672" name="l01672"></a><span class="lineno"> 1672</span> </div>
-<div class="line"><a id="l01673" name="l01673"></a><span class="lineno"> 1673</span>    <span class="comment">//Texture u,v ID</span></div>
-<div class="line"><a id="l01674" name="l01674"></a><span class="lineno"> 1674</span>    addBuffer( <span class="stringliteral">&quot;uvID&quot;</span>, uvID_RTbuffer, uvID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_INT, 1 );</div>
-<div class="line"><a id="l01675" name="l01675"></a><span class="lineno"> 1675</span> </div>
-<div class="line"><a id="l01676" name="l01676"></a><span class="lineno"> 1676</span>    <span class="comment">// Radiation Camera Variables</span></div>
-<div class="line"><a id="l01677" name="l01677"></a><span class="lineno"> 1677</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;camera_position&quot;</span>, &amp;camera_position_RTvariable ) );</div>
-<div class="line"><a id="l01678" name="l01678"></a><span class="lineno"> 1678</span>    RT_CHECK_ERROR( rtVariableSet3f( camera_position_RTvariable, 0.f, 0.f, 0.f ));</div>
-<div class="line"><a id="l01679" name="l01679"></a><span class="lineno"> 1679</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;camera_direction&quot;</span>, &amp;camera_direction_RTvariable ) );</div>
-<div class="line"><a id="l01680" name="l01680"></a><span class="lineno"> 1680</span>    RT_CHECK_ERROR( rtVariableSet2f( camera_direction_RTvariable, 0.f, 0.f ));</div>
-<div class="line"><a id="l01681" name="l01681"></a><span class="lineno"> 1681</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;camera_lens_diameter&quot;</span>, &amp;camera_lens_diameter_RTvariable ) );</div>
-<div class="line"><a id="l01682" name="l01682"></a><span class="lineno"> 1682</span>    RT_CHECK_ERROR( rtVariableSet1f( camera_lens_diameter_RTvariable, 0.f ));</div>
-<div class="line"><a id="l01683" name="l01683"></a><span class="lineno"> 1683</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;FOV_aspect_ratio&quot;</span>, &amp;FOV_aspect_RTvariable ) );</div>
-<div class="line"><a id="l01684" name="l01684"></a><span class="lineno"> 1684</span>    RT_CHECK_ERROR( rtVariableSet1f( FOV_aspect_RTvariable, 1.f ));</div>
-<div class="line"><a id="l01685" name="l01685"></a><span class="lineno"> 1685</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;camera_focal_length&quot;</span>, &amp;camera_focal_length_RTvariable ) );</div>
-<div class="line"><a id="l01686" name="l01686"></a><span class="lineno"> 1686</span>    RT_CHECK_ERROR( rtVariableSet1f( camera_focal_length_RTvariable, 0.f ));</div>
-<div class="line"><a id="l01687" name="l01687"></a><span class="lineno"> 1687</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;camera_viewplane_length&quot;</span>, &amp;camera_viewplane_length_RTvariable ) );</div>
-<div class="line"><a id="l01688" name="l01688"></a><span class="lineno"> 1688</span>    RT_CHECK_ERROR( rtVariableSet1f( camera_viewplane_length_RTvariable, 0.f ));</div>
-<div class="line"><a id="l01689" name="l01689"></a><span class="lineno"> 1689</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;Ncameras&quot;</span>, &amp;Ncameras_RTvariable ) );</div>
-<div class="line"><a id="l01690" name="l01690"></a><span class="lineno"> 1690</span>    RT_CHECK_ERROR( rtVariableSet1ui( Ncameras_RTvariable, 0 ));</div>
-<div class="line"><a id="l01691" name="l01691"></a><span class="lineno"> 1691</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;camera_ID&quot;</span>, &amp;camera_ID_RTvariable ) );</div>
-<div class="line"><a id="l01692" name="l01692"></a><span class="lineno"> 1692</span>    RT_CHECK_ERROR( rtVariableSet1ui( camera_ID_RTvariable, 0 ));</div>
-<div class="line"><a id="l01693" name="l01693"></a><span class="lineno"> 1693</span> </div>
-<div class="line"><a id="l01694" name="l01694"></a><span class="lineno"> 1694</span>    <span class="comment">// primitive scattering buffers (cameras)</span></div>
-<div class="line"><a id="l01695" name="l01695"></a><span class="lineno"> 1695</span>    addBuffer( <span class="stringliteral">&quot;scatter_buff_top_cam&quot;</span>, scatter_buff_top_cam_RTbuffer, scatter_buff_top_cam_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01696" name="l01696"></a><span class="lineno"> 1696</span>    addBuffer( <span class="stringliteral">&quot;scatter_buff_bottom_cam&quot;</span>, scatter_buff_bottom_cam_RTbuffer, scatter_buff_bottom_cam_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
-<div class="line"><a id="l01697" name="l01697"></a><span class="lineno"> 1697</span> </div>
-<div class="line"><a id="l01698" name="l01698"></a><span class="lineno"> 1698</span>    <span class="comment">/* Hit Programs */</span></div>
-<div class="line"><a id="l01699" name="l01699"></a><span class="lineno"> 1699</span>    RTprogram closest_hit_direct;</div>
-<div class="line"><a id="l01700" name="l01700"></a><span class="lineno"> 1700</span>    RTprogram closest_hit_diffuse;</div>
-<div class="line"><a id="l01701" name="l01701"></a><span class="lineno"> 1701</span>    RTprogram closest_hit_camera;</div>
-<div class="line"><a id="l01702" name="l01702"></a><span class="lineno"> 1702</span>    RTprogram closest_hit_pixel_label;</div>
-<div class="line"><a id="l01703" name="l01703"></a><span class="lineno"> 1703</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;closest_hit_direct&quot;</span>, &amp;closest_hit_direct ) );</div>
-<div class="line"><a id="l01704" name="l01704"></a><span class="lineno"> 1704</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;closest_hit_diffuse&quot;</span>, &amp;closest_hit_diffuse ) );</div>
-<div class="line"><a id="l01705" name="l01705"></a><span class="lineno"> 1705</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;closest_hit_camera&quot;</span>, &amp;closest_hit_camera ) );</div>
-<div class="line"><a id="l01706" name="l01706"></a><span class="lineno"> 1706</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;closest_hit_pixel_label&quot;</span>, &amp;closest_hit_pixel_label ) );</div>
-<div class="line"><a id="l01707" name="l01707"></a><span class="lineno"> 1707</span> </div>
-<div class="line"><a id="l01708" name="l01708"></a><span class="lineno"> 1708</span>    <span class="comment">/* Initialize Patch Geometry */</span></div>
-<div class="line"><a id="l01709" name="l01709"></a><span class="lineno"> 1709</span> </div>
-<div class="line"><a id="l01710" name="l01710"></a><span class="lineno"> 1710</span>    RTprogram  patch_intersection_program;</div>
-<div class="line"><a id="l01711" name="l01711"></a><span class="lineno"> 1711</span>    RTprogram  patch_bounding_box_program;</div>
-<div class="line"><a id="l01712" name="l01712"></a><span class="lineno"> 1712</span> </div>
-<div class="line"><a id="l01713" name="l01713"></a><span class="lineno"> 1713</span>    RT_CHECK_ERROR( rtGeometryCreate( OptiX_Context, &amp;patch ) );</div>
-<div class="line"><a id="l01714" name="l01714"></a><span class="lineno"> 1714</span> </div>
-<div class="line"><a id="l01715" name="l01715"></a><span class="lineno"> 1715</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;rectangle_bounds&quot;</span>, &amp;patch_bounding_box_program ) );</div>
-<div class="line"><a id="l01716" name="l01716"></a><span class="lineno"> 1716</span>    RT_CHECK_ERROR( rtGeometrySetBoundingBoxProgram( patch, patch_bounding_box_program ) );</div>
-<div class="line"><a id="l01717" name="l01717"></a><span class="lineno"> 1717</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;rectangle_intersect&quot;</span>, &amp;patch_intersection_program ) );</div>
-<div class="line"><a id="l01718" name="l01718"></a><span class="lineno"> 1718</span>    RT_CHECK_ERROR( rtGeometrySetIntersectionProgram( patch, patch_intersection_program ) );</div>
-<div class="line"><a id="l01719" name="l01719"></a><span class="lineno"> 1719</span> </div>
-<div class="line"><a id="l01720" name="l01720"></a><span class="lineno"> 1720</span>    <span class="comment">/* Create Patch Material */</span></div>
-<div class="line"><a id="l01721" name="l01721"></a><span class="lineno"> 1721</span> </div>
-<div class="line"><a id="l01722" name="l01722"></a><span class="lineno"> 1722</span>    RT_CHECK_ERROR( rtMaterialCreate( OptiX_Context, &amp;patch_material ) );</div>
-<div class="line"><a id="l01723" name="l01723"></a><span class="lineno"> 1723</span> </div>
-<div class="line"><a id="l01724" name="l01724"></a><span class="lineno"> 1724</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( patch_material, RAYTYPE_DIRECT, closest_hit_direct ) );</div>
-<div class="line"><a id="l01725" name="l01725"></a><span class="lineno"> 1725</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( patch_material, RAYTYPE_DIFFUSE, closest_hit_diffuse ) );</div>
-<div class="line"><a id="l01726" name="l01726"></a><span class="lineno"> 1726</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( patch_material, RAYTYPE_CAMERA, closest_hit_camera ) );</div>
-<div class="line"><a id="l01727" name="l01727"></a><span class="lineno"> 1727</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( patch_material, RAYTYPE_PIXEL_LABEL, closest_hit_pixel_label ) );</div>
-<div class="line"><a id="l01728" name="l01728"></a><span class="lineno"> 1728</span> </div>
-<div class="line"><a id="l01729" name="l01729"></a><span class="lineno"> 1729</span>    <span class="comment">/* Initialize Triangle Geometry */</span></div>
-<div class="line"><a id="l01730" name="l01730"></a><span class="lineno"> 1730</span> </div>
-<div class="line"><a id="l01731" name="l01731"></a><span class="lineno"> 1731</span>    RTprogram  triangle_intersection_program;</div>
-<div class="line"><a id="l01732" name="l01732"></a><span class="lineno"> 1732</span>    RTprogram  triangle_bounding_box_program;</div>
-<div class="line"><a id="l01733" name="l01733"></a><span class="lineno"> 1733</span> </div>
-<div class="line"><a id="l01734" name="l01734"></a><span class="lineno"> 1734</span>    RT_CHECK_ERROR( rtGeometryCreate( OptiX_Context, &amp;triangle ) );</div>
-<div class="line"><a id="l01735" name="l01735"></a><span class="lineno"> 1735</span> </div>
-<div class="line"><a id="l01736" name="l01736"></a><span class="lineno"> 1736</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;triangle_bounds&quot;</span>, &amp;triangle_bounding_box_program ) );</div>
-<div class="line"><a id="l01737" name="l01737"></a><span class="lineno"> 1737</span>    RT_CHECK_ERROR( rtGeometrySetBoundingBoxProgram( triangle, triangle_bounding_box_program ) );</div>
-<div class="line"><a id="l01738" name="l01738"></a><span class="lineno"> 1738</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;triangle_intersect&quot;</span>, &amp;triangle_intersection_program ) );</div>
-<div class="line"><a id="l01739" name="l01739"></a><span class="lineno"> 1739</span>    RT_CHECK_ERROR( rtGeometrySetIntersectionProgram( triangle, triangle_intersection_program ) );</div>
-<div class="line"><a id="l01740" name="l01740"></a><span class="lineno"> 1740</span> </div>
-<div class="line"><a id="l01741" name="l01741"></a><span class="lineno"> 1741</span>    <span class="comment">/* Create Triangle Material */</span></div>
-<div class="line"><a id="l01742" name="l01742"></a><span class="lineno"> 1742</span> </div>
-<div class="line"><a id="l01743" name="l01743"></a><span class="lineno"> 1743</span>    RT_CHECK_ERROR( rtMaterialCreate( OptiX_Context, &amp;triangle_material ) );</div>
-<div class="line"><a id="l01744" name="l01744"></a><span class="lineno"> 1744</span> </div>
-<div class="line"><a id="l01745" name="l01745"></a><span class="lineno"> 1745</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( triangle_material, RAYTYPE_DIRECT, closest_hit_direct ) );</div>
-<div class="line"><a id="l01746" name="l01746"></a><span class="lineno"> 1746</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( triangle_material, RAYTYPE_DIFFUSE, closest_hit_diffuse ) );</div>
-<div class="line"><a id="l01747" name="l01747"></a><span class="lineno"> 1747</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( triangle_material, RAYTYPE_CAMERA, closest_hit_camera ) );</div>
-<div class="line"><a id="l01748" name="l01748"></a><span class="lineno"> 1748</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( triangle_material, RAYTYPE_PIXEL_LABEL, closest_hit_pixel_label ) );</div>
-<div class="line"><a id="l01749" name="l01749"></a><span class="lineno"> 1749</span> </div>
-<div class="line"><a id="l01750" name="l01750"></a><span class="lineno"> 1750</span>    <span class="comment">/* Initialize Disk Geometry */</span></div>
-<div class="line"><a id="l01751" name="l01751"></a><span class="lineno"> 1751</span> </div>
-<div class="line"><a id="l01752" name="l01752"></a><span class="lineno"> 1752</span>    RTprogram  disk_intersection_program;</div>
-<div class="line"><a id="l01753" name="l01753"></a><span class="lineno"> 1753</span>    RTprogram  disk_bounding_box_program;</div>
-<div class="line"><a id="l01754" name="l01754"></a><span class="lineno"> 1754</span> </div>
-<div class="line"><a id="l01755" name="l01755"></a><span class="lineno"> 1755</span>    RT_CHECK_ERROR( rtGeometryCreate( OptiX_Context, &amp;disk ) );</div>
-<div class="line"><a id="l01756" name="l01756"></a><span class="lineno"> 1756</span> </div>
-<div class="line"><a id="l01757" name="l01757"></a><span class="lineno"> 1757</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;disk_bounds&quot;</span>, &amp;disk_bounding_box_program ) );</div>
-<div class="line"><a id="l01758" name="l01758"></a><span class="lineno"> 1758</span>    RT_CHECK_ERROR( rtGeometrySetBoundingBoxProgram( disk, disk_bounding_box_program ) );</div>
-<div class="line"><a id="l01759" name="l01759"></a><span class="lineno"> 1759</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;disk_intersect&quot;</span>, &amp;disk_intersection_program ) );</div>
-<div class="line"><a id="l01760" name="l01760"></a><span class="lineno"> 1760</span>    RT_CHECK_ERROR( rtGeometrySetIntersectionProgram( disk, disk_intersection_program ) );</div>
-<div class="line"><a id="l01761" name="l01761"></a><span class="lineno"> 1761</span> </div>
-<div class="line"><a id="l01762" name="l01762"></a><span class="lineno"> 1762</span>    <span class="comment">/* Create Disk Material */</span></div>
-<div class="line"><a id="l01763" name="l01763"></a><span class="lineno"> 1763</span> </div>
-<div class="line"><a id="l01764" name="l01764"></a><span class="lineno"> 1764</span>    RT_CHECK_ERROR( rtMaterialCreate( OptiX_Context, &amp;disk_material ) );</div>
-<div class="line"><a id="l01765" name="l01765"></a><span class="lineno"> 1765</span> </div>
-<div class="line"><a id="l01766" name="l01766"></a><span class="lineno"> 1766</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( disk_material, RAYTYPE_DIRECT, closest_hit_direct ) );</div>
-<div class="line"><a id="l01767" name="l01767"></a><span class="lineno"> 1767</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( disk_material, RAYTYPE_DIFFUSE, closest_hit_diffuse ) );</div>
-<div class="line"><a id="l01768" name="l01768"></a><span class="lineno"> 1768</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( disk_material, RAYTYPE_CAMERA, closest_hit_camera ) );</div>
-<div class="line"><a id="l01769" name="l01769"></a><span class="lineno"> 1769</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( disk_material, RAYTYPE_PIXEL_LABEL, closest_hit_pixel_label ) );</div>
-<div class="line"><a id="l01770" name="l01770"></a><span class="lineno"> 1770</span> </div>
-<div class="line"><a id="l01771" name="l01771"></a><span class="lineno"> 1771</span>    <span class="comment">/* Initialize Tile Geometry */</span></div>
-<div class="line"><a id="l01772" name="l01772"></a><span class="lineno"> 1772</span> </div>
-<div class="line"><a id="l01773" name="l01773"></a><span class="lineno"> 1773</span>    RTprogram  tile_intersection_program;</div>
-<div class="line"><a id="l01774" name="l01774"></a><span class="lineno"> 1774</span>    RTprogram  tile_bounding_box_program;</div>
-<div class="line"><a id="l01775" name="l01775"></a><span class="lineno"> 1775</span> </div>
-<div class="line"><a id="l01776" name="l01776"></a><span class="lineno"> 1776</span>    RT_CHECK_ERROR( rtGeometryCreate( OptiX_Context, &amp;tile ) );</div>
-<div class="line"><a id="l01777" name="l01777"></a><span class="lineno"> 1777</span> </div>
-<div class="line"><a id="l01778" name="l01778"></a><span class="lineno"> 1778</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;tile_bounds&quot;</span>, &amp;tile_bounding_box_program ) );</div>
-<div class="line"><a id="l01779" name="l01779"></a><span class="lineno"> 1779</span>    RT_CHECK_ERROR( rtGeometrySetBoundingBoxProgram( tile, tile_bounding_box_program ) );</div>
-<div class="line"><a id="l01780" name="l01780"></a><span class="lineno"> 1780</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;tile_intersect&quot;</span>, &amp;tile_intersection_program ) );</div>
-<div class="line"><a id="l01781" name="l01781"></a><span class="lineno"> 1781</span>    RT_CHECK_ERROR( rtGeometrySetIntersectionProgram( tile, tile_intersection_program ) );</div>
-<div class="line"><a id="l01782" name="l01782"></a><span class="lineno"> 1782</span> </div>
-<div class="line"><a id="l01783" name="l01783"></a><span class="lineno"> 1783</span>    <span class="comment">/* Create Tile Material */</span></div>
-<div class="line"><a id="l01784" name="l01784"></a><span class="lineno"> 1784</span> </div>
-<div class="line"><a id="l01785" name="l01785"></a><span class="lineno"> 1785</span>    RT_CHECK_ERROR( rtMaterialCreate( OptiX_Context, &amp;tile_material ) );</div>
-<div class="line"><a id="l01786" name="l01786"></a><span class="lineno"> 1786</span> </div>
-<div class="line"><a id="l01787" name="l01787"></a><span class="lineno"> 1787</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( tile_material, RAYTYPE_DIRECT, closest_hit_direct ) );</div>
-<div class="line"><a id="l01788" name="l01788"></a><span class="lineno"> 1788</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( tile_material, RAYTYPE_DIFFUSE, closest_hit_diffuse ) );</div>
-<div class="line"><a id="l01789" name="l01789"></a><span class="lineno"> 1789</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( tile_material, RAYTYPE_CAMERA, closest_hit_camera) );</div>
-<div class="line"><a id="l01790" name="l01790"></a><span class="lineno"> 1790</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( tile_material, RAYTYPE_PIXEL_LABEL, closest_hit_pixel_label ) );</div>
-<div class="line"><a id="l01791" name="l01791"></a><span class="lineno"> 1791</span> </div>
-<div class="line"><a id="l01792" name="l01792"></a><span class="lineno"> 1792</span>    <span class="comment">/* Initialize Voxel Geometry */</span></div>
-<div class="line"><a id="l01793" name="l01793"></a><span class="lineno"> 1793</span> </div>
-<div class="line"><a id="l01794" name="l01794"></a><span class="lineno"> 1794</span>    RTprogram  voxel_intersection_program;</div>
-<div class="line"><a id="l01795" name="l01795"></a><span class="lineno"> 1795</span>    RTprogram  voxel_bounding_box_program;</div>
-<div class="line"><a id="l01796" name="l01796"></a><span class="lineno"> 1796</span> </div>
-<div class="line"><a id="l01797" name="l01797"></a><span class="lineno"> 1797</span>    RT_CHECK_ERROR( rtGeometryCreate( OptiX_Context, &amp;voxel ) );</div>
-<div class="line"><a id="l01798" name="l01798"></a><span class="lineno"> 1798</span> </div>
-<div class="line"><a id="l01799" name="l01799"></a><span class="lineno"> 1799</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;voxel_bounds&quot;</span>, &amp;voxel_bounding_box_program ) );</div>
-<div class="line"><a id="l01800" name="l01800"></a><span class="lineno"> 1800</span>    RT_CHECK_ERROR( rtGeometrySetBoundingBoxProgram( voxel, voxel_bounding_box_program ) );</div>
-<div class="line"><a id="l01801" name="l01801"></a><span class="lineno"> 1801</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;voxel_intersect&quot;</span>, &amp;voxel_intersection_program ) );</div>
-<div class="line"><a id="l01802" name="l01802"></a><span class="lineno"> 1802</span>    RT_CHECK_ERROR( rtGeometrySetIntersectionProgram( voxel, voxel_intersection_program ) );</div>
-<div class="line"><a id="l01803" name="l01803"></a><span class="lineno"> 1803</span> </div>
-<div class="line"><a id="l01804" name="l01804"></a><span class="lineno"> 1804</span>    <span class="comment">/* Create Voxel Material */</span></div>
-<div class="line"><a id="l01805" name="l01805"></a><span class="lineno"> 1805</span> </div>
-<div class="line"><a id="l01806" name="l01806"></a><span class="lineno"> 1806</span>    RT_CHECK_ERROR( rtMaterialCreate( OptiX_Context, &amp;voxel_material ) );</div>
-<div class="line"><a id="l01807" name="l01807"></a><span class="lineno"> 1807</span> </div>
-<div class="line"><a id="l01808" name="l01808"></a><span class="lineno"> 1808</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( voxel_material, RAYTYPE_DIRECT, closest_hit_direct ) );</div>
-<div class="line"><a id="l01809" name="l01809"></a><span class="lineno"> 1809</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( voxel_material, RAYTYPE_DIFFUSE, closest_hit_diffuse ) );</div>
-<div class="line"><a id="l01810" name="l01810"></a><span class="lineno"> 1810</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( voxel_material, RAYTYPE_CAMERA, closest_hit_camera ) );</div>
-<div class="line"><a id="l01811" name="l01811"></a><span class="lineno"> 1811</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( voxel_material, RAYTYPE_PIXEL_LABEL, closest_hit_pixel_label ) );</div>
-<div class="line"><a id="l01812" name="l01812"></a><span class="lineno"> 1812</span> </div>
-<div class="line"><a id="l01813" name="l01813"></a><span class="lineno"> 1813</span>    <span class="comment">/* Initialize Bounding Box Geometry */</span></div>
-<div class="line"><a id="l01814" name="l01814"></a><span class="lineno"> 1814</span> </div>
-<div class="line"><a id="l01815" name="l01815"></a><span class="lineno"> 1815</span>    RTprogram  bbox_intersection_program;</div>
-<div class="line"><a id="l01816" name="l01816"></a><span class="lineno"> 1816</span>    RTprogram  bbox_bounding_box_program;</div>
-<div class="line"><a id="l01817" name="l01817"></a><span class="lineno"> 1817</span> </div>
-<div class="line"><a id="l01818" name="l01818"></a><span class="lineno"> 1818</span>    RT_CHECK_ERROR( rtGeometryCreate( OptiX_Context, &amp;bbox ) );</div>
-<div class="line"><a id="l01819" name="l01819"></a><span class="lineno"> 1819</span> </div>
-<div class="line"><a id="l01820" name="l01820"></a><span class="lineno"> 1820</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;bbox_bounds&quot;</span>, &amp;bbox_bounding_box_program ) );</div>
-<div class="line"><a id="l01821" name="l01821"></a><span class="lineno"> 1821</span>    RT_CHECK_ERROR( rtGeometrySetBoundingBoxProgram( bbox, bbox_bounding_box_program ) );</div>
-<div class="line"><a id="l01822" name="l01822"></a><span class="lineno"> 1822</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;bbox_intersect&quot;</span>, &amp;bbox_intersection_program ) );</div>
-<div class="line"><a id="l01823" name="l01823"></a><span class="lineno"> 1823</span>    RT_CHECK_ERROR( rtGeometrySetIntersectionProgram( bbox, bbox_intersection_program ) );</div>
-<div class="line"><a id="l01824" name="l01824"></a><span class="lineno"> 1824</span> </div>
-<div class="line"><a id="l01825" name="l01825"></a><span class="lineno"> 1825</span>    <span class="comment">/* Create Bounding Box Material */</span></div>
-<div class="line"><a id="l01826" name="l01826"></a><span class="lineno"> 1826</span> </div>
-<div class="line"><a id="l01827" name="l01827"></a><span class="lineno"> 1827</span>    RT_CHECK_ERROR( rtMaterialCreate( OptiX_Context, &amp;bbox_material ) );</div>
-<div class="line"><a id="l01828" name="l01828"></a><span class="lineno"> 1828</span> </div>
-<div class="line"><a id="l01829" name="l01829"></a><span class="lineno"> 1829</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( bbox_material, RAYTYPE_DIRECT, closest_hit_direct ) );</div>
-<div class="line"><a id="l01830" name="l01830"></a><span class="lineno"> 1830</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( bbox_material, RAYTYPE_DIFFUSE, closest_hit_diffuse ) );</div>
-<div class="line"><a id="l01831" name="l01831"></a><span class="lineno"> 1831</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( bbox_material, RAYTYPE_CAMERA, closest_hit_camera ) );</div>
-<div class="line"><a id="l01832" name="l01832"></a><span class="lineno"> 1832</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( bbox_material, RAYTYPE_PIXEL_LABEL, closest_hit_pixel_label ) );</div>
-<div class="line"><a id="l01833" name="l01833"></a><span class="lineno"> 1833</span> </div>
-<div class="line"><a id="l01834" name="l01834"></a><span class="lineno"> 1834</span>    <span class="comment">/* Miss Program */</span></div>
-<div class="line"><a id="l01835" name="l01835"></a><span class="lineno"> 1835</span>    RTprogram miss_program_direct;</div>
-<div class="line"><a id="l01836" name="l01836"></a><span class="lineno"> 1836</span>    RTprogram miss_program_diffuse;</div>
-<div class="line"><a id="l01837" name="l01837"></a><span class="lineno"> 1837</span>    RTprogram miss_program_camera;</div>
-<div class="line"><a id="l01838" name="l01838"></a><span class="lineno"> 1838</span>    RTprogram miss_program_pixel_label;</div>
-<div class="line"><a id="l01839" name="l01839"></a><span class="lineno"> 1839</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;miss_direct&quot;</span>, &amp;miss_program_direct ) );</div>
-<div class="line"><a id="l01840" name="l01840"></a><span class="lineno"> 1840</span>    RT_CHECK_ERROR( rtContextSetMissProgram( OptiX_Context, RAYTYPE_DIRECT, miss_program_direct ) );</div>
-<div class="line"><a id="l01841" name="l01841"></a><span class="lineno"> 1841</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;miss_diffuse&quot;</span>, &amp;miss_program_diffuse ) );</div>
-<div class="line"><a id="l01842" name="l01842"></a><span class="lineno"> 1842</span>    RT_CHECK_ERROR( rtContextSetMissProgram( OptiX_Context, RAYTYPE_DIFFUSE, miss_program_diffuse ) );</div>
-<div class="line"><a id="l01843" name="l01843"></a><span class="lineno"> 1843</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;miss_camera&quot;</span>, &amp;miss_program_camera ) );</div>
-<div class="line"><a id="l01844" name="l01844"></a><span class="lineno"> 1844</span>    RT_CHECK_ERROR( rtContextSetMissProgram( OptiX_Context, RAYTYPE_CAMERA, miss_program_camera ) );</div>
-<div class="line"><a id="l01845" name="l01845"></a><span class="lineno"> 1845</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;miss_pixel_label&quot;</span>, &amp;miss_program_pixel_label ) );</div>
-<div class="line"><a id="l01846" name="l01846"></a><span class="lineno"> 1846</span>    RT_CHECK_ERROR( rtContextSetMissProgram( OptiX_Context, RAYTYPE_PIXEL_LABEL, miss_program_pixel_label ) );</div>
-<div class="line"><a id="l01847" name="l01847"></a><span class="lineno"> 1847</span> </div>
-<div class="line"><a id="l01848" name="l01848"></a><span class="lineno"> 1848</span>    <span class="comment">/* Create OptiX Geometry Structures */</span></div>
-<div class="line"><a id="l01849" name="l01849"></a><span class="lineno"> 1849</span> </div>
-<div class="line"><a id="l01850" name="l01850"></a><span class="lineno"> 1850</span>    RTtransform transform;</div>
-<div class="line"><a id="l01851" name="l01851"></a><span class="lineno"> 1851</span> </div>
-<div class="line"><a id="l01852" name="l01852"></a><span class="lineno"> 1852</span>    RTgeometrygroup geometry_group;</div>
-<div class="line"><a id="l01853" name="l01853"></a><span class="lineno"> 1853</span> </div>
-<div class="line"><a id="l01854" name="l01854"></a><span class="lineno"> 1854</span>    RTgeometryinstance patch_instance;</div>
-<div class="line"><a id="l01855" name="l01855"></a><span class="lineno"> 1855</span>    RTgeometryinstance triangle_instance;</div>
-<div class="line"><a id="l01856" name="l01856"></a><span class="lineno"> 1856</span>    RTgeometryinstance disk_instance;</div>
-<div class="line"><a id="l01857" name="l01857"></a><span class="lineno"> 1857</span>    RTgeometryinstance tile_instance;</div>
-<div class="line"><a id="l01858" name="l01858"></a><span class="lineno"> 1858</span>    RTgeometryinstance voxel_instance;</div>
-<div class="line"><a id="l01859" name="l01859"></a><span class="lineno"> 1859</span>    RTgeometryinstance bbox_instance;</div>
-<div class="line"><a id="l01860" name="l01860"></a><span class="lineno"> 1860</span> </div>
-<div class="line"><a id="l01861" name="l01861"></a><span class="lineno"> 1861</span>    <span class="comment">/* Create top level group and associated (dummy) acceleration */</span></div>
-<div class="line"><a id="l01862" name="l01862"></a><span class="lineno"> 1862</span>    RT_CHECK_ERROR( rtGroupCreate( OptiX_Context, &amp;top_level_group ) );</div>
-<div class="line"><a id="l01863" name="l01863"></a><span class="lineno"> 1863</span>    RT_CHECK_ERROR( rtGroupSetChildCount( top_level_group, 1 ) );</div>
-<div class="line"><a id="l01864" name="l01864"></a><span class="lineno"> 1864</span> </div>
-<div class="line"><a id="l01865" name="l01865"></a><span class="lineno"> 1865</span>    RT_CHECK_ERROR( rtAccelerationCreate( OptiX_Context, &amp;top_level_acceleration ) );</div>
-<div class="line"><a id="l01866" name="l01866"></a><span class="lineno"> 1866</span>    RT_CHECK_ERROR( rtAccelerationSetBuilder(top_level_acceleration,<span class="stringliteral">&quot;NoAccel&quot;</span>) );</div>
-<div class="line"><a id="l01867" name="l01867"></a><span class="lineno"> 1867</span>    RT_CHECK_ERROR( rtAccelerationSetTraverser(top_level_acceleration,<span class="stringliteral">&quot;NoAccel&quot;</span>) );</div>
-<div class="line"><a id="l01868" name="l01868"></a><span class="lineno"> 1868</span>    RT_CHECK_ERROR( rtGroupSetAcceleration( top_level_group, top_level_acceleration) );</div>
-<div class="line"><a id="l01869" name="l01869"></a><span class="lineno"> 1869</span> </div>
-<div class="line"><a id="l01870" name="l01870"></a><span class="lineno"> 1870</span>    <span class="comment">/* mark acceleration as dirty */</span></div>
-<div class="line"><a id="l01871" name="l01871"></a><span class="lineno"> 1871</span>    RT_CHECK_ERROR( rtAccelerationMarkDirty( top_level_acceleration ) );</div>
+<div class="line"><a id="l01664" name="l01664"></a><span class="lineno"> 1664</span>    <span class="comment">//Texture mask data</span></div>
+<div class="line"><a id="l01665" name="l01665"></a><span class="lineno"> 1665</span>    RT_CHECK_ERROR( rtBufferCreate( OptiX_Context, RT_BUFFER_INPUT, &amp;maskdata_RTbuffer ) );</div>
+<div class="line"><a id="l01666" name="l01666"></a><span class="lineno"> 1666</span>    RT_CHECK_ERROR( rtBufferSetFormat( maskdata_RTbuffer, RT_FORMAT_BYTE ) );</div>
+<div class="line"><a id="l01667" name="l01667"></a><span class="lineno"> 1667</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;maskdata&quot;</span>, &amp;maskdata_RTvariable ) );</div>
+<div class="line"><a id="l01668" name="l01668"></a><span class="lineno"> 1668</span>    RT_CHECK_ERROR( rtVariableSetObject( maskdata_RTvariable, maskdata_RTbuffer ) );</div>
+<div class="line"><a id="l01669" name="l01669"></a><span class="lineno"> 1669</span>    std::vector&lt;std::vector&lt;std::vector&lt;bool&gt; &gt; &gt; dummydata;</div>
+<div class="line"><a id="l01670" name="l01670"></a><span class="lineno"> 1670</span>    initializeBuffer3D( maskdata_RTbuffer, dummydata );</div>
+<div class="line"><a id="l01671" name="l01671"></a><span class="lineno"> 1671</span> </div>
+<div class="line"><a id="l01672" name="l01672"></a><span class="lineno"> 1672</span>    <span class="comment">//Texture mask size</span></div>
+<div class="line"><a id="l01673" name="l01673"></a><span class="lineno"> 1673</span>    addBuffer( <span class="stringliteral">&quot;masksize&quot;</span>, masksize_RTbuffer, masksize_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_INT2, 1 );</div>
+<div class="line"><a id="l01674" name="l01674"></a><span class="lineno"> 1674</span> </div>
+<div class="line"><a id="l01675" name="l01675"></a><span class="lineno"> 1675</span>    <span class="comment">//Texture mask ID</span></div>
+<div class="line"><a id="l01676" name="l01676"></a><span class="lineno"> 1676</span>    addBuffer( <span class="stringliteral">&quot;maskID&quot;</span>, maskID_RTbuffer, maskID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_INT, 1 );</div>
+<div class="line"><a id="l01677" name="l01677"></a><span class="lineno"> 1677</span> </div>
+<div class="line"><a id="l01678" name="l01678"></a><span class="lineno"> 1678</span>    <span class="comment">//Texture u,v data</span></div>
+<div class="line"><a id="l01679" name="l01679"></a><span class="lineno"> 1679</span>    addBuffer( <span class="stringliteral">&quot;uvdata&quot;</span>, uvdata_RTbuffer, uvdata_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_FLOAT2, 2 );</div>
+<div class="line"><a id="l01680" name="l01680"></a><span class="lineno"> 1680</span> </div>
+<div class="line"><a id="l01681" name="l01681"></a><span class="lineno"> 1681</span>    <span class="comment">//Texture u,v ID</span></div>
+<div class="line"><a id="l01682" name="l01682"></a><span class="lineno"> 1682</span>    addBuffer( <span class="stringliteral">&quot;uvID&quot;</span>, uvID_RTbuffer, uvID_RTvariable, RT_BUFFER_INPUT, RT_FORMAT_INT, 1 );</div>
+<div class="line"><a id="l01683" name="l01683"></a><span class="lineno"> 1683</span> </div>
+<div class="line"><a id="l01684" name="l01684"></a><span class="lineno"> 1684</span>    <span class="comment">// Radiation Camera Variables</span></div>
+<div class="line"><a id="l01685" name="l01685"></a><span class="lineno"> 1685</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;camera_position&quot;</span>, &amp;camera_position_RTvariable ) );</div>
+<div class="line"><a id="l01686" name="l01686"></a><span class="lineno"> 1686</span>    RT_CHECK_ERROR( rtVariableSet3f( camera_position_RTvariable, 0.f, 0.f, 0.f ));</div>
+<div class="line"><a id="l01687" name="l01687"></a><span class="lineno"> 1687</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;camera_direction&quot;</span>, &amp;camera_direction_RTvariable ) );</div>
+<div class="line"><a id="l01688" name="l01688"></a><span class="lineno"> 1688</span>    RT_CHECK_ERROR( rtVariableSet2f( camera_direction_RTvariable, 0.f, 0.f ));</div>
+<div class="line"><a id="l01689" name="l01689"></a><span class="lineno"> 1689</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;camera_lens_diameter&quot;</span>, &amp;camera_lens_diameter_RTvariable ) );</div>
+<div class="line"><a id="l01690" name="l01690"></a><span class="lineno"> 1690</span>    RT_CHECK_ERROR( rtVariableSet1f( camera_lens_diameter_RTvariable, 0.f ));</div>
+<div class="line"><a id="l01691" name="l01691"></a><span class="lineno"> 1691</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;FOV_aspect_ratio&quot;</span>, &amp;FOV_aspect_RTvariable ) );</div>
+<div class="line"><a id="l01692" name="l01692"></a><span class="lineno"> 1692</span>    RT_CHECK_ERROR( rtVariableSet1f( FOV_aspect_RTvariable, 1.f ));</div>
+<div class="line"><a id="l01693" name="l01693"></a><span class="lineno"> 1693</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;camera_focal_length&quot;</span>, &amp;camera_focal_length_RTvariable ) );</div>
+<div class="line"><a id="l01694" name="l01694"></a><span class="lineno"> 1694</span>    RT_CHECK_ERROR( rtVariableSet1f( camera_focal_length_RTvariable, 0.f ));</div>
+<div class="line"><a id="l01695" name="l01695"></a><span class="lineno"> 1695</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;camera_viewplane_length&quot;</span>, &amp;camera_viewplane_length_RTvariable ) );</div>
+<div class="line"><a id="l01696" name="l01696"></a><span class="lineno"> 1696</span>    RT_CHECK_ERROR( rtVariableSet1f( camera_viewplane_length_RTvariable, 0.f ));</div>
+<div class="line"><a id="l01697" name="l01697"></a><span class="lineno"> 1697</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;Ncameras&quot;</span>, &amp;Ncameras_RTvariable ) );</div>
+<div class="line"><a id="l01698" name="l01698"></a><span class="lineno"> 1698</span>    RT_CHECK_ERROR( rtVariableSet1ui( Ncameras_RTvariable, 0 ));</div>
+<div class="line"><a id="l01699" name="l01699"></a><span class="lineno"> 1699</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;camera_ID&quot;</span>, &amp;camera_ID_RTvariable ) );</div>
+<div class="line"><a id="l01700" name="l01700"></a><span class="lineno"> 1700</span>    RT_CHECK_ERROR( rtVariableSet1ui( camera_ID_RTvariable, 0 ));</div>
+<div class="line"><a id="l01701" name="l01701"></a><span class="lineno"> 1701</span> </div>
+<div class="line"><a id="l01702" name="l01702"></a><span class="lineno"> 1702</span>    <span class="comment">// primitive scattering buffers (cameras)</span></div>
+<div class="line"><a id="l01703" name="l01703"></a><span class="lineno"> 1703</span>    addBuffer( <span class="stringliteral">&quot;scatter_buff_top_cam&quot;</span>, scatter_buff_top_cam_RTbuffer, scatter_buff_top_cam_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01704" name="l01704"></a><span class="lineno"> 1704</span>    addBuffer( <span class="stringliteral">&quot;scatter_buff_bottom_cam&quot;</span>, scatter_buff_bottom_cam_RTbuffer, scatter_buff_bottom_cam_RTvariable, RT_BUFFER_INPUT_OUTPUT, RT_FORMAT_FLOAT, 1 );</div>
+<div class="line"><a id="l01705" name="l01705"></a><span class="lineno"> 1705</span> </div>
+<div class="line"><a id="l01706" name="l01706"></a><span class="lineno"> 1706</span>    <span class="comment">/* Hit Programs */</span></div>
+<div class="line"><a id="l01707" name="l01707"></a><span class="lineno"> 1707</span>    RTprogram closest_hit_direct;</div>
+<div class="line"><a id="l01708" name="l01708"></a><span class="lineno"> 1708</span>    RTprogram closest_hit_diffuse;</div>
+<div class="line"><a id="l01709" name="l01709"></a><span class="lineno"> 1709</span>    RTprogram closest_hit_camera;</div>
+<div class="line"><a id="l01710" name="l01710"></a><span class="lineno"> 1710</span>    RTprogram closest_hit_pixel_label;</div>
+<div class="line"><a id="l01711" name="l01711"></a><span class="lineno"> 1711</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;closest_hit_direct&quot;</span>, &amp;closest_hit_direct ) );</div>
+<div class="line"><a id="l01712" name="l01712"></a><span class="lineno"> 1712</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;closest_hit_diffuse&quot;</span>, &amp;closest_hit_diffuse ) );</div>
+<div class="line"><a id="l01713" name="l01713"></a><span class="lineno"> 1713</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;closest_hit_camera&quot;</span>, &amp;closest_hit_camera ) );</div>
+<div class="line"><a id="l01714" name="l01714"></a><span class="lineno"> 1714</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;closest_hit_pixel_label&quot;</span>, &amp;closest_hit_pixel_label ) );</div>
+<div class="line"><a id="l01715" name="l01715"></a><span class="lineno"> 1715</span> </div>
+<div class="line"><a id="l01716" name="l01716"></a><span class="lineno"> 1716</span>    <span class="comment">/* Initialize Patch Geometry */</span></div>
+<div class="line"><a id="l01717" name="l01717"></a><span class="lineno"> 1717</span> </div>
+<div class="line"><a id="l01718" name="l01718"></a><span class="lineno"> 1718</span>    RTprogram  patch_intersection_program;</div>
+<div class="line"><a id="l01719" name="l01719"></a><span class="lineno"> 1719</span>    RTprogram  patch_bounding_box_program;</div>
+<div class="line"><a id="l01720" name="l01720"></a><span class="lineno"> 1720</span> </div>
+<div class="line"><a id="l01721" name="l01721"></a><span class="lineno"> 1721</span>    RT_CHECK_ERROR( rtGeometryCreate( OptiX_Context, &amp;patch ) );</div>
+<div class="line"><a id="l01722" name="l01722"></a><span class="lineno"> 1722</span> </div>
+<div class="line"><a id="l01723" name="l01723"></a><span class="lineno"> 1723</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;rectangle_bounds&quot;</span>, &amp;patch_bounding_box_program ) );</div>
+<div class="line"><a id="l01724" name="l01724"></a><span class="lineno"> 1724</span>    RT_CHECK_ERROR( rtGeometrySetBoundingBoxProgram( patch, patch_bounding_box_program ) );</div>
+<div class="line"><a id="l01725" name="l01725"></a><span class="lineno"> 1725</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;rectangle_intersect&quot;</span>, &amp;patch_intersection_program ) );</div>
+<div class="line"><a id="l01726" name="l01726"></a><span class="lineno"> 1726</span>    RT_CHECK_ERROR( rtGeometrySetIntersectionProgram( patch, patch_intersection_program ) );</div>
+<div class="line"><a id="l01727" name="l01727"></a><span class="lineno"> 1727</span> </div>
+<div class="line"><a id="l01728" name="l01728"></a><span class="lineno"> 1728</span>    <span class="comment">/* Create Patch Material */</span></div>
+<div class="line"><a id="l01729" name="l01729"></a><span class="lineno"> 1729</span> </div>
+<div class="line"><a id="l01730" name="l01730"></a><span class="lineno"> 1730</span>    RT_CHECK_ERROR( rtMaterialCreate( OptiX_Context, &amp;patch_material ) );</div>
+<div class="line"><a id="l01731" name="l01731"></a><span class="lineno"> 1731</span> </div>
+<div class="line"><a id="l01732" name="l01732"></a><span class="lineno"> 1732</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( patch_material, RAYTYPE_DIRECT, closest_hit_direct ) );</div>
+<div class="line"><a id="l01733" name="l01733"></a><span class="lineno"> 1733</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( patch_material, RAYTYPE_DIFFUSE, closest_hit_diffuse ) );</div>
+<div class="line"><a id="l01734" name="l01734"></a><span class="lineno"> 1734</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( patch_material, RAYTYPE_CAMERA, closest_hit_camera ) );</div>
+<div class="line"><a id="l01735" name="l01735"></a><span class="lineno"> 1735</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( patch_material, RAYTYPE_PIXEL_LABEL, closest_hit_pixel_label ) );</div>
+<div class="line"><a id="l01736" name="l01736"></a><span class="lineno"> 1736</span> </div>
+<div class="line"><a id="l01737" name="l01737"></a><span class="lineno"> 1737</span>    <span class="comment">/* Initialize Triangle Geometry */</span></div>
+<div class="line"><a id="l01738" name="l01738"></a><span class="lineno"> 1738</span> </div>
+<div class="line"><a id="l01739" name="l01739"></a><span class="lineno"> 1739</span>    RTprogram  triangle_intersection_program;</div>
+<div class="line"><a id="l01740" name="l01740"></a><span class="lineno"> 1740</span>    RTprogram  triangle_bounding_box_program;</div>
+<div class="line"><a id="l01741" name="l01741"></a><span class="lineno"> 1741</span> </div>
+<div class="line"><a id="l01742" name="l01742"></a><span class="lineno"> 1742</span>    RT_CHECK_ERROR( rtGeometryCreate( OptiX_Context, &amp;triangle ) );</div>
+<div class="line"><a id="l01743" name="l01743"></a><span class="lineno"> 1743</span> </div>
+<div class="line"><a id="l01744" name="l01744"></a><span class="lineno"> 1744</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;triangle_bounds&quot;</span>, &amp;triangle_bounding_box_program ) );</div>
+<div class="line"><a id="l01745" name="l01745"></a><span class="lineno"> 1745</span>    RT_CHECK_ERROR( rtGeometrySetBoundingBoxProgram( triangle, triangle_bounding_box_program ) );</div>
+<div class="line"><a id="l01746" name="l01746"></a><span class="lineno"> 1746</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;triangle_intersect&quot;</span>, &amp;triangle_intersection_program ) );</div>
+<div class="line"><a id="l01747" name="l01747"></a><span class="lineno"> 1747</span>    RT_CHECK_ERROR( rtGeometrySetIntersectionProgram( triangle, triangle_intersection_program ) );</div>
+<div class="line"><a id="l01748" name="l01748"></a><span class="lineno"> 1748</span> </div>
+<div class="line"><a id="l01749" name="l01749"></a><span class="lineno"> 1749</span>    <span class="comment">/* Create Triangle Material */</span></div>
+<div class="line"><a id="l01750" name="l01750"></a><span class="lineno"> 1750</span> </div>
+<div class="line"><a id="l01751" name="l01751"></a><span class="lineno"> 1751</span>    RT_CHECK_ERROR( rtMaterialCreate( OptiX_Context, &amp;triangle_material ) );</div>
+<div class="line"><a id="l01752" name="l01752"></a><span class="lineno"> 1752</span> </div>
+<div class="line"><a id="l01753" name="l01753"></a><span class="lineno"> 1753</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( triangle_material, RAYTYPE_DIRECT, closest_hit_direct ) );</div>
+<div class="line"><a id="l01754" name="l01754"></a><span class="lineno"> 1754</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( triangle_material, RAYTYPE_DIFFUSE, closest_hit_diffuse ) );</div>
+<div class="line"><a id="l01755" name="l01755"></a><span class="lineno"> 1755</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( triangle_material, RAYTYPE_CAMERA, closest_hit_camera ) );</div>
+<div class="line"><a id="l01756" name="l01756"></a><span class="lineno"> 1756</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( triangle_material, RAYTYPE_PIXEL_LABEL, closest_hit_pixel_label ) );</div>
+<div class="line"><a id="l01757" name="l01757"></a><span class="lineno"> 1757</span> </div>
+<div class="line"><a id="l01758" name="l01758"></a><span class="lineno"> 1758</span>    <span class="comment">/* Initialize Disk Geometry */</span></div>
+<div class="line"><a id="l01759" name="l01759"></a><span class="lineno"> 1759</span> </div>
+<div class="line"><a id="l01760" name="l01760"></a><span class="lineno"> 1760</span>    RTprogram  disk_intersection_program;</div>
+<div class="line"><a id="l01761" name="l01761"></a><span class="lineno"> 1761</span>    RTprogram  disk_bounding_box_program;</div>
+<div class="line"><a id="l01762" name="l01762"></a><span class="lineno"> 1762</span> </div>
+<div class="line"><a id="l01763" name="l01763"></a><span class="lineno"> 1763</span>    RT_CHECK_ERROR( rtGeometryCreate( OptiX_Context, &amp;disk ) );</div>
+<div class="line"><a id="l01764" name="l01764"></a><span class="lineno"> 1764</span> </div>
+<div class="line"><a id="l01765" name="l01765"></a><span class="lineno"> 1765</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;disk_bounds&quot;</span>, &amp;disk_bounding_box_program ) );</div>
+<div class="line"><a id="l01766" name="l01766"></a><span class="lineno"> 1766</span>    RT_CHECK_ERROR( rtGeometrySetBoundingBoxProgram( disk, disk_bounding_box_program ) );</div>
+<div class="line"><a id="l01767" name="l01767"></a><span class="lineno"> 1767</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;disk_intersect&quot;</span>, &amp;disk_intersection_program ) );</div>
+<div class="line"><a id="l01768" name="l01768"></a><span class="lineno"> 1768</span>    RT_CHECK_ERROR( rtGeometrySetIntersectionProgram( disk, disk_intersection_program ) );</div>
+<div class="line"><a id="l01769" name="l01769"></a><span class="lineno"> 1769</span> </div>
+<div class="line"><a id="l01770" name="l01770"></a><span class="lineno"> 1770</span>    <span class="comment">/* Create Disk Material */</span></div>
+<div class="line"><a id="l01771" name="l01771"></a><span class="lineno"> 1771</span> </div>
+<div class="line"><a id="l01772" name="l01772"></a><span class="lineno"> 1772</span>    RT_CHECK_ERROR( rtMaterialCreate( OptiX_Context, &amp;disk_material ) );</div>
+<div class="line"><a id="l01773" name="l01773"></a><span class="lineno"> 1773</span> </div>
+<div class="line"><a id="l01774" name="l01774"></a><span class="lineno"> 1774</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( disk_material, RAYTYPE_DIRECT, closest_hit_direct ) );</div>
+<div class="line"><a id="l01775" name="l01775"></a><span class="lineno"> 1775</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( disk_material, RAYTYPE_DIFFUSE, closest_hit_diffuse ) );</div>
+<div class="line"><a id="l01776" name="l01776"></a><span class="lineno"> 1776</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( disk_material, RAYTYPE_CAMERA, closest_hit_camera ) );</div>
+<div class="line"><a id="l01777" name="l01777"></a><span class="lineno"> 1777</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( disk_material, RAYTYPE_PIXEL_LABEL, closest_hit_pixel_label ) );</div>
+<div class="line"><a id="l01778" name="l01778"></a><span class="lineno"> 1778</span> </div>
+<div class="line"><a id="l01779" name="l01779"></a><span class="lineno"> 1779</span>    <span class="comment">/* Initialize Tile Geometry */</span></div>
+<div class="line"><a id="l01780" name="l01780"></a><span class="lineno"> 1780</span> </div>
+<div class="line"><a id="l01781" name="l01781"></a><span class="lineno"> 1781</span>    RTprogram  tile_intersection_program;</div>
+<div class="line"><a id="l01782" name="l01782"></a><span class="lineno"> 1782</span>    RTprogram  tile_bounding_box_program;</div>
+<div class="line"><a id="l01783" name="l01783"></a><span class="lineno"> 1783</span> </div>
+<div class="line"><a id="l01784" name="l01784"></a><span class="lineno"> 1784</span>    RT_CHECK_ERROR( rtGeometryCreate( OptiX_Context, &amp;tile ) );</div>
+<div class="line"><a id="l01785" name="l01785"></a><span class="lineno"> 1785</span> </div>
+<div class="line"><a id="l01786" name="l01786"></a><span class="lineno"> 1786</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;tile_bounds&quot;</span>, &amp;tile_bounding_box_program ) );</div>
+<div class="line"><a id="l01787" name="l01787"></a><span class="lineno"> 1787</span>    RT_CHECK_ERROR( rtGeometrySetBoundingBoxProgram( tile, tile_bounding_box_program ) );</div>
+<div class="line"><a id="l01788" name="l01788"></a><span class="lineno"> 1788</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;tile_intersect&quot;</span>, &amp;tile_intersection_program ) );</div>
+<div class="line"><a id="l01789" name="l01789"></a><span class="lineno"> 1789</span>    RT_CHECK_ERROR( rtGeometrySetIntersectionProgram( tile, tile_intersection_program ) );</div>
+<div class="line"><a id="l01790" name="l01790"></a><span class="lineno"> 1790</span> </div>
+<div class="line"><a id="l01791" name="l01791"></a><span class="lineno"> 1791</span>    <span class="comment">/* Create Tile Material */</span></div>
+<div class="line"><a id="l01792" name="l01792"></a><span class="lineno"> 1792</span> </div>
+<div class="line"><a id="l01793" name="l01793"></a><span class="lineno"> 1793</span>    RT_CHECK_ERROR( rtMaterialCreate( OptiX_Context, &amp;tile_material ) );</div>
+<div class="line"><a id="l01794" name="l01794"></a><span class="lineno"> 1794</span> </div>
+<div class="line"><a id="l01795" name="l01795"></a><span class="lineno"> 1795</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( tile_material, RAYTYPE_DIRECT, closest_hit_direct ) );</div>
+<div class="line"><a id="l01796" name="l01796"></a><span class="lineno"> 1796</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( tile_material, RAYTYPE_DIFFUSE, closest_hit_diffuse ) );</div>
+<div class="line"><a id="l01797" name="l01797"></a><span class="lineno"> 1797</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( tile_material, RAYTYPE_CAMERA, closest_hit_camera) );</div>
+<div class="line"><a id="l01798" name="l01798"></a><span class="lineno"> 1798</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( tile_material, RAYTYPE_PIXEL_LABEL, closest_hit_pixel_label ) );</div>
+<div class="line"><a id="l01799" name="l01799"></a><span class="lineno"> 1799</span> </div>
+<div class="line"><a id="l01800" name="l01800"></a><span class="lineno"> 1800</span>    <span class="comment">/* Initialize Voxel Geometry */</span></div>
+<div class="line"><a id="l01801" name="l01801"></a><span class="lineno"> 1801</span> </div>
+<div class="line"><a id="l01802" name="l01802"></a><span class="lineno"> 1802</span>    RTprogram  voxel_intersection_program;</div>
+<div class="line"><a id="l01803" name="l01803"></a><span class="lineno"> 1803</span>    RTprogram  voxel_bounding_box_program;</div>
+<div class="line"><a id="l01804" name="l01804"></a><span class="lineno"> 1804</span> </div>
+<div class="line"><a id="l01805" name="l01805"></a><span class="lineno"> 1805</span>    RT_CHECK_ERROR( rtGeometryCreate( OptiX_Context, &amp;voxel ) );</div>
+<div class="line"><a id="l01806" name="l01806"></a><span class="lineno"> 1806</span> </div>
+<div class="line"><a id="l01807" name="l01807"></a><span class="lineno"> 1807</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;voxel_bounds&quot;</span>, &amp;voxel_bounding_box_program ) );</div>
+<div class="line"><a id="l01808" name="l01808"></a><span class="lineno"> 1808</span>    RT_CHECK_ERROR( rtGeometrySetBoundingBoxProgram( voxel, voxel_bounding_box_program ) );</div>
+<div class="line"><a id="l01809" name="l01809"></a><span class="lineno"> 1809</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;voxel_intersect&quot;</span>, &amp;voxel_intersection_program ) );</div>
+<div class="line"><a id="l01810" name="l01810"></a><span class="lineno"> 1810</span>    RT_CHECK_ERROR( rtGeometrySetIntersectionProgram( voxel, voxel_intersection_program ) );</div>
+<div class="line"><a id="l01811" name="l01811"></a><span class="lineno"> 1811</span> </div>
+<div class="line"><a id="l01812" name="l01812"></a><span class="lineno"> 1812</span>    <span class="comment">/* Create Voxel Material */</span></div>
+<div class="line"><a id="l01813" name="l01813"></a><span class="lineno"> 1813</span> </div>
+<div class="line"><a id="l01814" name="l01814"></a><span class="lineno"> 1814</span>    RT_CHECK_ERROR( rtMaterialCreate( OptiX_Context, &amp;voxel_material ) );</div>
+<div class="line"><a id="l01815" name="l01815"></a><span class="lineno"> 1815</span> </div>
+<div class="line"><a id="l01816" name="l01816"></a><span class="lineno"> 1816</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( voxel_material, RAYTYPE_DIRECT, closest_hit_direct ) );</div>
+<div class="line"><a id="l01817" name="l01817"></a><span class="lineno"> 1817</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( voxel_material, RAYTYPE_DIFFUSE, closest_hit_diffuse ) );</div>
+<div class="line"><a id="l01818" name="l01818"></a><span class="lineno"> 1818</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( voxel_material, RAYTYPE_CAMERA, closest_hit_camera ) );</div>
+<div class="line"><a id="l01819" name="l01819"></a><span class="lineno"> 1819</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( voxel_material, RAYTYPE_PIXEL_LABEL, closest_hit_pixel_label ) );</div>
+<div class="line"><a id="l01820" name="l01820"></a><span class="lineno"> 1820</span> </div>
+<div class="line"><a id="l01821" name="l01821"></a><span class="lineno"> 1821</span>    <span class="comment">/* Initialize Bounding Box Geometry */</span></div>
+<div class="line"><a id="l01822" name="l01822"></a><span class="lineno"> 1822</span> </div>
+<div class="line"><a id="l01823" name="l01823"></a><span class="lineno"> 1823</span>    RTprogram  bbox_intersection_program;</div>
+<div class="line"><a id="l01824" name="l01824"></a><span class="lineno"> 1824</span>    RTprogram  bbox_bounding_box_program;</div>
+<div class="line"><a id="l01825" name="l01825"></a><span class="lineno"> 1825</span> </div>
+<div class="line"><a id="l01826" name="l01826"></a><span class="lineno"> 1826</span>    RT_CHECK_ERROR( rtGeometryCreate( OptiX_Context, &amp;bbox ) );</div>
+<div class="line"><a id="l01827" name="l01827"></a><span class="lineno"> 1827</span> </div>
+<div class="line"><a id="l01828" name="l01828"></a><span class="lineno"> 1828</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;bbox_bounds&quot;</span>, &amp;bbox_bounding_box_program ) );</div>
+<div class="line"><a id="l01829" name="l01829"></a><span class="lineno"> 1829</span>    RT_CHECK_ERROR( rtGeometrySetBoundingBoxProgram( bbox, bbox_bounding_box_program ) );</div>
+<div class="line"><a id="l01830" name="l01830"></a><span class="lineno"> 1830</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_primitiveIntersection.cu.ptx&quot;</span>, <span class="stringliteral">&quot;bbox_intersect&quot;</span>, &amp;bbox_intersection_program ) );</div>
+<div class="line"><a id="l01831" name="l01831"></a><span class="lineno"> 1831</span>    RT_CHECK_ERROR( rtGeometrySetIntersectionProgram( bbox, bbox_intersection_program ) );</div>
+<div class="line"><a id="l01832" name="l01832"></a><span class="lineno"> 1832</span> </div>
+<div class="line"><a id="l01833" name="l01833"></a><span class="lineno"> 1833</span>    <span class="comment">/* Create Bounding Box Material */</span></div>
+<div class="line"><a id="l01834" name="l01834"></a><span class="lineno"> 1834</span> </div>
+<div class="line"><a id="l01835" name="l01835"></a><span class="lineno"> 1835</span>    RT_CHECK_ERROR( rtMaterialCreate( OptiX_Context, &amp;bbox_material ) );</div>
+<div class="line"><a id="l01836" name="l01836"></a><span class="lineno"> 1836</span> </div>
+<div class="line"><a id="l01837" name="l01837"></a><span class="lineno"> 1837</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( bbox_material, RAYTYPE_DIRECT, closest_hit_direct ) );</div>
+<div class="line"><a id="l01838" name="l01838"></a><span class="lineno"> 1838</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( bbox_material, RAYTYPE_DIFFUSE, closest_hit_diffuse ) );</div>
+<div class="line"><a id="l01839" name="l01839"></a><span class="lineno"> 1839</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( bbox_material, RAYTYPE_CAMERA, closest_hit_camera ) );</div>
+<div class="line"><a id="l01840" name="l01840"></a><span class="lineno"> 1840</span>    RT_CHECK_ERROR( rtMaterialSetClosestHitProgram( bbox_material, RAYTYPE_PIXEL_LABEL, closest_hit_pixel_label ) );</div>
+<div class="line"><a id="l01841" name="l01841"></a><span class="lineno"> 1841</span> </div>
+<div class="line"><a id="l01842" name="l01842"></a><span class="lineno"> 1842</span>    <span class="comment">/* Miss Program */</span></div>
+<div class="line"><a id="l01843" name="l01843"></a><span class="lineno"> 1843</span>    RTprogram miss_program_direct;</div>
+<div class="line"><a id="l01844" name="l01844"></a><span class="lineno"> 1844</span>    RTprogram miss_program_diffuse;</div>
+<div class="line"><a id="l01845" name="l01845"></a><span class="lineno"> 1845</span>    RTprogram miss_program_camera;</div>
+<div class="line"><a id="l01846" name="l01846"></a><span class="lineno"> 1846</span>    RTprogram miss_program_pixel_label;</div>
+<div class="line"><a id="l01847" name="l01847"></a><span class="lineno"> 1847</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;miss_direct&quot;</span>, &amp;miss_program_direct ) );</div>
+<div class="line"><a id="l01848" name="l01848"></a><span class="lineno"> 1848</span>    RT_CHECK_ERROR( rtContextSetMissProgram( OptiX_Context, RAYTYPE_DIRECT, miss_program_direct ) );</div>
+<div class="line"><a id="l01849" name="l01849"></a><span class="lineno"> 1849</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;miss_diffuse&quot;</span>, &amp;miss_program_diffuse ) );</div>
+<div class="line"><a id="l01850" name="l01850"></a><span class="lineno"> 1850</span>    RT_CHECK_ERROR( rtContextSetMissProgram( OptiX_Context, RAYTYPE_DIFFUSE, miss_program_diffuse ) );</div>
+<div class="line"><a id="l01851" name="l01851"></a><span class="lineno"> 1851</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;miss_camera&quot;</span>, &amp;miss_program_camera ) );</div>
+<div class="line"><a id="l01852" name="l01852"></a><span class="lineno"> 1852</span>    RT_CHECK_ERROR( rtContextSetMissProgram( OptiX_Context, RAYTYPE_CAMERA, miss_program_camera ) );</div>
+<div class="line"><a id="l01853" name="l01853"></a><span class="lineno"> 1853</span>    RT_CHECK_ERROR( rtProgramCreateFromPTXFile( OptiX_Context, <span class="stringliteral">&quot;plugins/radiation/cuda_compile_ptx_generated_rayHit.cu.ptx&quot;</span>, <span class="stringliteral">&quot;miss_pixel_label&quot;</span>, &amp;miss_program_pixel_label ) );</div>
+<div class="line"><a id="l01854" name="l01854"></a><span class="lineno"> 1854</span>    RT_CHECK_ERROR( rtContextSetMissProgram( OptiX_Context, RAYTYPE_PIXEL_LABEL, miss_program_pixel_label ) );</div>
+<div class="line"><a id="l01855" name="l01855"></a><span class="lineno"> 1855</span> </div>
+<div class="line"><a id="l01856" name="l01856"></a><span class="lineno"> 1856</span>    <span class="comment">/* Create OptiX Geometry Structures */</span></div>
+<div class="line"><a id="l01857" name="l01857"></a><span class="lineno"> 1857</span> </div>
+<div class="line"><a id="l01858" name="l01858"></a><span class="lineno"> 1858</span>    RTtransform transform;</div>
+<div class="line"><a id="l01859" name="l01859"></a><span class="lineno"> 1859</span> </div>
+<div class="line"><a id="l01860" name="l01860"></a><span class="lineno"> 1860</span>    RTgeometrygroup geometry_group;</div>
+<div class="line"><a id="l01861" name="l01861"></a><span class="lineno"> 1861</span> </div>
+<div class="line"><a id="l01862" name="l01862"></a><span class="lineno"> 1862</span>    RTgeometryinstance patch_instance;</div>
+<div class="line"><a id="l01863" name="l01863"></a><span class="lineno"> 1863</span>    RTgeometryinstance triangle_instance;</div>
+<div class="line"><a id="l01864" name="l01864"></a><span class="lineno"> 1864</span>    RTgeometryinstance disk_instance;</div>
+<div class="line"><a id="l01865" name="l01865"></a><span class="lineno"> 1865</span>    RTgeometryinstance tile_instance;</div>
+<div class="line"><a id="l01866" name="l01866"></a><span class="lineno"> 1866</span>    RTgeometryinstance voxel_instance;</div>
+<div class="line"><a id="l01867" name="l01867"></a><span class="lineno"> 1867</span>    RTgeometryinstance bbox_instance;</div>
+<div class="line"><a id="l01868" name="l01868"></a><span class="lineno"> 1868</span> </div>
+<div class="line"><a id="l01869" name="l01869"></a><span class="lineno"> 1869</span>    <span class="comment">/* Create top level group and associated (dummy) acceleration */</span></div>
+<div class="line"><a id="l01870" name="l01870"></a><span class="lineno"> 1870</span>    RT_CHECK_ERROR( rtGroupCreate( OptiX_Context, &amp;top_level_group ) );</div>
+<div class="line"><a id="l01871" name="l01871"></a><span class="lineno"> 1871</span>    RT_CHECK_ERROR( rtGroupSetChildCount( top_level_group, 1 ) );</div>
 <div class="line"><a id="l01872" name="l01872"></a><span class="lineno"> 1872</span> </div>
-<div class="line"><a id="l01873" name="l01873"></a><span class="lineno"> 1873</span>    <span class="comment">/* Create transform node */</span></div>
-<div class="line"><a id="l01874" name="l01874"></a><span class="lineno"> 1874</span>    RT_CHECK_ERROR( rtTransformCreate( OptiX_Context, &amp;transform ) );</div>
-<div class="line"><a id="l01875" name="l01875"></a><span class="lineno"> 1875</span>    <span class="keywordtype">float</span> m[16];</div>
-<div class="line"><a id="l01876" name="l01876"></a><span class="lineno"> 1876</span>    m[0] = 1.f; m[1] = 0; m[2] = 0; m[3] = 0;</div>
-<div class="line"><a id="l01877" name="l01877"></a><span class="lineno"> 1877</span>    m[4] = 0.f; m[5] = 1.f; m[6] = 0; m[7] = 0;</div>
-<div class="line"><a id="l01878" name="l01878"></a><span class="lineno"> 1878</span>    m[8] = 0.f; m[9] = 0; m[10] = 1.f; m[11] = 0;</div>
-<div class="line"><a id="l01879" name="l01879"></a><span class="lineno"> 1879</span>    m[12] = 0.f; m[13] = 0; m[14] = 0; m[15] = 1.f;</div>
-<div class="line"><a id="l01880" name="l01880"></a><span class="lineno"> 1880</span>    RT_CHECK_ERROR( rtTransformSetMatrix( transform, 0, m, <span class="keyword">nullptr</span> ) );</div>
-<div class="line"><a id="l01881" name="l01881"></a><span class="lineno"> 1881</span>    RT_CHECK_ERROR( rtGroupSetChild( top_level_group, 0, transform ) );</div>
-<div class="line"><a id="l01882" name="l01882"></a><span class="lineno"> 1882</span> </div>
-<div class="line"><a id="l01883" name="l01883"></a><span class="lineno"> 1883</span>    <span class="comment">/* Create geometry group and associated acceleration*/</span></div>
-<div class="line"><a id="l01884" name="l01884"></a><span class="lineno"> 1884</span>    RT_CHECK_ERROR( rtGeometryGroupCreate( OptiX_Context, &amp;geometry_group ) );</div>
-<div class="line"><a id="l01885" name="l01885"></a><span class="lineno"> 1885</span>    RT_CHECK_ERROR( rtGeometryGroupSetChildCount( geometry_group, 6 ) );</div>
-<div class="line"><a id="l01886" name="l01886"></a><span class="lineno"> 1886</span>    RT_CHECK_ERROR( rtTransformSetChild( transform, geometry_group ) );</div>
-<div class="line"><a id="l01887" name="l01887"></a><span class="lineno"> 1887</span> </div>
-<div class="line"><a id="l01888" name="l01888"></a><span class="lineno"> 1888</span>    <span class="comment">//create acceleration object for group and specify some build hints</span></div>
-<div class="line"><a id="l01889" name="l01889"></a><span class="lineno"> 1889</span>    RT_CHECK_ERROR( rtAccelerationCreate(OptiX_Context,&amp;geometry_acceleration) );</div>
-<div class="line"><a id="l01890" name="l01890"></a><span class="lineno"> 1890</span>    RT_CHECK_ERROR( rtAccelerationSetBuilder(geometry_acceleration,<span class="stringliteral">&quot;Trbvh&quot;</span>) );</div>
-<div class="line"><a id="l01891" name="l01891"></a><span class="lineno"> 1891</span>    RT_CHECK_ERROR( rtAccelerationSetTraverser(geometry_acceleration,<span class="stringliteral">&quot;Bvh&quot;</span>) );</div>
-<div class="line"><a id="l01892" name="l01892"></a><span class="lineno"> 1892</span>    RT_CHECK_ERROR( rtGeometryGroupSetAcceleration( geometry_group, geometry_acceleration) );</div>
-<div class="line"><a id="l01893" name="l01893"></a><span class="lineno"> 1893</span>    RT_CHECK_ERROR( rtAccelerationMarkDirty( geometry_acceleration ) );</div>
-<div class="line"><a id="l01894" name="l01894"></a><span class="lineno"> 1894</span> </div>
-<div class="line"><a id="l01895" name="l01895"></a><span class="lineno"> 1895</span>    <span class="comment">/* Create geometry instances */</span></div>
-<div class="line"><a id="l01896" name="l01896"></a><span class="lineno"> 1896</span>    <span class="comment">//patches</span></div>
-<div class="line"><a id="l01897" name="l01897"></a><span class="lineno"> 1897</span>    RT_CHECK_ERROR( rtGeometryInstanceCreate( OptiX_Context, &amp;patch_instance ) );</div>
-<div class="line"><a id="l01898" name="l01898"></a><span class="lineno"> 1898</span>    RT_CHECK_ERROR( rtGeometryInstanceSetGeometry( patch_instance, patch ) );</div>
-<div class="line"><a id="l01899" name="l01899"></a><span class="lineno"> 1899</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterialCount( patch_instance, 1 ) );</div>
-<div class="line"><a id="l01900" name="l01900"></a><span class="lineno"> 1900</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterial( patch_instance, 0, patch_material ) );</div>
-<div class="line"><a id="l01901" name="l01901"></a><span class="lineno"> 1901</span>    RT_CHECK_ERROR( rtGeometryGroupSetChild( geometry_group, 0, patch_instance ) );</div>
-<div class="line"><a id="l01902" name="l01902"></a><span class="lineno"> 1902</span>    <span class="comment">//triangles</span></div>
-<div class="line"><a id="l01903" name="l01903"></a><span class="lineno"> 1903</span>    RT_CHECK_ERROR( rtGeometryInstanceCreate( OptiX_Context, &amp;triangle_instance ) );</div>
-<div class="line"><a id="l01904" name="l01904"></a><span class="lineno"> 1904</span>    RT_CHECK_ERROR( rtGeometryInstanceSetGeometry( triangle_instance, triangle ) );</div>
-<div class="line"><a id="l01905" name="l01905"></a><span class="lineno"> 1905</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterialCount( triangle_instance, 1 ) );</div>
-<div class="line"><a id="l01906" name="l01906"></a><span class="lineno"> 1906</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterial( triangle_instance, 0, triangle_material ) );</div>
-<div class="line"><a id="l01907" name="l01907"></a><span class="lineno"> 1907</span>    RT_CHECK_ERROR( rtGeometryGroupSetChild( geometry_group, 1, triangle_instance ) );</div>
-<div class="line"><a id="l01908" name="l01908"></a><span class="lineno"> 1908</span>    <span class="comment">//disks</span></div>
-<div class="line"><a id="l01909" name="l01909"></a><span class="lineno"> 1909</span>    RT_CHECK_ERROR( rtGeometryInstanceCreate( OptiX_Context, &amp;disk_instance ) );</div>
-<div class="line"><a id="l01910" name="l01910"></a><span class="lineno"> 1910</span>    RT_CHECK_ERROR( rtGeometryInstanceSetGeometry( disk_instance, disk ) );</div>
-<div class="line"><a id="l01911" name="l01911"></a><span class="lineno"> 1911</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterialCount( disk_instance, 1 ) );</div>
-<div class="line"><a id="l01912" name="l01912"></a><span class="lineno"> 1912</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterial( disk_instance, 0, disk_material ) );</div>
-<div class="line"><a id="l01913" name="l01913"></a><span class="lineno"> 1913</span>    RT_CHECK_ERROR( rtGeometryGroupSetChild( geometry_group, 2, disk_instance ) );</div>
-<div class="line"><a id="l01914" name="l01914"></a><span class="lineno"> 1914</span>    <span class="comment">//tiles</span></div>
-<div class="line"><a id="l01915" name="l01915"></a><span class="lineno"> 1915</span>    RT_CHECK_ERROR( rtGeometryInstanceCreate( OptiX_Context, &amp;tile_instance ) );</div>
-<div class="line"><a id="l01916" name="l01916"></a><span class="lineno"> 1916</span>    RT_CHECK_ERROR( rtGeometryInstanceSetGeometry( tile_instance, tile ) );</div>
-<div class="line"><a id="l01917" name="l01917"></a><span class="lineno"> 1917</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterialCount( tile_instance, 1 ) );</div>
-<div class="line"><a id="l01918" name="l01918"></a><span class="lineno"> 1918</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterial( tile_instance, 0, tile_material ) );</div>
-<div class="line"><a id="l01919" name="l01919"></a><span class="lineno"> 1919</span>    RT_CHECK_ERROR( rtGeometryGroupSetChild( geometry_group, 3, tile_instance ) );</div>
-<div class="line"><a id="l01920" name="l01920"></a><span class="lineno"> 1920</span>    <span class="comment">//voxels</span></div>
-<div class="line"><a id="l01921" name="l01921"></a><span class="lineno"> 1921</span>    RT_CHECK_ERROR( rtGeometryInstanceCreate( OptiX_Context, &amp;voxel_instance ) );</div>
-<div class="line"><a id="l01922" name="l01922"></a><span class="lineno"> 1922</span>    RT_CHECK_ERROR( rtGeometryInstanceSetGeometry( voxel_instance, voxel ) );</div>
-<div class="line"><a id="l01923" name="l01923"></a><span class="lineno"> 1923</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterialCount( voxel_instance, 1 ) );</div>
-<div class="line"><a id="l01924" name="l01924"></a><span class="lineno"> 1924</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterial( voxel_instance, 0, voxel_material ) );</div>
-<div class="line"><a id="l01925" name="l01925"></a><span class="lineno"> 1925</span>    RT_CHECK_ERROR( rtGeometryGroupSetChild( geometry_group, 4, voxel_instance ) );</div>
-<div class="line"><a id="l01926" name="l01926"></a><span class="lineno"> 1926</span> </div>
-<div class="line"><a id="l01927" name="l01927"></a><span class="lineno"> 1927</span>    <span class="comment">//voxels</span></div>
-<div class="line"><a id="l01928" name="l01928"></a><span class="lineno"> 1928</span>    RT_CHECK_ERROR( rtGeometryInstanceCreate( OptiX_Context, &amp;bbox_instance ) );</div>
-<div class="line"><a id="l01929" name="l01929"></a><span class="lineno"> 1929</span>    RT_CHECK_ERROR( rtGeometryInstanceSetGeometry( bbox_instance, bbox ) );</div>
-<div class="line"><a id="l01930" name="l01930"></a><span class="lineno"> 1930</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterialCount( bbox_instance, 1 ) );</div>
-<div class="line"><a id="l01931" name="l01931"></a><span class="lineno"> 1931</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterial( bbox_instance, 0, bbox_material ) );</div>
-<div class="line"><a id="l01932" name="l01932"></a><span class="lineno"> 1932</span>    RT_CHECK_ERROR( rtGeometryGroupSetChild( geometry_group, 5, bbox_instance ) );</div>
-<div class="line"><a id="l01933" name="l01933"></a><span class="lineno"> 1933</span> </div>
-<div class="line"><a id="l01934" name="l01934"></a><span class="lineno"> 1934</span>    <span class="comment">/* Set the top_object variable */</span></div>
-<div class="line"><a id="l01935" name="l01935"></a><span class="lineno"> 1935</span>    <span class="comment">//NOTE: Not sure exactly where this has to be set</span></div>
-<div class="line"><a id="l01936" name="l01936"></a><span class="lineno"> 1936</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;top_object&quot;</span>, &amp;top_object ) );</div>
-<div class="line"><a id="l01937" name="l01937"></a><span class="lineno"> 1937</span>    RT_CHECK_ERROR( rtVariableSetObject( top_object, top_level_group ) );</div>
-<div class="line"><a id="l01938" name="l01938"></a><span class="lineno"> 1938</span> </div>
-<div class="line"><a id="l01939" name="l01939"></a><span class="lineno"> 1939</span>    <span class="comment">//random number seed</span></div>
-<div class="line"><a id="l01940" name="l01940"></a><span class="lineno"> 1940</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;random_seed&quot;</span>, &amp;random_seed_RTvariable ) );</div>
-<div class="line"><a id="l01941" name="l01941"></a><span class="lineno"> 1941</span>    RT_CHECK_ERROR( rtVariableSet1ui( random_seed_RTvariable, std::chrono::system_clock::now().time_since_epoch().count() ) );</div>
-<div class="line"><a id="l01942" name="l01942"></a><span class="lineno"> 1942</span> </div>
-<div class="line"><a id="l01943" name="l01943"></a><span class="lineno"> 1943</span>    <span class="comment">//launch offset</span></div>
-<div class="line"><a id="l01944" name="l01944"></a><span class="lineno"> 1944</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;launch_offset&quot;</span>, &amp;launch_offset_RTvariable ) );</div>
-<div class="line"><a id="l01945" name="l01945"></a><span class="lineno"> 1945</span>    RT_CHECK_ERROR( rtVariableSet1ui( launch_offset_RTvariable, 0 ) );</div>
+<div class="line"><a id="l01873" name="l01873"></a><span class="lineno"> 1873</span>    RT_CHECK_ERROR( rtAccelerationCreate( OptiX_Context, &amp;top_level_acceleration ) );</div>
+<div class="line"><a id="l01874" name="l01874"></a><span class="lineno"> 1874</span>    RT_CHECK_ERROR( rtAccelerationSetBuilder(top_level_acceleration,<span class="stringliteral">&quot;NoAccel&quot;</span>) );</div>
+<div class="line"><a id="l01875" name="l01875"></a><span class="lineno"> 1875</span>    RT_CHECK_ERROR( rtAccelerationSetTraverser(top_level_acceleration,<span class="stringliteral">&quot;NoAccel&quot;</span>) );</div>
+<div class="line"><a id="l01876" name="l01876"></a><span class="lineno"> 1876</span>    RT_CHECK_ERROR( rtGroupSetAcceleration( top_level_group, top_level_acceleration) );</div>
+<div class="line"><a id="l01877" name="l01877"></a><span class="lineno"> 1877</span> </div>
+<div class="line"><a id="l01878" name="l01878"></a><span class="lineno"> 1878</span>    <span class="comment">/* mark acceleration as dirty */</span></div>
+<div class="line"><a id="l01879" name="l01879"></a><span class="lineno"> 1879</span>    RT_CHECK_ERROR( rtAccelerationMarkDirty( top_level_acceleration ) );</div>
+<div class="line"><a id="l01880" name="l01880"></a><span class="lineno"> 1880</span> </div>
+<div class="line"><a id="l01881" name="l01881"></a><span class="lineno"> 1881</span>    <span class="comment">/* Create transform node */</span></div>
+<div class="line"><a id="l01882" name="l01882"></a><span class="lineno"> 1882</span>    RT_CHECK_ERROR( rtTransformCreate( OptiX_Context, &amp;transform ) );</div>
+<div class="line"><a id="l01883" name="l01883"></a><span class="lineno"> 1883</span>    <span class="keywordtype">float</span> m[16];</div>
+<div class="line"><a id="l01884" name="l01884"></a><span class="lineno"> 1884</span>    m[0] = 1.f; m[1] = 0; m[2] = 0; m[3] = 0;</div>
+<div class="line"><a id="l01885" name="l01885"></a><span class="lineno"> 1885</span>    m[4] = 0.f; m[5] = 1.f; m[6] = 0; m[7] = 0;</div>
+<div class="line"><a id="l01886" name="l01886"></a><span class="lineno"> 1886</span>    m[8] = 0.f; m[9] = 0; m[10] = 1.f; m[11] = 0;</div>
+<div class="line"><a id="l01887" name="l01887"></a><span class="lineno"> 1887</span>    m[12] = 0.f; m[13] = 0; m[14] = 0; m[15] = 1.f;</div>
+<div class="line"><a id="l01888" name="l01888"></a><span class="lineno"> 1888</span>    RT_CHECK_ERROR( rtTransformSetMatrix( transform, 0, m, <span class="keyword">nullptr</span> ) );</div>
+<div class="line"><a id="l01889" name="l01889"></a><span class="lineno"> 1889</span>    RT_CHECK_ERROR( rtGroupSetChild( top_level_group, 0, transform ) );</div>
+<div class="line"><a id="l01890" name="l01890"></a><span class="lineno"> 1890</span> </div>
+<div class="line"><a id="l01891" name="l01891"></a><span class="lineno"> 1891</span>    <span class="comment">/* Create geometry group and associated acceleration*/</span></div>
+<div class="line"><a id="l01892" name="l01892"></a><span class="lineno"> 1892</span>    RT_CHECK_ERROR( rtGeometryGroupCreate( OptiX_Context, &amp;geometry_group ) );</div>
+<div class="line"><a id="l01893" name="l01893"></a><span class="lineno"> 1893</span>    RT_CHECK_ERROR( rtGeometryGroupSetChildCount( geometry_group, 6 ) );</div>
+<div class="line"><a id="l01894" name="l01894"></a><span class="lineno"> 1894</span>    RT_CHECK_ERROR( rtTransformSetChild( transform, geometry_group ) );</div>
+<div class="line"><a id="l01895" name="l01895"></a><span class="lineno"> 1895</span> </div>
+<div class="line"><a id="l01896" name="l01896"></a><span class="lineno"> 1896</span>    <span class="comment">//create acceleration object for group and specify some build hints</span></div>
+<div class="line"><a id="l01897" name="l01897"></a><span class="lineno"> 1897</span>    RT_CHECK_ERROR( rtAccelerationCreate(OptiX_Context,&amp;geometry_acceleration) );</div>
+<div class="line"><a id="l01898" name="l01898"></a><span class="lineno"> 1898</span>    RT_CHECK_ERROR( rtAccelerationSetBuilder(geometry_acceleration,<span class="stringliteral">&quot;Trbvh&quot;</span>) );</div>
+<div class="line"><a id="l01899" name="l01899"></a><span class="lineno"> 1899</span>    RT_CHECK_ERROR( rtAccelerationSetTraverser(geometry_acceleration,<span class="stringliteral">&quot;Bvh&quot;</span>) );</div>
+<div class="line"><a id="l01900" name="l01900"></a><span class="lineno"> 1900</span>    RT_CHECK_ERROR( rtGeometryGroupSetAcceleration( geometry_group, geometry_acceleration) );</div>
+<div class="line"><a id="l01901" name="l01901"></a><span class="lineno"> 1901</span>    RT_CHECK_ERROR( rtAccelerationMarkDirty( geometry_acceleration ) );</div>
+<div class="line"><a id="l01902" name="l01902"></a><span class="lineno"> 1902</span> </div>
+<div class="line"><a id="l01903" name="l01903"></a><span class="lineno"> 1903</span>    <span class="comment">/* Create geometry instances */</span></div>
+<div class="line"><a id="l01904" name="l01904"></a><span class="lineno"> 1904</span>    <span class="comment">//patches</span></div>
+<div class="line"><a id="l01905" name="l01905"></a><span class="lineno"> 1905</span>    RT_CHECK_ERROR( rtGeometryInstanceCreate( OptiX_Context, &amp;patch_instance ) );</div>
+<div class="line"><a id="l01906" name="l01906"></a><span class="lineno"> 1906</span>    RT_CHECK_ERROR( rtGeometryInstanceSetGeometry( patch_instance, patch ) );</div>
+<div class="line"><a id="l01907" name="l01907"></a><span class="lineno"> 1907</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterialCount( patch_instance, 1 ) );</div>
+<div class="line"><a id="l01908" name="l01908"></a><span class="lineno"> 1908</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterial( patch_instance, 0, patch_material ) );</div>
+<div class="line"><a id="l01909" name="l01909"></a><span class="lineno"> 1909</span>    RT_CHECK_ERROR( rtGeometryGroupSetChild( geometry_group, 0, patch_instance ) );</div>
+<div class="line"><a id="l01910" name="l01910"></a><span class="lineno"> 1910</span>    <span class="comment">//triangles</span></div>
+<div class="line"><a id="l01911" name="l01911"></a><span class="lineno"> 1911</span>    RT_CHECK_ERROR( rtGeometryInstanceCreate( OptiX_Context, &amp;triangle_instance ) );</div>
+<div class="line"><a id="l01912" name="l01912"></a><span class="lineno"> 1912</span>    RT_CHECK_ERROR( rtGeometryInstanceSetGeometry( triangle_instance, triangle ) );</div>
+<div class="line"><a id="l01913" name="l01913"></a><span class="lineno"> 1913</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterialCount( triangle_instance, 1 ) );</div>
+<div class="line"><a id="l01914" name="l01914"></a><span class="lineno"> 1914</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterial( triangle_instance, 0, triangle_material ) );</div>
+<div class="line"><a id="l01915" name="l01915"></a><span class="lineno"> 1915</span>    RT_CHECK_ERROR( rtGeometryGroupSetChild( geometry_group, 1, triangle_instance ) );</div>
+<div class="line"><a id="l01916" name="l01916"></a><span class="lineno"> 1916</span>    <span class="comment">//disks</span></div>
+<div class="line"><a id="l01917" name="l01917"></a><span class="lineno"> 1917</span>    RT_CHECK_ERROR( rtGeometryInstanceCreate( OptiX_Context, &amp;disk_instance ) );</div>
+<div class="line"><a id="l01918" name="l01918"></a><span class="lineno"> 1918</span>    RT_CHECK_ERROR( rtGeometryInstanceSetGeometry( disk_instance, disk ) );</div>
+<div class="line"><a id="l01919" name="l01919"></a><span class="lineno"> 1919</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterialCount( disk_instance, 1 ) );</div>
+<div class="line"><a id="l01920" name="l01920"></a><span class="lineno"> 1920</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterial( disk_instance, 0, disk_material ) );</div>
+<div class="line"><a id="l01921" name="l01921"></a><span class="lineno"> 1921</span>    RT_CHECK_ERROR( rtGeometryGroupSetChild( geometry_group, 2, disk_instance ) );</div>
+<div class="line"><a id="l01922" name="l01922"></a><span class="lineno"> 1922</span>    <span class="comment">//tiles</span></div>
+<div class="line"><a id="l01923" name="l01923"></a><span class="lineno"> 1923</span>    RT_CHECK_ERROR( rtGeometryInstanceCreate( OptiX_Context, &amp;tile_instance ) );</div>
+<div class="line"><a id="l01924" name="l01924"></a><span class="lineno"> 1924</span>    RT_CHECK_ERROR( rtGeometryInstanceSetGeometry( tile_instance, tile ) );</div>
+<div class="line"><a id="l01925" name="l01925"></a><span class="lineno"> 1925</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterialCount( tile_instance, 1 ) );</div>
+<div class="line"><a id="l01926" name="l01926"></a><span class="lineno"> 1926</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterial( tile_instance, 0, tile_material ) );</div>
+<div class="line"><a id="l01927" name="l01927"></a><span class="lineno"> 1927</span>    RT_CHECK_ERROR( rtGeometryGroupSetChild( geometry_group, 3, tile_instance ) );</div>
+<div class="line"><a id="l01928" name="l01928"></a><span class="lineno"> 1928</span>    <span class="comment">//voxels</span></div>
+<div class="line"><a id="l01929" name="l01929"></a><span class="lineno"> 1929</span>    RT_CHECK_ERROR( rtGeometryInstanceCreate( OptiX_Context, &amp;voxel_instance ) );</div>
+<div class="line"><a id="l01930" name="l01930"></a><span class="lineno"> 1930</span>    RT_CHECK_ERROR( rtGeometryInstanceSetGeometry( voxel_instance, voxel ) );</div>
+<div class="line"><a id="l01931" name="l01931"></a><span class="lineno"> 1931</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterialCount( voxel_instance, 1 ) );</div>
+<div class="line"><a id="l01932" name="l01932"></a><span class="lineno"> 1932</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterial( voxel_instance, 0, voxel_material ) );</div>
+<div class="line"><a id="l01933" name="l01933"></a><span class="lineno"> 1933</span>    RT_CHECK_ERROR( rtGeometryGroupSetChild( geometry_group, 4, voxel_instance ) );</div>
+<div class="line"><a id="l01934" name="l01934"></a><span class="lineno"> 1934</span> </div>
+<div class="line"><a id="l01935" name="l01935"></a><span class="lineno"> 1935</span>    <span class="comment">//voxels</span></div>
+<div class="line"><a id="l01936" name="l01936"></a><span class="lineno"> 1936</span>    RT_CHECK_ERROR( rtGeometryInstanceCreate( OptiX_Context, &amp;bbox_instance ) );</div>
+<div class="line"><a id="l01937" name="l01937"></a><span class="lineno"> 1937</span>    RT_CHECK_ERROR( rtGeometryInstanceSetGeometry( bbox_instance, bbox ) );</div>
+<div class="line"><a id="l01938" name="l01938"></a><span class="lineno"> 1938</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterialCount( bbox_instance, 1 ) );</div>
+<div class="line"><a id="l01939" name="l01939"></a><span class="lineno"> 1939</span>    RT_CHECK_ERROR( rtGeometryInstanceSetMaterial( bbox_instance, 0, bbox_material ) );</div>
+<div class="line"><a id="l01940" name="l01940"></a><span class="lineno"> 1940</span>    RT_CHECK_ERROR( rtGeometryGroupSetChild( geometry_group, 5, bbox_instance ) );</div>
+<div class="line"><a id="l01941" name="l01941"></a><span class="lineno"> 1941</span> </div>
+<div class="line"><a id="l01942" name="l01942"></a><span class="lineno"> 1942</span>    <span class="comment">/* Set the top_object variable */</span></div>
+<div class="line"><a id="l01943" name="l01943"></a><span class="lineno"> 1943</span>    <span class="comment">//NOTE: Not sure exactly where this has to be set</span></div>
+<div class="line"><a id="l01944" name="l01944"></a><span class="lineno"> 1944</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;top_object&quot;</span>, &amp;top_object ) );</div>
+<div class="line"><a id="l01945" name="l01945"></a><span class="lineno"> 1945</span>    RT_CHECK_ERROR( rtVariableSetObject( top_object, top_level_group ) );</div>
 <div class="line"><a id="l01946" name="l01946"></a><span class="lineno"> 1946</span> </div>
-<div class="line"><a id="l01947" name="l01947"></a><span class="lineno"> 1947</span>    <span class="comment">//maximum scattering depth</span></div>
-<div class="line"><a id="l01948" name="l01948"></a><span class="lineno"> 1948</span>    RT_CHECK_ERROR( rtBufferCreate( OptiX_Context, RT_BUFFER_INPUT, &amp;max_scatters_RTbuffer ) );</div>
-<div class="line"><a id="l01949" name="l01949"></a><span class="lineno"> 1949</span>    RT_CHECK_ERROR( rtBufferSetFormat( max_scatters_RTbuffer, RT_FORMAT_UNSIGNED_INT ) );</div>
-<div class="line"><a id="l01950" name="l01950"></a><span class="lineno"> 1950</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;max_scatters&quot;</span>, &amp;max_scatters_RTvariable ) );</div>
-<div class="line"><a id="l01951" name="l01951"></a><span class="lineno"> 1951</span>    RT_CHECK_ERROR( rtVariableSetObject( max_scatters_RTvariable, max_scatters_RTbuffer ) );</div>
-<div class="line"><a id="l01952" name="l01952"></a><span class="lineno"> 1952</span>    zeroBuffer1D( max_scatters_RTbuffer, 1 );</div>
-<div class="line"><a id="l01953" name="l01953"></a><span class="lineno"> 1953</span> </div>
-<div class="line"><a id="l01954" name="l01954"></a><span class="lineno"> 1954</span>    <span class="comment">// RTsize device_memory;</span></div>
-<div class="line"><a id="l01955" name="l01955"></a><span class="lineno"> 1955</span>    <span class="comment">// RT_CHECK_ERROR( rtContextGetAttribute( OptiX_Context, RT_CONTEXT_ATTRIBUTE_AVAILABLE_DEVICE_MEMORY, sizeof(RTsize), &amp;device_memory ) );</span></div>
-<div class="line"><a id="l01956" name="l01956"></a><span class="lineno"> 1956</span> </div>
-<div class="line"><a id="l01957" name="l01957"></a><span class="lineno"> 1957</span>    <span class="comment">// device_memory *= 1e-6;</span></div>
-<div class="line"><a id="l01958" name="l01958"></a><span class="lineno"> 1958</span>    <span class="comment">// if( device_memory &lt; 1000 ){</span></div>
-<div class="line"><a id="l01959" name="l01959"></a><span class="lineno"> 1959</span>    <span class="comment">//   printf(&quot;available device memory at end of OptiX initialization: %6.3f MB\n&quot;,device_memory);</span></div>
-<div class="line"><a id="l01960" name="l01960"></a><span class="lineno"> 1960</span>    <span class="comment">// }else{</span></div>
-<div class="line"><a id="l01961" name="l01961"></a><span class="lineno"> 1961</span>    <span class="comment">//   printf(&quot;available device memory at end of OptiX initialization: %6.3f GB\n&quot;,device_memory*1e-3);</span></div>
-<div class="line"><a id="l01962" name="l01962"></a><span class="lineno"> 1962</span>    <span class="comment">// }</span></div>
-<div class="line"><a id="l01963" name="l01963"></a><span class="lineno"> 1963</span> </div>
-<div class="line"><a id="l01964" name="l01964"></a><span class="lineno"> 1964</span>}</div>
-<div class="line"><a id="l01965" name="l01965"></a><span class="lineno"> 1965</span> </div>
-<div class="foldopen" id="foldopen01966" data-start="{" data-end="}">
-<div class="line"><a id="l01966" name="l01966"></a><span class="lineno"><a class="line" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934"> 1966</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a>() {</div>
-<div class="line"><a id="l01967" name="l01967"></a><span class="lineno"> 1967</span>    <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">updateGeometry</a>( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a98516632daccf958cca6b5b6582310bb">getAllUUIDs</a>() );</div>
-<div class="line"><a id="l01968" name="l01968"></a><span class="lineno"> 1968</span>}</div>
-</div>
-<div class="line"><a id="l01969" name="l01969"></a><span class="lineno"> 1969</span> </div>
-<div class="foldopen" id="foldopen01970" data-start="{" data-end="}">
-<div class="line"><a id="l01970" name="l01970"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a28ab342e5959369755037fa5ec039e70"> 1970</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a>( <span class="keyword">const</span> std::vector&lt;uint&gt;&amp; UUIDs ){</div>
+<div class="line"><a id="l01947" name="l01947"></a><span class="lineno"> 1947</span>    <span class="comment">//random number seed</span></div>
+<div class="line"><a id="l01948" name="l01948"></a><span class="lineno"> 1948</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;random_seed&quot;</span>, &amp;random_seed_RTvariable ) );</div>
+<div class="line"><a id="l01949" name="l01949"></a><span class="lineno"> 1949</span>    RT_CHECK_ERROR( rtVariableSet1ui( random_seed_RTvariable, std::chrono::system_clock::now().time_since_epoch().count() ) );</div>
+<div class="line"><a id="l01950" name="l01950"></a><span class="lineno"> 1950</span> </div>
+<div class="line"><a id="l01951" name="l01951"></a><span class="lineno"> 1951</span>    <span class="comment">//launch offset</span></div>
+<div class="line"><a id="l01952" name="l01952"></a><span class="lineno"> 1952</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;launch_offset&quot;</span>, &amp;launch_offset_RTvariable ) );</div>
+<div class="line"><a id="l01953" name="l01953"></a><span class="lineno"> 1953</span>    RT_CHECK_ERROR( rtVariableSet1ui( launch_offset_RTvariable, 0 ) );</div>
+<div class="line"><a id="l01954" name="l01954"></a><span class="lineno"> 1954</span> </div>
+<div class="line"><a id="l01955" name="l01955"></a><span class="lineno"> 1955</span>    <span class="comment">//maximum scattering depth</span></div>
+<div class="line"><a id="l01956" name="l01956"></a><span class="lineno"> 1956</span>    RT_CHECK_ERROR( rtBufferCreate( OptiX_Context, RT_BUFFER_INPUT, &amp;max_scatters_RTbuffer ) );</div>
+<div class="line"><a id="l01957" name="l01957"></a><span class="lineno"> 1957</span>    RT_CHECK_ERROR( rtBufferSetFormat( max_scatters_RTbuffer, RT_FORMAT_UNSIGNED_INT ) );</div>
+<div class="line"><a id="l01958" name="l01958"></a><span class="lineno"> 1958</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, <span class="stringliteral">&quot;max_scatters&quot;</span>, &amp;max_scatters_RTvariable ) );</div>
+<div class="line"><a id="l01959" name="l01959"></a><span class="lineno"> 1959</span>    RT_CHECK_ERROR( rtVariableSetObject( max_scatters_RTvariable, max_scatters_RTbuffer ) );</div>
+<div class="line"><a id="l01960" name="l01960"></a><span class="lineno"> 1960</span>    zeroBuffer1D( max_scatters_RTbuffer, 1 );</div>
+<div class="line"><a id="l01961" name="l01961"></a><span class="lineno"> 1961</span> </div>
+<div class="line"><a id="l01962" name="l01962"></a><span class="lineno"> 1962</span>    <span class="comment">// RTsize device_memory;</span></div>
+<div class="line"><a id="l01963" name="l01963"></a><span class="lineno"> 1963</span>    <span class="comment">// RT_CHECK_ERROR( rtContextGetAttribute( OptiX_Context, RT_CONTEXT_ATTRIBUTE_AVAILABLE_DEVICE_MEMORY, sizeof(RTsize), &amp;device_memory ) );</span></div>
+<div class="line"><a id="l01964" name="l01964"></a><span class="lineno"> 1964</span> </div>
+<div class="line"><a id="l01965" name="l01965"></a><span class="lineno"> 1965</span>    <span class="comment">// device_memory *= 1e-6;</span></div>
+<div class="line"><a id="l01966" name="l01966"></a><span class="lineno"> 1966</span>    <span class="comment">// if( device_memory &lt; 1000 ){</span></div>
+<div class="line"><a id="l01967" name="l01967"></a><span class="lineno"> 1967</span>    <span class="comment">//   printf(&quot;available device memory at end of OptiX initialization: %6.3f MB\n&quot;,device_memory);</span></div>
+<div class="line"><a id="l01968" name="l01968"></a><span class="lineno"> 1968</span>    <span class="comment">// }else{</span></div>
+<div class="line"><a id="l01969" name="l01969"></a><span class="lineno"> 1969</span>    <span class="comment">//   printf(&quot;available device memory at end of OptiX initialization: %6.3f GB\n&quot;,device_memory*1e-3);</span></div>
+<div class="line"><a id="l01970" name="l01970"></a><span class="lineno"> 1970</span>    <span class="comment">// }</span></div>
 <div class="line"><a id="l01971" name="l01971"></a><span class="lineno"> 1971</span> </div>
-<div class="line"><a id="l01972" name="l01972"></a><span class="lineno"> 1972</span>    <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l01973" name="l01973"></a><span class="lineno"> 1973</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;Updating geometry in radiation transport model...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l01974" name="l01974"></a><span class="lineno"> 1974</span>    }</div>
-<div class="line"><a id="l01975" name="l01975"></a><span class="lineno"> 1975</span> </div>
-<div class="line"><a id="l01976" name="l01976"></a><span class="lineno"> 1976</span>    <span class="keywordflow">for</span> ( <span class="keyword">auto</span> &amp;band : radiation_bands ) {</div>
-<div class="line"><a id="l01977" name="l01977"></a><span class="lineno"> 1977</span>        band.second.radiativepropertiesinitialized = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l01978" name="l01978"></a><span class="lineno"> 1978</span>    }</div>
+<div class="line"><a id="l01972" name="l01972"></a><span class="lineno"> 1972</span>}</div>
+<div class="line"><a id="l01973" name="l01973"></a><span class="lineno"> 1973</span> </div>
+<div class="foldopen" id="foldopen01974" data-start="{" data-end="}">
+<div class="line"><a id="l01974" name="l01974"></a><span class="lineno"><a class="line" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934"> 1974</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a>() {</div>
+<div class="line"><a id="l01975" name="l01975"></a><span class="lineno"> 1975</span>    <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">updateGeometry</a>( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a98516632daccf958cca6b5b6582310bb">getAllUUIDs</a>() );</div>
+<div class="line"><a id="l01976" name="l01976"></a><span class="lineno"> 1976</span>}</div>
+</div>
+<div class="line"><a id="l01977" name="l01977"></a><span class="lineno"> 1977</span> </div>
+<div class="foldopen" id="foldopen01978" data-start="{" data-end="}">
+<div class="line"><a id="l01978" name="l01978"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a28ab342e5959369755037fa5ec039e70"> 1978</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a>( <span class="keyword">const</span> std::vector&lt;uint&gt;&amp; UUIDs ){</div>
 <div class="line"><a id="l01979" name="l01979"></a><span class="lineno"> 1979</span> </div>
-<div class="line"><a id="l01980" name="l01980"></a><span class="lineno"> 1980</span>    context_UUIDs = UUIDs;</div>
-<div class="line"><a id="l01981" name="l01981"></a><span class="lineno"> 1981</span> </div>
-<div class="line"><a id="l01982" name="l01982"></a><span class="lineno"> 1982</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> u=context_UUIDs.size()-1; u&gt;=0; u-- ){</div>
-<div class="line"><a id="l01983" name="l01983"></a><span class="lineno"> 1983</span>        <span class="keywordtype">float</span> area = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a1dafe58b3251d2ef9d09112258b2e85d">getPrimitiveArea</a>(context_UUIDs.at(u));</div>
-<div class="line"><a id="l01984" name="l01984"></a><span class="lineno"> 1984</span>        <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>( context_UUIDs.at(u) ) ){</div>
-<div class="line"><a id="l01985" name="l01985"></a><span class="lineno"> 1985</span>            context_UUIDs.erase( context_UUIDs.begin()+u );</div>
-<div class="line"><a id="l01986" name="l01986"></a><span class="lineno"> 1986</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( area==0 || area!=area ){</div>
-<div class="line"><a id="l01987" name="l01987"></a><span class="lineno"> 1987</span>            context_UUIDs.erase( context_UUIDs.begin()+u );</div>
-<div class="line"><a id="l01988" name="l01988"></a><span class="lineno"> 1988</span>        }</div>
-<div class="line"><a id="l01989" name="l01989"></a><span class="lineno"> 1989</span>    }</div>
-<div class="line"><a id="l01990" name="l01990"></a><span class="lineno"> 1990</span> </div>
-<div class="line"><a id="l01991" name="l01991"></a><span class="lineno"> 1991</span>    <span class="comment">//--- Make Bounding Patches ---//</span></div>
-<div class="line"><a id="l01992" name="l01992"></a><span class="lineno"> 1992</span> </div>
-<div class="line"><a id="l01993" name="l01993"></a><span class="lineno"> 1993</span>    <span class="comment">//determine domain bounding sphere</span></div>
-<div class="line"><a id="l01994" name="l01994"></a><span class="lineno"> 1994</span>    <span class="keywordtype">float</span> sphere_radius;</div>
-<div class="line"><a id="l01995" name="l01995"></a><span class="lineno"> 1995</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> sphere_center;</div>
-<div class="line"><a id="l01996" name="l01996"></a><span class="lineno"> 1996</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3a6b0d25c5d9febb17787982c9f09d63">getDomainBoundingSphere</a>( sphere_center, sphere_radius );</div>
-<div class="line"><a id="l01997" name="l01997"></a><span class="lineno"> 1997</span> </div>
-<div class="line"><a id="l01998" name="l01998"></a><span class="lineno"> 1998</span>    rtVariableSet1f( bound_sphere_radius_RTvariable, sphere_radius );</div>
-<div class="line"><a id="l01999" name="l01999"></a><span class="lineno"> 1999</span>    rtVariableSet3f( bound_sphere_center_RTvariable, sphere_center.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, sphere_center.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, sphere_center.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> );</div>
+<div class="line"><a id="l01980" name="l01980"></a><span class="lineno"> 1980</span>    <span class="keywordflow">if</span>( message_flag ){</div>
+<div class="line"><a id="l01981" name="l01981"></a><span class="lineno"> 1981</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;Updating geometry in radiation transport model...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l01982" name="l01982"></a><span class="lineno"> 1982</span>    }</div>
+<div class="line"><a id="l01983" name="l01983"></a><span class="lineno"> 1983</span> </div>
+<div class="line"><a id="l01984" name="l01984"></a><span class="lineno"> 1984</span>    <span class="keywordflow">for</span> ( <span class="keyword">auto</span> &amp;band : radiation_bands ) {</div>
+<div class="line"><a id="l01985" name="l01985"></a><span class="lineno"> 1985</span>        band.second.radiativepropertiesinitialized = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l01986" name="l01986"></a><span class="lineno"> 1986</span>    }</div>
+<div class="line"><a id="l01987" name="l01987"></a><span class="lineno"> 1987</span> </div>
+<div class="line"><a id="l01988" name="l01988"></a><span class="lineno"> 1988</span>    context_UUIDs = UUIDs;</div>
+<div class="line"><a id="l01989" name="l01989"></a><span class="lineno"> 1989</span> </div>
+<div class="line"><a id="l01990" name="l01990"></a><span class="lineno"> 1990</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> u=context_UUIDs.size()-1; u&gt;=0; u-- ){</div>
+<div class="line"><a id="l01991" name="l01991"></a><span class="lineno"> 1991</span>        <span class="keywordtype">float</span> area = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a1dafe58b3251d2ef9d09112258b2e85d">getPrimitiveArea</a>(context_UUIDs.at(u));</div>
+<div class="line"><a id="l01992" name="l01992"></a><span class="lineno"> 1992</span>        <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>( context_UUIDs.at(u) ) ){</div>
+<div class="line"><a id="l01993" name="l01993"></a><span class="lineno"> 1993</span>            context_UUIDs.erase( context_UUIDs.begin()+u );</div>
+<div class="line"><a id="l01994" name="l01994"></a><span class="lineno"> 1994</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( area==0 || area!=area ){</div>
+<div class="line"><a id="l01995" name="l01995"></a><span class="lineno"> 1995</span>            context_UUIDs.erase( context_UUIDs.begin()+u );</div>
+<div class="line"><a id="l01996" name="l01996"></a><span class="lineno"> 1996</span>        }</div>
+<div class="line"><a id="l01997" name="l01997"></a><span class="lineno"> 1997</span>    }</div>
+<div class="line"><a id="l01998" name="l01998"></a><span class="lineno"> 1998</span> </div>
+<div class="line"><a id="l01999" name="l01999"></a><span class="lineno"> 1999</span>    <span class="comment">//--- Make Bounding Patches ---//</span></div>
 <div class="line"><a id="l02000" name="l02000"></a><span class="lineno"> 2000</span> </div>
-<div class="line"><a id="l02001" name="l02001"></a><span class="lineno"> 2001</span>    <span class="comment">//--- Populate Primitive Geometry Buffers ---//</span></div>
-<div class="line"><a id="l02002" name="l02002"></a><span class="lineno"> 2002</span> </div>
-<div class="line"><a id="l02003" name="l02003"></a><span class="lineno"> 2003</span>    <span class="keywordtype">size_t</span> Nprimitives = context_UUIDs.size(); <span class="comment">//Number of primitives</span></div>
-<div class="line"><a id="l02004" name="l02004"></a><span class="lineno"> 2004</span> </div>
-<div class="line"><a id="l02005" name="l02005"></a><span class="lineno"> 2005</span>    <span class="comment">//transformation matrix buffer - size=Nobjects</span></div>
-<div class="line"><a id="l02006" name="l02006"></a><span class="lineno"> 2006</span>    std::vector&lt;std::vector&lt;float&gt; &gt; m_global;</div>
-<div class="line"><a id="l02007" name="l02007"></a><span class="lineno"> 2007</span> </div>
-<div class="line"><a id="l02008" name="l02008"></a><span class="lineno"> 2008</span>    <span class="comment">//primitive type buffer - size=Nobjects</span></div>
-<div class="line"><a id="l02009" name="l02009"></a><span class="lineno"> 2009</span>    std::vector&lt;uint&gt; ptype_global;</div>
+<div class="line"><a id="l02001" name="l02001"></a><span class="lineno"> 2001</span>    <span class="comment">//determine domain bounding sphere</span></div>
+<div class="line"><a id="l02002" name="l02002"></a><span class="lineno"> 2002</span>    <span class="keywordtype">float</span> sphere_radius;</div>
+<div class="line"><a id="l02003" name="l02003"></a><span class="lineno"> 2003</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> sphere_center;</div>
+<div class="line"><a id="l02004" name="l02004"></a><span class="lineno"> 2004</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3a6b0d25c5d9febb17787982c9f09d63">getDomainBoundingSphere</a>( sphere_center, sphere_radius );</div>
+<div class="line"><a id="l02005" name="l02005"></a><span class="lineno"> 2005</span> </div>
+<div class="line"><a id="l02006" name="l02006"></a><span class="lineno"> 2006</span>    rtVariableSet1f( bound_sphere_radius_RTvariable, sphere_radius );</div>
+<div class="line"><a id="l02007" name="l02007"></a><span class="lineno"> 2007</span>    rtVariableSet3f( bound_sphere_center_RTvariable, sphere_center.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, sphere_center.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, sphere_center.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> );</div>
+<div class="line"><a id="l02008" name="l02008"></a><span class="lineno"> 2008</span> </div>
+<div class="line"><a id="l02009" name="l02009"></a><span class="lineno"> 2009</span>    <span class="comment">//--- Populate Primitive Geometry Buffers ---//</span></div>
 <div class="line"><a id="l02010" name="l02010"></a><span class="lineno"> 2010</span> </div>
-<div class="line"><a id="l02011" name="l02011"></a><span class="lineno"> 2011</span>    <span class="comment">//primitive area buffer - size=Nobjects</span></div>
-<div class="line"><a id="l02012" name="l02012"></a><span class="lineno"> 2012</span>    std::vector&lt;float&gt; area_global;</div>
-<div class="line"><a id="l02013" name="l02013"></a><span class="lineno"> 2013</span> </div>
-<div class="line"><a id="l02014" name="l02014"></a><span class="lineno"> 2014</span>    <span class="comment">//primitive UUID buffers - total size of all combined is Nobjects</span></div>
-<div class="line"><a id="l02015" name="l02015"></a><span class="lineno"> 2015</span>    std::vector&lt;uint&gt; patch_UUID;</div>
-<div class="line"><a id="l02016" name="l02016"></a><span class="lineno"> 2016</span>    std::vector&lt;uint&gt; triangle_UUID;</div>
-<div class="line"><a id="l02017" name="l02017"></a><span class="lineno"> 2017</span>    std::vector&lt;uint&gt; disk_UUID;</div>
-<div class="line"><a id="l02018" name="l02018"></a><span class="lineno"> 2018</span>    std::vector&lt;uint&gt; tile_UUID;</div>
-<div class="line"><a id="l02019" name="l02019"></a><span class="lineno"> 2019</span>    std::vector&lt;uint&gt; voxel_UUID;</div>
-<div class="line"><a id="l02020" name="l02020"></a><span class="lineno"> 2020</span> </div>
-<div class="line"><a id="l02021" name="l02021"></a><span class="lineno"> 2021</span>    <span class="comment">//twosided flag buffer - size=Nobjects</span></div>
-<div class="line"><a id="l02022" name="l02022"></a><span class="lineno"> 2022</span>    std::vector&lt;char&gt; twosided_flag_global;</div>
-<div class="line"><a id="l02023" name="l02023"></a><span class="lineno"> 2023</span> </div>
-<div class="line"><a id="l02024" name="l02024"></a><span class="lineno"> 2024</span>    <span class="comment">//primitive geometry specification buffers</span></div>
-<div class="line"><a id="l02025" name="l02025"></a><span class="lineno"> 2025</span>    std::vector&lt;std::vector&lt;optix::float3&gt; &gt; patch_vertices;</div>
-<div class="line"><a id="l02026" name="l02026"></a><span class="lineno"> 2026</span>    std::vector&lt;std::vector&lt;optix::float3&gt; &gt; triangle_vertices;</div>
-<div class="line"><a id="l02027" name="l02027"></a><span class="lineno"> 2027</span>    std::vector&lt;std::vector&lt;optix::float3&gt; &gt; disk_vertices;</div>
-<div class="line"><a id="l02028" name="l02028"></a><span class="lineno"> 2028</span>    std::vector&lt;std::vector&lt;optix::float3&gt; &gt; tile_vertices;</div>
-<div class="line"><a id="l02029" name="l02029"></a><span class="lineno"> 2029</span>    std::vector&lt;std::vector&lt;optix::float3&gt; &gt; voxel_vertices;</div>
-<div class="line"><a id="l02030" name="l02030"></a><span class="lineno"> 2030</span> </div>
-<div class="line"><a id="l02031" name="l02031"></a><span class="lineno"> 2031</span>    <span class="comment">//number of patch subdivisions for each tile - size is same as tile_vertices</span></div>
-<div class="line"><a id="l02032" name="l02032"></a><span class="lineno"> 2032</span>    std::vector&lt;optix::int2&gt; object_subdivisions;</div>
-<div class="line"><a id="l02033" name="l02033"></a><span class="lineno"> 2033</span> </div>
-<div class="line"><a id="l02034" name="l02034"></a><span class="lineno"> 2034</span>    std::vector&lt;uint&gt; objID_all = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2ef355a3298b21313700acec64232e22">getAllObjectIDs</a>();</div>
-<div class="line"><a id="l02035" name="l02035"></a><span class="lineno"> 2035</span> </div>
-<div class="line"><a id="l02036" name="l02036"></a><span class="lineno"> 2036</span>    <span class="comment">//ID of object corresponding to each primitive - size Nprimitives</span></div>
-<div class="line"><a id="l02037" name="l02037"></a><span class="lineno"> 2037</span>    std::vector&lt;uint&gt; objectID;</div>
-<div class="line"><a id="l02038" name="l02038"></a><span class="lineno"> 2038</span>    objectID.resize(Nprimitives);</div>
-<div class="line"><a id="l02039" name="l02039"></a><span class="lineno"> 2039</span> </div>
-<div class="line"><a id="l02040" name="l02040"></a><span class="lineno"> 2040</span>    std::size_t patch_count = 0;</div>
-<div class="line"><a id="l02041" name="l02041"></a><span class="lineno"> 2041</span>    std::size_t triangle_count = 0;</div>
-<div class="line"><a id="l02042" name="l02042"></a><span class="lineno"> 2042</span>    std::size_t disk_count = 0;</div>
-<div class="line"><a id="l02043" name="l02043"></a><span class="lineno"> 2043</span>    std::size_t tile_count = 0;</div>
-<div class="line"><a id="l02044" name="l02044"></a><span class="lineno"> 2044</span>    std::size_t voxel_count = 0;</div>
-<div class="line"><a id="l02045" name="l02045"></a><span class="lineno"> 2045</span> </div>
-<div class="line"><a id="l02046" name="l02046"></a><span class="lineno"> 2046</span>    area_global.resize(Nprimitives);</div>
+<div class="line"><a id="l02011" name="l02011"></a><span class="lineno"> 2011</span>    <span class="keywordtype">size_t</span> Nprimitives = context_UUIDs.size(); <span class="comment">//Number of primitives</span></div>
+<div class="line"><a id="l02012" name="l02012"></a><span class="lineno"> 2012</span> </div>
+<div class="line"><a id="l02013" name="l02013"></a><span class="lineno"> 2013</span>    <span class="comment">//transformation matrix buffer - size=Nobjects</span></div>
+<div class="line"><a id="l02014" name="l02014"></a><span class="lineno"> 2014</span>    std::vector&lt;std::vector&lt;float&gt; &gt; m_global;</div>
+<div class="line"><a id="l02015" name="l02015"></a><span class="lineno"> 2015</span> </div>
+<div class="line"><a id="l02016" name="l02016"></a><span class="lineno"> 2016</span>    <span class="comment">//primitive type buffer - size=Nobjects</span></div>
+<div class="line"><a id="l02017" name="l02017"></a><span class="lineno"> 2017</span>    std::vector&lt;uint&gt; ptype_global;</div>
+<div class="line"><a id="l02018" name="l02018"></a><span class="lineno"> 2018</span> </div>
+<div class="line"><a id="l02019" name="l02019"></a><span class="lineno"> 2019</span>    <span class="comment">//primitive area buffer - size=Nobjects</span></div>
+<div class="line"><a id="l02020" name="l02020"></a><span class="lineno"> 2020</span>    std::vector&lt;float&gt; area_global;</div>
+<div class="line"><a id="l02021" name="l02021"></a><span class="lineno"> 2021</span> </div>
+<div class="line"><a id="l02022" name="l02022"></a><span class="lineno"> 2022</span>    <span class="comment">//primitive UUID buffers - total size of all combined is Nobjects</span></div>
+<div class="line"><a id="l02023" name="l02023"></a><span class="lineno"> 2023</span>    std::vector&lt;uint&gt; patch_UUID;</div>
+<div class="line"><a id="l02024" name="l02024"></a><span class="lineno"> 2024</span>    std::vector&lt;uint&gt; triangle_UUID;</div>
+<div class="line"><a id="l02025" name="l02025"></a><span class="lineno"> 2025</span>    std::vector&lt;uint&gt; disk_UUID;</div>
+<div class="line"><a id="l02026" name="l02026"></a><span class="lineno"> 2026</span>    std::vector&lt;uint&gt; tile_UUID;</div>
+<div class="line"><a id="l02027" name="l02027"></a><span class="lineno"> 2027</span>    std::vector&lt;uint&gt; voxel_UUID;</div>
+<div class="line"><a id="l02028" name="l02028"></a><span class="lineno"> 2028</span> </div>
+<div class="line"><a id="l02029" name="l02029"></a><span class="lineno"> 2029</span>    <span class="comment">//twosided flag buffer - size=Nobjects</span></div>
+<div class="line"><a id="l02030" name="l02030"></a><span class="lineno"> 2030</span>    std::vector&lt;char&gt; twosided_flag_global;</div>
+<div class="line"><a id="l02031" name="l02031"></a><span class="lineno"> 2031</span> </div>
+<div class="line"><a id="l02032" name="l02032"></a><span class="lineno"> 2032</span>    <span class="comment">//primitive geometry specification buffers</span></div>
+<div class="line"><a id="l02033" name="l02033"></a><span class="lineno"> 2033</span>    std::vector&lt;std::vector&lt;optix::float3&gt; &gt; patch_vertices;</div>
+<div class="line"><a id="l02034" name="l02034"></a><span class="lineno"> 2034</span>    std::vector&lt;std::vector&lt;optix::float3&gt; &gt; triangle_vertices;</div>
+<div class="line"><a id="l02035" name="l02035"></a><span class="lineno"> 2035</span>    std::vector&lt;std::vector&lt;optix::float3&gt; &gt; disk_vertices;</div>
+<div class="line"><a id="l02036" name="l02036"></a><span class="lineno"> 2036</span>    std::vector&lt;std::vector&lt;optix::float3&gt; &gt; tile_vertices;</div>
+<div class="line"><a id="l02037" name="l02037"></a><span class="lineno"> 2037</span>    std::vector&lt;std::vector&lt;optix::float3&gt; &gt; voxel_vertices;</div>
+<div class="line"><a id="l02038" name="l02038"></a><span class="lineno"> 2038</span> </div>
+<div class="line"><a id="l02039" name="l02039"></a><span class="lineno"> 2039</span>    <span class="comment">//number of patch subdivisions for each tile - size is same as tile_vertices</span></div>
+<div class="line"><a id="l02040" name="l02040"></a><span class="lineno"> 2040</span>    std::vector&lt;optix::int2&gt; object_subdivisions;</div>
+<div class="line"><a id="l02041" name="l02041"></a><span class="lineno"> 2041</span> </div>
+<div class="line"><a id="l02042" name="l02042"></a><span class="lineno"> 2042</span>    std::vector&lt;uint&gt; objID_all = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2ef355a3298b21313700acec64232e22">getAllObjectIDs</a>();</div>
+<div class="line"><a id="l02043" name="l02043"></a><span class="lineno"> 2043</span> </div>
+<div class="line"><a id="l02044" name="l02044"></a><span class="lineno"> 2044</span>    <span class="comment">//ID of object corresponding to each primitive - size Nprimitives</span></div>
+<div class="line"><a id="l02045" name="l02045"></a><span class="lineno"> 2045</span>    std::vector&lt;uint&gt; objectID;</div>
+<div class="line"><a id="l02046" name="l02046"></a><span class="lineno"> 2046</span>    objectID.resize(Nprimitives);</div>
 <div class="line"><a id="l02047" name="l02047"></a><span class="lineno"> 2047</span> </div>
-<div class="line"><a id="l02048" name="l02048"></a><span class="lineno"> 2048</span>    primitiveID.resize(0);</div>
-<div class="line"><a id="l02049" name="l02049"></a><span class="lineno"> 2049</span> </div>
-<div class="line"><a id="l02050" name="l02050"></a><span class="lineno"> 2050</span>    <span class="comment">//Create a vector of primitive pointers &#39;primitives&#39; (note: only add one pointer for compound objects)</span></div>
-<div class="line"><a id="l02051" name="l02051"></a><span class="lineno"> 2051</span>    uint objID = 0;</div>
-<div class="line"><a id="l02052" name="l02052"></a><span class="lineno"> 2052</span>    uint ID = 99999;</div>
-<div class="line"><a id="l02053" name="l02053"></a><span class="lineno"> 2053</span>    <span class="keywordflow">for</span>( std::size_t u=0; u&lt;Nprimitives; u++ ){</div>
-<div class="line"><a id="l02054" name="l02054"></a><span class="lineno"> 2054</span> </div>
-<div class="line"><a id="l02055" name="l02055"></a><span class="lineno"> 2055</span>        uint p = context_UUIDs.at(u);</div>
-<div class="line"><a id="l02056" name="l02056"></a><span class="lineno"> 2056</span> </div>
-<div class="line"><a id="l02057" name="l02057"></a><span class="lineno"> 2057</span>        <span class="comment">//primitve area</span></div>
-<div class="line"><a id="l02058" name="l02058"></a><span class="lineno"> 2058</span>        area_global.at(u) = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a1dafe58b3251d2ef9d09112258b2e85d">getPrimitiveArea</a>(p);</div>
-<div class="line"><a id="l02059" name="l02059"></a><span class="lineno"> 2059</span> </div>
-<div class="line"><a id="l02060" name="l02060"></a><span class="lineno"> 2060</span>        uint parentID = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2d3e254d04f913e590a645b54886436e">getPrimitiveParentObjectID</a>(p);</div>
-<div class="line"><a id="l02061" name="l02061"></a><span class="lineno"> 2061</span> </div>
-<div class="line"><a id="l02062" name="l02062"></a><span class="lineno"> 2062</span>        <span class="keywordflow">if</span>( ID!=parentID || parentID==0 || context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3d9493949db2c5d8ddeef30afd2a9a0a">getObjectPointer</a>(parentID)-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()!=<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682aed347b5fb08bc5551b61310a964f0bde">helios::OBJECT_TYPE_TILE</a>  ){<span class="comment">//if this is a new object, or primitive does not belong to an object</span></div>
-<div class="line"><a id="l02063" name="l02063"></a><span class="lineno"> 2063</span>            primitiveID.push_back( u );</div>
-<div class="line"><a id="l02064" name="l02064"></a><span class="lineno"> 2064</span>            ID = parentID;</div>
-<div class="line"><a id="l02065" name="l02065"></a><span class="lineno"> 2065</span>            objID++;</div>
-<div class="line"><a id="l02066" name="l02066"></a><span class="lineno"> 2066</span>        }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l02067" name="l02067"></a><span class="lineno"> 2067</span>            ID = parentID;</div>
-<div class="line"><a id="l02068" name="l02068"></a><span class="lineno"> 2068</span>        }</div>
+<div class="line"><a id="l02048" name="l02048"></a><span class="lineno"> 2048</span>    std::size_t patch_count = 0;</div>
+<div class="line"><a id="l02049" name="l02049"></a><span class="lineno"> 2049</span>    std::size_t triangle_count = 0;</div>
+<div class="line"><a id="l02050" name="l02050"></a><span class="lineno"> 2050</span>    std::size_t disk_count = 0;</div>
+<div class="line"><a id="l02051" name="l02051"></a><span class="lineno"> 2051</span>    std::size_t tile_count = 0;</div>
+<div class="line"><a id="l02052" name="l02052"></a><span class="lineno"> 2052</span>    std::size_t voxel_count = 0;</div>
+<div class="line"><a id="l02053" name="l02053"></a><span class="lineno"> 2053</span> </div>
+<div class="line"><a id="l02054" name="l02054"></a><span class="lineno"> 2054</span>    area_global.resize(Nprimitives);</div>
+<div class="line"><a id="l02055" name="l02055"></a><span class="lineno"> 2055</span> </div>
+<div class="line"><a id="l02056" name="l02056"></a><span class="lineno"> 2056</span>    primitiveID.resize(0);</div>
+<div class="line"><a id="l02057" name="l02057"></a><span class="lineno"> 2057</span> </div>
+<div class="line"><a id="l02058" name="l02058"></a><span class="lineno"> 2058</span>    <span class="comment">//Create a vector of primitive pointers &#39;primitives&#39; (note: only add one pointer for compound objects)</span></div>
+<div class="line"><a id="l02059" name="l02059"></a><span class="lineno"> 2059</span>    uint objID = 0;</div>
+<div class="line"><a id="l02060" name="l02060"></a><span class="lineno"> 2060</span>    uint ID = 99999;</div>
+<div class="line"><a id="l02061" name="l02061"></a><span class="lineno"> 2061</span>    <span class="keywordflow">for</span>( std::size_t u=0; u&lt;Nprimitives; u++ ){</div>
+<div class="line"><a id="l02062" name="l02062"></a><span class="lineno"> 2062</span> </div>
+<div class="line"><a id="l02063" name="l02063"></a><span class="lineno"> 2063</span>        uint p = context_UUIDs.at(u);</div>
+<div class="line"><a id="l02064" name="l02064"></a><span class="lineno"> 2064</span> </div>
+<div class="line"><a id="l02065" name="l02065"></a><span class="lineno"> 2065</span>        <span class="comment">//primitve area</span></div>
+<div class="line"><a id="l02066" name="l02066"></a><span class="lineno"> 2066</span>        area_global.at(u) = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a1dafe58b3251d2ef9d09112258b2e85d">getPrimitiveArea</a>(p);</div>
+<div class="line"><a id="l02067" name="l02067"></a><span class="lineno"> 2067</span> </div>
+<div class="line"><a id="l02068" name="l02068"></a><span class="lineno"> 2068</span>        uint parentID = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2d3e254d04f913e590a645b54886436e">getPrimitiveParentObjectID</a>(p);</div>
 <div class="line"><a id="l02069" name="l02069"></a><span class="lineno"> 2069</span> </div>
-<div class="line"><a id="l02070" name="l02070"></a><span class="lineno"> 2070</span>        assert(objID&gt;0);</div>
-<div class="line"><a id="l02071" name="l02071"></a><span class="lineno"> 2071</span> </div>
-<div class="line"><a id="l02072" name="l02072"></a><span class="lineno"> 2072</span>        objectID.at(u) = objID-1;</div>
-<div class="line"><a id="l02073" name="l02073"></a><span class="lineno"> 2073</span> </div>
-<div class="line"><a id="l02074" name="l02074"></a><span class="lineno"> 2074</span>    }</div>
-<div class="line"><a id="l02075" name="l02075"></a><span class="lineno"> 2075</span> </div>
-<div class="line"><a id="l02076" name="l02076"></a><span class="lineno"> 2076</span>    <span class="comment">//Nobjects is the number of isolated primitives plus the number of compound objects (all primitives inside and object combined only counts as one element)</span></div>
-<div class="line"><a id="l02077" name="l02077"></a><span class="lineno"> 2077</span>    <span class="keywordtype">size_t</span> Nobjects = primitiveID.size();</div>
-<div class="line"><a id="l02078" name="l02078"></a><span class="lineno"> 2078</span> </div>
-<div class="line"><a id="l02079" name="l02079"></a><span class="lineno"> 2079</span>    m_global.resize(Nobjects);</div>
-<div class="line"><a id="l02080" name="l02080"></a><span class="lineno"> 2080</span>    ptype_global.resize(Nobjects);</div>
-<div class="line"><a id="l02081" name="l02081"></a><span class="lineno"> 2081</span>    twosided_flag_global.resize(Nobjects);<span class="comment">//initialize to be two-sided</span></div>
-<div class="line"><a id="l02082" name="l02082"></a><span class="lineno"> 2082</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;Nobjects; i++ ){</div>
-<div class="line"><a id="l02083" name="l02083"></a><span class="lineno"> 2083</span>        twosided_flag_global.at(i) = 1;</div>
-<div class="line"><a id="l02084" name="l02084"></a><span class="lineno"> 2084</span>    }</div>
-<div class="line"><a id="l02085" name="l02085"></a><span class="lineno"> 2085</span> </div>
-<div class="line"><a id="l02086" name="l02086"></a><span class="lineno"> 2086</span>    <span class="comment">//Populate attributes for each primitive in the pointer vector &#39;primitives&#39;</span></div>
-<div class="line"><a id="l02087" name="l02087"></a><span class="lineno"> 2087</span>    <span class="keywordflow">for</span>( std::size_t u=0; u&lt;Nobjects; u++ ){</div>
-<div class="line"><a id="l02088" name="l02088"></a><span class="lineno"> 2088</span> </div>
-<div class="line"><a id="l02089" name="l02089"></a><span class="lineno"> 2089</span>        uint p = context_UUIDs.at(primitiveID.at(u));</div>
-<div class="line"><a id="l02090" name="l02090"></a><span class="lineno"> 2090</span> </div>
-<div class="line"><a id="l02091" name="l02091"></a><span class="lineno"> 2091</span>        <span class="comment">//transformation matrix</span></div>
-<div class="line"><a id="l02092" name="l02092"></a><span class="lineno"> 2092</span>        <span class="keywordtype">float</span> m[16];</div>
+<div class="line"><a id="l02070" name="l02070"></a><span class="lineno"> 2070</span>        <span class="keywordflow">if</span>( ID!=parentID || parentID==0 || context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3d9493949db2c5d8ddeef30afd2a9a0a">getObjectPointer</a>(parentID)-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()!=<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682aed347b5fb08bc5551b61310a964f0bde">helios::OBJECT_TYPE_TILE</a>  ){<span class="comment">//if this is a new object, or primitive does not belong to an object</span></div>
+<div class="line"><a id="l02071" name="l02071"></a><span class="lineno"> 2071</span>            primitiveID.push_back( u );</div>
+<div class="line"><a id="l02072" name="l02072"></a><span class="lineno"> 2072</span>            ID = parentID;</div>
+<div class="line"><a id="l02073" name="l02073"></a><span class="lineno"> 2073</span>            objID++;</div>
+<div class="line"><a id="l02074" name="l02074"></a><span class="lineno"> 2074</span>        }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l02075" name="l02075"></a><span class="lineno"> 2075</span>            ID = parentID;</div>
+<div class="line"><a id="l02076" name="l02076"></a><span class="lineno"> 2076</span>        }</div>
+<div class="line"><a id="l02077" name="l02077"></a><span class="lineno"> 2077</span> </div>
+<div class="line"><a id="l02078" name="l02078"></a><span class="lineno"> 2078</span>        assert(objID&gt;0);</div>
+<div class="line"><a id="l02079" name="l02079"></a><span class="lineno"> 2079</span> </div>
+<div class="line"><a id="l02080" name="l02080"></a><span class="lineno"> 2080</span>        objectID.at(u) = objID-1;</div>
+<div class="line"><a id="l02081" name="l02081"></a><span class="lineno"> 2081</span> </div>
+<div class="line"><a id="l02082" name="l02082"></a><span class="lineno"> 2082</span>    }</div>
+<div class="line"><a id="l02083" name="l02083"></a><span class="lineno"> 2083</span> </div>
+<div class="line"><a id="l02084" name="l02084"></a><span class="lineno"> 2084</span>    <span class="comment">//Nobjects is the number of isolated primitives plus the number of compound objects (all primitives inside and object combined only counts as one element)</span></div>
+<div class="line"><a id="l02085" name="l02085"></a><span class="lineno"> 2085</span>    <span class="keywordtype">size_t</span> Nobjects = primitiveID.size();</div>
+<div class="line"><a id="l02086" name="l02086"></a><span class="lineno"> 2086</span> </div>
+<div class="line"><a id="l02087" name="l02087"></a><span class="lineno"> 2087</span>    m_global.resize(Nobjects);</div>
+<div class="line"><a id="l02088" name="l02088"></a><span class="lineno"> 2088</span>    ptype_global.resize(Nobjects);</div>
+<div class="line"><a id="l02089" name="l02089"></a><span class="lineno"> 2089</span>    twosided_flag_global.resize(Nobjects);<span class="comment">//initialize to be two-sided</span></div>
+<div class="line"><a id="l02090" name="l02090"></a><span class="lineno"> 2090</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;Nobjects; i++ ){</div>
+<div class="line"><a id="l02091" name="l02091"></a><span class="lineno"> 2091</span>        twosided_flag_global.at(i) = 1;</div>
+<div class="line"><a id="l02092" name="l02092"></a><span class="lineno"> 2092</span>    }</div>
 <div class="line"><a id="l02093" name="l02093"></a><span class="lineno"> 2093</span> </div>
-<div class="line"><a id="l02094" name="l02094"></a><span class="lineno"> 2094</span>        <span class="comment">//primitive type</span></div>
-<div class="line"><a id="l02095" name="l02095"></a><span class="lineno"> 2095</span>        <a class="code hl_enumeration" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601">helios::PrimitiveType</a> type = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a67bfd66f0a445f6485f1099f9eadc949">getPrimitiveType</a>(p);</div>
-<div class="line"><a id="l02096" name="l02096"></a><span class="lineno"> 2096</span>        ptype_global.at(u) =  type;</div>
-<div class="line"><a id="l02097" name="l02097"></a><span class="lineno"> 2097</span> </div>
-<div class="line"><a id="l02098" name="l02098"></a><span class="lineno"> 2098</span>        assert( ptype_global.at(u)&gt;=0 &amp;&amp; ptype_global.at(u)&lt;=4 );</div>
-<div class="line"><a id="l02099" name="l02099"></a><span class="lineno"> 2099</span> </div>
-<div class="line"><a id="l02100" name="l02100"></a><span class="lineno"> 2100</span>        <span class="comment">//primitive twosided flag</span></div>
-<div class="line"><a id="l02101" name="l02101"></a><span class="lineno"> 2101</span>        <span class="keywordflow">if</span>( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>( p,<span class="stringliteral">&quot;twosided_flag&quot;</span>) ){</div>
-<div class="line"><a id="l02102" name="l02102"></a><span class="lineno"> 2102</span>            uint flag;</div>
-<div class="line"><a id="l02103" name="l02103"></a><span class="lineno"> 2103</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>( p,<span class="stringliteral">&quot;twosided_flag&quot;</span>,flag);</div>
-<div class="line"><a id="l02104" name="l02104"></a><span class="lineno"> 2104</span>            twosided_flag_global.at(u) = char(flag);</div>
-<div class="line"><a id="l02105" name="l02105"></a><span class="lineno"> 2105</span>        }</div>
-<div class="line"><a id="l02106" name="l02106"></a><span class="lineno"> 2106</span> </div>
-<div class="line"><a id="l02107" name="l02107"></a><span class="lineno"> 2107</span>        uint parentID = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2d3e254d04f913e590a645b54886436e">getPrimitiveParentObjectID</a>(p);</div>
-<div class="line"><a id="l02108" name="l02108"></a><span class="lineno"> 2108</span> </div>
-<div class="line"><a id="l02109" name="l02109"></a><span class="lineno"> 2109</span>        <span class="keywordflow">if</span>( parentID&gt;0 &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3d9493949db2c5d8ddeef30afd2a9a0a">getObjectPointer</a>(parentID)-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682aed347b5fb08bc5551b61310a964f0bde">helios::OBJECT_TYPE_TILE</a> ){<span class="comment">//tile objects</span></div>
-<div class="line"><a id="l02110" name="l02110"></a><span class="lineno"> 2110</span> </div>
-<div class="line"><a id="l02111" name="l02111"></a><span class="lineno"> 2111</span>            ptype_global.at(u) = 3;</div>
-<div class="line"><a id="l02112" name="l02112"></a><span class="lineno"> 2112</span> </div>
-<div class="line"><a id="l02113" name="l02113"></a><span class="lineno"> 2113</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3d9493949db2c5d8ddeef30afd2a9a0a">getObjectPointer</a>(parentID)-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ac1e98d4f8098dadda345f9dc6dae73ca">getTransformationMatrix</a>(m);</div>
+<div class="line"><a id="l02094" name="l02094"></a><span class="lineno"> 2094</span>    <span class="comment">//Populate attributes for each primitive in the pointer vector &#39;primitives&#39;</span></div>
+<div class="line"><a id="l02095" name="l02095"></a><span class="lineno"> 2095</span>    <span class="keywordflow">for</span>( std::size_t u=0; u&lt;Nobjects; u++ ){</div>
+<div class="line"><a id="l02096" name="l02096"></a><span class="lineno"> 2096</span> </div>
+<div class="line"><a id="l02097" name="l02097"></a><span class="lineno"> 2097</span>        uint p = context_UUIDs.at(primitiveID.at(u));</div>
+<div class="line"><a id="l02098" name="l02098"></a><span class="lineno"> 2098</span> </div>
+<div class="line"><a id="l02099" name="l02099"></a><span class="lineno"> 2099</span>        <span class="comment">//transformation matrix</span></div>
+<div class="line"><a id="l02100" name="l02100"></a><span class="lineno"> 2100</span>        <span class="keywordtype">float</span> m[16];</div>
+<div class="line"><a id="l02101" name="l02101"></a><span class="lineno"> 2101</span> </div>
+<div class="line"><a id="l02102" name="l02102"></a><span class="lineno"> 2102</span>        <span class="comment">//primitive type</span></div>
+<div class="line"><a id="l02103" name="l02103"></a><span class="lineno"> 2103</span>        <a class="code hl_enumeration" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601">helios::PrimitiveType</a> type = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a67bfd66f0a445f6485f1099f9eadc949">getPrimitiveType</a>(p);</div>
+<div class="line"><a id="l02104" name="l02104"></a><span class="lineno"> 2104</span>        ptype_global.at(u) =  type;</div>
+<div class="line"><a id="l02105" name="l02105"></a><span class="lineno"> 2105</span> </div>
+<div class="line"><a id="l02106" name="l02106"></a><span class="lineno"> 2106</span>        assert( ptype_global.at(u)&gt;=0 &amp;&amp; ptype_global.at(u)&lt;=4 );</div>
+<div class="line"><a id="l02107" name="l02107"></a><span class="lineno"> 2107</span> </div>
+<div class="line"><a id="l02108" name="l02108"></a><span class="lineno"> 2108</span>        <span class="comment">//primitive twosided flag</span></div>
+<div class="line"><a id="l02109" name="l02109"></a><span class="lineno"> 2109</span>        <span class="keywordflow">if</span>( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>( p,<span class="stringliteral">&quot;twosided_flag&quot;</span>) ){</div>
+<div class="line"><a id="l02110" name="l02110"></a><span class="lineno"> 2110</span>            uint flag;</div>
+<div class="line"><a id="l02111" name="l02111"></a><span class="lineno"> 2111</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>( p,<span class="stringliteral">&quot;twosided_flag&quot;</span>,flag);</div>
+<div class="line"><a id="l02112" name="l02112"></a><span class="lineno"> 2112</span>            twosided_flag_global.at(u) = char(flag);</div>
+<div class="line"><a id="l02113" name="l02113"></a><span class="lineno"> 2113</span>        }</div>
 <div class="line"><a id="l02114" name="l02114"></a><span class="lineno"> 2114</span> </div>
-<div class="line"><a id="l02115" name="l02115"></a><span class="lineno"> 2115</span>            m_global.at(u).resize(16);</div>
-<div class="line"><a id="l02116" name="l02116"></a><span class="lineno"> 2116</span>            <span class="keywordflow">for</span>( uint i=0; i&lt;16; i++ ){</div>
-<div class="line"><a id="l02117" name="l02117"></a><span class="lineno"> 2117</span>                m_global.at(u).at(i) = m[i];</div>
-<div class="line"><a id="l02118" name="l02118"></a><span class="lineno"> 2118</span>            }</div>
-<div class="line"><a id="l02119" name="l02119"></a><span class="lineno"> 2119</span> </div>
-<div class="line"><a id="l02120" name="l02120"></a><span class="lineno"> 2120</span>            std::vector&lt;vec3&gt; vertices = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ad2b762dd7b31126150c6e6dc350a3914">getTileObjectPointer</a>(parentID)-&gt;<a class="code hl_function" href="classhelios_1_1_tile.html#aaea21403039646db33792c95be929afd">getVertices</a>();</div>
-<div class="line"><a id="l02121" name="l02121"></a><span class="lineno"> 2121</span>            std::vector&lt;optix::float3&gt; v(4);</div>
-<div class="line"><a id="l02122" name="l02122"></a><span class="lineno"> 2122</span>            v.at(0) = optix::make_float3(vertices.at(0).x,vertices.at(0).y,vertices.at(0).z);</div>
-<div class="line"><a id="l02123" name="l02123"></a><span class="lineno"> 2123</span>            v.at(1) = optix::make_float3(vertices.at(1).x,vertices.at(1).y,vertices.at(1).z);</div>
-<div class="line"><a id="l02124" name="l02124"></a><span class="lineno"> 2124</span>            v.at(2) = optix::make_float3(vertices.at(2).x,vertices.at(2).y,vertices.at(2).z);</div>
-<div class="line"><a id="l02125" name="l02125"></a><span class="lineno"> 2125</span>            v.at(3) = optix::make_float3(vertices.at(3).x,vertices.at(3).y,vertices.at(3).z);</div>
-<div class="line"><a id="l02126" name="l02126"></a><span class="lineno"> 2126</span>            tile_vertices.push_back(v);</div>
+<div class="line"><a id="l02115" name="l02115"></a><span class="lineno"> 2115</span>        uint parentID = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2d3e254d04f913e590a645b54886436e">getPrimitiveParentObjectID</a>(p);</div>
+<div class="line"><a id="l02116" name="l02116"></a><span class="lineno"> 2116</span> </div>
+<div class="line"><a id="l02117" name="l02117"></a><span class="lineno"> 2117</span>        <span class="keywordflow">if</span>( parentID&gt;0 &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3d9493949db2c5d8ddeef30afd2a9a0a">getObjectPointer</a>(parentID)-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()==<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682aed347b5fb08bc5551b61310a964f0bde">helios::OBJECT_TYPE_TILE</a> ){<span class="comment">//tile objects</span></div>
+<div class="line"><a id="l02118" name="l02118"></a><span class="lineno"> 2118</span> </div>
+<div class="line"><a id="l02119" name="l02119"></a><span class="lineno"> 2119</span>            ptype_global.at(u) = 3;</div>
+<div class="line"><a id="l02120" name="l02120"></a><span class="lineno"> 2120</span> </div>
+<div class="line"><a id="l02121" name="l02121"></a><span class="lineno"> 2121</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3d9493949db2c5d8ddeef30afd2a9a0a">getObjectPointer</a>(parentID)-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ac1e98d4f8098dadda345f9dc6dae73ca">getTransformationMatrix</a>(m);</div>
+<div class="line"><a id="l02122" name="l02122"></a><span class="lineno"> 2122</span> </div>
+<div class="line"><a id="l02123" name="l02123"></a><span class="lineno"> 2123</span>            m_global.at(u).resize(16);</div>
+<div class="line"><a id="l02124" name="l02124"></a><span class="lineno"> 2124</span>            <span class="keywordflow">for</span>( uint i=0; i&lt;16; i++ ){</div>
+<div class="line"><a id="l02125" name="l02125"></a><span class="lineno"> 2125</span>                m_global.at(u).at(i) = m[i];</div>
+<div class="line"><a id="l02126" name="l02126"></a><span class="lineno"> 2126</span>            }</div>
 <div class="line"><a id="l02127" name="l02127"></a><span class="lineno"> 2127</span> </div>
-<div class="line"><a id="l02128" name="l02128"></a><span class="lineno"> 2128</span>            <a class="code hl_struct" href="structhelios_1_1int2.html">helios::int2</a> subdiv = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ad2b762dd7b31126150c6e6dc350a3914">getTileObjectPointer</a>(parentID)-&gt;<a class="code hl_function" href="classhelios_1_1_tile.html#a4f4198becfe3cafd989b5aa6cd21d5cf">getSubdivisionCount</a>();</div>
-<div class="line"><a id="l02129" name="l02129"></a><span class="lineno"> 2129</span> </div>
-<div class="line"><a id="l02130" name="l02130"></a><span class="lineno"> 2130</span>            object_subdivisions.push_back( optix::make_int2(subdiv.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>,subdiv.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>) );</div>
-<div class="line"><a id="l02131" name="l02131"></a><span class="lineno"> 2131</span> </div>
-<div class="line"><a id="l02132" name="l02132"></a><span class="lineno"> 2132</span>            tile_UUID.push_back( primitiveID.at(u) );</div>
-<div class="line"><a id="l02133" name="l02133"></a><span class="lineno"> 2133</span>            tile_count ++;</div>
-<div class="line"><a id="l02134" name="l02134"></a><span class="lineno"> 2134</span> </div>
-<div class="line"><a id="l02135" name="l02135"></a><span class="lineno"> 2135</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a6fcd29f0c812849b3eb5bedec52cd744">helios::PRIMITIVE_TYPE_PATCH</a> ){ <span class="comment">//patches</span></div>
-<div class="line"><a id="l02136" name="l02136"></a><span class="lineno"> 2136</span> </div>
-<div class="line"><a id="l02137" name="l02137"></a><span class="lineno"> 2137</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a046e855d15fa88088be01adea38a67fd">getPrimitiveTransformationMatrix</a>( p,m);</div>
-<div class="line"><a id="l02138" name="l02138"></a><span class="lineno"> 2138</span> </div>
-<div class="line"><a id="l02139" name="l02139"></a><span class="lineno"> 2139</span>            m_global.at(u).resize(16);</div>
-<div class="line"><a id="l02140" name="l02140"></a><span class="lineno"> 2140</span>            <span class="keywordflow">for</span>( uint i=0; i&lt;16; i++ ){</div>
-<div class="line"><a id="l02141" name="l02141"></a><span class="lineno"> 2141</span>                m_global.at(u).at(i) = m[i];</div>
-<div class="line"><a id="l02142" name="l02142"></a><span class="lineno"> 2142</span>            }</div>
-<div class="line"><a id="l02143" name="l02143"></a><span class="lineno"> 2143</span> </div>
-<div class="line"><a id="l02144" name="l02144"></a><span class="lineno"> 2144</span>            std::vector&lt;vec3&gt; vertices = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ae8542fd1452150d3302675a0a3d991ed">getPrimitiveVertices</a>(p);</div>
-<div class="line"><a id="l02145" name="l02145"></a><span class="lineno"> 2145</span>            std::vector&lt;optix::float3&gt; v(4);</div>
-<div class="line"><a id="l02146" name="l02146"></a><span class="lineno"> 2146</span>            v.at(0) = optix::make_float3(vertices.at(0).x,vertices.at(0).y,vertices.at(0).z);</div>
-<div class="line"><a id="l02147" name="l02147"></a><span class="lineno"> 2147</span>            v.at(1) = optix::make_float3(vertices.at(1).x,vertices.at(1).y,vertices.at(1).z);</div>
-<div class="line"><a id="l02148" name="l02148"></a><span class="lineno"> 2148</span>            v.at(2) = optix::make_float3(vertices.at(2).x,vertices.at(2).y,vertices.at(2).z);</div>
-<div class="line"><a id="l02149" name="l02149"></a><span class="lineno"> 2149</span>            v.at(3) = optix::make_float3(vertices.at(3).x,vertices.at(3).y,vertices.at(3).z);</div>
-<div class="line"><a id="l02150" name="l02150"></a><span class="lineno"> 2150</span>            patch_vertices.push_back(v);</div>
-<div class="line"><a id="l02151" name="l02151"></a><span class="lineno"> 2151</span>            object_subdivisions.push_back( optix::make_int2(1,1) );</div>
-<div class="line"><a id="l02152" name="l02152"></a><span class="lineno"> 2152</span>            patch_UUID.push_back( primitiveID.at(u) );</div>
-<div class="line"><a id="l02153" name="l02153"></a><span class="lineno"> 2153</span>            patch_count ++;</div>
-<div class="line"><a id="l02154" name="l02154"></a><span class="lineno"> 2154</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601aeed8005c1692d92beefcbafe8147207c">helios::PRIMITIVE_TYPE_TRIANGLE</a> ){ <span class="comment">//triangles</span></div>
-<div class="line"><a id="l02155" name="l02155"></a><span class="lineno"> 2155</span> </div>
-<div class="line"><a id="l02156" name="l02156"></a><span class="lineno"> 2156</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a046e855d15fa88088be01adea38a67fd">getPrimitiveTransformationMatrix</a>(p,m);</div>
-<div class="line"><a id="l02157" name="l02157"></a><span class="lineno"> 2157</span> </div>
-<div class="line"><a id="l02158" name="l02158"></a><span class="lineno"> 2158</span>            m_global.at(u).resize(16);</div>
-<div class="line"><a id="l02159" name="l02159"></a><span class="lineno"> 2159</span>            <span class="keywordflow">for</span>( uint i=0; i&lt;16; i++ ){</div>
-<div class="line"><a id="l02160" name="l02160"></a><span class="lineno"> 2160</span>                m_global.at(u).at(i) = m[i];</div>
-<div class="line"><a id="l02161" name="l02161"></a><span class="lineno"> 2161</span>            }</div>
-<div class="line"><a id="l02162" name="l02162"></a><span class="lineno"> 2162</span> </div>
-<div class="line"><a id="l02163" name="l02163"></a><span class="lineno"> 2163</span>            std::vector&lt;vec3&gt; vertices = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ae8542fd1452150d3302675a0a3d991ed">getPrimitiveVertices</a>(p);</div>
-<div class="line"><a id="l02164" name="l02164"></a><span class="lineno"> 2164</span>            std::vector&lt;optix::float3&gt; v(3);</div>
-<div class="line"><a id="l02165" name="l02165"></a><span class="lineno"> 2165</span>            v.at(0) = optix::make_float3(vertices.at(0).x,vertices.at(0).y,vertices.at(0).z);</div>
-<div class="line"><a id="l02166" name="l02166"></a><span class="lineno"> 2166</span>            v.at(1) = optix::make_float3(vertices.at(1).x,vertices.at(1).y,vertices.at(1).z);</div>
-<div class="line"><a id="l02167" name="l02167"></a><span class="lineno"> 2167</span>            v.at(2) = optix::make_float3(vertices.at(2).x,vertices.at(2).y,vertices.at(2).z);</div>
-<div class="line"><a id="l02168" name="l02168"></a><span class="lineno"> 2168</span>            triangle_vertices.push_back(v);</div>
-<div class="line"><a id="l02169" name="l02169"></a><span class="lineno"> 2169</span>            object_subdivisions.push_back( optix::make_int2(1,1) );</div>
-<div class="line"><a id="l02170" name="l02170"></a><span class="lineno"> 2170</span>            triangle_UUID.push_back( primitiveID.at(u) );</div>
-<div class="line"><a id="l02171" name="l02171"></a><span class="lineno"> 2171</span>            triangle_count ++;</div>
-<div class="line"><a id="l02172" name="l02172"></a><span class="lineno"> 2172</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a963e2e943d9bd4d5c4648473802cf78c">helios::PRIMITIVE_TYPE_VOXEL</a> ){ <span class="comment">//voxels</span></div>
-<div class="line"><a id="l02173" name="l02173"></a><span class="lineno"> 2173</span> </div>
-<div class="line"><a id="l02174" name="l02174"></a><span class="lineno"> 2174</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a046e855d15fa88088be01adea38a67fd">getPrimitiveTransformationMatrix</a>(p,m);</div>
-<div class="line"><a id="l02175" name="l02175"></a><span class="lineno"> 2175</span> </div>
-<div class="line"><a id="l02176" name="l02176"></a><span class="lineno"> 2176</span>            m_global.at(u).resize(16);</div>
-<div class="line"><a id="l02177" name="l02177"></a><span class="lineno"> 2177</span>            <span class="keywordflow">for</span>( uint i=0; i&lt;16; i++ ){</div>
-<div class="line"><a id="l02178" name="l02178"></a><span class="lineno"> 2178</span>                m_global.at(u).at(i) = m[i];</div>
-<div class="line"><a id="l02179" name="l02179"></a><span class="lineno"> 2179</span>            }</div>
-<div class="line"><a id="l02180" name="l02180"></a><span class="lineno"> 2180</span> </div>
-<div class="line"><a id="l02181" name="l02181"></a><span class="lineno"> 2181</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> center = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#acadf5206cbfed7b8eaa2835702349cd9">getVoxelCenter</a>(p);</div>
-<div class="line"><a id="l02182" name="l02182"></a><span class="lineno"> 2182</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> size = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6a3f85d4f29f8f7432b6ef605172a1cb">getVoxelSize</a>(p);</div>
-<div class="line"><a id="l02183" name="l02183"></a><span class="lineno"> 2183</span>            std::vector&lt;optix::float3&gt; v;</div>
-<div class="line"><a id="l02184" name="l02184"></a><span class="lineno"> 2184</span>            v.push_back( optix::make_float3(center.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>-0.5f*size.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, center.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>-0.5f*size.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, center.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>-0.5f*size.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> ) );</div>
-<div class="line"><a id="l02185" name="l02185"></a><span class="lineno"> 2185</span>            v.push_back( optix::make_float3(center.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>+0.5f*size.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, center.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>+0.5f*size.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, center.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>+0.5f*size.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> ) );</div>
-<div class="line"><a id="l02186" name="l02186"></a><span class="lineno"> 2186</span>            voxel_vertices.push_back(v);</div>
-<div class="line"><a id="l02187" name="l02187"></a><span class="lineno"> 2187</span>            object_subdivisions.push_back( optix::make_int2(1,1) );</div>
-<div class="line"><a id="l02188" name="l02188"></a><span class="lineno"> 2188</span>            voxel_UUID.push_back( primitiveID.at(u) );</div>
-<div class="line"><a id="l02189" name="l02189"></a><span class="lineno"> 2189</span>            voxel_count ++;</div>
-<div class="line"><a id="l02190" name="l02190"></a><span class="lineno"> 2190</span>        }</div>
-<div class="line"><a id="l02191" name="l02191"></a><span class="lineno"> 2191</span> </div>
-<div class="line"><a id="l02192" name="l02192"></a><span class="lineno"> 2192</span>    }</div>
-<div class="line"><a id="l02193" name="l02193"></a><span class="lineno"> 2193</span> </div>
-<div class="line"><a id="l02194" name="l02194"></a><span class="lineno"> 2194</span>    <span class="comment">//Texture mask data</span></div>
-<div class="line"><a id="l02195" name="l02195"></a><span class="lineno"> 2195</span>    std::vector&lt;std::vector&lt;std::vector&lt;bool&gt; &gt; &gt; maskdata;</div>
-<div class="line"><a id="l02196" name="l02196"></a><span class="lineno"> 2196</span>    std::map&lt;std::string,uint&gt; maskname;</div>
-<div class="line"><a id="l02197" name="l02197"></a><span class="lineno"> 2197</span>    std::vector&lt;optix::int2&gt; masksize;</div>
-<div class="line"><a id="l02198" name="l02198"></a><span class="lineno"> 2198</span>    std::vector&lt;int&gt; maskID;</div>
-<div class="line"><a id="l02199" name="l02199"></a><span class="lineno"> 2199</span>    std::vector&lt;std::vector&lt;optix::float2&gt; &gt; uvdata;</div>
-<div class="line"><a id="l02200" name="l02200"></a><span class="lineno"> 2200</span>    std::vector&lt;int&gt; uvID;</div>
-<div class="line"><a id="l02201" name="l02201"></a><span class="lineno"> 2201</span>    maskID.resize(Nobjects);</div>
-<div class="line"><a id="l02202" name="l02202"></a><span class="lineno"> 2202</span>    uvID.resize(Nobjects);</div>
-<div class="line"><a id="l02203" name="l02203"></a><span class="lineno"> 2203</span> </div>
-<div class="line"><a id="l02204" name="l02204"></a><span class="lineno"> 2204</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> u=0; u&lt;Nobjects; u++ ){</div>
-<div class="line"><a id="l02205" name="l02205"></a><span class="lineno"> 2205</span> </div>
-<div class="line"><a id="l02206" name="l02206"></a><span class="lineno"> 2206</span>        uint p = context_UUIDs.at(primitiveID.at(u));</div>
-<div class="line"><a id="l02207" name="l02207"></a><span class="lineno"> 2207</span> </div>
-<div class="line"><a id="l02208" name="l02208"></a><span class="lineno"> 2208</span>        std::string maskfile = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4fffad72d1ebb517d9c41837e448d4f5">getPrimitiveTextureFile</a>(p);</div>
-<div class="line"><a id="l02209" name="l02209"></a><span class="lineno"> 2209</span> </div>
-<div class="line"><a id="l02210" name="l02210"></a><span class="lineno"> 2210</span>        uint parentID = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2d3e254d04f913e590a645b54886436e">getPrimitiveParentObjectID</a>(p);</div>
+<div class="line"><a id="l02128" name="l02128"></a><span class="lineno"> 2128</span>            std::vector&lt;vec3&gt; vertices = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ad2b762dd7b31126150c6e6dc350a3914">getTileObjectPointer</a>(parentID)-&gt;<a class="code hl_function" href="classhelios_1_1_tile.html#aaea21403039646db33792c95be929afd">getVertices</a>();</div>
+<div class="line"><a id="l02129" name="l02129"></a><span class="lineno"> 2129</span>            std::vector&lt;optix::float3&gt; v(4);</div>
+<div class="line"><a id="l02130" name="l02130"></a><span class="lineno"> 2130</span>            v.at(0) = optix::make_float3(vertices.at(0).x,vertices.at(0).y,vertices.at(0).z);</div>
+<div class="line"><a id="l02131" name="l02131"></a><span class="lineno"> 2131</span>            v.at(1) = optix::make_float3(vertices.at(1).x,vertices.at(1).y,vertices.at(1).z);</div>
+<div class="line"><a id="l02132" name="l02132"></a><span class="lineno"> 2132</span>            v.at(2) = optix::make_float3(vertices.at(2).x,vertices.at(2).y,vertices.at(2).z);</div>
+<div class="line"><a id="l02133" name="l02133"></a><span class="lineno"> 2133</span>            v.at(3) = optix::make_float3(vertices.at(3).x,vertices.at(3).y,vertices.at(3).z);</div>
+<div class="line"><a id="l02134" name="l02134"></a><span class="lineno"> 2134</span>            tile_vertices.push_back(v);</div>
+<div class="line"><a id="l02135" name="l02135"></a><span class="lineno"> 2135</span> </div>
+<div class="line"><a id="l02136" name="l02136"></a><span class="lineno"> 2136</span>            <a class="code hl_struct" href="structhelios_1_1int2.html">helios::int2</a> subdiv = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ad2b762dd7b31126150c6e6dc350a3914">getTileObjectPointer</a>(parentID)-&gt;<a class="code hl_function" href="classhelios_1_1_tile.html#a4f4198becfe3cafd989b5aa6cd21d5cf">getSubdivisionCount</a>();</div>
+<div class="line"><a id="l02137" name="l02137"></a><span class="lineno"> 2137</span> </div>
+<div class="line"><a id="l02138" name="l02138"></a><span class="lineno"> 2138</span>            object_subdivisions.push_back( optix::make_int2(subdiv.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>,subdiv.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>) );</div>
+<div class="line"><a id="l02139" name="l02139"></a><span class="lineno"> 2139</span> </div>
+<div class="line"><a id="l02140" name="l02140"></a><span class="lineno"> 2140</span>            tile_UUID.push_back( primitiveID.at(u) );</div>
+<div class="line"><a id="l02141" name="l02141"></a><span class="lineno"> 2141</span>            tile_count ++;</div>
+<div class="line"><a id="l02142" name="l02142"></a><span class="lineno"> 2142</span> </div>
+<div class="line"><a id="l02143" name="l02143"></a><span class="lineno"> 2143</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a6fcd29f0c812849b3eb5bedec52cd744">helios::PRIMITIVE_TYPE_PATCH</a> ){ <span class="comment">//patches</span></div>
+<div class="line"><a id="l02144" name="l02144"></a><span class="lineno"> 2144</span> </div>
+<div class="line"><a id="l02145" name="l02145"></a><span class="lineno"> 2145</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a046e855d15fa88088be01adea38a67fd">getPrimitiveTransformationMatrix</a>( p,m);</div>
+<div class="line"><a id="l02146" name="l02146"></a><span class="lineno"> 2146</span> </div>
+<div class="line"><a id="l02147" name="l02147"></a><span class="lineno"> 2147</span>            m_global.at(u).resize(16);</div>
+<div class="line"><a id="l02148" name="l02148"></a><span class="lineno"> 2148</span>            <span class="keywordflow">for</span>( uint i=0; i&lt;16; i++ ){</div>
+<div class="line"><a id="l02149" name="l02149"></a><span class="lineno"> 2149</span>                m_global.at(u).at(i) = m[i];</div>
+<div class="line"><a id="l02150" name="l02150"></a><span class="lineno"> 2150</span>            }</div>
+<div class="line"><a id="l02151" name="l02151"></a><span class="lineno"> 2151</span> </div>
+<div class="line"><a id="l02152" name="l02152"></a><span class="lineno"> 2152</span>            std::vector&lt;vec3&gt; vertices = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ae8542fd1452150d3302675a0a3d991ed">getPrimitiveVertices</a>(p);</div>
+<div class="line"><a id="l02153" name="l02153"></a><span class="lineno"> 2153</span>            std::vector&lt;optix::float3&gt; v(4);</div>
+<div class="line"><a id="l02154" name="l02154"></a><span class="lineno"> 2154</span>            v.at(0) = optix::make_float3(vertices.at(0).x,vertices.at(0).y,vertices.at(0).z);</div>
+<div class="line"><a id="l02155" name="l02155"></a><span class="lineno"> 2155</span>            v.at(1) = optix::make_float3(vertices.at(1).x,vertices.at(1).y,vertices.at(1).z);</div>
+<div class="line"><a id="l02156" name="l02156"></a><span class="lineno"> 2156</span>            v.at(2) = optix::make_float3(vertices.at(2).x,vertices.at(2).y,vertices.at(2).z);</div>
+<div class="line"><a id="l02157" name="l02157"></a><span class="lineno"> 2157</span>            v.at(3) = optix::make_float3(vertices.at(3).x,vertices.at(3).y,vertices.at(3).z);</div>
+<div class="line"><a id="l02158" name="l02158"></a><span class="lineno"> 2158</span>            patch_vertices.push_back(v);</div>
+<div class="line"><a id="l02159" name="l02159"></a><span class="lineno"> 2159</span>            object_subdivisions.push_back( optix::make_int2(1,1) );</div>
+<div class="line"><a id="l02160" name="l02160"></a><span class="lineno"> 2160</span>            patch_UUID.push_back( primitiveID.at(u) );</div>
+<div class="line"><a id="l02161" name="l02161"></a><span class="lineno"> 2161</span>            patch_count ++;</div>
+<div class="line"><a id="l02162" name="l02162"></a><span class="lineno"> 2162</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601aeed8005c1692d92beefcbafe8147207c">helios::PRIMITIVE_TYPE_TRIANGLE</a> ){ <span class="comment">//triangles</span></div>
+<div class="line"><a id="l02163" name="l02163"></a><span class="lineno"> 2163</span> </div>
+<div class="line"><a id="l02164" name="l02164"></a><span class="lineno"> 2164</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a046e855d15fa88088be01adea38a67fd">getPrimitiveTransformationMatrix</a>(p,m);</div>
+<div class="line"><a id="l02165" name="l02165"></a><span class="lineno"> 2165</span> </div>
+<div class="line"><a id="l02166" name="l02166"></a><span class="lineno"> 2166</span>            m_global.at(u).resize(16);</div>
+<div class="line"><a id="l02167" name="l02167"></a><span class="lineno"> 2167</span>            <span class="keywordflow">for</span>( uint i=0; i&lt;16; i++ ){</div>
+<div class="line"><a id="l02168" name="l02168"></a><span class="lineno"> 2168</span>                m_global.at(u).at(i) = m[i];</div>
+<div class="line"><a id="l02169" name="l02169"></a><span class="lineno"> 2169</span>            }</div>
+<div class="line"><a id="l02170" name="l02170"></a><span class="lineno"> 2170</span> </div>
+<div class="line"><a id="l02171" name="l02171"></a><span class="lineno"> 2171</span>            std::vector&lt;vec3&gt; vertices = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ae8542fd1452150d3302675a0a3d991ed">getPrimitiveVertices</a>(p);</div>
+<div class="line"><a id="l02172" name="l02172"></a><span class="lineno"> 2172</span>            std::vector&lt;optix::float3&gt; v(3);</div>
+<div class="line"><a id="l02173" name="l02173"></a><span class="lineno"> 2173</span>            v.at(0) = optix::make_float3(vertices.at(0).x,vertices.at(0).y,vertices.at(0).z);</div>
+<div class="line"><a id="l02174" name="l02174"></a><span class="lineno"> 2174</span>            v.at(1) = optix::make_float3(vertices.at(1).x,vertices.at(1).y,vertices.at(1).z);</div>
+<div class="line"><a id="l02175" name="l02175"></a><span class="lineno"> 2175</span>            v.at(2) = optix::make_float3(vertices.at(2).x,vertices.at(2).y,vertices.at(2).z);</div>
+<div class="line"><a id="l02176" name="l02176"></a><span class="lineno"> 2176</span>            triangle_vertices.push_back(v);</div>
+<div class="line"><a id="l02177" name="l02177"></a><span class="lineno"> 2177</span>            object_subdivisions.push_back( optix::make_int2(1,1) );</div>
+<div class="line"><a id="l02178" name="l02178"></a><span class="lineno"> 2178</span>            triangle_UUID.push_back( primitiveID.at(u) );</div>
+<div class="line"><a id="l02179" name="l02179"></a><span class="lineno"> 2179</span>            triangle_count ++;</div>
+<div class="line"><a id="l02180" name="l02180"></a><span class="lineno"> 2180</span>        }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( type == <a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a963e2e943d9bd4d5c4648473802cf78c">helios::PRIMITIVE_TYPE_VOXEL</a> ){ <span class="comment">//voxels</span></div>
+<div class="line"><a id="l02181" name="l02181"></a><span class="lineno"> 2181</span> </div>
+<div class="line"><a id="l02182" name="l02182"></a><span class="lineno"> 2182</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a046e855d15fa88088be01adea38a67fd">getPrimitiveTransformationMatrix</a>(p,m);</div>
+<div class="line"><a id="l02183" name="l02183"></a><span class="lineno"> 2183</span> </div>
+<div class="line"><a id="l02184" name="l02184"></a><span class="lineno"> 2184</span>            m_global.at(u).resize(16);</div>
+<div class="line"><a id="l02185" name="l02185"></a><span class="lineno"> 2185</span>            <span class="keywordflow">for</span>( uint i=0; i&lt;16; i++ ){</div>
+<div class="line"><a id="l02186" name="l02186"></a><span class="lineno"> 2186</span>                m_global.at(u).at(i) = m[i];</div>
+<div class="line"><a id="l02187" name="l02187"></a><span class="lineno"> 2187</span>            }</div>
+<div class="line"><a id="l02188" name="l02188"></a><span class="lineno"> 2188</span> </div>
+<div class="line"><a id="l02189" name="l02189"></a><span class="lineno"> 2189</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> center = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#acadf5206cbfed7b8eaa2835702349cd9">getVoxelCenter</a>(p);</div>
+<div class="line"><a id="l02190" name="l02190"></a><span class="lineno"> 2190</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> size = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a6a3f85d4f29f8f7432b6ef605172a1cb">getVoxelSize</a>(p);</div>
+<div class="line"><a id="l02191" name="l02191"></a><span class="lineno"> 2191</span>            std::vector&lt;optix::float3&gt; v;</div>
+<div class="line"><a id="l02192" name="l02192"></a><span class="lineno"> 2192</span>            v.push_back( optix::make_float3(center.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>-0.5f*size.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, center.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>-0.5f*size.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, center.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>-0.5f*size.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> ) );</div>
+<div class="line"><a id="l02193" name="l02193"></a><span class="lineno"> 2193</span>            v.push_back( optix::make_float3(center.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>+0.5f*size.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, center.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>+0.5f*size.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, center.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>+0.5f*size.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> ) );</div>
+<div class="line"><a id="l02194" name="l02194"></a><span class="lineno"> 2194</span>            voxel_vertices.push_back(v);</div>
+<div class="line"><a id="l02195" name="l02195"></a><span class="lineno"> 2195</span>            object_subdivisions.push_back( optix::make_int2(1,1) );</div>
+<div class="line"><a id="l02196" name="l02196"></a><span class="lineno"> 2196</span>            voxel_UUID.push_back( primitiveID.at(u) );</div>
+<div class="line"><a id="l02197" name="l02197"></a><span class="lineno"> 2197</span>            voxel_count ++;</div>
+<div class="line"><a id="l02198" name="l02198"></a><span class="lineno"> 2198</span>        }</div>
+<div class="line"><a id="l02199" name="l02199"></a><span class="lineno"> 2199</span> </div>
+<div class="line"><a id="l02200" name="l02200"></a><span class="lineno"> 2200</span>    }</div>
+<div class="line"><a id="l02201" name="l02201"></a><span class="lineno"> 2201</span> </div>
+<div class="line"><a id="l02202" name="l02202"></a><span class="lineno"> 2202</span>    <span class="comment">//Texture mask data</span></div>
+<div class="line"><a id="l02203" name="l02203"></a><span class="lineno"> 2203</span>    std::vector&lt;std::vector&lt;std::vector&lt;bool&gt; &gt; &gt; maskdata;</div>
+<div class="line"><a id="l02204" name="l02204"></a><span class="lineno"> 2204</span>    std::map&lt;std::string,uint&gt; maskname;</div>
+<div class="line"><a id="l02205" name="l02205"></a><span class="lineno"> 2205</span>    std::vector&lt;optix::int2&gt; masksize;</div>
+<div class="line"><a id="l02206" name="l02206"></a><span class="lineno"> 2206</span>    std::vector&lt;int&gt; maskID;</div>
+<div class="line"><a id="l02207" name="l02207"></a><span class="lineno"> 2207</span>    std::vector&lt;std::vector&lt;optix::float2&gt; &gt; uvdata;</div>
+<div class="line"><a id="l02208" name="l02208"></a><span class="lineno"> 2208</span>    std::vector&lt;int&gt; uvID;</div>
+<div class="line"><a id="l02209" name="l02209"></a><span class="lineno"> 2209</span>    maskID.resize(Nobjects);</div>
+<div class="line"><a id="l02210" name="l02210"></a><span class="lineno"> 2210</span>    uvID.resize(Nobjects);</div>
 <div class="line"><a id="l02211" name="l02211"></a><span class="lineno"> 2211</span> </div>
-<div class="line"><a id="l02212" name="l02212"></a><span class="lineno"> 2212</span>        <span class="keywordflow">if</span>( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a67bfd66f0a445f6485f1099f9eadc949">getPrimitiveType</a>(p)==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a963e2e943d9bd4d5c4648473802cf78c">PRIMITIVE_TYPE_VOXEL</a> || maskfile.size()==0 || !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a5e10a8afe134f4a55f65c81a9398c69c">primitiveTextureHasTransparencyChannel</a>(p) ){ <span class="comment">//does not have texture transparency</span></div>
+<div class="line"><a id="l02212" name="l02212"></a><span class="lineno"> 2212</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> u=0; u&lt;Nobjects; u++ ){</div>
 <div class="line"><a id="l02213" name="l02213"></a><span class="lineno"> 2213</span> </div>
-<div class="line"><a id="l02214" name="l02214"></a><span class="lineno"> 2214</span>            maskID.at(u) = -1;</div>
-<div class="line"><a id="l02215" name="l02215"></a><span class="lineno"> 2215</span>            uvID.at(u) = -1;</div>
-<div class="line"><a id="l02216" name="l02216"></a><span class="lineno"> 2216</span> </div>
-<div class="line"><a id="l02217" name="l02217"></a><span class="lineno"> 2217</span>        }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l02218" name="l02218"></a><span class="lineno"> 2218</span> </div>
-<div class="line"><a id="l02219" name="l02219"></a><span class="lineno"> 2219</span>            <span class="comment">// texture mask data //</span></div>
-<div class="line"><a id="l02220" name="l02220"></a><span class="lineno"> 2220</span> </div>
-<div class="line"><a id="l02221" name="l02221"></a><span class="lineno"> 2221</span>            <span class="comment">//Check if this mask has already been added</span></div>
-<div class="line"><a id="l02222" name="l02222"></a><span class="lineno"> 2222</span>            <span class="keywordflow">if</span>( maskname.find(maskfile) != maskname.end() ){ <span class="comment">//has already been added</span></div>
-<div class="line"><a id="l02223" name="l02223"></a><span class="lineno"> 2223</span>                uint ID = maskname.at(maskfile);</div>
-<div class="line"><a id="l02224" name="l02224"></a><span class="lineno"> 2224</span>                maskID.at(u) = ID;</div>
-<div class="line"><a id="l02225" name="l02225"></a><span class="lineno"> 2225</span>            }<span class="keywordflow">else</span>{ <span class="comment">//mask has not been added</span></div>
+<div class="line"><a id="l02214" name="l02214"></a><span class="lineno"> 2214</span>        uint p = context_UUIDs.at(primitiveID.at(u));</div>
+<div class="line"><a id="l02215" name="l02215"></a><span class="lineno"> 2215</span> </div>
+<div class="line"><a id="l02216" name="l02216"></a><span class="lineno"> 2216</span>        std::string maskfile = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a4fffad72d1ebb517d9c41837e448d4f5">getPrimitiveTextureFile</a>(p);</div>
+<div class="line"><a id="l02217" name="l02217"></a><span class="lineno"> 2217</span> </div>
+<div class="line"><a id="l02218" name="l02218"></a><span class="lineno"> 2218</span>        uint parentID = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2d3e254d04f913e590a645b54886436e">getPrimitiveParentObjectID</a>(p);</div>
+<div class="line"><a id="l02219" name="l02219"></a><span class="lineno"> 2219</span> </div>
+<div class="line"><a id="l02220" name="l02220"></a><span class="lineno"> 2220</span>        <span class="keywordflow">if</span>( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a67bfd66f0a445f6485f1099f9eadc949">getPrimitiveType</a>(p)==<a class="code hl_enumvalue" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a963e2e943d9bd4d5c4648473802cf78c">PRIMITIVE_TYPE_VOXEL</a> || maskfile.size()==0 || !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a5e10a8afe134f4a55f65c81a9398c69c">primitiveTextureHasTransparencyChannel</a>(p) ){ <span class="comment">//does not have texture transparency</span></div>
+<div class="line"><a id="l02221" name="l02221"></a><span class="lineno"> 2221</span> </div>
+<div class="line"><a id="l02222" name="l02222"></a><span class="lineno"> 2222</span>            maskID.at(u) = -1;</div>
+<div class="line"><a id="l02223" name="l02223"></a><span class="lineno"> 2223</span>            uvID.at(u) = -1;</div>
+<div class="line"><a id="l02224" name="l02224"></a><span class="lineno"> 2224</span> </div>
+<div class="line"><a id="l02225" name="l02225"></a><span class="lineno"> 2225</span>        }<span class="keywordflow">else</span>{</div>
 <div class="line"><a id="l02226" name="l02226"></a><span class="lineno"> 2226</span> </div>
-<div class="line"><a id="l02227" name="l02227"></a><span class="lineno"> 2227</span>                uint ID = maskdata.size();</div>
-<div class="line"><a id="l02228" name="l02228"></a><span class="lineno"> 2228</span>                maskID.at(u) = ID;</div>
-<div class="line"><a id="l02229" name="l02229"></a><span class="lineno"> 2229</span>                maskname[maskfile] = maskdata.size();</div>
-<div class="line"><a id="l02230" name="l02230"></a><span class="lineno"> 2230</span>                maskdata.push_back( *context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a98ad773979fff9efda47b44d71ac8e06">getPrimitiveTextureTransparencyData</a>(p) );</div>
-<div class="line"><a id="l02231" name="l02231"></a><span class="lineno"> 2231</span>                <span class="keyword">auto</span> sy = maskdata.back().size();</div>
-<div class="line"><a id="l02232" name="l02232"></a><span class="lineno"> 2232</span>                <span class="keyword">auto</span> sx = maskdata.back().front().size();</div>
-<div class="line"><a id="l02233" name="l02233"></a><span class="lineno"> 2233</span>                masksize.push_back( optix::make_int2(sx,sy) );</div>
-<div class="line"><a id="l02234" name="l02234"></a><span class="lineno"> 2234</span>            }</div>
-<div class="line"><a id="l02235" name="l02235"></a><span class="lineno"> 2235</span> </div>
-<div class="line"><a id="l02236" name="l02236"></a><span class="lineno"> 2236</span>            <span class="comment">// uv coordinates //</span></div>
-<div class="line"><a id="l02237" name="l02237"></a><span class="lineno"> 2237</span>            std::vector&lt;vec2&gt; uv;</div>
-<div class="line"><a id="l02238" name="l02238"></a><span class="lineno"> 2238</span> </div>
-<div class="line"><a id="l02239" name="l02239"></a><span class="lineno"> 2239</span>            <span class="keywordflow">if</span>( parentID==0 || context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3d9493949db2c5d8ddeef30afd2a9a0a">getObjectPointer</a>(parentID)-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()!=<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682aed347b5fb08bc5551b61310a964f0bde">helios::OBJECT_TYPE_TILE</a> ){ <span class="comment">//primitives</span></div>
-<div class="line"><a id="l02240" name="l02240"></a><span class="lineno"> 2240</span>                uv = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a5702f94aaba15bf6757aeb4d72d7774d">getPrimitiveTextureUV</a>(p);</div>
-<div class="line"><a id="l02241" name="l02241"></a><span class="lineno"> 2241</span>            }</div>
-<div class="line"><a id="l02242" name="l02242"></a><span class="lineno"> 2242</span> </div>
-<div class="line"><a id="l02243" name="l02243"></a><span class="lineno"> 2243</span>            <span class="keywordflow">if</span>( !uv.empty() ){ <span class="comment">//has custom (u,v) coordinates</span></div>
-<div class="line"><a id="l02244" name="l02244"></a><span class="lineno"> 2244</span>                std::vector&lt;optix::float2&gt; uvf2;</div>
-<div class="line"><a id="l02245" name="l02245"></a><span class="lineno"> 2245</span>                uvf2.resize(4);</div>
-<div class="line"><a id="l02246" name="l02246"></a><span class="lineno"> 2246</span>                <span class="comment">//first index if uvf2 is the minimum (u,v) coordinate, second index is the size of the (u,v) rectangle in x- and y-directions.</span></div>
-<div class="line"><a id="l02247" name="l02247"></a><span class="lineno"> 2247</span> </div>
-<div class="line"><a id="l02248" name="l02248"></a><span class="lineno"> 2248</span>                <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;uv.size(); i++ ){</div>
-<div class="line"><a id="l02249" name="l02249"></a><span class="lineno"> 2249</span>                    uvf2.at(i) = optix::make_float2(uv.at(i).x, uv.at(i).y);</div>
-<div class="line"><a id="l02250" name="l02250"></a><span class="lineno"> 2250</span>                }</div>
-<div class="line"><a id="l02251" name="l02251"></a><span class="lineno"> 2251</span>                <span class="keywordflow">if</span>( uv.size()==3 ){</div>
-<div class="line"><a id="l02252" name="l02252"></a><span class="lineno"> 2252</span>                    uvf2.at(3) = optix::make_float2(0,0);</div>
-<div class="line"><a id="l02253" name="l02253"></a><span class="lineno"> 2253</span>                }</div>
-<div class="line"><a id="l02254" name="l02254"></a><span class="lineno"> 2254</span>                uvdata.push_back( uvf2 );</div>
-<div class="line"><a id="l02255" name="l02255"></a><span class="lineno"> 2255</span>                uvID.at(u) = uvdata.size()-1;</div>
-<div class="line"><a id="l02256" name="l02256"></a><span class="lineno"> 2256</span>            }<span class="keywordflow">else</span>{ <span class="comment">//DOES NOT have custom (u,v) coordinates</span></div>
-<div class="line"><a id="l02257" name="l02257"></a><span class="lineno"> 2257</span>                uvID.at(u) = -1;</div>
-<div class="line"><a id="l02258" name="l02258"></a><span class="lineno"> 2258</span>            }</div>
-<div class="line"><a id="l02259" name="l02259"></a><span class="lineno"> 2259</span> </div>
-<div class="line"><a id="l02260" name="l02260"></a><span class="lineno"> 2260</span>        }</div>
-<div class="line"><a id="l02261" name="l02261"></a><span class="lineno"> 2261</span>    }</div>
-<div class="line"><a id="l02262" name="l02262"></a><span class="lineno"> 2262</span> </div>
-<div class="line"><a id="l02263" name="l02263"></a><span class="lineno"> 2263</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> size_max(0,0);</div>
-<div class="line"><a id="l02264" name="l02264"></a><span class="lineno"> 2264</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> t=0; t&lt;maskdata.size(); t++ ){</div>
-<div class="line"><a id="l02265" name="l02265"></a><span class="lineno"> 2265</span>        <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> sz( maskdata.at(t).front().size(), maskdata.at(t).size() );</div>
-<div class="line"><a id="l02266" name="l02266"></a><span class="lineno"> 2266</span>        <span class="keywordflow">if</span>( sz.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>&gt;size_max.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> ){</div>
-<div class="line"><a id="l02267" name="l02267"></a><span class="lineno"> 2267</span>            size_max.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> = sz.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>;</div>
+<div class="line"><a id="l02227" name="l02227"></a><span class="lineno"> 2227</span>            <span class="comment">// texture mask data //</span></div>
+<div class="line"><a id="l02228" name="l02228"></a><span class="lineno"> 2228</span> </div>
+<div class="line"><a id="l02229" name="l02229"></a><span class="lineno"> 2229</span>            <span class="comment">//Check if this mask has already been added</span></div>
+<div class="line"><a id="l02230" name="l02230"></a><span class="lineno"> 2230</span>            <span class="keywordflow">if</span>( maskname.find(maskfile) != maskname.end() ){ <span class="comment">//has already been added</span></div>
+<div class="line"><a id="l02231" name="l02231"></a><span class="lineno"> 2231</span>                uint ID = maskname.at(maskfile);</div>
+<div class="line"><a id="l02232" name="l02232"></a><span class="lineno"> 2232</span>                maskID.at(u) = ID;</div>
+<div class="line"><a id="l02233" name="l02233"></a><span class="lineno"> 2233</span>            }<span class="keywordflow">else</span>{ <span class="comment">//mask has not been added</span></div>
+<div class="line"><a id="l02234" name="l02234"></a><span class="lineno"> 2234</span> </div>
+<div class="line"><a id="l02235" name="l02235"></a><span class="lineno"> 2235</span>                uint ID = maskdata.size();</div>
+<div class="line"><a id="l02236" name="l02236"></a><span class="lineno"> 2236</span>                maskID.at(u) = ID;</div>
+<div class="line"><a id="l02237" name="l02237"></a><span class="lineno"> 2237</span>                maskname[maskfile] = maskdata.size();</div>
+<div class="line"><a id="l02238" name="l02238"></a><span class="lineno"> 2238</span>                maskdata.push_back( *context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a98ad773979fff9efda47b44d71ac8e06">getPrimitiveTextureTransparencyData</a>(p) );</div>
+<div class="line"><a id="l02239" name="l02239"></a><span class="lineno"> 2239</span>                <span class="keyword">auto</span> sy = maskdata.back().size();</div>
+<div class="line"><a id="l02240" name="l02240"></a><span class="lineno"> 2240</span>                <span class="keyword">auto</span> sx = maskdata.back().front().size();</div>
+<div class="line"><a id="l02241" name="l02241"></a><span class="lineno"> 2241</span>                masksize.push_back( optix::make_int2(sx,sy) );</div>
+<div class="line"><a id="l02242" name="l02242"></a><span class="lineno"> 2242</span>            }</div>
+<div class="line"><a id="l02243" name="l02243"></a><span class="lineno"> 2243</span> </div>
+<div class="line"><a id="l02244" name="l02244"></a><span class="lineno"> 2244</span>            <span class="comment">// uv coordinates //</span></div>
+<div class="line"><a id="l02245" name="l02245"></a><span class="lineno"> 2245</span>            std::vector&lt;vec2&gt; uv;</div>
+<div class="line"><a id="l02246" name="l02246"></a><span class="lineno"> 2246</span> </div>
+<div class="line"><a id="l02247" name="l02247"></a><span class="lineno"> 2247</span>            <span class="keywordflow">if</span>( parentID==0 || context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3d9493949db2c5d8ddeef30afd2a9a0a">getObjectPointer</a>(parentID)-&gt;<a class="code hl_function" href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">getObjectType</a>()!=<a class="code hl_enumvalue" href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682aed347b5fb08bc5551b61310a964f0bde">helios::OBJECT_TYPE_TILE</a> ){ <span class="comment">//primitives</span></div>
+<div class="line"><a id="l02248" name="l02248"></a><span class="lineno"> 2248</span>                uv = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a5702f94aaba15bf6757aeb4d72d7774d">getPrimitiveTextureUV</a>(p);</div>
+<div class="line"><a id="l02249" name="l02249"></a><span class="lineno"> 2249</span>            }</div>
+<div class="line"><a id="l02250" name="l02250"></a><span class="lineno"> 2250</span> </div>
+<div class="line"><a id="l02251" name="l02251"></a><span class="lineno"> 2251</span>            <span class="keywordflow">if</span>( !uv.empty() ){ <span class="comment">//has custom (u,v) coordinates</span></div>
+<div class="line"><a id="l02252" name="l02252"></a><span class="lineno"> 2252</span>                std::vector&lt;optix::float2&gt; uvf2;</div>
+<div class="line"><a id="l02253" name="l02253"></a><span class="lineno"> 2253</span>                uvf2.resize(4);</div>
+<div class="line"><a id="l02254" name="l02254"></a><span class="lineno"> 2254</span>                <span class="comment">//first index if uvf2 is the minimum (u,v) coordinate, second index is the size of the (u,v) rectangle in x- and y-directions.</span></div>
+<div class="line"><a id="l02255" name="l02255"></a><span class="lineno"> 2255</span> </div>
+<div class="line"><a id="l02256" name="l02256"></a><span class="lineno"> 2256</span>                <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;uv.size(); i++ ){</div>
+<div class="line"><a id="l02257" name="l02257"></a><span class="lineno"> 2257</span>                    uvf2.at(i) = optix::make_float2(uv.at(i).x, uv.at(i).y);</div>
+<div class="line"><a id="l02258" name="l02258"></a><span class="lineno"> 2258</span>                }</div>
+<div class="line"><a id="l02259" name="l02259"></a><span class="lineno"> 2259</span>                <span class="keywordflow">if</span>( uv.size()==3 ){</div>
+<div class="line"><a id="l02260" name="l02260"></a><span class="lineno"> 2260</span>                    uvf2.at(3) = optix::make_float2(0,0);</div>
+<div class="line"><a id="l02261" name="l02261"></a><span class="lineno"> 2261</span>                }</div>
+<div class="line"><a id="l02262" name="l02262"></a><span class="lineno"> 2262</span>                uvdata.push_back( uvf2 );</div>
+<div class="line"><a id="l02263" name="l02263"></a><span class="lineno"> 2263</span>                uvID.at(u) = uvdata.size()-1;</div>
+<div class="line"><a id="l02264" name="l02264"></a><span class="lineno"> 2264</span>            }<span class="keywordflow">else</span>{ <span class="comment">//DOES NOT have custom (u,v) coordinates</span></div>
+<div class="line"><a id="l02265" name="l02265"></a><span class="lineno"> 2265</span>                uvID.at(u) = -1;</div>
+<div class="line"><a id="l02266" name="l02266"></a><span class="lineno"> 2266</span>            }</div>
+<div class="line"><a id="l02267" name="l02267"></a><span class="lineno"> 2267</span> </div>
 <div class="line"><a id="l02268" name="l02268"></a><span class="lineno"> 2268</span>        }</div>
-<div class="line"><a id="l02269" name="l02269"></a><span class="lineno"> 2269</span>        <span class="keywordflow">if</span>( sz.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>&gt;size_max.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> ){</div>
-<div class="line"><a id="l02270" name="l02270"></a><span class="lineno"> 2270</span>            size_max.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> = sz.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>;</div>
-<div class="line"><a id="l02271" name="l02271"></a><span class="lineno"> 2271</span>        }</div>
-<div class="line"><a id="l02272" name="l02272"></a><span class="lineno"> 2272</span>    }</div>
-<div class="line"><a id="l02273" name="l02273"></a><span class="lineno"> 2273</span> </div>
-<div class="line"><a id="l02274" name="l02274"></a><span class="lineno"> 2274</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> t=0; t&lt;maskdata.size(); t++ ){</div>
-<div class="line"><a id="l02275" name="l02275"></a><span class="lineno"> 2275</span>        maskdata.at(t).resize(size_max.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>);</div>
-<div class="line"><a id="l02276" name="l02276"></a><span class="lineno"> 2276</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;size_max.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++ ){</div>
-<div class="line"><a id="l02277" name="l02277"></a><span class="lineno"> 2277</span>            maskdata.at(t).at(j).resize(size_max.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>);</div>
-<div class="line"><a id="l02278" name="l02278"></a><span class="lineno"> 2278</span>        }</div>
-<div class="line"><a id="l02279" name="l02279"></a><span class="lineno"> 2279</span>    }</div>
-<div class="line"><a id="l02280" name="l02280"></a><span class="lineno"> 2280</span> </div>
-<div class="line"><a id="l02281" name="l02281"></a><span class="lineno"> 2281</span>    initializeBuffer3D( maskdata_RTbuffer, maskdata );</div>
-<div class="line"><a id="l02282" name="l02282"></a><span class="lineno"> 2282</span>    initializeBuffer1Dint2( masksize_RTbuffer, masksize );</div>
-<div class="line"><a id="l02283" name="l02283"></a><span class="lineno"> 2283</span>    initializeBuffer1Di( maskID_RTbuffer, maskID );</div>
-<div class="line"><a id="l02284" name="l02284"></a><span class="lineno"> 2284</span> </div>
-<div class="line"><a id="l02285" name="l02285"></a><span class="lineno"> 2285</span>    initializeBuffer2Dfloat2( uvdata_RTbuffer, uvdata );</div>
-<div class="line"><a id="l02286" name="l02286"></a><span class="lineno"> 2286</span>    initializeBuffer1Di( uvID_RTbuffer, uvID );</div>
-<div class="line"><a id="l02287" name="l02287"></a><span class="lineno"> 2287</span> </div>
-<div class="line"><a id="l02288" name="l02288"></a><span class="lineno"> 2288</span>    <span class="comment">//Bounding box</span></div>
-<div class="line"><a id="l02289" name="l02289"></a><span class="lineno"> 2289</span>    <a class="code hl_struct" href="structhelios_1_1vec2.html">helios::vec2</a> xbounds, ybounds, zbounds;</div>
-<div class="line"><a id="l02290" name="l02290"></a><span class="lineno"> 2290</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a8690412a63d1eff69e679e48d03c9838">getDomainBoundingBox</a>( xbounds, ybounds, zbounds );</div>
-<div class="line"><a id="l02291" name="l02291"></a><span class="lineno"> 2291</span> </div>
-<div class="line"><a id="l02292" name="l02292"></a><span class="lineno"> 2292</span>    <span class="keywordflow">if</span>( periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>==1 || periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> ==1 ) {</div>
-<div class="line"><a id="l02293" name="l02293"></a><span class="lineno"> 2293</span>        <span class="keywordflow">if</span> (!cameras.empty()) {</div>
-<div class="line"><a id="l02294" name="l02294"></a><span class="lineno"> 2294</span>            <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;camera: cameras) {</div>
-<div class="line"><a id="l02295" name="l02295"></a><span class="lineno"> 2295</span>                <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> camerapos = camera.second.position;</div>
-<div class="line"><a id="l02296" name="l02296"></a><span class="lineno"> 2296</span>                <span class="keywordflow">if</span> (camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> &lt; xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a> || camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> &gt; xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> || camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> &lt; ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a> || camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> &gt; ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>) {</div>
-<div class="line"><a id="l02297" name="l02297"></a><span class="lineno"> 2297</span>                    std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::updateGeometry): camera position is outside of the domain bounding box. Disabling periodic boundary conditions.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02298" name="l02298"></a><span class="lineno"> 2298</span>                    periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a> = 0;</div>
-<div class="line"><a id="l02299" name="l02299"></a><span class="lineno"> 2299</span>                    periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> = 0;</div>
-<div class="line"><a id="l02300" name="l02300"></a><span class="lineno"> 2300</span>                    <span class="keywordflow">break</span>;</div>
-<div class="line"><a id="l02301" name="l02301"></a><span class="lineno"> 2301</span>                }</div>
-<div class="line"><a id="l02302" name="l02302"></a><span class="lineno"> 2302</span>                <span class="keywordflow">if</span> (camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> &lt; zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>) {</div>
-<div class="line"><a id="l02303" name="l02303"></a><span class="lineno"> 2303</span>                    zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a> = camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>;</div>
-<div class="line"><a id="l02304" name="l02304"></a><span class="lineno"> 2304</span>                }</div>
-<div class="line"><a id="l02305" name="l02305"></a><span class="lineno"> 2305</span>                <span class="keywordflow">if</span> (camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> &gt; zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>) {</div>
-<div class="line"><a id="l02306" name="l02306"></a><span class="lineno"> 2306</span>                    zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> = camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>;</div>
-<div class="line"><a id="l02307" name="l02307"></a><span class="lineno"> 2307</span>                }</div>
-<div class="line"><a id="l02308" name="l02308"></a><span class="lineno"> 2308</span>            }</div>
-<div class="line"><a id="l02309" name="l02309"></a><span class="lineno"> 2309</span>        }</div>
-<div class="line"><a id="l02310" name="l02310"></a><span class="lineno"> 2310</span>    }</div>
-<div class="line"><a id="l02311" name="l02311"></a><span class="lineno"> 2311</span> </div>
-<div class="line"><a id="l02312" name="l02312"></a><span class="lineno"> 2312</span>    xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a> -= 1e-5;</div>
-<div class="line"><a id="l02313" name="l02313"></a><span class="lineno"> 2313</span>    xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> += 1e-5;</div>
-<div class="line"><a id="l02314" name="l02314"></a><span class="lineno"> 2314</span>    ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a> -= 1e-5;</div>
-<div class="line"><a id="l02315" name="l02315"></a><span class="lineno"> 2315</span>    ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> += 1e-5;</div>
-<div class="line"><a id="l02316" name="l02316"></a><span class="lineno"> 2316</span>    zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a> -= 1e-5;</div>
-<div class="line"><a id="l02317" name="l02317"></a><span class="lineno"> 2317</span>    zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> += 1e-5;</div>
-<div class="line"><a id="l02318" name="l02318"></a><span class="lineno"> 2318</span> </div>
-<div class="line"><a id="l02319" name="l02319"></a><span class="lineno"> 2319</span>    std::vector&lt;uint&gt; bbox_UUID;</div>
-<div class="line"><a id="l02320" name="l02320"></a><span class="lineno"> 2320</span>    <span class="keywordtype">int</span> bbox_face_count = 0;</div>
-<div class="line"><a id="l02321" name="l02321"></a><span class="lineno"> 2321</span> </div>
-<div class="line"><a id="l02322" name="l02322"></a><span class="lineno"> 2322</span>    std::vector&lt;std::vector&lt;optix::float3&gt; &gt; bbox_vertices;</div>
-<div class="line"><a id="l02323" name="l02323"></a><span class="lineno"> 2323</span> </div>
-<div class="line"><a id="l02324" name="l02324"></a><span class="lineno"> 2324</span>    <span class="comment">//primitive type</span></div>
-<div class="line"><a id="l02325" name="l02325"></a><span class="lineno"> 2325</span> </div>
-<div class="line"><a id="l02326" name="l02326"></a><span class="lineno"> 2326</span>    std::vector&lt;optix::float3&gt; v;</div>
-<div class="line"><a id="l02327" name="l02327"></a><span class="lineno"> 2327</span>    v.resize(4);</div>
-<div class="line"><a id="l02328" name="l02328"></a><span class="lineno"> 2328</span> </div>
-<div class="line"><a id="l02329" name="l02329"></a><span class="lineno"> 2329</span>    <span class="keywordflow">if</span>( periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>==1 ){</div>
-<div class="line"><a id="l02330" name="l02330"></a><span class="lineno"> 2330</span> </div>
-<div class="line"><a id="l02331" name="l02331"></a><span class="lineno"> 2331</span>        <span class="comment">// -x facing</span></div>
-<div class="line"><a id="l02332" name="l02332"></a><span class="lineno"> 2332</span>        v.at(0) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
-<div class="line"><a id="l02333" name="l02333"></a><span class="lineno"> 2333</span>        v.at(1) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
-<div class="line"><a id="l02334" name="l02334"></a><span class="lineno"> 2334</span>        v.at(2) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
-<div class="line"><a id="l02335" name="l02335"></a><span class="lineno"> 2335</span>        v.at(3) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
-<div class="line"><a id="l02336" name="l02336"></a><span class="lineno"> 2336</span>        bbox_vertices.push_back(v);</div>
-<div class="line"><a id="l02337" name="l02337"></a><span class="lineno"> 2337</span>        bbox_UUID.push_back(Nprimitives+bbox_face_count);</div>
-<div class="line"><a id="l02338" name="l02338"></a><span class="lineno"> 2338</span>        objectID.push_back( Nobjects+bbox_face_count );</div>
-<div class="line"><a id="l02339" name="l02339"></a><span class="lineno"> 2339</span>        ptype_global.push_back(5);</div>
-<div class="line"><a id="l02340" name="l02340"></a><span class="lineno"> 2340</span>        bbox_face_count++;</div>
-<div class="line"><a id="l02341" name="l02341"></a><span class="lineno"> 2341</span> </div>
-<div class="line"><a id="l02342" name="l02342"></a><span class="lineno"> 2342</span>        <span class="comment">// +x facing</span></div>
-<div class="line"><a id="l02343" name="l02343"></a><span class="lineno"> 2343</span>        v.at(0) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
-<div class="line"><a id="l02344" name="l02344"></a><span class="lineno"> 2344</span>        v.at(1) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
-<div class="line"><a id="l02345" name="l02345"></a><span class="lineno"> 2345</span>        v.at(2) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
-<div class="line"><a id="l02346" name="l02346"></a><span class="lineno"> 2346</span>        v.at(3) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
-<div class="line"><a id="l02347" name="l02347"></a><span class="lineno"> 2347</span>        bbox_vertices.push_back(v);</div>
-<div class="line"><a id="l02348" name="l02348"></a><span class="lineno"> 2348</span>        bbox_UUID.push_back(Nprimitives+bbox_face_count);</div>
-<div class="line"><a id="l02349" name="l02349"></a><span class="lineno"> 2349</span>        objectID.push_back( Nobjects+bbox_face_count );</div>
-<div class="line"><a id="l02350" name="l02350"></a><span class="lineno"> 2350</span>        ptype_global.push_back(5);</div>
-<div class="line"><a id="l02351" name="l02351"></a><span class="lineno"> 2351</span>        bbox_face_count++;</div>
-<div class="line"><a id="l02352" name="l02352"></a><span class="lineno"> 2352</span> </div>
-<div class="line"><a id="l02353" name="l02353"></a><span class="lineno"> 2353</span>    }</div>
-<div class="line"><a id="l02354" name="l02354"></a><span class="lineno"> 2354</span>    <span class="keywordflow">if</span>( periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>==1 ){</div>
-<div class="line"><a id="l02355" name="l02355"></a><span class="lineno"> 2355</span> </div>
-<div class="line"><a id="l02356" name="l02356"></a><span class="lineno"> 2356</span>        <span class="comment">// -y facing</span></div>
-<div class="line"><a id="l02357" name="l02357"></a><span class="lineno"> 2357</span>        v.at(0) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
-<div class="line"><a id="l02358" name="l02358"></a><span class="lineno"> 2358</span>        v.at(1) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
-<div class="line"><a id="l02359" name="l02359"></a><span class="lineno"> 2359</span>        v.at(2) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
-<div class="line"><a id="l02360" name="l02360"></a><span class="lineno"> 2360</span>        v.at(3) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
-<div class="line"><a id="l02361" name="l02361"></a><span class="lineno"> 2361</span>        bbox_vertices.push_back(v);</div>
-<div class="line"><a id="l02362" name="l02362"></a><span class="lineno"> 2362</span>        bbox_UUID.push_back(Nprimitives+bbox_face_count);</div>
-<div class="line"><a id="l02363" name="l02363"></a><span class="lineno"> 2363</span>        objectID.push_back( Nobjects+bbox_face_count );</div>
-<div class="line"><a id="l02364" name="l02364"></a><span class="lineno"> 2364</span>        ptype_global.push_back(5);</div>
-<div class="line"><a id="l02365" name="l02365"></a><span class="lineno"> 2365</span>        bbox_face_count++;</div>
-<div class="line"><a id="l02366" name="l02366"></a><span class="lineno"> 2366</span> </div>
-<div class="line"><a id="l02367" name="l02367"></a><span class="lineno"> 2367</span>        <span class="comment">// +y facing</span></div>
-<div class="line"><a id="l02368" name="l02368"></a><span class="lineno"> 2368</span>        v.at(0) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
-<div class="line"><a id="l02369" name="l02369"></a><span class="lineno"> 2369</span>        v.at(1) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
-<div class="line"><a id="l02370" name="l02370"></a><span class="lineno"> 2370</span>        v.at(2) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
-<div class="line"><a id="l02371" name="l02371"></a><span class="lineno"> 2371</span>        v.at(3) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
-<div class="line"><a id="l02372" name="l02372"></a><span class="lineno"> 2372</span>        bbox_vertices.push_back(v);</div>
-<div class="line"><a id="l02373" name="l02373"></a><span class="lineno"> 2373</span>        bbox_UUID.push_back(Nprimitives+bbox_face_count);</div>
-<div class="line"><a id="l02374" name="l02374"></a><span class="lineno"> 2374</span>        objectID.push_back( Nobjects+bbox_face_count );</div>
-<div class="line"><a id="l02375" name="l02375"></a><span class="lineno"> 2375</span>        ptype_global.push_back(5);</div>
-<div class="line"><a id="l02376" name="l02376"></a><span class="lineno"> 2376</span>        bbox_face_count++;</div>
-<div class="line"><a id="l02377" name="l02377"></a><span class="lineno"> 2377</span> </div>
-<div class="line"><a id="l02378" name="l02378"></a><span class="lineno"> 2378</span>    }</div>
-<div class="line"><a id="l02379" name="l02379"></a><span class="lineno"> 2379</span> </div>
-<div class="line"><a id="l02380" name="l02380"></a><span class="lineno"> 2380</span>    initializeBuffer2Df( transform_matrix_RTbuffer, m_global );</div>
-<div class="line"><a id="l02381" name="l02381"></a><span class="lineno"> 2381</span>    initializeBuffer1Dui( primitive_type_RTbuffer, ptype_global );</div>
-<div class="line"><a id="l02382" name="l02382"></a><span class="lineno"> 2382</span>    initializeBuffer1Df( primitive_area_RTbuffer, area_global );</div>
-<div class="line"><a id="l02383" name="l02383"></a><span class="lineno"> 2383</span>    initializeBuffer1Dchar( twosided_flag_RTbuffer, twosided_flag_global );</div>
-<div class="line"><a id="l02384" name="l02384"></a><span class="lineno"> 2384</span>    initializeBuffer2Dfloat3( patch_vertices_RTbuffer, patch_vertices );</div>
-<div class="line"><a id="l02385" name="l02385"></a><span class="lineno"> 2385</span>    initializeBuffer2Dfloat3( triangle_vertices_RTbuffer, triangle_vertices );</div>
-<div class="line"><a id="l02386" name="l02386"></a><span class="lineno"> 2386</span>    initializeBuffer2Dfloat3( tile_vertices_RTbuffer, tile_vertices );</div>
-<div class="line"><a id="l02387" name="l02387"></a><span class="lineno"> 2387</span>    initializeBuffer2Dfloat3( voxel_vertices_RTbuffer, voxel_vertices );</div>
-<div class="line"><a id="l02388" name="l02388"></a><span class="lineno"> 2388</span>    initializeBuffer2Dfloat3( bbox_vertices_RTbuffer, bbox_vertices );</div>
-<div class="line"><a id="l02389" name="l02389"></a><span class="lineno"> 2389</span> </div>
-<div class="line"><a id="l02390" name="l02390"></a><span class="lineno"> 2390</span>    initializeBuffer1Dint2( object_subdivisions_RTbuffer, object_subdivisions );</div>
-<div class="line"><a id="l02391" name="l02391"></a><span class="lineno"> 2391</span> </div>
-<div class="line"><a id="l02392" name="l02392"></a><span class="lineno"> 2392</span>    initializeBuffer1Dui( patch_UUID_RTbuffer, patch_UUID );</div>
-<div class="line"><a id="l02393" name="l02393"></a><span class="lineno"> 2393</span>    initializeBuffer1Dui( triangle_UUID_RTbuffer, triangle_UUID );</div>
-<div class="line"><a id="l02394" name="l02394"></a><span class="lineno"> 2394</span>    initializeBuffer1Dui( disk_UUID_RTbuffer, disk_UUID );</div>
-<div class="line"><a id="l02395" name="l02395"></a><span class="lineno"> 2395</span>    initializeBuffer1Dui( tile_UUID_RTbuffer, tile_UUID );</div>
-<div class="line"><a id="l02396" name="l02396"></a><span class="lineno"> 2396</span>    initializeBuffer1Dui( voxel_UUID_RTbuffer, voxel_UUID );</div>
-<div class="line"><a id="l02397" name="l02397"></a><span class="lineno"> 2397</span>    initializeBuffer1Dui( bbox_UUID_RTbuffer, bbox_UUID );</div>
-<div class="line"><a id="l02398" name="l02398"></a><span class="lineno"> 2398</span> </div>
-<div class="line"><a id="l02399" name="l02399"></a><span class="lineno"> 2399</span>    initializeBuffer1Dui( objectID_RTbuffer, objectID );</div>
-<div class="line"><a id="l02400" name="l02400"></a><span class="lineno"> 2400</span>    initializeBuffer1Dui( primitiveID_RTbuffer, primitiveID );</div>
-<div class="line"><a id="l02401" name="l02401"></a><span class="lineno"> 2401</span> </div>
-<div class="line"><a id="l02402" name="l02402"></a><span class="lineno"> 2402</span>    RT_CHECK_ERROR( rtGeometrySetPrimitiveCount( patch, patch_count ) );</div>
-<div class="line"><a id="l02403" name="l02403"></a><span class="lineno"> 2403</span>    RT_CHECK_ERROR( rtGeometrySetPrimitiveCount( triangle, triangle_count ) );</div>
-<div class="line"><a id="l02404" name="l02404"></a><span class="lineno"> 2404</span>    RT_CHECK_ERROR( rtGeometrySetPrimitiveCount( disk, disk_count ) );</div>
-<div class="line"><a id="l02405" name="l02405"></a><span class="lineno"> 2405</span>    RT_CHECK_ERROR( rtGeometrySetPrimitiveCount( tile, tile_count ) );</div>
-<div class="line"><a id="l02406" name="l02406"></a><span class="lineno"> 2406</span>    RT_CHECK_ERROR( rtGeometrySetPrimitiveCount( voxel, voxel_count ) );</div>
-<div class="line"><a id="l02407" name="l02407"></a><span class="lineno"> 2407</span>    RT_CHECK_ERROR( rtGeometrySetPrimitiveCount( bbox, bbox_face_count ) );</div>
-<div class="line"><a id="l02408" name="l02408"></a><span class="lineno"> 2408</span> </div>
-<div class="line"><a id="l02409" name="l02409"></a><span class="lineno"> 2409</span>    RT_CHECK_ERROR( rtAccelerationMarkDirty( geometry_acceleration ) );</div>
-<div class="line"><a id="l02410" name="l02410"></a><span class="lineno"> 2410</span> </div>
-<div class="line"><a id="l02411" name="l02411"></a><span class="lineno"> 2411</span>    <span class="comment">/* Set the top_object variable */</span></div>
-<div class="line"><a id="l02412" name="l02412"></a><span class="lineno"> 2412</span>    <span class="comment">//NOTE: not sure if this has to be set again or not..</span></div>
-<div class="line"><a id="l02413" name="l02413"></a><span class="lineno"> 2413</span>    RT_CHECK_ERROR( rtVariableSetObject( top_object, top_level_group ) );</div>
-<div class="line"><a id="l02414" name="l02414"></a><span class="lineno"> 2414</span> </div>
-<div class="line"><a id="l02415" name="l02415"></a><span class="lineno"> 2415</span>    RTsize device_memory;</div>
-<div class="line"><a id="l02416" name="l02416"></a><span class="lineno"> 2416</span>    RT_CHECK_ERROR( rtContextGetAttribute( OptiX_Context, RT_CONTEXT_ATTRIBUTE_AVAILABLE_DEVICE_MEMORY, <span class="keyword">sizeof</span>(RTsize), &amp;device_memory ) );</div>
-<div class="line"><a id="l02417" name="l02417"></a><span class="lineno"> 2417</span> </div>
-<div class="line"><a id="l02418" name="l02418"></a><span class="lineno"> 2418</span>    device_memory *= 1e-6;</div>
-<div class="line"><a id="l02419" name="l02419"></a><span class="lineno"> 2419</span> </div>
-<div class="line"><a id="l02420" name="l02420"></a><span class="lineno"> 2420</span>    <span class="keywordflow">if</span>( device_memory&lt;500 ){</div>
-<div class="line"><a id="l02421" name="l02421"></a><span class="lineno"> 2421</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel): device memory is very low (&quot;</span> &lt;&lt; device_memory &lt;&lt; <span class="stringliteral">&quot; MB)&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02422" name="l02422"></a><span class="lineno"> 2422</span>    }</div>
-<div class="line"><a id="l02423" name="l02423"></a><span class="lineno"> 2423</span> </div>
-<div class="line"><a id="l02424" name="l02424"></a><span class="lineno"> 2424</span>    <span class="comment">/* Validate/Compile OptiX Context */</span></div>
-<div class="line"><a id="l02425" name="l02425"></a><span class="lineno"> 2425</span>    RT_CHECK_ERROR( rtContextValidate( OptiX_Context ) );</div>
-<div class="line"><a id="l02426" name="l02426"></a><span class="lineno"> 2426</span>    RT_CHECK_ERROR( rtContextCompile( OptiX_Context ) );</div>
+<div class="line"><a id="l02269" name="l02269"></a><span class="lineno"> 2269</span>    }</div>
+<div class="line"><a id="l02270" name="l02270"></a><span class="lineno"> 2270</span> </div>
+<div class="line"><a id="l02271" name="l02271"></a><span class="lineno"> 2271</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> size_max(0,0);</div>
+<div class="line"><a id="l02272" name="l02272"></a><span class="lineno"> 2272</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> t=0; t&lt;maskdata.size(); t++ ){</div>
+<div class="line"><a id="l02273" name="l02273"></a><span class="lineno"> 2273</span>        <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> sz( maskdata.at(t).front().size(), maskdata.at(t).size() );</div>
+<div class="line"><a id="l02274" name="l02274"></a><span class="lineno"> 2274</span>        <span class="keywordflow">if</span>( sz.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>&gt;size_max.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> ){</div>
+<div class="line"><a id="l02275" name="l02275"></a><span class="lineno"> 2275</span>            size_max.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> = sz.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>;</div>
+<div class="line"><a id="l02276" name="l02276"></a><span class="lineno"> 2276</span>        }</div>
+<div class="line"><a id="l02277" name="l02277"></a><span class="lineno"> 2277</span>        <span class="keywordflow">if</span>( sz.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>&gt;size_max.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> ){</div>
+<div class="line"><a id="l02278" name="l02278"></a><span class="lineno"> 2278</span>            size_max.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> = sz.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>;</div>
+<div class="line"><a id="l02279" name="l02279"></a><span class="lineno"> 2279</span>        }</div>
+<div class="line"><a id="l02280" name="l02280"></a><span class="lineno"> 2280</span>    }</div>
+<div class="line"><a id="l02281" name="l02281"></a><span class="lineno"> 2281</span> </div>
+<div class="line"><a id="l02282" name="l02282"></a><span class="lineno"> 2282</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> t=0; t&lt;maskdata.size(); t++ ){</div>
+<div class="line"><a id="l02283" name="l02283"></a><span class="lineno"> 2283</span>        maskdata.at(t).resize(size_max.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>);</div>
+<div class="line"><a id="l02284" name="l02284"></a><span class="lineno"> 2284</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;size_max.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++ ){</div>
+<div class="line"><a id="l02285" name="l02285"></a><span class="lineno"> 2285</span>            maskdata.at(t).at(j).resize(size_max.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>);</div>
+<div class="line"><a id="l02286" name="l02286"></a><span class="lineno"> 2286</span>        }</div>
+<div class="line"><a id="l02287" name="l02287"></a><span class="lineno"> 2287</span>    }</div>
+<div class="line"><a id="l02288" name="l02288"></a><span class="lineno"> 2288</span> </div>
+<div class="line"><a id="l02289" name="l02289"></a><span class="lineno"> 2289</span>    initializeBuffer3D( maskdata_RTbuffer, maskdata );</div>
+<div class="line"><a id="l02290" name="l02290"></a><span class="lineno"> 2290</span>    initializeBuffer1Dint2( masksize_RTbuffer, masksize );</div>
+<div class="line"><a id="l02291" name="l02291"></a><span class="lineno"> 2291</span>    initializeBuffer1Di( maskID_RTbuffer, maskID );</div>
+<div class="line"><a id="l02292" name="l02292"></a><span class="lineno"> 2292</span> </div>
+<div class="line"><a id="l02293" name="l02293"></a><span class="lineno"> 2293</span>    initializeBuffer2Dfloat2( uvdata_RTbuffer, uvdata );</div>
+<div class="line"><a id="l02294" name="l02294"></a><span class="lineno"> 2294</span>    initializeBuffer1Di( uvID_RTbuffer, uvID );</div>
+<div class="line"><a id="l02295" name="l02295"></a><span class="lineno"> 2295</span> </div>
+<div class="line"><a id="l02296" name="l02296"></a><span class="lineno"> 2296</span>    <span class="comment">//Bounding box</span></div>
+<div class="line"><a id="l02297" name="l02297"></a><span class="lineno"> 2297</span>    <a class="code hl_struct" href="structhelios_1_1vec2.html">helios::vec2</a> xbounds, ybounds, zbounds;</div>
+<div class="line"><a id="l02298" name="l02298"></a><span class="lineno"> 2298</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a8690412a63d1eff69e679e48d03c9838">getDomainBoundingBox</a>( xbounds, ybounds, zbounds );</div>
+<div class="line"><a id="l02299" name="l02299"></a><span class="lineno"> 2299</span> </div>
+<div class="line"><a id="l02300" name="l02300"></a><span class="lineno"> 2300</span>    <span class="keywordflow">if</span>( periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>==1 || periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> ==1 ) {</div>
+<div class="line"><a id="l02301" name="l02301"></a><span class="lineno"> 2301</span>        <span class="keywordflow">if</span> (!cameras.empty()) {</div>
+<div class="line"><a id="l02302" name="l02302"></a><span class="lineno"> 2302</span>            <span class="keywordflow">for</span> (<span class="keyword">auto</span> &amp;camera: cameras) {</div>
+<div class="line"><a id="l02303" name="l02303"></a><span class="lineno"> 2303</span>                <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> camerapos = camera.second.position;</div>
+<div class="line"><a id="l02304" name="l02304"></a><span class="lineno"> 2304</span>                <span class="keywordflow">if</span> (camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> &lt; xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a> || camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a> &gt; xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> || camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> &lt; ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a> || camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a> &gt; ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>) {</div>
+<div class="line"><a id="l02305" name="l02305"></a><span class="lineno"> 2305</span>                    std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::updateGeometry): camera position is outside of the domain bounding box. Disabling periodic boundary conditions.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02306" name="l02306"></a><span class="lineno"> 2306</span>                    periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a> = 0;</div>
+<div class="line"><a id="l02307" name="l02307"></a><span class="lineno"> 2307</span>                    periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> = 0;</div>
+<div class="line"><a id="l02308" name="l02308"></a><span class="lineno"> 2308</span>                    <span class="keywordflow">break</span>;</div>
+<div class="line"><a id="l02309" name="l02309"></a><span class="lineno"> 2309</span>                }</div>
+<div class="line"><a id="l02310" name="l02310"></a><span class="lineno"> 2310</span>                <span class="keywordflow">if</span> (camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> &lt; zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>) {</div>
+<div class="line"><a id="l02311" name="l02311"></a><span class="lineno"> 2311</span>                    zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a> = camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>;</div>
+<div class="line"><a id="l02312" name="l02312"></a><span class="lineno"> 2312</span>                }</div>
+<div class="line"><a id="l02313" name="l02313"></a><span class="lineno"> 2313</span>                <span class="keywordflow">if</span> (camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> &gt; zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>) {</div>
+<div class="line"><a id="l02314" name="l02314"></a><span class="lineno"> 2314</span>                    zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> = camerapos.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>;</div>
+<div class="line"><a id="l02315" name="l02315"></a><span class="lineno"> 2315</span>                }</div>
+<div class="line"><a id="l02316" name="l02316"></a><span class="lineno"> 2316</span>            }</div>
+<div class="line"><a id="l02317" name="l02317"></a><span class="lineno"> 2317</span>        }</div>
+<div class="line"><a id="l02318" name="l02318"></a><span class="lineno"> 2318</span>    }</div>
+<div class="line"><a id="l02319" name="l02319"></a><span class="lineno"> 2319</span> </div>
+<div class="line"><a id="l02320" name="l02320"></a><span class="lineno"> 2320</span>    xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a> -= 1e-5;</div>
+<div class="line"><a id="l02321" name="l02321"></a><span class="lineno"> 2321</span>    xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> += 1e-5;</div>
+<div class="line"><a id="l02322" name="l02322"></a><span class="lineno"> 2322</span>    ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a> -= 1e-5;</div>
+<div class="line"><a id="l02323" name="l02323"></a><span class="lineno"> 2323</span>    ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> += 1e-5;</div>
+<div class="line"><a id="l02324" name="l02324"></a><span class="lineno"> 2324</span>    zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a> -= 1e-5;</div>
+<div class="line"><a id="l02325" name="l02325"></a><span class="lineno"> 2325</span>    zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> += 1e-5;</div>
+<div class="line"><a id="l02326" name="l02326"></a><span class="lineno"> 2326</span> </div>
+<div class="line"><a id="l02327" name="l02327"></a><span class="lineno"> 2327</span>    std::vector&lt;uint&gt; bbox_UUID;</div>
+<div class="line"><a id="l02328" name="l02328"></a><span class="lineno"> 2328</span>    <span class="keywordtype">int</span> bbox_face_count = 0;</div>
+<div class="line"><a id="l02329" name="l02329"></a><span class="lineno"> 2329</span> </div>
+<div class="line"><a id="l02330" name="l02330"></a><span class="lineno"> 2330</span>    std::vector&lt;std::vector&lt;optix::float3&gt; &gt; bbox_vertices;</div>
+<div class="line"><a id="l02331" name="l02331"></a><span class="lineno"> 2331</span> </div>
+<div class="line"><a id="l02332" name="l02332"></a><span class="lineno"> 2332</span>    <span class="comment">//primitive type</span></div>
+<div class="line"><a id="l02333" name="l02333"></a><span class="lineno"> 2333</span> </div>
+<div class="line"><a id="l02334" name="l02334"></a><span class="lineno"> 2334</span>    std::vector&lt;optix::float3&gt; v;</div>
+<div class="line"><a id="l02335" name="l02335"></a><span class="lineno"> 2335</span>    v.resize(4);</div>
+<div class="line"><a id="l02336" name="l02336"></a><span class="lineno"> 2336</span> </div>
+<div class="line"><a id="l02337" name="l02337"></a><span class="lineno"> 2337</span>    <span class="keywordflow">if</span>( periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>==1 ){</div>
+<div class="line"><a id="l02338" name="l02338"></a><span class="lineno"> 2338</span> </div>
+<div class="line"><a id="l02339" name="l02339"></a><span class="lineno"> 2339</span>        <span class="comment">// -x facing</span></div>
+<div class="line"><a id="l02340" name="l02340"></a><span class="lineno"> 2340</span>        v.at(0) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
+<div class="line"><a id="l02341" name="l02341"></a><span class="lineno"> 2341</span>        v.at(1) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
+<div class="line"><a id="l02342" name="l02342"></a><span class="lineno"> 2342</span>        v.at(2) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
+<div class="line"><a id="l02343" name="l02343"></a><span class="lineno"> 2343</span>        v.at(3) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
+<div class="line"><a id="l02344" name="l02344"></a><span class="lineno"> 2344</span>        bbox_vertices.push_back(v);</div>
+<div class="line"><a id="l02345" name="l02345"></a><span class="lineno"> 2345</span>        bbox_UUID.push_back(Nprimitives+bbox_face_count);</div>
+<div class="line"><a id="l02346" name="l02346"></a><span class="lineno"> 2346</span>        objectID.push_back( Nobjects+bbox_face_count );</div>
+<div class="line"><a id="l02347" name="l02347"></a><span class="lineno"> 2347</span>        ptype_global.push_back(5);</div>
+<div class="line"><a id="l02348" name="l02348"></a><span class="lineno"> 2348</span>        bbox_face_count++;</div>
+<div class="line"><a id="l02349" name="l02349"></a><span class="lineno"> 2349</span> </div>
+<div class="line"><a id="l02350" name="l02350"></a><span class="lineno"> 2350</span>        <span class="comment">// +x facing</span></div>
+<div class="line"><a id="l02351" name="l02351"></a><span class="lineno"> 2351</span>        v.at(0) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
+<div class="line"><a id="l02352" name="l02352"></a><span class="lineno"> 2352</span>        v.at(1) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
+<div class="line"><a id="l02353" name="l02353"></a><span class="lineno"> 2353</span>        v.at(2) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
+<div class="line"><a id="l02354" name="l02354"></a><span class="lineno"> 2354</span>        v.at(3) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
+<div class="line"><a id="l02355" name="l02355"></a><span class="lineno"> 2355</span>        bbox_vertices.push_back(v);</div>
+<div class="line"><a id="l02356" name="l02356"></a><span class="lineno"> 2356</span>        bbox_UUID.push_back(Nprimitives+bbox_face_count);</div>
+<div class="line"><a id="l02357" name="l02357"></a><span class="lineno"> 2357</span>        objectID.push_back( Nobjects+bbox_face_count );</div>
+<div class="line"><a id="l02358" name="l02358"></a><span class="lineno"> 2358</span>        ptype_global.push_back(5);</div>
+<div class="line"><a id="l02359" name="l02359"></a><span class="lineno"> 2359</span>        bbox_face_count++;</div>
+<div class="line"><a id="l02360" name="l02360"></a><span class="lineno"> 2360</span> </div>
+<div class="line"><a id="l02361" name="l02361"></a><span class="lineno"> 2361</span>    }</div>
+<div class="line"><a id="l02362" name="l02362"></a><span class="lineno"> 2362</span>    <span class="keywordflow">if</span>( periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>==1 ){</div>
+<div class="line"><a id="l02363" name="l02363"></a><span class="lineno"> 2363</span> </div>
+<div class="line"><a id="l02364" name="l02364"></a><span class="lineno"> 2364</span>        <span class="comment">// -y facing</span></div>
+<div class="line"><a id="l02365" name="l02365"></a><span class="lineno"> 2365</span>        v.at(0) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
+<div class="line"><a id="l02366" name="l02366"></a><span class="lineno"> 2366</span>        v.at(1) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
+<div class="line"><a id="l02367" name="l02367"></a><span class="lineno"> 2367</span>        v.at(2) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
+<div class="line"><a id="l02368" name="l02368"></a><span class="lineno"> 2368</span>        v.at(3) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
+<div class="line"><a id="l02369" name="l02369"></a><span class="lineno"> 2369</span>        bbox_vertices.push_back(v);</div>
+<div class="line"><a id="l02370" name="l02370"></a><span class="lineno"> 2370</span>        bbox_UUID.push_back(Nprimitives+bbox_face_count);</div>
+<div class="line"><a id="l02371" name="l02371"></a><span class="lineno"> 2371</span>        objectID.push_back( Nobjects+bbox_face_count );</div>
+<div class="line"><a id="l02372" name="l02372"></a><span class="lineno"> 2372</span>        ptype_global.push_back(5);</div>
+<div class="line"><a id="l02373" name="l02373"></a><span class="lineno"> 2373</span>        bbox_face_count++;</div>
+<div class="line"><a id="l02374" name="l02374"></a><span class="lineno"> 2374</span> </div>
+<div class="line"><a id="l02375" name="l02375"></a><span class="lineno"> 2375</span>        <span class="comment">// +y facing</span></div>
+<div class="line"><a id="l02376" name="l02376"></a><span class="lineno"> 2376</span>        v.at(0) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
+<div class="line"><a id="l02377" name="l02377"></a><span class="lineno"> 2377</span>        v.at(1) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>);</div>
+<div class="line"><a id="l02378" name="l02378"></a><span class="lineno"> 2378</span>        v.at(2) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
+<div class="line"><a id="l02379" name="l02379"></a><span class="lineno"> 2379</span>        v.at(3) = optix::make_float3(xbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>,ybounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>,zbounds.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
+<div class="line"><a id="l02380" name="l02380"></a><span class="lineno"> 2380</span>        bbox_vertices.push_back(v);</div>
+<div class="line"><a id="l02381" name="l02381"></a><span class="lineno"> 2381</span>        bbox_UUID.push_back(Nprimitives+bbox_face_count);</div>
+<div class="line"><a id="l02382" name="l02382"></a><span class="lineno"> 2382</span>        objectID.push_back( Nobjects+bbox_face_count );</div>
+<div class="line"><a id="l02383" name="l02383"></a><span class="lineno"> 2383</span>        ptype_global.push_back(5);</div>
+<div class="line"><a id="l02384" name="l02384"></a><span class="lineno"> 2384</span>        bbox_face_count++;</div>
+<div class="line"><a id="l02385" name="l02385"></a><span class="lineno"> 2385</span> </div>
+<div class="line"><a id="l02386" name="l02386"></a><span class="lineno"> 2386</span>    }</div>
+<div class="line"><a id="l02387" name="l02387"></a><span class="lineno"> 2387</span> </div>
+<div class="line"><a id="l02388" name="l02388"></a><span class="lineno"> 2388</span>    initializeBuffer2Df( transform_matrix_RTbuffer, m_global );</div>
+<div class="line"><a id="l02389" name="l02389"></a><span class="lineno"> 2389</span>    initializeBuffer1Dui( primitive_type_RTbuffer, ptype_global );</div>
+<div class="line"><a id="l02390" name="l02390"></a><span class="lineno"> 2390</span>    initializeBuffer1Df( primitive_area_RTbuffer, area_global );</div>
+<div class="line"><a id="l02391" name="l02391"></a><span class="lineno"> 2391</span>    initializeBuffer1Dchar( twosided_flag_RTbuffer, twosided_flag_global );</div>
+<div class="line"><a id="l02392" name="l02392"></a><span class="lineno"> 2392</span>    initializeBuffer2Dfloat3( patch_vertices_RTbuffer, patch_vertices );</div>
+<div class="line"><a id="l02393" name="l02393"></a><span class="lineno"> 2393</span>    initializeBuffer2Dfloat3( triangle_vertices_RTbuffer, triangle_vertices );</div>
+<div class="line"><a id="l02394" name="l02394"></a><span class="lineno"> 2394</span>    initializeBuffer2Dfloat3( tile_vertices_RTbuffer, tile_vertices );</div>
+<div class="line"><a id="l02395" name="l02395"></a><span class="lineno"> 2395</span>    initializeBuffer2Dfloat3( voxel_vertices_RTbuffer, voxel_vertices );</div>
+<div class="line"><a id="l02396" name="l02396"></a><span class="lineno"> 2396</span>    initializeBuffer2Dfloat3( bbox_vertices_RTbuffer, bbox_vertices );</div>
+<div class="line"><a id="l02397" name="l02397"></a><span class="lineno"> 2397</span> </div>
+<div class="line"><a id="l02398" name="l02398"></a><span class="lineno"> 2398</span>    initializeBuffer1Dint2( object_subdivisions_RTbuffer, object_subdivisions );</div>
+<div class="line"><a id="l02399" name="l02399"></a><span class="lineno"> 2399</span> </div>
+<div class="line"><a id="l02400" name="l02400"></a><span class="lineno"> 2400</span>    initializeBuffer1Dui( patch_UUID_RTbuffer, patch_UUID );</div>
+<div class="line"><a id="l02401" name="l02401"></a><span class="lineno"> 2401</span>    initializeBuffer1Dui( triangle_UUID_RTbuffer, triangle_UUID );</div>
+<div class="line"><a id="l02402" name="l02402"></a><span class="lineno"> 2402</span>    initializeBuffer1Dui( disk_UUID_RTbuffer, disk_UUID );</div>
+<div class="line"><a id="l02403" name="l02403"></a><span class="lineno"> 2403</span>    initializeBuffer1Dui( tile_UUID_RTbuffer, tile_UUID );</div>
+<div class="line"><a id="l02404" name="l02404"></a><span class="lineno"> 2404</span>    initializeBuffer1Dui( voxel_UUID_RTbuffer, voxel_UUID );</div>
+<div class="line"><a id="l02405" name="l02405"></a><span class="lineno"> 2405</span>    initializeBuffer1Dui( bbox_UUID_RTbuffer, bbox_UUID );</div>
+<div class="line"><a id="l02406" name="l02406"></a><span class="lineno"> 2406</span> </div>
+<div class="line"><a id="l02407" name="l02407"></a><span class="lineno"> 2407</span>    initializeBuffer1Dui( objectID_RTbuffer, objectID );</div>
+<div class="line"><a id="l02408" name="l02408"></a><span class="lineno"> 2408</span>    initializeBuffer1Dui( primitiveID_RTbuffer, primitiveID );</div>
+<div class="line"><a id="l02409" name="l02409"></a><span class="lineno"> 2409</span> </div>
+<div class="line"><a id="l02410" name="l02410"></a><span class="lineno"> 2410</span>    RT_CHECK_ERROR( rtGeometrySetPrimitiveCount( patch, patch_count ) );</div>
+<div class="line"><a id="l02411" name="l02411"></a><span class="lineno"> 2411</span>    RT_CHECK_ERROR( rtGeometrySetPrimitiveCount( triangle, triangle_count ) );</div>
+<div class="line"><a id="l02412" name="l02412"></a><span class="lineno"> 2412</span>    RT_CHECK_ERROR( rtGeometrySetPrimitiveCount( disk, disk_count ) );</div>
+<div class="line"><a id="l02413" name="l02413"></a><span class="lineno"> 2413</span>    RT_CHECK_ERROR( rtGeometrySetPrimitiveCount( tile, tile_count ) );</div>
+<div class="line"><a id="l02414" name="l02414"></a><span class="lineno"> 2414</span>    RT_CHECK_ERROR( rtGeometrySetPrimitiveCount( voxel, voxel_count ) );</div>
+<div class="line"><a id="l02415" name="l02415"></a><span class="lineno"> 2415</span>    RT_CHECK_ERROR( rtGeometrySetPrimitiveCount( bbox, bbox_face_count ) );</div>
+<div class="line"><a id="l02416" name="l02416"></a><span class="lineno"> 2416</span> </div>
+<div class="line"><a id="l02417" name="l02417"></a><span class="lineno"> 2417</span>    RT_CHECK_ERROR( rtAccelerationMarkDirty( geometry_acceleration ) );</div>
+<div class="line"><a id="l02418" name="l02418"></a><span class="lineno"> 2418</span> </div>
+<div class="line"><a id="l02419" name="l02419"></a><span class="lineno"> 2419</span>    <span class="comment">/* Set the top_object variable */</span></div>
+<div class="line"><a id="l02420" name="l02420"></a><span class="lineno"> 2420</span>    <span class="comment">//NOTE: not sure if this has to be set again or not..</span></div>
+<div class="line"><a id="l02421" name="l02421"></a><span class="lineno"> 2421</span>    RT_CHECK_ERROR( rtVariableSetObject( top_object, top_level_group ) );</div>
+<div class="line"><a id="l02422" name="l02422"></a><span class="lineno"> 2422</span> </div>
+<div class="line"><a id="l02423" name="l02423"></a><span class="lineno"> 2423</span>    RTsize device_memory;</div>
+<div class="line"><a id="l02424" name="l02424"></a><span class="lineno"> 2424</span>    RT_CHECK_ERROR( rtContextGetAttribute( OptiX_Context, RT_CONTEXT_ATTRIBUTE_AVAILABLE_DEVICE_MEMORY, <span class="keyword">sizeof</span>(RTsize), &amp;device_memory ) );</div>
+<div class="line"><a id="l02425" name="l02425"></a><span class="lineno"> 2425</span> </div>
+<div class="line"><a id="l02426" name="l02426"></a><span class="lineno"> 2426</span>    device_memory *= 1e-6;</div>
 <div class="line"><a id="l02427" name="l02427"></a><span class="lineno"> 2427</span> </div>
-<div class="line"><a id="l02428" name="l02428"></a><span class="lineno"> 2428</span>    <span class="comment">// device_memory;</span></div>
-<div class="line"><a id="l02429" name="l02429"></a><span class="lineno"> 2429</span>    <span class="comment">// RT_CHECK_ERROR( rtContextGetAttribute( OptiX_Context, RT_CONTEXT_ATTRIBUTE_AVAILABLE_DEVICE_MEMORY, sizeof(RTsize), &amp;device_memory ) );</span></div>
-<div class="line"><a id="l02430" name="l02430"></a><span class="lineno"> 2430</span> </div>
-<div class="line"><a id="l02431" name="l02431"></a><span class="lineno"> 2431</span>    <span class="comment">// device_memory *= 1e-6;</span></div>
-<div class="line"><a id="l02432" name="l02432"></a><span class="lineno"> 2432</span>    <span class="comment">// if( device_memory &lt; 1000 ){</span></div>
-<div class="line"><a id="l02433" name="l02433"></a><span class="lineno"> 2433</span>    <span class="comment">//   printf(&quot;available device memory at end of OptiX context compile: %6.3f MB\n&quot;,device_memory);</span></div>
-<div class="line"><a id="l02434" name="l02434"></a><span class="lineno"> 2434</span>    <span class="comment">// }else{</span></div>
-<div class="line"><a id="l02435" name="l02435"></a><span class="lineno"> 2435</span>    <span class="comment">//   printf(&quot;available device memory at end of OptiX context compile: %6.3f GB\n&quot;,device_memory*1e-3);</span></div>
-<div class="line"><a id="l02436" name="l02436"></a><span class="lineno"> 2436</span>    <span class="comment">// }</span></div>
-<div class="line"><a id="l02437" name="l02437"></a><span class="lineno"> 2437</span> </div>
-<div class="line"><a id="l02438" name="l02438"></a><span class="lineno"> 2438</span>    isgeometryinitialized = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l02439" name="l02439"></a><span class="lineno"> 2439</span> </div>
-<div class="line"><a id="l02440" name="l02440"></a><span class="lineno"> 2440</span>    <span class="comment">// device_memory;</span></div>
-<div class="line"><a id="l02441" name="l02441"></a><span class="lineno"> 2441</span>    <span class="comment">// RT_CHECK_ERROR( rtContextGetAttribute( OptiX_Context, RT_CONTEXT_ATTRIBUTE_AVAILABLE_DEVICE_MEMORY, sizeof(RTsize), &amp;device_memory ) );</span></div>
-<div class="line"><a id="l02442" name="l02442"></a><span class="lineno"> 2442</span> </div>
-<div class="line"><a id="l02443" name="l02443"></a><span class="lineno"> 2443</span>    <span class="comment">// device_memory *= 1e-6;</span></div>
-<div class="line"><a id="l02444" name="l02444"></a><span class="lineno"> 2444</span>    <span class="comment">// if( device_memory &lt; 1000 ){</span></div>
-<div class="line"><a id="l02445" name="l02445"></a><span class="lineno"> 2445</span>    <span class="comment">//   printf(&quot;available device memory before acceleration build: %6.3f MB\n&quot;,device_memory);</span></div>
-<div class="line"><a id="l02446" name="l02446"></a><span class="lineno"> 2446</span>    <span class="comment">// }else{</span></div>
-<div class="line"><a id="l02447" name="l02447"></a><span class="lineno"> 2447</span>    <span class="comment">//   printf(&quot;available device memory before acceleration build: %6.3f GB\n&quot;,device_memory*1e-3);</span></div>
-<div class="line"><a id="l02448" name="l02448"></a><span class="lineno"> 2448</span>    <span class="comment">// }</span></div>
-<div class="line"><a id="l02449" name="l02449"></a><span class="lineno"> 2449</span> </div>
-<div class="line"><a id="l02450" name="l02450"></a><span class="lineno"> 2450</span>    optix::int3 launch_dim_dummy = optix::make_int3( 1, 1, 1 );</div>
-<div class="line"><a id="l02451" name="l02451"></a><span class="lineno"> 2451</span>    RT_CHECK_ERROR( rtContextLaunch3D( OptiX_Context, RAYTYPE_DIRECT , launch_dim_dummy.x, launch_dim_dummy.y, launch_dim_dummy.z ) );</div>
-<div class="line"><a id="l02452" name="l02452"></a><span class="lineno"> 2452</span> </div>
-<div class="line"><a id="l02453" name="l02453"></a><span class="lineno"> 2453</span>    RT_CHECK_ERROR( rtContextGetAttribute( OptiX_Context, RT_CONTEXT_ATTRIBUTE_AVAILABLE_DEVICE_MEMORY, <span class="keyword">sizeof</span>(RTsize), &amp;device_memory ) );</div>
-<div class="line"><a id="l02454" name="l02454"></a><span class="lineno"> 2454</span> </div>
-<div class="line"><a id="l02455" name="l02455"></a><span class="lineno"> 2455</span>    <span class="comment">// device_memory;</span></div>
-<div class="line"><a id="l02456" name="l02456"></a><span class="lineno"> 2456</span>    <span class="comment">// RT_CHECK_ERROR( rtContextGetAttribute( OptiX_Context, RT_CONTEXT_ATTRIBUTE_AVAILABLE_DEVICE_MEMORY, sizeof(RTsize), &amp;device_memory ) );</span></div>
+<div class="line"><a id="l02428" name="l02428"></a><span class="lineno"> 2428</span>    <span class="keywordflow">if</span>( device_memory&lt;500 ){</div>
+<div class="line"><a id="l02429" name="l02429"></a><span class="lineno"> 2429</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel): device memory is very low (&quot;</span> &lt;&lt; device_memory &lt;&lt; <span class="stringliteral">&quot; MB)&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02430" name="l02430"></a><span class="lineno"> 2430</span>    }</div>
+<div class="line"><a id="l02431" name="l02431"></a><span class="lineno"> 2431</span> </div>
+<div class="line"><a id="l02432" name="l02432"></a><span class="lineno"> 2432</span>    <span class="comment">/* Validate/Compile OptiX Context */</span></div>
+<div class="line"><a id="l02433" name="l02433"></a><span class="lineno"> 2433</span>    RT_CHECK_ERROR( rtContextValidate( OptiX_Context ) );</div>
+<div class="line"><a id="l02434" name="l02434"></a><span class="lineno"> 2434</span>    RT_CHECK_ERROR( rtContextCompile( OptiX_Context ) );</div>
+<div class="line"><a id="l02435" name="l02435"></a><span class="lineno"> 2435</span> </div>
+<div class="line"><a id="l02436" name="l02436"></a><span class="lineno"> 2436</span>    <span class="comment">// device_memory;</span></div>
+<div class="line"><a id="l02437" name="l02437"></a><span class="lineno"> 2437</span>    <span class="comment">// RT_CHECK_ERROR( rtContextGetAttribute( OptiX_Context, RT_CONTEXT_ATTRIBUTE_AVAILABLE_DEVICE_MEMORY, sizeof(RTsize), &amp;device_memory ) );</span></div>
+<div class="line"><a id="l02438" name="l02438"></a><span class="lineno"> 2438</span> </div>
+<div class="line"><a id="l02439" name="l02439"></a><span class="lineno"> 2439</span>    <span class="comment">// device_memory *= 1e-6;</span></div>
+<div class="line"><a id="l02440" name="l02440"></a><span class="lineno"> 2440</span>    <span class="comment">// if( device_memory &lt; 1000 ){</span></div>
+<div class="line"><a id="l02441" name="l02441"></a><span class="lineno"> 2441</span>    <span class="comment">//   printf(&quot;available device memory at end of OptiX context compile: %6.3f MB\n&quot;,device_memory);</span></div>
+<div class="line"><a id="l02442" name="l02442"></a><span class="lineno"> 2442</span>    <span class="comment">// }else{</span></div>
+<div class="line"><a id="l02443" name="l02443"></a><span class="lineno"> 2443</span>    <span class="comment">//   printf(&quot;available device memory at end of OptiX context compile: %6.3f GB\n&quot;,device_memory*1e-3);</span></div>
+<div class="line"><a id="l02444" name="l02444"></a><span class="lineno"> 2444</span>    <span class="comment">// }</span></div>
+<div class="line"><a id="l02445" name="l02445"></a><span class="lineno"> 2445</span> </div>
+<div class="line"><a id="l02446" name="l02446"></a><span class="lineno"> 2446</span>    isgeometryinitialized = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l02447" name="l02447"></a><span class="lineno"> 2447</span> </div>
+<div class="line"><a id="l02448" name="l02448"></a><span class="lineno"> 2448</span>    <span class="comment">// device_memory;</span></div>
+<div class="line"><a id="l02449" name="l02449"></a><span class="lineno"> 2449</span>    <span class="comment">// RT_CHECK_ERROR( rtContextGetAttribute( OptiX_Context, RT_CONTEXT_ATTRIBUTE_AVAILABLE_DEVICE_MEMORY, sizeof(RTsize), &amp;device_memory ) );</span></div>
+<div class="line"><a id="l02450" name="l02450"></a><span class="lineno"> 2450</span> </div>
+<div class="line"><a id="l02451" name="l02451"></a><span class="lineno"> 2451</span>    <span class="comment">// device_memory *= 1e-6;</span></div>
+<div class="line"><a id="l02452" name="l02452"></a><span class="lineno"> 2452</span>    <span class="comment">// if( device_memory &lt; 1000 ){</span></div>
+<div class="line"><a id="l02453" name="l02453"></a><span class="lineno"> 2453</span>    <span class="comment">//   printf(&quot;available device memory before acceleration build: %6.3f MB\n&quot;,device_memory);</span></div>
+<div class="line"><a id="l02454" name="l02454"></a><span class="lineno"> 2454</span>    <span class="comment">// }else{</span></div>
+<div class="line"><a id="l02455" name="l02455"></a><span class="lineno"> 2455</span>    <span class="comment">//   printf(&quot;available device memory before acceleration build: %6.3f GB\n&quot;,device_memory*1e-3);</span></div>
+<div class="line"><a id="l02456" name="l02456"></a><span class="lineno"> 2456</span>    <span class="comment">// }</span></div>
 <div class="line"><a id="l02457" name="l02457"></a><span class="lineno"> 2457</span> </div>
-<div class="line"><a id="l02458" name="l02458"></a><span class="lineno"> 2458</span>    <span class="comment">// device_memory *= 1e-6;</span></div>
-<div class="line"><a id="l02459" name="l02459"></a><span class="lineno"> 2459</span>    <span class="comment">// if( device_memory &lt; 1000 ){</span></div>
-<div class="line"><a id="l02460" name="l02460"></a><span class="lineno"> 2460</span>    <span class="comment">//   printf(&quot;available device memory at end of acceleration build: %6.3f MB\n&quot;,device_memory);</span></div>
-<div class="line"><a id="l02461" name="l02461"></a><span class="lineno"> 2461</span>    <span class="comment">// }else{</span></div>
-<div class="line"><a id="l02462" name="l02462"></a><span class="lineno"> 2462</span>    <span class="comment">//   printf(&quot;available device memory at end of acceleration build: %6.3f GB\n&quot;,device_memory*1e-3);</span></div>
-<div class="line"><a id="l02463" name="l02463"></a><span class="lineno"> 2463</span>    <span class="comment">// }</span></div>
-<div class="line"><a id="l02464" name="l02464"></a><span class="lineno"> 2464</span> </div>
-<div class="line"><a id="l02465" name="l02465"></a><span class="lineno"> 2465</span>    <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l02466" name="l02466"></a><span class="lineno"> 2466</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02467" name="l02467"></a><span class="lineno"> 2467</span>    }</div>
-<div class="line"><a id="l02468" name="l02468"></a><span class="lineno"> 2468</span> </div>
-<div class="line"><a id="l02469" name="l02469"></a><span class="lineno"> 2469</span>}</div>
-</div>
-<div class="line"><a id="l02470" name="l02470"></a><span class="lineno"> 2470</span> </div>
-<div class="line"><a id="l02471" name="l02471"></a><span class="lineno"> 2471</span><span class="keywordtype">void</span> RadiationModel::updateRadiativeProperties( <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;labels ) {</div>
+<div class="line"><a id="l02458" name="l02458"></a><span class="lineno"> 2458</span>    optix::int3 launch_dim_dummy = optix::make_int3( 1, 1, 1 );</div>
+<div class="line"><a id="l02459" name="l02459"></a><span class="lineno"> 2459</span>    RT_CHECK_ERROR( rtContextLaunch3D( OptiX_Context, RAYTYPE_DIRECT , launch_dim_dummy.x, launch_dim_dummy.y, launch_dim_dummy.z ) );</div>
+<div class="line"><a id="l02460" name="l02460"></a><span class="lineno"> 2460</span> </div>
+<div class="line"><a id="l02461" name="l02461"></a><span class="lineno"> 2461</span>    RT_CHECK_ERROR( rtContextGetAttribute( OptiX_Context, RT_CONTEXT_ATTRIBUTE_AVAILABLE_DEVICE_MEMORY, <span class="keyword">sizeof</span>(RTsize), &amp;device_memory ) );</div>
+<div class="line"><a id="l02462" name="l02462"></a><span class="lineno"> 2462</span> </div>
+<div class="line"><a id="l02463" name="l02463"></a><span class="lineno"> 2463</span>    <span class="comment">// device_memory;</span></div>
+<div class="line"><a id="l02464" name="l02464"></a><span class="lineno"> 2464</span>    <span class="comment">// RT_CHECK_ERROR( rtContextGetAttribute( OptiX_Context, RT_CONTEXT_ATTRIBUTE_AVAILABLE_DEVICE_MEMORY, sizeof(RTsize), &amp;device_memory ) );</span></div>
+<div class="line"><a id="l02465" name="l02465"></a><span class="lineno"> 2465</span> </div>
+<div class="line"><a id="l02466" name="l02466"></a><span class="lineno"> 2466</span>    <span class="comment">// device_memory *= 1e-6;</span></div>
+<div class="line"><a id="l02467" name="l02467"></a><span class="lineno"> 2467</span>    <span class="comment">// if( device_memory &lt; 1000 ){</span></div>
+<div class="line"><a id="l02468" name="l02468"></a><span class="lineno"> 2468</span>    <span class="comment">//   printf(&quot;available device memory at end of acceleration build: %6.3f MB\n&quot;,device_memory);</span></div>
+<div class="line"><a id="l02469" name="l02469"></a><span class="lineno"> 2469</span>    <span class="comment">// }else{</span></div>
+<div class="line"><a id="l02470" name="l02470"></a><span class="lineno"> 2470</span>    <span class="comment">//   printf(&quot;available device memory at end of acceleration build: %6.3f GB\n&quot;,device_memory*1e-3);</span></div>
+<div class="line"><a id="l02471" name="l02471"></a><span class="lineno"> 2471</span>    <span class="comment">// }</span></div>
 <div class="line"><a id="l02472" name="l02472"></a><span class="lineno"> 2472</span> </div>
-<div class="line"><a id="l02473" name="l02473"></a><span class="lineno"> 2473</span>    <span class="comment">// Possible scenarios for specifying a primitive&#39;s radiative properties</span></div>
-<div class="line"><a id="l02474" name="l02474"></a><span class="lineno"> 2474</span>    <span class="comment">// 1. If primitive data of form reflectivity_band/transmissivity_band is given, this value is used and overrides any other option.</span></div>
-<div class="line"><a id="l02475" name="l02475"></a><span class="lineno"> 2475</span>    <span class="comment">// 2. If primitive data of form reflectivity_spectrum/transmissivity_spectrum is given that references global data containing spectral reflectivity/transmissivity:</span></div>
-<div class="line"><a id="l02476" name="l02476"></a><span class="lineno"> 2476</span>    <span class="comment">//    2a. If radiation source spectrum was not given, assume source spectral intensity is constant over band and calculate using primitive spectrum</span></div>
-<div class="line"><a id="l02477" name="l02477"></a><span class="lineno"> 2477</span>    <span class="comment">//    2b. If radiation source spectrum was given, calculate using both source and primitive spectrum.</span></div>
+<div class="line"><a id="l02473" name="l02473"></a><span class="lineno"> 2473</span>    <span class="keywordflow">if</span>( message_flag ){</div>
+<div class="line"><a id="l02474" name="l02474"></a><span class="lineno"> 2474</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02475" name="l02475"></a><span class="lineno"> 2475</span>    }</div>
+<div class="line"><a id="l02476" name="l02476"></a><span class="lineno"> 2476</span> </div>
+<div class="line"><a id="l02477" name="l02477"></a><span class="lineno"> 2477</span>}</div>
+</div>
 <div class="line"><a id="l02478" name="l02478"></a><span class="lineno"> 2478</span> </div>
-<div class="line"><a id="l02479" name="l02479"></a><span class="lineno"> 2479</span>    <span class="keywordflow">if</span>( message_flag ) {</div>
-<div class="line"><a id="l02480" name="l02480"></a><span class="lineno"> 2480</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;Updating radiative properties...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02481" name="l02481"></a><span class="lineno"> 2481</span>    }</div>
-<div class="line"><a id="l02482" name="l02482"></a><span class="lineno"> 2482</span> </div>
-<div class="line"><a id="l02483" name="l02483"></a><span class="lineno"> 2483</span>    uint Nbands = labels.size();<span class="comment">//number of radiative bands</span></div>
-<div class="line"><a id="l02484" name="l02484"></a><span class="lineno"> 2484</span>    uint Nsources = radiation_sources.size();</div>
-<div class="line"><a id="l02485" name="l02485"></a><span class="lineno"> 2485</span>    uint Ncameras = cameras.size();</div>
-<div class="line"><a id="l02486" name="l02486"></a><span class="lineno"> 2486</span>    <span class="keywordtype">size_t</span> Nobjects = primitiveID.size();</div>
-<div class="line"><a id="l02487" name="l02487"></a><span class="lineno"> 2487</span>    <span class="keywordtype">size_t</span> Nprimitives = context_UUIDs.size();</div>
-<div class="line"><a id="l02488" name="l02488"></a><span class="lineno"> 2488</span> </div>
-<div class="line"><a id="l02489" name="l02489"></a><span class="lineno"> 2489</span>    scattering_iterations_needed.resize(Nbands);</div>
-<div class="line"><a id="l02490" name="l02490"></a><span class="lineno"> 2490</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> b=0; b&lt;Nbands; b++ ){</div>
-<div class="line"><a id="l02491" name="l02491"></a><span class="lineno"> 2491</span>        scattering_iterations_needed.at(b) = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02492" name="l02492"></a><span class="lineno"> 2492</span>    }</div>
-<div class="line"><a id="l02493" name="l02493"></a><span class="lineno"> 2493</span> </div>
-<div class="line"><a id="l02494" name="l02494"></a><span class="lineno"> 2494</span>    std::vector&lt;std::vector&lt;std::vector&lt;float&gt; &gt; &gt; rho, tau; <span class="comment">//first index is the source, second index is the primitive, third index is the band</span></div>
-<div class="line"><a id="l02495" name="l02495"></a><span class="lineno"> 2495</span>    std::vector&lt;std::vector&lt;std::vector&lt;std::vector&lt;float&gt; &gt; &gt; &gt; rho_cam, tau_cam; <span class="comment">//Fourth index is the camera</span></div>
-<div class="line"><a id="l02496" name="l02496"></a><span class="lineno"> 2496</span>    <span class="keywordtype">float</span> eps;</div>
-<div class="line"><a id="l02497" name="l02497"></a><span class="lineno"> 2497</span> </div>
-<div class="line"><a id="l02498" name="l02498"></a><span class="lineno"> 2498</span>    std::string prop;</div>
-<div class="line"><a id="l02499" name="l02499"></a><span class="lineno"> 2499</span> </div>
-<div class="line"><a id="l02500" name="l02500"></a><span class="lineno"> 2500</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;label : radiation_bands){</div>
-<div class="line"><a id="l02501" name="l02501"></a><span class="lineno"> 2501</span>        label.second.radiativepropertiesinitialized = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l02502" name="l02502"></a><span class="lineno"> 2502</span>    }</div>
-<div class="line"><a id="l02503" name="l02503"></a><span class="lineno"> 2503</span>    <span class="keywordflow">for</span> ( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;label: labels) {</div>
-<div class="line"><a id="l02504" name="l02504"></a><span class="lineno"> 2504</span>        radiation_bands.at(label).radiativepropertiesinitialized = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l02505" name="l02505"></a><span class="lineno"> 2505</span>    }</div>
-<div class="line"><a id="l02506" name="l02506"></a><span class="lineno"> 2506</span> </div>
-<div class="line"><a id="l02507" name="l02507"></a><span class="lineno"> 2507</span>    rho.resize(Nsources);</div>
-<div class="line"><a id="l02508" name="l02508"></a><span class="lineno"> 2508</span>    tau.resize(Nsources);</div>
-<div class="line"><a id="l02509" name="l02509"></a><span class="lineno"> 2509</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> s=0; s&lt;Nsources; s++ ){</div>
-<div class="line"><a id="l02510" name="l02510"></a><span class="lineno"> 2510</span>        rho.at(s).resize(Nprimitives);</div>
-<div class="line"><a id="l02511" name="l02511"></a><span class="lineno"> 2511</span>        tau.at(s).resize(Nprimitives);</div>
-<div class="line"><a id="l02512" name="l02512"></a><span class="lineno"> 2512</span>        <span class="keywordflow">for</span> ( <span class="keywordtype">size_t</span> p=0; p&lt;Nprimitives; p++ ) {</div>
-<div class="line"><a id="l02513" name="l02513"></a><span class="lineno"> 2513</span>            rho.at(s).at(p).resize(Nbands);</div>
-<div class="line"><a id="l02514" name="l02514"></a><span class="lineno"> 2514</span>            tau.at(s).at(p).resize(Nbands);</div>
-<div class="line"><a id="l02515" name="l02515"></a><span class="lineno"> 2515</span>        }</div>
-<div class="line"><a id="l02516" name="l02516"></a><span class="lineno"> 2516</span>    }</div>
-<div class="line"><a id="l02517" name="l02517"></a><span class="lineno"> 2517</span>    <span class="keywordflow">if</span> ( Ncameras ) {</div>
-<div class="line"><a id="l02518" name="l02518"></a><span class="lineno"> 2518</span>        rho_cam.resize(Nsources);</div>
-<div class="line"><a id="l02519" name="l02519"></a><span class="lineno"> 2519</span>        tau_cam.resize(Nsources);</div>
-<div class="line"><a id="l02520" name="l02520"></a><span class="lineno"> 2520</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> s=0; s&lt;Nsources; s++ ) {</div>
-<div class="line"><a id="l02521" name="l02521"></a><span class="lineno"> 2521</span>            rho_cam.at(s).resize(Nprimitives);</div>
-<div class="line"><a id="l02522" name="l02522"></a><span class="lineno"> 2522</span>            tau_cam.at(s).resize(Nprimitives);</div>
-<div class="line"><a id="l02523" name="l02523"></a><span class="lineno"> 2523</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; Nprimitives; p++) {</div>
-<div class="line"><a id="l02524" name="l02524"></a><span class="lineno"> 2524</span>                rho_cam.at(s).at(p).resize(Nbands);</div>
-<div class="line"><a id="l02525" name="l02525"></a><span class="lineno"> 2525</span>                tau_cam.at(s).at(p).resize(Nbands);</div>
-<div class="line"><a id="l02526" name="l02526"></a><span class="lineno"> 2526</span>                <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> b=0; b&lt;Nbands; b++ ){</div>
-<div class="line"><a id="l02527" name="l02527"></a><span class="lineno"> 2527</span>                    rho_cam.at(s).at(p).at(b).resize(Ncameras);</div>
-<div class="line"><a id="l02528" name="l02528"></a><span class="lineno"> 2528</span>                    tau_cam.at(s).at(p).at(b).resize(Ncameras);</div>
-<div class="line"><a id="l02529" name="l02529"></a><span class="lineno"> 2529</span>                }</div>
-<div class="line"><a id="l02530" name="l02530"></a><span class="lineno"> 2530</span>            }</div>
-<div class="line"><a id="l02531" name="l02531"></a><span class="lineno"> 2531</span>        }</div>
-<div class="line"><a id="l02532" name="l02532"></a><span class="lineno"> 2532</span>    }</div>
-<div class="line"><a id="l02533" name="l02533"></a><span class="lineno"> 2533</span> </div>
-<div class="line"><a id="l02534" name="l02534"></a><span class="lineno"> 2534</span>    <span class="comment">//Pre-calculate all unique camera spectral responses for all cameras and bands</span></div>
-<div class="line"><a id="l02535" name="l02535"></a><span class="lineno"> 2535</span>    std::vector&lt;std::vector&lt;std::vector&lt;helios::vec2&gt; &gt; &gt; camera_response_unique;</div>
-<div class="line"><a id="l02536" name="l02536"></a><span class="lineno"> 2536</span>    camera_response_unique.resize(Ncameras);</div>
-<div class="line"><a id="l02537" name="l02537"></a><span class="lineno"> 2537</span>    <span class="keywordflow">if</span> (Ncameras &gt; 0) {</div>
-<div class="line"><a id="l02538" name="l02538"></a><span class="lineno"> 2538</span>        uint cam = 0;</div>
-<div class="line"><a id="l02539" name="l02539"></a><span class="lineno"> 2539</span>        <span class="keywordflow">for</span> (<span class="keyword">const</span> <span class="keyword">auto</span> &amp;camera: cameras) {</div>
-<div class="line"><a id="l02540" name="l02540"></a><span class="lineno"> 2540</span> </div>
-<div class="line"><a id="l02541" name="l02541"></a><span class="lineno"> 2541</span>            camera_response_unique.at(cam).resize(Nbands);</div>
-<div class="line"><a id="l02542" name="l02542"></a><span class="lineno"> 2542</span> </div>
-<div class="line"><a id="l02543" name="l02543"></a><span class="lineno"> 2543</span>            <span class="keywordflow">for</span> (uint b = 0; b &lt; Nbands; b++) {</div>
-<div class="line"><a id="l02544" name="l02544"></a><span class="lineno"> 2544</span> </div>
-<div class="line"><a id="l02545" name="l02545"></a><span class="lineno"> 2545</span>                <span class="keywordflow">if</span>( camera.second.band_spectral_response.find(labels.at(b)) == camera.second.band_spectral_response.end() ){</div>
-<div class="line"><a id="l02546" name="l02546"></a><span class="lineno"> 2546</span>                    <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l02547" name="l02547"></a><span class="lineno"> 2547</span>                }</div>
+<div class="line"><a id="l02479" name="l02479"></a><span class="lineno"> 2479</span><span class="keywordtype">void</span> RadiationModel::updateRadiativeProperties( <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;labels ) {</div>
+<div class="line"><a id="l02480" name="l02480"></a><span class="lineno"> 2480</span> </div>
+<div class="line"><a id="l02481" name="l02481"></a><span class="lineno"> 2481</span>    <span class="comment">// Possible scenarios for specifying a primitive&#39;s radiative properties</span></div>
+<div class="line"><a id="l02482" name="l02482"></a><span class="lineno"> 2482</span>    <span class="comment">// 1. If primitive data of form reflectivity_band/transmissivity_band is given, this value is used and overrides any other option.</span></div>
+<div class="line"><a id="l02483" name="l02483"></a><span class="lineno"> 2483</span>    <span class="comment">// 2. If primitive data of form reflectivity_spectrum/transmissivity_spectrum is given that references global data containing spectral reflectivity/transmissivity:</span></div>
+<div class="line"><a id="l02484" name="l02484"></a><span class="lineno"> 2484</span>    <span class="comment">//    2a. If radiation source spectrum was not given, assume source spectral intensity is constant over band and calculate using primitive spectrum</span></div>
+<div class="line"><a id="l02485" name="l02485"></a><span class="lineno"> 2485</span>    <span class="comment">//    2b. If radiation source spectrum was given, calculate using both source and primitive spectrum.</span></div>
+<div class="line"><a id="l02486" name="l02486"></a><span class="lineno"> 2486</span> </div>
+<div class="line"><a id="l02487" name="l02487"></a><span class="lineno"> 2487</span>    <span class="keywordflow">if</span>( message_flag ) {</div>
+<div class="line"><a id="l02488" name="l02488"></a><span class="lineno"> 2488</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;Updating radiative properties...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02489" name="l02489"></a><span class="lineno"> 2489</span>    }</div>
+<div class="line"><a id="l02490" name="l02490"></a><span class="lineno"> 2490</span> </div>
+<div class="line"><a id="l02491" name="l02491"></a><span class="lineno"> 2491</span>    uint Nbands = labels.size();<span class="comment">//number of radiative bands</span></div>
+<div class="line"><a id="l02492" name="l02492"></a><span class="lineno"> 2492</span>    uint Nsources = radiation_sources.size();</div>
+<div class="line"><a id="l02493" name="l02493"></a><span class="lineno"> 2493</span>    uint Ncameras = cameras.size();</div>
+<div class="line"><a id="l02494" name="l02494"></a><span class="lineno"> 2494</span>    <span class="keywordtype">size_t</span> Nobjects = primitiveID.size();</div>
+<div class="line"><a id="l02495" name="l02495"></a><span class="lineno"> 2495</span>    <span class="keywordtype">size_t</span> Nprimitives = context_UUIDs.size();</div>
+<div class="line"><a id="l02496" name="l02496"></a><span class="lineno"> 2496</span> </div>
+<div class="line"><a id="l02497" name="l02497"></a><span class="lineno"> 2497</span>    scattering_iterations_needed.resize(Nbands);</div>
+<div class="line"><a id="l02498" name="l02498"></a><span class="lineno"> 2498</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> b=0; b&lt;Nbands; b++ ){</div>
+<div class="line"><a id="l02499" name="l02499"></a><span class="lineno"> 2499</span>        scattering_iterations_needed.at(b) = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02500" name="l02500"></a><span class="lineno"> 2500</span>    }</div>
+<div class="line"><a id="l02501" name="l02501"></a><span class="lineno"> 2501</span> </div>
+<div class="line"><a id="l02502" name="l02502"></a><span class="lineno"> 2502</span>    std::vector&lt;std::vector&lt;std::vector&lt;float&gt; &gt; &gt; rho, tau; <span class="comment">//first index is the source, second index is the primitive, third index is the band</span></div>
+<div class="line"><a id="l02503" name="l02503"></a><span class="lineno"> 2503</span>    std::vector&lt;std::vector&lt;std::vector&lt;std::vector&lt;float&gt; &gt; &gt; &gt; rho_cam, tau_cam; <span class="comment">//Fourth index is the camera</span></div>
+<div class="line"><a id="l02504" name="l02504"></a><span class="lineno"> 2504</span>    <span class="keywordtype">float</span> eps;</div>
+<div class="line"><a id="l02505" name="l02505"></a><span class="lineno"> 2505</span> </div>
+<div class="line"><a id="l02506" name="l02506"></a><span class="lineno"> 2506</span>    std::string prop;</div>
+<div class="line"><a id="l02507" name="l02507"></a><span class="lineno"> 2507</span> </div>
+<div class="line"><a id="l02508" name="l02508"></a><span class="lineno"> 2508</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;label : radiation_bands){</div>
+<div class="line"><a id="l02509" name="l02509"></a><span class="lineno"> 2509</span>        label.second.radiativepropertiesinitialized = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l02510" name="l02510"></a><span class="lineno"> 2510</span>    }</div>
+<div class="line"><a id="l02511" name="l02511"></a><span class="lineno"> 2511</span>    <span class="keywordflow">for</span> ( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;label: labels) {</div>
+<div class="line"><a id="l02512" name="l02512"></a><span class="lineno"> 2512</span>        radiation_bands.at(label).radiativepropertiesinitialized = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l02513" name="l02513"></a><span class="lineno"> 2513</span>    }</div>
+<div class="line"><a id="l02514" name="l02514"></a><span class="lineno"> 2514</span> </div>
+<div class="line"><a id="l02515" name="l02515"></a><span class="lineno"> 2515</span>    rho.resize(Nsources);</div>
+<div class="line"><a id="l02516" name="l02516"></a><span class="lineno"> 2516</span>    tau.resize(Nsources);</div>
+<div class="line"><a id="l02517" name="l02517"></a><span class="lineno"> 2517</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> s=0; s&lt;Nsources; s++ ){</div>
+<div class="line"><a id="l02518" name="l02518"></a><span class="lineno"> 2518</span>        rho.at(s).resize(Nprimitives);</div>
+<div class="line"><a id="l02519" name="l02519"></a><span class="lineno"> 2519</span>        tau.at(s).resize(Nprimitives);</div>
+<div class="line"><a id="l02520" name="l02520"></a><span class="lineno"> 2520</span>        <span class="keywordflow">for</span> ( <span class="keywordtype">size_t</span> p=0; p&lt;Nprimitives; p++ ) {</div>
+<div class="line"><a id="l02521" name="l02521"></a><span class="lineno"> 2521</span>            rho.at(s).at(p).resize(Nbands);</div>
+<div class="line"><a id="l02522" name="l02522"></a><span class="lineno"> 2522</span>            tau.at(s).at(p).resize(Nbands);</div>
+<div class="line"><a id="l02523" name="l02523"></a><span class="lineno"> 2523</span>        }</div>
+<div class="line"><a id="l02524" name="l02524"></a><span class="lineno"> 2524</span>    }</div>
+<div class="line"><a id="l02525" name="l02525"></a><span class="lineno"> 2525</span>    <span class="keywordflow">if</span> ( Ncameras ) {</div>
+<div class="line"><a id="l02526" name="l02526"></a><span class="lineno"> 2526</span>        rho_cam.resize(Nsources);</div>
+<div class="line"><a id="l02527" name="l02527"></a><span class="lineno"> 2527</span>        tau_cam.resize(Nsources);</div>
+<div class="line"><a id="l02528" name="l02528"></a><span class="lineno"> 2528</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> s=0; s&lt;Nsources; s++ ) {</div>
+<div class="line"><a id="l02529" name="l02529"></a><span class="lineno"> 2529</span>            rho_cam.at(s).resize(Nprimitives);</div>
+<div class="line"><a id="l02530" name="l02530"></a><span class="lineno"> 2530</span>            tau_cam.at(s).resize(Nprimitives);</div>
+<div class="line"><a id="l02531" name="l02531"></a><span class="lineno"> 2531</span>            <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> p = 0; p &lt; Nprimitives; p++) {</div>
+<div class="line"><a id="l02532" name="l02532"></a><span class="lineno"> 2532</span>                rho_cam.at(s).at(p).resize(Nbands);</div>
+<div class="line"><a id="l02533" name="l02533"></a><span class="lineno"> 2533</span>                tau_cam.at(s).at(p).resize(Nbands);</div>
+<div class="line"><a id="l02534" name="l02534"></a><span class="lineno"> 2534</span>                <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> b=0; b&lt;Nbands; b++ ){</div>
+<div class="line"><a id="l02535" name="l02535"></a><span class="lineno"> 2535</span>                    rho_cam.at(s).at(p).at(b).resize(Ncameras);</div>
+<div class="line"><a id="l02536" name="l02536"></a><span class="lineno"> 2536</span>                    tau_cam.at(s).at(p).at(b).resize(Ncameras);</div>
+<div class="line"><a id="l02537" name="l02537"></a><span class="lineno"> 2537</span>                }</div>
+<div class="line"><a id="l02538" name="l02538"></a><span class="lineno"> 2538</span>            }</div>
+<div class="line"><a id="l02539" name="l02539"></a><span class="lineno"> 2539</span>        }</div>
+<div class="line"><a id="l02540" name="l02540"></a><span class="lineno"> 2540</span>    }</div>
+<div class="line"><a id="l02541" name="l02541"></a><span class="lineno"> 2541</span> </div>
+<div class="line"><a id="l02542" name="l02542"></a><span class="lineno"> 2542</span>    <span class="comment">//Pre-calculate all unique camera spectral responses for all cameras and bands</span></div>
+<div class="line"><a id="l02543" name="l02543"></a><span class="lineno"> 2543</span>    std::vector&lt;std::vector&lt;std::vector&lt;helios::vec2&gt; &gt; &gt; camera_response_unique;</div>
+<div class="line"><a id="l02544" name="l02544"></a><span class="lineno"> 2544</span>    camera_response_unique.resize(Ncameras);</div>
+<div class="line"><a id="l02545" name="l02545"></a><span class="lineno"> 2545</span>    <span class="keywordflow">if</span> (Ncameras &gt; 0) {</div>
+<div class="line"><a id="l02546" name="l02546"></a><span class="lineno"> 2546</span>        uint cam = 0;</div>
+<div class="line"><a id="l02547" name="l02547"></a><span class="lineno"> 2547</span>        <span class="keywordflow">for</span> (<span class="keyword">const</span> <span class="keyword">auto</span> &amp;camera: cameras) {</div>
 <div class="line"><a id="l02548" name="l02548"></a><span class="lineno"> 2548</span> </div>
-<div class="line"><a id="l02549" name="l02549"></a><span class="lineno"> 2549</span>                std::string camera_response = camera.second.band_spectral_response.at(labels.at(b));</div>
+<div class="line"><a id="l02549" name="l02549"></a><span class="lineno"> 2549</span>            camera_response_unique.at(cam).resize(Nbands);</div>
 <div class="line"><a id="l02550" name="l02550"></a><span class="lineno"> 2550</span> </div>
-<div class="line"><a id="l02551" name="l02551"></a><span class="lineno"> 2551</span>                <span class="keywordflow">if</span> (!camera_response.empty()) {</div>
+<div class="line"><a id="l02551" name="l02551"></a><span class="lineno"> 2551</span>            <span class="keywordflow">for</span> (uint b = 0; b &lt; Nbands; b++) {</div>
 <div class="line"><a id="l02552" name="l02552"></a><span class="lineno"> 2552</span> </div>
-<div class="line"><a id="l02553" name="l02553"></a><span class="lineno"> 2553</span>                    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(camera_response.c_str()) ){</div>
-<div class="line"><a id="l02554" name="l02554"></a><span class="lineno"> 2554</span>                        <span class="keywordflow">if</span>( camera_response!=<span class="stringliteral">&quot;uniform&quot;</span> ) {</div>
-<div class="line"><a id="l02555" name="l02555"></a><span class="lineno"> 2555</span>                            std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::updateRadiativeProperties): Camera spectral response \&quot;&quot;</span> &lt;&lt; camera_response &lt;&lt; <span class="stringliteral">&quot;\&quot; does not exist. Assuming a uniform spectral response...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02556" name="l02556"></a><span class="lineno"> 2556</span>                        }</div>
-<div class="line"><a id="l02557" name="l02557"></a><span class="lineno"> 2557</span>                    }<span class="keywordflow">else</span> <span class="keywordflow">if</span> ( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(camera_response.c_str()) == helios::HELIOS_TYPE_VEC2) {</div>
+<div class="line"><a id="l02553" name="l02553"></a><span class="lineno"> 2553</span>                <span class="keywordflow">if</span>( camera.second.band_spectral_response.find(labels.at(b)) == camera.second.band_spectral_response.end() ){</div>
+<div class="line"><a id="l02554" name="l02554"></a><span class="lineno"> 2554</span>                    <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l02555" name="l02555"></a><span class="lineno"> 2555</span>                }</div>
+<div class="line"><a id="l02556" name="l02556"></a><span class="lineno"> 2556</span> </div>
+<div class="line"><a id="l02557" name="l02557"></a><span class="lineno"> 2557</span>                std::string camera_response = camera.second.band_spectral_response.at(labels.at(b));</div>
 <div class="line"><a id="l02558" name="l02558"></a><span class="lineno"> 2558</span> </div>
-<div class="line"><a id="l02559" name="l02559"></a><span class="lineno"> 2559</span>                        std::vector&lt;helios::vec2&gt; data = loadSpectralData(camera_response.c_str());</div>
+<div class="line"><a id="l02559" name="l02559"></a><span class="lineno"> 2559</span>                <span class="keywordflow">if</span> (!camera_response.empty()) {</div>
 <div class="line"><a id="l02560" name="l02560"></a><span class="lineno"> 2560</span> </div>
-<div class="line"><a id="l02561" name="l02561"></a><span class="lineno"> 2561</span>                        camera_response_unique.at(cam).at(b) = data;</div>
-<div class="line"><a id="l02562" name="l02562"></a><span class="lineno"> 2562</span> </div>
-<div class="line"><a id="l02563" name="l02563"></a><span class="lineno"> 2563</span>                    }<span class="keywordflow">else</span> <span class="keywordflow">if</span> ( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(camera_response.c_str()) != helios::HELIOS_TYPE_VEC2 &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(camera_response.c_str()) != helios::HELIOS_TYPE_STRING ) {</div>
-<div class="line"><a id="l02564" name="l02564"></a><span class="lineno"> 2564</span>                        camera_response.clear();</div>
-<div class="line"><a id="l02565" name="l02565"></a><span class="lineno"> 2565</span>                        std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::runBand): Camera spectral response \&quot;&quot;</span> &lt;&lt; camera_response &lt;&lt; <span class="stringliteral">&quot;\&quot; is not of type HELIOS_TYPE_VEC2 or HELIOS_TYPE_STRING. Assuming a uniform spectral response...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02566" name="l02566"></a><span class="lineno"> 2566</span>                    }</div>
-<div class="line"><a id="l02567" name="l02567"></a><span class="lineno"> 2567</span> </div>
-<div class="line"><a id="l02568" name="l02568"></a><span class="lineno"> 2568</span>                }</div>
-<div class="line"><a id="l02569" name="l02569"></a><span class="lineno"> 2569</span> </div>
-<div class="line"><a id="l02570" name="l02570"></a><span class="lineno"> 2570</span>            }</div>
-<div class="line"><a id="l02571" name="l02571"></a><span class="lineno"> 2571</span>            cam++;</div>
-<div class="line"><a id="l02572" name="l02572"></a><span class="lineno"> 2572</span>        }</div>
-<div class="line"><a id="l02573" name="l02573"></a><span class="lineno"> 2573</span>    }</div>
-<div class="line"><a id="l02574" name="l02574"></a><span class="lineno"> 2574</span> </div>
-<div class="line"><a id="l02575" name="l02575"></a><span class="lineno"> 2575</span>    <span class="comment">//Pre-calculate all unique primitive reflectivity and transmissivity values before assigning to primitives</span></div>
-<div class="line"><a id="l02576" name="l02576"></a><span class="lineno"> 2576</span> </div>
-<div class="line"><a id="l02577" name="l02577"></a><span class="lineno"> 2577</span>    <span class="comment">//first, figure out all of the spectra referenced by all primitives and store it in &quot;surface_spectra&quot; to avoid having to load it again</span></div>
-<div class="line"><a id="l02578" name="l02578"></a><span class="lineno"> 2578</span>    std::map&lt;std::string,std::vector&lt;helios::vec2&gt; &gt; surface_spectra_rho;</div>
-<div class="line"><a id="l02579" name="l02579"></a><span class="lineno"> 2579</span>    std::map&lt;std::string,std::vector&lt;helios::vec2&gt; &gt; surface_spectra_tau;</div>
-<div class="line"><a id="l02580" name="l02580"></a><span class="lineno"> 2580</span>    <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> u = 0; u &lt; Nprimitives; u++) {</div>
-<div class="line"><a id="l02581" name="l02581"></a><span class="lineno"> 2581</span> </div>
-<div class="line"><a id="l02582" name="l02582"></a><span class="lineno"> 2582</span>        uint UUID = context_UUIDs.at(u);</div>
-<div class="line"><a id="l02583" name="l02583"></a><span class="lineno"> 2583</span> </div>
-<div class="line"><a id="l02584" name="l02584"></a><span class="lineno"> 2584</span>        <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>) ) {</div>
-<div class="line"><a id="l02585" name="l02585"></a><span class="lineno"> 2585</span>            <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>) == HELIOS_TYPE_STRING) {</div>
-<div class="line"><a id="l02586" name="l02586"></a><span class="lineno"> 2586</span>                std::string spectrum_label;</div>
-<div class="line"><a id="l02587" name="l02587"></a><span class="lineno"> 2587</span>                context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>, spectrum_label);</div>
-<div class="line"><a id="l02588" name="l02588"></a><span class="lineno"> 2588</span> </div>
-<div class="line"><a id="l02589" name="l02589"></a><span class="lineno"> 2589</span>                <span class="comment">//get the spectral reflectivity data and store it in surface_spectra to avoid having to load it again</span></div>
-<div class="line"><a id="l02590" name="l02590"></a><span class="lineno"> 2590</span>                <span class="keywordflow">if</span> (surface_spectra_rho.find(spectrum_label) == surface_spectra_rho.end() ){</div>
-<div class="line"><a id="l02591" name="l02591"></a><span class="lineno"> 2591</span>                    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(spectrum_label.c_str()) ){</div>
-<div class="line"><a id="l02592" name="l02592"></a><span class="lineno"> 2592</span>                        <span class="keywordflow">if</span> (message_flag &amp;&amp; !spectrum_label.empty() ) {</div>
-<div class="line"><a id="l02593" name="l02593"></a><span class="lineno"> 2593</span>                            std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::runBand): Primitive spectral reflectivity \&quot;&quot;</span> &lt;&lt; spectrum_label &lt;&lt; <span class="stringliteral">&quot;\&quot; does not exist. Using default reflectivity of 0...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02594" name="l02594"></a><span class="lineno"> 2594</span>                        }</div>
-<div class="line"><a id="l02595" name="l02595"></a><span class="lineno"> 2595</span>                        std::vector&lt;helios::vec2&gt; data;</div>
-<div class="line"><a id="l02596" name="l02596"></a><span class="lineno"> 2596</span>                        surface_spectra_rho.emplace(spectrum_label, data);</div>
-<div class="line"><a id="l02597" name="l02597"></a><span class="lineno"> 2597</span>                    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(spectrum_label.c_str() ) == HELIOS_TYPE_VEC2 ) {</div>
-<div class="line"><a id="l02598" name="l02598"></a><span class="lineno"> 2598</span> </div>
-<div class="line"><a id="l02599" name="l02599"></a><span class="lineno"> 2599</span>                        std::vector&lt;helios::vec2&gt; data = loadSpectralData(spectrum_label.c_str());</div>
-<div class="line"><a id="l02600" name="l02600"></a><span class="lineno"> 2600</span>                        surface_spectra_rho.emplace(spectrum_label, data);</div>
-<div class="line"><a id="l02601" name="l02601"></a><span class="lineno"> 2601</span> </div>
-<div class="line"><a id="l02602" name="l02602"></a><span class="lineno"> 2602</span>                    }<span class="keywordflow">else</span> <span class="keywordflow">if</span> ( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(spectrum_label.c_str()) != helios::HELIOS_TYPE_VEC2 &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(spectrum_label.c_str()) != helios::HELIOS_TYPE_STRING ) {</div>
-<div class="line"><a id="l02603" name="l02603"></a><span class="lineno"> 2603</span>                        spectrum_label.clear();</div>
-<div class="line"><a id="l02604" name="l02604"></a><span class="lineno"> 2604</span>                        std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::runBand): Object spectral reflectivity \&quot;&quot;</span> &lt;&lt; spectrum_label &lt;&lt; <span class="stringliteral">&quot;\&quot; is not of type HELIOS_TYPE_VEC2 or HELIOS_TYPE_STRING. Assuming a uniform spectral distribution...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02605" name="l02605"></a><span class="lineno"> 2605</span>                    }</div>
+<div class="line"><a id="l02561" name="l02561"></a><span class="lineno"> 2561</span>                    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(camera_response.c_str()) ){</div>
+<div class="line"><a id="l02562" name="l02562"></a><span class="lineno"> 2562</span>                        <span class="keywordflow">if</span>( camera_response!=<span class="stringliteral">&quot;uniform&quot;</span> ) {</div>
+<div class="line"><a id="l02563" name="l02563"></a><span class="lineno"> 2563</span>                            std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::updateRadiativeProperties): Camera spectral response \&quot;&quot;</span> &lt;&lt; camera_response &lt;&lt; <span class="stringliteral">&quot;\&quot; does not exist. Assuming a uniform spectral response...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02564" name="l02564"></a><span class="lineno"> 2564</span>                        }</div>
+<div class="line"><a id="l02565" name="l02565"></a><span class="lineno"> 2565</span>                    }<span class="keywordflow">else</span> <span class="keywordflow">if</span> ( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(camera_response.c_str()) == helios::HELIOS_TYPE_VEC2) {</div>
+<div class="line"><a id="l02566" name="l02566"></a><span class="lineno"> 2566</span> </div>
+<div class="line"><a id="l02567" name="l02567"></a><span class="lineno"> 2567</span>                        std::vector&lt;helios::vec2&gt; data = loadSpectralData(camera_response.c_str());</div>
+<div class="line"><a id="l02568" name="l02568"></a><span class="lineno"> 2568</span> </div>
+<div class="line"><a id="l02569" name="l02569"></a><span class="lineno"> 2569</span>                        camera_response_unique.at(cam).at(b) = data;</div>
+<div class="line"><a id="l02570" name="l02570"></a><span class="lineno"> 2570</span> </div>
+<div class="line"><a id="l02571" name="l02571"></a><span class="lineno"> 2571</span>                    }<span class="keywordflow">else</span> <span class="keywordflow">if</span> ( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(camera_response.c_str()) != helios::HELIOS_TYPE_VEC2 &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(camera_response.c_str()) != helios::HELIOS_TYPE_STRING ) {</div>
+<div class="line"><a id="l02572" name="l02572"></a><span class="lineno"> 2572</span>                        camera_response.clear();</div>
+<div class="line"><a id="l02573" name="l02573"></a><span class="lineno"> 2573</span>                        std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::runBand): Camera spectral response \&quot;&quot;</span> &lt;&lt; camera_response &lt;&lt; <span class="stringliteral">&quot;\&quot; is not of type HELIOS_TYPE_VEC2 or HELIOS_TYPE_STRING. Assuming a uniform spectral response...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02574" name="l02574"></a><span class="lineno"> 2574</span>                    }</div>
+<div class="line"><a id="l02575" name="l02575"></a><span class="lineno"> 2575</span> </div>
+<div class="line"><a id="l02576" name="l02576"></a><span class="lineno"> 2576</span>                }</div>
+<div class="line"><a id="l02577" name="l02577"></a><span class="lineno"> 2577</span> </div>
+<div class="line"><a id="l02578" name="l02578"></a><span class="lineno"> 2578</span>            }</div>
+<div class="line"><a id="l02579" name="l02579"></a><span class="lineno"> 2579</span>            cam++;</div>
+<div class="line"><a id="l02580" name="l02580"></a><span class="lineno"> 2580</span>        }</div>
+<div class="line"><a id="l02581" name="l02581"></a><span class="lineno"> 2581</span>    }</div>
+<div class="line"><a id="l02582" name="l02582"></a><span class="lineno"> 2582</span> </div>
+<div class="line"><a id="l02583" name="l02583"></a><span class="lineno"> 2583</span>    <span class="comment">//Pre-calculate all unique primitive reflectivity and transmissivity values before assigning to primitives</span></div>
+<div class="line"><a id="l02584" name="l02584"></a><span class="lineno"> 2584</span> </div>
+<div class="line"><a id="l02585" name="l02585"></a><span class="lineno"> 2585</span>    <span class="comment">//first, figure out all of the spectra referenced by all primitives and store it in &quot;surface_spectra&quot; to avoid having to load it again</span></div>
+<div class="line"><a id="l02586" name="l02586"></a><span class="lineno"> 2586</span>    std::map&lt;std::string,std::vector&lt;helios::vec2&gt; &gt; surface_spectra_rho;</div>
+<div class="line"><a id="l02587" name="l02587"></a><span class="lineno"> 2587</span>    std::map&lt;std::string,std::vector&lt;helios::vec2&gt; &gt; surface_spectra_tau;</div>
+<div class="line"><a id="l02588" name="l02588"></a><span class="lineno"> 2588</span>    <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> u = 0; u &lt; Nprimitives; u++) {</div>
+<div class="line"><a id="l02589" name="l02589"></a><span class="lineno"> 2589</span> </div>
+<div class="line"><a id="l02590" name="l02590"></a><span class="lineno"> 2590</span>        uint UUID = context_UUIDs.at(u);</div>
+<div class="line"><a id="l02591" name="l02591"></a><span class="lineno"> 2591</span> </div>
+<div class="line"><a id="l02592" name="l02592"></a><span class="lineno"> 2592</span>        <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>) ) {</div>
+<div class="line"><a id="l02593" name="l02593"></a><span class="lineno"> 2593</span>            <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>) == HELIOS_TYPE_STRING) {</div>
+<div class="line"><a id="l02594" name="l02594"></a><span class="lineno"> 2594</span>                std::string spectrum_label;</div>
+<div class="line"><a id="l02595" name="l02595"></a><span class="lineno"> 2595</span>                context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>, spectrum_label);</div>
+<div class="line"><a id="l02596" name="l02596"></a><span class="lineno"> 2596</span> </div>
+<div class="line"><a id="l02597" name="l02597"></a><span class="lineno"> 2597</span>                <span class="comment">//get the spectral reflectivity data and store it in surface_spectra to avoid having to load it again</span></div>
+<div class="line"><a id="l02598" name="l02598"></a><span class="lineno"> 2598</span>                <span class="keywordflow">if</span> (surface_spectra_rho.find(spectrum_label) == surface_spectra_rho.end() ){</div>
+<div class="line"><a id="l02599" name="l02599"></a><span class="lineno"> 2599</span>                    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(spectrum_label.c_str()) ){</div>
+<div class="line"><a id="l02600" name="l02600"></a><span class="lineno"> 2600</span>                        <span class="keywordflow">if</span> (message_flag &amp;&amp; !spectrum_label.empty() ) {</div>
+<div class="line"><a id="l02601" name="l02601"></a><span class="lineno"> 2601</span>                            std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::runBand): Primitive spectral reflectivity \&quot;&quot;</span> &lt;&lt; spectrum_label &lt;&lt; <span class="stringliteral">&quot;\&quot; does not exist. Using default reflectivity of 0...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02602" name="l02602"></a><span class="lineno"> 2602</span>                        }</div>
+<div class="line"><a id="l02603" name="l02603"></a><span class="lineno"> 2603</span>                        std::vector&lt;helios::vec2&gt; data;</div>
+<div class="line"><a id="l02604" name="l02604"></a><span class="lineno"> 2604</span>                        surface_spectra_rho.emplace(spectrum_label, data);</div>
+<div class="line"><a id="l02605" name="l02605"></a><span class="lineno"> 2605</span>                    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(spectrum_label.c_str() ) == HELIOS_TYPE_VEC2 ) {</div>
 <div class="line"><a id="l02606" name="l02606"></a><span class="lineno"> 2606</span> </div>
-<div class="line"><a id="l02607" name="l02607"></a><span class="lineno"> 2607</span>                }</div>
-<div class="line"><a id="l02608" name="l02608"></a><span class="lineno"> 2608</span> </div>
-<div class="line"><a id="l02609" name="l02609"></a><span class="lineno"> 2609</span>            }</div>
-<div class="line"><a id="l02610" name="l02610"></a><span class="lineno"> 2610</span>        }</div>
-<div class="line"><a id="l02611" name="l02611"></a><span class="lineno"> 2611</span> </div>
-<div class="line"><a id="l02612" name="l02612"></a><span class="lineno"> 2612</span>        <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, <span class="stringliteral">&quot;transmissivity_spectrum&quot;</span>) ) {</div>
-<div class="line"><a id="l02613" name="l02613"></a><span class="lineno"> 2613</span>            <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID, <span class="stringliteral">&quot;transmissivity_spectrum&quot;</span>) == HELIOS_TYPE_STRING) {</div>
-<div class="line"><a id="l02614" name="l02614"></a><span class="lineno"> 2614</span>                std::string spectrum_label;</div>
-<div class="line"><a id="l02615" name="l02615"></a><span class="lineno"> 2615</span>                context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, <span class="stringliteral">&quot;transmissivity_spectrum&quot;</span>, spectrum_label);</div>
+<div class="line"><a id="l02607" name="l02607"></a><span class="lineno"> 2607</span>                        std::vector&lt;helios::vec2&gt; data = loadSpectralData(spectrum_label.c_str());</div>
+<div class="line"><a id="l02608" name="l02608"></a><span class="lineno"> 2608</span>                        surface_spectra_rho.emplace(spectrum_label, data);</div>
+<div class="line"><a id="l02609" name="l02609"></a><span class="lineno"> 2609</span> </div>
+<div class="line"><a id="l02610" name="l02610"></a><span class="lineno"> 2610</span>                    }<span class="keywordflow">else</span> <span class="keywordflow">if</span> ( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(spectrum_label.c_str()) != helios::HELIOS_TYPE_VEC2 &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(spectrum_label.c_str()) != helios::HELIOS_TYPE_STRING ) {</div>
+<div class="line"><a id="l02611" name="l02611"></a><span class="lineno"> 2611</span>                        spectrum_label.clear();</div>
+<div class="line"><a id="l02612" name="l02612"></a><span class="lineno"> 2612</span>                        std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::runBand): Object spectral reflectivity \&quot;&quot;</span> &lt;&lt; spectrum_label &lt;&lt; <span class="stringliteral">&quot;\&quot; is not of type HELIOS_TYPE_VEC2 or HELIOS_TYPE_STRING. Assuming a uniform spectral distribution...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02613" name="l02613"></a><span class="lineno"> 2613</span>                    }</div>
+<div class="line"><a id="l02614" name="l02614"></a><span class="lineno"> 2614</span> </div>
+<div class="line"><a id="l02615" name="l02615"></a><span class="lineno"> 2615</span>                }</div>
 <div class="line"><a id="l02616" name="l02616"></a><span class="lineno"> 2616</span> </div>
-<div class="line"><a id="l02617" name="l02617"></a><span class="lineno"> 2617</span>                <span class="comment">//get the spectral transmissivity data and store it in surface_spectra to avoid having to load it again</span></div>
-<div class="line"><a id="l02618" name="l02618"></a><span class="lineno"> 2618</span>                <span class="keywordflow">if</span> (surface_spectra_tau.find(spectrum_label) == surface_spectra_tau.end() ){</div>
-<div class="line"><a id="l02619" name="l02619"></a><span class="lineno"> 2619</span>                    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(spectrum_label.c_str()) ) {</div>
-<div class="line"><a id="l02620" name="l02620"></a><span class="lineno"> 2620</span>                        <span class="keywordflow">if</span> (message_flag &amp;&amp; !spectrum_label.empty() ){</div>
-<div class="line"><a id="l02621" name="l02621"></a><span class="lineno"> 2621</span>                            std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::runBand): Primitive spectral transmissivity \&quot;&quot;</span> &lt;&lt; spectrum_label &lt;&lt; <span class="stringliteral">&quot;\&quot; does not exist. Using default transmissivity of 0...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02622" name="l02622"></a><span class="lineno"> 2622</span>                        }</div>
-<div class="line"><a id="l02623" name="l02623"></a><span class="lineno"> 2623</span>                        std::vector&lt;helios::vec2&gt; data;</div>
-<div class="line"><a id="l02624" name="l02624"></a><span class="lineno"> 2624</span>                        surface_spectra_tau.emplace(spectrum_label, data);</div>
-<div class="line"><a id="l02625" name="l02625"></a><span class="lineno"> 2625</span>                    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(spectrum_label.c_str() ) == HELIOS_TYPE_VEC2 ) {</div>
-<div class="line"><a id="l02626" name="l02626"></a><span class="lineno"> 2626</span> </div>
-<div class="line"><a id="l02627" name="l02627"></a><span class="lineno"> 2627</span>                        std::vector&lt;helios::vec2&gt; data = loadSpectralData(spectrum_label.c_str());</div>
-<div class="line"><a id="l02628" name="l02628"></a><span class="lineno"> 2628</span>                        surface_spectra_tau.emplace(spectrum_label, data);</div>
-<div class="line"><a id="l02629" name="l02629"></a><span class="lineno"> 2629</span> </div>
-<div class="line"><a id="l02630" name="l02630"></a><span class="lineno"> 2630</span>                    }<span class="keywordflow">else</span> <span class="keywordflow">if</span> ( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(spectrum_label.c_str()) != helios::HELIOS_TYPE_VEC2 &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(spectrum_label.c_str()) != helios::HELIOS_TYPE_STRING ) {</div>
-<div class="line"><a id="l02631" name="l02631"></a><span class="lineno"> 2631</span>                        spectrum_label.clear();</div>
-<div class="line"><a id="l02632" name="l02632"></a><span class="lineno"> 2632</span>                        std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::runBand): Object spectral transmissivity \&quot;&quot;</span> &lt;&lt; spectrum_label &lt;&lt; <span class="stringliteral">&quot;\&quot; is not of type HELIOS_TYPE_VEC2 or HELIOS_TYPE_STRING. Assuming a uniform spectral distribution...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02633" name="l02633"></a><span class="lineno"> 2633</span>                    }</div>
-<div class="line"><a id="l02634" name="l02634"></a><span class="lineno"> 2634</span>                }</div>
-<div class="line"><a id="l02635" name="l02635"></a><span class="lineno"> 2635</span> </div>
-<div class="line"><a id="l02636" name="l02636"></a><span class="lineno"> 2636</span>            }</div>
-<div class="line"><a id="l02637" name="l02637"></a><span class="lineno"> 2637</span>        }</div>
-<div class="line"><a id="l02638" name="l02638"></a><span class="lineno"> 2638</span>    }</div>
-<div class="line"><a id="l02639" name="l02639"></a><span class="lineno"> 2639</span> </div>
-<div class="line"><a id="l02640" name="l02640"></a><span class="lineno"> 2640</span><span class="comment">//    printf(&quot;%d (rho) %d (tau) unique surface spectra loaded\n&quot;, surface_spectra_rho.size(),surface_spectra_tau.size());</span></div>
-<div class="line"><a id="l02641" name="l02641"></a><span class="lineno"> 2641</span> </div>
-<div class="line"><a id="l02642" name="l02642"></a><span class="lineno"> 2642</span>    <span class="comment">//second, calculate unique values of rho and tau for all sources and bands</span></div>
-<div class="line"><a id="l02643" name="l02643"></a><span class="lineno"> 2643</span>    std::map&lt;std::string,std::vector&lt;std::vector&lt;float&gt; &gt; &gt; rho_unique;</div>
-<div class="line"><a id="l02644" name="l02644"></a><span class="lineno"> 2644</span>    std::map&lt;std::string,std::vector&lt;std::vector&lt;float&gt; &gt; &gt; tau_unique;</div>
-<div class="line"><a id="l02645" name="l02645"></a><span class="lineno"> 2645</span> </div>
-<div class="line"><a id="l02646" name="l02646"></a><span class="lineno"> 2646</span>    std::map&lt;std::string,std::vector&lt;std::vector&lt;std::vector&lt;float&gt; &gt; &gt; &gt; rho_cam_unique;</div>
-<div class="line"><a id="l02647" name="l02647"></a><span class="lineno"> 2647</span>    std::map&lt;std::string,std::vector&lt;std::vector&lt;std::vector&lt;float&gt; &gt; &gt; &gt; tau_cam_unique;</div>
-<div class="line"><a id="l02648" name="l02648"></a><span class="lineno"> 2648</span> </div>
-<div class="line"><a id="l02649" name="l02649"></a><span class="lineno"> 2649</span>    std::vector&lt;std::vector&lt;float&gt; &gt; empty;</div>
-<div class="line"><a id="l02650" name="l02650"></a><span class="lineno"> 2650</span>    empty.resize(Nbands);</div>
-<div class="line"><a id="l02651" name="l02651"></a><span class="lineno"> 2651</span>    <span class="keywordflow">for</span>( uint b=0; b&lt;Nbands; b++ ) {</div>
-<div class="line"><a id="l02652" name="l02652"></a><span class="lineno"> 2652</span>        empty.at(b).resize(Nsources,0);</div>
-<div class="line"><a id="l02653" name="l02653"></a><span class="lineno"> 2653</span>    }</div>
-<div class="line"><a id="l02654" name="l02654"></a><span class="lineno"> 2654</span>    std::vector&lt;std::vector&lt;std::vector&lt;float&gt; &gt; &gt; empty_cam;</div>
-<div class="line"><a id="l02655" name="l02655"></a><span class="lineno"> 2655</span>    <span class="keywordflow">if</span> (Ncameras &gt; 0) {</div>
-<div class="line"><a id="l02656" name="l02656"></a><span class="lineno"> 2656</span>        empty_cam.resize(Nbands);</div>
-<div class="line"><a id="l02657" name="l02657"></a><span class="lineno"> 2657</span>        <span class="keywordflow">for</span> (uint b = 0; b &lt; Nbands; b++) {</div>
-<div class="line"><a id="l02658" name="l02658"></a><span class="lineno"> 2658</span>            empty_cam.at(b).resize(Nsources);</div>
-<div class="line"><a id="l02659" name="l02659"></a><span class="lineno"> 2659</span>            <span class="keywordflow">for</span> (uint s = 0; s &lt; Nsources; s++) {</div>
-<div class="line"><a id="l02660" name="l02660"></a><span class="lineno"> 2660</span>                empty_cam.at(b).at(s).resize(Ncameras, 0);</div>
-<div class="line"><a id="l02661" name="l02661"></a><span class="lineno"> 2661</span>            }</div>
-<div class="line"><a id="l02662" name="l02662"></a><span class="lineno"> 2662</span>        }</div>
-<div class="line"><a id="l02663" name="l02663"></a><span class="lineno"> 2663</span>    }</div>
-<div class="line"><a id="l02664" name="l02664"></a><span class="lineno"> 2664</span> </div>
-<div class="line"><a id="l02665" name="l02665"></a><span class="lineno"> 2665</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;spectrum : surface_spectra_rho ) { <span class="comment">//reflectivity</span></div>
-<div class="line"><a id="l02666" name="l02666"></a><span class="lineno"> 2666</span> </div>
-<div class="line"><a id="l02667" name="l02667"></a><span class="lineno"> 2667</span>        rho_unique.emplace(spectrum.first, empty);</div>
-<div class="line"><a id="l02668" name="l02668"></a><span class="lineno"> 2668</span>        <span class="keywordflow">if</span> (Ncameras &gt; 0) {</div>
-<div class="line"><a id="l02669" name="l02669"></a><span class="lineno"> 2669</span>            rho_cam_unique.emplace(spectrum.first, empty_cam);</div>
+<div class="line"><a id="l02617" name="l02617"></a><span class="lineno"> 2617</span>            }</div>
+<div class="line"><a id="l02618" name="l02618"></a><span class="lineno"> 2618</span>        }</div>
+<div class="line"><a id="l02619" name="l02619"></a><span class="lineno"> 2619</span> </div>
+<div class="line"><a id="l02620" name="l02620"></a><span class="lineno"> 2620</span>        <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, <span class="stringliteral">&quot;transmissivity_spectrum&quot;</span>) ) {</div>
+<div class="line"><a id="l02621" name="l02621"></a><span class="lineno"> 2621</span>            <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID, <span class="stringliteral">&quot;transmissivity_spectrum&quot;</span>) == HELIOS_TYPE_STRING) {</div>
+<div class="line"><a id="l02622" name="l02622"></a><span class="lineno"> 2622</span>                std::string spectrum_label;</div>
+<div class="line"><a id="l02623" name="l02623"></a><span class="lineno"> 2623</span>                context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, <span class="stringliteral">&quot;transmissivity_spectrum&quot;</span>, spectrum_label);</div>
+<div class="line"><a id="l02624" name="l02624"></a><span class="lineno"> 2624</span> </div>
+<div class="line"><a id="l02625" name="l02625"></a><span class="lineno"> 2625</span>                <span class="comment">//get the spectral transmissivity data and store it in surface_spectra to avoid having to load it again</span></div>
+<div class="line"><a id="l02626" name="l02626"></a><span class="lineno"> 2626</span>                <span class="keywordflow">if</span> (surface_spectra_tau.find(spectrum_label) == surface_spectra_tau.end() ){</div>
+<div class="line"><a id="l02627" name="l02627"></a><span class="lineno"> 2627</span>                    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(spectrum_label.c_str()) ) {</div>
+<div class="line"><a id="l02628" name="l02628"></a><span class="lineno"> 2628</span>                        <span class="keywordflow">if</span> (message_flag &amp;&amp; !spectrum_label.empty() ){</div>
+<div class="line"><a id="l02629" name="l02629"></a><span class="lineno"> 2629</span>                            std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::runBand): Primitive spectral transmissivity \&quot;&quot;</span> &lt;&lt; spectrum_label &lt;&lt; <span class="stringliteral">&quot;\&quot; does not exist. Using default transmissivity of 0...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02630" name="l02630"></a><span class="lineno"> 2630</span>                        }</div>
+<div class="line"><a id="l02631" name="l02631"></a><span class="lineno"> 2631</span>                        std::vector&lt;helios::vec2&gt; data;</div>
+<div class="line"><a id="l02632" name="l02632"></a><span class="lineno"> 2632</span>                        surface_spectra_tau.emplace(spectrum_label, data);</div>
+<div class="line"><a id="l02633" name="l02633"></a><span class="lineno"> 2633</span>                    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(spectrum_label.c_str() ) == HELIOS_TYPE_VEC2 ) {</div>
+<div class="line"><a id="l02634" name="l02634"></a><span class="lineno"> 2634</span> </div>
+<div class="line"><a id="l02635" name="l02635"></a><span class="lineno"> 2635</span>                        std::vector&lt;helios::vec2&gt; data = loadSpectralData(spectrum_label.c_str());</div>
+<div class="line"><a id="l02636" name="l02636"></a><span class="lineno"> 2636</span>                        surface_spectra_tau.emplace(spectrum_label, data);</div>
+<div class="line"><a id="l02637" name="l02637"></a><span class="lineno"> 2637</span> </div>
+<div class="line"><a id="l02638" name="l02638"></a><span class="lineno"> 2638</span>                    }<span class="keywordflow">else</span> <span class="keywordflow">if</span> ( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(spectrum_label.c_str()) != helios::HELIOS_TYPE_VEC2 &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(spectrum_label.c_str()) != helios::HELIOS_TYPE_STRING ) {</div>
+<div class="line"><a id="l02639" name="l02639"></a><span class="lineno"> 2639</span>                        spectrum_label.clear();</div>
+<div class="line"><a id="l02640" name="l02640"></a><span class="lineno"> 2640</span>                        std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::runBand): Object spectral transmissivity \&quot;&quot;</span> &lt;&lt; spectrum_label &lt;&lt; <span class="stringliteral">&quot;\&quot; is not of type HELIOS_TYPE_VEC2 or HELIOS_TYPE_STRING. Assuming a uniform spectral distribution...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02641" name="l02641"></a><span class="lineno"> 2641</span>                    }</div>
+<div class="line"><a id="l02642" name="l02642"></a><span class="lineno"> 2642</span>                }</div>
+<div class="line"><a id="l02643" name="l02643"></a><span class="lineno"> 2643</span> </div>
+<div class="line"><a id="l02644" name="l02644"></a><span class="lineno"> 2644</span>            }</div>
+<div class="line"><a id="l02645" name="l02645"></a><span class="lineno"> 2645</span>        }</div>
+<div class="line"><a id="l02646" name="l02646"></a><span class="lineno"> 2646</span>    }</div>
+<div class="line"><a id="l02647" name="l02647"></a><span class="lineno"> 2647</span> </div>
+<div class="line"><a id="l02648" name="l02648"></a><span class="lineno"> 2648</span><span class="comment">//    printf(&quot;%d (rho) %d (tau) unique surface spectra loaded\n&quot;, surface_spectra_rho.size(),surface_spectra_tau.size());</span></div>
+<div class="line"><a id="l02649" name="l02649"></a><span class="lineno"> 2649</span> </div>
+<div class="line"><a id="l02650" name="l02650"></a><span class="lineno"> 2650</span>    <span class="comment">//second, calculate unique values of rho and tau for all sources and bands</span></div>
+<div class="line"><a id="l02651" name="l02651"></a><span class="lineno"> 2651</span>    std::map&lt;std::string,std::vector&lt;std::vector&lt;float&gt; &gt; &gt; rho_unique;</div>
+<div class="line"><a id="l02652" name="l02652"></a><span class="lineno"> 2652</span>    std::map&lt;std::string,std::vector&lt;std::vector&lt;float&gt; &gt; &gt; tau_unique;</div>
+<div class="line"><a id="l02653" name="l02653"></a><span class="lineno"> 2653</span> </div>
+<div class="line"><a id="l02654" name="l02654"></a><span class="lineno"> 2654</span>    std::map&lt;std::string,std::vector&lt;std::vector&lt;std::vector&lt;float&gt; &gt; &gt; &gt; rho_cam_unique;</div>
+<div class="line"><a id="l02655" name="l02655"></a><span class="lineno"> 2655</span>    std::map&lt;std::string,std::vector&lt;std::vector&lt;std::vector&lt;float&gt; &gt; &gt; &gt; tau_cam_unique;</div>
+<div class="line"><a id="l02656" name="l02656"></a><span class="lineno"> 2656</span> </div>
+<div class="line"><a id="l02657" name="l02657"></a><span class="lineno"> 2657</span>    std::vector&lt;std::vector&lt;float&gt; &gt; empty;</div>
+<div class="line"><a id="l02658" name="l02658"></a><span class="lineno"> 2658</span>    empty.resize(Nbands);</div>
+<div class="line"><a id="l02659" name="l02659"></a><span class="lineno"> 2659</span>    <span class="keywordflow">for</span>( uint b=0; b&lt;Nbands; b++ ) {</div>
+<div class="line"><a id="l02660" name="l02660"></a><span class="lineno"> 2660</span>        empty.at(b).resize(Nsources,0);</div>
+<div class="line"><a id="l02661" name="l02661"></a><span class="lineno"> 2661</span>    }</div>
+<div class="line"><a id="l02662" name="l02662"></a><span class="lineno"> 2662</span>    std::vector&lt;std::vector&lt;std::vector&lt;float&gt; &gt; &gt; empty_cam;</div>
+<div class="line"><a id="l02663" name="l02663"></a><span class="lineno"> 2663</span>    <span class="keywordflow">if</span> (Ncameras &gt; 0) {</div>
+<div class="line"><a id="l02664" name="l02664"></a><span class="lineno"> 2664</span>        empty_cam.resize(Nbands);</div>
+<div class="line"><a id="l02665" name="l02665"></a><span class="lineno"> 2665</span>        <span class="keywordflow">for</span> (uint b = 0; b &lt; Nbands; b++) {</div>
+<div class="line"><a id="l02666" name="l02666"></a><span class="lineno"> 2666</span>            empty_cam.at(b).resize(Nsources);</div>
+<div class="line"><a id="l02667" name="l02667"></a><span class="lineno"> 2667</span>            <span class="keywordflow">for</span> (uint s = 0; s &lt; Nsources; s++) {</div>
+<div class="line"><a id="l02668" name="l02668"></a><span class="lineno"> 2668</span>                empty_cam.at(b).at(s).resize(Ncameras, 0);</div>
+<div class="line"><a id="l02669" name="l02669"></a><span class="lineno"> 2669</span>            }</div>
 <div class="line"><a id="l02670" name="l02670"></a><span class="lineno"> 2670</span>        }</div>
-<div class="line"><a id="l02671" name="l02671"></a><span class="lineno"> 2671</span> </div>
-<div class="line"><a id="l02672" name="l02672"></a><span class="lineno"> 2672</span>        <span class="keywordflow">for</span> (uint b = 0; b &lt; Nbands; b++) {</div>
-<div class="line"><a id="l02673" name="l02673"></a><span class="lineno"> 2673</span>            std::string band = labels.at(b);</div>
+<div class="line"><a id="l02671" name="l02671"></a><span class="lineno"> 2671</span>    }</div>
+<div class="line"><a id="l02672" name="l02672"></a><span class="lineno"> 2672</span> </div>
+<div class="line"><a id="l02673" name="l02673"></a><span class="lineno"> 2673</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;spectrum : surface_spectra_rho ) { <span class="comment">//reflectivity</span></div>
 <div class="line"><a id="l02674" name="l02674"></a><span class="lineno"> 2674</span> </div>
-<div class="line"><a id="l02675" name="l02675"></a><span class="lineno"> 2675</span>            <span class="keywordflow">for</span> (uint s = 0; s &lt; Nsources; s++) {</div>
-<div class="line"><a id="l02676" name="l02676"></a><span class="lineno"> 2676</span> </div>
-<div class="line"><a id="l02677" name="l02677"></a><span class="lineno"> 2677</span>                <span class="comment">//integrate</span></div>
-<div class="line"><a id="l02678" name="l02678"></a><span class="lineno"> 2678</span>                <span class="keywordflow">if</span>( radiation_bands.at(band).wavebandBounds.x != 0 &amp;&amp; radiation_bands.at(band).wavebandBounds.y != 0 &amp;&amp; !spectrum.second.empty() ) {</div>
-<div class="line"><a id="l02679" name="l02679"></a><span class="lineno"> 2679</span>                    <span class="keywordflow">if</span> (!radiation_sources.at(s).source_spectrum.empty()) {</div>
-<div class="line"><a id="l02680" name="l02680"></a><span class="lineno"> 2680</span>                        rho_unique.at(spectrum.first).at(b).at(s) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(s, spectrum.second, radiation_bands.at(band).wavebandBounds.x, radiation_bands.at(band).wavebandBounds.y);</div>
-<div class="line"><a id="l02681" name="l02681"></a><span class="lineno"> 2681</span>                    } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l02682" name="l02682"></a><span class="lineno"> 2682</span>                        <span class="comment">//source spectrum not provided, assume source intensity is constant over the band</span></div>
-<div class="line"><a id="l02683" name="l02683"></a><span class="lineno"> 2683</span>                        rho_unique.at(spectrum.first).at(b).at(s) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(spectrum.second, radiation_bands.at(band).wavebandBounds.x, radiation_bands.at(band).wavebandBounds.y)/(radiation_bands.at(band).wavebandBounds.y-radiation_bands.at(band).wavebandBounds.x);</div>
-<div class="line"><a id="l02684" name="l02684"></a><span class="lineno"> 2684</span>                    }</div>
-<div class="line"><a id="l02685" name="l02685"></a><span class="lineno"> 2685</span>                }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l02686" name="l02686"></a><span class="lineno"> 2686</span>                    rho_unique.at(spectrum.first).at(b).at(s) = rho_default;</div>
-<div class="line"><a id="l02687" name="l02687"></a><span class="lineno"> 2687</span>                }</div>
-<div class="line"><a id="l02688" name="l02688"></a><span class="lineno"> 2688</span> </div>
-<div class="line"><a id="l02689" name="l02689"></a><span class="lineno"> 2689</span>                <span class="comment">//cameras</span></div>
-<div class="line"><a id="l02690" name="l02690"></a><span class="lineno"> 2690</span>                <span class="keywordflow">if</span> (Ncameras &gt; 0) {</div>
-<div class="line"><a id="l02691" name="l02691"></a><span class="lineno"> 2691</span>                    uint cam=0;</div>
-<div class="line"><a id="l02692" name="l02692"></a><span class="lineno"> 2692</span>                    <span class="keywordflow">for</span> (<span class="keyword">const</span> <span class="keyword">auto</span> &amp;camera: cameras) {</div>
-<div class="line"><a id="l02693" name="l02693"></a><span class="lineno"> 2693</span> </div>
-<div class="line"><a id="l02694" name="l02694"></a><span class="lineno"> 2694</span>                        <span class="keywordflow">if</span>( camera_response_unique.at(cam).at(b).empty() ){</div>
-<div class="line"><a id="l02695" name="l02695"></a><span class="lineno"> 2695</span>                            rho_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = rho_unique.at(spectrum.first).at(b).at(s);</div>
+<div class="line"><a id="l02675" name="l02675"></a><span class="lineno"> 2675</span>        rho_unique.emplace(spectrum.first, empty);</div>
+<div class="line"><a id="l02676" name="l02676"></a><span class="lineno"> 2676</span>        <span class="keywordflow">if</span> (Ncameras &gt; 0) {</div>
+<div class="line"><a id="l02677" name="l02677"></a><span class="lineno"> 2677</span>            rho_cam_unique.emplace(spectrum.first, empty_cam);</div>
+<div class="line"><a id="l02678" name="l02678"></a><span class="lineno"> 2678</span>        }</div>
+<div class="line"><a id="l02679" name="l02679"></a><span class="lineno"> 2679</span> </div>
+<div class="line"><a id="l02680" name="l02680"></a><span class="lineno"> 2680</span>        <span class="keywordflow">for</span> (uint b = 0; b &lt; Nbands; b++) {</div>
+<div class="line"><a id="l02681" name="l02681"></a><span class="lineno"> 2681</span>            std::string band = labels.at(b);</div>
+<div class="line"><a id="l02682" name="l02682"></a><span class="lineno"> 2682</span> </div>
+<div class="line"><a id="l02683" name="l02683"></a><span class="lineno"> 2683</span>            <span class="keywordflow">for</span> (uint s = 0; s &lt; Nsources; s++) {</div>
+<div class="line"><a id="l02684" name="l02684"></a><span class="lineno"> 2684</span> </div>
+<div class="line"><a id="l02685" name="l02685"></a><span class="lineno"> 2685</span>                <span class="comment">//integrate</span></div>
+<div class="line"><a id="l02686" name="l02686"></a><span class="lineno"> 2686</span>                <span class="keywordflow">if</span>( radiation_bands.at(band).wavebandBounds.x != 0 &amp;&amp; radiation_bands.at(band).wavebandBounds.y != 0 &amp;&amp; !spectrum.second.empty() ) {</div>
+<div class="line"><a id="l02687" name="l02687"></a><span class="lineno"> 2687</span>                    <span class="keywordflow">if</span> (!radiation_sources.at(s).source_spectrum.empty()) {</div>
+<div class="line"><a id="l02688" name="l02688"></a><span class="lineno"> 2688</span>                        rho_unique.at(spectrum.first).at(b).at(s) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(s, spectrum.second, radiation_bands.at(band).wavebandBounds.x, radiation_bands.at(band).wavebandBounds.y);</div>
+<div class="line"><a id="l02689" name="l02689"></a><span class="lineno"> 2689</span>                    } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l02690" name="l02690"></a><span class="lineno"> 2690</span>                        <span class="comment">//source spectrum not provided, assume source intensity is constant over the band</span></div>
+<div class="line"><a id="l02691" name="l02691"></a><span class="lineno"> 2691</span>                        rho_unique.at(spectrum.first).at(b).at(s) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(spectrum.second, radiation_bands.at(band).wavebandBounds.x, radiation_bands.at(band).wavebandBounds.y)/(radiation_bands.at(band).wavebandBounds.y-radiation_bands.at(band).wavebandBounds.x);</div>
+<div class="line"><a id="l02692" name="l02692"></a><span class="lineno"> 2692</span>                    }</div>
+<div class="line"><a id="l02693" name="l02693"></a><span class="lineno"> 2693</span>                }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l02694" name="l02694"></a><span class="lineno"> 2694</span>                    rho_unique.at(spectrum.first).at(b).at(s) = rho_default;</div>
+<div class="line"><a id="l02695" name="l02695"></a><span class="lineno"> 2695</span>                }</div>
 <div class="line"><a id="l02696" name="l02696"></a><span class="lineno"> 2696</span> </div>
-<div class="line"><a id="l02697" name="l02697"></a><span class="lineno"> 2697</span>                        }<span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l02698" name="l02698"></a><span class="lineno"> 2698</span> </div>
-<div class="line"><a id="l02699" name="l02699"></a><span class="lineno"> 2699</span>                            <span class="comment">//integrate</span></div>
-<div class="line"><a id="l02700" name="l02700"></a><span class="lineno"> 2700</span>                            <span class="keywordflow">if</span>( !spectrum.second.empty() ) {</div>
-<div class="line"><a id="l02701" name="l02701"></a><span class="lineno"> 2701</span>                                <span class="keywordflow">if</span> (!radiation_sources.at(s).source_spectrum.empty()) {</div>
-<div class="line"><a id="l02702" name="l02702"></a><span class="lineno"> 2702</span>                                    rho_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(s, spectrum.second, camera_response_unique.at(cam).at(b));</div>
-<div class="line"><a id="l02703" name="l02703"></a><span class="lineno"> 2703</span>                                } <span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l02704" name="l02704"></a><span class="lineno"> 2704</span>                                    rho_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(spectrum.second, camera_response_unique.at(cam).at(b));</div>
-<div class="line"><a id="l02705" name="l02705"></a><span class="lineno"> 2705</span>                                }</div>
-<div class="line"><a id="l02706" name="l02706"></a><span class="lineno"> 2706</span>                            }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l02707" name="l02707"></a><span class="lineno"> 2707</span>                                rho_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = rho_default;</div>
-<div class="line"><a id="l02708" name="l02708"></a><span class="lineno"> 2708</span>                            }</div>
-<div class="line"><a id="l02709" name="l02709"></a><span class="lineno"> 2709</span> </div>
-<div class="line"><a id="l02710" name="l02710"></a><span class="lineno"> 2710</span>                        }</div>
-<div class="line"><a id="l02711" name="l02711"></a><span class="lineno"> 2711</span> </div>
-<div class="line"><a id="l02712" name="l02712"></a><span class="lineno"> 2712</span>                        cam++;</div>
-<div class="line"><a id="l02713" name="l02713"></a><span class="lineno"> 2713</span>                    }</div>
-<div class="line"><a id="l02714" name="l02714"></a><span class="lineno"> 2714</span>                }</div>
-<div class="line"><a id="l02715" name="l02715"></a><span class="lineno"> 2715</span> </div>
-<div class="line"><a id="l02716" name="l02716"></a><span class="lineno"> 2716</span>            }</div>
+<div class="line"><a id="l02697" name="l02697"></a><span class="lineno"> 2697</span>                <span class="comment">//cameras</span></div>
+<div class="line"><a id="l02698" name="l02698"></a><span class="lineno"> 2698</span>                <span class="keywordflow">if</span> (Ncameras &gt; 0) {</div>
+<div class="line"><a id="l02699" name="l02699"></a><span class="lineno"> 2699</span>                    uint cam=0;</div>
+<div class="line"><a id="l02700" name="l02700"></a><span class="lineno"> 2700</span>                    <span class="keywordflow">for</span> (<span class="keyword">const</span> <span class="keyword">auto</span> &amp;camera: cameras) {</div>
+<div class="line"><a id="l02701" name="l02701"></a><span class="lineno"> 2701</span> </div>
+<div class="line"><a id="l02702" name="l02702"></a><span class="lineno"> 2702</span>                        <span class="keywordflow">if</span>( camera_response_unique.at(cam).at(b).empty() ){</div>
+<div class="line"><a id="l02703" name="l02703"></a><span class="lineno"> 2703</span>                            rho_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = rho_unique.at(spectrum.first).at(b).at(s);</div>
+<div class="line"><a id="l02704" name="l02704"></a><span class="lineno"> 2704</span> </div>
+<div class="line"><a id="l02705" name="l02705"></a><span class="lineno"> 2705</span>                        }<span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l02706" name="l02706"></a><span class="lineno"> 2706</span> </div>
+<div class="line"><a id="l02707" name="l02707"></a><span class="lineno"> 2707</span>                            <span class="comment">//integrate</span></div>
+<div class="line"><a id="l02708" name="l02708"></a><span class="lineno"> 2708</span>                            <span class="keywordflow">if</span>( !spectrum.second.empty() ) {</div>
+<div class="line"><a id="l02709" name="l02709"></a><span class="lineno"> 2709</span>                                <span class="keywordflow">if</span> (!radiation_sources.at(s).source_spectrum.empty()) {</div>
+<div class="line"><a id="l02710" name="l02710"></a><span class="lineno"> 2710</span>                                    rho_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(s, spectrum.second, camera_response_unique.at(cam).at(b));</div>
+<div class="line"><a id="l02711" name="l02711"></a><span class="lineno"> 2711</span>                                } <span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l02712" name="l02712"></a><span class="lineno"> 2712</span>                                    rho_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(spectrum.second, camera_response_unique.at(cam).at(b));</div>
+<div class="line"><a id="l02713" name="l02713"></a><span class="lineno"> 2713</span>                                }</div>
+<div class="line"><a id="l02714" name="l02714"></a><span class="lineno"> 2714</span>                            }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l02715" name="l02715"></a><span class="lineno"> 2715</span>                                rho_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = rho_default;</div>
+<div class="line"><a id="l02716" name="l02716"></a><span class="lineno"> 2716</span>                            }</div>
 <div class="line"><a id="l02717" name="l02717"></a><span class="lineno"> 2717</span> </div>
-<div class="line"><a id="l02718" name="l02718"></a><span class="lineno"> 2718</span>        }</div>
+<div class="line"><a id="l02718" name="l02718"></a><span class="lineno"> 2718</span>                        }</div>
 <div class="line"><a id="l02719" name="l02719"></a><span class="lineno"> 2719</span> </div>
-<div class="line"><a id="l02720" name="l02720"></a><span class="lineno"> 2720</span>    }</div>
-<div class="line"><a id="l02721" name="l02721"></a><span class="lineno"> 2721</span> </div>
-<div class="line"><a id="l02722" name="l02722"></a><span class="lineno"> 2722</span> </div>
-<div class="line"><a id="l02723" name="l02723"></a><span class="lineno"> 2723</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;spectrum : surface_spectra_tau ) {<span class="comment">//transmissivity</span></div>
-<div class="line"><a id="l02724" name="l02724"></a><span class="lineno"> 2724</span> </div>
-<div class="line"><a id="l02725" name="l02725"></a><span class="lineno"> 2725</span>        tau_unique.emplace(spectrum.first, empty);</div>
-<div class="line"><a id="l02726" name="l02726"></a><span class="lineno"> 2726</span>        <span class="keywordflow">if</span> (Ncameras &gt; 0) {</div>
-<div class="line"><a id="l02727" name="l02727"></a><span class="lineno"> 2727</span>            tau_cam_unique.emplace(spectrum.first, empty_cam);</div>
-<div class="line"><a id="l02728" name="l02728"></a><span class="lineno"> 2728</span>        }</div>
+<div class="line"><a id="l02720" name="l02720"></a><span class="lineno"> 2720</span>                        cam++;</div>
+<div class="line"><a id="l02721" name="l02721"></a><span class="lineno"> 2721</span>                    }</div>
+<div class="line"><a id="l02722" name="l02722"></a><span class="lineno"> 2722</span>                }</div>
+<div class="line"><a id="l02723" name="l02723"></a><span class="lineno"> 2723</span> </div>
+<div class="line"><a id="l02724" name="l02724"></a><span class="lineno"> 2724</span>            }</div>
+<div class="line"><a id="l02725" name="l02725"></a><span class="lineno"> 2725</span> </div>
+<div class="line"><a id="l02726" name="l02726"></a><span class="lineno"> 2726</span>        }</div>
+<div class="line"><a id="l02727" name="l02727"></a><span class="lineno"> 2727</span> </div>
+<div class="line"><a id="l02728" name="l02728"></a><span class="lineno"> 2728</span>    }</div>
 <div class="line"><a id="l02729" name="l02729"></a><span class="lineno"> 2729</span> </div>
-<div class="line"><a id="l02730" name="l02730"></a><span class="lineno"> 2730</span>        <span class="keywordflow">for</span>( uint b=0; b&lt;Nbands; b++ ) {</div>
-<div class="line"><a id="l02731" name="l02731"></a><span class="lineno"> 2731</span>            std::string band = labels.at(b);</div>
+<div class="line"><a id="l02730" name="l02730"></a><span class="lineno"> 2730</span> </div>
+<div class="line"><a id="l02731" name="l02731"></a><span class="lineno"> 2731</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;spectrum : surface_spectra_tau ) {<span class="comment">//transmissivity</span></div>
 <div class="line"><a id="l02732" name="l02732"></a><span class="lineno"> 2732</span> </div>
-<div class="line"><a id="l02733" name="l02733"></a><span class="lineno"> 2733</span>            <span class="keywordflow">for</span> (uint s = 0; s &lt; Nsources; s++) {</div>
-<div class="line"><a id="l02734" name="l02734"></a><span class="lineno"> 2734</span> </div>
-<div class="line"><a id="l02735" name="l02735"></a><span class="lineno"> 2735</span>                <span class="comment">//integrate</span></div>
-<div class="line"><a id="l02736" name="l02736"></a><span class="lineno"> 2736</span>                <span class="keywordflow">if</span>( radiation_bands.at(band).wavebandBounds.x!=0 &amp;&amp; radiation_bands.at(band).wavebandBounds.y!=0 &amp;&amp; !spectrum.second.empty()) {</div>
-<div class="line"><a id="l02737" name="l02737"></a><span class="lineno"> 2737</span>                    <span class="keywordflow">if</span> (!radiation_sources.at(s).source_spectrum.empty()) {</div>
-<div class="line"><a id="l02738" name="l02738"></a><span class="lineno"> 2738</span>                        tau_unique.at(spectrum.first).at(b).at(s) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(s, spectrum.second, radiation_bands.at(band).wavebandBounds.x, radiation_bands.at(band).wavebandBounds.y);</div>
-<div class="line"><a id="l02739" name="l02739"></a><span class="lineno"> 2739</span>                    } <span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l02740" name="l02740"></a><span class="lineno"> 2740</span>                        tau_unique.at(spectrum.first).at(b).at(s) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(spectrum.second, radiation_bands.at(band).wavebandBounds.x, radiation_bands.at(band).wavebandBounds.y)/(radiation_bands.at(band).wavebandBounds.y-radiation_bands.at(band).wavebandBounds.x);</div>
-<div class="line"><a id="l02741" name="l02741"></a><span class="lineno"> 2741</span>                    }</div>
-<div class="line"><a id="l02742" name="l02742"></a><span class="lineno"> 2742</span>                }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l02743" name="l02743"></a><span class="lineno"> 2743</span>                    tau_unique.at(spectrum.first).at(b).at(s) = tau_default;</div>
-<div class="line"><a id="l02744" name="l02744"></a><span class="lineno"> 2744</span>                }</div>
-<div class="line"><a id="l02745" name="l02745"></a><span class="lineno"> 2745</span> </div>
-<div class="line"><a id="l02746" name="l02746"></a><span class="lineno"> 2746</span>                <span class="comment">//cameras</span></div>
-<div class="line"><a id="l02747" name="l02747"></a><span class="lineno"> 2747</span>                <span class="keywordflow">if</span> (Ncameras &gt; 0) {</div>
-<div class="line"><a id="l02748" name="l02748"></a><span class="lineno"> 2748</span>                    uint cam=0;</div>
-<div class="line"><a id="l02749" name="l02749"></a><span class="lineno"> 2749</span>                    <span class="keywordflow">for</span> (<span class="keyword">const</span> <span class="keyword">auto</span> &amp;camera: cameras) {</div>
-<div class="line"><a id="l02750" name="l02750"></a><span class="lineno"> 2750</span> </div>
-<div class="line"><a id="l02751" name="l02751"></a><span class="lineno"> 2751</span>                        <span class="keywordflow">if</span>( camera_response_unique.at(cam).at(b).empty() ){</div>
-<div class="line"><a id="l02752" name="l02752"></a><span class="lineno"> 2752</span> </div>
-<div class="line"><a id="l02753" name="l02753"></a><span class="lineno"> 2753</span>                            tau_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = tau_unique.at(spectrum.first).at(b).at(s);</div>
-<div class="line"><a id="l02754" name="l02754"></a><span class="lineno"> 2754</span> </div>
-<div class="line"><a id="l02755" name="l02755"></a><span class="lineno"> 2755</span>                        }<span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l02756" name="l02756"></a><span class="lineno"> 2756</span> </div>
-<div class="line"><a id="l02757" name="l02757"></a><span class="lineno"> 2757</span>                            <span class="comment">//integrate</span></div>
-<div class="line"><a id="l02758" name="l02758"></a><span class="lineno"> 2758</span>                            <span class="keywordflow">if</span>( !spectrum.second.empty() ) {</div>
-<div class="line"><a id="l02759" name="l02759"></a><span class="lineno"> 2759</span>                                <span class="keywordflow">if</span> (!radiation_sources.at(s).source_spectrum.empty()) {</div>
-<div class="line"><a id="l02760" name="l02760"></a><span class="lineno"> 2760</span>                                    tau_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(s, spectrum.second, camera_response_unique.at(cam).at(b));</div>
-<div class="line"><a id="l02761" name="l02761"></a><span class="lineno"> 2761</span>                                } <span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l02762" name="l02762"></a><span class="lineno"> 2762</span>                                    tau_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(spectrum.second, camera_response_unique.at(cam).at(b));</div>
-<div class="line"><a id="l02763" name="l02763"></a><span class="lineno"> 2763</span>                                }</div>
-<div class="line"><a id="l02764" name="l02764"></a><span class="lineno"> 2764</span>                            }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l02765" name="l02765"></a><span class="lineno"> 2765</span>                                tau_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = tau_default;</div>
-<div class="line"><a id="l02766" name="l02766"></a><span class="lineno"> 2766</span>                            }</div>
-<div class="line"><a id="l02767" name="l02767"></a><span class="lineno"> 2767</span> </div>
-<div class="line"><a id="l02768" name="l02768"></a><span class="lineno"> 2768</span>                        }</div>
-<div class="line"><a id="l02769" name="l02769"></a><span class="lineno"> 2769</span> </div>
-<div class="line"><a id="l02770" name="l02770"></a><span class="lineno"> 2770</span>                        cam++;</div>
-<div class="line"><a id="l02771" name="l02771"></a><span class="lineno"> 2771</span>                    }</div>
-<div class="line"><a id="l02772" name="l02772"></a><span class="lineno"> 2772</span>                }</div>
-<div class="line"><a id="l02773" name="l02773"></a><span class="lineno"> 2773</span> </div>
-<div class="line"><a id="l02774" name="l02774"></a><span class="lineno"> 2774</span>            }</div>
+<div class="line"><a id="l02733" name="l02733"></a><span class="lineno"> 2733</span>        tau_unique.emplace(spectrum.first, empty);</div>
+<div class="line"><a id="l02734" name="l02734"></a><span class="lineno"> 2734</span>        <span class="keywordflow">if</span> (Ncameras &gt; 0) {</div>
+<div class="line"><a id="l02735" name="l02735"></a><span class="lineno"> 2735</span>            tau_cam_unique.emplace(spectrum.first, empty_cam);</div>
+<div class="line"><a id="l02736" name="l02736"></a><span class="lineno"> 2736</span>        }</div>
+<div class="line"><a id="l02737" name="l02737"></a><span class="lineno"> 2737</span> </div>
+<div class="line"><a id="l02738" name="l02738"></a><span class="lineno"> 2738</span>        <span class="keywordflow">for</span>( uint b=0; b&lt;Nbands; b++ ) {</div>
+<div class="line"><a id="l02739" name="l02739"></a><span class="lineno"> 2739</span>            std::string band = labels.at(b);</div>
+<div class="line"><a id="l02740" name="l02740"></a><span class="lineno"> 2740</span> </div>
+<div class="line"><a id="l02741" name="l02741"></a><span class="lineno"> 2741</span>            <span class="keywordflow">for</span> (uint s = 0; s &lt; Nsources; s++) {</div>
+<div class="line"><a id="l02742" name="l02742"></a><span class="lineno"> 2742</span> </div>
+<div class="line"><a id="l02743" name="l02743"></a><span class="lineno"> 2743</span>                <span class="comment">//integrate</span></div>
+<div class="line"><a id="l02744" name="l02744"></a><span class="lineno"> 2744</span>                <span class="keywordflow">if</span>( radiation_bands.at(band).wavebandBounds.x!=0 &amp;&amp; radiation_bands.at(band).wavebandBounds.y!=0 &amp;&amp; !spectrum.second.empty()) {</div>
+<div class="line"><a id="l02745" name="l02745"></a><span class="lineno"> 2745</span>                    <span class="keywordflow">if</span> (!radiation_sources.at(s).source_spectrum.empty()) {</div>
+<div class="line"><a id="l02746" name="l02746"></a><span class="lineno"> 2746</span>                        tau_unique.at(spectrum.first).at(b).at(s) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(s, spectrum.second, radiation_bands.at(band).wavebandBounds.x, radiation_bands.at(band).wavebandBounds.y);</div>
+<div class="line"><a id="l02747" name="l02747"></a><span class="lineno"> 2747</span>                    } <span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l02748" name="l02748"></a><span class="lineno"> 2748</span>                        tau_unique.at(spectrum.first).at(b).at(s) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(spectrum.second, radiation_bands.at(band).wavebandBounds.x, radiation_bands.at(band).wavebandBounds.y)/(radiation_bands.at(band).wavebandBounds.y-radiation_bands.at(band).wavebandBounds.x);</div>
+<div class="line"><a id="l02749" name="l02749"></a><span class="lineno"> 2749</span>                    }</div>
+<div class="line"><a id="l02750" name="l02750"></a><span class="lineno"> 2750</span>                }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l02751" name="l02751"></a><span class="lineno"> 2751</span>                    tau_unique.at(spectrum.first).at(b).at(s) = tau_default;</div>
+<div class="line"><a id="l02752" name="l02752"></a><span class="lineno"> 2752</span>                }</div>
+<div class="line"><a id="l02753" name="l02753"></a><span class="lineno"> 2753</span> </div>
+<div class="line"><a id="l02754" name="l02754"></a><span class="lineno"> 2754</span>                <span class="comment">//cameras</span></div>
+<div class="line"><a id="l02755" name="l02755"></a><span class="lineno"> 2755</span>                <span class="keywordflow">if</span> (Ncameras &gt; 0) {</div>
+<div class="line"><a id="l02756" name="l02756"></a><span class="lineno"> 2756</span>                    uint cam=0;</div>
+<div class="line"><a id="l02757" name="l02757"></a><span class="lineno"> 2757</span>                    <span class="keywordflow">for</span> (<span class="keyword">const</span> <span class="keyword">auto</span> &amp;camera: cameras) {</div>
+<div class="line"><a id="l02758" name="l02758"></a><span class="lineno"> 2758</span> </div>
+<div class="line"><a id="l02759" name="l02759"></a><span class="lineno"> 2759</span>                        <span class="keywordflow">if</span>( camera_response_unique.at(cam).at(b).empty() ){</div>
+<div class="line"><a id="l02760" name="l02760"></a><span class="lineno"> 2760</span> </div>
+<div class="line"><a id="l02761" name="l02761"></a><span class="lineno"> 2761</span>                            tau_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = tau_unique.at(spectrum.first).at(b).at(s);</div>
+<div class="line"><a id="l02762" name="l02762"></a><span class="lineno"> 2762</span> </div>
+<div class="line"><a id="l02763" name="l02763"></a><span class="lineno"> 2763</span>                        }<span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l02764" name="l02764"></a><span class="lineno"> 2764</span> </div>
+<div class="line"><a id="l02765" name="l02765"></a><span class="lineno"> 2765</span>                            <span class="comment">//integrate</span></div>
+<div class="line"><a id="l02766" name="l02766"></a><span class="lineno"> 2766</span>                            <span class="keywordflow">if</span>( !spectrum.second.empty() ) {</div>
+<div class="line"><a id="l02767" name="l02767"></a><span class="lineno"> 2767</span>                                <span class="keywordflow">if</span> (!radiation_sources.at(s).source_spectrum.empty()) {</div>
+<div class="line"><a id="l02768" name="l02768"></a><span class="lineno"> 2768</span>                                    tau_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(s, spectrum.second, camera_response_unique.at(cam).at(b));</div>
+<div class="line"><a id="l02769" name="l02769"></a><span class="lineno"> 2769</span>                                } <span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l02770" name="l02770"></a><span class="lineno"> 2770</span>                                    tau_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = <a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">integrateSpectrum</a>(spectrum.second, camera_response_unique.at(cam).at(b));</div>
+<div class="line"><a id="l02771" name="l02771"></a><span class="lineno"> 2771</span>                                }</div>
+<div class="line"><a id="l02772" name="l02772"></a><span class="lineno"> 2772</span>                            }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l02773" name="l02773"></a><span class="lineno"> 2773</span>                                tau_cam_unique.at(spectrum.first).at(b).at(s).at(cam) = tau_default;</div>
+<div class="line"><a id="l02774" name="l02774"></a><span class="lineno"> 2774</span>                            }</div>
 <div class="line"><a id="l02775" name="l02775"></a><span class="lineno"> 2775</span> </div>
-<div class="line"><a id="l02776" name="l02776"></a><span class="lineno"> 2776</span>        }</div>
+<div class="line"><a id="l02776" name="l02776"></a><span class="lineno"> 2776</span>                        }</div>
 <div class="line"><a id="l02777" name="l02777"></a><span class="lineno"> 2777</span> </div>
-<div class="line"><a id="l02778" name="l02778"></a><span class="lineno"> 2778</span>    }</div>
-<div class="line"><a id="l02779" name="l02779"></a><span class="lineno"> 2779</span> </div>
-<div class="line"><a id="l02780" name="l02780"></a><span class="lineno"> 2780</span>    <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> u = 0; u &lt; Nprimitives; u++) {</div>
+<div class="line"><a id="l02778" name="l02778"></a><span class="lineno"> 2778</span>                        cam++;</div>
+<div class="line"><a id="l02779" name="l02779"></a><span class="lineno"> 2779</span>                    }</div>
+<div class="line"><a id="l02780" name="l02780"></a><span class="lineno"> 2780</span>                }</div>
 <div class="line"><a id="l02781" name="l02781"></a><span class="lineno"> 2781</span> </div>
-<div class="line"><a id="l02782" name="l02782"></a><span class="lineno"> 2782</span>        uint UUID = context_UUIDs.at(u);</div>
+<div class="line"><a id="l02782" name="l02782"></a><span class="lineno"> 2782</span>            }</div>
 <div class="line"><a id="l02783" name="l02783"></a><span class="lineno"> 2783</span> </div>
-<div class="line"><a id="l02784" name="l02784"></a><span class="lineno"> 2784</span>        <a class="code hl_enumeration" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601">helios::PrimitiveType</a> type = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a67bfd66f0a445f6485f1099f9eadc949">getPrimitiveType</a>(UUID);</div>
+<div class="line"><a id="l02784" name="l02784"></a><span class="lineno"> 2784</span>        }</div>
 <div class="line"><a id="l02785" name="l02785"></a><span class="lineno"> 2785</span> </div>
-<div class="line"><a id="l02786" name="l02786"></a><span class="lineno"> 2786</span>        <span class="keywordflow">if</span> (type == helios::PRIMITIVE_TYPE_VOXEL) {</div>
+<div class="line"><a id="l02786" name="l02786"></a><span class="lineno"> 2786</span>    }</div>
 <div class="line"><a id="l02787" name="l02787"></a><span class="lineno"> 2787</span> </div>
-<div class="line"><a id="l02788" name="l02788"></a><span class="lineno"> 2788</span><span class="comment">//                // NOTE: This is a little confusing - for volumes of participating media, we&#39;re going to use the &quot;rho&quot; variable to store the absorption coefficient and use the &quot;tau&quot; variable to store the scattering coefficient.  This is to save on memory so we don&#39;t have to define separate arrays.</span></div>
-<div class="line"><a id="l02789" name="l02789"></a><span class="lineno"> 2789</span><span class="comment">//</span></div>
-<div class="line"><a id="l02790" name="l02790"></a><span class="lineno"> 2790</span><span class="comment">//                // Absorption coefficient</span></div>
-<div class="line"><a id="l02791" name="l02791"></a><span class="lineno"> 2791</span><span class="comment">//</span></div>
-<div class="line"><a id="l02792" name="l02792"></a><span class="lineno"> 2792</span><span class="comment">//                prop = &quot;attenuation_coefficient_&quot; + band;</span></div>
-<div class="line"><a id="l02793" name="l02793"></a><span class="lineno"> 2793</span><span class="comment">//</span></div>
-<div class="line"><a id="l02794" name="l02794"></a><span class="lineno"> 2794</span><span class="comment">//                if (context-&gt;doesPrimitiveDataExist(UUID, prop.c_str())) {</span></div>
-<div class="line"><a id="l02795" name="l02795"></a><span class="lineno"> 2795</span><span class="comment">//                    context-&gt;getPrimitiveData(UUID, prop.c_str(), rho.at(u).at(b));</span></div>
-<div class="line"><a id="l02796" name="l02796"></a><span class="lineno"> 2796</span><span class="comment">//                } else {</span></div>
-<div class="line"><a id="l02797" name="l02797"></a><span class="lineno"> 2797</span><span class="comment">//                    rho.at(u).at(b) = kappa_default;</span></div>
-<div class="line"><a id="l02798" name="l02798"></a><span class="lineno"> 2798</span><span class="comment">//                    context-&gt;setPrimitiveData(UUID, prop.c_str(), helios::HELIOS_TYPE_FLOAT, 1, &amp;kappa_default);</span></div>
-<div class="line"><a id="l02799" name="l02799"></a><span class="lineno"> 2799</span><span class="comment">//                }</span></div>
-<div class="line"><a id="l02800" name="l02800"></a><span class="lineno"> 2800</span><span class="comment">//</span></div>
-<div class="line"><a id="l02801" name="l02801"></a><span class="lineno"> 2801</span><span class="comment">//                if (rho.at(u).at(b) &lt; 0) {</span></div>
-<div class="line"><a id="l02802" name="l02802"></a><span class="lineno"> 2802</span><span class="comment">//                    rho.at(u).at(b) = 0.f;</span></div>
-<div class="line"><a id="l02803" name="l02803"></a><span class="lineno"> 2803</span><span class="comment">//                    if (message_flag) {</span></div>
-<div class="line"><a id="l02804" name="l02804"></a><span class="lineno"> 2804</span><span class="comment">//                        std::cout</span></div>
-<div class="line"><a id="l02805" name="l02805"></a><span class="lineno"> 2805</span><span class="comment">//                                &lt;&lt; &quot;WARNING (RadiationModel): absorption coefficient cannot be less than 0.  Clamping to 0 for band &quot;</span></div>
-<div class="line"><a id="l02806" name="l02806"></a><span class="lineno"> 2806</span><span class="comment">//                                &lt;&lt; band &lt;&lt; &quot;.&quot; &lt;&lt; std::endl;</span></div>
-<div class="line"><a id="l02807" name="l02807"></a><span class="lineno"> 2807</span><span class="comment">//                    }</span></div>
-<div class="line"><a id="l02808" name="l02808"></a><span class="lineno"> 2808</span><span class="comment">//                } else if (rho.at(u).at(b) &gt; 1.f) {</span></div>
-<div class="line"><a id="l02809" name="l02809"></a><span class="lineno"> 2809</span><span class="comment">//                    rho.at(u).at(b) = 1.f;</span></div>
-<div class="line"><a id="l02810" name="l02810"></a><span class="lineno"> 2810</span><span class="comment">//                    if (message_flag) {</span></div>
-<div class="line"><a id="l02811" name="l02811"></a><span class="lineno"> 2811</span><span class="comment">//                        std::cout</span></div>
-<div class="line"><a id="l02812" name="l02812"></a><span class="lineno"> 2812</span><span class="comment">//                                &lt;&lt; &quot;WARNING (RadiationModel): absorption coefficient cannot be greater than 1.  Clamping to 1 for band &quot;</span></div>
-<div class="line"><a id="l02813" name="l02813"></a><span class="lineno"> 2813</span><span class="comment">//                                &lt;&lt; band &lt;&lt; &quot;.&quot; &lt;&lt; std::endl;</span></div>
-<div class="line"><a id="l02814" name="l02814"></a><span class="lineno"> 2814</span><span class="comment">//                    }</span></div>
-<div class="line"><a id="l02815" name="l02815"></a><span class="lineno"> 2815</span><span class="comment">//                }</span></div>
-<div class="line"><a id="l02816" name="l02816"></a><span class="lineno"> 2816</span><span class="comment">//</span></div>
-<div class="line"><a id="l02817" name="l02817"></a><span class="lineno"> 2817</span><span class="comment">//                // Scattering coefficient</span></div>
-<div class="line"><a id="l02818" name="l02818"></a><span class="lineno"> 2818</span><span class="comment">//</span></div>
-<div class="line"><a id="l02819" name="l02819"></a><span class="lineno"> 2819</span><span class="comment">//                prop = &quot;scattering_coefficient_&quot; + band;</span></div>
-<div class="line"><a id="l02820" name="l02820"></a><span class="lineno"> 2820</span><span class="comment">//</span></div>
-<div class="line"><a id="l02821" name="l02821"></a><span class="lineno"> 2821</span><span class="comment">//                if (context-&gt;doesPrimitiveDataExist(UUID, prop.c_str())) {</span></div>
-<div class="line"><a id="l02822" name="l02822"></a><span class="lineno"> 2822</span><span class="comment">//                    context-&gt;getPrimitiveData(UUID, prop.c_str(), tau[u]);</span></div>
-<div class="line"><a id="l02823" name="l02823"></a><span class="lineno"> 2823</span><span class="comment">//                } else {</span></div>
-<div class="line"><a id="l02824" name="l02824"></a><span class="lineno"> 2824</span><span class="comment">//                    tau.at(u).at(b) = sigmas_default;</span></div>
-<div class="line"><a id="l02825" name="l02825"></a><span class="lineno"> 2825</span><span class="comment">//                    context-&gt;setPrimitiveData(UUID, prop.c_str(), helios::HELIOS_TYPE_FLOAT, 1, &amp;sigmas_default);</span></div>
-<div class="line"><a id="l02826" name="l02826"></a><span class="lineno"> 2826</span><span class="comment">//                }</span></div>
-<div class="line"><a id="l02827" name="l02827"></a><span class="lineno"> 2827</span><span class="comment">//</span></div>
-<div class="line"><a id="l02828" name="l02828"></a><span class="lineno"> 2828</span><span class="comment">//                if (tau.at(u).at(b) &lt; 0) {</span></div>
-<div class="line"><a id="l02829" name="l02829"></a><span class="lineno"> 2829</span><span class="comment">//                    tau.at(u).at(b) = 0.f;</span></div>
-<div class="line"><a id="l02830" name="l02830"></a><span class="lineno"> 2830</span><span class="comment">//                    if (message_flag) {</span></div>
-<div class="line"><a id="l02831" name="l02831"></a><span class="lineno"> 2831</span><span class="comment">//                        std::cout</span></div>
-<div class="line"><a id="l02832" name="l02832"></a><span class="lineno"> 2832</span><span class="comment">//                                &lt;&lt; &quot;WARNING (RadiationModel): scattering coefficient cannot be less than 0.  Clamping to 0 for band &quot;</span></div>
-<div class="line"><a id="l02833" name="l02833"></a><span class="lineno"> 2833</span><span class="comment">//                                &lt;&lt; band &lt;&lt; &quot;.&quot; &lt;&lt; std::endl;</span></div>
-<div class="line"><a id="l02834" name="l02834"></a><span class="lineno"> 2834</span><span class="comment">//                    }</span></div>
-<div class="line"><a id="l02835" name="l02835"></a><span class="lineno"> 2835</span><span class="comment">//                } else if (tau.at(u).at(b) &gt; 1.f) {</span></div>
-<div class="line"><a id="l02836" name="l02836"></a><span class="lineno"> 2836</span><span class="comment">//                    tau.at(u).at(b) = 1.f;</span></div>
-<div class="line"><a id="l02837" name="l02837"></a><span class="lineno"> 2837</span><span class="comment">//                    if (message_flag) {</span></div>
-<div class="line"><a id="l02838" name="l02838"></a><span class="lineno"> 2838</span><span class="comment">//                        std::cout</span></div>
-<div class="line"><a id="l02839" name="l02839"></a><span class="lineno"> 2839</span><span class="comment">//                                &lt;&lt; &quot;WARNING (RadiationModel): scattering coefficient cannot be greater than 1.  Clamping to 1 for band &quot;</span></div>
-<div class="line"><a id="l02840" name="l02840"></a><span class="lineno"> 2840</span><span class="comment">//                                &lt;&lt; band &lt;&lt; &quot;.&quot; &lt;&lt; std::endl;</span></div>
-<div class="line"><a id="l02841" name="l02841"></a><span class="lineno"> 2841</span><span class="comment">//                    }</span></div>
-<div class="line"><a id="l02842" name="l02842"></a><span class="lineno"> 2842</span><span class="comment">//                }</span></div>
-<div class="line"><a id="l02843" name="l02843"></a><span class="lineno"> 2843</span> </div>
-<div class="line"><a id="l02844" name="l02844"></a><span class="lineno"> 2844</span>        } <span class="keywordflow">else</span> { <span class="comment">//other than voxels</span></div>
-<div class="line"><a id="l02845" name="l02845"></a><span class="lineno"> 2845</span> </div>
-<div class="line"><a id="l02846" name="l02846"></a><span class="lineno"> 2846</span>            <span class="comment">// Reflectivity</span></div>
-<div class="line"><a id="l02847" name="l02847"></a><span class="lineno"> 2847</span> </div>
-<div class="line"><a id="l02848" name="l02848"></a><span class="lineno"> 2848</span>            <span class="comment">//check for primitive data of form &quot;reflectivity_spectrum&quot; that can be used to calculate reflectivity</span></div>
-<div class="line"><a id="l02849" name="l02849"></a><span class="lineno"> 2849</span>            std::string spectrum_label;</div>
-<div class="line"><a id="l02850" name="l02850"></a><span class="lineno"> 2850</span>            <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>)) {</div>
-<div class="line"><a id="l02851" name="l02851"></a><span class="lineno"> 2851</span>                <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>) == HELIOS_TYPE_STRING) {</div>
-<div class="line"><a id="l02852" name="l02852"></a><span class="lineno"> 2852</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>, spectrum_label);</div>
-<div class="line"><a id="l02853" name="l02853"></a><span class="lineno"> 2853</span>                }</div>
-<div class="line"><a id="l02854" name="l02854"></a><span class="lineno"> 2854</span>            }</div>
+<div class="line"><a id="l02788" name="l02788"></a><span class="lineno"> 2788</span>    <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> u = 0; u &lt; Nprimitives; u++) {</div>
+<div class="line"><a id="l02789" name="l02789"></a><span class="lineno"> 2789</span> </div>
+<div class="line"><a id="l02790" name="l02790"></a><span class="lineno"> 2790</span>        uint UUID = context_UUIDs.at(u);</div>
+<div class="line"><a id="l02791" name="l02791"></a><span class="lineno"> 2791</span> </div>
+<div class="line"><a id="l02792" name="l02792"></a><span class="lineno"> 2792</span>        <a class="code hl_enumeration" href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601">helios::PrimitiveType</a> type = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a67bfd66f0a445f6485f1099f9eadc949">getPrimitiveType</a>(UUID);</div>
+<div class="line"><a id="l02793" name="l02793"></a><span class="lineno"> 2793</span> </div>
+<div class="line"><a id="l02794" name="l02794"></a><span class="lineno"> 2794</span>        <span class="keywordflow">if</span> (type == helios::PRIMITIVE_TYPE_VOXEL) {</div>
+<div class="line"><a id="l02795" name="l02795"></a><span class="lineno"> 2795</span> </div>
+<div class="line"><a id="l02796" name="l02796"></a><span class="lineno"> 2796</span><span class="comment">//                // NOTE: This is a little confusing - for volumes of participating media, we&#39;re going to use the &quot;rho&quot; variable to store the absorption coefficient and use the &quot;tau&quot; variable to store the scattering coefficient.  This is to save on memory so we don&#39;t have to define separate arrays.</span></div>
+<div class="line"><a id="l02797" name="l02797"></a><span class="lineno"> 2797</span><span class="comment">//</span></div>
+<div class="line"><a id="l02798" name="l02798"></a><span class="lineno"> 2798</span><span class="comment">//                // Absorption coefficient</span></div>
+<div class="line"><a id="l02799" name="l02799"></a><span class="lineno"> 2799</span><span class="comment">//</span></div>
+<div class="line"><a id="l02800" name="l02800"></a><span class="lineno"> 2800</span><span class="comment">//                prop = &quot;attenuation_coefficient_&quot; + band;</span></div>
+<div class="line"><a id="l02801" name="l02801"></a><span class="lineno"> 2801</span><span class="comment">//</span></div>
+<div class="line"><a id="l02802" name="l02802"></a><span class="lineno"> 2802</span><span class="comment">//                if (context-&gt;doesPrimitiveDataExist(UUID, prop.c_str())) {</span></div>
+<div class="line"><a id="l02803" name="l02803"></a><span class="lineno"> 2803</span><span class="comment">//                    context-&gt;getPrimitiveData(UUID, prop.c_str(), rho.at(u).at(b));</span></div>
+<div class="line"><a id="l02804" name="l02804"></a><span class="lineno"> 2804</span><span class="comment">//                } else {</span></div>
+<div class="line"><a id="l02805" name="l02805"></a><span class="lineno"> 2805</span><span class="comment">//                    rho.at(u).at(b) = kappa_default;</span></div>
+<div class="line"><a id="l02806" name="l02806"></a><span class="lineno"> 2806</span><span class="comment">//                    context-&gt;setPrimitiveData(UUID, prop.c_str(), helios::HELIOS_TYPE_FLOAT, 1, &amp;kappa_default);</span></div>
+<div class="line"><a id="l02807" name="l02807"></a><span class="lineno"> 2807</span><span class="comment">//                }</span></div>
+<div class="line"><a id="l02808" name="l02808"></a><span class="lineno"> 2808</span><span class="comment">//</span></div>
+<div class="line"><a id="l02809" name="l02809"></a><span class="lineno"> 2809</span><span class="comment">//                if (rho.at(u).at(b) &lt; 0) {</span></div>
+<div class="line"><a id="l02810" name="l02810"></a><span class="lineno"> 2810</span><span class="comment">//                    rho.at(u).at(b) = 0.f;</span></div>
+<div class="line"><a id="l02811" name="l02811"></a><span class="lineno"> 2811</span><span class="comment">//                    if (message_flag) {</span></div>
+<div class="line"><a id="l02812" name="l02812"></a><span class="lineno"> 2812</span><span class="comment">//                        std::cout</span></div>
+<div class="line"><a id="l02813" name="l02813"></a><span class="lineno"> 2813</span><span class="comment">//                                &lt;&lt; &quot;WARNING (RadiationModel): absorption coefficient cannot be less than 0.  Clamping to 0 for band &quot;</span></div>
+<div class="line"><a id="l02814" name="l02814"></a><span class="lineno"> 2814</span><span class="comment">//                                &lt;&lt; band &lt;&lt; &quot;.&quot; &lt;&lt; std::endl;</span></div>
+<div class="line"><a id="l02815" name="l02815"></a><span class="lineno"> 2815</span><span class="comment">//                    }</span></div>
+<div class="line"><a id="l02816" name="l02816"></a><span class="lineno"> 2816</span><span class="comment">//                } else if (rho.at(u).at(b) &gt; 1.f) {</span></div>
+<div class="line"><a id="l02817" name="l02817"></a><span class="lineno"> 2817</span><span class="comment">//                    rho.at(u).at(b) = 1.f;</span></div>
+<div class="line"><a id="l02818" name="l02818"></a><span class="lineno"> 2818</span><span class="comment">//                    if (message_flag) {</span></div>
+<div class="line"><a id="l02819" name="l02819"></a><span class="lineno"> 2819</span><span class="comment">//                        std::cout</span></div>
+<div class="line"><a id="l02820" name="l02820"></a><span class="lineno"> 2820</span><span class="comment">//                                &lt;&lt; &quot;WARNING (RadiationModel): absorption coefficient cannot be greater than 1.  Clamping to 1 for band &quot;</span></div>
+<div class="line"><a id="l02821" name="l02821"></a><span class="lineno"> 2821</span><span class="comment">//                                &lt;&lt; band &lt;&lt; &quot;.&quot; &lt;&lt; std::endl;</span></div>
+<div class="line"><a id="l02822" name="l02822"></a><span class="lineno"> 2822</span><span class="comment">//                    }</span></div>
+<div class="line"><a id="l02823" name="l02823"></a><span class="lineno"> 2823</span><span class="comment">//                }</span></div>
+<div class="line"><a id="l02824" name="l02824"></a><span class="lineno"> 2824</span><span class="comment">//</span></div>
+<div class="line"><a id="l02825" name="l02825"></a><span class="lineno"> 2825</span><span class="comment">//                // Scattering coefficient</span></div>
+<div class="line"><a id="l02826" name="l02826"></a><span class="lineno"> 2826</span><span class="comment">//</span></div>
+<div class="line"><a id="l02827" name="l02827"></a><span class="lineno"> 2827</span><span class="comment">//                prop = &quot;scattering_coefficient_&quot; + band;</span></div>
+<div class="line"><a id="l02828" name="l02828"></a><span class="lineno"> 2828</span><span class="comment">//</span></div>
+<div class="line"><a id="l02829" name="l02829"></a><span class="lineno"> 2829</span><span class="comment">//                if (context-&gt;doesPrimitiveDataExist(UUID, prop.c_str())) {</span></div>
+<div class="line"><a id="l02830" name="l02830"></a><span class="lineno"> 2830</span><span class="comment">//                    context-&gt;getPrimitiveData(UUID, prop.c_str(), tau[u]);</span></div>
+<div class="line"><a id="l02831" name="l02831"></a><span class="lineno"> 2831</span><span class="comment">//                } else {</span></div>
+<div class="line"><a id="l02832" name="l02832"></a><span class="lineno"> 2832</span><span class="comment">//                    tau.at(u).at(b) = sigmas_default;</span></div>
+<div class="line"><a id="l02833" name="l02833"></a><span class="lineno"> 2833</span><span class="comment">//                    context-&gt;setPrimitiveData(UUID, prop.c_str(), helios::HELIOS_TYPE_FLOAT, 1, &amp;sigmas_default);</span></div>
+<div class="line"><a id="l02834" name="l02834"></a><span class="lineno"> 2834</span><span class="comment">//                }</span></div>
+<div class="line"><a id="l02835" name="l02835"></a><span class="lineno"> 2835</span><span class="comment">//</span></div>
+<div class="line"><a id="l02836" name="l02836"></a><span class="lineno"> 2836</span><span class="comment">//                if (tau.at(u).at(b) &lt; 0) {</span></div>
+<div class="line"><a id="l02837" name="l02837"></a><span class="lineno"> 2837</span><span class="comment">//                    tau.at(u).at(b) = 0.f;</span></div>
+<div class="line"><a id="l02838" name="l02838"></a><span class="lineno"> 2838</span><span class="comment">//                    if (message_flag) {</span></div>
+<div class="line"><a id="l02839" name="l02839"></a><span class="lineno"> 2839</span><span class="comment">//                        std::cout</span></div>
+<div class="line"><a id="l02840" name="l02840"></a><span class="lineno"> 2840</span><span class="comment">//                                &lt;&lt; &quot;WARNING (RadiationModel): scattering coefficient cannot be less than 0.  Clamping to 0 for band &quot;</span></div>
+<div class="line"><a id="l02841" name="l02841"></a><span class="lineno"> 2841</span><span class="comment">//                                &lt;&lt; band &lt;&lt; &quot;.&quot; &lt;&lt; std::endl;</span></div>
+<div class="line"><a id="l02842" name="l02842"></a><span class="lineno"> 2842</span><span class="comment">//                    }</span></div>
+<div class="line"><a id="l02843" name="l02843"></a><span class="lineno"> 2843</span><span class="comment">//                } else if (tau.at(u).at(b) &gt; 1.f) {</span></div>
+<div class="line"><a id="l02844" name="l02844"></a><span class="lineno"> 2844</span><span class="comment">//                    tau.at(u).at(b) = 1.f;</span></div>
+<div class="line"><a id="l02845" name="l02845"></a><span class="lineno"> 2845</span><span class="comment">//                    if (message_flag) {</span></div>
+<div class="line"><a id="l02846" name="l02846"></a><span class="lineno"> 2846</span><span class="comment">//                        std::cout</span></div>
+<div class="line"><a id="l02847" name="l02847"></a><span class="lineno"> 2847</span><span class="comment">//                                &lt;&lt; &quot;WARNING (RadiationModel): scattering coefficient cannot be greater than 1.  Clamping to 1 for band &quot;</span></div>
+<div class="line"><a id="l02848" name="l02848"></a><span class="lineno"> 2848</span><span class="comment">//                                &lt;&lt; band &lt;&lt; &quot;.&quot; &lt;&lt; std::endl;</span></div>
+<div class="line"><a id="l02849" name="l02849"></a><span class="lineno"> 2849</span><span class="comment">//                    }</span></div>
+<div class="line"><a id="l02850" name="l02850"></a><span class="lineno"> 2850</span><span class="comment">//                }</span></div>
+<div class="line"><a id="l02851" name="l02851"></a><span class="lineno"> 2851</span> </div>
+<div class="line"><a id="l02852" name="l02852"></a><span class="lineno"> 2852</span>        } <span class="keywordflow">else</span> { <span class="comment">//other than voxels</span></div>
+<div class="line"><a id="l02853" name="l02853"></a><span class="lineno"> 2853</span> </div>
+<div class="line"><a id="l02854" name="l02854"></a><span class="lineno"> 2854</span>            <span class="comment">// Reflectivity</span></div>
 <div class="line"><a id="l02855" name="l02855"></a><span class="lineno"> 2855</span> </div>
-<div class="line"><a id="l02856" name="l02856"></a><span class="lineno"> 2856</span>            uint b = 0;</div>
-<div class="line"><a id="l02857" name="l02857"></a><span class="lineno"> 2857</span>            <span class="keywordflow">for</span> (<span class="keyword">const</span> <span class="keyword">auto</span> &amp;band: labels) {</div>
-<div class="line"><a id="l02858" name="l02858"></a><span class="lineno"> 2858</span> </div>
-<div class="line"><a id="l02859" name="l02859"></a><span class="lineno"> 2859</span>                <span class="comment">//check for primitive data of form &quot;reflectivity_bandname&quot;</span></div>
-<div class="line"><a id="l02860" name="l02860"></a><span class="lineno"> 2860</span>                prop = <span class="stringliteral">&quot;reflectivity_&quot;</span> + band;</div>
-<div class="line"><a id="l02861" name="l02861"></a><span class="lineno"> 2861</span> </div>
-<div class="line"><a id="l02862" name="l02862"></a><span class="lineno"> 2862</span>                <span class="keywordtype">float</span> rho_s = rho_default;</div>
-<div class="line"><a id="l02863" name="l02863"></a><span class="lineno"> 2863</span>                <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, prop.c_str())) {</div>
-<div class="line"><a id="l02864" name="l02864"></a><span class="lineno"> 2864</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, prop.c_str(), rho_s);</div>
-<div class="line"><a id="l02865" name="l02865"></a><span class="lineno"> 2865</span>                }</div>
+<div class="line"><a id="l02856" name="l02856"></a><span class="lineno"> 2856</span>            <span class="comment">//check for primitive data of form &quot;reflectivity_spectrum&quot; that can be used to calculate reflectivity</span></div>
+<div class="line"><a id="l02857" name="l02857"></a><span class="lineno"> 2857</span>            std::string spectrum_label;</div>
+<div class="line"><a id="l02858" name="l02858"></a><span class="lineno"> 2858</span>            <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>)) {</div>
+<div class="line"><a id="l02859" name="l02859"></a><span class="lineno"> 2859</span>                <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>) == HELIOS_TYPE_STRING) {</div>
+<div class="line"><a id="l02860" name="l02860"></a><span class="lineno"> 2860</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>, spectrum_label);</div>
+<div class="line"><a id="l02861" name="l02861"></a><span class="lineno"> 2861</span>                }</div>
+<div class="line"><a id="l02862" name="l02862"></a><span class="lineno"> 2862</span>            }</div>
+<div class="line"><a id="l02863" name="l02863"></a><span class="lineno"> 2863</span> </div>
+<div class="line"><a id="l02864" name="l02864"></a><span class="lineno"> 2864</span>            uint b = 0;</div>
+<div class="line"><a id="l02865" name="l02865"></a><span class="lineno"> 2865</span>            <span class="keywordflow">for</span> (<span class="keyword">const</span> <span class="keyword">auto</span> &amp;band: labels) {</div>
 <div class="line"><a id="l02866" name="l02866"></a><span class="lineno"> 2866</span> </div>
-<div class="line"><a id="l02867" name="l02867"></a><span class="lineno"> 2867</span>                <span class="keywordflow">for</span> (uint s = 0; s &lt; Nsources; s++) {</div>
-<div class="line"><a id="l02868" name="l02868"></a><span class="lineno"> 2868</span>                    <span class="keywordflow">if</span> (!spectrum_label.empty() &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(spectrum_label.c_str())) {</div>
+<div class="line"><a id="l02867" name="l02867"></a><span class="lineno"> 2867</span>                <span class="comment">//check for primitive data of form &quot;reflectivity_bandname&quot;</span></div>
+<div class="line"><a id="l02868" name="l02868"></a><span class="lineno"> 2868</span>                prop = <span class="stringliteral">&quot;reflectivity_&quot;</span> + band;</div>
 <div class="line"><a id="l02869" name="l02869"></a><span class="lineno"> 2869</span> </div>
-<div class="line"><a id="l02870" name="l02870"></a><span class="lineno"> 2870</span>                        rho.at(s).at(u).at(b) = rho_unique.at(spectrum_label).at(b).at(s);</div>
-<div class="line"><a id="l02871" name="l02871"></a><span class="lineno"> 2871</span> </div>
-<div class="line"><a id="l02872" name="l02872"></a><span class="lineno"> 2872</span>                        <span class="comment">//cameras</span></div>
-<div class="line"><a id="l02873" name="l02873"></a><span class="lineno"> 2873</span>                        <span class="keywordflow">for</span>( uint cam=0; cam&lt;Ncameras; cam++ ){</div>
-<div class="line"><a id="l02874" name="l02874"></a><span class="lineno"> 2874</span>                            rho_cam.at(s).at(u).at(b).at(cam) = rho_cam_unique.at(spectrum_label).at(b).at(s).at(cam);</div>
-<div class="line"><a id="l02875" name="l02875"></a><span class="lineno"> 2875</span>                        }</div>
-<div class="line"><a id="l02876" name="l02876"></a><span class="lineno"> 2876</span> </div>
-<div class="line"><a id="l02877" name="l02877"></a><span class="lineno"> 2877</span>                        <span class="comment">//assign default value if there is no primitive data or spectral data</span></div>
-<div class="line"><a id="l02878" name="l02878"></a><span class="lineno"> 2878</span>                    } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l02879" name="l02879"></a><span class="lineno"> 2879</span>                        rho.at(s).at(u).at(b) = rho_s;</div>
-<div class="line"><a id="l02880" name="l02880"></a><span class="lineno"> 2880</span> </div>
-<div class="line"><a id="l02881" name="l02881"></a><span class="lineno"> 2881</span>                        <span class="comment">//cameras</span></div>
-<div class="line"><a id="l02882" name="l02882"></a><span class="lineno"> 2882</span>                        <span class="keywordflow">for</span>( uint cam=0; cam&lt;Ncameras; cam++ ){</div>
-<div class="line"><a id="l02883" name="l02883"></a><span class="lineno"> 2883</span>                            rho_cam.at(s).at(u).at(b).at(cam) = rho_s;</div>
-<div class="line"><a id="l02884" name="l02884"></a><span class="lineno"> 2884</span>                        }</div>
-<div class="line"><a id="l02885" name="l02885"></a><span class="lineno"> 2885</span>                    }</div>
-<div class="line"><a id="l02886" name="l02886"></a><span class="lineno"> 2886</span> </div>
-<div class="line"><a id="l02887" name="l02887"></a><span class="lineno"> 2887</span>                    <span class="comment">//error checking</span></div>
-<div class="line"><a id="l02888" name="l02888"></a><span class="lineno"> 2888</span>                    <span class="keywordflow">if</span> (rho.at(s).at(u).at(b) &lt; 0) {</div>
-<div class="line"><a id="l02889" name="l02889"></a><span class="lineno"> 2889</span>                        rho.at(s).at(u).at(b) = 0.f;</div>
-<div class="line"><a id="l02890" name="l02890"></a><span class="lineno"> 2890</span>                        <span class="keywordflow">if</span> (message_flag) {</div>
-<div class="line"><a id="l02891" name="l02891"></a><span class="lineno"> 2891</span>                            std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel): reflectivity cannot be less than 0.  Clamping to 0 for band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;.&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02870" name="l02870"></a><span class="lineno"> 2870</span>                <span class="keywordtype">float</span> rho_s = rho_default;</div>
+<div class="line"><a id="l02871" name="l02871"></a><span class="lineno"> 2871</span>                <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, prop.c_str())) {</div>
+<div class="line"><a id="l02872" name="l02872"></a><span class="lineno"> 2872</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, prop.c_str(), rho_s);</div>
+<div class="line"><a id="l02873" name="l02873"></a><span class="lineno"> 2873</span>                }</div>
+<div class="line"><a id="l02874" name="l02874"></a><span class="lineno"> 2874</span> </div>
+<div class="line"><a id="l02875" name="l02875"></a><span class="lineno"> 2875</span>                <span class="keywordflow">for</span> (uint s = 0; s &lt; Nsources; s++) {</div>
+<div class="line"><a id="l02876" name="l02876"></a><span class="lineno"> 2876</span>                    <span class="keywordflow">if</span> (!spectrum_label.empty() &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(spectrum_label.c_str())) {</div>
+<div class="line"><a id="l02877" name="l02877"></a><span class="lineno"> 2877</span> </div>
+<div class="line"><a id="l02878" name="l02878"></a><span class="lineno"> 2878</span>                        rho.at(s).at(u).at(b) = rho_unique.at(spectrum_label).at(b).at(s);</div>
+<div class="line"><a id="l02879" name="l02879"></a><span class="lineno"> 2879</span> </div>
+<div class="line"><a id="l02880" name="l02880"></a><span class="lineno"> 2880</span>                        <span class="comment">//cameras</span></div>
+<div class="line"><a id="l02881" name="l02881"></a><span class="lineno"> 2881</span>                        <span class="keywordflow">for</span>( uint cam=0; cam&lt;Ncameras; cam++ ){</div>
+<div class="line"><a id="l02882" name="l02882"></a><span class="lineno"> 2882</span>                            rho_cam.at(s).at(u).at(b).at(cam) = rho_cam_unique.at(spectrum_label).at(b).at(s).at(cam);</div>
+<div class="line"><a id="l02883" name="l02883"></a><span class="lineno"> 2883</span>                        }</div>
+<div class="line"><a id="l02884" name="l02884"></a><span class="lineno"> 2884</span> </div>
+<div class="line"><a id="l02885" name="l02885"></a><span class="lineno"> 2885</span>                        <span class="comment">//assign default value if there is no primitive data or spectral data</span></div>
+<div class="line"><a id="l02886" name="l02886"></a><span class="lineno"> 2886</span>                    } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l02887" name="l02887"></a><span class="lineno"> 2887</span>                        rho.at(s).at(u).at(b) = rho_s;</div>
+<div class="line"><a id="l02888" name="l02888"></a><span class="lineno"> 2888</span> </div>
+<div class="line"><a id="l02889" name="l02889"></a><span class="lineno"> 2889</span>                        <span class="comment">//cameras</span></div>
+<div class="line"><a id="l02890" name="l02890"></a><span class="lineno"> 2890</span>                        <span class="keywordflow">for</span>( uint cam=0; cam&lt;Ncameras; cam++ ){</div>
+<div class="line"><a id="l02891" name="l02891"></a><span class="lineno"> 2891</span>                            rho_cam.at(s).at(u).at(b).at(cam) = rho_s;</div>
 <div class="line"><a id="l02892" name="l02892"></a><span class="lineno"> 2892</span>                        }</div>
-<div class="line"><a id="l02893" name="l02893"></a><span class="lineno"> 2893</span>                    } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (rho.at(s).at(u).at(b) &gt; 1.f) {</div>
-<div class="line"><a id="l02894" name="l02894"></a><span class="lineno"> 2894</span>                        rho.at(s).at(u).at(b) = 1.f;</div>
-<div class="line"><a id="l02895" name="l02895"></a><span class="lineno"> 2895</span>                        <span class="keywordflow">if</span> (message_flag) {</div>
-<div class="line"><a id="l02896" name="l02896"></a><span class="lineno"> 2896</span>                            std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel): reflectivity cannot be greater than 1.  Clamping to 1 for band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;.&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l02897" name="l02897"></a><span class="lineno"> 2897</span>                        }</div>
-<div class="line"><a id="l02898" name="l02898"></a><span class="lineno"> 2898</span>                    }</div>
-<div class="line"><a id="l02899" name="l02899"></a><span class="lineno"> 2899</span>                    <span class="keywordflow">if</span>( rho.at(s).at(u).at(b)!=0 ){</div>
-<div class="line"><a id="l02900" name="l02900"></a><span class="lineno"> 2900</span>                        scattering_iterations_needed.at(b) = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l02901" name="l02901"></a><span class="lineno"> 2901</span>                    }</div>
-<div class="line"><a id="l02902" name="l02902"></a><span class="lineno"> 2902</span>                    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;odata : output_prim_data ) {</div>
-<div class="line"><a id="l02903" name="l02903"></a><span class="lineno"> 2903</span>                        <span class="keywordflow">if</span> ( odata == <span class="stringliteral">&quot;reflectivity&quot;</span> ){</div>
-<div class="line"><a id="l02904" name="l02904"></a><span class="lineno"> 2904</span>                            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ac7677094a3bbcb62506ce461d982af1d">setPrimitiveData</a>( UUID, (<span class="stringliteral">&quot;reflectivity_&quot;</span> + std::to_string(s) + <span class="stringliteral">&quot;_&quot;</span> + band).c_str(), rho.at(s).at(u).at(b) );</div>
+<div class="line"><a id="l02893" name="l02893"></a><span class="lineno"> 2893</span>                    }</div>
+<div class="line"><a id="l02894" name="l02894"></a><span class="lineno"> 2894</span> </div>
+<div class="line"><a id="l02895" name="l02895"></a><span class="lineno"> 2895</span>                    <span class="comment">//error checking</span></div>
+<div class="line"><a id="l02896" name="l02896"></a><span class="lineno"> 2896</span>                    <span class="keywordflow">if</span> (rho.at(s).at(u).at(b) &lt; 0) {</div>
+<div class="line"><a id="l02897" name="l02897"></a><span class="lineno"> 2897</span>                        rho.at(s).at(u).at(b) = 0.f;</div>
+<div class="line"><a id="l02898" name="l02898"></a><span class="lineno"> 2898</span>                        <span class="keywordflow">if</span> (message_flag) {</div>
+<div class="line"><a id="l02899" name="l02899"></a><span class="lineno"> 2899</span>                            std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel): reflectivity cannot be less than 0.  Clamping to 0 for band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;.&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l02900" name="l02900"></a><span class="lineno"> 2900</span>                        }</div>
+<div class="line"><a id="l02901" name="l02901"></a><span class="lineno"> 2901</span>                    } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (rho.at(s).at(u).at(b) &gt; 1.f) {</div>
+<div class="line"><a id="l02902" name="l02902"></a><span class="lineno"> 2902</span>                        rho.at(s).at(u).at(b) = 1.f;</div>
+<div class="line"><a id="l02903" name="l02903"></a><span class="lineno"> 2903</span>                        <span class="keywordflow">if</span> (message_flag) {</div>
+<div class="line"><a id="l02904" name="l02904"></a><span class="lineno"> 2904</span>                            std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel): reflectivity cannot be greater than 1.  Clamping to 1 for band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;.&quot;</span> &lt;&lt; std::flush;</div>
 <div class="line"><a id="l02905" name="l02905"></a><span class="lineno"> 2905</span>                        }</div>
 <div class="line"><a id="l02906" name="l02906"></a><span class="lineno"> 2906</span>                    }</div>
-<div class="line"><a id="l02907" name="l02907"></a><span class="lineno"> 2907</span> </div>
-<div class="line"><a id="l02908" name="l02908"></a><span class="lineno"> 2908</span>                }</div>
-<div class="line"><a id="l02909" name="l02909"></a><span class="lineno"> 2909</span>                b++;</div>
-<div class="line"><a id="l02910" name="l02910"></a><span class="lineno"> 2910</span>            }</div>
-<div class="line"><a id="l02911" name="l02911"></a><span class="lineno"> 2911</span> </div>
-<div class="line"><a id="l02912" name="l02912"></a><span class="lineno"> 2912</span>            <span class="comment">// Transmissivity</span></div>
-<div class="line"><a id="l02913" name="l02913"></a><span class="lineno"> 2913</span> </div>
-<div class="line"><a id="l02914" name="l02914"></a><span class="lineno"> 2914</span>            <span class="comment">//check for primitive data of form &quot;transmissivity_spectrum&quot; that can be used to calculate transmissivity</span></div>
-<div class="line"><a id="l02915" name="l02915"></a><span class="lineno"> 2915</span>            spectrum_label.resize(0);</div>
-<div class="line"><a id="l02916" name="l02916"></a><span class="lineno"> 2916</span>            <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, <span class="stringliteral">&quot;transmissivity_spectrum&quot;</span>)) {</div>
-<div class="line"><a id="l02917" name="l02917"></a><span class="lineno"> 2917</span>                <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID, <span class="stringliteral">&quot;transmissivity_spectrum&quot;</span>) == HELIOS_TYPE_STRING) {</div>
-<div class="line"><a id="l02918" name="l02918"></a><span class="lineno"> 2918</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, <span class="stringliteral">&quot;transmissivity_spectrum&quot;</span>, spectrum_label);</div>
-<div class="line"><a id="l02919" name="l02919"></a><span class="lineno"> 2919</span>                }</div>
-<div class="line"><a id="l02920" name="l02920"></a><span class="lineno"> 2920</span>            }</div>
+<div class="line"><a id="l02907" name="l02907"></a><span class="lineno"> 2907</span>                    <span class="keywordflow">if</span>( rho.at(s).at(u).at(b)!=0 ){</div>
+<div class="line"><a id="l02908" name="l02908"></a><span class="lineno"> 2908</span>                        scattering_iterations_needed.at(b) = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l02909" name="l02909"></a><span class="lineno"> 2909</span>                    }</div>
+<div class="line"><a id="l02910" name="l02910"></a><span class="lineno"> 2910</span>                    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;odata : output_prim_data ) {</div>
+<div class="line"><a id="l02911" name="l02911"></a><span class="lineno"> 2911</span>                        <span class="keywordflow">if</span> ( odata == <span class="stringliteral">&quot;reflectivity&quot;</span> ){</div>
+<div class="line"><a id="l02912" name="l02912"></a><span class="lineno"> 2912</span>                            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ac7677094a3bbcb62506ce461d982af1d">setPrimitiveData</a>( UUID, (<span class="stringliteral">&quot;reflectivity_&quot;</span> + std::to_string(s) + <span class="stringliteral">&quot;_&quot;</span> + band).c_str(), rho.at(s).at(u).at(b) );</div>
+<div class="line"><a id="l02913" name="l02913"></a><span class="lineno"> 2913</span>                        }</div>
+<div class="line"><a id="l02914" name="l02914"></a><span class="lineno"> 2914</span>                    }</div>
+<div class="line"><a id="l02915" name="l02915"></a><span class="lineno"> 2915</span> </div>
+<div class="line"><a id="l02916" name="l02916"></a><span class="lineno"> 2916</span>                }</div>
+<div class="line"><a id="l02917" name="l02917"></a><span class="lineno"> 2917</span>                b++;</div>
+<div class="line"><a id="l02918" name="l02918"></a><span class="lineno"> 2918</span>            }</div>
+<div class="line"><a id="l02919" name="l02919"></a><span class="lineno"> 2919</span> </div>
+<div class="line"><a id="l02920" name="l02920"></a><span class="lineno"> 2920</span>            <span class="comment">// Transmissivity</span></div>
 <div class="line"><a id="l02921" name="l02921"></a><span class="lineno"> 2921</span> </div>
-<div class="line"><a id="l02922" name="l02922"></a><span class="lineno"> 2922</span>            b = 0;</div>
-<div class="line"><a id="l02923" name="l02923"></a><span class="lineno"> 2923</span>            <span class="keywordflow">for</span> ( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band: labels ) {</div>
-<div class="line"><a id="l02924" name="l02924"></a><span class="lineno"> 2924</span> </div>
-<div class="line"><a id="l02925" name="l02925"></a><span class="lineno"> 2925</span>                <span class="comment">//check for primitive data of form &quot;transmissivity_bandname&quot;</span></div>
-<div class="line"><a id="l02926" name="l02926"></a><span class="lineno"> 2926</span>                prop = <span class="stringliteral">&quot;transmissivity_&quot;</span> + band;</div>
-<div class="line"><a id="l02927" name="l02927"></a><span class="lineno"> 2927</span> </div>
-<div class="line"><a id="l02928" name="l02928"></a><span class="lineno"> 2928</span>                <span class="keywordtype">float</span> tau_s = tau_default;</div>
-<div class="line"><a id="l02929" name="l02929"></a><span class="lineno"> 2929</span>                <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, prop.c_str())) {</div>
-<div class="line"><a id="l02930" name="l02930"></a><span class="lineno"> 2930</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, prop.c_str(), tau_s);</div>
-<div class="line"><a id="l02931" name="l02931"></a><span class="lineno"> 2931</span>                }</div>
+<div class="line"><a id="l02922" name="l02922"></a><span class="lineno"> 2922</span>            <span class="comment">//check for primitive data of form &quot;transmissivity_spectrum&quot; that can be used to calculate transmissivity</span></div>
+<div class="line"><a id="l02923" name="l02923"></a><span class="lineno"> 2923</span>            spectrum_label.resize(0);</div>
+<div class="line"><a id="l02924" name="l02924"></a><span class="lineno"> 2924</span>            <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, <span class="stringliteral">&quot;transmissivity_spectrum&quot;</span>)) {</div>
+<div class="line"><a id="l02925" name="l02925"></a><span class="lineno"> 2925</span>                <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID, <span class="stringliteral">&quot;transmissivity_spectrum&quot;</span>) == HELIOS_TYPE_STRING) {</div>
+<div class="line"><a id="l02926" name="l02926"></a><span class="lineno"> 2926</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, <span class="stringliteral">&quot;transmissivity_spectrum&quot;</span>, spectrum_label);</div>
+<div class="line"><a id="l02927" name="l02927"></a><span class="lineno"> 2927</span>                }</div>
+<div class="line"><a id="l02928" name="l02928"></a><span class="lineno"> 2928</span>            }</div>
+<div class="line"><a id="l02929" name="l02929"></a><span class="lineno"> 2929</span> </div>
+<div class="line"><a id="l02930" name="l02930"></a><span class="lineno"> 2930</span>            b = 0;</div>
+<div class="line"><a id="l02931" name="l02931"></a><span class="lineno"> 2931</span>            <span class="keywordflow">for</span> ( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band: labels ) {</div>
 <div class="line"><a id="l02932" name="l02932"></a><span class="lineno"> 2932</span> </div>
-<div class="line"><a id="l02933" name="l02933"></a><span class="lineno"> 2933</span>                <span class="keywordflow">for</span> (uint s = 0; s &lt; Nsources; s++) {</div>
-<div class="line"><a id="l02934" name="l02934"></a><span class="lineno"> 2934</span>                    <span class="keywordflow">if</span> (!spectrum_label.empty() &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(spectrum_label.c_str())) {</div>
-<div class="line"><a id="l02935" name="l02935"></a><span class="lineno"> 2935</span>                        tau.at(s).at(u).at(b) = tau_unique.at(spectrum_label).at(b).at(s);</div>
-<div class="line"><a id="l02936" name="l02936"></a><span class="lineno"> 2936</span> </div>
-<div class="line"><a id="l02937" name="l02937"></a><span class="lineno"> 2937</span>                        <span class="comment">//cameras</span></div>
-<div class="line"><a id="l02938" name="l02938"></a><span class="lineno"> 2938</span>                        <span class="keywordflow">for</span>( uint cam=0; cam&lt;Ncameras; cam++ ){</div>
-<div class="line"><a id="l02939" name="l02939"></a><span class="lineno"> 2939</span>                            tau_cam.at(s).at(u).at(b).at(cam) = tau_cam_unique.at(spectrum_label).at(b).at(s).at(cam);</div>
-<div class="line"><a id="l02940" name="l02940"></a><span class="lineno"> 2940</span>                        }</div>
-<div class="line"><a id="l02941" name="l02941"></a><span class="lineno"> 2941</span> </div>
-<div class="line"><a id="l02942" name="l02942"></a><span class="lineno"> 2942</span>                        <span class="comment">//assign default value if there is no primitive data or spectral data</span></div>
-<div class="line"><a id="l02943" name="l02943"></a><span class="lineno"> 2943</span>                    } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l02944" name="l02944"></a><span class="lineno"> 2944</span>                        tau.at(s).at(u).at(b) = tau_s;</div>
-<div class="line"><a id="l02945" name="l02945"></a><span class="lineno"> 2945</span> </div>
-<div class="line"><a id="l02946" name="l02946"></a><span class="lineno"> 2946</span>                        <span class="comment">//cameras</span></div>
-<div class="line"><a id="l02947" name="l02947"></a><span class="lineno"> 2947</span>                        <span class="keywordflow">for</span>( uint cam=0; cam&lt;Ncameras; cam++ ){</div>
-<div class="line"><a id="l02948" name="l02948"></a><span class="lineno"> 2948</span>                            tau_cam.at(s).at(u).at(b).at(cam) = tau_s;</div>
-<div class="line"><a id="l02949" name="l02949"></a><span class="lineno"> 2949</span>                        }</div>
-<div class="line"><a id="l02950" name="l02950"></a><span class="lineno"> 2950</span>                    }</div>
-<div class="line"><a id="l02951" name="l02951"></a><span class="lineno"> 2951</span> </div>
-<div class="line"><a id="l02952" name="l02952"></a><span class="lineno"> 2952</span>                    <span class="comment">//error checking</span></div>
-<div class="line"><a id="l02953" name="l02953"></a><span class="lineno"> 2953</span>                    <span class="keywordflow">if</span> (tau.at(s).at(u).at(b) &lt; 0) {</div>
-<div class="line"><a id="l02954" name="l02954"></a><span class="lineno"> 2954</span>                        tau.at(s).at(u).at(b) = 0.f;</div>
-<div class="line"><a id="l02955" name="l02955"></a><span class="lineno"> 2955</span>                        <span class="keywordflow">if</span> (message_flag) {</div>
-<div class="line"><a id="l02956" name="l02956"></a><span class="lineno"> 2956</span>                            std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel): transmissivity cannot be less than 0.  Clamping to 0 for band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02933" name="l02933"></a><span class="lineno"> 2933</span>                <span class="comment">//check for primitive data of form &quot;transmissivity_bandname&quot;</span></div>
+<div class="line"><a id="l02934" name="l02934"></a><span class="lineno"> 2934</span>                prop = <span class="stringliteral">&quot;transmissivity_&quot;</span> + band;</div>
+<div class="line"><a id="l02935" name="l02935"></a><span class="lineno"> 2935</span> </div>
+<div class="line"><a id="l02936" name="l02936"></a><span class="lineno"> 2936</span>                <span class="keywordtype">float</span> tau_s = tau_default;</div>
+<div class="line"><a id="l02937" name="l02937"></a><span class="lineno"> 2937</span>                <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, prop.c_str())) {</div>
+<div class="line"><a id="l02938" name="l02938"></a><span class="lineno"> 2938</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, prop.c_str(), tau_s);</div>
+<div class="line"><a id="l02939" name="l02939"></a><span class="lineno"> 2939</span>                }</div>
+<div class="line"><a id="l02940" name="l02940"></a><span class="lineno"> 2940</span> </div>
+<div class="line"><a id="l02941" name="l02941"></a><span class="lineno"> 2941</span>                <span class="keywordflow">for</span> (uint s = 0; s &lt; Nsources; s++) {</div>
+<div class="line"><a id="l02942" name="l02942"></a><span class="lineno"> 2942</span>                    <span class="keywordflow">if</span> (!spectrum_label.empty() &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(spectrum_label.c_str())) {</div>
+<div class="line"><a id="l02943" name="l02943"></a><span class="lineno"> 2943</span>                        tau.at(s).at(u).at(b) = tau_unique.at(spectrum_label).at(b).at(s);</div>
+<div class="line"><a id="l02944" name="l02944"></a><span class="lineno"> 2944</span> </div>
+<div class="line"><a id="l02945" name="l02945"></a><span class="lineno"> 2945</span>                        <span class="comment">//cameras</span></div>
+<div class="line"><a id="l02946" name="l02946"></a><span class="lineno"> 2946</span>                        <span class="keywordflow">for</span>( uint cam=0; cam&lt;Ncameras; cam++ ){</div>
+<div class="line"><a id="l02947" name="l02947"></a><span class="lineno"> 2947</span>                            tau_cam.at(s).at(u).at(b).at(cam) = tau_cam_unique.at(spectrum_label).at(b).at(s).at(cam);</div>
+<div class="line"><a id="l02948" name="l02948"></a><span class="lineno"> 2948</span>                        }</div>
+<div class="line"><a id="l02949" name="l02949"></a><span class="lineno"> 2949</span> </div>
+<div class="line"><a id="l02950" name="l02950"></a><span class="lineno"> 2950</span>                        <span class="comment">//assign default value if there is no primitive data or spectral data</span></div>
+<div class="line"><a id="l02951" name="l02951"></a><span class="lineno"> 2951</span>                    } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l02952" name="l02952"></a><span class="lineno"> 2952</span>                        tau.at(s).at(u).at(b) = tau_s;</div>
+<div class="line"><a id="l02953" name="l02953"></a><span class="lineno"> 2953</span> </div>
+<div class="line"><a id="l02954" name="l02954"></a><span class="lineno"> 2954</span>                        <span class="comment">//cameras</span></div>
+<div class="line"><a id="l02955" name="l02955"></a><span class="lineno"> 2955</span>                        <span class="keywordflow">for</span>( uint cam=0; cam&lt;Ncameras; cam++ ){</div>
+<div class="line"><a id="l02956" name="l02956"></a><span class="lineno"> 2956</span>                            tau_cam.at(s).at(u).at(b).at(cam) = tau_s;</div>
 <div class="line"><a id="l02957" name="l02957"></a><span class="lineno"> 2957</span>                        }</div>
-<div class="line"><a id="l02958" name="l02958"></a><span class="lineno"> 2958</span>                    } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (tau.at(s).at(u).at(b) &gt; 1.f) {</div>
-<div class="line"><a id="l02959" name="l02959"></a><span class="lineno"> 2959</span>                        tau.at(s).at(u).at(b) = 1.f;</div>
-<div class="line"><a id="l02960" name="l02960"></a><span class="lineno"> 2960</span>                        <span class="keywordflow">if</span> (message_flag) {</div>
-<div class="line"><a id="l02961" name="l02961"></a><span class="lineno"> 2961</span>                            std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel): transmissivity cannot be greater than 1.  Clamping to 1 for band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02962" name="l02962"></a><span class="lineno"> 2962</span>                        }</div>
-<div class="line"><a id="l02963" name="l02963"></a><span class="lineno"> 2963</span>                    }</div>
-<div class="line"><a id="l02964" name="l02964"></a><span class="lineno"> 2964</span>                    <span class="keywordflow">if</span>( tau.at(s).at(u).at(b)!=0 ){</div>
-<div class="line"><a id="l02965" name="l02965"></a><span class="lineno"> 2965</span>                        scattering_iterations_needed.at(b) = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l02966" name="l02966"></a><span class="lineno"> 2966</span>                    }</div>
-<div class="line"><a id="l02967" name="l02967"></a><span class="lineno"> 2967</span>                    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;odata : output_prim_data ) {</div>
-<div class="line"><a id="l02968" name="l02968"></a><span class="lineno"> 2968</span>                        <span class="keywordflow">if</span> (odata == <span class="stringliteral">&quot;transmissivity&quot;</span> ){</div>
-<div class="line"><a id="l02969" name="l02969"></a><span class="lineno"> 2969</span>                            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ac7677094a3bbcb62506ce461d982af1d">setPrimitiveData</a>( UUID, (<span class="stringliteral">&quot;transmissivity_&quot;</span> + std::to_string(s) + <span class="stringliteral">&quot;_&quot;</span> + band).c_str(), tau.at(s).at(u).at(b) );</div>
+<div class="line"><a id="l02958" name="l02958"></a><span class="lineno"> 2958</span>                    }</div>
+<div class="line"><a id="l02959" name="l02959"></a><span class="lineno"> 2959</span> </div>
+<div class="line"><a id="l02960" name="l02960"></a><span class="lineno"> 2960</span>                    <span class="comment">//error checking</span></div>
+<div class="line"><a id="l02961" name="l02961"></a><span class="lineno"> 2961</span>                    <span class="keywordflow">if</span> (tau.at(s).at(u).at(b) &lt; 0) {</div>
+<div class="line"><a id="l02962" name="l02962"></a><span class="lineno"> 2962</span>                        tau.at(s).at(u).at(b) = 0.f;</div>
+<div class="line"><a id="l02963" name="l02963"></a><span class="lineno"> 2963</span>                        <span class="keywordflow">if</span> (message_flag) {</div>
+<div class="line"><a id="l02964" name="l02964"></a><span class="lineno"> 2964</span>                            std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel): transmissivity cannot be less than 0.  Clamping to 0 for band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l02965" name="l02965"></a><span class="lineno"> 2965</span>                        }</div>
+<div class="line"><a id="l02966" name="l02966"></a><span class="lineno"> 2966</span>                    } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (tau.at(s).at(u).at(b) &gt; 1.f) {</div>
+<div class="line"><a id="l02967" name="l02967"></a><span class="lineno"> 2967</span>                        tau.at(s).at(u).at(b) = 1.f;</div>
+<div class="line"><a id="l02968" name="l02968"></a><span class="lineno"> 2968</span>                        <span class="keywordflow">if</span> (message_flag) {</div>
+<div class="line"><a id="l02969" name="l02969"></a><span class="lineno"> 2969</span>                            std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel): transmissivity cannot be greater than 1.  Clamping to 1 for band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;.&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l02970" name="l02970"></a><span class="lineno"> 2970</span>                        }</div>
 <div class="line"><a id="l02971" name="l02971"></a><span class="lineno"> 2971</span>                    }</div>
-<div class="line"><a id="l02972" name="l02972"></a><span class="lineno"> 2972</span>                }</div>
-<div class="line"><a id="l02973" name="l02973"></a><span class="lineno"> 2973</span>                b++;</div>
-<div class="line"><a id="l02974" name="l02974"></a><span class="lineno"> 2974</span>            }</div>
-<div class="line"><a id="l02975" name="l02975"></a><span class="lineno"> 2975</span> </div>
-<div class="line"><a id="l02976" name="l02976"></a><span class="lineno"> 2976</span>            <span class="comment">// Emissivity (only for error checking)</span></div>
-<div class="line"><a id="l02977" name="l02977"></a><span class="lineno"> 2977</span> </div>
-<div class="line"><a id="l02978" name="l02978"></a><span class="lineno"> 2978</span>            b = 0;</div>
-<div class="line"><a id="l02979" name="l02979"></a><span class="lineno"> 2979</span>            <span class="keywordflow">for</span> (<span class="keyword">const</span> <span class="keyword">auto</span> &amp;band: labels) {</div>
-<div class="line"><a id="l02980" name="l02980"></a><span class="lineno"> 2980</span> </div>
-<div class="line"><a id="l02981" name="l02981"></a><span class="lineno"> 2981</span>                prop = <span class="stringliteral">&quot;emissivity_&quot;</span> + band;</div>
-<div class="line"><a id="l02982" name="l02982"></a><span class="lineno"> 2982</span> </div>
-<div class="line"><a id="l02983" name="l02983"></a><span class="lineno"> 2983</span>                <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, prop.c_str())) {</div>
-<div class="line"><a id="l02984" name="l02984"></a><span class="lineno"> 2984</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, prop.c_str(), eps);</div>
-<div class="line"><a id="l02985" name="l02985"></a><span class="lineno"> 2985</span>                } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l02986" name="l02986"></a><span class="lineno"> 2986</span>                    eps = eps_default;</div>
-<div class="line"><a id="l02987" name="l02987"></a><span class="lineno"> 2987</span>                }</div>
+<div class="line"><a id="l02972" name="l02972"></a><span class="lineno"> 2972</span>                    <span class="keywordflow">if</span>( tau.at(s).at(u).at(b)!=0 ){</div>
+<div class="line"><a id="l02973" name="l02973"></a><span class="lineno"> 2973</span>                        scattering_iterations_needed.at(b) = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l02974" name="l02974"></a><span class="lineno"> 2974</span>                    }</div>
+<div class="line"><a id="l02975" name="l02975"></a><span class="lineno"> 2975</span>                    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;odata : output_prim_data ) {</div>
+<div class="line"><a id="l02976" name="l02976"></a><span class="lineno"> 2976</span>                        <span class="keywordflow">if</span> (odata == <span class="stringliteral">&quot;transmissivity&quot;</span> ){</div>
+<div class="line"><a id="l02977" name="l02977"></a><span class="lineno"> 2977</span>                            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ac7677094a3bbcb62506ce461d982af1d">setPrimitiveData</a>( UUID, (<span class="stringliteral">&quot;transmissivity_&quot;</span> + std::to_string(s) + <span class="stringliteral">&quot;_&quot;</span> + band).c_str(), tau.at(s).at(u).at(b) );</div>
+<div class="line"><a id="l02978" name="l02978"></a><span class="lineno"> 2978</span>                        }</div>
+<div class="line"><a id="l02979" name="l02979"></a><span class="lineno"> 2979</span>                    }</div>
+<div class="line"><a id="l02980" name="l02980"></a><span class="lineno"> 2980</span>                }</div>
+<div class="line"><a id="l02981" name="l02981"></a><span class="lineno"> 2981</span>                b++;</div>
+<div class="line"><a id="l02982" name="l02982"></a><span class="lineno"> 2982</span>            }</div>
+<div class="line"><a id="l02983" name="l02983"></a><span class="lineno"> 2983</span> </div>
+<div class="line"><a id="l02984" name="l02984"></a><span class="lineno"> 2984</span>            <span class="comment">// Emissivity (only for error checking)</span></div>
+<div class="line"><a id="l02985" name="l02985"></a><span class="lineno"> 2985</span> </div>
+<div class="line"><a id="l02986" name="l02986"></a><span class="lineno"> 2986</span>            b = 0;</div>
+<div class="line"><a id="l02987" name="l02987"></a><span class="lineno"> 2987</span>            <span class="keywordflow">for</span> (<span class="keyword">const</span> <span class="keyword">auto</span> &amp;band: labels) {</div>
 <div class="line"><a id="l02988" name="l02988"></a><span class="lineno"> 2988</span> </div>
-<div class="line"><a id="l02989" name="l02989"></a><span class="lineno"> 2989</span>                <span class="keywordflow">if</span> (eps &lt; 0) {</div>
-<div class="line"><a id="l02990" name="l02990"></a><span class="lineno"> 2990</span>                    eps = 0.f;</div>
-<div class="line"><a id="l02991" name="l02991"></a><span class="lineno"> 2991</span>                    <span class="keywordflow">if</span> (message_flag) {</div>
-<div class="line"><a id="l02992" name="l02992"></a><span class="lineno"> 2992</span>                        std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel): emissivity cannot be less than 0.  Clamping to 0 for band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02993" name="l02993"></a><span class="lineno"> 2993</span>                    }</div>
-<div class="line"><a id="l02994" name="l02994"></a><span class="lineno"> 2994</span>                } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (eps &gt; 1.f) {</div>
-<div class="line"><a id="l02995" name="l02995"></a><span class="lineno"> 2995</span>                    eps = 1.f;</div>
-<div class="line"><a id="l02996" name="l02996"></a><span class="lineno"> 2996</span>                    <span class="keywordflow">if</span> (message_flag) {</div>
-<div class="line"><a id="l02997" name="l02997"></a><span class="lineno"> 2997</span>                        std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel): emissivity cannot be greater than 1.  Clamping to 1 for band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l02998" name="l02998"></a><span class="lineno"> 2998</span>                    }</div>
-<div class="line"><a id="l02999" name="l02999"></a><span class="lineno"> 2999</span>                }</div>
-<div class="line"><a id="l03000" name="l03000"></a><span class="lineno"> 3000</span>                <span class="keywordflow">if</span>( eps!=1 ){</div>
-<div class="line"><a id="l03001" name="l03001"></a><span class="lineno"> 3001</span>                    scattering_iterations_needed.at(b) = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l03002" name="l03002"></a><span class="lineno"> 3002</span>                }</div>
-<div class="line"><a id="l03003" name="l03003"></a><span class="lineno"> 3003</span> </div>
-<div class="line"><a id="l03004" name="l03004"></a><span class="lineno"> 3004</span>                assert(<a class="code hl_function" href="class_radiation_model.html#a966780925811e3a710a6d91f4ac852fb">doesBandExist</a>(band));</div>
-<div class="line"><a id="l03005" name="l03005"></a><span class="lineno"> 3005</span> </div>
-<div class="line"><a id="l03006" name="l03006"></a><span class="lineno"> 3006</span>                <span class="keywordflow">for</span> (uint s = 0; s &lt; Nsources; s++) {</div>
-<div class="line"><a id="l03007" name="l03007"></a><span class="lineno"> 3007</span>                    <span class="keywordflow">if</span> (radiation_bands.at(band).emissionFlag) { <span class="comment">//emission enabled</span></div>
-<div class="line"><a id="l03008" name="l03008"></a><span class="lineno"> 3008</span>                        <span class="keywordflow">if</span> (eps != 1.f &amp;&amp; rho.at(s).at(u).at(b) == 0 &amp;&amp; tau.at(s).at(u).at(b) == 0) {</div>
-<div class="line"><a id="l03009" name="l03009"></a><span class="lineno"> 3009</span>                            rho.at(s).at(u).at(b) = 1.f - eps;</div>
-<div class="line"><a id="l03010" name="l03010"></a><span class="lineno"> 3010</span>                        } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (eps + tau.at(s).at(u).at(b) + rho.at(s).at(u).at(b) != 1.f &amp;&amp; eps &gt; 0.f) {</div>
-<div class="line"><a id="l03011" name="l03011"></a><span class="lineno"> 3011</span>                            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(</div>
-<div class="line"><a id="l03012" name="l03012"></a><span class="lineno"> 3012</span>                                    <span class="stringliteral">&quot;ERROR (RadiationModel): emissivity, transmissivity, and reflectivity must sum to 1 to ensure energy conservation. Band &quot;</span> +</div>
-<div class="line"><a id="l03013" name="l03013"></a><span class="lineno"> 3013</span>                                    band + <span class="stringliteral">&quot;, Primitive #&quot;</span> + std::to_string(UUID) + <span class="stringliteral">&quot;: eps=&quot;</span> +</div>
-<div class="line"><a id="l03014" name="l03014"></a><span class="lineno"> 3014</span>                                    std::to_string(eps) + <span class="stringliteral">&quot;, tau=&quot;</span> + std::to_string(tau.at(s).at(u).at(b)) +</div>
-<div class="line"><a id="l03015" name="l03015"></a><span class="lineno"> 3015</span>                                    <span class="stringliteral">&quot;, rho=&quot;</span> + std::to_string(rho.at(s).at(u).at(b)) +</div>
-<div class="line"><a id="l03016" name="l03016"></a><span class="lineno"> 3016</span>                                    <span class="stringliteral">&quot;. It is also possible that you forgot to disable emission for this band.&quot;</span>);</div>
-<div class="line"><a id="l03017" name="l03017"></a><span class="lineno"> 3017</span>                        } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (radiation_bands.at(band).scatteringDepth == 0 &amp;&amp; eps != 1.f) {</div>
-<div class="line"><a id="l03018" name="l03018"></a><span class="lineno"> 3018</span>                            eps = 1.f;</div>
-<div class="line"><a id="l03019" name="l03019"></a><span class="lineno"> 3019</span>                            rho.at(s).at(u).at(b) = 0.f;</div>
-<div class="line"><a id="l03020" name="l03020"></a><span class="lineno"> 3020</span>                            tau.at(s).at(u).at(b) = 0.f;</div>
-<div class="line"><a id="l03021" name="l03021"></a><span class="lineno"> 3021</span>                        }</div>
-<div class="line"><a id="l03022" name="l03022"></a><span class="lineno"> 3022</span>                    } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (tau.at(s).at(u).at(b) + rho.at(s).at(u).at(b) &gt; 1.f) {</div>
-<div class="line"><a id="l03023" name="l03023"></a><span class="lineno"> 3023</span>                        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(</div>
-<div class="line"><a id="l03024" name="l03024"></a><span class="lineno"> 3024</span>                                <span class="stringliteral">&quot;ERROR (RadiationModel): transmissivity and reflectivity cannot sum to greater than 1 ensure energy conservation. Band &quot;</span> +</div>
-<div class="line"><a id="l03025" name="l03025"></a><span class="lineno"> 3025</span>                                band + <span class="stringliteral">&quot;, Primitive #&quot;</span> + std::to_string(UUID) + <span class="stringliteral">&quot;: eps=&quot;</span> +</div>
-<div class="line"><a id="l03026" name="l03026"></a><span class="lineno"> 3026</span>                                std::to_string(eps) + <span class="stringliteral">&quot;, tau=&quot;</span> + std::to_string(tau.at(s).at(u).at(b)) +</div>
-<div class="line"><a id="l03027" name="l03027"></a><span class="lineno"> 3027</span>                                <span class="stringliteral">&quot;, rho=&quot;</span> + std::to_string(rho.at(s).at(u).at(b)) +</div>
-<div class="line"><a id="l03028" name="l03028"></a><span class="lineno"> 3028</span>                                <span class="stringliteral">&quot;. It is also possible that you forgot to disable emission for this band.&quot;</span>);</div>
-<div class="line"><a id="l03029" name="l03029"></a><span class="lineno"> 3029</span>                    }</div>
-<div class="line"><a id="l03030" name="l03030"></a><span class="lineno"> 3030</span>                }</div>
-<div class="line"><a id="l03031" name="l03031"></a><span class="lineno"> 3031</span>                b++;</div>
-<div class="line"><a id="l03032" name="l03032"></a><span class="lineno"> 3032</span>            }</div>
-<div class="line"><a id="l03033" name="l03033"></a><span class="lineno"> 3033</span>        }</div>
-<div class="line"><a id="l03034" name="l03034"></a><span class="lineno"> 3034</span>    }</div>
-<div class="line"><a id="l03035" name="l03035"></a><span class="lineno"> 3035</span> </div>
-<div class="line"><a id="l03036" name="l03036"></a><span class="lineno"> 3036</span>    initializeBuffer1Df(rho_RTbuffer, <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(rho));</div>
-<div class="line"><a id="l03037" name="l03037"></a><span class="lineno"> 3037</span>    initializeBuffer1Df(tau_RTbuffer, <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(tau));</div>
-<div class="line"><a id="l03038" name="l03038"></a><span class="lineno"> 3038</span> </div>
-<div class="line"><a id="l03039" name="l03039"></a><span class="lineno"> 3039</span>    initializeBuffer1Df(rho_cam_RTbuffer, <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(rho_cam));</div>
-<div class="line"><a id="l03040" name="l03040"></a><span class="lineno"> 3040</span>    initializeBuffer1Df(tau_cam_RTbuffer, <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(tau_cam));</div>
-<div class="line"><a id="l03041" name="l03041"></a><span class="lineno"> 3041</span> </div>
-<div class="line"><a id="l03042" name="l03042"></a><span class="lineno"> 3042</span>    <span class="keywordflow">if</span>( message_flag ) {</div>
-<div class="line"><a id="l03043" name="l03043"></a><span class="lineno"> 3043</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;done\n&quot;</span>;</div>
-<div class="line"><a id="l03044" name="l03044"></a><span class="lineno"> 3044</span>    }</div>
-<div class="line"><a id="l03045" name="l03045"></a><span class="lineno"> 3045</span> </div>
-<div class="line"><a id="l03046" name="l03046"></a><span class="lineno"> 3046</span>}</div>
-<div class="line"><a id="l03047" name="l03047"></a><span class="lineno"> 3047</span> </div>
-<div class="line"><a id="l03048" name="l03048"></a><span class="lineno"> 3048</span>std::vector&lt;helios::vec2&gt; RadiationModel::loadSpectralData( <span class="keyword">const</span> std::string &amp;global_data_label )<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l02989" name="l02989"></a><span class="lineno"> 2989</span>                prop = <span class="stringliteral">&quot;emissivity_&quot;</span> + band;</div>
+<div class="line"><a id="l02990" name="l02990"></a><span class="lineno"> 2990</span> </div>
+<div class="line"><a id="l02991" name="l02991"></a><span class="lineno"> 2991</span>                <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID, prop.c_str())) {</div>
+<div class="line"><a id="l02992" name="l02992"></a><span class="lineno"> 2992</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, prop.c_str(), eps);</div>
+<div class="line"><a id="l02993" name="l02993"></a><span class="lineno"> 2993</span>                } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l02994" name="l02994"></a><span class="lineno"> 2994</span>                    eps = eps_default;</div>
+<div class="line"><a id="l02995" name="l02995"></a><span class="lineno"> 2995</span>                }</div>
+<div class="line"><a id="l02996" name="l02996"></a><span class="lineno"> 2996</span> </div>
+<div class="line"><a id="l02997" name="l02997"></a><span class="lineno"> 2997</span>                <span class="keywordflow">if</span> (eps &lt; 0) {</div>
+<div class="line"><a id="l02998" name="l02998"></a><span class="lineno"> 2998</span>                    eps = 0.f;</div>
+<div class="line"><a id="l02999" name="l02999"></a><span class="lineno"> 2999</span>                    <span class="keywordflow">if</span> (message_flag) {</div>
+<div class="line"><a id="l03000" name="l03000"></a><span class="lineno"> 3000</span>                        std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel): emissivity cannot be less than 0.  Clamping to 0 for band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03001" name="l03001"></a><span class="lineno"> 3001</span>                    }</div>
+<div class="line"><a id="l03002" name="l03002"></a><span class="lineno"> 3002</span>                } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (eps &gt; 1.f) {</div>
+<div class="line"><a id="l03003" name="l03003"></a><span class="lineno"> 3003</span>                    eps = 1.f;</div>
+<div class="line"><a id="l03004" name="l03004"></a><span class="lineno"> 3004</span>                    <span class="keywordflow">if</span> (message_flag) {</div>
+<div class="line"><a id="l03005" name="l03005"></a><span class="lineno"> 3005</span>                        std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel): emissivity cannot be greater than 1.  Clamping to 1 for band &quot;</span> &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03006" name="l03006"></a><span class="lineno"> 3006</span>                    }</div>
+<div class="line"><a id="l03007" name="l03007"></a><span class="lineno"> 3007</span>                }</div>
+<div class="line"><a id="l03008" name="l03008"></a><span class="lineno"> 3008</span>                <span class="keywordflow">if</span>( eps!=1 ){</div>
+<div class="line"><a id="l03009" name="l03009"></a><span class="lineno"> 3009</span>                    scattering_iterations_needed.at(b) = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l03010" name="l03010"></a><span class="lineno"> 3010</span>                }</div>
+<div class="line"><a id="l03011" name="l03011"></a><span class="lineno"> 3011</span> </div>
+<div class="line"><a id="l03012" name="l03012"></a><span class="lineno"> 3012</span>                assert(<a class="code hl_function" href="class_radiation_model.html#a966780925811e3a710a6d91f4ac852fb">doesBandExist</a>(band));</div>
+<div class="line"><a id="l03013" name="l03013"></a><span class="lineno"> 3013</span> </div>
+<div class="line"><a id="l03014" name="l03014"></a><span class="lineno"> 3014</span>                <span class="keywordflow">for</span> (uint s = 0; s &lt; Nsources; s++) {</div>
+<div class="line"><a id="l03015" name="l03015"></a><span class="lineno"> 3015</span>                    <span class="keywordflow">if</span> (radiation_bands.at(band).emissionFlag) { <span class="comment">//emission enabled</span></div>
+<div class="line"><a id="l03016" name="l03016"></a><span class="lineno"> 3016</span>                        <span class="keywordflow">if</span> (eps != 1.f &amp;&amp; rho.at(s).at(u).at(b) == 0 &amp;&amp; tau.at(s).at(u).at(b) == 0) {</div>
+<div class="line"><a id="l03017" name="l03017"></a><span class="lineno"> 3017</span>                            rho.at(s).at(u).at(b) = 1.f - eps;</div>
+<div class="line"><a id="l03018" name="l03018"></a><span class="lineno"> 3018</span>                        } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (eps + tau.at(s).at(u).at(b) + rho.at(s).at(u).at(b) != 1.f &amp;&amp; eps &gt; 0.f) {</div>
+<div class="line"><a id="l03019" name="l03019"></a><span class="lineno"> 3019</span>                            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(</div>
+<div class="line"><a id="l03020" name="l03020"></a><span class="lineno"> 3020</span>                                    <span class="stringliteral">&quot;ERROR (RadiationModel): emissivity, transmissivity, and reflectivity must sum to 1 to ensure energy conservation. Band &quot;</span> +</div>
+<div class="line"><a id="l03021" name="l03021"></a><span class="lineno"> 3021</span>                                    band + <span class="stringliteral">&quot;, Primitive #&quot;</span> + std::to_string(UUID) + <span class="stringliteral">&quot;: eps=&quot;</span> +</div>
+<div class="line"><a id="l03022" name="l03022"></a><span class="lineno"> 3022</span>                                    std::to_string(eps) + <span class="stringliteral">&quot;, tau=&quot;</span> + std::to_string(tau.at(s).at(u).at(b)) +</div>
+<div class="line"><a id="l03023" name="l03023"></a><span class="lineno"> 3023</span>                                    <span class="stringliteral">&quot;, rho=&quot;</span> + std::to_string(rho.at(s).at(u).at(b)) +</div>
+<div class="line"><a id="l03024" name="l03024"></a><span class="lineno"> 3024</span>                                    <span class="stringliteral">&quot;. It is also possible that you forgot to disable emission for this band.&quot;</span>);</div>
+<div class="line"><a id="l03025" name="l03025"></a><span class="lineno"> 3025</span>                        } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (radiation_bands.at(band).scatteringDepth == 0 &amp;&amp; eps != 1.f) {</div>
+<div class="line"><a id="l03026" name="l03026"></a><span class="lineno"> 3026</span>                            eps = 1.f;</div>
+<div class="line"><a id="l03027" name="l03027"></a><span class="lineno"> 3027</span>                            rho.at(s).at(u).at(b) = 0.f;</div>
+<div class="line"><a id="l03028" name="l03028"></a><span class="lineno"> 3028</span>                            tau.at(s).at(u).at(b) = 0.f;</div>
+<div class="line"><a id="l03029" name="l03029"></a><span class="lineno"> 3029</span>                        }</div>
+<div class="line"><a id="l03030" name="l03030"></a><span class="lineno"> 3030</span>                    } <span class="keywordflow">else</span> <span class="keywordflow">if</span> (tau.at(s).at(u).at(b) + rho.at(s).at(u).at(b) &gt; 1.f) {</div>
+<div class="line"><a id="l03031" name="l03031"></a><span class="lineno"> 3031</span>                        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(</div>
+<div class="line"><a id="l03032" name="l03032"></a><span class="lineno"> 3032</span>                                <span class="stringliteral">&quot;ERROR (RadiationModel): transmissivity and reflectivity cannot sum to greater than 1 ensure energy conservation. Band &quot;</span> +</div>
+<div class="line"><a id="l03033" name="l03033"></a><span class="lineno"> 3033</span>                                band + <span class="stringliteral">&quot;, Primitive #&quot;</span> + std::to_string(UUID) + <span class="stringliteral">&quot;: eps=&quot;</span> +</div>
+<div class="line"><a id="l03034" name="l03034"></a><span class="lineno"> 3034</span>                                std::to_string(eps) + <span class="stringliteral">&quot;, tau=&quot;</span> + std::to_string(tau.at(s).at(u).at(b)) +</div>
+<div class="line"><a id="l03035" name="l03035"></a><span class="lineno"> 3035</span>                                <span class="stringliteral">&quot;, rho=&quot;</span> + std::to_string(rho.at(s).at(u).at(b)) +</div>
+<div class="line"><a id="l03036" name="l03036"></a><span class="lineno"> 3036</span>                                <span class="stringliteral">&quot;. It is also possible that you forgot to disable emission for this band.&quot;</span>);</div>
+<div class="line"><a id="l03037" name="l03037"></a><span class="lineno"> 3037</span>                    }</div>
+<div class="line"><a id="l03038" name="l03038"></a><span class="lineno"> 3038</span>                }</div>
+<div class="line"><a id="l03039" name="l03039"></a><span class="lineno"> 3039</span>                b++;</div>
+<div class="line"><a id="l03040" name="l03040"></a><span class="lineno"> 3040</span>            }</div>
+<div class="line"><a id="l03041" name="l03041"></a><span class="lineno"> 3041</span>        }</div>
+<div class="line"><a id="l03042" name="l03042"></a><span class="lineno"> 3042</span>    }</div>
+<div class="line"><a id="l03043" name="l03043"></a><span class="lineno"> 3043</span> </div>
+<div class="line"><a id="l03044" name="l03044"></a><span class="lineno"> 3044</span>    initializeBuffer1Df(rho_RTbuffer, <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(rho));</div>
+<div class="line"><a id="l03045" name="l03045"></a><span class="lineno"> 3045</span>    initializeBuffer1Df(tau_RTbuffer, <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(tau));</div>
+<div class="line"><a id="l03046" name="l03046"></a><span class="lineno"> 3046</span> </div>
+<div class="line"><a id="l03047" name="l03047"></a><span class="lineno"> 3047</span>    initializeBuffer1Df(rho_cam_RTbuffer, <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(rho_cam));</div>
+<div class="line"><a id="l03048" name="l03048"></a><span class="lineno"> 3048</span>    initializeBuffer1Df(tau_cam_RTbuffer, <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(tau_cam));</div>
 <div class="line"><a id="l03049" name="l03049"></a><span class="lineno"> 3049</span> </div>
-<div class="line"><a id="l03050" name="l03050"></a><span class="lineno"> 3050</span>    std::vector&lt;helios::vec2&gt; spectrum;</div>
-<div class="line"><a id="l03051" name="l03051"></a><span class="lineno"> 3051</span> </div>
-<div class="line"><a id="l03052" name="l03052"></a><span class="lineno"> 3052</span>    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str()) ){</div>
+<div class="line"><a id="l03050" name="l03050"></a><span class="lineno"> 3050</span>    <span class="keywordflow">if</span>( message_flag ) {</div>
+<div class="line"><a id="l03051" name="l03051"></a><span class="lineno"> 3051</span>        std::cout &lt;&lt; <span class="stringliteral">&quot;done\n&quot;</span>;</div>
+<div class="line"><a id="l03052" name="l03052"></a><span class="lineno"> 3052</span>    }</div>
 <div class="line"><a id="l03053" name="l03053"></a><span class="lineno"> 3053</span> </div>
-<div class="line"><a id="l03054" name="l03054"></a><span class="lineno"> 3054</span>        <span class="comment">//check if spectral data exists in any of the library files</span></div>
-<div class="line"><a id="l03055" name="l03055"></a><span class="lineno"> 3055</span>        <span class="keywordtype">bool</span> data_found = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l03056" name="l03056"></a><span class="lineno"> 3056</span>        <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;file : spectral_library_files ){</div>
-<div class="line"><a id="l03057" name="l03057"></a><span class="lineno"> 3057</span>            <span class="keywordflow">if</span>( <a class="code hl_function" href="classhelios_1_1_context.html#adb6486c864423085b1ef7cb8bdc0278b">Context::scanXMLForTag</a>( file, <span class="stringliteral">&quot;globaldata_vec2&quot;</span>, global_data_label ) ){</div>
-<div class="line"><a id="l03058" name="l03058"></a><span class="lineno"> 3058</span>                context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a129516a8fce035705a541e7b877eba2f">loadXML</a>( file.c_str(), <span class="keyword">true</span> );</div>
-<div class="line"><a id="l03059" name="l03059"></a><span class="lineno"> 3059</span>                data_found = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l03060" name="l03060"></a><span class="lineno"> 3060</span>                <span class="keywordflow">break</span>;</div>
-<div class="line"><a id="l03061" name="l03061"></a><span class="lineno"> 3061</span>            }</div>
-<div class="line"><a id="l03062" name="l03062"></a><span class="lineno"> 3062</span>        }</div>
-<div class="line"><a id="l03063" name="l03063"></a><span class="lineno"> 3063</span> </div>
-<div class="line"><a id="l03064" name="l03064"></a><span class="lineno"> 3064</span>        <span class="keywordflow">if</span>( !data_found ) {</div>
-<div class="line"><a id="l03065" name="l03065"></a><span class="lineno"> 3065</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::loadSpectralData): Global data for spectrum &#39;&quot;</span> + global_data_label + <span class="stringliteral">&quot;&#39; could not be found.&quot;</span>);</div>
-<div class="line"><a id="l03066" name="l03066"></a><span class="lineno"> 3066</span>        }</div>
-<div class="line"><a id="l03067" name="l03067"></a><span class="lineno"> 3067</span>    }</div>
-<div class="line"><a id="l03068" name="l03068"></a><span class="lineno"> 3068</span> </div>
-<div class="line"><a id="l03069" name="l03069"></a><span class="lineno"> 3069</span>    <span class="keywordflow">if</span>( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(global_data_label.c_str()) != HELIOS_TYPE_VEC2 ){</div>
-<div class="line"><a id="l03070" name="l03070"></a><span class="lineno"> 3070</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::loadSpectralData): Global data for spectrum &#39;&quot;</span> + global_data_label + <span class="stringliteral">&quot;&#39; is not of type HELIOS_TYPE_VEC2.&quot;</span>);</div>
-<div class="line"><a id="l03071" name="l03071"></a><span class="lineno"> 3071</span>    }</div>
-<div class="line"><a id="l03072" name="l03072"></a><span class="lineno"> 3072</span> </div>
-<div class="line"><a id="l03073" name="l03073"></a><span class="lineno"> 3073</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), spectrum);</div>
-<div class="line"><a id="l03074" name="l03074"></a><span class="lineno"> 3074</span> </div>
-<div class="line"><a id="l03075" name="l03075"></a><span class="lineno"> 3075</span>    <span class="comment">//validate spectrum</span></div>
-<div class="line"><a id="l03076" name="l03076"></a><span class="lineno"> 3076</span>    <span class="keywordflow">if</span>( spectrum.empty() ){</div>
-<div class="line"><a id="l03077" name="l03077"></a><span class="lineno"> 3077</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::loadSpectralData): Global data for spectrum &#39;&quot;</span> + global_data_label + <span class="stringliteral">&quot;&#39; is empty.&quot;</span>);</div>
-<div class="line"><a id="l03078" name="l03078"></a><span class="lineno"> 3078</span>    }</div>
-<div class="line"><a id="l03079" name="l03079"></a><span class="lineno"> 3079</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> s=0; s&lt;spectrum.size(); s++ ) {</div>
-<div class="line"><a id="l03080" name="l03080"></a><span class="lineno"> 3080</span>        <span class="comment">//check that wavelengths are monotonic</span></div>
-<div class="line"><a id="l03081" name="l03081"></a><span class="lineno"> 3081</span>        <span class="keywordflow">if</span>( s&gt;0 &amp;&amp; spectrum.at(s).x&lt;=spectrum.at(s-1).x ) {</div>
-<div class="line"><a id="l03082" name="l03082"></a><span class="lineno"> 3082</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::loadSpectralData): Source spectral data validation failed. Wavelengths must increase monotonically.&quot;</span>);</div>
-<div class="line"><a id="l03083" name="l03083"></a><span class="lineno"> 3083</span>        }</div>
-<div class="line"><a id="l03084" name="l03084"></a><span class="lineno"> 3084</span>        <span class="comment">//check that wavelength is within a reasonable range</span></div>
-<div class="line"><a id="l03085" name="l03085"></a><span class="lineno"> 3085</span>        <span class="keywordflow">if</span>( spectrum.at(s).x&lt;0 || spectrum.at(s).x&gt;100000 ) {</div>
-<div class="line"><a id="l03086" name="l03086"></a><span class="lineno"> 3086</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::loadSpectralData): Source spectral data validation failed. Wavelength value of &quot;</span> + std::to_string(spectrum.at(s).x) + <span class="stringliteral">&quot; appears to be erroneous.&quot;</span>);</div>
-<div class="line"><a id="l03087" name="l03087"></a><span class="lineno"> 3087</span>        }</div>
-<div class="line"><a id="l03088" name="l03088"></a><span class="lineno"> 3088</span>        <span class="comment">//check that flux is non-negative</span></div>
-<div class="line"><a id="l03089" name="l03089"></a><span class="lineno"> 3089</span>        <span class="keywordflow">if</span>( spectrum.at(s).y&lt;0 ) {</div>
-<div class="line"><a id="l03090" name="l03090"></a><span class="lineno"> 3090</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::loadSpectralData): Source spectral data validation failed. Flux value at wavelength of &quot;</span> + std::to_string(spectrum.at(s).x) + <span class="stringliteral">&quot; appears is negative.&quot;</span>);</div>
+<div class="line"><a id="l03054" name="l03054"></a><span class="lineno"> 3054</span>}</div>
+<div class="line"><a id="l03055" name="l03055"></a><span class="lineno"> 3055</span> </div>
+<div class="line"><a id="l03056" name="l03056"></a><span class="lineno"> 3056</span>std::vector&lt;helios::vec2&gt; RadiationModel::loadSpectralData( <span class="keyword">const</span> std::string &amp;global_data_label )<span class="keyword"> const</span>{</div>
+<div class="line"><a id="l03057" name="l03057"></a><span class="lineno"> 3057</span> </div>
+<div class="line"><a id="l03058" name="l03058"></a><span class="lineno"> 3058</span>    std::vector&lt;helios::vec2&gt; spectrum;</div>
+<div class="line"><a id="l03059" name="l03059"></a><span class="lineno"> 3059</span> </div>
+<div class="line"><a id="l03060" name="l03060"></a><span class="lineno"> 3060</span>    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str()) ){</div>
+<div class="line"><a id="l03061" name="l03061"></a><span class="lineno"> 3061</span> </div>
+<div class="line"><a id="l03062" name="l03062"></a><span class="lineno"> 3062</span>        <span class="comment">//check if spectral data exists in any of the library files</span></div>
+<div class="line"><a id="l03063" name="l03063"></a><span class="lineno"> 3063</span>        <span class="keywordtype">bool</span> data_found = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l03064" name="l03064"></a><span class="lineno"> 3064</span>        <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;file : spectral_library_files ){</div>
+<div class="line"><a id="l03065" name="l03065"></a><span class="lineno"> 3065</span>            <span class="keywordflow">if</span>( <a class="code hl_function" href="classhelios_1_1_context.html#adb6486c864423085b1ef7cb8bdc0278b">Context::scanXMLForTag</a>( file, <span class="stringliteral">&quot;globaldata_vec2&quot;</span>, global_data_label ) ){</div>
+<div class="line"><a id="l03066" name="l03066"></a><span class="lineno"> 3066</span>                context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a129516a8fce035705a541e7b877eba2f">loadXML</a>( file.c_str(), <span class="keyword">true</span> );</div>
+<div class="line"><a id="l03067" name="l03067"></a><span class="lineno"> 3067</span>                data_found = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l03068" name="l03068"></a><span class="lineno"> 3068</span>                <span class="keywordflow">break</span>;</div>
+<div class="line"><a id="l03069" name="l03069"></a><span class="lineno"> 3069</span>            }</div>
+<div class="line"><a id="l03070" name="l03070"></a><span class="lineno"> 3070</span>        }</div>
+<div class="line"><a id="l03071" name="l03071"></a><span class="lineno"> 3071</span> </div>
+<div class="line"><a id="l03072" name="l03072"></a><span class="lineno"> 3072</span>        <span class="keywordflow">if</span>( !data_found ) {</div>
+<div class="line"><a id="l03073" name="l03073"></a><span class="lineno"> 3073</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::loadSpectralData): Global data for spectrum &#39;&quot;</span> + global_data_label + <span class="stringliteral">&quot;&#39; could not be found.&quot;</span>);</div>
+<div class="line"><a id="l03074" name="l03074"></a><span class="lineno"> 3074</span>        }</div>
+<div class="line"><a id="l03075" name="l03075"></a><span class="lineno"> 3075</span>    }</div>
+<div class="line"><a id="l03076" name="l03076"></a><span class="lineno"> 3076</span> </div>
+<div class="line"><a id="l03077" name="l03077"></a><span class="lineno"> 3077</span>    <span class="keywordflow">if</span>( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a94bf0b919e5e6034fa45fbae2f575947">getGlobalDataType</a>(global_data_label.c_str()) != HELIOS_TYPE_VEC2 ){</div>
+<div class="line"><a id="l03078" name="l03078"></a><span class="lineno"> 3078</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::loadSpectralData): Global data for spectrum &#39;&quot;</span> + global_data_label + <span class="stringliteral">&quot;&#39; is not of type HELIOS_TYPE_VEC2.&quot;</span>);</div>
+<div class="line"><a id="l03079" name="l03079"></a><span class="lineno"> 3079</span>    }</div>
+<div class="line"><a id="l03080" name="l03080"></a><span class="lineno"> 3080</span> </div>
+<div class="line"><a id="l03081" name="l03081"></a><span class="lineno"> 3081</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), spectrum);</div>
+<div class="line"><a id="l03082" name="l03082"></a><span class="lineno"> 3082</span> </div>
+<div class="line"><a id="l03083" name="l03083"></a><span class="lineno"> 3083</span>    <span class="comment">//validate spectrum</span></div>
+<div class="line"><a id="l03084" name="l03084"></a><span class="lineno"> 3084</span>    <span class="keywordflow">if</span>( spectrum.empty() ){</div>
+<div class="line"><a id="l03085" name="l03085"></a><span class="lineno"> 3085</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::loadSpectralData): Global data for spectrum &#39;&quot;</span> + global_data_label + <span class="stringliteral">&quot;&#39; is empty.&quot;</span>);</div>
+<div class="line"><a id="l03086" name="l03086"></a><span class="lineno"> 3086</span>    }</div>
+<div class="line"><a id="l03087" name="l03087"></a><span class="lineno"> 3087</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> s=0; s&lt;spectrum.size(); s++ ) {</div>
+<div class="line"><a id="l03088" name="l03088"></a><span class="lineno"> 3088</span>        <span class="comment">//check that wavelengths are monotonic</span></div>
+<div class="line"><a id="l03089" name="l03089"></a><span class="lineno"> 3089</span>        <span class="keywordflow">if</span>( s&gt;0 &amp;&amp; spectrum.at(s).x&lt;=spectrum.at(s-1).x ) {</div>
+<div class="line"><a id="l03090" name="l03090"></a><span class="lineno"> 3090</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::loadSpectralData): Source spectral data validation failed. Wavelengths must increase monotonically.&quot;</span>);</div>
 <div class="line"><a id="l03091" name="l03091"></a><span class="lineno"> 3091</span>        }</div>
-<div class="line"><a id="l03092" name="l03092"></a><span class="lineno"> 3092</span>    }</div>
-<div class="line"><a id="l03093" name="l03093"></a><span class="lineno"> 3093</span> </div>
-<div class="line"><a id="l03094" name="l03094"></a><span class="lineno"> 3094</span>    <span class="keywordflow">return</span> spectrum;</div>
-<div class="line"><a id="l03095" name="l03095"></a><span class="lineno"> 3095</span> </div>
-<div class="line"><a id="l03096" name="l03096"></a><span class="lineno"> 3096</span>}</div>
-<div class="line"><a id="l03097" name="l03097"></a><span class="lineno"> 3097</span> </div>
-<div class="foldopen" id="foldopen03098" data-start="{" data-end="}">
-<div class="line"><a id="l03098" name="l03098"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1"> 3098</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a>( <span class="keyword">const</span> std::string &amp;label ) {</div>
-<div class="line"><a id="l03099" name="l03099"></a><span class="lineno"> 3099</span>    std::vector&lt;std::string&gt; labels{label};</div>
-<div class="line"><a id="l03100" name="l03100"></a><span class="lineno"> 3100</span>    <a class="code hl_function" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">runBand</a>(labels);</div>
-<div class="line"><a id="l03101" name="l03101"></a><span class="lineno"> 3101</span>}</div>
+<div class="line"><a id="l03092" name="l03092"></a><span class="lineno"> 3092</span>        <span class="comment">//check that wavelength is within a reasonable range</span></div>
+<div class="line"><a id="l03093" name="l03093"></a><span class="lineno"> 3093</span>        <span class="keywordflow">if</span>( spectrum.at(s).x&lt;0 || spectrum.at(s).x&gt;100000 ) {</div>
+<div class="line"><a id="l03094" name="l03094"></a><span class="lineno"> 3094</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::loadSpectralData): Source spectral data validation failed. Wavelength value of &quot;</span> + std::to_string(spectrum.at(s).x) + <span class="stringliteral">&quot; appears to be erroneous.&quot;</span>);</div>
+<div class="line"><a id="l03095" name="l03095"></a><span class="lineno"> 3095</span>        }</div>
+<div class="line"><a id="l03096" name="l03096"></a><span class="lineno"> 3096</span>        <span class="comment">//check that flux is non-negative</span></div>
+<div class="line"><a id="l03097" name="l03097"></a><span class="lineno"> 3097</span>        <span class="keywordflow">if</span>( spectrum.at(s).y&lt;0 ) {</div>
+<div class="line"><a id="l03098" name="l03098"></a><span class="lineno"> 3098</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::loadSpectralData): Source spectral data validation failed. Flux value at wavelength of &quot;</span> + std::to_string(spectrum.at(s).x) + <span class="stringliteral">&quot; appears is negative.&quot;</span>);</div>
+<div class="line"><a id="l03099" name="l03099"></a><span class="lineno"> 3099</span>        }</div>
+<div class="line"><a id="l03100" name="l03100"></a><span class="lineno"> 3100</span>    }</div>
+<div class="line"><a id="l03101" name="l03101"></a><span class="lineno"> 3101</span> </div>
+<div class="line"><a id="l03102" name="l03102"></a><span class="lineno"> 3102</span>    <span class="keywordflow">return</span> spectrum;</div>
+<div class="line"><a id="l03103" name="l03103"></a><span class="lineno"> 3103</span> </div>
+<div class="line"><a id="l03104" name="l03104"></a><span class="lineno"> 3104</span>}</div>
+<div class="line"><a id="l03105" name="l03105"></a><span class="lineno"> 3105</span> </div>
+<div class="foldopen" id="foldopen03106" data-start="{" data-end="}">
+<div class="line"><a id="l03106" name="l03106"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1"> 3106</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a>( <span class="keyword">const</span> std::string &amp;label ) {</div>
+<div class="line"><a id="l03107" name="l03107"></a><span class="lineno"> 3107</span>    std::vector&lt;std::string&gt; labels{label};</div>
+<div class="line"><a id="l03108" name="l03108"></a><span class="lineno"> 3108</span>    <a class="code hl_function" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">runBand</a>(labels);</div>
+<div class="line"><a id="l03109" name="l03109"></a><span class="lineno"> 3109</span>}</div>
 </div>
-<div class="line"><a id="l03102" name="l03102"></a><span class="lineno"> 3102</span> </div>
-<div class="foldopen" id="foldopen03103" data-start="{" data-end="}">
-<div class="line"><a id="l03103" name="l03103"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a19c42659077eb909a6dc7fa137459b69"> 3103</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a>( <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;label ) {</div>
-<div class="line"><a id="l03104" name="l03104"></a><span class="lineno"> 3104</span> </div>
-<div class="line"><a id="l03105" name="l03105"></a><span class="lineno"> 3105</span>    <span class="comment">//----- VERIFICATIONS -----//</span></div>
-<div class="line"><a id="l03106" name="l03106"></a><span class="lineno"> 3106</span> </div>
-<div class="line"><a id="l03107" name="l03107"></a><span class="lineno"> 3107</span>    <span class="comment">//Check to make sure some geometry was added to the context</span></div>
-<div class="line"><a id="l03108" name="l03108"></a><span class="lineno"> 3108</span>    <span class="keywordflow">if</span>( context-&gt;<a class="code hl_function" href="group__primitives.html#ga4d3447fb04c25e685bcc82599e2b173d">getPrimitiveCount</a>()==0 ){</div>
-<div class="line"><a id="l03109" name="l03109"></a><span class="lineno"> 3109</span>        std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::runBand): No geometry was added to the context. There is nothing to simulate...exiting.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03110" name="l03110"></a><span class="lineno"> 3110</span>        <span class="keywordflow">return</span>;</div>
-<div class="line"><a id="l03111" name="l03111"></a><span class="lineno"> 3111</span>    }</div>
+<div class="line"><a id="l03110" name="l03110"></a><span class="lineno"> 3110</span> </div>
+<div class="foldopen" id="foldopen03111" data-start="{" data-end="}">
+<div class="line"><a id="l03111" name="l03111"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a19c42659077eb909a6dc7fa137459b69"> 3111</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a>( <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;label ) {</div>
 <div class="line"><a id="l03112" name="l03112"></a><span class="lineno"> 3112</span> </div>
-<div class="line"><a id="l03113" name="l03113"></a><span class="lineno"> 3113</span>    <span class="comment">//Check to make sure geometry was built in OptiX</span></div>
-<div class="line"><a id="l03114" name="l03114"></a><span class="lineno"> 3114</span>    <span class="keywordflow">if</span>( !isgeometryinitialized ){</div>
-<div class="line"><a id="l03115" name="l03115"></a><span class="lineno"> 3115</span>        <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">updateGeometry</a>();</div>
-<div class="line"><a id="l03116" name="l03116"></a><span class="lineno"> 3116</span>    }</div>
-<div class="line"><a id="l03117" name="l03117"></a><span class="lineno"> 3117</span> </div>
-<div class="line"><a id="l03118" name="l03118"></a><span class="lineno"> 3118</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> std::string &amp;band : label ){</div>
-<div class="line"><a id="l03119" name="l03119"></a><span class="lineno"> 3119</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="class_radiation_model.html#a966780925811e3a710a6d91f4ac852fb">doesBandExist</a>(band) ){</div>
-<div class="line"><a id="l03120" name="l03120"></a><span class="lineno"> 3120</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::runBand): Cannot run band &quot;</span> + band + <span class="stringliteral">&quot; because it is not a valid band. Use addRadiationBand() function to add the band.&quot;</span>);</div>
-<div class="line"><a id="l03121" name="l03121"></a><span class="lineno"> 3121</span>        }</div>
-<div class="line"><a id="l03122" name="l03122"></a><span class="lineno"> 3122</span>    }</div>
-<div class="line"><a id="l03123" name="l03123"></a><span class="lineno"> 3123</span> </div>
-<div class="line"><a id="l03124" name="l03124"></a><span class="lineno"> 3124</span>    <span class="comment">//if there are no radiation sources in the simulation, add at least one but with zero fluxes</span></div>
-<div class="line"><a id="l03125" name="l03125"></a><span class="lineno"> 3125</span>    <span class="keywordflow">if</span>( radiation_sources.empty() ){</div>
-<div class="line"><a id="l03126" name="l03126"></a><span class="lineno"> 3126</span>        <a class="code hl_function" href="class_radiation_model.html#adea522844d6fe85df2f1dc3b78f514eb">addCollimatedRadiationSource</a>();</div>
-<div class="line"><a id="l03127" name="l03127"></a><span class="lineno"> 3127</span>    }</div>
-<div class="line"><a id="l03128" name="l03128"></a><span class="lineno"> 3128</span> </div>
-<div class="line"><a id="l03129" name="l03129"></a><span class="lineno"> 3129</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : label ) {</div>
-<div class="line"><a id="l03130" name="l03130"></a><span class="lineno"> 3130</span>        <span class="keywordflow">if</span> (!radiation_bands.at(band).radiativepropertiesinitialized) {</div>
-<div class="line"><a id="l03131" name="l03131"></a><span class="lineno"> 3131</span>            updateRadiativeProperties(label);</div>
-<div class="line"><a id="l03132" name="l03132"></a><span class="lineno"> 3132</span>            <span class="keywordflow">break</span>;</div>
-<div class="line"><a id="l03133" name="l03133"></a><span class="lineno"> 3133</span>        }</div>
-<div class="line"><a id="l03134" name="l03134"></a><span class="lineno"> 3134</span>    }</div>
-<div class="line"><a id="l03135" name="l03135"></a><span class="lineno"> 3135</span> </div>
-<div class="line"><a id="l03136" name="l03136"></a><span class="lineno"> 3136</span>    <span class="comment">//Set the number of radiative bands</span></div>
-<div class="line"><a id="l03137" name="l03137"></a><span class="lineno"> 3137</span>    <span class="keywordtype">size_t</span> Nbands = label.size();</div>
-<div class="line"><a id="l03138" name="l03138"></a><span class="lineno"> 3138</span> </div>
-<div class="line"><a id="l03139" name="l03139"></a><span class="lineno"> 3139</span>    RT_CHECK_ERROR( rtVariableSet1ui( Nbands_RTvariable, Nbands ) );</div>
-<div class="line"><a id="l03140" name="l03140"></a><span class="lineno"> 3140</span> </div>
-<div class="line"><a id="l03141" name="l03141"></a><span class="lineno"> 3141</span>    <span class="comment">//Run all bands by default</span></div>
-<div class="line"><a id="l03142" name="l03142"></a><span class="lineno"> 3142</span>    std::vector&lt;char&gt; band_launch_flag(Nbands);</div>
-<div class="line"><a id="l03143" name="l03143"></a><span class="lineno"> 3143</span>    <span class="keywordflow">for</span>( uint b=0; b&lt;Nbands; b++ ){</div>
-<div class="line"><a id="l03144" name="l03144"></a><span class="lineno"> 3144</span>        band_launch_flag.at(b) = 1;</div>
-<div class="line"><a id="l03145" name="l03145"></a><span class="lineno"> 3145</span>    }</div>
-<div class="line"><a id="l03146" name="l03146"></a><span class="lineno"> 3146</span>    initializeBuffer1Dchar( band_launch_flag_RTbuffer, band_launch_flag );</div>
-<div class="line"><a id="l03147" name="l03147"></a><span class="lineno"> 3147</span> </div>
-<div class="line"><a id="l03148" name="l03148"></a><span class="lineno"> 3148</span>    <span class="comment">//Set the number of Context primitives</span></div>
-<div class="line"><a id="l03149" name="l03149"></a><span class="lineno"> 3149</span>    <span class="keywordtype">size_t</span> Nobjects = primitiveID.size();</div>
-<div class="line"><a id="l03150" name="l03150"></a><span class="lineno"> 3150</span>    <span class="keywordtype">size_t</span> Nprimitives = context_UUIDs.size();</div>
-<div class="line"><a id="l03151" name="l03151"></a><span class="lineno"> 3151</span>    RT_CHECK_ERROR( rtVariableSet1ui( Nprimitives_RTvariable, Nprimitives ) );</div>
-<div class="line"><a id="l03152" name="l03152"></a><span class="lineno"> 3152</span> </div>
-<div class="line"><a id="l03153" name="l03153"></a><span class="lineno"> 3153</span>    <span class="comment">//Set the random number seed</span></div>
-<div class="line"><a id="l03154" name="l03154"></a><span class="lineno"> 3154</span>    RT_CHECK_ERROR( rtVariableSet1ui( random_seed_RTvariable, std::chrono::system_clock::now().time_since_epoch().count() ) );</div>
+<div class="line"><a id="l03113" name="l03113"></a><span class="lineno"> 3113</span>    <span class="comment">//----- VERIFICATIONS -----//</span></div>
+<div class="line"><a id="l03114" name="l03114"></a><span class="lineno"> 3114</span> </div>
+<div class="line"><a id="l03115" name="l03115"></a><span class="lineno"> 3115</span>    <span class="comment">//Check to make sure some geometry was added to the context</span></div>
+<div class="line"><a id="l03116" name="l03116"></a><span class="lineno"> 3116</span>    <span class="keywordflow">if</span>( context-&gt;<a class="code hl_function" href="group__primitives.html#ga4d3447fb04c25e685bcc82599e2b173d">getPrimitiveCount</a>()==0 ){</div>
+<div class="line"><a id="l03117" name="l03117"></a><span class="lineno"> 3117</span>        std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::runBand): No geometry was added to the context. There is nothing to simulate...exiting.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03118" name="l03118"></a><span class="lineno"> 3118</span>        <span class="keywordflow">return</span>;</div>
+<div class="line"><a id="l03119" name="l03119"></a><span class="lineno"> 3119</span>    }</div>
+<div class="line"><a id="l03120" name="l03120"></a><span class="lineno"> 3120</span> </div>
+<div class="line"><a id="l03121" name="l03121"></a><span class="lineno"> 3121</span>    <span class="comment">//Check to make sure geometry was built in OptiX</span></div>
+<div class="line"><a id="l03122" name="l03122"></a><span class="lineno"> 3122</span>    <span class="keywordflow">if</span>( !isgeometryinitialized ){</div>
+<div class="line"><a id="l03123" name="l03123"></a><span class="lineno"> 3123</span>        <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">updateGeometry</a>();</div>
+<div class="line"><a id="l03124" name="l03124"></a><span class="lineno"> 3124</span>    }</div>
+<div class="line"><a id="l03125" name="l03125"></a><span class="lineno"> 3125</span> </div>
+<div class="line"><a id="l03126" name="l03126"></a><span class="lineno"> 3126</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> std::string &amp;band : label ){</div>
+<div class="line"><a id="l03127" name="l03127"></a><span class="lineno"> 3127</span>        <span class="keywordflow">if</span>( !<a class="code hl_function" href="class_radiation_model.html#a966780925811e3a710a6d91f4ac852fb">doesBandExist</a>(band) ){</div>
+<div class="line"><a id="l03128" name="l03128"></a><span class="lineno"> 3128</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::runBand): Cannot run band &quot;</span> + band + <span class="stringliteral">&quot; because it is not a valid band. Use addRadiationBand() function to add the band.&quot;</span>);</div>
+<div class="line"><a id="l03129" name="l03129"></a><span class="lineno"> 3129</span>        }</div>
+<div class="line"><a id="l03130" name="l03130"></a><span class="lineno"> 3130</span>    }</div>
+<div class="line"><a id="l03131" name="l03131"></a><span class="lineno"> 3131</span> </div>
+<div class="line"><a id="l03132" name="l03132"></a><span class="lineno"> 3132</span>    <span class="comment">//if there are no radiation sources in the simulation, add at least one but with zero fluxes</span></div>
+<div class="line"><a id="l03133" name="l03133"></a><span class="lineno"> 3133</span>    <span class="keywordflow">if</span>( radiation_sources.empty() ){</div>
+<div class="line"><a id="l03134" name="l03134"></a><span class="lineno"> 3134</span>        <a class="code hl_function" href="class_radiation_model.html#adea522844d6fe85df2f1dc3b78f514eb">addCollimatedRadiationSource</a>();</div>
+<div class="line"><a id="l03135" name="l03135"></a><span class="lineno"> 3135</span>    }</div>
+<div class="line"><a id="l03136" name="l03136"></a><span class="lineno"> 3136</span> </div>
+<div class="line"><a id="l03137" name="l03137"></a><span class="lineno"> 3137</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : label ) {</div>
+<div class="line"><a id="l03138" name="l03138"></a><span class="lineno"> 3138</span>        <span class="keywordflow">if</span> (!radiation_bands.at(band).radiativepropertiesinitialized) {</div>
+<div class="line"><a id="l03139" name="l03139"></a><span class="lineno"> 3139</span>            updateRadiativeProperties(label);</div>
+<div class="line"><a id="l03140" name="l03140"></a><span class="lineno"> 3140</span>            <span class="keywordflow">break</span>;</div>
+<div class="line"><a id="l03141" name="l03141"></a><span class="lineno"> 3141</span>        }</div>
+<div class="line"><a id="l03142" name="l03142"></a><span class="lineno"> 3142</span>    }</div>
+<div class="line"><a id="l03143" name="l03143"></a><span class="lineno"> 3143</span> </div>
+<div class="line"><a id="l03144" name="l03144"></a><span class="lineno"> 3144</span>    <span class="comment">//Set the number of radiative bands</span></div>
+<div class="line"><a id="l03145" name="l03145"></a><span class="lineno"> 3145</span>    <span class="keywordtype">size_t</span> Nbands = label.size();</div>
+<div class="line"><a id="l03146" name="l03146"></a><span class="lineno"> 3146</span> </div>
+<div class="line"><a id="l03147" name="l03147"></a><span class="lineno"> 3147</span>    RT_CHECK_ERROR( rtVariableSet1ui( Nbands_RTvariable, Nbands ) );</div>
+<div class="line"><a id="l03148" name="l03148"></a><span class="lineno"> 3148</span> </div>
+<div class="line"><a id="l03149" name="l03149"></a><span class="lineno"> 3149</span>    <span class="comment">//Run all bands by default</span></div>
+<div class="line"><a id="l03150" name="l03150"></a><span class="lineno"> 3150</span>    std::vector&lt;char&gt; band_launch_flag(Nbands);</div>
+<div class="line"><a id="l03151" name="l03151"></a><span class="lineno"> 3151</span>    <span class="keywordflow">for</span>( uint b=0; b&lt;Nbands; b++ ){</div>
+<div class="line"><a id="l03152" name="l03152"></a><span class="lineno"> 3152</span>        band_launch_flag.at(b) = 1;</div>
+<div class="line"><a id="l03153" name="l03153"></a><span class="lineno"> 3153</span>    }</div>
+<div class="line"><a id="l03154" name="l03154"></a><span class="lineno"> 3154</span>    initializeBuffer1Dchar( band_launch_flag_RTbuffer, band_launch_flag );</div>
 <div class="line"><a id="l03155" name="l03155"></a><span class="lineno"> 3155</span> </div>
-<div class="line"><a id="l03156" name="l03156"></a><span class="lineno"> 3156</span>    <span class="comment">//Number of external radiation sources</span></div>
-<div class="line"><a id="l03157" name="l03157"></a><span class="lineno"> 3157</span>    uint Nsources = radiation_sources.size();</div>
-<div class="line"><a id="l03158" name="l03158"></a><span class="lineno"> 3158</span>    RT_CHECK_ERROR( rtVariableSet1ui( Nsources_RTvariable, Nsources ) );</div>
-<div class="line"><a id="l03159" name="l03159"></a><span class="lineno"> 3159</span> </div>
-<div class="line"><a id="l03160" name="l03160"></a><span class="lineno"> 3160</span>    <span class="comment">//Set periodic boundary condition (if applicable)</span></div>
-<div class="line"><a id="l03161" name="l03161"></a><span class="lineno"> 3161</span>    RT_CHECK_ERROR( rtVariableSet2f( periodic_flag_RTvariable, periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> ));</div>
-<div class="line"><a id="l03162" name="l03162"></a><span class="lineno"> 3162</span> </div>
-<div class="line"><a id="l03163" name="l03163"></a><span class="lineno"> 3163</span>    <span class="comment">//Number of radiation cameras</span></div>
-<div class="line"><a id="l03164" name="l03164"></a><span class="lineno"> 3164</span>    uint Ncameras = cameras.size();</div>
-<div class="line"><a id="l03165" name="l03165"></a><span class="lineno"> 3165</span>    RT_CHECK_ERROR( rtVariableSet1ui( Ncameras_RTvariable, Ncameras ) );</div>
-<div class="line"><a id="l03166" name="l03166"></a><span class="lineno"> 3166</span> </div>
-<div class="line"><a id="l03167" name="l03167"></a><span class="lineno"> 3167</span>    <span class="comment">//Set scattering depth for each band</span></div>
-<div class="line"><a id="l03168" name="l03168"></a><span class="lineno"> 3168</span>    std::vector&lt;uint&gt; scattering_depth(Nbands);</div>
-<div class="line"><a id="l03169" name="l03169"></a><span class="lineno"> 3169</span>    <span class="keywordtype">bool</span> scatteringenabled = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l03170" name="l03170"></a><span class="lineno"> 3170</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;Nbands; b++ ){</div>
-<div class="line"><a id="l03171" name="l03171"></a><span class="lineno"> 3171</span>        scattering_depth.at(b) = radiation_bands.at(label.at(b)).scatteringDepth;</div>
-<div class="line"><a id="l03172" name="l03172"></a><span class="lineno"> 3172</span>        <span class="keywordflow">if</span>( scattering_depth.at(b)&gt;0 ){</div>
-<div class="line"><a id="l03173" name="l03173"></a><span class="lineno"> 3173</span>            scatteringenabled=<span class="keyword">true</span>;</div>
-<div class="line"><a id="l03174" name="l03174"></a><span class="lineno"> 3174</span>        }</div>
-<div class="line"><a id="l03175" name="l03175"></a><span class="lineno"> 3175</span>    }</div>
-<div class="line"><a id="l03176" name="l03176"></a><span class="lineno"> 3176</span>    initializeBuffer1Dui( max_scatters_RTbuffer, scattering_depth );</div>
-<div class="line"><a id="l03177" name="l03177"></a><span class="lineno"> 3177</span> </div>
-<div class="line"><a id="l03178" name="l03178"></a><span class="lineno"> 3178</span>    <span class="comment">//Issue warning if rho&gt;0, tau&gt;0, or eps&lt;1</span></div>
-<div class="line"><a id="l03179" name="l03179"></a><span class="lineno"> 3179</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> b=0; b&lt;Nbands; b++ ){</div>
-<div class="line"><a id="l03180" name="l03180"></a><span class="lineno"> 3180</span>        <span class="keywordflow">if</span>( scattering_depth.at(b)==0 &amp;&amp; scattering_iterations_needed.at(b) ){</div>
-<div class="line"><a id="l03181" name="l03181"></a><span class="lineno"> 3181</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::runBand): Surface radiative properties for band &quot;</span> &lt;&lt; label.at(b) &lt;&lt; <span class="stringliteral">&quot; are set to non-default values, but scattering iterations are disabled. Surface radiative properties will be ignored unless scattering depth is non-zero.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03156" name="l03156"></a><span class="lineno"> 3156</span>    <span class="comment">//Set the number of Context primitives</span></div>
+<div class="line"><a id="l03157" name="l03157"></a><span class="lineno"> 3157</span>    <span class="keywordtype">size_t</span> Nobjects = primitiveID.size();</div>
+<div class="line"><a id="l03158" name="l03158"></a><span class="lineno"> 3158</span>    <span class="keywordtype">size_t</span> Nprimitives = context_UUIDs.size();</div>
+<div class="line"><a id="l03159" name="l03159"></a><span class="lineno"> 3159</span>    RT_CHECK_ERROR( rtVariableSet1ui( Nprimitives_RTvariable, Nprimitives ) );</div>
+<div class="line"><a id="l03160" name="l03160"></a><span class="lineno"> 3160</span> </div>
+<div class="line"><a id="l03161" name="l03161"></a><span class="lineno"> 3161</span>    <span class="comment">//Set the random number seed</span></div>
+<div class="line"><a id="l03162" name="l03162"></a><span class="lineno"> 3162</span>    RT_CHECK_ERROR( rtVariableSet1ui( random_seed_RTvariable, std::chrono::system_clock::now().time_since_epoch().count() ) );</div>
+<div class="line"><a id="l03163" name="l03163"></a><span class="lineno"> 3163</span> </div>
+<div class="line"><a id="l03164" name="l03164"></a><span class="lineno"> 3164</span>    <span class="comment">//Number of external radiation sources</span></div>
+<div class="line"><a id="l03165" name="l03165"></a><span class="lineno"> 3165</span>    uint Nsources = radiation_sources.size();</div>
+<div class="line"><a id="l03166" name="l03166"></a><span class="lineno"> 3166</span>    RT_CHECK_ERROR( rtVariableSet1ui( Nsources_RTvariable, Nsources ) );</div>
+<div class="line"><a id="l03167" name="l03167"></a><span class="lineno"> 3167</span> </div>
+<div class="line"><a id="l03168" name="l03168"></a><span class="lineno"> 3168</span>    <span class="comment">//Set periodic boundary condition (if applicable)</span></div>
+<div class="line"><a id="l03169" name="l03169"></a><span class="lineno"> 3169</span>    RT_CHECK_ERROR( rtVariableSet2f( periodic_flag_RTvariable, periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, periodic_flag.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a> ));</div>
+<div class="line"><a id="l03170" name="l03170"></a><span class="lineno"> 3170</span> </div>
+<div class="line"><a id="l03171" name="l03171"></a><span class="lineno"> 3171</span>    <span class="comment">//Number of radiation cameras</span></div>
+<div class="line"><a id="l03172" name="l03172"></a><span class="lineno"> 3172</span>    uint Ncameras = cameras.size();</div>
+<div class="line"><a id="l03173" name="l03173"></a><span class="lineno"> 3173</span>    RT_CHECK_ERROR( rtVariableSet1ui( Ncameras_RTvariable, Ncameras ) );</div>
+<div class="line"><a id="l03174" name="l03174"></a><span class="lineno"> 3174</span> </div>
+<div class="line"><a id="l03175" name="l03175"></a><span class="lineno"> 3175</span>    <span class="comment">//Set scattering depth for each band</span></div>
+<div class="line"><a id="l03176" name="l03176"></a><span class="lineno"> 3176</span>    std::vector&lt;uint&gt; scattering_depth(Nbands);</div>
+<div class="line"><a id="l03177" name="l03177"></a><span class="lineno"> 3177</span>    <span class="keywordtype">bool</span> scatteringenabled = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l03178" name="l03178"></a><span class="lineno"> 3178</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;Nbands; b++ ){</div>
+<div class="line"><a id="l03179" name="l03179"></a><span class="lineno"> 3179</span>        scattering_depth.at(b) = radiation_bands.at(label.at(b)).scatteringDepth;</div>
+<div class="line"><a id="l03180" name="l03180"></a><span class="lineno"> 3180</span>        <span class="keywordflow">if</span>( scattering_depth.at(b)&gt;0 ){</div>
+<div class="line"><a id="l03181" name="l03181"></a><span class="lineno"> 3181</span>            scatteringenabled=<span class="keyword">true</span>;</div>
 <div class="line"><a id="l03182" name="l03182"></a><span class="lineno"> 3182</span>        }</div>
 <div class="line"><a id="l03183" name="l03183"></a><span class="lineno"> 3183</span>    }</div>
-<div class="line"><a id="l03184" name="l03184"></a><span class="lineno"> 3184</span> </div>
-<div class="line"><a id="l03185" name="l03185"></a><span class="lineno"> 3185</span>    <span class="comment">//Set diffuse flux for each band</span></div>
-<div class="line"><a id="l03186" name="l03186"></a><span class="lineno"> 3186</span>    std::vector&lt;float&gt; diffuse_flux(Nbands);</div>
-<div class="line"><a id="l03187" name="l03187"></a><span class="lineno"> 3187</span>    <span class="keywordtype">bool</span> diffuseenabled = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l03188" name="l03188"></a><span class="lineno"> 3188</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;Nbands; b++ ){</div>
-<div class="line"><a id="l03189" name="l03189"></a><span class="lineno"> 3189</span>        diffuse_flux.at(b) = <a class="code hl_function" href="class_radiation_model.html#af8450f2308aee38272b4aef87f0c547b">getDiffuseFlux</a>( label.at(b) );</div>
-<div class="line"><a id="l03190" name="l03190"></a><span class="lineno"> 3190</span>        <span class="keywordflow">if</span>( diffuse_flux.at(b)&gt;0.f ){</div>
-<div class="line"><a id="l03191" name="l03191"></a><span class="lineno"> 3191</span>            diffuseenabled=<span class="keyword">true</span>;</div>
-<div class="line"><a id="l03192" name="l03192"></a><span class="lineno"> 3192</span>        }</div>
-<div class="line"><a id="l03193" name="l03193"></a><span class="lineno"> 3193</span>    }</div>
-<div class="line"><a id="l03194" name="l03194"></a><span class="lineno"> 3194</span>    initializeBuffer1Df( diffuse_flux_RTbuffer, diffuse_flux );</div>
-<div class="line"><a id="l03195" name="l03195"></a><span class="lineno"> 3195</span> </div>
-<div class="line"><a id="l03196" name="l03196"></a><span class="lineno"> 3196</span>    <span class="comment">//Set diffuse extinction coefficient for each band</span></div>
-<div class="line"><a id="l03197" name="l03197"></a><span class="lineno"> 3197</span>    std::vector&lt;float&gt; diffuse_extinction(Nbands,0);</div>
-<div class="line"><a id="l03198" name="l03198"></a><span class="lineno"> 3198</span>    <span class="keywordflow">if</span>( diffuseenabled ) {</div>
-<div class="line"><a id="l03199" name="l03199"></a><span class="lineno"> 3199</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> b = 0; b &lt; Nbands; b++) {</div>
-<div class="line"><a id="l03200" name="l03200"></a><span class="lineno"> 3200</span>            diffuse_extinction.at(b) = radiation_bands.at(label.at(b)).diffuseExtinction;</div>
-<div class="line"><a id="l03201" name="l03201"></a><span class="lineno"> 3201</span>        }</div>
-<div class="line"><a id="l03202" name="l03202"></a><span class="lineno"> 3202</span>    }</div>
-<div class="line"><a id="l03203" name="l03203"></a><span class="lineno"> 3203</span>    initializeBuffer1Df(diffuse_extinction_RTbuffer, diffuse_extinction);</div>
-<div class="line"><a id="l03204" name="l03204"></a><span class="lineno"> 3204</span> </div>
-<div class="line"><a id="l03205" name="l03205"></a><span class="lineno"> 3205</span>    <span class="comment">//Set diffuse distribution normalization factor for each band</span></div>
-<div class="line"><a id="l03206" name="l03206"></a><span class="lineno"> 3206</span>    std::vector&lt;float&gt; diffuse_dist_norm(Nbands,0);</div>
-<div class="line"><a id="l03207" name="l03207"></a><span class="lineno"> 3207</span>    <span class="keywordflow">if</span>( diffuseenabled ) {</div>
-<div class="line"><a id="l03208" name="l03208"></a><span class="lineno"> 3208</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> b = 0; b &lt; Nbands; b++) {</div>
-<div class="line"><a id="l03209" name="l03209"></a><span class="lineno"> 3209</span>            diffuse_dist_norm.at(b) = radiation_bands.at(label.at(b)).diffuseDistNorm;</div>
-<div class="line"><a id="l03210" name="l03210"></a><span class="lineno"> 3210</span>        }</div>
-<div class="line"><a id="l03211" name="l03211"></a><span class="lineno"> 3211</span>        initializeBuffer1Df(diffuse_dist_norm_RTbuffer, diffuse_dist_norm);</div>
-<div class="line"><a id="l03212" name="l03212"></a><span class="lineno"> 3212</span>    }</div>
-<div class="line"><a id="l03213" name="l03213"></a><span class="lineno"> 3213</span> </div>
-<div class="line"><a id="l03214" name="l03214"></a><span class="lineno"> 3214</span>    <span class="comment">//Set diffuse distribution peak direction for each band</span></div>
-<div class="line"><a id="l03215" name="l03215"></a><span class="lineno"> 3215</span>    std::vector&lt;optix::float3&gt; diffuse_peak_dir(Nbands);</div>
-<div class="line"><a id="l03216" name="l03216"></a><span class="lineno"> 3216</span>    <span class="keywordflow">if</span>( diffuseenabled ) {</div>
-<div class="line"><a id="l03217" name="l03217"></a><span class="lineno"> 3217</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> b = 0; b &lt; Nbands; b++) {</div>
-<div class="line"><a id="l03218" name="l03218"></a><span class="lineno"> 3218</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> peak_dir = radiation_bands.at(label.at(b)).diffusePeakDir;</div>
-<div class="line"><a id="l03219" name="l03219"></a><span class="lineno"> 3219</span>            diffuse_peak_dir.at(b) = optix::make_float3(peak_dir.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>,peak_dir.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>,peak_dir.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>);</div>
-<div class="line"><a id="l03220" name="l03220"></a><span class="lineno"> 3220</span>        }</div>
-<div class="line"><a id="l03221" name="l03221"></a><span class="lineno"> 3221</span>        initializeBuffer1Dfloat3(diffuse_peak_dir_RTbuffer, diffuse_peak_dir);</div>
-<div class="line"><a id="l03222" name="l03222"></a><span class="lineno"> 3222</span>    }</div>
-<div class="line"><a id="l03223" name="l03223"></a><span class="lineno"> 3223</span> </div>
-<div class="line"><a id="l03224" name="l03224"></a><span class="lineno"> 3224</span>    <span class="comment">//Determine whether emission is enabled for any band</span></div>
-<div class="line"><a id="l03225" name="l03225"></a><span class="lineno"> 3225</span>    <span class="keywordtype">bool</span> emissionenabled = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l03226" name="l03226"></a><span class="lineno"> 3226</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;Nbands; b++ ){</div>
-<div class="line"><a id="l03227" name="l03227"></a><span class="lineno"> 3227</span>        <span class="keywordflow">if</span>( radiation_bands.at(label.at(b)).emissionFlag ){</div>
-<div class="line"><a id="l03228" name="l03228"></a><span class="lineno"> 3228</span>            emissionenabled=<span class="keyword">true</span>;</div>
-<div class="line"><a id="l03229" name="l03229"></a><span class="lineno"> 3229</span>        }</div>
+<div class="line"><a id="l03184" name="l03184"></a><span class="lineno"> 3184</span>    initializeBuffer1Dui( max_scatters_RTbuffer, scattering_depth );</div>
+<div class="line"><a id="l03185" name="l03185"></a><span class="lineno"> 3185</span> </div>
+<div class="line"><a id="l03186" name="l03186"></a><span class="lineno"> 3186</span>    <span class="comment">//Issue warning if rho&gt;0, tau&gt;0, or eps&lt;1</span></div>
+<div class="line"><a id="l03187" name="l03187"></a><span class="lineno"> 3187</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> b=0; b&lt;Nbands; b++ ){</div>
+<div class="line"><a id="l03188" name="l03188"></a><span class="lineno"> 3188</span>        <span class="keywordflow">if</span>( scattering_depth.at(b)==0 &amp;&amp; scattering_iterations_needed.at(b) ){</div>
+<div class="line"><a id="l03189" name="l03189"></a><span class="lineno"> 3189</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::runBand): Surface radiative properties for band &quot;</span> &lt;&lt; label.at(b) &lt;&lt; <span class="stringliteral">&quot; are set to non-default values, but scattering iterations are disabled. Surface radiative properties will be ignored unless scattering depth is non-zero.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03190" name="l03190"></a><span class="lineno"> 3190</span>        }</div>
+<div class="line"><a id="l03191" name="l03191"></a><span class="lineno"> 3191</span>    }</div>
+<div class="line"><a id="l03192" name="l03192"></a><span class="lineno"> 3192</span> </div>
+<div class="line"><a id="l03193" name="l03193"></a><span class="lineno"> 3193</span>    <span class="comment">//Set diffuse flux for each band</span></div>
+<div class="line"><a id="l03194" name="l03194"></a><span class="lineno"> 3194</span>    std::vector&lt;float&gt; diffuse_flux(Nbands);</div>
+<div class="line"><a id="l03195" name="l03195"></a><span class="lineno"> 3195</span>    <span class="keywordtype">bool</span> diffuseenabled = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l03196" name="l03196"></a><span class="lineno"> 3196</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;Nbands; b++ ){</div>
+<div class="line"><a id="l03197" name="l03197"></a><span class="lineno"> 3197</span>        diffuse_flux.at(b) = <a class="code hl_function" href="class_radiation_model.html#af8450f2308aee38272b4aef87f0c547b">getDiffuseFlux</a>( label.at(b) );</div>
+<div class="line"><a id="l03198" name="l03198"></a><span class="lineno"> 3198</span>        <span class="keywordflow">if</span>( diffuse_flux.at(b)&gt;0.f ){</div>
+<div class="line"><a id="l03199" name="l03199"></a><span class="lineno"> 3199</span>            diffuseenabled=<span class="keyword">true</span>;</div>
+<div class="line"><a id="l03200" name="l03200"></a><span class="lineno"> 3200</span>        }</div>
+<div class="line"><a id="l03201" name="l03201"></a><span class="lineno"> 3201</span>    }</div>
+<div class="line"><a id="l03202" name="l03202"></a><span class="lineno"> 3202</span>    initializeBuffer1Df( diffuse_flux_RTbuffer, diffuse_flux );</div>
+<div class="line"><a id="l03203" name="l03203"></a><span class="lineno"> 3203</span> </div>
+<div class="line"><a id="l03204" name="l03204"></a><span class="lineno"> 3204</span>    <span class="comment">//Set diffuse extinction coefficient for each band</span></div>
+<div class="line"><a id="l03205" name="l03205"></a><span class="lineno"> 3205</span>    std::vector&lt;float&gt; diffuse_extinction(Nbands,0);</div>
+<div class="line"><a id="l03206" name="l03206"></a><span class="lineno"> 3206</span>    <span class="keywordflow">if</span>( diffuseenabled ) {</div>
+<div class="line"><a id="l03207" name="l03207"></a><span class="lineno"> 3207</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> b = 0; b &lt; Nbands; b++) {</div>
+<div class="line"><a id="l03208" name="l03208"></a><span class="lineno"> 3208</span>            diffuse_extinction.at(b) = radiation_bands.at(label.at(b)).diffuseExtinction;</div>
+<div class="line"><a id="l03209" name="l03209"></a><span class="lineno"> 3209</span>        }</div>
+<div class="line"><a id="l03210" name="l03210"></a><span class="lineno"> 3210</span>    }</div>
+<div class="line"><a id="l03211" name="l03211"></a><span class="lineno"> 3211</span>    initializeBuffer1Df(diffuse_extinction_RTbuffer, diffuse_extinction);</div>
+<div class="line"><a id="l03212" name="l03212"></a><span class="lineno"> 3212</span> </div>
+<div class="line"><a id="l03213" name="l03213"></a><span class="lineno"> 3213</span>    <span class="comment">//Set diffuse distribution normalization factor for each band</span></div>
+<div class="line"><a id="l03214" name="l03214"></a><span class="lineno"> 3214</span>    std::vector&lt;float&gt; diffuse_dist_norm(Nbands,0);</div>
+<div class="line"><a id="l03215" name="l03215"></a><span class="lineno"> 3215</span>    <span class="keywordflow">if</span>( diffuseenabled ) {</div>
+<div class="line"><a id="l03216" name="l03216"></a><span class="lineno"> 3216</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> b = 0; b &lt; Nbands; b++) {</div>
+<div class="line"><a id="l03217" name="l03217"></a><span class="lineno"> 3217</span>            diffuse_dist_norm.at(b) = radiation_bands.at(label.at(b)).diffuseDistNorm;</div>
+<div class="line"><a id="l03218" name="l03218"></a><span class="lineno"> 3218</span>        }</div>
+<div class="line"><a id="l03219" name="l03219"></a><span class="lineno"> 3219</span>        initializeBuffer1Df(diffuse_dist_norm_RTbuffer, diffuse_dist_norm);</div>
+<div class="line"><a id="l03220" name="l03220"></a><span class="lineno"> 3220</span>    }</div>
+<div class="line"><a id="l03221" name="l03221"></a><span class="lineno"> 3221</span> </div>
+<div class="line"><a id="l03222" name="l03222"></a><span class="lineno"> 3222</span>    <span class="comment">//Set diffuse distribution peak direction for each band</span></div>
+<div class="line"><a id="l03223" name="l03223"></a><span class="lineno"> 3223</span>    std::vector&lt;optix::float3&gt; diffuse_peak_dir(Nbands);</div>
+<div class="line"><a id="l03224" name="l03224"></a><span class="lineno"> 3224</span>    <span class="keywordflow">if</span>( diffuseenabled ) {</div>
+<div class="line"><a id="l03225" name="l03225"></a><span class="lineno"> 3225</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> b = 0; b &lt; Nbands; b++) {</div>
+<div class="line"><a id="l03226" name="l03226"></a><span class="lineno"> 3226</span>            <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> peak_dir = radiation_bands.at(label.at(b)).diffusePeakDir;</div>
+<div class="line"><a id="l03227" name="l03227"></a><span class="lineno"> 3227</span>            diffuse_peak_dir.at(b) = optix::make_float3(peak_dir.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>,peak_dir.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>,peak_dir.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a>);</div>
+<div class="line"><a id="l03228" name="l03228"></a><span class="lineno"> 3228</span>        }</div>
+<div class="line"><a id="l03229" name="l03229"></a><span class="lineno"> 3229</span>        initializeBuffer1Dfloat3(diffuse_peak_dir_RTbuffer, diffuse_peak_dir);</div>
 <div class="line"><a id="l03230" name="l03230"></a><span class="lineno"> 3230</span>    }</div>
 <div class="line"><a id="l03231" name="l03231"></a><span class="lineno"> 3231</span> </div>
-<div class="line"><a id="l03232" name="l03232"></a><span class="lineno"> 3232</span>    <span class="comment">//Figure out the maximum direct ray count for all bands in this run and use this as the launch size</span></div>
-<div class="line"><a id="l03233" name="l03233"></a><span class="lineno"> 3233</span>    <span class="keywordtype">size_t</span> directRayCount = 0;</div>
-<div class="line"><a id="l03234" name="l03234"></a><span class="lineno"> 3234</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : label ) {</div>
-<div class="line"><a id="l03235" name="l03235"></a><span class="lineno"> 3235</span>        <span class="keywordflow">if</span>( radiation_bands.at(band).directRayCount&gt;directRayCount ) {</div>
-<div class="line"><a id="l03236" name="l03236"></a><span class="lineno"> 3236</span>            directRayCount = radiation_bands.at(band).directRayCount;</div>
+<div class="line"><a id="l03232" name="l03232"></a><span class="lineno"> 3232</span>    <span class="comment">//Determine whether emission is enabled for any band</span></div>
+<div class="line"><a id="l03233" name="l03233"></a><span class="lineno"> 3233</span>    <span class="keywordtype">bool</span> emissionenabled = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l03234" name="l03234"></a><span class="lineno"> 3234</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;Nbands; b++ ){</div>
+<div class="line"><a id="l03235" name="l03235"></a><span class="lineno"> 3235</span>        <span class="keywordflow">if</span>( radiation_bands.at(label.at(b)).emissionFlag ){</div>
+<div class="line"><a id="l03236" name="l03236"></a><span class="lineno"> 3236</span>            emissionenabled=<span class="keyword">true</span>;</div>
 <div class="line"><a id="l03237" name="l03237"></a><span class="lineno"> 3237</span>        }</div>
 <div class="line"><a id="l03238" name="l03238"></a><span class="lineno"> 3238</span>    }</div>
 <div class="line"><a id="l03239" name="l03239"></a><span class="lineno"> 3239</span> </div>
-<div class="line"><a id="l03240" name="l03240"></a><span class="lineno"> 3240</span>    <span class="comment">//Figure out the maximum diffuse ray count for all bands in this run and use this as the launch size</span></div>
-<div class="line"><a id="l03241" name="l03241"></a><span class="lineno"> 3241</span>    <span class="keywordtype">size_t</span> diffuseRayCount = 0;</div>
+<div class="line"><a id="l03240" name="l03240"></a><span class="lineno"> 3240</span>    <span class="comment">//Figure out the maximum direct ray count for all bands in this run and use this as the launch size</span></div>
+<div class="line"><a id="l03241" name="l03241"></a><span class="lineno"> 3241</span>    <span class="keywordtype">size_t</span> directRayCount = 0;</div>
 <div class="line"><a id="l03242" name="l03242"></a><span class="lineno"> 3242</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : label ) {</div>
-<div class="line"><a id="l03243" name="l03243"></a><span class="lineno"> 3243</span>        <span class="keywordflow">if</span>( radiation_bands.at(band).diffuseRayCount&gt;diffuseRayCount ) {</div>
-<div class="line"><a id="l03244" name="l03244"></a><span class="lineno"> 3244</span>            diffuseRayCount = radiation_bands.at(band).diffuseRayCount;</div>
+<div class="line"><a id="l03243" name="l03243"></a><span class="lineno"> 3243</span>        <span class="keywordflow">if</span>( radiation_bands.at(band).directRayCount&gt;directRayCount ) {</div>
+<div class="line"><a id="l03244" name="l03244"></a><span class="lineno"> 3244</span>            directRayCount = radiation_bands.at(band).directRayCount;</div>
 <div class="line"><a id="l03245" name="l03245"></a><span class="lineno"> 3245</span>        }</div>
 <div class="line"><a id="l03246" name="l03246"></a><span class="lineno"> 3246</span>    }</div>
 <div class="line"><a id="l03247" name="l03247"></a><span class="lineno"> 3247</span> </div>
 <div class="line"><a id="l03248" name="l03248"></a><span class="lineno"> 3248</span>    <span class="comment">//Figure out the maximum diffuse ray count for all bands in this run and use this as the launch size</span></div>
-<div class="line"><a id="l03249" name="l03249"></a><span class="lineno"> 3249</span>    <span class="keywordtype">size_t</span> scatteringDepth = 0;</div>
+<div class="line"><a id="l03249" name="l03249"></a><span class="lineno"> 3249</span>    <span class="keywordtype">size_t</span> diffuseRayCount = 0;</div>
 <div class="line"><a id="l03250" name="l03250"></a><span class="lineno"> 3250</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : label ) {</div>
-<div class="line"><a id="l03251" name="l03251"></a><span class="lineno"> 3251</span>        <span class="keywordflow">if</span>( radiation_bands.at(band).scatteringDepth&gt;scatteringDepth ) {</div>
-<div class="line"><a id="l03252" name="l03252"></a><span class="lineno"> 3252</span>            scatteringDepth = radiation_bands.at(band).scatteringDepth;</div>
+<div class="line"><a id="l03251" name="l03251"></a><span class="lineno"> 3251</span>        <span class="keywordflow">if</span>( radiation_bands.at(band).diffuseRayCount&gt;diffuseRayCount ) {</div>
+<div class="line"><a id="l03252" name="l03252"></a><span class="lineno"> 3252</span>            diffuseRayCount = radiation_bands.at(band).diffuseRayCount;</div>
 <div class="line"><a id="l03253" name="l03253"></a><span class="lineno"> 3253</span>        }</div>
 <div class="line"><a id="l03254" name="l03254"></a><span class="lineno"> 3254</span>    }</div>
 <div class="line"><a id="l03255" name="l03255"></a><span class="lineno"> 3255</span> </div>
-<div class="line"><a id="l03256" name="l03256"></a><span class="lineno"> 3256</span>    <span class="comment">// Zero buffers</span></div>
-<div class="line"><a id="l03257" name="l03257"></a><span class="lineno"> 3257</span>    zeroBuffer1D( radiation_in_RTbuffer, Nbands*Nprimitives );</div>
-<div class="line"><a id="l03258" name="l03258"></a><span class="lineno"> 3258</span>    zeroBuffer1D( scatter_buff_top_RTbuffer, Nbands*Nprimitives );</div>
-<div class="line"><a id="l03259" name="l03259"></a><span class="lineno"> 3259</span>    zeroBuffer1D( scatter_buff_bottom_RTbuffer, Nbands*Nprimitives );</div>
-<div class="line"><a id="l03260" name="l03260"></a><span class="lineno"> 3260</span>    zeroBuffer1D( Rsky_RTbuffer, Nbands*Nprimitives );</div>
-<div class="line"><a id="l03261" name="l03261"></a><span class="lineno"> 3261</span> </div>
-<div class="line"><a id="l03262" name="l03262"></a><span class="lineno"> 3262</span>    <span class="keywordflow">if</span>( Ncameras&gt;0 ){</div>
-<div class="line"><a id="l03263" name="l03263"></a><span class="lineno"> 3263</span>        zeroBuffer1D( scatter_buff_top_cam_RTbuffer, Nbands*Nprimitives );</div>
-<div class="line"><a id="l03264" name="l03264"></a><span class="lineno"> 3264</span>        zeroBuffer1D( scatter_buff_bottom_cam_RTbuffer, Nbands*Nprimitives );</div>
-<div class="line"><a id="l03265" name="l03265"></a><span class="lineno"> 3265</span>    }</div>
-<div class="line"><a id="l03266" name="l03266"></a><span class="lineno"> 3266</span> </div>
-<div class="line"><a id="l03267" name="l03267"></a><span class="lineno"> 3267</span>    std::vector&lt;float&gt; TBS_top, TBS_bottom;</div>
-<div class="line"><a id="l03268" name="l03268"></a><span class="lineno"> 3268</span>    TBS_top.resize(Nbands*Nprimitives, 0);</div>
-<div class="line"><a id="l03269" name="l03269"></a><span class="lineno"> 3269</span>    TBS_bottom = TBS_top;</div>
-<div class="line"><a id="l03270" name="l03270"></a><span class="lineno"> 3270</span> </div>
-<div class="line"><a id="l03271" name="l03271"></a><span class="lineno"> 3271</span>    std::map&lt;std::string,std::vector&lt;std::vector&lt;float&gt; &gt; &gt; radiation_in_camera;</div>
-<div class="line"><a id="l03272" name="l03272"></a><span class="lineno"> 3272</span> </div>
-<div class="line"><a id="l03273" name="l03273"></a><span class="lineno"> 3273</span>    <span class="keywordtype">size_t</span> maxRays = 1024*1024*1024; <span class="comment">//maximum number of total rays in a launch</span></div>
+<div class="line"><a id="l03256" name="l03256"></a><span class="lineno"> 3256</span>    <span class="comment">//Figure out the maximum diffuse ray count for all bands in this run and use this as the launch size</span></div>
+<div class="line"><a id="l03257" name="l03257"></a><span class="lineno"> 3257</span>    <span class="keywordtype">size_t</span> scatteringDepth = 0;</div>
+<div class="line"><a id="l03258" name="l03258"></a><span class="lineno"> 3258</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : label ) {</div>
+<div class="line"><a id="l03259" name="l03259"></a><span class="lineno"> 3259</span>        <span class="keywordflow">if</span>( radiation_bands.at(band).scatteringDepth&gt;scatteringDepth ) {</div>
+<div class="line"><a id="l03260" name="l03260"></a><span class="lineno"> 3260</span>            scatteringDepth = radiation_bands.at(band).scatteringDepth;</div>
+<div class="line"><a id="l03261" name="l03261"></a><span class="lineno"> 3261</span>        }</div>
+<div class="line"><a id="l03262" name="l03262"></a><span class="lineno"> 3262</span>    }</div>
+<div class="line"><a id="l03263" name="l03263"></a><span class="lineno"> 3263</span> </div>
+<div class="line"><a id="l03264" name="l03264"></a><span class="lineno"> 3264</span>    <span class="comment">// Zero buffers</span></div>
+<div class="line"><a id="l03265" name="l03265"></a><span class="lineno"> 3265</span>    zeroBuffer1D( radiation_in_RTbuffer, Nbands*Nprimitives );</div>
+<div class="line"><a id="l03266" name="l03266"></a><span class="lineno"> 3266</span>    zeroBuffer1D( scatter_buff_top_RTbuffer, Nbands*Nprimitives );</div>
+<div class="line"><a id="l03267" name="l03267"></a><span class="lineno"> 3267</span>    zeroBuffer1D( scatter_buff_bottom_RTbuffer, Nbands*Nprimitives );</div>
+<div class="line"><a id="l03268" name="l03268"></a><span class="lineno"> 3268</span>    zeroBuffer1D( Rsky_RTbuffer, Nbands*Nprimitives );</div>
+<div class="line"><a id="l03269" name="l03269"></a><span class="lineno"> 3269</span> </div>
+<div class="line"><a id="l03270" name="l03270"></a><span class="lineno"> 3270</span>    <span class="keywordflow">if</span>( Ncameras&gt;0 ){</div>
+<div class="line"><a id="l03271" name="l03271"></a><span class="lineno"> 3271</span>        zeroBuffer1D( scatter_buff_top_cam_RTbuffer, Nbands*Nprimitives );</div>
+<div class="line"><a id="l03272" name="l03272"></a><span class="lineno"> 3272</span>        zeroBuffer1D( scatter_buff_bottom_cam_RTbuffer, Nbands*Nprimitives );</div>
+<div class="line"><a id="l03273" name="l03273"></a><span class="lineno"> 3273</span>    }</div>
 <div class="line"><a id="l03274" name="l03274"></a><span class="lineno"> 3274</span> </div>
-<div class="line"><a id="l03275" name="l03275"></a><span class="lineno"> 3275</span>    <span class="comment">// ***** DIRECT LAUNCH FROM ALL RADIATION SOURCES ***** //</span></div>
-<div class="line"><a id="l03276" name="l03276"></a><span class="lineno"> 3276</span> </div>
-<div class="line"><a id="l03277" name="l03277"></a><span class="lineno"> 3277</span>    optix::int3 launch_dim_dir;</div>
+<div class="line"><a id="l03275" name="l03275"></a><span class="lineno"> 3275</span>    std::vector&lt;float&gt; TBS_top, TBS_bottom;</div>
+<div class="line"><a id="l03276" name="l03276"></a><span class="lineno"> 3276</span>    TBS_top.resize(Nbands*Nprimitives, 0);</div>
+<div class="line"><a id="l03277" name="l03277"></a><span class="lineno"> 3277</span>    TBS_bottom = TBS_top;</div>
 <div class="line"><a id="l03278" name="l03278"></a><span class="lineno"> 3278</span> </div>
-<div class="line"><a id="l03279" name="l03279"></a><span class="lineno"> 3279</span>    <span class="keywordtype">bool</span> rundirect = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l03280" name="l03280"></a><span class="lineno"> 3280</span>    <span class="keywordflow">for</span>( uint s=0; s&lt;Nsources; s++ ){</div>
-<div class="line"><a id="l03281" name="l03281"></a><span class="lineno"> 3281</span>        <span class="keywordflow">for</span>( uint b=0; b&lt;Nbands; b++ ){</div>
-<div class="line"><a id="l03282" name="l03282"></a><span class="lineno"> 3282</span>            <span class="keywordflow">if</span>( <a class="code hl_function" href="class_radiation_model.html#a9d4ea3e08514b90e617695ab2ee2fbf8">getSourceFlux</a>( s, label.at(b))&gt;0.f){</div>
-<div class="line"><a id="l03283" name="l03283"></a><span class="lineno"> 3283</span>                rundirect = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l03284" name="l03284"></a><span class="lineno"> 3284</span>                <span class="keywordflow">break</span>;</div>
-<div class="line"><a id="l03285" name="l03285"></a><span class="lineno"> 3285</span>            }</div>
-<div class="line"><a id="l03286" name="l03286"></a><span class="lineno"> 3286</span>        }</div>
-<div class="line"><a id="l03287" name="l03287"></a><span class="lineno"> 3287</span>    }</div>
-<div class="line"><a id="l03288" name="l03288"></a><span class="lineno"> 3288</span> </div>
-<div class="line"><a id="l03289" name="l03289"></a><span class="lineno"> 3289</span>    <span class="keywordflow">if</span>( Nsources&gt;0 &amp;&amp; rundirect ){</div>
-<div class="line"><a id="l03290" name="l03290"></a><span class="lineno"> 3290</span> </div>
-<div class="line"><a id="l03291" name="l03291"></a><span class="lineno"> 3291</span>        <span class="comment">//update radiation source buffers</span></div>
-<div class="line"><a id="l03292" name="l03292"></a><span class="lineno"> 3292</span> </div>
-<div class="line"><a id="l03293" name="l03293"></a><span class="lineno"> 3293</span>        std::vector&lt;std::vector&lt;float&gt; &gt; fluxes; <span class="comment">//first index is the source, second index is the band (only those passed to runBand() function)</span></div>
-<div class="line"><a id="l03294" name="l03294"></a><span class="lineno"> 3294</span>        fluxes.resize(Nsources);</div>
-<div class="line"><a id="l03295" name="l03295"></a><span class="lineno"> 3295</span>        std::vector&lt;optix::float3&gt; positions(Nsources);</div>
-<div class="line"><a id="l03296" name="l03296"></a><span class="lineno"> 3296</span>        std::vector&lt;optix::float2&gt; widths(Nsources);</div>
-<div class="line"><a id="l03297" name="l03297"></a><span class="lineno"> 3297</span>        std::vector&lt;optix::float3&gt; rotations(Nsources);</div>
-<div class="line"><a id="l03298" name="l03298"></a><span class="lineno"> 3298</span>        std::vector&lt;uint&gt; types(Nsources);</div>
-<div class="line"><a id="l03299" name="l03299"></a><span class="lineno"> 3299</span> </div>
-<div class="line"><a id="l03300" name="l03300"></a><span class="lineno"> 3300</span>        <span class="keywordtype">size_t</span> s=0;</div>
-<div class="line"><a id="l03301" name="l03301"></a><span class="lineno"> 3301</span>        <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;source : radiation_sources ) {</div>
-<div class="line"><a id="l03302" name="l03302"></a><span class="lineno"> 3302</span> </div>
-<div class="line"><a id="l03303" name="l03303"></a><span class="lineno"> 3303</span>            fluxes.at(s).resize(Nbands);</div>
-<div class="line"><a id="l03304" name="l03304"></a><span class="lineno"> 3304</span> </div>
-<div class="line"><a id="l03305" name="l03305"></a><span class="lineno"> 3305</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;label.size(); b++ ) {</div>
-<div class="line"><a id="l03306" name="l03306"></a><span class="lineno"> 3306</span>                fluxes.at(s).at(b) = <a class="code hl_function" href="class_radiation_model.html#a9d4ea3e08514b90e617695ab2ee2fbf8">getSourceFlux</a>( s, label.at(b));</div>
-<div class="line"><a id="l03307" name="l03307"></a><span class="lineno"> 3307</span>            }</div>
-<div class="line"><a id="l03308" name="l03308"></a><span class="lineno"> 3308</span> </div>
-<div class="line"><a id="l03309" name="l03309"></a><span class="lineno"> 3309</span>            positions.at(s) = optix::make_float3( source.<a class="code hl_variable" href="struct_radiation_source.html#a7b6944d5b003d2001d4e0a096c2d72c2">source_position</a>.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, source.<a class="code hl_variable" href="struct_radiation_source.html#a7b6944d5b003d2001d4e0a096c2d72c2">source_position</a>.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, source.<a class="code hl_variable" href="struct_radiation_source.html#a7b6944d5b003d2001d4e0a096c2d72c2">source_position</a>.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> );</div>
-<div class="line"><a id="l03310" name="l03310"></a><span class="lineno"> 3310</span>            widths.at(s) = optix::make_float2(source.<a class="code hl_variable" href="struct_radiation_source.html#a6135f3233535ed8dbbf0075d4123dc07">source_width</a>.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, source.<a class="code hl_variable" href="struct_radiation_source.html#a6135f3233535ed8dbbf0075d4123dc07">source_width</a>.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
-<div class="line"><a id="l03311" name="l03311"></a><span class="lineno"> 3311</span>            rotations.at(s) = optix::make_float3( source.<a class="code hl_variable" href="struct_radiation_source.html#ac436b7a30a4f1a614df2d4b4fa5a4b5a">source_rotation</a>.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>,source.<a class="code hl_variable" href="struct_radiation_source.html#ac436b7a30a4f1a614df2d4b4fa5a4b5a">source_rotation</a>.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>,source.<a class="code hl_variable" href="struct_radiation_source.html#ac436b7a30a4f1a614df2d4b4fa5a4b5a">source_rotation</a>.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> );</div>
-<div class="line"><a id="l03312" name="l03312"></a><span class="lineno"> 3312</span>            types.at(s) = source.<a class="code hl_variable" href="struct_radiation_source.html#ad6e32df75c976c45dbf00b6f76eb1c48">source_type</a>;</div>
-<div class="line"><a id="l03313" name="l03313"></a><span class="lineno"> 3313</span> </div>
-<div class="line"><a id="l03314" name="l03314"></a><span class="lineno"> 3314</span>            s++;</div>
-<div class="line"><a id="l03315" name="l03315"></a><span class="lineno"> 3315</span>        }</div>
+<div class="line"><a id="l03279" name="l03279"></a><span class="lineno"> 3279</span>    std::map&lt;std::string,std::vector&lt;std::vector&lt;float&gt; &gt; &gt; radiation_in_camera;</div>
+<div class="line"><a id="l03280" name="l03280"></a><span class="lineno"> 3280</span> </div>
+<div class="line"><a id="l03281" name="l03281"></a><span class="lineno"> 3281</span>    <span class="keywordtype">size_t</span> maxRays = 1024*1024*1024; <span class="comment">//maximum number of total rays in a launch</span></div>
+<div class="line"><a id="l03282" name="l03282"></a><span class="lineno"> 3282</span> </div>
+<div class="line"><a id="l03283" name="l03283"></a><span class="lineno"> 3283</span>    <span class="comment">// ***** DIRECT LAUNCH FROM ALL RADIATION SOURCES ***** //</span></div>
+<div class="line"><a id="l03284" name="l03284"></a><span class="lineno"> 3284</span> </div>
+<div class="line"><a id="l03285" name="l03285"></a><span class="lineno"> 3285</span>    optix::int3 launch_dim_dir;</div>
+<div class="line"><a id="l03286" name="l03286"></a><span class="lineno"> 3286</span> </div>
+<div class="line"><a id="l03287" name="l03287"></a><span class="lineno"> 3287</span>    <span class="keywordtype">bool</span> rundirect = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l03288" name="l03288"></a><span class="lineno"> 3288</span>    <span class="keywordflow">for</span>( uint s=0; s&lt;Nsources; s++ ){</div>
+<div class="line"><a id="l03289" name="l03289"></a><span class="lineno"> 3289</span>        <span class="keywordflow">for</span>( uint b=0; b&lt;Nbands; b++ ){</div>
+<div class="line"><a id="l03290" name="l03290"></a><span class="lineno"> 3290</span>            <span class="keywordflow">if</span>( <a class="code hl_function" href="class_radiation_model.html#a9d4ea3e08514b90e617695ab2ee2fbf8">getSourceFlux</a>( s, label.at(b))&gt;0.f){</div>
+<div class="line"><a id="l03291" name="l03291"></a><span class="lineno"> 3291</span>                rundirect = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l03292" name="l03292"></a><span class="lineno"> 3292</span>                <span class="keywordflow">break</span>;</div>
+<div class="line"><a id="l03293" name="l03293"></a><span class="lineno"> 3293</span>            }</div>
+<div class="line"><a id="l03294" name="l03294"></a><span class="lineno"> 3294</span>        }</div>
+<div class="line"><a id="l03295" name="l03295"></a><span class="lineno"> 3295</span>    }</div>
+<div class="line"><a id="l03296" name="l03296"></a><span class="lineno"> 3296</span> </div>
+<div class="line"><a id="l03297" name="l03297"></a><span class="lineno"> 3297</span>    <span class="keywordflow">if</span>( Nsources&gt;0 &amp;&amp; rundirect ){</div>
+<div class="line"><a id="l03298" name="l03298"></a><span class="lineno"> 3298</span> </div>
+<div class="line"><a id="l03299" name="l03299"></a><span class="lineno"> 3299</span>        <span class="comment">//update radiation source buffers</span></div>
+<div class="line"><a id="l03300" name="l03300"></a><span class="lineno"> 3300</span> </div>
+<div class="line"><a id="l03301" name="l03301"></a><span class="lineno"> 3301</span>        std::vector&lt;std::vector&lt;float&gt; &gt; fluxes; <span class="comment">//first index is the source, second index is the band (only those passed to runBand() function)</span></div>
+<div class="line"><a id="l03302" name="l03302"></a><span class="lineno"> 3302</span>        fluxes.resize(Nsources);</div>
+<div class="line"><a id="l03303" name="l03303"></a><span class="lineno"> 3303</span>        std::vector&lt;optix::float3&gt; positions(Nsources);</div>
+<div class="line"><a id="l03304" name="l03304"></a><span class="lineno"> 3304</span>        std::vector&lt;optix::float2&gt; widths(Nsources);</div>
+<div class="line"><a id="l03305" name="l03305"></a><span class="lineno"> 3305</span>        std::vector&lt;optix::float3&gt; rotations(Nsources);</div>
+<div class="line"><a id="l03306" name="l03306"></a><span class="lineno"> 3306</span>        std::vector&lt;uint&gt; types(Nsources);</div>
+<div class="line"><a id="l03307" name="l03307"></a><span class="lineno"> 3307</span> </div>
+<div class="line"><a id="l03308" name="l03308"></a><span class="lineno"> 3308</span>        <span class="keywordtype">size_t</span> s=0;</div>
+<div class="line"><a id="l03309" name="l03309"></a><span class="lineno"> 3309</span>        <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;source : radiation_sources ) {</div>
+<div class="line"><a id="l03310" name="l03310"></a><span class="lineno"> 3310</span> </div>
+<div class="line"><a id="l03311" name="l03311"></a><span class="lineno"> 3311</span>            fluxes.at(s).resize(Nbands);</div>
+<div class="line"><a id="l03312" name="l03312"></a><span class="lineno"> 3312</span> </div>
+<div class="line"><a id="l03313" name="l03313"></a><span class="lineno"> 3313</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;label.size(); b++ ) {</div>
+<div class="line"><a id="l03314" name="l03314"></a><span class="lineno"> 3314</span>                fluxes.at(s).at(b) = <a class="code hl_function" href="class_radiation_model.html#a9d4ea3e08514b90e617695ab2ee2fbf8">getSourceFlux</a>( s, label.at(b));</div>
+<div class="line"><a id="l03315" name="l03315"></a><span class="lineno"> 3315</span>            }</div>
 <div class="line"><a id="l03316" name="l03316"></a><span class="lineno"> 3316</span> </div>
-<div class="line"><a id="l03317" name="l03317"></a><span class="lineno"> 3317</span>        initializeBuffer1Df( source_fluxes_RTbuffer, <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(fluxes) );</div>
-<div class="line"><a id="l03318" name="l03318"></a><span class="lineno"> 3318</span>        initializeBuffer1Dfloat3( source_positions_RTbuffer, positions );</div>
-<div class="line"><a id="l03319" name="l03319"></a><span class="lineno"> 3319</span>        initializeBuffer1Dfloat2( source_widths_RTbuffer, widths );</div>
-<div class="line"><a id="l03320" name="l03320"></a><span class="lineno"> 3320</span>        initializeBuffer1Dfloat3( source_rotations_RTbuffer, rotations );</div>
-<div class="line"><a id="l03321" name="l03321"></a><span class="lineno"> 3321</span>        initializeBuffer1Dui( source_types_RTbuffer, types );</div>
-<div class="line"><a id="l03322" name="l03322"></a><span class="lineno"> 3322</span> </div>
-<div class="line"><a id="l03323" name="l03323"></a><span class="lineno"> 3323</span>        <span class="comment">// -- Ray Trace -- //</span></div>
+<div class="line"><a id="l03317" name="l03317"></a><span class="lineno"> 3317</span>            positions.at(s) = optix::make_float3( source.<a class="code hl_variable" href="struct_radiation_source.html#a7b6944d5b003d2001d4e0a096c2d72c2">source_position</a>.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, source.<a class="code hl_variable" href="struct_radiation_source.html#a7b6944d5b003d2001d4e0a096c2d72c2">source_position</a>.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, source.<a class="code hl_variable" href="struct_radiation_source.html#a7b6944d5b003d2001d4e0a096c2d72c2">source_position</a>.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> );</div>
+<div class="line"><a id="l03318" name="l03318"></a><span class="lineno"> 3318</span>            widths.at(s) = optix::make_float2(source.<a class="code hl_variable" href="struct_radiation_source.html#a6135f3233535ed8dbbf0075d4123dc07">source_width</a>.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, source.<a class="code hl_variable" href="struct_radiation_source.html#a6135f3233535ed8dbbf0075d4123dc07">source_width</a>.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
+<div class="line"><a id="l03319" name="l03319"></a><span class="lineno"> 3319</span>            rotations.at(s) = optix::make_float3( source.<a class="code hl_variable" href="struct_radiation_source.html#ac436b7a30a4f1a614df2d4b4fa5a4b5a">source_rotation</a>.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>,source.<a class="code hl_variable" href="struct_radiation_source.html#ac436b7a30a4f1a614df2d4b4fa5a4b5a">source_rotation</a>.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>,source.<a class="code hl_variable" href="struct_radiation_source.html#ac436b7a30a4f1a614df2d4b4fa5a4b5a">source_rotation</a>.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> );</div>
+<div class="line"><a id="l03320" name="l03320"></a><span class="lineno"> 3320</span>            types.at(s) = source.<a class="code hl_variable" href="struct_radiation_source.html#ad6e32df75c976c45dbf00b6f76eb1c48">source_type</a>;</div>
+<div class="line"><a id="l03321" name="l03321"></a><span class="lineno"> 3321</span> </div>
+<div class="line"><a id="l03322" name="l03322"></a><span class="lineno"> 3322</span>            s++;</div>
+<div class="line"><a id="l03323" name="l03323"></a><span class="lineno"> 3323</span>        }</div>
 <div class="line"><a id="l03324" name="l03324"></a><span class="lineno"> 3324</span> </div>
-<div class="line"><a id="l03325" name="l03325"></a><span class="lineno"> 3325</span>        <span class="comment">// Compute direct launch dimension</span></div>
-<div class="line"><a id="l03326" name="l03326"></a><span class="lineno"> 3326</span>        <span class="keywordtype">size_t</span> n = ceil(sqrt(<span class="keywordtype">double</span>(directRayCount)));</div>
-<div class="line"><a id="l03327" name="l03327"></a><span class="lineno"> 3327</span> </div>
-<div class="line"><a id="l03328" name="l03328"></a><span class="lineno"> 3328</span>        <span class="keywordtype">size_t</span> maxPrims = floor( <span class="keywordtype">float</span>(maxRays)/<span class="keywordtype">float</span>(n*n) );</div>
-<div class="line"><a id="l03329" name="l03329"></a><span class="lineno"> 3329</span> </div>
-<div class="line"><a id="l03330" name="l03330"></a><span class="lineno"> 3330</span>        <span class="keywordtype">int</span> Nlaunches = ceil( n*n*Nobjects/<span class="keywordtype">float</span>(maxRays) );</div>
-<div class="line"><a id="l03331" name="l03331"></a><span class="lineno"> 3331</span> </div>
-<div class="line"><a id="l03332" name="l03332"></a><span class="lineno"> 3332</span>        <span class="keywordtype">size_t</span> prims_per_launch = fmin( Nobjects, maxPrims );</div>
-<div class="line"><a id="l03333" name="l03333"></a><span class="lineno"> 3333</span> </div>
-<div class="line"><a id="l03334" name="l03334"></a><span class="lineno"> 3334</span>        <span class="keywordflow">for</span>( uint launch=0; launch&lt;Nlaunches; launch++ ){</div>
+<div class="line"><a id="l03325" name="l03325"></a><span class="lineno"> 3325</span>        initializeBuffer1Df( source_fluxes_RTbuffer, <a class="code hl_function" href="group__functions.html#ga121757e2774279472d1ffa068313dbfc">flatten</a>(fluxes) );</div>
+<div class="line"><a id="l03326" name="l03326"></a><span class="lineno"> 3326</span>        initializeBuffer1Dfloat3( source_positions_RTbuffer, positions );</div>
+<div class="line"><a id="l03327" name="l03327"></a><span class="lineno"> 3327</span>        initializeBuffer1Dfloat2( source_widths_RTbuffer, widths );</div>
+<div class="line"><a id="l03328" name="l03328"></a><span class="lineno"> 3328</span>        initializeBuffer1Dfloat3( source_rotations_RTbuffer, rotations );</div>
+<div class="line"><a id="l03329" name="l03329"></a><span class="lineno"> 3329</span>        initializeBuffer1Dui( source_types_RTbuffer, types );</div>
+<div class="line"><a id="l03330" name="l03330"></a><span class="lineno"> 3330</span> </div>
+<div class="line"><a id="l03331" name="l03331"></a><span class="lineno"> 3331</span>        <span class="comment">// -- Ray Trace -- //</span></div>
+<div class="line"><a id="l03332" name="l03332"></a><span class="lineno"> 3332</span> </div>
+<div class="line"><a id="l03333" name="l03333"></a><span class="lineno"> 3333</span>        <span class="comment">// Compute direct launch dimension</span></div>
+<div class="line"><a id="l03334" name="l03334"></a><span class="lineno"> 3334</span>        <span class="keywordtype">size_t</span> n = ceil(sqrt(<span class="keywordtype">double</span>(directRayCount)));</div>
 <div class="line"><a id="l03335" name="l03335"></a><span class="lineno"> 3335</span> </div>
-<div class="line"><a id="l03336" name="l03336"></a><span class="lineno"> 3336</span>            <span class="keywordtype">size_t</span> prims_this_launch;</div>
-<div class="line"><a id="l03337" name="l03337"></a><span class="lineno"> 3337</span>            <span class="keywordflow">if</span>( (launch+1)*prims_per_launch &gt; Nobjects ){</div>
-<div class="line"><a id="l03338" name="l03338"></a><span class="lineno"> 3338</span>                prims_this_launch = Nobjects-launch*prims_per_launch;</div>
-<div class="line"><a id="l03339" name="l03339"></a><span class="lineno"> 3339</span>            }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03340" name="l03340"></a><span class="lineno"> 3340</span>                prims_this_launch = prims_per_launch;</div>
-<div class="line"><a id="l03341" name="l03341"></a><span class="lineno"> 3341</span>            }</div>
-<div class="line"><a id="l03342" name="l03342"></a><span class="lineno"> 3342</span> </div>
-<div class="line"><a id="l03343" name="l03343"></a><span class="lineno"> 3343</span>            RT_CHECK_ERROR( rtVariableSet1ui( launch_offset_RTvariable, launch*prims_per_launch ) );</div>
-<div class="line"><a id="l03344" name="l03344"></a><span class="lineno"> 3344</span> </div>
-<div class="line"><a id="l03345" name="l03345"></a><span class="lineno"> 3345</span>            launch_dim_dir = optix::make_int3( round(n), round(n), prims_this_launch );</div>
-<div class="line"><a id="l03346" name="l03346"></a><span class="lineno"> 3346</span> </div>
-<div class="line"><a id="l03347" name="l03347"></a><span class="lineno"> 3347</span>            <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l03348" name="l03348"></a><span class="lineno"> 3348</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;Performing primary direct radiation ray trace for bands &quot;</span>;</div>
-<div class="line"><a id="l03349" name="l03349"></a><span class="lineno"> 3349</span>                <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : label ) {</div>
-<div class="line"><a id="l03350" name="l03350"></a><span class="lineno"> 3350</span>                    std::cout &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;, &quot;</span>;</div>
-<div class="line"><a id="l03351" name="l03351"></a><span class="lineno"> 3351</span>                }</div>
-<div class="line"><a id="l03352" name="l03352"></a><span class="lineno"> 3352</span>                std::cout &lt;&lt; <span class="stringliteral">&quot; (batch &quot;</span> &lt;&lt; launch+1 &lt;&lt; <span class="stringliteral">&quot; of &quot;</span> &lt;&lt; Nlaunches &lt;&lt; <span class="stringliteral">&quot;)...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03353" name="l03353"></a><span class="lineno"> 3353</span>            }</div>
-<div class="line"><a id="l03354" name="l03354"></a><span class="lineno"> 3354</span>            RT_CHECK_ERROR( rtContextLaunch3D( OptiX_Context, RAYTYPE_DIRECT , launch_dim_dir.x, launch_dim_dir.y, launch_dim_dir.z ) );</div>
-<div class="line"><a id="l03355" name="l03355"></a><span class="lineno"> 3355</span> </div>
-<div class="line"><a id="l03356" name="l03356"></a><span class="lineno"> 3356</span>            <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l03357" name="l03357"></a><span class="lineno"> 3357</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;\r                                                                                                                               \r&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03358" name="l03358"></a><span class="lineno"> 3358</span>            }</div>
-<div class="line"><a id="l03359" name="l03359"></a><span class="lineno"> 3359</span> </div>
-<div class="line"><a id="l03360" name="l03360"></a><span class="lineno"> 3360</span>        }</div>
-<div class="line"><a id="l03361" name="l03361"></a><span class="lineno"> 3361</span> </div>
-<div class="line"><a id="l03362" name="l03362"></a><span class="lineno"> 3362</span>        <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l03363" name="l03363"></a><span class="lineno"> 3363</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;Performing primary direct radiation ray trace for bands &quot;</span>;</div>
-<div class="line"><a id="l03364" name="l03364"></a><span class="lineno"> 3364</span>            <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : label ) {</div>
-<div class="line"><a id="l03365" name="l03365"></a><span class="lineno"> 3365</span>                std::cout &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;, &quot;</span>;</div>
+<div class="line"><a id="l03336" name="l03336"></a><span class="lineno"> 3336</span>        <span class="keywordtype">size_t</span> maxPrims = floor( <span class="keywordtype">float</span>(maxRays)/<span class="keywordtype">float</span>(n*n) );</div>
+<div class="line"><a id="l03337" name="l03337"></a><span class="lineno"> 3337</span> </div>
+<div class="line"><a id="l03338" name="l03338"></a><span class="lineno"> 3338</span>        <span class="keywordtype">int</span> Nlaunches = ceil( n*n*Nobjects/<span class="keywordtype">float</span>(maxRays) );</div>
+<div class="line"><a id="l03339" name="l03339"></a><span class="lineno"> 3339</span> </div>
+<div class="line"><a id="l03340" name="l03340"></a><span class="lineno"> 3340</span>        <span class="keywordtype">size_t</span> prims_per_launch = fmin( Nobjects, maxPrims );</div>
+<div class="line"><a id="l03341" name="l03341"></a><span class="lineno"> 3341</span> </div>
+<div class="line"><a id="l03342" name="l03342"></a><span class="lineno"> 3342</span>        <span class="keywordflow">for</span>( uint launch=0; launch&lt;Nlaunches; launch++ ){</div>
+<div class="line"><a id="l03343" name="l03343"></a><span class="lineno"> 3343</span> </div>
+<div class="line"><a id="l03344" name="l03344"></a><span class="lineno"> 3344</span>            <span class="keywordtype">size_t</span> prims_this_launch;</div>
+<div class="line"><a id="l03345" name="l03345"></a><span class="lineno"> 3345</span>            <span class="keywordflow">if</span>( (launch+1)*prims_per_launch &gt; Nobjects ){</div>
+<div class="line"><a id="l03346" name="l03346"></a><span class="lineno"> 3346</span>                prims_this_launch = Nobjects-launch*prims_per_launch;</div>
+<div class="line"><a id="l03347" name="l03347"></a><span class="lineno"> 3347</span>            }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l03348" name="l03348"></a><span class="lineno"> 3348</span>                prims_this_launch = prims_per_launch;</div>
+<div class="line"><a id="l03349" name="l03349"></a><span class="lineno"> 3349</span>            }</div>
+<div class="line"><a id="l03350" name="l03350"></a><span class="lineno"> 3350</span> </div>
+<div class="line"><a id="l03351" name="l03351"></a><span class="lineno"> 3351</span>            RT_CHECK_ERROR( rtVariableSet1ui( launch_offset_RTvariable, launch*prims_per_launch ) );</div>
+<div class="line"><a id="l03352" name="l03352"></a><span class="lineno"> 3352</span> </div>
+<div class="line"><a id="l03353" name="l03353"></a><span class="lineno"> 3353</span>            launch_dim_dir = optix::make_int3( round(n), round(n), prims_this_launch );</div>
+<div class="line"><a id="l03354" name="l03354"></a><span class="lineno"> 3354</span> </div>
+<div class="line"><a id="l03355" name="l03355"></a><span class="lineno"> 3355</span>            <span class="keywordflow">if</span>( message_flag ){</div>
+<div class="line"><a id="l03356" name="l03356"></a><span class="lineno"> 3356</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;Performing primary direct radiation ray trace for bands &quot;</span>;</div>
+<div class="line"><a id="l03357" name="l03357"></a><span class="lineno"> 3357</span>                <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : label ) {</div>
+<div class="line"><a id="l03358" name="l03358"></a><span class="lineno"> 3358</span>                    std::cout &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;, &quot;</span>;</div>
+<div class="line"><a id="l03359" name="l03359"></a><span class="lineno"> 3359</span>                }</div>
+<div class="line"><a id="l03360" name="l03360"></a><span class="lineno"> 3360</span>                std::cout &lt;&lt; <span class="stringliteral">&quot; (batch &quot;</span> &lt;&lt; launch+1 &lt;&lt; <span class="stringliteral">&quot; of &quot;</span> &lt;&lt; Nlaunches &lt;&lt; <span class="stringliteral">&quot;)...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03361" name="l03361"></a><span class="lineno"> 3361</span>            }</div>
+<div class="line"><a id="l03362" name="l03362"></a><span class="lineno"> 3362</span>            RT_CHECK_ERROR( rtContextLaunch3D( OptiX_Context, RAYTYPE_DIRECT , launch_dim_dir.x, launch_dim_dir.y, launch_dim_dir.z ) );</div>
+<div class="line"><a id="l03363" name="l03363"></a><span class="lineno"> 3363</span> </div>
+<div class="line"><a id="l03364" name="l03364"></a><span class="lineno"> 3364</span>            <span class="keywordflow">if</span>( message_flag ){</div>
+<div class="line"><a id="l03365" name="l03365"></a><span class="lineno"> 3365</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;\r                                                                                                                               \r&quot;</span> &lt;&lt; std::flush;</div>
 <div class="line"><a id="l03366" name="l03366"></a><span class="lineno"> 3366</span>            }</div>
-<div class="line"><a id="l03367" name="l03367"></a><span class="lineno"> 3367</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;...done.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03367" name="l03367"></a><span class="lineno"> 3367</span> </div>
 <div class="line"><a id="l03368" name="l03368"></a><span class="lineno"> 3368</span>        }</div>
 <div class="line"><a id="l03369" name="l03369"></a><span class="lineno"> 3369</span> </div>
-<div class="line"><a id="l03370" name="l03370"></a><span class="lineno"> 3370</span>    }<span class="comment">//end direct source launch</span></div>
-<div class="line"><a id="l03371" name="l03371"></a><span class="lineno"> 3371</span> </div>
-<div class="line"><a id="l03372" name="l03372"></a><span class="lineno"> 3372</span>    <span class="comment">// --- Diffuse/Emission launch ---- //</span></div>
-<div class="line"><a id="l03373" name="l03373"></a><span class="lineno"> 3373</span> </div>
-<div class="line"><a id="l03374" name="l03374"></a><span class="lineno"> 3374</span>    <span class="keywordflow">if</span>( emissionenabled || diffuseenabled ){</div>
-<div class="line"><a id="l03375" name="l03375"></a><span class="lineno"> 3375</span> </div>
-<div class="line"><a id="l03376" name="l03376"></a><span class="lineno"> 3376</span>        std::vector&lt;float&gt; flux_top, flux_bottom;</div>
-<div class="line"><a id="l03377" name="l03377"></a><span class="lineno"> 3377</span>        flux_top.resize(Nbands*Nprimitives,0);</div>
-<div class="line"><a id="l03378" name="l03378"></a><span class="lineno"> 3378</span>        flux_bottom = flux_top;</div>
+<div class="line"><a id="l03370" name="l03370"></a><span class="lineno"> 3370</span>        <span class="keywordflow">if</span>( message_flag ){</div>
+<div class="line"><a id="l03371" name="l03371"></a><span class="lineno"> 3371</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;Performing primary direct radiation ray trace for bands &quot;</span>;</div>
+<div class="line"><a id="l03372" name="l03372"></a><span class="lineno"> 3372</span>            <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : label ) {</div>
+<div class="line"><a id="l03373" name="l03373"></a><span class="lineno"> 3373</span>                std::cout &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;, &quot;</span>;</div>
+<div class="line"><a id="l03374" name="l03374"></a><span class="lineno"> 3374</span>            }</div>
+<div class="line"><a id="l03375" name="l03375"></a><span class="lineno"> 3375</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;...done.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03376" name="l03376"></a><span class="lineno"> 3376</span>        }</div>
+<div class="line"><a id="l03377" name="l03377"></a><span class="lineno"> 3377</span> </div>
+<div class="line"><a id="l03378" name="l03378"></a><span class="lineno"> 3378</span>    }<span class="comment">//end direct source launch</span></div>
 <div class="line"><a id="l03379" name="l03379"></a><span class="lineno"> 3379</span> </div>
-<div class="line"><a id="l03380" name="l03380"></a><span class="lineno"> 3380</span>        <span class="comment">//If we are doing a diffuse/emission ray trace anyway and we have direct scattered energy, we get a &quot;free&quot; scattering trace here</span></div>
-<div class="line"><a id="l03381" name="l03381"></a><span class="lineno"> 3381</span>        <span class="keywordflow">if</span>( scatteringenabled &amp;&amp; rundirect ){</div>
-<div class="line"><a id="l03382" name="l03382"></a><span class="lineno"> 3382</span>            flux_top=getOptiXbufferData( scatter_buff_top_RTbuffer );</div>
-<div class="line"><a id="l03383" name="l03383"></a><span class="lineno"> 3383</span>            flux_bottom=getOptiXbufferData( scatter_buff_bottom_RTbuffer );</div>
-<div class="line"><a id="l03384" name="l03384"></a><span class="lineno"> 3384</span>            zeroBuffer1D( scatter_buff_top_RTbuffer, Nbands*Nprimitives );</div>
-<div class="line"><a id="l03385" name="l03385"></a><span class="lineno"> 3385</span>            zeroBuffer1D( scatter_buff_bottom_RTbuffer, Nbands*Nprimitives );</div>
-<div class="line"><a id="l03386" name="l03386"></a><span class="lineno"> 3386</span>        }</div>
+<div class="line"><a id="l03380" name="l03380"></a><span class="lineno"> 3380</span>    <span class="comment">// --- Diffuse/Emission launch ---- //</span></div>
+<div class="line"><a id="l03381" name="l03381"></a><span class="lineno"> 3381</span> </div>
+<div class="line"><a id="l03382" name="l03382"></a><span class="lineno"> 3382</span>    <span class="keywordflow">if</span>( emissionenabled || diffuseenabled ){</div>
+<div class="line"><a id="l03383" name="l03383"></a><span class="lineno"> 3383</span> </div>
+<div class="line"><a id="l03384" name="l03384"></a><span class="lineno"> 3384</span>        std::vector&lt;float&gt; flux_top, flux_bottom;</div>
+<div class="line"><a id="l03385" name="l03385"></a><span class="lineno"> 3385</span>        flux_top.resize(Nbands*Nprimitives,0);</div>
+<div class="line"><a id="l03386" name="l03386"></a><span class="lineno"> 3386</span>        flux_bottom = flux_top;</div>
 <div class="line"><a id="l03387" name="l03387"></a><span class="lineno"> 3387</span> </div>
-<div class="line"><a id="l03388" name="l03388"></a><span class="lineno"> 3388</span>        <span class="comment">//add any emitted energy to the outgoing energy buffer</span></div>
-<div class="line"><a id="l03389" name="l03389"></a><span class="lineno"> 3389</span>        <span class="keywordflow">if</span>( emissionenabled ) {</div>
-<div class="line"><a id="l03390" name="l03390"></a><span class="lineno"> 3390</span>            <span class="comment">// Update primitive outgoing emission</span></div>
-<div class="line"><a id="l03391" name="l03391"></a><span class="lineno"> 3391</span>            <span class="keywordtype">float</span> eps, temperature;</div>
-<div class="line"><a id="l03392" name="l03392"></a><span class="lineno"> 3392</span> </div>
-<div class="line"><a id="l03393" name="l03393"></a><span class="lineno"> 3393</span>            <span class="keywordtype">void</span> *ptr;</div>
-<div class="line"><a id="l03394" name="l03394"></a><span class="lineno"> 3394</span>            <span class="keywordtype">float</span> *scatter_buff_top_cam_data, *scatter_buff_bottom_cam_data;</div>
-<div class="line"><a id="l03395" name="l03395"></a><span class="lineno"> 3395</span>            <span class="keywordflow">if</span>( Ncameras&gt;0 ){</div>
-<div class="line"><a id="l03396" name="l03396"></a><span class="lineno"> 3396</span>                <span class="comment">//add emitted flux to camera scattered energy buffer</span></div>
-<div class="line"><a id="l03397" name="l03397"></a><span class="lineno"> 3397</span>                RT_CHECK_ERROR( rtBufferMap( scatter_buff_top_cam_RTbuffer, &amp;ptr ) );</div>
-<div class="line"><a id="l03398" name="l03398"></a><span class="lineno"> 3398</span>                scatter_buff_top_cam_data = (<span class="keywordtype">float</span>*)ptr;</div>
-<div class="line"><a id="l03399" name="l03399"></a><span class="lineno"> 3399</span>                RT_CHECK_ERROR( rtBufferMap( scatter_buff_bottom_cam_RTbuffer, &amp;ptr ) );</div>
-<div class="line"><a id="l03400" name="l03400"></a><span class="lineno"> 3400</span>                scatter_buff_bottom_cam_data = (<span class="keywordtype">float</span>*)ptr;</div>
-<div class="line"><a id="l03401" name="l03401"></a><span class="lineno"> 3401</span>            }</div>
-<div class="line"><a id="l03402" name="l03402"></a><span class="lineno"> 3402</span> </div>
-<div class="line"><a id="l03403" name="l03403"></a><span class="lineno"> 3403</span>            <span class="keywordflow">for</span> (<span class="keyword">auto</span> b = 0; b &lt; Nbands; b++) {</div>
-<div class="line"><a id="l03404" name="l03404"></a><span class="lineno"> 3404</span>                <span class="keywordflow">if</span> (radiation_bands.at(label.at(b)).emissionFlag) {</div>
-<div class="line"><a id="l03405" name="l03405"></a><span class="lineno"> 3405</span>                    std::string prop = <span class="stringliteral">&quot;emissivity_&quot;</span> + label.at(b);</div>
-<div class="line"><a id="l03406" name="l03406"></a><span class="lineno"> 3406</span>                    <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> u = 0; u &lt; Nprimitives; u++) {</div>
-<div class="line"><a id="l03407" name="l03407"></a><span class="lineno"> 3407</span>                        <span class="keywordtype">size_t</span> ind = u * Nbands + b;</div>
-<div class="line"><a id="l03408" name="l03408"></a><span class="lineno"> 3408</span>                        uint p = context_UUIDs.at(u);</div>
-<div class="line"><a id="l03409" name="l03409"></a><span class="lineno"> 3409</span>                        <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(p, prop.c_str())) {</div>
-<div class="line"><a id="l03410" name="l03410"></a><span class="lineno"> 3410</span>                            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(p, prop.c_str(), eps);</div>
-<div class="line"><a id="l03411" name="l03411"></a><span class="lineno"> 3411</span>                        } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l03412" name="l03412"></a><span class="lineno"> 3412</span>                            eps = eps_default;</div>
-<div class="line"><a id="l03413" name="l03413"></a><span class="lineno"> 3413</span>                        }</div>
-<div class="line"><a id="l03414" name="l03414"></a><span class="lineno"> 3414</span>                        <span class="keywordflow">if</span> (scattering_depth.at(b) == 0 &amp;&amp; eps != 1.f) {</div>
-<div class="line"><a id="l03415" name="l03415"></a><span class="lineno"> 3415</span>                            eps = 1.f;</div>
-<div class="line"><a id="l03416" name="l03416"></a><span class="lineno"> 3416</span>                        }</div>
-<div class="line"><a id="l03417" name="l03417"></a><span class="lineno"> 3417</span>                        <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(p, <span class="stringliteral">&quot;temperature&quot;</span>)) {</div>
-<div class="line"><a id="l03418" name="l03418"></a><span class="lineno"> 3418</span>                            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(p, <span class="stringliteral">&quot;temperature&quot;</span>, temperature);</div>
-<div class="line"><a id="l03419" name="l03419"></a><span class="lineno"> 3419</span>                            <span class="keywordflow">if</span> (temperature &lt; 0) {</div>
-<div class="line"><a id="l03420" name="l03420"></a><span class="lineno"> 3420</span>                                temperature = temperature_default;</div>
-<div class="line"><a id="l03421" name="l03421"></a><span class="lineno"> 3421</span>                            }</div>
-<div class="line"><a id="l03422" name="l03422"></a><span class="lineno"> 3422</span>                        } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l03423" name="l03423"></a><span class="lineno"> 3423</span>                            temperature = temperature_default;</div>
+<div class="line"><a id="l03388" name="l03388"></a><span class="lineno"> 3388</span>        <span class="comment">//If we are doing a diffuse/emission ray trace anyway and we have direct scattered energy, we get a &quot;free&quot; scattering trace here</span></div>
+<div class="line"><a id="l03389" name="l03389"></a><span class="lineno"> 3389</span>        <span class="keywordflow">if</span>( scatteringenabled &amp;&amp; rundirect ){</div>
+<div class="line"><a id="l03390" name="l03390"></a><span class="lineno"> 3390</span>            flux_top=getOptiXbufferData( scatter_buff_top_RTbuffer );</div>
+<div class="line"><a id="l03391" name="l03391"></a><span class="lineno"> 3391</span>            flux_bottom=getOptiXbufferData( scatter_buff_bottom_RTbuffer );</div>
+<div class="line"><a id="l03392" name="l03392"></a><span class="lineno"> 3392</span>            zeroBuffer1D( scatter_buff_top_RTbuffer, Nbands*Nprimitives );</div>
+<div class="line"><a id="l03393" name="l03393"></a><span class="lineno"> 3393</span>            zeroBuffer1D( scatter_buff_bottom_RTbuffer, Nbands*Nprimitives );</div>
+<div class="line"><a id="l03394" name="l03394"></a><span class="lineno"> 3394</span>        }</div>
+<div class="line"><a id="l03395" name="l03395"></a><span class="lineno"> 3395</span> </div>
+<div class="line"><a id="l03396" name="l03396"></a><span class="lineno"> 3396</span>        <span class="comment">//add any emitted energy to the outgoing energy buffer</span></div>
+<div class="line"><a id="l03397" name="l03397"></a><span class="lineno"> 3397</span>        <span class="keywordflow">if</span>( emissionenabled ) {</div>
+<div class="line"><a id="l03398" name="l03398"></a><span class="lineno"> 3398</span>            <span class="comment">// Update primitive outgoing emission</span></div>
+<div class="line"><a id="l03399" name="l03399"></a><span class="lineno"> 3399</span>            <span class="keywordtype">float</span> eps, temperature;</div>
+<div class="line"><a id="l03400" name="l03400"></a><span class="lineno"> 3400</span> </div>
+<div class="line"><a id="l03401" name="l03401"></a><span class="lineno"> 3401</span>            <span class="keywordtype">void</span> *ptr;</div>
+<div class="line"><a id="l03402" name="l03402"></a><span class="lineno"> 3402</span>            <span class="keywordtype">float</span> *scatter_buff_top_cam_data, *scatter_buff_bottom_cam_data;</div>
+<div class="line"><a id="l03403" name="l03403"></a><span class="lineno"> 3403</span>            <span class="keywordflow">if</span>( Ncameras&gt;0 ){</div>
+<div class="line"><a id="l03404" name="l03404"></a><span class="lineno"> 3404</span>                <span class="comment">//add emitted flux to camera scattered energy buffer</span></div>
+<div class="line"><a id="l03405" name="l03405"></a><span class="lineno"> 3405</span>                RT_CHECK_ERROR( rtBufferMap( scatter_buff_top_cam_RTbuffer, &amp;ptr ) );</div>
+<div class="line"><a id="l03406" name="l03406"></a><span class="lineno"> 3406</span>                scatter_buff_top_cam_data = (<span class="keywordtype">float</span>*)ptr;</div>
+<div class="line"><a id="l03407" name="l03407"></a><span class="lineno"> 3407</span>                RT_CHECK_ERROR( rtBufferMap( scatter_buff_bottom_cam_RTbuffer, &amp;ptr ) );</div>
+<div class="line"><a id="l03408" name="l03408"></a><span class="lineno"> 3408</span>                scatter_buff_bottom_cam_data = (<span class="keywordtype">float</span>*)ptr;</div>
+<div class="line"><a id="l03409" name="l03409"></a><span class="lineno"> 3409</span>            }</div>
+<div class="line"><a id="l03410" name="l03410"></a><span class="lineno"> 3410</span> </div>
+<div class="line"><a id="l03411" name="l03411"></a><span class="lineno"> 3411</span>            <span class="keywordflow">for</span> (<span class="keyword">auto</span> b = 0; b &lt; Nbands; b++) {</div>
+<div class="line"><a id="l03412" name="l03412"></a><span class="lineno"> 3412</span>                <span class="keywordflow">if</span> (radiation_bands.at(label.at(b)).emissionFlag) {</div>
+<div class="line"><a id="l03413" name="l03413"></a><span class="lineno"> 3413</span>                    std::string prop = <span class="stringliteral">&quot;emissivity_&quot;</span> + label.at(b);</div>
+<div class="line"><a id="l03414" name="l03414"></a><span class="lineno"> 3414</span>                    <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> u = 0; u &lt; Nprimitives; u++) {</div>
+<div class="line"><a id="l03415" name="l03415"></a><span class="lineno"> 3415</span>                        <span class="keywordtype">size_t</span> ind = u * Nbands + b;</div>
+<div class="line"><a id="l03416" name="l03416"></a><span class="lineno"> 3416</span>                        uint p = context_UUIDs.at(u);</div>
+<div class="line"><a id="l03417" name="l03417"></a><span class="lineno"> 3417</span>                        <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(p, prop.c_str())) {</div>
+<div class="line"><a id="l03418" name="l03418"></a><span class="lineno"> 3418</span>                            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(p, prop.c_str(), eps);</div>
+<div class="line"><a id="l03419" name="l03419"></a><span class="lineno"> 3419</span>                        } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l03420" name="l03420"></a><span class="lineno"> 3420</span>                            eps = eps_default;</div>
+<div class="line"><a id="l03421" name="l03421"></a><span class="lineno"> 3421</span>                        }</div>
+<div class="line"><a id="l03422" name="l03422"></a><span class="lineno"> 3422</span>                        <span class="keywordflow">if</span> (scattering_depth.at(b) == 0 &amp;&amp; eps != 1.f) {</div>
+<div class="line"><a id="l03423" name="l03423"></a><span class="lineno"> 3423</span>                            eps = 1.f;</div>
 <div class="line"><a id="l03424" name="l03424"></a><span class="lineno"> 3424</span>                        }</div>
-<div class="line"><a id="l03425" name="l03425"></a><span class="lineno"> 3425</span>                        <span class="keywordtype">float</span> out_top = sigma * eps * pow(temperature, 4);</div>
-<div class="line"><a id="l03426" name="l03426"></a><span class="lineno"> 3426</span>                        flux_top.at(ind) += out_top;</div>
-<div class="line"><a id="l03427" name="l03427"></a><span class="lineno"> 3427</span>                        <span class="keywordflow">if</span>( Ncameras&gt;0 ) {</div>
-<div class="line"><a id="l03428" name="l03428"></a><span class="lineno"> 3428</span>                            scatter_buff_top_cam_data[ind] += out_top;</div>
-<div class="line"><a id="l03429" name="l03429"></a><span class="lineno"> 3429</span>                        }</div>
-<div class="line"><a id="l03430" name="l03430"></a><span class="lineno"> 3430</span>                        <span class="keywordflow">if</span> (!context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(p, <span class="stringliteral">&quot;twosided_flag&quot;</span>)) { <span class="comment">//if does not exist, assume two-sided</span></div>
-<div class="line"><a id="l03431" name="l03431"></a><span class="lineno"> 3431</span>                            flux_bottom.at(ind) += flux_top.at(ind);</div>
-<div class="line"><a id="l03432" name="l03432"></a><span class="lineno"> 3432</span>                            <span class="keywordflow">if</span>( Ncameras&gt;0 ) {</div>
-<div class="line"><a id="l03433" name="l03433"></a><span class="lineno"> 3433</span>                                scatter_buff_bottom_cam_data[ind] += out_top;</div>
-<div class="line"><a id="l03434" name="l03434"></a><span class="lineno"> 3434</span>                            }</div>
-<div class="line"><a id="l03435" name="l03435"></a><span class="lineno"> 3435</span>                        } <span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l03436" name="l03436"></a><span class="lineno"> 3436</span>                            uint flag;</div>
-<div class="line"><a id="l03437" name="l03437"></a><span class="lineno"> 3437</span>                            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(p, <span class="stringliteral">&quot;twosided_flag&quot;</span>, flag);</div>
-<div class="line"><a id="l03438" name="l03438"></a><span class="lineno"> 3438</span>                            <span class="keywordflow">if</span> (flag) {</div>
-<div class="line"><a id="l03439" name="l03439"></a><span class="lineno"> 3439</span>                                flux_bottom.at(ind) += flux_top.at(ind);</div>
-<div class="line"><a id="l03440" name="l03440"></a><span class="lineno"> 3440</span>                                <span class="keywordflow">if</span>( Ncameras&gt;0 ) {</div>
-<div class="line"><a id="l03441" name="l03441"></a><span class="lineno"> 3441</span>                                    scatter_buff_bottom_cam_data[ind] += out_top;</div>
-<div class="line"><a id="l03442" name="l03442"></a><span class="lineno"> 3442</span>                                }</div>
-<div class="line"><a id="l03443" name="l03443"></a><span class="lineno"> 3443</span>                            }</div>
-<div class="line"><a id="l03444" name="l03444"></a><span class="lineno"> 3444</span>                        }</div>
-<div class="line"><a id="l03445" name="l03445"></a><span class="lineno"> 3445</span>                    }</div>
-<div class="line"><a id="l03446" name="l03446"></a><span class="lineno"> 3446</span>                }</div>
-<div class="line"><a id="l03447" name="l03447"></a><span class="lineno"> 3447</span>            }</div>
-<div class="line"><a id="l03448" name="l03448"></a><span class="lineno"> 3448</span>            <span class="keywordflow">if</span>( Ncameras&gt;0 ){</div>
-<div class="line"><a id="l03449" name="l03449"></a><span class="lineno"> 3449</span>                RT_CHECK_ERROR( rtBufferUnmap( scatter_buff_top_cam_RTbuffer ) );</div>
-<div class="line"><a id="l03450" name="l03450"></a><span class="lineno"> 3450</span>                RT_CHECK_ERROR( rtBufferUnmap( scatter_buff_bottom_cam_RTbuffer ) );</div>
-<div class="line"><a id="l03451" name="l03451"></a><span class="lineno"> 3451</span>            }</div>
-<div class="line"><a id="l03452" name="l03452"></a><span class="lineno"> 3452</span>        }</div>
-<div class="line"><a id="l03453" name="l03453"></a><span class="lineno"> 3453</span> </div>
-<div class="line"><a id="l03454" name="l03454"></a><span class="lineno"> 3454</span>        initializeBuffer1Df( radiation_out_top_RTbuffer, flux_top );</div>
-<div class="line"><a id="l03455" name="l03455"></a><span class="lineno"> 3455</span>        initializeBuffer1Df( radiation_out_bottom_RTbuffer, flux_bottom );</div>
-<div class="line"><a id="l03456" name="l03456"></a><span class="lineno"> 3456</span> </div>
-<div class="line"><a id="l03457" name="l03457"></a><span class="lineno"> 3457</span>        <span class="comment">// Compute diffuse launch dimension</span></div>
-<div class="line"><a id="l03458" name="l03458"></a><span class="lineno"> 3458</span>        <span class="keywordtype">size_t</span> n = ceil(sqrt(<span class="keywordtype">double</span>(diffuseRayCount)));</div>
-<div class="line"><a id="l03459" name="l03459"></a><span class="lineno"> 3459</span> </div>
-<div class="line"><a id="l03460" name="l03460"></a><span class="lineno"> 3460</span>        <span class="keywordtype">size_t</span> maxPrims = floor( <span class="keywordtype">float</span>(maxRays)/<span class="keywordtype">float</span>(n*n) );</div>
+<div class="line"><a id="l03425" name="l03425"></a><span class="lineno"> 3425</span>                        <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(p, <span class="stringliteral">&quot;temperature&quot;</span>)) {</div>
+<div class="line"><a id="l03426" name="l03426"></a><span class="lineno"> 3426</span>                            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(p, <span class="stringliteral">&quot;temperature&quot;</span>, temperature);</div>
+<div class="line"><a id="l03427" name="l03427"></a><span class="lineno"> 3427</span>                            <span class="keywordflow">if</span> (temperature &lt; 0) {</div>
+<div class="line"><a id="l03428" name="l03428"></a><span class="lineno"> 3428</span>                                temperature = temperature_default;</div>
+<div class="line"><a id="l03429" name="l03429"></a><span class="lineno"> 3429</span>                            }</div>
+<div class="line"><a id="l03430" name="l03430"></a><span class="lineno"> 3430</span>                        } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l03431" name="l03431"></a><span class="lineno"> 3431</span>                            temperature = temperature_default;</div>
+<div class="line"><a id="l03432" name="l03432"></a><span class="lineno"> 3432</span>                        }</div>
+<div class="line"><a id="l03433" name="l03433"></a><span class="lineno"> 3433</span>                        <span class="keywordtype">float</span> out_top = sigma * eps * pow(temperature, 4);</div>
+<div class="line"><a id="l03434" name="l03434"></a><span class="lineno"> 3434</span>                        flux_top.at(ind) += out_top;</div>
+<div class="line"><a id="l03435" name="l03435"></a><span class="lineno"> 3435</span>                        <span class="keywordflow">if</span>( Ncameras&gt;0 ) {</div>
+<div class="line"><a id="l03436" name="l03436"></a><span class="lineno"> 3436</span>                            scatter_buff_top_cam_data[ind] += out_top;</div>
+<div class="line"><a id="l03437" name="l03437"></a><span class="lineno"> 3437</span>                        }</div>
+<div class="line"><a id="l03438" name="l03438"></a><span class="lineno"> 3438</span>                        <span class="keywordflow">if</span> (!context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(p, <span class="stringliteral">&quot;twosided_flag&quot;</span>)) { <span class="comment">//if does not exist, assume two-sided</span></div>
+<div class="line"><a id="l03439" name="l03439"></a><span class="lineno"> 3439</span>                            flux_bottom.at(ind) += flux_top.at(ind);</div>
+<div class="line"><a id="l03440" name="l03440"></a><span class="lineno"> 3440</span>                            <span class="keywordflow">if</span>( Ncameras&gt;0 ) {</div>
+<div class="line"><a id="l03441" name="l03441"></a><span class="lineno"> 3441</span>                                scatter_buff_bottom_cam_data[ind] += out_top;</div>
+<div class="line"><a id="l03442" name="l03442"></a><span class="lineno"> 3442</span>                            }</div>
+<div class="line"><a id="l03443" name="l03443"></a><span class="lineno"> 3443</span>                        } <span class="keywordflow">else</span> {</div>
+<div class="line"><a id="l03444" name="l03444"></a><span class="lineno"> 3444</span>                            uint flag;</div>
+<div class="line"><a id="l03445" name="l03445"></a><span class="lineno"> 3445</span>                            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(p, <span class="stringliteral">&quot;twosided_flag&quot;</span>, flag);</div>
+<div class="line"><a id="l03446" name="l03446"></a><span class="lineno"> 3446</span>                            <span class="keywordflow">if</span> (flag) {</div>
+<div class="line"><a id="l03447" name="l03447"></a><span class="lineno"> 3447</span>                                flux_bottom.at(ind) += flux_top.at(ind);</div>
+<div class="line"><a id="l03448" name="l03448"></a><span class="lineno"> 3448</span>                                <span class="keywordflow">if</span>( Ncameras&gt;0 ) {</div>
+<div class="line"><a id="l03449" name="l03449"></a><span class="lineno"> 3449</span>                                    scatter_buff_bottom_cam_data[ind] += out_top;</div>
+<div class="line"><a id="l03450" name="l03450"></a><span class="lineno"> 3450</span>                                }</div>
+<div class="line"><a id="l03451" name="l03451"></a><span class="lineno"> 3451</span>                            }</div>
+<div class="line"><a id="l03452" name="l03452"></a><span class="lineno"> 3452</span>                        }</div>
+<div class="line"><a id="l03453" name="l03453"></a><span class="lineno"> 3453</span>                    }</div>
+<div class="line"><a id="l03454" name="l03454"></a><span class="lineno"> 3454</span>                }</div>
+<div class="line"><a id="l03455" name="l03455"></a><span class="lineno"> 3455</span>            }</div>
+<div class="line"><a id="l03456" name="l03456"></a><span class="lineno"> 3456</span>            <span class="keywordflow">if</span>( Ncameras&gt;0 ){</div>
+<div class="line"><a id="l03457" name="l03457"></a><span class="lineno"> 3457</span>                RT_CHECK_ERROR( rtBufferUnmap( scatter_buff_top_cam_RTbuffer ) );</div>
+<div class="line"><a id="l03458" name="l03458"></a><span class="lineno"> 3458</span>                RT_CHECK_ERROR( rtBufferUnmap( scatter_buff_bottom_cam_RTbuffer ) );</div>
+<div class="line"><a id="l03459" name="l03459"></a><span class="lineno"> 3459</span>            }</div>
+<div class="line"><a id="l03460" name="l03460"></a><span class="lineno"> 3460</span>        }</div>
 <div class="line"><a id="l03461" name="l03461"></a><span class="lineno"> 3461</span> </div>
-<div class="line"><a id="l03462" name="l03462"></a><span class="lineno"> 3462</span>        <span class="keywordtype">int</span> Nlaunches = ceil( n*n*Nobjects/<span class="keywordtype">float</span>(maxRays) );</div>
-<div class="line"><a id="l03463" name="l03463"></a><span class="lineno"> 3463</span> </div>
-<div class="line"><a id="l03464" name="l03464"></a><span class="lineno"> 3464</span>        <span class="keywordtype">size_t</span> prims_per_launch = fmin( Nobjects, maxPrims );</div>
-<div class="line"><a id="l03465" name="l03465"></a><span class="lineno"> 3465</span> </div>
-<div class="line"><a id="l03466" name="l03466"></a><span class="lineno"> 3466</span>        <span class="keywordflow">for</span>( uint launch=0; launch&lt;Nlaunches; launch++ ){</div>
+<div class="line"><a id="l03462" name="l03462"></a><span class="lineno"> 3462</span>        initializeBuffer1Df( radiation_out_top_RTbuffer, flux_top );</div>
+<div class="line"><a id="l03463" name="l03463"></a><span class="lineno"> 3463</span>        initializeBuffer1Df( radiation_out_bottom_RTbuffer, flux_bottom );</div>
+<div class="line"><a id="l03464" name="l03464"></a><span class="lineno"> 3464</span> </div>
+<div class="line"><a id="l03465" name="l03465"></a><span class="lineno"> 3465</span>        <span class="comment">// Compute diffuse launch dimension</span></div>
+<div class="line"><a id="l03466" name="l03466"></a><span class="lineno"> 3466</span>        <span class="keywordtype">size_t</span> n = ceil(sqrt(<span class="keywordtype">double</span>(diffuseRayCount)));</div>
 <div class="line"><a id="l03467" name="l03467"></a><span class="lineno"> 3467</span> </div>
-<div class="line"><a id="l03468" name="l03468"></a><span class="lineno"> 3468</span>            <span class="keywordtype">size_t</span> prims_this_launch;</div>
-<div class="line"><a id="l03469" name="l03469"></a><span class="lineno"> 3469</span>            <span class="keywordflow">if</span>( (launch+1)*prims_per_launch &gt; Nobjects ){</div>
-<div class="line"><a id="l03470" name="l03470"></a><span class="lineno"> 3470</span>                prims_this_launch = Nobjects-launch*prims_per_launch;</div>
-<div class="line"><a id="l03471" name="l03471"></a><span class="lineno"> 3471</span>            }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03472" name="l03472"></a><span class="lineno"> 3472</span>                prims_this_launch = prims_per_launch;</div>
-<div class="line"><a id="l03473" name="l03473"></a><span class="lineno"> 3473</span>            }</div>
-<div class="line"><a id="l03474" name="l03474"></a><span class="lineno"> 3474</span> </div>
-<div class="line"><a id="l03475" name="l03475"></a><span class="lineno"> 3475</span>            RT_CHECK_ERROR( rtVariableSet1ui( launch_offset_RTvariable, launch*prims_per_launch ) );</div>
-<div class="line"><a id="l03476" name="l03476"></a><span class="lineno"> 3476</span> </div>
-<div class="line"><a id="l03477" name="l03477"></a><span class="lineno"> 3477</span>            optix::int3 launch_dim_diff = optix::make_int3( round(n), round(n), prims_this_launch );</div>
-<div class="line"><a id="l03478" name="l03478"></a><span class="lineno"> 3478</span>            assert( launch_dim_diff.x&gt;0 &amp;&amp; launch_dim_diff.y&gt;0 );</div>
-<div class="line"><a id="l03479" name="l03479"></a><span class="lineno"> 3479</span> </div>
-<div class="line"><a id="l03480" name="l03480"></a><span class="lineno"> 3480</span>            <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l03481" name="l03481"></a><span class="lineno"> 3481</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;Performing primary diffuse radiation ray trace for bands &quot;</span>;</div>
-<div class="line"><a id="l03482" name="l03482"></a><span class="lineno"> 3482</span>                <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : label ) {</div>
-<div class="line"><a id="l03483" name="l03483"></a><span class="lineno"> 3483</span>                    std::cout &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l03484" name="l03484"></a><span class="lineno"> 3484</span>                }</div>
-<div class="line"><a id="l03485" name="l03485"></a><span class="lineno"> 3485</span>                std::cout &lt;&lt; <span class="stringliteral">&quot; (batch &quot;</span> &lt;&lt; launch+1 &lt;&lt; <span class="stringliteral">&quot; of &quot;</span> &lt;&lt; Nlaunches &lt;&lt; <span class="stringliteral">&quot;)...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03486" name="l03486"></a><span class="lineno"> 3486</span>            }</div>
-<div class="line"><a id="l03487" name="l03487"></a><span class="lineno"> 3487</span>            RT_CHECK_ERROR( rtContextLaunch3D( OptiX_Context, RAYTYPE_DIFFUSE , launch_dim_diff.x, launch_dim_diff.y, launch_dim_diff.z ) );</div>
+<div class="line"><a id="l03468" name="l03468"></a><span class="lineno"> 3468</span>        <span class="keywordtype">size_t</span> maxPrims = floor( <span class="keywordtype">float</span>(maxRays)/<span class="keywordtype">float</span>(n*n) );</div>
+<div class="line"><a id="l03469" name="l03469"></a><span class="lineno"> 3469</span> </div>
+<div class="line"><a id="l03470" name="l03470"></a><span class="lineno"> 3470</span>        <span class="keywordtype">int</span> Nlaunches = ceil( n*n*Nobjects/<span class="keywordtype">float</span>(maxRays) );</div>
+<div class="line"><a id="l03471" name="l03471"></a><span class="lineno"> 3471</span> </div>
+<div class="line"><a id="l03472" name="l03472"></a><span class="lineno"> 3472</span>        <span class="keywordtype">size_t</span> prims_per_launch = fmin( Nobjects, maxPrims );</div>
+<div class="line"><a id="l03473" name="l03473"></a><span class="lineno"> 3473</span> </div>
+<div class="line"><a id="l03474" name="l03474"></a><span class="lineno"> 3474</span>        <span class="keywordflow">for</span>( uint launch=0; launch&lt;Nlaunches; launch++ ){</div>
+<div class="line"><a id="l03475" name="l03475"></a><span class="lineno"> 3475</span> </div>
+<div class="line"><a id="l03476" name="l03476"></a><span class="lineno"> 3476</span>            <span class="keywordtype">size_t</span> prims_this_launch;</div>
+<div class="line"><a id="l03477" name="l03477"></a><span class="lineno"> 3477</span>            <span class="keywordflow">if</span>( (launch+1)*prims_per_launch &gt; Nobjects ){</div>
+<div class="line"><a id="l03478" name="l03478"></a><span class="lineno"> 3478</span>                prims_this_launch = Nobjects-launch*prims_per_launch;</div>
+<div class="line"><a id="l03479" name="l03479"></a><span class="lineno"> 3479</span>            }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l03480" name="l03480"></a><span class="lineno"> 3480</span>                prims_this_launch = prims_per_launch;</div>
+<div class="line"><a id="l03481" name="l03481"></a><span class="lineno"> 3481</span>            }</div>
+<div class="line"><a id="l03482" name="l03482"></a><span class="lineno"> 3482</span> </div>
+<div class="line"><a id="l03483" name="l03483"></a><span class="lineno"> 3483</span>            RT_CHECK_ERROR( rtVariableSet1ui( launch_offset_RTvariable, launch*prims_per_launch ) );</div>
+<div class="line"><a id="l03484" name="l03484"></a><span class="lineno"> 3484</span> </div>
+<div class="line"><a id="l03485" name="l03485"></a><span class="lineno"> 3485</span>            optix::int3 launch_dim_diff = optix::make_int3( round(n), round(n), prims_this_launch );</div>
+<div class="line"><a id="l03486" name="l03486"></a><span class="lineno"> 3486</span>            assert( launch_dim_diff.x&gt;0 &amp;&amp; launch_dim_diff.y&gt;0 );</div>
+<div class="line"><a id="l03487" name="l03487"></a><span class="lineno"> 3487</span> </div>
 <div class="line"><a id="l03488" name="l03488"></a><span class="lineno"> 3488</span>            <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l03489" name="l03489"></a><span class="lineno"> 3489</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;\r                                                                                                                               \r&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03490" name="l03490"></a><span class="lineno"> 3490</span>            }</div>
-<div class="line"><a id="l03491" name="l03491"></a><span class="lineno"> 3491</span>        }</div>
-<div class="line"><a id="l03492" name="l03492"></a><span class="lineno"> 3492</span> </div>
-<div class="line"><a id="l03493" name="l03493"></a><span class="lineno"> 3493</span>        <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l03494" name="l03494"></a><span class="lineno"> 3494</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;Performing primary diffuse radiation ray trace for bands &quot;</span>;</div>
-<div class="line"><a id="l03495" name="l03495"></a><span class="lineno"> 3495</span>            <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : label ) {</div>
-<div class="line"><a id="l03496" name="l03496"></a><span class="lineno"> 3496</span>                std::cout &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;, &quot;</span>;</div>
-<div class="line"><a id="l03497" name="l03497"></a><span class="lineno"> 3497</span>            }</div>
-<div class="line"><a id="l03498" name="l03498"></a><span class="lineno"> 3498</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;...done.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03489" name="l03489"></a><span class="lineno"> 3489</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;Performing primary diffuse radiation ray trace for bands &quot;</span>;</div>
+<div class="line"><a id="l03490" name="l03490"></a><span class="lineno"> 3490</span>                <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : label ) {</div>
+<div class="line"><a id="l03491" name="l03491"></a><span class="lineno"> 3491</span>                    std::cout &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l03492" name="l03492"></a><span class="lineno"> 3492</span>                }</div>
+<div class="line"><a id="l03493" name="l03493"></a><span class="lineno"> 3493</span>                std::cout &lt;&lt; <span class="stringliteral">&quot; (batch &quot;</span> &lt;&lt; launch+1 &lt;&lt; <span class="stringliteral">&quot; of &quot;</span> &lt;&lt; Nlaunches &lt;&lt; <span class="stringliteral">&quot;)...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03494" name="l03494"></a><span class="lineno"> 3494</span>            }</div>
+<div class="line"><a id="l03495" name="l03495"></a><span class="lineno"> 3495</span>            RT_CHECK_ERROR( rtContextLaunch3D( OptiX_Context, RAYTYPE_DIFFUSE , launch_dim_diff.x, launch_dim_diff.y, launch_dim_diff.z ) );</div>
+<div class="line"><a id="l03496" name="l03496"></a><span class="lineno"> 3496</span>            <span class="keywordflow">if</span>( message_flag ){</div>
+<div class="line"><a id="l03497" name="l03497"></a><span class="lineno"> 3497</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;\r                                                                                                                               \r&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03498" name="l03498"></a><span class="lineno"> 3498</span>            }</div>
 <div class="line"><a id="l03499" name="l03499"></a><span class="lineno"> 3499</span>        }</div>
 <div class="line"><a id="l03500" name="l03500"></a><span class="lineno"> 3500</span> </div>
-<div class="line"><a id="l03501" name="l03501"></a><span class="lineno"> 3501</span>    }</div>
-<div class="line"><a id="l03502" name="l03502"></a><span class="lineno"> 3502</span> </div>
-<div class="line"><a id="l03503" name="l03503"></a><span class="lineno"> 3503</span>    <span class="keywordflow">if</span>( scatteringenabled ){</div>
-<div class="line"><a id="l03504" name="l03504"></a><span class="lineno"> 3504</span> </div>
-<div class="line"><a id="l03505" name="l03505"></a><span class="lineno"> 3505</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;Nbands; b++ ) {</div>
-<div class="line"><a id="l03506" name="l03506"></a><span class="lineno"> 3506</span>            diffuse_flux.at(b) = 0.f;</div>
+<div class="line"><a id="l03501" name="l03501"></a><span class="lineno"> 3501</span>        <span class="keywordflow">if</span>( message_flag ){</div>
+<div class="line"><a id="l03502" name="l03502"></a><span class="lineno"> 3502</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;Performing primary diffuse radiation ray trace for bands &quot;</span>;</div>
+<div class="line"><a id="l03503" name="l03503"></a><span class="lineno"> 3503</span>            <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : label ) {</div>
+<div class="line"><a id="l03504" name="l03504"></a><span class="lineno"> 3504</span>                std::cout &lt;&lt; band &lt;&lt; <span class="stringliteral">&quot;, &quot;</span>;</div>
+<div class="line"><a id="l03505" name="l03505"></a><span class="lineno"> 3505</span>            }</div>
+<div class="line"><a id="l03506" name="l03506"></a><span class="lineno"> 3506</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;...done.&quot;</span> &lt;&lt; std::endl;</div>
 <div class="line"><a id="l03507" name="l03507"></a><span class="lineno"> 3507</span>        }</div>
-<div class="line"><a id="l03508" name="l03508"></a><span class="lineno"> 3508</span>        initializeBuffer1Df( diffuse_flux_RTbuffer, diffuse_flux );</div>
-<div class="line"><a id="l03509" name="l03509"></a><span class="lineno"> 3509</span> </div>
-<div class="line"><a id="l03510" name="l03510"></a><span class="lineno"> 3510</span>        <span class="keywordtype">size_t</span> n = ceil(sqrt(<span class="keywordtype">double</span>(diffuseRayCount)));</div>
-<div class="line"><a id="l03511" name="l03511"></a><span class="lineno"> 3511</span> </div>
-<div class="line"><a id="l03512" name="l03512"></a><span class="lineno"> 3512</span>        <span class="keywordtype">size_t</span> maxPrims = floor( <span class="keywordtype">float</span>(maxRays)/<span class="keywordtype">float</span>(n*n) );</div>
-<div class="line"><a id="l03513" name="l03513"></a><span class="lineno"> 3513</span> </div>
-<div class="line"><a id="l03514" name="l03514"></a><span class="lineno"> 3514</span>        <span class="keywordtype">int</span> Nlaunches = ceil( n*n*Nobjects/<span class="keywordtype">float</span>(maxRays) );</div>
-<div class="line"><a id="l03515" name="l03515"></a><span class="lineno"> 3515</span> </div>
-<div class="line"><a id="l03516" name="l03516"></a><span class="lineno"> 3516</span>        <span class="keywordtype">size_t</span> prims_per_launch = fmin( Nobjects, maxPrims );</div>
+<div class="line"><a id="l03508" name="l03508"></a><span class="lineno"> 3508</span> </div>
+<div class="line"><a id="l03509" name="l03509"></a><span class="lineno"> 3509</span>    }</div>
+<div class="line"><a id="l03510" name="l03510"></a><span class="lineno"> 3510</span> </div>
+<div class="line"><a id="l03511" name="l03511"></a><span class="lineno"> 3511</span>    <span class="keywordflow">if</span>( scatteringenabled ){</div>
+<div class="line"><a id="l03512" name="l03512"></a><span class="lineno"> 3512</span> </div>
+<div class="line"><a id="l03513" name="l03513"></a><span class="lineno"> 3513</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;Nbands; b++ ) {</div>
+<div class="line"><a id="l03514" name="l03514"></a><span class="lineno"> 3514</span>            diffuse_flux.at(b) = 0.f;</div>
+<div class="line"><a id="l03515" name="l03515"></a><span class="lineno"> 3515</span>        }</div>
+<div class="line"><a id="l03516" name="l03516"></a><span class="lineno"> 3516</span>        initializeBuffer1Df( diffuse_flux_RTbuffer, diffuse_flux );</div>
 <div class="line"><a id="l03517" name="l03517"></a><span class="lineno"> 3517</span> </div>
-<div class="line"><a id="l03518" name="l03518"></a><span class="lineno"> 3518</span>        uint s;</div>
-<div class="line"><a id="l03519" name="l03519"></a><span class="lineno"> 3519</span>        <span class="keywordflow">for</span>( s=0; s&lt;scatteringDepth; s++ ){</div>
-<div class="line"><a id="l03520" name="l03520"></a><span class="lineno"> 3520</span>            <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l03521" name="l03521"></a><span class="lineno"> 3521</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;Performing scattering ray trace (iteration &quot;</span> &lt;&lt; s+1 &lt;&lt; <span class="stringliteral">&quot; of &quot;</span> &lt;&lt; scatteringDepth &lt;&lt; <span class="stringliteral">&quot;)...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03522" name="l03522"></a><span class="lineno"> 3522</span>            }</div>
+<div class="line"><a id="l03518" name="l03518"></a><span class="lineno"> 3518</span>        <span class="keywordtype">size_t</span> n = ceil(sqrt(<span class="keywordtype">double</span>(diffuseRayCount)));</div>
+<div class="line"><a id="l03519" name="l03519"></a><span class="lineno"> 3519</span> </div>
+<div class="line"><a id="l03520" name="l03520"></a><span class="lineno"> 3520</span>        <span class="keywordtype">size_t</span> maxPrims = floor( <span class="keywordtype">float</span>(maxRays)/<span class="keywordtype">float</span>(n*n) );</div>
+<div class="line"><a id="l03521" name="l03521"></a><span class="lineno"> 3521</span> </div>
+<div class="line"><a id="l03522" name="l03522"></a><span class="lineno"> 3522</span>        <span class="keywordtype">int</span> Nlaunches = ceil( n*n*Nobjects/<span class="keywordtype">float</span>(maxRays) );</div>
 <div class="line"><a id="l03523" name="l03523"></a><span class="lineno"> 3523</span> </div>
-<div class="line"><a id="l03524" name="l03524"></a><span class="lineno"> 3524</span>            <span class="keywordflow">for</span>( uint b=0; b&lt;Nbands; b++ ){</div>
-<div class="line"><a id="l03525" name="l03525"></a><span class="lineno"> 3525</span>                uint depth = radiation_bands.at(label.at(b)).scatteringDepth;</div>
-<div class="line"><a id="l03526" name="l03526"></a><span class="lineno"> 3526</span>                <span class="keywordflow">if</span>( s+1&gt;depth ) {</div>
-<div class="line"><a id="l03527" name="l03527"></a><span class="lineno"> 3527</span>                    <span class="keywordflow">if</span>( message_flag ) {</div>
-<div class="line"><a id="l03528" name="l03528"></a><span class="lineno"> 3528</span>                        std::cout &lt;&lt; <span class="stringliteral">&quot;Skipping band &quot;</span> &lt;&lt; label.at(b) &lt;&lt; <span class="stringliteral">&quot; for scattering launch &quot;</span> &lt;&lt; s + 1 &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03529" name="l03529"></a><span class="lineno"> 3529</span>                    }</div>
-<div class="line"><a id="l03530" name="l03530"></a><span class="lineno"> 3530</span>                    band_launch_flag.at(b) = 0;</div>
-<div class="line"><a id="l03531" name="l03531"></a><span class="lineno"> 3531</span>                }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03532" name="l03532"></a><span class="lineno"> 3532</span>                    band_launch_flag.at(b) = 1;</div>
-<div class="line"><a id="l03533" name="l03533"></a><span class="lineno"> 3533</span>                }</div>
-<div class="line"><a id="l03534" name="l03534"></a><span class="lineno"> 3534</span>            }</div>
-<div class="line"><a id="l03535" name="l03535"></a><span class="lineno"> 3535</span>            initializeBuffer1Dchar( band_launch_flag_RTbuffer, band_launch_flag );</div>
-<div class="line"><a id="l03536" name="l03536"></a><span class="lineno"> 3536</span> </div>
-<div class="line"><a id="l03537" name="l03537"></a><span class="lineno"> 3537</span><span class="comment">//            TBS_top=getOptiXbufferData( scatter_buff_top_RTbuffer );</span></div>
-<div class="line"><a id="l03538" name="l03538"></a><span class="lineno"> 3538</span><span class="comment">//            TBS_bottom=getOptiXbufferData( scatter_buff_bottom_RTbuffer );</span></div>
-<div class="line"><a id="l03539" name="l03539"></a><span class="lineno"> 3539</span><span class="comment">//            float TBS_max = 0;</span></div>
-<div class="line"><a id="l03540" name="l03540"></a><span class="lineno"> 3540</span><span class="comment">//            for( size_t u=0; u&lt;Nprimitives*Nbands; u++ ){</span></div>
-<div class="line"><a id="l03541" name="l03541"></a><span class="lineno"> 3541</span><span class="comment">//                if( TBS_top.at(u)+TBS_bottom.at(u)&gt;TBS_max ){</span></div>
-<div class="line"><a id="l03542" name="l03542"></a><span class="lineno"> 3542</span><span class="comment">//                    TBS_max = TBS_top.at(u)+TBS_bottom.at(u);</span></div>
-<div class="line"><a id="l03543" name="l03543"></a><span class="lineno"> 3543</span><span class="comment">//                }</span></div>
-<div class="line"><a id="l03544" name="l03544"></a><span class="lineno"> 3544</span><span class="comment">//            }</span></div>
-<div class="line"><a id="l03545" name="l03545"></a><span class="lineno"> 3545</span> </div>
-<div class="line"><a id="l03546" name="l03546"></a><span class="lineno"> 3546</span>            copyBuffer1D( scatter_buff_top_RTbuffer, radiation_out_top_RTbuffer );</div>
-<div class="line"><a id="l03547" name="l03547"></a><span class="lineno"> 3547</span>            zeroBuffer1D( scatter_buff_top_RTbuffer, Nbands*Nprimitives );</div>
-<div class="line"><a id="l03548" name="l03548"></a><span class="lineno"> 3548</span>            copyBuffer1D( scatter_buff_bottom_RTbuffer, radiation_out_bottom_RTbuffer );</div>
-<div class="line"><a id="l03549" name="l03549"></a><span class="lineno"> 3549</span>            zeroBuffer1D( scatter_buff_bottom_RTbuffer, Nbands*Nprimitives );</div>
-<div class="line"><a id="l03550" name="l03550"></a><span class="lineno"> 3550</span> </div>
-<div class="line"><a id="l03551" name="l03551"></a><span class="lineno"> 3551</span>            <span class="keywordflow">for</span>( uint launch=0; launch&lt;Nlaunches; launch++ ){</div>
-<div class="line"><a id="l03552" name="l03552"></a><span class="lineno"> 3552</span> </div>
-<div class="line"><a id="l03553" name="l03553"></a><span class="lineno"> 3553</span>                <span class="keywordtype">size_t</span> prims_this_launch;</div>
-<div class="line"><a id="l03554" name="l03554"></a><span class="lineno"> 3554</span>                <span class="keywordflow">if</span>( (launch+1)*prims_per_launch &gt; Nobjects ){</div>
-<div class="line"><a id="l03555" name="l03555"></a><span class="lineno"> 3555</span>                    prims_this_launch = Nobjects-launch*prims_per_launch;</div>
-<div class="line"><a id="l03556" name="l03556"></a><span class="lineno"> 3556</span>                }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03557" name="l03557"></a><span class="lineno"> 3557</span>                    prims_this_launch = prims_per_launch;</div>
-<div class="line"><a id="l03558" name="l03558"></a><span class="lineno"> 3558</span>                }</div>
-<div class="line"><a id="l03559" name="l03559"></a><span class="lineno"> 3559</span>                optix::int3 launch_dim_diff = optix::make_int3( round(n), round(n), prims_this_launch );</div>
+<div class="line"><a id="l03524" name="l03524"></a><span class="lineno"> 3524</span>        <span class="keywordtype">size_t</span> prims_per_launch = fmin( Nobjects, maxPrims );</div>
+<div class="line"><a id="l03525" name="l03525"></a><span class="lineno"> 3525</span> </div>
+<div class="line"><a id="l03526" name="l03526"></a><span class="lineno"> 3526</span>        uint s;</div>
+<div class="line"><a id="l03527" name="l03527"></a><span class="lineno"> 3527</span>        <span class="keywordflow">for</span>( s=0; s&lt;scatteringDepth; s++ ){</div>
+<div class="line"><a id="l03528" name="l03528"></a><span class="lineno"> 3528</span>            <span class="keywordflow">if</span>( message_flag ){</div>
+<div class="line"><a id="l03529" name="l03529"></a><span class="lineno"> 3529</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;Performing scattering ray trace (iteration &quot;</span> &lt;&lt; s+1 &lt;&lt; <span class="stringliteral">&quot; of &quot;</span> &lt;&lt; scatteringDepth &lt;&lt; <span class="stringliteral">&quot;)...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03530" name="l03530"></a><span class="lineno"> 3530</span>            }</div>
+<div class="line"><a id="l03531" name="l03531"></a><span class="lineno"> 3531</span> </div>
+<div class="line"><a id="l03532" name="l03532"></a><span class="lineno"> 3532</span>            <span class="keywordflow">for</span>( uint b=0; b&lt;Nbands; b++ ){</div>
+<div class="line"><a id="l03533" name="l03533"></a><span class="lineno"> 3533</span>                uint depth = radiation_bands.at(label.at(b)).scatteringDepth;</div>
+<div class="line"><a id="l03534" name="l03534"></a><span class="lineno"> 3534</span>                <span class="keywordflow">if</span>( s+1&gt;depth ) {</div>
+<div class="line"><a id="l03535" name="l03535"></a><span class="lineno"> 3535</span>                    <span class="keywordflow">if</span>( message_flag ) {</div>
+<div class="line"><a id="l03536" name="l03536"></a><span class="lineno"> 3536</span>                        std::cout &lt;&lt; <span class="stringliteral">&quot;Skipping band &quot;</span> &lt;&lt; label.at(b) &lt;&lt; <span class="stringliteral">&quot; for scattering launch &quot;</span> &lt;&lt; s + 1 &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03537" name="l03537"></a><span class="lineno"> 3537</span>                    }</div>
+<div class="line"><a id="l03538" name="l03538"></a><span class="lineno"> 3538</span>                    band_launch_flag.at(b) = 0;</div>
+<div class="line"><a id="l03539" name="l03539"></a><span class="lineno"> 3539</span>                }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l03540" name="l03540"></a><span class="lineno"> 3540</span>                    band_launch_flag.at(b) = 1;</div>
+<div class="line"><a id="l03541" name="l03541"></a><span class="lineno"> 3541</span>                }</div>
+<div class="line"><a id="l03542" name="l03542"></a><span class="lineno"> 3542</span>            }</div>
+<div class="line"><a id="l03543" name="l03543"></a><span class="lineno"> 3543</span>            initializeBuffer1Dchar( band_launch_flag_RTbuffer, band_launch_flag );</div>
+<div class="line"><a id="l03544" name="l03544"></a><span class="lineno"> 3544</span> </div>
+<div class="line"><a id="l03545" name="l03545"></a><span class="lineno"> 3545</span><span class="comment">//            TBS_top=getOptiXbufferData( scatter_buff_top_RTbuffer );</span></div>
+<div class="line"><a id="l03546" name="l03546"></a><span class="lineno"> 3546</span><span class="comment">//            TBS_bottom=getOptiXbufferData( scatter_buff_bottom_RTbuffer );</span></div>
+<div class="line"><a id="l03547" name="l03547"></a><span class="lineno"> 3547</span><span class="comment">//            float TBS_max = 0;</span></div>
+<div class="line"><a id="l03548" name="l03548"></a><span class="lineno"> 3548</span><span class="comment">//            for( size_t u=0; u&lt;Nprimitives*Nbands; u++ ){</span></div>
+<div class="line"><a id="l03549" name="l03549"></a><span class="lineno"> 3549</span><span class="comment">//                if( TBS_top.at(u)+TBS_bottom.at(u)&gt;TBS_max ){</span></div>
+<div class="line"><a id="l03550" name="l03550"></a><span class="lineno"> 3550</span><span class="comment">//                    TBS_max = TBS_top.at(u)+TBS_bottom.at(u);</span></div>
+<div class="line"><a id="l03551" name="l03551"></a><span class="lineno"> 3551</span><span class="comment">//                }</span></div>
+<div class="line"><a id="l03552" name="l03552"></a><span class="lineno"> 3552</span><span class="comment">//            }</span></div>
+<div class="line"><a id="l03553" name="l03553"></a><span class="lineno"> 3553</span> </div>
+<div class="line"><a id="l03554" name="l03554"></a><span class="lineno"> 3554</span>            copyBuffer1D( scatter_buff_top_RTbuffer, radiation_out_top_RTbuffer );</div>
+<div class="line"><a id="l03555" name="l03555"></a><span class="lineno"> 3555</span>            zeroBuffer1D( scatter_buff_top_RTbuffer, Nbands*Nprimitives );</div>
+<div class="line"><a id="l03556" name="l03556"></a><span class="lineno"> 3556</span>            copyBuffer1D( scatter_buff_bottom_RTbuffer, radiation_out_bottom_RTbuffer );</div>
+<div class="line"><a id="l03557" name="l03557"></a><span class="lineno"> 3557</span>            zeroBuffer1D( scatter_buff_bottom_RTbuffer, Nbands*Nprimitives );</div>
+<div class="line"><a id="l03558" name="l03558"></a><span class="lineno"> 3558</span> </div>
+<div class="line"><a id="l03559" name="l03559"></a><span class="lineno"> 3559</span>            <span class="keywordflow">for</span>( uint launch=0; launch&lt;Nlaunches; launch++ ){</div>
 <div class="line"><a id="l03560" name="l03560"></a><span class="lineno"> 3560</span> </div>
-<div class="line"><a id="l03561" name="l03561"></a><span class="lineno"> 3561</span>                RT_CHECK_ERROR( rtVariableSet1ui( launch_offset_RTvariable, launch*prims_per_launch ) );</div>
-<div class="line"><a id="l03562" name="l03562"></a><span class="lineno"> 3562</span> </div>
-<div class="line"><a id="l03563" name="l03563"></a><span class="lineno"> 3563</span>                RT_CHECK_ERROR( rtContextLaunch3D( OptiX_Context, RAYTYPE_DIFFUSE , launch_dim_diff.x, launch_dim_diff.y, launch_dim_diff.z ) );</div>
-<div class="line"><a id="l03564" name="l03564"></a><span class="lineno"> 3564</span> </div>
-<div class="line"><a id="l03565" name="l03565"></a><span class="lineno"> 3565</span>            }</div>
-<div class="line"><a id="l03566" name="l03566"></a><span class="lineno"> 3566</span>            <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l03567" name="l03567"></a><span class="lineno"> 3567</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;\r                                                                                                                           \r&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03568" name="l03568"></a><span class="lineno"> 3568</span>            }</div>
-<div class="line"><a id="l03569" name="l03569"></a><span class="lineno"> 3569</span> </div>
-<div class="line"><a id="l03570" name="l03570"></a><span class="lineno"> 3570</span>        }</div>
-<div class="line"><a id="l03571" name="l03571"></a><span class="lineno"> 3571</span> </div>
-<div class="line"><a id="l03572" name="l03572"></a><span class="lineno"> 3572</span>        <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l03573" name="l03573"></a><span class="lineno"> 3573</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;Performing scattering ray trace...done.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03574" name="l03574"></a><span class="lineno"> 3574</span>        }</div>
-<div class="line"><a id="l03575" name="l03575"></a><span class="lineno"> 3575</span> </div>
-<div class="line"><a id="l03576" name="l03576"></a><span class="lineno"> 3576</span>    }</div>
+<div class="line"><a id="l03561" name="l03561"></a><span class="lineno"> 3561</span>                <span class="keywordtype">size_t</span> prims_this_launch;</div>
+<div class="line"><a id="l03562" name="l03562"></a><span class="lineno"> 3562</span>                <span class="keywordflow">if</span>( (launch+1)*prims_per_launch &gt; Nobjects ){</div>
+<div class="line"><a id="l03563" name="l03563"></a><span class="lineno"> 3563</span>                    prims_this_launch = Nobjects-launch*prims_per_launch;</div>
+<div class="line"><a id="l03564" name="l03564"></a><span class="lineno"> 3564</span>                }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l03565" name="l03565"></a><span class="lineno"> 3565</span>                    prims_this_launch = prims_per_launch;</div>
+<div class="line"><a id="l03566" name="l03566"></a><span class="lineno"> 3566</span>                }</div>
+<div class="line"><a id="l03567" name="l03567"></a><span class="lineno"> 3567</span>                optix::int3 launch_dim_diff = optix::make_int3( round(n), round(n), prims_this_launch );</div>
+<div class="line"><a id="l03568" name="l03568"></a><span class="lineno"> 3568</span> </div>
+<div class="line"><a id="l03569" name="l03569"></a><span class="lineno"> 3569</span>                RT_CHECK_ERROR( rtVariableSet1ui( launch_offset_RTvariable, launch*prims_per_launch ) );</div>
+<div class="line"><a id="l03570" name="l03570"></a><span class="lineno"> 3570</span> </div>
+<div class="line"><a id="l03571" name="l03571"></a><span class="lineno"> 3571</span>                RT_CHECK_ERROR( rtContextLaunch3D( OptiX_Context, RAYTYPE_DIFFUSE , launch_dim_diff.x, launch_dim_diff.y, launch_dim_diff.z ) );</div>
+<div class="line"><a id="l03572" name="l03572"></a><span class="lineno"> 3572</span> </div>
+<div class="line"><a id="l03573" name="l03573"></a><span class="lineno"> 3573</span>            }</div>
+<div class="line"><a id="l03574" name="l03574"></a><span class="lineno"> 3574</span>            <span class="keywordflow">if</span>( message_flag ){</div>
+<div class="line"><a id="l03575" name="l03575"></a><span class="lineno"> 3575</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;\r                                                                                                                           \r&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03576" name="l03576"></a><span class="lineno"> 3576</span>            }</div>
 <div class="line"><a id="l03577" name="l03577"></a><span class="lineno"> 3577</span> </div>
-<div class="line"><a id="l03578" name="l03578"></a><span class="lineno"> 3578</span>    <span class="comment">// **** CAMERA RAY TRACE **** //</span></div>
-<div class="line"><a id="l03579" name="l03579"></a><span class="lineno"> 3579</span>    <span class="keywordflow">if</span>( Ncameras&gt;0 ){</div>
-<div class="line"><a id="l03580" name="l03580"></a><span class="lineno"> 3580</span> </div>
-<div class="line"><a id="l03581" name="l03581"></a><span class="lineno"> 3581</span>        <span class="comment">//re-set outgoing radiation buffers</span></div>
-<div class="line"><a id="l03582" name="l03582"></a><span class="lineno"> 3582</span>        copyBuffer1D( scatter_buff_top_cam_RTbuffer, radiation_out_top_RTbuffer );</div>
-<div class="line"><a id="l03583" name="l03583"></a><span class="lineno"> 3583</span>        copyBuffer1D( scatter_buff_bottom_cam_RTbuffer, radiation_out_bottom_RTbuffer );</div>
-<div class="line"><a id="l03584" name="l03584"></a><span class="lineno"> 3584</span> </div>
-<div class="line"><a id="l03585" name="l03585"></a><span class="lineno"> 3585</span>        <span class="comment">//re-set diffuse radiation fluxes</span></div>
-<div class="line"><a id="l03586" name="l03586"></a><span class="lineno"> 3586</span>        <span class="keywordflow">if</span>( diffuseenabled ){</div>
-<div class="line"><a id="l03587" name="l03587"></a><span class="lineno"> 3587</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;Nbands; b++ ){</div>
-<div class="line"><a id="l03588" name="l03588"></a><span class="lineno"> 3588</span>                diffuse_flux.at(b) = <a class="code hl_function" href="class_radiation_model.html#af8450f2308aee38272b4aef87f0c547b">getDiffuseFlux</a>(label.at(b));</div>
-<div class="line"><a id="l03589" name="l03589"></a><span class="lineno"> 3589</span>            }</div>
-<div class="line"><a id="l03590" name="l03590"></a><span class="lineno"> 3590</span>            initializeBuffer1Df( diffuse_flux_RTbuffer, diffuse_flux );</div>
-<div class="line"><a id="l03591" name="l03591"></a><span class="lineno"> 3591</span>        }</div>
+<div class="line"><a id="l03578" name="l03578"></a><span class="lineno"> 3578</span>        }</div>
+<div class="line"><a id="l03579" name="l03579"></a><span class="lineno"> 3579</span> </div>
+<div class="line"><a id="l03580" name="l03580"></a><span class="lineno"> 3580</span>        <span class="keywordflow">if</span>( message_flag ){</div>
+<div class="line"><a id="l03581" name="l03581"></a><span class="lineno"> 3581</span>            std::cout &lt;&lt; <span class="stringliteral">&quot;Performing scattering ray trace...done.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03582" name="l03582"></a><span class="lineno"> 3582</span>        }</div>
+<div class="line"><a id="l03583" name="l03583"></a><span class="lineno"> 3583</span> </div>
+<div class="line"><a id="l03584" name="l03584"></a><span class="lineno"> 3584</span>    }</div>
+<div class="line"><a id="l03585" name="l03585"></a><span class="lineno"> 3585</span> </div>
+<div class="line"><a id="l03586" name="l03586"></a><span class="lineno"> 3586</span>    <span class="comment">// **** CAMERA RAY TRACE **** //</span></div>
+<div class="line"><a id="l03587" name="l03587"></a><span class="lineno"> 3587</span>    <span class="keywordflow">if</span>( Ncameras&gt;0 ){</div>
+<div class="line"><a id="l03588" name="l03588"></a><span class="lineno"> 3588</span> </div>
+<div class="line"><a id="l03589" name="l03589"></a><span class="lineno"> 3589</span>        <span class="comment">//re-set outgoing radiation buffers</span></div>
+<div class="line"><a id="l03590" name="l03590"></a><span class="lineno"> 3590</span>        copyBuffer1D( scatter_buff_top_cam_RTbuffer, radiation_out_top_RTbuffer );</div>
+<div class="line"><a id="l03591" name="l03591"></a><span class="lineno"> 3591</span>        copyBuffer1D( scatter_buff_bottom_cam_RTbuffer, radiation_out_bottom_RTbuffer );</div>
 <div class="line"><a id="l03592" name="l03592"></a><span class="lineno"> 3592</span> </div>
-<div class="line"><a id="l03593" name="l03593"></a><span class="lineno"> 3593</span> </div>
-<div class="line"><a id="l03594" name="l03594"></a><span class="lineno"> 3594</span>        <span class="keywordtype">size_t</span> n = ceil(sqrt(<span class="keywordtype">double</span>(diffuseRayCount)));</div>
-<div class="line"><a id="l03595" name="l03595"></a><span class="lineno"> 3595</span> </div>
-<div class="line"><a id="l03596" name="l03596"></a><span class="lineno"> 3596</span>        uint cam=0;</div>
-<div class="line"><a id="l03597" name="l03597"></a><span class="lineno"> 3597</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp; camera : cameras ){</div>
-<div class="line"><a id="l03598" name="l03598"></a><span class="lineno"> 3598</span> </div>
-<div class="line"><a id="l03599" name="l03599"></a><span class="lineno"> 3599</span>            <span class="comment">//set variable values</span></div>
-<div class="line"><a id="l03600" name="l03600"></a><span class="lineno"> 3600</span>            RT_CHECK_ERROR( rtVariableSet3f( camera_position_RTvariable, camera.second.position.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, camera.second.position.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, camera.second.position.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> ) );</div>
-<div class="line"><a id="l03601" name="l03601"></a><span class="lineno"> 3601</span>            <a class="code hl_struct" href="structhelios_1_1_spherical_coord.html">helios::SphericalCoord</a> dir = <a class="code hl_function" href="group__functions.html#ga32a34b00e0a28f4b35e501b8b34cfccd">cart2sphere</a>( camera.second.lookat - camera.second.position );</div>
-<div class="line"><a id="l03602" name="l03602"></a><span class="lineno"> 3602</span>            RT_CHECK_ERROR( rtVariableSet2f( camera_direction_RTvariable, dir.<a class="code hl_variable" href="structhelios_1_1_spherical_coord.html#a1cf17b1a139ed955ab0dd765e49b0643">zenith</a>, dir.<a class="code hl_variable" href="structhelios_1_1_spherical_coord.html#af63b7ee76a5d57bf5881079eff52aa59">azimuth</a> ) );</div>
-<div class="line"><a id="l03603" name="l03603"></a><span class="lineno"> 3603</span>            RT_CHECK_ERROR( rtVariableSet1f( camera_lens_diameter_RTvariable, camera.second.lens_diameter ) );</div>
-<div class="line"><a id="l03604" name="l03604"></a><span class="lineno"> 3604</span>            RT_CHECK_ERROR( rtVariableSet1f( FOV_aspect_RTvariable, camera.second.FOV_aspect_ratio ) );</div>
-<div class="line"><a id="l03605" name="l03605"></a><span class="lineno"> 3605</span>            RT_CHECK_ERROR( rtVariableSet1f( camera_focal_length_RTvariable, camera.second.focal_length ) );</div>
-<div class="line"><a id="l03606" name="l03606"></a><span class="lineno"> 3606</span>            RT_CHECK_ERROR( rtVariableSet1f( camera_viewplane_length_RTvariable, 1.f/tanf(camera.second.HFOV_degrees*M_PI/180.f) ) );</div>
-<div class="line"><a id="l03607" name="l03607"></a><span class="lineno"> 3607</span>            RT_CHECK_ERROR( rtVariableSet1ui( camera_ID_RTvariable, cam ));</div>
-<div class="line"><a id="l03608" name="l03608"></a><span class="lineno"> 3608</span> </div>
-<div class="line"><a id="l03609" name="l03609"></a><span class="lineno"> 3609</span>            zeroBuffer1D( radiation_in_camera_RTbuffer, camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>*Nbands );</div>
-<div class="line"><a id="l03610" name="l03610"></a><span class="lineno"> 3610</span> </div>
-<div class="line"><a id="l03611" name="l03611"></a><span class="lineno"> 3611</span>            optix::int3 launch_dim_camera = optix::make_int3( camera.second.antialiasing_samples, camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>, camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> );</div>
-<div class="line"><a id="l03612" name="l03612"></a><span class="lineno"> 3612</span> </div>
-<div class="line"><a id="l03613" name="l03613"></a><span class="lineno"> 3613</span>            <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l03614" name="l03614"></a><span class="lineno"> 3614</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;Performing scattering radiation camera ray trace for camera &quot;</span> &lt;&lt; camera.second.label &lt;&lt; <span class="stringliteral">&quot;...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03615" name="l03615"></a><span class="lineno"> 3615</span>            }</div>
-<div class="line"><a id="l03616" name="l03616"></a><span class="lineno"> 3616</span>            RT_CHECK_ERROR( rtContextLaunch3D( OptiX_Context, RAYTYPE_CAMERA , launch_dim_camera.x, launch_dim_camera.y, launch_dim_camera.z ) );</div>
-<div class="line"><a id="l03617" name="l03617"></a><span class="lineno"> 3617</span>            <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l03618" name="l03618"></a><span class="lineno"> 3618</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03619" name="l03619"></a><span class="lineno"> 3619</span>            }</div>
+<div class="line"><a id="l03593" name="l03593"></a><span class="lineno"> 3593</span>        <span class="comment">//re-set diffuse radiation fluxes</span></div>
+<div class="line"><a id="l03594" name="l03594"></a><span class="lineno"> 3594</span>        <span class="keywordflow">if</span>( diffuseenabled ){</div>
+<div class="line"><a id="l03595" name="l03595"></a><span class="lineno"> 3595</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;Nbands; b++ ){</div>
+<div class="line"><a id="l03596" name="l03596"></a><span class="lineno"> 3596</span>                diffuse_flux.at(b) = <a class="code hl_function" href="class_radiation_model.html#af8450f2308aee38272b4aef87f0c547b">getDiffuseFlux</a>(label.at(b));</div>
+<div class="line"><a id="l03597" name="l03597"></a><span class="lineno"> 3597</span>            }</div>
+<div class="line"><a id="l03598" name="l03598"></a><span class="lineno"> 3598</span>            initializeBuffer1Df( diffuse_flux_RTbuffer, diffuse_flux );</div>
+<div class="line"><a id="l03599" name="l03599"></a><span class="lineno"> 3599</span>        }</div>
+<div class="line"><a id="l03600" name="l03600"></a><span class="lineno"> 3600</span> </div>
+<div class="line"><a id="l03601" name="l03601"></a><span class="lineno"> 3601</span> </div>
+<div class="line"><a id="l03602" name="l03602"></a><span class="lineno"> 3602</span>        <span class="keywordtype">size_t</span> n = ceil(sqrt(<span class="keywordtype">double</span>(diffuseRayCount)));</div>
+<div class="line"><a id="l03603" name="l03603"></a><span class="lineno"> 3603</span> </div>
+<div class="line"><a id="l03604" name="l03604"></a><span class="lineno"> 3604</span>        uint cam=0;</div>
+<div class="line"><a id="l03605" name="l03605"></a><span class="lineno"> 3605</span>        <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp; camera : cameras ){</div>
+<div class="line"><a id="l03606" name="l03606"></a><span class="lineno"> 3606</span> </div>
+<div class="line"><a id="l03607" name="l03607"></a><span class="lineno"> 3607</span>            <span class="comment">//set variable values</span></div>
+<div class="line"><a id="l03608" name="l03608"></a><span class="lineno"> 3608</span>            RT_CHECK_ERROR( rtVariableSet3f( camera_position_RTvariable, camera.second.position.<a class="code hl_variable" href="structhelios_1_1vec3.html#a80003da235393c031b8561e678a184a1">x</a>, camera.second.position.<a class="code hl_variable" href="structhelios_1_1vec3.html#ac0be54042f7a639c99ea4dce377f9a65">y</a>, camera.second.position.<a class="code hl_variable" href="structhelios_1_1vec3.html#a870c14ca45729f58e8628a050ce38b6f">z</a> ) );</div>
+<div class="line"><a id="l03609" name="l03609"></a><span class="lineno"> 3609</span>            <a class="code hl_struct" href="structhelios_1_1_spherical_coord.html">helios::SphericalCoord</a> dir = <a class="code hl_function" href="group__functions.html#ga32a34b00e0a28f4b35e501b8b34cfccd">cart2sphere</a>( camera.second.lookat - camera.second.position );</div>
+<div class="line"><a id="l03610" name="l03610"></a><span class="lineno"> 3610</span>            RT_CHECK_ERROR( rtVariableSet2f( camera_direction_RTvariable, dir.<a class="code hl_variable" href="structhelios_1_1_spherical_coord.html#a1cf17b1a139ed955ab0dd765e49b0643">zenith</a>, dir.<a class="code hl_variable" href="structhelios_1_1_spherical_coord.html#af63b7ee76a5d57bf5881079eff52aa59">azimuth</a> ) );</div>
+<div class="line"><a id="l03611" name="l03611"></a><span class="lineno"> 3611</span>            RT_CHECK_ERROR( rtVariableSet1f( camera_lens_diameter_RTvariable, camera.second.lens_diameter ) );</div>
+<div class="line"><a id="l03612" name="l03612"></a><span class="lineno"> 3612</span>            RT_CHECK_ERROR( rtVariableSet1f( FOV_aspect_RTvariable, camera.second.FOV_aspect_ratio ) );</div>
+<div class="line"><a id="l03613" name="l03613"></a><span class="lineno"> 3613</span>            RT_CHECK_ERROR( rtVariableSet1f( camera_focal_length_RTvariable, camera.second.focal_length ) );</div>
+<div class="line"><a id="l03614" name="l03614"></a><span class="lineno"> 3614</span>            RT_CHECK_ERROR( rtVariableSet1f( camera_viewplane_length_RTvariable, 1.f/tanf(camera.second.HFOV_degrees*M_PI/180.f) ) );</div>
+<div class="line"><a id="l03615" name="l03615"></a><span class="lineno"> 3615</span>            RT_CHECK_ERROR( rtVariableSet1ui( camera_ID_RTvariable, cam ));</div>
+<div class="line"><a id="l03616" name="l03616"></a><span class="lineno"> 3616</span> </div>
+<div class="line"><a id="l03617" name="l03617"></a><span class="lineno"> 3617</span>            zeroBuffer1D( radiation_in_camera_RTbuffer, camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>*Nbands );</div>
+<div class="line"><a id="l03618" name="l03618"></a><span class="lineno"> 3618</span> </div>
+<div class="line"><a id="l03619" name="l03619"></a><span class="lineno"> 3619</span>            optix::int3 launch_dim_camera = optix::make_int3( camera.second.antialiasing_samples, camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>, camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> );</div>
 <div class="line"><a id="l03620" name="l03620"></a><span class="lineno"> 3620</span> </div>
-<div class="line"><a id="l03621" name="l03621"></a><span class="lineno"> 3621</span>            std::vector&lt;float&gt; radiation_camera = getOptiXbufferData(radiation_in_camera_RTbuffer);</div>
-<div class="line"><a id="l03622" name="l03622"></a><span class="lineno"> 3622</span> </div>
-<div class="line"><a id="l03623" name="l03623"></a><span class="lineno"> 3623</span>            std::string camera_label = camera.second.label;</div>
-<div class="line"><a id="l03624" name="l03624"></a><span class="lineno"> 3624</span> </div>
-<div class="line"><a id="l03625" name="l03625"></a><span class="lineno"> 3625</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;Nbands; b++ ) {</div>
-<div class="line"><a id="l03626" name="l03626"></a><span class="lineno"> 3626</span> </div>
-<div class="line"><a id="l03627" name="l03627"></a><span class="lineno"> 3627</span>                camera.second.pixel_data[label.at(b)].resize(camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>);</div>
+<div class="line"><a id="l03621" name="l03621"></a><span class="lineno"> 3621</span>            <span class="keywordflow">if</span>( message_flag ){</div>
+<div class="line"><a id="l03622" name="l03622"></a><span class="lineno"> 3622</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;Performing scattering radiation camera ray trace for camera &quot;</span> &lt;&lt; camera.second.label &lt;&lt; <span class="stringliteral">&quot;...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03623" name="l03623"></a><span class="lineno"> 3623</span>            }</div>
+<div class="line"><a id="l03624" name="l03624"></a><span class="lineno"> 3624</span>            RT_CHECK_ERROR( rtContextLaunch3D( OptiX_Context, RAYTYPE_CAMERA , launch_dim_camera.x, launch_dim_camera.y, launch_dim_camera.z ) );</div>
+<div class="line"><a id="l03625" name="l03625"></a><span class="lineno"> 3625</span>            <span class="keywordflow">if</span>( message_flag ){</div>
+<div class="line"><a id="l03626" name="l03626"></a><span class="lineno"> 3626</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03627" name="l03627"></a><span class="lineno"> 3627</span>            }</div>
 <div class="line"><a id="l03628" name="l03628"></a><span class="lineno"> 3628</span> </div>
-<div class="line"><a id="l03629" name="l03629"></a><span class="lineno"> 3629</span>                std::string data_label = <span class="stringliteral">&quot;camera_&quot;</span> + camera_label + <span class="stringliteral">&quot;_&quot;</span> + label.at(b);</div>
+<div class="line"><a id="l03629" name="l03629"></a><span class="lineno"> 3629</span>            std::vector&lt;float&gt; radiation_camera = getOptiXbufferData(radiation_in_camera_RTbuffer);</div>
 <div class="line"><a id="l03630" name="l03630"></a><span class="lineno"> 3630</span> </div>
-<div class="line"><a id="l03631" name="l03631"></a><span class="lineno"> 3631</span>                <span class="keywordflow">for</span>( <span class="keyword">auto</span> p=0; p&lt;camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; p++ ){</div>
-<div class="line"><a id="l03632" name="l03632"></a><span class="lineno"> 3632</span>                    camera.second.pixel_data.at(label.at(b)).at(p) = radiation_camera.at(p*Nbands+b);</div>
-<div class="line"><a id="l03633" name="l03633"></a><span class="lineno"> 3633</span>                }</div>
+<div class="line"><a id="l03631" name="l03631"></a><span class="lineno"> 3631</span>            std::string camera_label = camera.second.label;</div>
+<div class="line"><a id="l03632" name="l03632"></a><span class="lineno"> 3632</span> </div>
+<div class="line"><a id="l03633" name="l03633"></a><span class="lineno"> 3633</span>            <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;Nbands; b++ ) {</div>
 <div class="line"><a id="l03634" name="l03634"></a><span class="lineno"> 3634</span> </div>
-<div class="line"><a id="l03635" name="l03635"></a><span class="lineno"> 3635</span>                context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(data_label.c_str(), <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a>,camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>,&amp;camera.second.pixel_data.at(label.at(b))[0]);</div>
+<div class="line"><a id="l03635" name="l03635"></a><span class="lineno"> 3635</span>                camera.second.pixel_data[label.at(b)].resize(camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>);</div>
 <div class="line"><a id="l03636" name="l03636"></a><span class="lineno"> 3636</span> </div>
-<div class="line"><a id="l03637" name="l03637"></a><span class="lineno"> 3637</span>            }</div>
+<div class="line"><a id="l03637" name="l03637"></a><span class="lineno"> 3637</span>                std::string data_label = <span class="stringliteral">&quot;camera_&quot;</span> + camera_label + <span class="stringliteral">&quot;_&quot;</span> + label.at(b);</div>
 <div class="line"><a id="l03638" name="l03638"></a><span class="lineno"> 3638</span> </div>
-<div class="line"><a id="l03639" name="l03639"></a><span class="lineno"> 3639</span>            <span class="comment">//--- Pixel Labeling Trace ---//</span></div>
-<div class="line"><a id="l03640" name="l03640"></a><span class="lineno"> 3640</span> </div>
-<div class="line"><a id="l03641" name="l03641"></a><span class="lineno"> 3641</span>            zeroBuffer1D(camera_pixel_label_RTbuffer,camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>);</div>
-<div class="line"><a id="l03642" name="l03642"></a><span class="lineno"> 3642</span>            zeroBuffer1D(camera_pixel_depth_RTbuffer,camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>);</div>
-<div class="line"><a id="l03643" name="l03643"></a><span class="lineno"> 3643</span> </div>
-<div class="line"><a id="l03644" name="l03644"></a><span class="lineno"> 3644</span>            <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l03645" name="l03645"></a><span class="lineno"> 3645</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;Performing camera pixel labeling ray trace for camera &quot;</span> &lt;&lt; camera.second.label &lt;&lt; <span class="stringliteral">&quot;...&quot;</span> &lt;&lt; std::flush;</div>
-<div class="line"><a id="l03646" name="l03646"></a><span class="lineno"> 3646</span>            }</div>
-<div class="line"><a id="l03647" name="l03647"></a><span class="lineno"> 3647</span>            RT_CHECK_ERROR( rtContextLaunch3D( OptiX_Context, RAYTYPE_PIXEL_LABEL , 1, launch_dim_camera.y, launch_dim_camera.z ) );</div>
-<div class="line"><a id="l03648" name="l03648"></a><span class="lineno"> 3648</span>            <span class="keywordflow">if</span>( message_flag ){</div>
-<div class="line"><a id="l03649" name="l03649"></a><span class="lineno"> 3649</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03650" name="l03650"></a><span class="lineno"> 3650</span>            }</div>
+<div class="line"><a id="l03639" name="l03639"></a><span class="lineno"> 3639</span>                <span class="keywordflow">for</span>( <span class="keyword">auto</span> p=0; p&lt;camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; p++ ){</div>
+<div class="line"><a id="l03640" name="l03640"></a><span class="lineno"> 3640</span>                    camera.second.pixel_data.at(label.at(b)).at(p) = radiation_camera.at(p*Nbands+b);</div>
+<div class="line"><a id="l03641" name="l03641"></a><span class="lineno"> 3641</span>                }</div>
+<div class="line"><a id="l03642" name="l03642"></a><span class="lineno"> 3642</span> </div>
+<div class="line"><a id="l03643" name="l03643"></a><span class="lineno"> 3643</span>                context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(data_label.c_str(), <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a>,camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>,&amp;camera.second.pixel_data.at(label.at(b))[0]);</div>
+<div class="line"><a id="l03644" name="l03644"></a><span class="lineno"> 3644</span> </div>
+<div class="line"><a id="l03645" name="l03645"></a><span class="lineno"> 3645</span>            }</div>
+<div class="line"><a id="l03646" name="l03646"></a><span class="lineno"> 3646</span> </div>
+<div class="line"><a id="l03647" name="l03647"></a><span class="lineno"> 3647</span>            <span class="comment">//--- Pixel Labeling Trace ---//</span></div>
+<div class="line"><a id="l03648" name="l03648"></a><span class="lineno"> 3648</span> </div>
+<div class="line"><a id="l03649" name="l03649"></a><span class="lineno"> 3649</span>            zeroBuffer1D(camera_pixel_label_RTbuffer,camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>);</div>
+<div class="line"><a id="l03650" name="l03650"></a><span class="lineno"> 3650</span>            zeroBuffer1D(camera_pixel_depth_RTbuffer,camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>);</div>
 <div class="line"><a id="l03651" name="l03651"></a><span class="lineno"> 3651</span> </div>
-<div class="line"><a id="l03652" name="l03652"></a><span class="lineno"> 3652</span>            camera.second.pixel_label_UUID = getOptiXbufferData_ui(camera_pixel_label_RTbuffer);</div>
-<div class="line"><a id="l03653" name="l03653"></a><span class="lineno"> 3653</span>            camera.second.pixel_depth = getOptiXbufferData(camera_pixel_depth_RTbuffer);</div>
-<div class="line"><a id="l03654" name="l03654"></a><span class="lineno"> 3654</span> </div>
-<div class="line"><a id="l03655" name="l03655"></a><span class="lineno"> 3655</span>            <span class="comment">//the IDs from the ray trace do not necessarily correspond to the actual primitive UUIDs, so look them up.</span></div>
-<div class="line"><a id="l03656" name="l03656"></a><span class="lineno"> 3656</span>            <span class="keywordflow">for</span>( uint ID=0; ID&lt;camera.second.pixel_label_UUID.size(); ID++ ){</div>
-<div class="line"><a id="l03657" name="l03657"></a><span class="lineno"> 3657</span>                <span class="keywordflow">if</span>( camera.second.pixel_label_UUID.at(ID)&gt;0 ){</div>
-<div class="line"><a id="l03658" name="l03658"></a><span class="lineno"> 3658</span>                    camera.second.pixel_label_UUID.at(ID) = context_UUIDs.at(camera.second.pixel_label_UUID.at(ID) - 1) + 1;</div>
-<div class="line"><a id="l03659" name="l03659"></a><span class="lineno"> 3659</span>                }</div>
-<div class="line"><a id="l03660" name="l03660"></a><span class="lineno"> 3660</span>            }</div>
-<div class="line"><a id="l03661" name="l03661"></a><span class="lineno"> 3661</span> </div>
-<div class="line"><a id="l03662" name="l03662"></a><span class="lineno"> 3662</span>            std::string data_label = <span class="stringliteral">&quot;camera_&quot;</span> + camera_label + <span class="stringliteral">&quot;_pixel_UUID&quot;</span>;</div>
-<div class="line"><a id="l03663" name="l03663"></a><span class="lineno"> 3663</span> </div>
-<div class="line"><a id="l03664" name="l03664"></a><span class="lineno"> 3664</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(data_label.c_str(), <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a>,camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>,&amp;camera.second.pixel_label_UUID[0]);</div>
-<div class="line"><a id="l03665" name="l03665"></a><span class="lineno"> 3665</span> </div>
-<div class="line"><a id="l03666" name="l03666"></a><span class="lineno"> 3666</span>            data_label = <span class="stringliteral">&quot;camera_&quot;</span> + camera_label + <span class="stringliteral">&quot;_pixel_depth&quot;</span>;</div>
-<div class="line"><a id="l03667" name="l03667"></a><span class="lineno"> 3667</span> </div>
-<div class="line"><a id="l03668" name="l03668"></a><span class="lineno"> 3668</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(data_label.c_str(), <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a>,camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>,&amp;camera.second.pixel_depth[0]);</div>
+<div class="line"><a id="l03652" name="l03652"></a><span class="lineno"> 3652</span>            <span class="keywordflow">if</span>( message_flag ){</div>
+<div class="line"><a id="l03653" name="l03653"></a><span class="lineno"> 3653</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;Performing camera pixel labeling ray trace for camera &quot;</span> &lt;&lt; camera.second.label &lt;&lt; <span class="stringliteral">&quot;...&quot;</span> &lt;&lt; std::flush;</div>
+<div class="line"><a id="l03654" name="l03654"></a><span class="lineno"> 3654</span>            }</div>
+<div class="line"><a id="l03655" name="l03655"></a><span class="lineno"> 3655</span>            RT_CHECK_ERROR( rtContextLaunch3D( OptiX_Context, RAYTYPE_PIXEL_LABEL , 1, launch_dim_camera.y, launch_dim_camera.z ) );</div>
+<div class="line"><a id="l03656" name="l03656"></a><span class="lineno"> 3656</span>            <span class="keywordflow">if</span>( message_flag ){</div>
+<div class="line"><a id="l03657" name="l03657"></a><span class="lineno"> 3657</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;done.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l03658" name="l03658"></a><span class="lineno"> 3658</span>            }</div>
+<div class="line"><a id="l03659" name="l03659"></a><span class="lineno"> 3659</span> </div>
+<div class="line"><a id="l03660" name="l03660"></a><span class="lineno"> 3660</span>            camera.second.pixel_label_UUID = getOptiXbufferData_ui(camera_pixel_label_RTbuffer);</div>
+<div class="line"><a id="l03661" name="l03661"></a><span class="lineno"> 3661</span>            camera.second.pixel_depth = getOptiXbufferData(camera_pixel_depth_RTbuffer);</div>
+<div class="line"><a id="l03662" name="l03662"></a><span class="lineno"> 3662</span> </div>
+<div class="line"><a id="l03663" name="l03663"></a><span class="lineno"> 3663</span>            <span class="comment">//the IDs from the ray trace do not necessarily correspond to the actual primitive UUIDs, so look them up.</span></div>
+<div class="line"><a id="l03664" name="l03664"></a><span class="lineno"> 3664</span>            <span class="keywordflow">for</span>( uint ID=0; ID&lt;camera.second.pixel_label_UUID.size(); ID++ ){</div>
+<div class="line"><a id="l03665" name="l03665"></a><span class="lineno"> 3665</span>                <span class="keywordflow">if</span>( camera.second.pixel_label_UUID.at(ID)&gt;0 ){</div>
+<div class="line"><a id="l03666" name="l03666"></a><span class="lineno"> 3666</span>                    camera.second.pixel_label_UUID.at(ID) = context_UUIDs.at(camera.second.pixel_label_UUID.at(ID) - 1) + 1;</div>
+<div class="line"><a id="l03667" name="l03667"></a><span class="lineno"> 3667</span>                }</div>
+<div class="line"><a id="l03668" name="l03668"></a><span class="lineno"> 3668</span>            }</div>
 <div class="line"><a id="l03669" name="l03669"></a><span class="lineno"> 3669</span> </div>
-<div class="line"><a id="l03670" name="l03670"></a><span class="lineno"> 3670</span>            cam++;</div>
-<div class="line"><a id="l03671" name="l03671"></a><span class="lineno"> 3671</span>        }</div>
-<div class="line"><a id="l03672" name="l03672"></a><span class="lineno"> 3672</span>    }</div>
+<div class="line"><a id="l03670" name="l03670"></a><span class="lineno"> 3670</span>            std::string data_label = <span class="stringliteral">&quot;camera_&quot;</span> + camera_label + <span class="stringliteral">&quot;_pixel_UUID&quot;</span>;</div>
+<div class="line"><a id="l03671" name="l03671"></a><span class="lineno"> 3671</span> </div>
+<div class="line"><a id="l03672" name="l03672"></a><span class="lineno"> 3672</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(data_label.c_str(), <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a>,camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>,&amp;camera.second.pixel_label_UUID[0]);</div>
 <div class="line"><a id="l03673" name="l03673"></a><span class="lineno"> 3673</span> </div>
-<div class="line"><a id="l03674" name="l03674"></a><span class="lineno"> 3674</span>    <span class="comment">//deposit any energy that is left to make sure we satisfy conservation of energy</span></div>
-<div class="line"><a id="l03675" name="l03675"></a><span class="lineno"> 3675</span>    TBS_top=getOptiXbufferData( scatter_buff_top_RTbuffer );</div>
-<div class="line"><a id="l03676" name="l03676"></a><span class="lineno"> 3676</span>    TBS_bottom=getOptiXbufferData( scatter_buff_bottom_RTbuffer );</div>
+<div class="line"><a id="l03674" name="l03674"></a><span class="lineno"> 3674</span>            data_label = <span class="stringliteral">&quot;camera_&quot;</span> + camera_label + <span class="stringliteral">&quot;_pixel_depth&quot;</span>;</div>
+<div class="line"><a id="l03675" name="l03675"></a><span class="lineno"> 3675</span> </div>
+<div class="line"><a id="l03676" name="l03676"></a><span class="lineno"> 3676</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(data_label.c_str(), <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a>,camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera.second.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>,&amp;camera.second.pixel_depth[0]);</div>
 <div class="line"><a id="l03677" name="l03677"></a><span class="lineno"> 3677</span> </div>
-<div class="line"><a id="l03678" name="l03678"></a><span class="lineno"> 3678</span>    <span class="comment">// Set variables in geometric objects</span></div>
-<div class="line"><a id="l03679" name="l03679"></a><span class="lineno"> 3679</span> </div>
-<div class="line"><a id="l03680" name="l03680"></a><span class="lineno"> 3680</span>    std::vector&lt;float&gt; radiation_flux_data;</div>
-<div class="line"><a id="l03681" name="l03681"></a><span class="lineno"> 3681</span>    radiation_flux_data=getOptiXbufferData( radiation_in_RTbuffer );</div>
-<div class="line"><a id="l03682" name="l03682"></a><span class="lineno"> 3682</span> </div>
-<div class="line"><a id="l03683" name="l03683"></a><span class="lineno"> 3683</span>    std::vector&lt;uint&gt; UUIDs_context_all = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a98516632daccf958cca6b5b6582310bb">getAllUUIDs</a>();</div>
-<div class="line"><a id="l03684" name="l03684"></a><span class="lineno"> 3684</span> </div>
-<div class="line"><a id="l03685" name="l03685"></a><span class="lineno"> 3685</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;Nbands; b++ ) {</div>
-<div class="line"><a id="l03686" name="l03686"></a><span class="lineno"> 3686</span> </div>
-<div class="line"><a id="l03687" name="l03687"></a><span class="lineno"> 3687</span>        std::string prop = <span class="stringliteral">&quot;radiation_flux_&quot;</span> + label.at(b);</div>
-<div class="line"><a id="l03688" name="l03688"></a><span class="lineno"> 3688</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> u = 0; u &lt; Nprimitives; u++) {</div>
-<div class="line"><a id="l03689" name="l03689"></a><span class="lineno"> 3689</span>            <span class="keywordtype">size_t</span> ind = u * Nbands + b;</div>
-<div class="line"><a id="l03690" name="l03690"></a><span class="lineno"> 3690</span>            <span class="keywordtype">float</span> R = radiation_flux_data.at(ind) + TBS_top.at(ind) + TBS_bottom.at(ind);</div>
-<div class="line"><a id="l03691" name="l03691"></a><span class="lineno"> 3691</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ac7677094a3bbcb62506ce461d982af1d">setPrimitiveData</a>(context_UUIDs.at(u), prop.c_str(), R);</div>
-<div class="line"><a id="l03692" name="l03692"></a><span class="lineno"> 3692</span>            <span class="keywordflow">if</span> (radiation_flux_data.at(ind) != radiation_flux_data.at(ind)) {</div>
-<div class="line"><a id="l03693" name="l03693"></a><span class="lineno"> 3693</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;NaN here &quot;</span> &lt;&lt; ind &lt;&lt; std::endl;</div>
-<div class="line"><a id="l03694" name="l03694"></a><span class="lineno"> 3694</span>            }</div>
-<div class="line"><a id="l03695" name="l03695"></a><span class="lineno"> 3695</span>        }</div>
-<div class="line"><a id="l03696" name="l03696"></a><span class="lineno"> 3696</span> </div>
-<div class="line"><a id="l03697" name="l03697"></a><span class="lineno"> 3697</span>        <span class="keywordflow">if</span>( UUIDs_context_all.size()!=Nprimitives ){</div>
-<div class="line"><a id="l03698" name="l03698"></a><span class="lineno"> 3698</span>            <span class="keywordflow">for</span>( uint UUID : UUIDs_context_all ){</div>
-<div class="line"><a id="l03699" name="l03699"></a><span class="lineno"> 3699</span>                <span class="keywordflow">if</span>( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(UUID) &amp;&amp; !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID,prop.c_str()) ){</div>
-<div class="line"><a id="l03700" name="l03700"></a><span class="lineno"> 3700</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ac7677094a3bbcb62506ce461d982af1d">setPrimitiveData</a>(UUID,prop.c_str(),0.f);</div>
-<div class="line"><a id="l03701" name="l03701"></a><span class="lineno"> 3701</span>                }</div>
+<div class="line"><a id="l03678" name="l03678"></a><span class="lineno"> 3678</span>            cam++;</div>
+<div class="line"><a id="l03679" name="l03679"></a><span class="lineno"> 3679</span>        }</div>
+<div class="line"><a id="l03680" name="l03680"></a><span class="lineno"> 3680</span>    }</div>
+<div class="line"><a id="l03681" name="l03681"></a><span class="lineno"> 3681</span> </div>
+<div class="line"><a id="l03682" name="l03682"></a><span class="lineno"> 3682</span>    <span class="comment">//deposit any energy that is left to make sure we satisfy conservation of energy</span></div>
+<div class="line"><a id="l03683" name="l03683"></a><span class="lineno"> 3683</span>    TBS_top=getOptiXbufferData( scatter_buff_top_RTbuffer );</div>
+<div class="line"><a id="l03684" name="l03684"></a><span class="lineno"> 3684</span>    TBS_bottom=getOptiXbufferData( scatter_buff_bottom_RTbuffer );</div>
+<div class="line"><a id="l03685" name="l03685"></a><span class="lineno"> 3685</span> </div>
+<div class="line"><a id="l03686" name="l03686"></a><span class="lineno"> 3686</span>    <span class="comment">// Set variables in geometric objects</span></div>
+<div class="line"><a id="l03687" name="l03687"></a><span class="lineno"> 3687</span> </div>
+<div class="line"><a id="l03688" name="l03688"></a><span class="lineno"> 3688</span>    std::vector&lt;float&gt; radiation_flux_data;</div>
+<div class="line"><a id="l03689" name="l03689"></a><span class="lineno"> 3689</span>    radiation_flux_data=getOptiXbufferData( radiation_in_RTbuffer );</div>
+<div class="line"><a id="l03690" name="l03690"></a><span class="lineno"> 3690</span> </div>
+<div class="line"><a id="l03691" name="l03691"></a><span class="lineno"> 3691</span>    std::vector&lt;uint&gt; UUIDs_context_all = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a98516632daccf958cca6b5b6582310bb">getAllUUIDs</a>();</div>
+<div class="line"><a id="l03692" name="l03692"></a><span class="lineno"> 3692</span> </div>
+<div class="line"><a id="l03693" name="l03693"></a><span class="lineno"> 3693</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> b=0; b&lt;Nbands; b++ ) {</div>
+<div class="line"><a id="l03694" name="l03694"></a><span class="lineno"> 3694</span> </div>
+<div class="line"><a id="l03695" name="l03695"></a><span class="lineno"> 3695</span>        std::string prop = <span class="stringliteral">&quot;radiation_flux_&quot;</span> + label.at(b);</div>
+<div class="line"><a id="l03696" name="l03696"></a><span class="lineno"> 3696</span>        <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> u = 0; u &lt; Nprimitives; u++) {</div>
+<div class="line"><a id="l03697" name="l03697"></a><span class="lineno"> 3697</span>            <span class="keywordtype">size_t</span> ind = u * Nbands + b;</div>
+<div class="line"><a id="l03698" name="l03698"></a><span class="lineno"> 3698</span>            <span class="keywordtype">float</span> R = radiation_flux_data.at(ind) + TBS_top.at(ind) + TBS_bottom.at(ind);</div>
+<div class="line"><a id="l03699" name="l03699"></a><span class="lineno"> 3699</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ac7677094a3bbcb62506ce461d982af1d">setPrimitiveData</a>(context_UUIDs.at(u), prop.c_str(), R);</div>
+<div class="line"><a id="l03700" name="l03700"></a><span class="lineno"> 3700</span>            <span class="keywordflow">if</span> (radiation_flux_data.at(ind) != radiation_flux_data.at(ind)) {</div>
+<div class="line"><a id="l03701" name="l03701"></a><span class="lineno"> 3701</span>                std::cout &lt;&lt; <span class="stringliteral">&quot;NaN here &quot;</span> &lt;&lt; ind &lt;&lt; std::endl;</div>
 <div class="line"><a id="l03702" name="l03702"></a><span class="lineno"> 3702</span>            }</div>
 <div class="line"><a id="l03703" name="l03703"></a><span class="lineno"> 3703</span>        }</div>
 <div class="line"><a id="l03704" name="l03704"></a><span class="lineno"> 3704</span> </div>
-<div class="line"><a id="l03705" name="l03705"></a><span class="lineno"> 3705</span>    }</div>
-<div class="line"><a id="l03706" name="l03706"></a><span class="lineno"> 3706</span> </div>
-<div class="line"><a id="l03707" name="l03707"></a><span class="lineno"> 3707</span>}</div>
+<div class="line"><a id="l03705" name="l03705"></a><span class="lineno"> 3705</span>        <span class="keywordflow">if</span>( UUIDs_context_all.size()!=Nprimitives ){</div>
+<div class="line"><a id="l03706" name="l03706"></a><span class="lineno"> 3706</span>            <span class="keywordflow">for</span>( uint UUID : UUIDs_context_all ){</div>
+<div class="line"><a id="l03707" name="l03707"></a><span class="lineno"> 3707</span>                <span class="keywordflow">if</span>( context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(UUID) &amp;&amp; !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID,prop.c_str()) ){</div>
+<div class="line"><a id="l03708" name="l03708"></a><span class="lineno"> 3708</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ac7677094a3bbcb62506ce461d982af1d">setPrimitiveData</a>(UUID,prop.c_str(),0.f);</div>
+<div class="line"><a id="l03709" name="l03709"></a><span class="lineno"> 3709</span>                }</div>
+<div class="line"><a id="l03710" name="l03710"></a><span class="lineno"> 3710</span>            }</div>
+<div class="line"><a id="l03711" name="l03711"></a><span class="lineno"> 3711</span>        }</div>
+<div class="line"><a id="l03712" name="l03712"></a><span class="lineno"> 3712</span> </div>
+<div class="line"><a id="l03713" name="l03713"></a><span class="lineno"> 3713</span>    }</div>
+<div class="line"><a id="l03714" name="l03714"></a><span class="lineno"> 3714</span> </div>
+<div class="line"><a id="l03715" name="l03715"></a><span class="lineno"> 3715</span>}</div>
 </div>
-<div class="line"><a id="l03708" name="l03708"></a><span class="lineno"> 3708</span> </div>
-<div class="foldopen" id="foldopen03709" data-start="{" data-end="}">
-<div class="line"><a id="l03709" name="l03709"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a9c9a5f6cb6b0ba6e3780aba8a4da8a0d"> 3709</a></span><span class="keywordtype">float</span> <a class="code hl_function" href="class_radiation_model.html#a9c9a5f6cb6b0ba6e3780aba8a4da8a0d">RadiationModel::getSkyEnergy</a>() {</div>
-<div class="line"><a id="l03710" name="l03710"></a><span class="lineno"> 3710</span> </div>
-<div class="line"><a id="l03711" name="l03711"></a><span class="lineno"> 3711</span>    std::vector&lt;float&gt; Rsky_SW;</div>
-<div class="line"><a id="l03712" name="l03712"></a><span class="lineno"> 3712</span>    Rsky_SW=getOptiXbufferData( Rsky_RTbuffer );</div>
-<div class="line"><a id="l03713" name="l03713"></a><span class="lineno"> 3713</span>    <span class="keywordtype">float</span> Rsky=0.f;</div>
-<div class="line"><a id="l03714" name="l03714"></a><span class="lineno"> 3714</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;Rsky_SW.size(); i++ ){</div>
-<div class="line"><a id="l03715" name="l03715"></a><span class="lineno"> 3715</span>        Rsky += Rsky_SW.at(i);</div>
-<div class="line"><a id="l03716" name="l03716"></a><span class="lineno"> 3716</span>    }</div>
-<div class="line"><a id="l03717" name="l03717"></a><span class="lineno"> 3717</span>    <span class="keywordflow">return</span> Rsky;</div>
+<div class="line"><a id="l03716" name="l03716"></a><span class="lineno"> 3716</span> </div>
+<div class="foldopen" id="foldopen03717" data-start="{" data-end="}">
+<div class="line"><a id="l03717" name="l03717"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a9c9a5f6cb6b0ba6e3780aba8a4da8a0d"> 3717</a></span><span class="keywordtype">float</span> <a class="code hl_function" href="class_radiation_model.html#a9c9a5f6cb6b0ba6e3780aba8a4da8a0d">RadiationModel::getSkyEnergy</a>() {</div>
 <div class="line"><a id="l03718" name="l03718"></a><span class="lineno"> 3718</span> </div>
-<div class="line"><a id="l03719" name="l03719"></a><span class="lineno"> 3719</span>}</div>
+<div class="line"><a id="l03719" name="l03719"></a><span class="lineno"> 3719</span>    std::vector&lt;float&gt; Rsky_SW;</div>
+<div class="line"><a id="l03720" name="l03720"></a><span class="lineno"> 3720</span>    Rsky_SW=getOptiXbufferData( Rsky_RTbuffer );</div>
+<div class="line"><a id="l03721" name="l03721"></a><span class="lineno"> 3721</span>    <span class="keywordtype">float</span> Rsky=0.f;</div>
+<div class="line"><a id="l03722" name="l03722"></a><span class="lineno"> 3722</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i=0; i&lt;Rsky_SW.size(); i++ ){</div>
+<div class="line"><a id="l03723" name="l03723"></a><span class="lineno"> 3723</span>        Rsky += Rsky_SW.at(i);</div>
+<div class="line"><a id="l03724" name="l03724"></a><span class="lineno"> 3724</span>    }</div>
+<div class="line"><a id="l03725" name="l03725"></a><span class="lineno"> 3725</span>    <span class="keywordflow">return</span> Rsky;</div>
+<div class="line"><a id="l03726" name="l03726"></a><span class="lineno"> 3726</span> </div>
+<div class="line"><a id="l03727" name="l03727"></a><span class="lineno"> 3727</span>}</div>
 </div>
-<div class="line"><a id="l03720" name="l03720"></a><span class="lineno"> 3720</span> </div>
-<div class="foldopen" id="foldopen03721" data-start="{" data-end="}">
-<div class="line"><a id="l03721" name="l03721"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a5e95e775550a2000798a97b00857bdd2"> 3721</a></span>std::vector&lt;float&gt; <a class="code hl_function" href="class_radiation_model.html#a5e95e775550a2000798a97b00857bdd2">RadiationModel::getTotalAbsorbedFlux</a>() {</div>
-<div class="line"><a id="l03722" name="l03722"></a><span class="lineno"> 3722</span> </div>
-<div class="line"><a id="l03723" name="l03723"></a><span class="lineno"> 3723</span>    std::vector&lt;float&gt; total_flux;</div>
-<div class="line"><a id="l03724" name="l03724"></a><span class="lineno"> 3724</span>    total_flux.resize(context-&gt;<a class="code hl_function" href="group__primitives.html#ga4d3447fb04c25e685bcc82599e2b173d">getPrimitiveCount</a>(),0.f);</div>
-<div class="line"><a id="l03725" name="l03725"></a><span class="lineno"> 3725</span> </div>
-<div class="line"><a id="l03726" name="l03726"></a><span class="lineno"> 3726</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : radiation_bands ){</div>
-<div class="line"><a id="l03727" name="l03727"></a><span class="lineno"> 3727</span> </div>
-<div class="line"><a id="l03728" name="l03728"></a><span class="lineno"> 3728</span>        std::string label = band.first;</div>
-<div class="line"><a id="l03729" name="l03729"></a><span class="lineno"> 3729</span> </div>
-<div class="line"><a id="l03730" name="l03730"></a><span class="lineno"> 3730</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> u=0; u&lt;context_UUIDs.size(); u++ ){</div>
-<div class="line"><a id="l03731" name="l03731"></a><span class="lineno"> 3731</span> </div>
-<div class="line"><a id="l03732" name="l03732"></a><span class="lineno"> 3732</span>            uint p = context_UUIDs.at(u);</div>
+<div class="line"><a id="l03728" name="l03728"></a><span class="lineno"> 3728</span> </div>
+<div class="foldopen" id="foldopen03729" data-start="{" data-end="}">
+<div class="line"><a id="l03729" name="l03729"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a5e95e775550a2000798a97b00857bdd2"> 3729</a></span>std::vector&lt;float&gt; <a class="code hl_function" href="class_radiation_model.html#a5e95e775550a2000798a97b00857bdd2">RadiationModel::getTotalAbsorbedFlux</a>() {</div>
+<div class="line"><a id="l03730" name="l03730"></a><span class="lineno"> 3730</span> </div>
+<div class="line"><a id="l03731" name="l03731"></a><span class="lineno"> 3731</span>    std::vector&lt;float&gt; total_flux;</div>
+<div class="line"><a id="l03732" name="l03732"></a><span class="lineno"> 3732</span>    total_flux.resize(context-&gt;<a class="code hl_function" href="group__primitives.html#ga4d3447fb04c25e685bcc82599e2b173d">getPrimitiveCount</a>(),0.f);</div>
 <div class="line"><a id="l03733" name="l03733"></a><span class="lineno"> 3733</span> </div>
-<div class="line"><a id="l03734" name="l03734"></a><span class="lineno"> 3734</span>            std::string str = <span class="stringliteral">&quot;radiation_flux_&quot;</span> + label;</div>
+<div class="line"><a id="l03734" name="l03734"></a><span class="lineno"> 3734</span>    <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;band : radiation_bands ){</div>
 <div class="line"><a id="l03735" name="l03735"></a><span class="lineno"> 3735</span> </div>
-<div class="line"><a id="l03736" name="l03736"></a><span class="lineno"> 3736</span>            <span class="keywordtype">float</span> R;</div>
-<div class="line"><a id="l03737" name="l03737"></a><span class="lineno"> 3737</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>( p, str.c_str(), R );</div>
-<div class="line"><a id="l03738" name="l03738"></a><span class="lineno"> 3738</span>            total_flux.at(u) += R;</div>
+<div class="line"><a id="l03736" name="l03736"></a><span class="lineno"> 3736</span>        std::string label = band.first;</div>
+<div class="line"><a id="l03737" name="l03737"></a><span class="lineno"> 3737</span> </div>
+<div class="line"><a id="l03738" name="l03738"></a><span class="lineno"> 3738</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> u=0; u&lt;context_UUIDs.size(); u++ ){</div>
 <div class="line"><a id="l03739" name="l03739"></a><span class="lineno"> 3739</span> </div>
-<div class="line"><a id="l03740" name="l03740"></a><span class="lineno"> 3740</span>        }</div>
+<div class="line"><a id="l03740" name="l03740"></a><span class="lineno"> 3740</span>            uint p = context_UUIDs.at(u);</div>
 <div class="line"><a id="l03741" name="l03741"></a><span class="lineno"> 3741</span> </div>
-<div class="line"><a id="l03742" name="l03742"></a><span class="lineno"> 3742</span>    }</div>
+<div class="line"><a id="l03742" name="l03742"></a><span class="lineno"> 3742</span>            std::string str = <span class="stringliteral">&quot;radiation_flux_&quot;</span> + label;</div>
 <div class="line"><a id="l03743" name="l03743"></a><span class="lineno"> 3743</span> </div>
-<div class="line"><a id="l03744" name="l03744"></a><span class="lineno"> 3744</span>    <span class="keywordflow">return</span> total_flux;</div>
-<div class="line"><a id="l03745" name="l03745"></a><span class="lineno"> 3745</span> </div>
-<div class="line"><a id="l03746" name="l03746"></a><span class="lineno"> 3746</span>}</div>
-</div>
+<div class="line"><a id="l03744" name="l03744"></a><span class="lineno"> 3744</span>            <span class="keywordtype">float</span> R;</div>
+<div class="line"><a id="l03745" name="l03745"></a><span class="lineno"> 3745</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>( p, str.c_str(), R );</div>
+<div class="line"><a id="l03746" name="l03746"></a><span class="lineno"> 3746</span>            total_flux.at(u) += R;</div>
 <div class="line"><a id="l03747" name="l03747"></a><span class="lineno"> 3747</span> </div>
-<div class="line"><a id="l03748" name="l03748"></a><span class="lineno"> 3748</span>std::vector&lt;float&gt; RadiationModel::getOptiXbufferData( RTbuffer buffer ){</div>
+<div class="line"><a id="l03748" name="l03748"></a><span class="lineno"> 3748</span>        }</div>
 <div class="line"><a id="l03749" name="l03749"></a><span class="lineno"> 3749</span> </div>
-<div class="line"><a id="l03750" name="l03750"></a><span class="lineno"> 3750</span>    <span class="keywordtype">void</span>* _data_;</div>
-<div class="line"><a id="l03751" name="l03751"></a><span class="lineno"> 3751</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;_data_ ) );</div>
-<div class="line"><a id="l03752" name="l03752"></a><span class="lineno"> 3752</span>    <span class="keywordtype">float</span>* data_ptr = (<span class="keywordtype">float</span>*)_data_;</div>
+<div class="line"><a id="l03750" name="l03750"></a><span class="lineno"> 3750</span>    }</div>
+<div class="line"><a id="l03751" name="l03751"></a><span class="lineno"> 3751</span> </div>
+<div class="line"><a id="l03752" name="l03752"></a><span class="lineno"> 3752</span>    <span class="keywordflow">return</span> total_flux;</div>
 <div class="line"><a id="l03753" name="l03753"></a><span class="lineno"> 3753</span> </div>
-<div class="line"><a id="l03754" name="l03754"></a><span class="lineno"> 3754</span>    RTsize size;</div>
-<div class="line"><a id="l03755" name="l03755"></a><span class="lineno"> 3755</span>    RT_CHECK_ERROR( rtBufferGetSize1D( buffer, &amp;size ) );</div>
-<div class="line"><a id="l03756" name="l03756"></a><span class="lineno"> 3756</span> </div>
-<div class="line"><a id="l03757" name="l03757"></a><span class="lineno"> 3757</span>    std::vector&lt;float&gt; data_vec;</div>
-<div class="line"><a id="l03758" name="l03758"></a><span class="lineno"> 3758</span>    data_vec.resize(size);</div>
-<div class="line"><a id="l03759" name="l03759"></a><span class="lineno"> 3759</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;size; i++ ){</div>
-<div class="line"><a id="l03760" name="l03760"></a><span class="lineno"> 3760</span>        data_vec.at(i)=data_ptr[i];</div>
-<div class="line"><a id="l03761" name="l03761"></a><span class="lineno"> 3761</span>    }</div>
-<div class="line"><a id="l03762" name="l03762"></a><span class="lineno"> 3762</span> </div>
-<div class="line"><a id="l03763" name="l03763"></a><span class="lineno"> 3763</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l03754" name="l03754"></a><span class="lineno"> 3754</span>}</div>
+</div>
+<div class="line"><a id="l03755" name="l03755"></a><span class="lineno"> 3755</span> </div>
+<div class="line"><a id="l03756" name="l03756"></a><span class="lineno"> 3756</span>std::vector&lt;float&gt; RadiationModel::getOptiXbufferData( RTbuffer buffer ){</div>
+<div class="line"><a id="l03757" name="l03757"></a><span class="lineno"> 3757</span> </div>
+<div class="line"><a id="l03758" name="l03758"></a><span class="lineno"> 3758</span>    <span class="keywordtype">void</span>* _data_;</div>
+<div class="line"><a id="l03759" name="l03759"></a><span class="lineno"> 3759</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;_data_ ) );</div>
+<div class="line"><a id="l03760" name="l03760"></a><span class="lineno"> 3760</span>    <span class="keywordtype">float</span>* data_ptr = (<span class="keywordtype">float</span>*)_data_;</div>
+<div class="line"><a id="l03761" name="l03761"></a><span class="lineno"> 3761</span> </div>
+<div class="line"><a id="l03762" name="l03762"></a><span class="lineno"> 3762</span>    RTsize size;</div>
+<div class="line"><a id="l03763" name="l03763"></a><span class="lineno"> 3763</span>    RT_CHECK_ERROR( rtBufferGetSize1D( buffer, &amp;size ) );</div>
 <div class="line"><a id="l03764" name="l03764"></a><span class="lineno"> 3764</span> </div>
-<div class="line"><a id="l03765" name="l03765"></a><span class="lineno"> 3765</span>    <span class="keywordflow">return</span> data_vec;</div>
-<div class="line"><a id="l03766" name="l03766"></a><span class="lineno"> 3766</span> </div>
-<div class="line"><a id="l03767" name="l03767"></a><span class="lineno"> 3767</span>}</div>
-<div class="line"><a id="l03768" name="l03768"></a><span class="lineno"> 3768</span> </div>
-<div class="line"><a id="l03769" name="l03769"></a><span class="lineno"> 3769</span>std::vector&lt;double&gt; RadiationModel::getOptiXbufferData_d( RTbuffer buffer ){</div>
+<div class="line"><a id="l03765" name="l03765"></a><span class="lineno"> 3765</span>    std::vector&lt;float&gt; data_vec;</div>
+<div class="line"><a id="l03766" name="l03766"></a><span class="lineno"> 3766</span>    data_vec.resize(size);</div>
+<div class="line"><a id="l03767" name="l03767"></a><span class="lineno"> 3767</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;size; i++ ){</div>
+<div class="line"><a id="l03768" name="l03768"></a><span class="lineno"> 3768</span>        data_vec.at(i)=data_ptr[i];</div>
+<div class="line"><a id="l03769" name="l03769"></a><span class="lineno"> 3769</span>    }</div>
 <div class="line"><a id="l03770" name="l03770"></a><span class="lineno"> 3770</span> </div>
-<div class="line"><a id="l03771" name="l03771"></a><span class="lineno"> 3771</span>    <span class="keywordtype">void</span>* _data_;</div>
-<div class="line"><a id="l03772" name="l03772"></a><span class="lineno"> 3772</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;_data_ ) );</div>
-<div class="line"><a id="l03773" name="l03773"></a><span class="lineno"> 3773</span>    <span class="keywordtype">double</span>* data_ptr = (<span class="keywordtype">double</span>*)_data_;</div>
+<div class="line"><a id="l03771" name="l03771"></a><span class="lineno"> 3771</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l03772" name="l03772"></a><span class="lineno"> 3772</span> </div>
+<div class="line"><a id="l03773" name="l03773"></a><span class="lineno"> 3773</span>    <span class="keywordflow">return</span> data_vec;</div>
 <div class="line"><a id="l03774" name="l03774"></a><span class="lineno"> 3774</span> </div>
-<div class="line"><a id="l03775" name="l03775"></a><span class="lineno"> 3775</span>    RTsize size;</div>
-<div class="line"><a id="l03776" name="l03776"></a><span class="lineno"> 3776</span>    RT_CHECK_ERROR( rtBufferGetSize1D( buffer, &amp;size ) );</div>
-<div class="line"><a id="l03777" name="l03777"></a><span class="lineno"> 3777</span> </div>
-<div class="line"><a id="l03778" name="l03778"></a><span class="lineno"> 3778</span>    std::vector&lt;double&gt; data_vec;</div>
-<div class="line"><a id="l03779" name="l03779"></a><span class="lineno"> 3779</span>    data_vec.resize(size);</div>
-<div class="line"><a id="l03780" name="l03780"></a><span class="lineno"> 3780</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;size; i++ ){</div>
-<div class="line"><a id="l03781" name="l03781"></a><span class="lineno"> 3781</span>        data_vec.at(i)=data_ptr[i];</div>
-<div class="line"><a id="l03782" name="l03782"></a><span class="lineno"> 3782</span>    }</div>
-<div class="line"><a id="l03783" name="l03783"></a><span class="lineno"> 3783</span> </div>
-<div class="line"><a id="l03784" name="l03784"></a><span class="lineno"> 3784</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l03775" name="l03775"></a><span class="lineno"> 3775</span>}</div>
+<div class="line"><a id="l03776" name="l03776"></a><span class="lineno"> 3776</span> </div>
+<div class="line"><a id="l03777" name="l03777"></a><span class="lineno"> 3777</span>std::vector&lt;double&gt; RadiationModel::getOptiXbufferData_d( RTbuffer buffer ){</div>
+<div class="line"><a id="l03778" name="l03778"></a><span class="lineno"> 3778</span> </div>
+<div class="line"><a id="l03779" name="l03779"></a><span class="lineno"> 3779</span>    <span class="keywordtype">void</span>* _data_;</div>
+<div class="line"><a id="l03780" name="l03780"></a><span class="lineno"> 3780</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;_data_ ) );</div>
+<div class="line"><a id="l03781" name="l03781"></a><span class="lineno"> 3781</span>    <span class="keywordtype">double</span>* data_ptr = (<span class="keywordtype">double</span>*)_data_;</div>
+<div class="line"><a id="l03782" name="l03782"></a><span class="lineno"> 3782</span> </div>
+<div class="line"><a id="l03783" name="l03783"></a><span class="lineno"> 3783</span>    RTsize size;</div>
+<div class="line"><a id="l03784" name="l03784"></a><span class="lineno"> 3784</span>    RT_CHECK_ERROR( rtBufferGetSize1D( buffer, &amp;size ) );</div>
 <div class="line"><a id="l03785" name="l03785"></a><span class="lineno"> 3785</span> </div>
-<div class="line"><a id="l03786" name="l03786"></a><span class="lineno"> 3786</span>    <span class="keywordflow">return</span> data_vec;</div>
-<div class="line"><a id="l03787" name="l03787"></a><span class="lineno"> 3787</span> </div>
-<div class="line"><a id="l03788" name="l03788"></a><span class="lineno"> 3788</span>}</div>
-<div class="line"><a id="l03789" name="l03789"></a><span class="lineno"> 3789</span> </div>
-<div class="line"><a id="l03790" name="l03790"></a><span class="lineno"> 3790</span>std::vector&lt;uint&gt; RadiationModel::getOptiXbufferData_ui( RTbuffer buffer ){</div>
+<div class="line"><a id="l03786" name="l03786"></a><span class="lineno"> 3786</span>    std::vector&lt;double&gt; data_vec;</div>
+<div class="line"><a id="l03787" name="l03787"></a><span class="lineno"> 3787</span>    data_vec.resize(size);</div>
+<div class="line"><a id="l03788" name="l03788"></a><span class="lineno"> 3788</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;size; i++ ){</div>
+<div class="line"><a id="l03789" name="l03789"></a><span class="lineno"> 3789</span>        data_vec.at(i)=data_ptr[i];</div>
+<div class="line"><a id="l03790" name="l03790"></a><span class="lineno"> 3790</span>    }</div>
 <div class="line"><a id="l03791" name="l03791"></a><span class="lineno"> 3791</span> </div>
-<div class="line"><a id="l03792" name="l03792"></a><span class="lineno"> 3792</span>    <span class="keywordtype">void</span>* _data_;</div>
-<div class="line"><a id="l03793" name="l03793"></a><span class="lineno"> 3793</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;_data_ ) );</div>
-<div class="line"><a id="l03794" name="l03794"></a><span class="lineno"> 3794</span>    uint* data_ptr = (uint*)_data_;</div>
+<div class="line"><a id="l03792" name="l03792"></a><span class="lineno"> 3792</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l03793" name="l03793"></a><span class="lineno"> 3793</span> </div>
+<div class="line"><a id="l03794" name="l03794"></a><span class="lineno"> 3794</span>    <span class="keywordflow">return</span> data_vec;</div>
 <div class="line"><a id="l03795" name="l03795"></a><span class="lineno"> 3795</span> </div>
-<div class="line"><a id="l03796" name="l03796"></a><span class="lineno"> 3796</span>    RTsize size;</div>
-<div class="line"><a id="l03797" name="l03797"></a><span class="lineno"> 3797</span>    RT_CHECK_ERROR( rtBufferGetSize1D( buffer, &amp;size ) );</div>
-<div class="line"><a id="l03798" name="l03798"></a><span class="lineno"> 3798</span> </div>
-<div class="line"><a id="l03799" name="l03799"></a><span class="lineno"> 3799</span>    std::vector&lt;uint&gt; data_vec;</div>
-<div class="line"><a id="l03800" name="l03800"></a><span class="lineno"> 3800</span>    data_vec.resize(size);</div>
-<div class="line"><a id="l03801" name="l03801"></a><span class="lineno"> 3801</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;size; i++ ){</div>
-<div class="line"><a id="l03802" name="l03802"></a><span class="lineno"> 3802</span>        data_vec.at(i)=data_ptr[i];</div>
-<div class="line"><a id="l03803" name="l03803"></a><span class="lineno"> 3803</span>    }</div>
-<div class="line"><a id="l03804" name="l03804"></a><span class="lineno"> 3804</span> </div>
-<div class="line"><a id="l03805" name="l03805"></a><span class="lineno"> 3805</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l03796" name="l03796"></a><span class="lineno"> 3796</span>}</div>
+<div class="line"><a id="l03797" name="l03797"></a><span class="lineno"> 3797</span> </div>
+<div class="line"><a id="l03798" name="l03798"></a><span class="lineno"> 3798</span>std::vector&lt;uint&gt; RadiationModel::getOptiXbufferData_ui( RTbuffer buffer ){</div>
+<div class="line"><a id="l03799" name="l03799"></a><span class="lineno"> 3799</span> </div>
+<div class="line"><a id="l03800" name="l03800"></a><span class="lineno"> 3800</span>    <span class="keywordtype">void</span>* _data_;</div>
+<div class="line"><a id="l03801" name="l03801"></a><span class="lineno"> 3801</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;_data_ ) );</div>
+<div class="line"><a id="l03802" name="l03802"></a><span class="lineno"> 3802</span>    uint* data_ptr = (uint*)_data_;</div>
+<div class="line"><a id="l03803" name="l03803"></a><span class="lineno"> 3803</span> </div>
+<div class="line"><a id="l03804" name="l03804"></a><span class="lineno"> 3804</span>    RTsize size;</div>
+<div class="line"><a id="l03805" name="l03805"></a><span class="lineno"> 3805</span>    RT_CHECK_ERROR( rtBufferGetSize1D( buffer, &amp;size ) );</div>
 <div class="line"><a id="l03806" name="l03806"></a><span class="lineno"> 3806</span> </div>
-<div class="line"><a id="l03807" name="l03807"></a><span class="lineno"> 3807</span>    <span class="keywordflow">return</span> data_vec;</div>
-<div class="line"><a id="l03808" name="l03808"></a><span class="lineno"> 3808</span> </div>
-<div class="line"><a id="l03809" name="l03809"></a><span class="lineno"> 3809</span>}</div>
-<div class="line"><a id="l03810" name="l03810"></a><span class="lineno"> 3810</span> </div>
-<div class="line"><a id="l03811" name="l03811"></a><span class="lineno"> 3811</span><span class="keywordtype">void</span> RadiationModel::addBuffer( <span class="keyword">const</span> <span class="keywordtype">char</span>* name, RTbuffer&amp; buffer, RTvariable&amp; variable, RTbuffertype type, RTformat format, <span class="keywordtype">size_t</span> dimension ){</div>
+<div class="line"><a id="l03807" name="l03807"></a><span class="lineno"> 3807</span>    std::vector&lt;uint&gt; data_vec;</div>
+<div class="line"><a id="l03808" name="l03808"></a><span class="lineno"> 3808</span>    data_vec.resize(size);</div>
+<div class="line"><a id="l03809" name="l03809"></a><span class="lineno"> 3809</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;size; i++ ){</div>
+<div class="line"><a id="l03810" name="l03810"></a><span class="lineno"> 3810</span>        data_vec.at(i)=data_ptr[i];</div>
+<div class="line"><a id="l03811" name="l03811"></a><span class="lineno"> 3811</span>    }</div>
 <div class="line"><a id="l03812" name="l03812"></a><span class="lineno"> 3812</span> </div>
-<div class="line"><a id="l03813" name="l03813"></a><span class="lineno"> 3813</span>    RT_CHECK_ERROR( rtBufferCreate( OptiX_Context, type, &amp;buffer ) );</div>
-<div class="line"><a id="l03814" name="l03814"></a><span class="lineno"> 3814</span>    RT_CHECK_ERROR( rtBufferSetFormat( buffer, format ) );</div>
-<div class="line"><a id="l03815" name="l03815"></a><span class="lineno"> 3815</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, name, &amp;variable ) );</div>
-<div class="line"><a id="l03816" name="l03816"></a><span class="lineno"> 3816</span>    RT_CHECK_ERROR( rtVariableSetObject( variable, buffer ) );</div>
-<div class="line"><a id="l03817" name="l03817"></a><span class="lineno"> 3817</span>    <span class="keywordflow">if</span>( dimension==1 ){</div>
-<div class="line"><a id="l03818" name="l03818"></a><span class="lineno"> 3818</span>        zeroBuffer1D( buffer, 1 );</div>
-<div class="line"><a id="l03819" name="l03819"></a><span class="lineno"> 3819</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( dimension==2 ){</div>
-<div class="line"><a id="l03820" name="l03820"></a><span class="lineno"> 3820</span>        zeroBuffer2D( buffer, optix::make_int2(1,1) );</div>
-<div class="line"><a id="l03821" name="l03821"></a><span class="lineno"> 3821</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03822" name="l03822"></a><span class="lineno"> 3822</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::addBuffer): invalid buffer dimension of &quot;</span> + std::to_string(dimension) + <span class="stringliteral">&quot;, must be 1 or 2.&quot;</span>);</div>
-<div class="line"><a id="l03823" name="l03823"></a><span class="lineno"> 3823</span>    }</div>
-<div class="line"><a id="l03824" name="l03824"></a><span class="lineno"> 3824</span> </div>
-<div class="line"><a id="l03825" name="l03825"></a><span class="lineno"> 3825</span>}</div>
-<div class="line"><a id="l03826" name="l03826"></a><span class="lineno"> 3826</span> </div>
-<div class="line"><a id="l03827" name="l03827"></a><span class="lineno"> 3827</span><span class="keywordtype">void</span> RadiationModel::zeroBuffer1D(RTbuffer &amp;buffer, <span class="keywordtype">size_t</span> bsize ){</div>
-<div class="line"><a id="l03828" name="l03828"></a><span class="lineno"> 3828</span> </div>
-<div class="line"><a id="l03829" name="l03829"></a><span class="lineno"> 3829</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l03830" name="l03830"></a><span class="lineno"> 3830</span>    RTformat format;</div>
-<div class="line"><a id="l03831" name="l03831"></a><span class="lineno"> 3831</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l03813" name="l03813"></a><span class="lineno"> 3813</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l03814" name="l03814"></a><span class="lineno"> 3814</span> </div>
+<div class="line"><a id="l03815" name="l03815"></a><span class="lineno"> 3815</span>    <span class="keywordflow">return</span> data_vec;</div>
+<div class="line"><a id="l03816" name="l03816"></a><span class="lineno"> 3816</span> </div>
+<div class="line"><a id="l03817" name="l03817"></a><span class="lineno"> 3817</span>}</div>
+<div class="line"><a id="l03818" name="l03818"></a><span class="lineno"> 3818</span> </div>
+<div class="line"><a id="l03819" name="l03819"></a><span class="lineno"> 3819</span><span class="keywordtype">void</span> RadiationModel::addBuffer( <span class="keyword">const</span> <span class="keywordtype">char</span>* name, RTbuffer&amp; buffer, RTvariable&amp; variable, RTbuffertype type, RTformat format, <span class="keywordtype">size_t</span> dimension ){</div>
+<div class="line"><a id="l03820" name="l03820"></a><span class="lineno"> 3820</span> </div>
+<div class="line"><a id="l03821" name="l03821"></a><span class="lineno"> 3821</span>    RT_CHECK_ERROR( rtBufferCreate( OptiX_Context, type, &amp;buffer ) );</div>
+<div class="line"><a id="l03822" name="l03822"></a><span class="lineno"> 3822</span>    RT_CHECK_ERROR( rtBufferSetFormat( buffer, format ) );</div>
+<div class="line"><a id="l03823" name="l03823"></a><span class="lineno"> 3823</span>    RT_CHECK_ERROR( rtContextDeclareVariable( OptiX_Context, name, &amp;variable ) );</div>
+<div class="line"><a id="l03824" name="l03824"></a><span class="lineno"> 3824</span>    RT_CHECK_ERROR( rtVariableSetObject( variable, buffer ) );</div>
+<div class="line"><a id="l03825" name="l03825"></a><span class="lineno"> 3825</span>    <span class="keywordflow">if</span>( dimension==1 ){</div>
+<div class="line"><a id="l03826" name="l03826"></a><span class="lineno"> 3826</span>        zeroBuffer1D( buffer, 1 );</div>
+<div class="line"><a id="l03827" name="l03827"></a><span class="lineno"> 3827</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( dimension==2 ){</div>
+<div class="line"><a id="l03828" name="l03828"></a><span class="lineno"> 3828</span>        zeroBuffer2D( buffer, optix::make_int2(1,1) );</div>
+<div class="line"><a id="l03829" name="l03829"></a><span class="lineno"> 3829</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l03830" name="l03830"></a><span class="lineno"> 3830</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::addBuffer): invalid buffer dimension of &quot;</span> + std::to_string(dimension) + <span class="stringliteral">&quot;, must be 1 or 2.&quot;</span>);</div>
+<div class="line"><a id="l03831" name="l03831"></a><span class="lineno"> 3831</span>    }</div>
 <div class="line"><a id="l03832" name="l03832"></a><span class="lineno"> 3832</span> </div>
-<div class="line"><a id="l03833" name="l03833"></a><span class="lineno"> 3833</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_USER ){<span class="comment">//Note: for now, assume user format means it&#39;s a double</span></div>
+<div class="line"><a id="l03833" name="l03833"></a><span class="lineno"> 3833</span>}</div>
 <div class="line"><a id="l03834" name="l03834"></a><span class="lineno"> 3834</span> </div>
-<div class="line"><a id="l03835" name="l03835"></a><span class="lineno"> 3835</span>        std::vector&lt;double&gt; array;</div>
-<div class="line"><a id="l03836" name="l03836"></a><span class="lineno"> 3836</span>        array.resize(bsize);</div>
-<div class="line"><a id="l03837" name="l03837"></a><span class="lineno"> 3837</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
-<div class="line"><a id="l03838" name="l03838"></a><span class="lineno"> 3838</span>            array.at(i)=0.f;</div>
-<div class="line"><a id="l03839" name="l03839"></a><span class="lineno"> 3839</span>        }</div>
+<div class="line"><a id="l03835" name="l03835"></a><span class="lineno"> 3835</span><span class="keywordtype">void</span> RadiationModel::zeroBuffer1D(RTbuffer &amp;buffer, <span class="keywordtype">size_t</span> bsize ){</div>
+<div class="line"><a id="l03836" name="l03836"></a><span class="lineno"> 3836</span> </div>
+<div class="line"><a id="l03837" name="l03837"></a><span class="lineno"> 3837</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l03838" name="l03838"></a><span class="lineno"> 3838</span>    RTformat format;</div>
+<div class="line"><a id="l03839" name="l03839"></a><span class="lineno"> 3839</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
 <div class="line"><a id="l03840" name="l03840"></a><span class="lineno"> 3840</span> </div>
-<div class="line"><a id="l03841" name="l03841"></a><span class="lineno"> 3841</span>        initializeBuffer1Dd( buffer, array );</div>
+<div class="line"><a id="l03841" name="l03841"></a><span class="lineno"> 3841</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_USER ){<span class="comment">//Note: for now, assume user format means it&#39;s a double</span></div>
 <div class="line"><a id="l03842" name="l03842"></a><span class="lineno"> 3842</span> </div>
-<div class="line"><a id="l03843" name="l03843"></a><span class="lineno"> 3843</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT ){</div>
-<div class="line"><a id="l03844" name="l03844"></a><span class="lineno"> 3844</span> </div>
-<div class="line"><a id="l03845" name="l03845"></a><span class="lineno"> 3845</span>        std::vector&lt;float&gt; array;</div>
-<div class="line"><a id="l03846" name="l03846"></a><span class="lineno"> 3846</span>        array.resize(bsize);</div>
-<div class="line"><a id="l03847" name="l03847"></a><span class="lineno"> 3847</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
-<div class="line"><a id="l03848" name="l03848"></a><span class="lineno"> 3848</span>            array.at(i)=0.f;</div>
-<div class="line"><a id="l03849" name="l03849"></a><span class="lineno"> 3849</span>        }</div>
+<div class="line"><a id="l03843" name="l03843"></a><span class="lineno"> 3843</span>        std::vector&lt;double&gt; array;</div>
+<div class="line"><a id="l03844" name="l03844"></a><span class="lineno"> 3844</span>        array.resize(bsize);</div>
+<div class="line"><a id="l03845" name="l03845"></a><span class="lineno"> 3845</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
+<div class="line"><a id="l03846" name="l03846"></a><span class="lineno"> 3846</span>            array.at(i)=0.f;</div>
+<div class="line"><a id="l03847" name="l03847"></a><span class="lineno"> 3847</span>        }</div>
+<div class="line"><a id="l03848" name="l03848"></a><span class="lineno"> 3848</span> </div>
+<div class="line"><a id="l03849" name="l03849"></a><span class="lineno"> 3849</span>        initializeBuffer1Dd( buffer, array );</div>
 <div class="line"><a id="l03850" name="l03850"></a><span class="lineno"> 3850</span> </div>
-<div class="line"><a id="l03851" name="l03851"></a><span class="lineno"> 3851</span>        initializeBuffer1Df( buffer, array );</div>
+<div class="line"><a id="l03851" name="l03851"></a><span class="lineno"> 3851</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT ){</div>
 <div class="line"><a id="l03852" name="l03852"></a><span class="lineno"> 3852</span> </div>
-<div class="line"><a id="l03853" name="l03853"></a><span class="lineno"> 3853</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT2 ){</div>
-<div class="line"><a id="l03854" name="l03854"></a><span class="lineno"> 3854</span> </div>
-<div class="line"><a id="l03855" name="l03855"></a><span class="lineno"> 3855</span>        std::vector&lt;optix::float2&gt; array;</div>
-<div class="line"><a id="l03856" name="l03856"></a><span class="lineno"> 3856</span>        array.resize(bsize);</div>
-<div class="line"><a id="l03857" name="l03857"></a><span class="lineno"> 3857</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
-<div class="line"><a id="l03858" name="l03858"></a><span class="lineno"> 3858</span>            array.at(i)=optix::make_float2(0,0);</div>
-<div class="line"><a id="l03859" name="l03859"></a><span class="lineno"> 3859</span>        }</div>
+<div class="line"><a id="l03853" name="l03853"></a><span class="lineno"> 3853</span>        std::vector&lt;float&gt; array;</div>
+<div class="line"><a id="l03854" name="l03854"></a><span class="lineno"> 3854</span>        array.resize(bsize);</div>
+<div class="line"><a id="l03855" name="l03855"></a><span class="lineno"> 3855</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
+<div class="line"><a id="l03856" name="l03856"></a><span class="lineno"> 3856</span>            array.at(i)=0.f;</div>
+<div class="line"><a id="l03857" name="l03857"></a><span class="lineno"> 3857</span>        }</div>
+<div class="line"><a id="l03858" name="l03858"></a><span class="lineno"> 3858</span> </div>
+<div class="line"><a id="l03859" name="l03859"></a><span class="lineno"> 3859</span>        initializeBuffer1Df( buffer, array );</div>
 <div class="line"><a id="l03860" name="l03860"></a><span class="lineno"> 3860</span> </div>
-<div class="line"><a id="l03861" name="l03861"></a><span class="lineno"> 3861</span>        initializeBuffer1Dfloat2( buffer, array );</div>
+<div class="line"><a id="l03861" name="l03861"></a><span class="lineno"> 3861</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT2 ){</div>
 <div class="line"><a id="l03862" name="l03862"></a><span class="lineno"> 3862</span> </div>
-<div class="line"><a id="l03863" name="l03863"></a><span class="lineno"> 3863</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT3 ){</div>
-<div class="line"><a id="l03864" name="l03864"></a><span class="lineno"> 3864</span> </div>
-<div class="line"><a id="l03865" name="l03865"></a><span class="lineno"> 3865</span>        std::vector&lt;optix::float3&gt; array;</div>
-<div class="line"><a id="l03866" name="l03866"></a><span class="lineno"> 3866</span>        array.resize(bsize);</div>
-<div class="line"><a id="l03867" name="l03867"></a><span class="lineno"> 3867</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
-<div class="line"><a id="l03868" name="l03868"></a><span class="lineno"> 3868</span>            array.at(i)=optix::make_float3(0,0,0);</div>
-<div class="line"><a id="l03869" name="l03869"></a><span class="lineno"> 3869</span>        }</div>
+<div class="line"><a id="l03863" name="l03863"></a><span class="lineno"> 3863</span>        std::vector&lt;optix::float2&gt; array;</div>
+<div class="line"><a id="l03864" name="l03864"></a><span class="lineno"> 3864</span>        array.resize(bsize);</div>
+<div class="line"><a id="l03865" name="l03865"></a><span class="lineno"> 3865</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
+<div class="line"><a id="l03866" name="l03866"></a><span class="lineno"> 3866</span>            array.at(i)=optix::make_float2(0,0);</div>
+<div class="line"><a id="l03867" name="l03867"></a><span class="lineno"> 3867</span>        }</div>
+<div class="line"><a id="l03868" name="l03868"></a><span class="lineno"> 3868</span> </div>
+<div class="line"><a id="l03869" name="l03869"></a><span class="lineno"> 3869</span>        initializeBuffer1Dfloat2( buffer, array );</div>
 <div class="line"><a id="l03870" name="l03870"></a><span class="lineno"> 3870</span> </div>
-<div class="line"><a id="l03871" name="l03871"></a><span class="lineno"> 3871</span>        initializeBuffer1Dfloat3( buffer, array );</div>
+<div class="line"><a id="l03871" name="l03871"></a><span class="lineno"> 3871</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT3 ){</div>
 <div class="line"><a id="l03872" name="l03872"></a><span class="lineno"> 3872</span> </div>
-<div class="line"><a id="l03873" name="l03873"></a><span class="lineno"> 3873</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_INT ){</div>
-<div class="line"><a id="l03874" name="l03874"></a><span class="lineno"> 3874</span> </div>
-<div class="line"><a id="l03875" name="l03875"></a><span class="lineno"> 3875</span>        std::vector&lt;int&gt; array;</div>
-<div class="line"><a id="l03876" name="l03876"></a><span class="lineno"> 3876</span>        array.resize(bsize);</div>
-<div class="line"><a id="l03877" name="l03877"></a><span class="lineno"> 3877</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
-<div class="line"><a id="l03878" name="l03878"></a><span class="lineno"> 3878</span>            array.at(i)=0;</div>
-<div class="line"><a id="l03879" name="l03879"></a><span class="lineno"> 3879</span>        }</div>
+<div class="line"><a id="l03873" name="l03873"></a><span class="lineno"> 3873</span>        std::vector&lt;optix::float3&gt; array;</div>
+<div class="line"><a id="l03874" name="l03874"></a><span class="lineno"> 3874</span>        array.resize(bsize);</div>
+<div class="line"><a id="l03875" name="l03875"></a><span class="lineno"> 3875</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
+<div class="line"><a id="l03876" name="l03876"></a><span class="lineno"> 3876</span>            array.at(i)=optix::make_float3(0,0,0);</div>
+<div class="line"><a id="l03877" name="l03877"></a><span class="lineno"> 3877</span>        }</div>
+<div class="line"><a id="l03878" name="l03878"></a><span class="lineno"> 3878</span> </div>
+<div class="line"><a id="l03879" name="l03879"></a><span class="lineno"> 3879</span>        initializeBuffer1Dfloat3( buffer, array );</div>
 <div class="line"><a id="l03880" name="l03880"></a><span class="lineno"> 3880</span> </div>
-<div class="line"><a id="l03881" name="l03881"></a><span class="lineno"> 3881</span>        initializeBuffer1Di( buffer, array );</div>
+<div class="line"><a id="l03881" name="l03881"></a><span class="lineno"> 3881</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_INT ){</div>
 <div class="line"><a id="l03882" name="l03882"></a><span class="lineno"> 3882</span> </div>
-<div class="line"><a id="l03883" name="l03883"></a><span class="lineno"> 3883</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_INT2 ){</div>
-<div class="line"><a id="l03884" name="l03884"></a><span class="lineno"> 3884</span> </div>
-<div class="line"><a id="l03885" name="l03885"></a><span class="lineno"> 3885</span>        std::vector&lt;optix::int2&gt; array;</div>
-<div class="line"><a id="l03886" name="l03886"></a><span class="lineno"> 3886</span>        array.resize(bsize);</div>
-<div class="line"><a id="l03887" name="l03887"></a><span class="lineno"> 3887</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
-<div class="line"><a id="l03888" name="l03888"></a><span class="lineno"> 3888</span>            array.at(i)=optix::make_int2(0,0);</div>
-<div class="line"><a id="l03889" name="l03889"></a><span class="lineno"> 3889</span>        }</div>
+<div class="line"><a id="l03883" name="l03883"></a><span class="lineno"> 3883</span>        std::vector&lt;int&gt; array;</div>
+<div class="line"><a id="l03884" name="l03884"></a><span class="lineno"> 3884</span>        array.resize(bsize);</div>
+<div class="line"><a id="l03885" name="l03885"></a><span class="lineno"> 3885</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
+<div class="line"><a id="l03886" name="l03886"></a><span class="lineno"> 3886</span>            array.at(i)=0;</div>
+<div class="line"><a id="l03887" name="l03887"></a><span class="lineno"> 3887</span>        }</div>
+<div class="line"><a id="l03888" name="l03888"></a><span class="lineno"> 3888</span> </div>
+<div class="line"><a id="l03889" name="l03889"></a><span class="lineno"> 3889</span>        initializeBuffer1Di( buffer, array );</div>
 <div class="line"><a id="l03890" name="l03890"></a><span class="lineno"> 3890</span> </div>
-<div class="line"><a id="l03891" name="l03891"></a><span class="lineno"> 3891</span>        initializeBuffer1Dint2( buffer, array );</div>
+<div class="line"><a id="l03891" name="l03891"></a><span class="lineno"> 3891</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_INT2 ){</div>
 <div class="line"><a id="l03892" name="l03892"></a><span class="lineno"> 3892</span> </div>
-<div class="line"><a id="l03893" name="l03893"></a><span class="lineno"> 3893</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_INT3 ){</div>
-<div class="line"><a id="l03894" name="l03894"></a><span class="lineno"> 3894</span> </div>
-<div class="line"><a id="l03895" name="l03895"></a><span class="lineno"> 3895</span>        std::vector&lt;optix::int3&gt; array;</div>
-<div class="line"><a id="l03896" name="l03896"></a><span class="lineno"> 3896</span>        array.resize(bsize);</div>
-<div class="line"><a id="l03897" name="l03897"></a><span class="lineno"> 3897</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
-<div class="line"><a id="l03898" name="l03898"></a><span class="lineno"> 3898</span>            array.at(i)=optix::make_int3(0,0,0);</div>
-<div class="line"><a id="l03899" name="l03899"></a><span class="lineno"> 3899</span>        }</div>
+<div class="line"><a id="l03893" name="l03893"></a><span class="lineno"> 3893</span>        std::vector&lt;optix::int2&gt; array;</div>
+<div class="line"><a id="l03894" name="l03894"></a><span class="lineno"> 3894</span>        array.resize(bsize);</div>
+<div class="line"><a id="l03895" name="l03895"></a><span class="lineno"> 3895</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
+<div class="line"><a id="l03896" name="l03896"></a><span class="lineno"> 3896</span>            array.at(i)=optix::make_int2(0,0);</div>
+<div class="line"><a id="l03897" name="l03897"></a><span class="lineno"> 3897</span>        }</div>
+<div class="line"><a id="l03898" name="l03898"></a><span class="lineno"> 3898</span> </div>
+<div class="line"><a id="l03899" name="l03899"></a><span class="lineno"> 3899</span>        initializeBuffer1Dint2( buffer, array );</div>
 <div class="line"><a id="l03900" name="l03900"></a><span class="lineno"> 3900</span> </div>
-<div class="line"><a id="l03901" name="l03901"></a><span class="lineno"> 3901</span>        initializeBuffer1Dint3( buffer, array );</div>
+<div class="line"><a id="l03901" name="l03901"></a><span class="lineno"> 3901</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_INT3 ){</div>
 <div class="line"><a id="l03902" name="l03902"></a><span class="lineno"> 3902</span> </div>
-<div class="line"><a id="l03903" name="l03903"></a><span class="lineno"> 3903</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_UNSIGNED_INT ){</div>
-<div class="line"><a id="l03904" name="l03904"></a><span class="lineno"> 3904</span> </div>
-<div class="line"><a id="l03905" name="l03905"></a><span class="lineno"> 3905</span>        std::vector&lt;uint&gt; array;</div>
-<div class="line"><a id="l03906" name="l03906"></a><span class="lineno"> 3906</span>        array.resize(bsize);</div>
-<div class="line"><a id="l03907" name="l03907"></a><span class="lineno"> 3907</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
-<div class="line"><a id="l03908" name="l03908"></a><span class="lineno"> 3908</span>            array.at(i)=0;</div>
-<div class="line"><a id="l03909" name="l03909"></a><span class="lineno"> 3909</span>        }</div>
+<div class="line"><a id="l03903" name="l03903"></a><span class="lineno"> 3903</span>        std::vector&lt;optix::int3&gt; array;</div>
+<div class="line"><a id="l03904" name="l03904"></a><span class="lineno"> 3904</span>        array.resize(bsize);</div>
+<div class="line"><a id="l03905" name="l03905"></a><span class="lineno"> 3905</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
+<div class="line"><a id="l03906" name="l03906"></a><span class="lineno"> 3906</span>            array.at(i)=optix::make_int3(0,0,0);</div>
+<div class="line"><a id="l03907" name="l03907"></a><span class="lineno"> 3907</span>        }</div>
+<div class="line"><a id="l03908" name="l03908"></a><span class="lineno"> 3908</span> </div>
+<div class="line"><a id="l03909" name="l03909"></a><span class="lineno"> 3909</span>        initializeBuffer1Dint3( buffer, array );</div>
 <div class="line"><a id="l03910" name="l03910"></a><span class="lineno"> 3910</span> </div>
-<div class="line"><a id="l03911" name="l03911"></a><span class="lineno"> 3911</span>        initializeBuffer1Dui( buffer, array );</div>
+<div class="line"><a id="l03911" name="l03911"></a><span class="lineno"> 3911</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_UNSIGNED_INT ){</div>
 <div class="line"><a id="l03912" name="l03912"></a><span class="lineno"> 3912</span> </div>
-<div class="line"><a id="l03913" name="l03913"></a><span class="lineno"> 3913</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_BYTE ){</div>
-<div class="line"><a id="l03914" name="l03914"></a><span class="lineno"> 3914</span> </div>
-<div class="line"><a id="l03915" name="l03915"></a><span class="lineno"> 3915</span>        std::vector&lt;char&gt; array;</div>
-<div class="line"><a id="l03916" name="l03916"></a><span class="lineno"> 3916</span>        array.resize(bsize);</div>
-<div class="line"><a id="l03917" name="l03917"></a><span class="lineno"> 3917</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
-<div class="line"><a id="l03918" name="l03918"></a><span class="lineno"> 3918</span>            array.at(i)=0;</div>
-<div class="line"><a id="l03919" name="l03919"></a><span class="lineno"> 3919</span>        }</div>
+<div class="line"><a id="l03913" name="l03913"></a><span class="lineno"> 3913</span>        std::vector&lt;uint&gt; array;</div>
+<div class="line"><a id="l03914" name="l03914"></a><span class="lineno"> 3914</span>        array.resize(bsize);</div>
+<div class="line"><a id="l03915" name="l03915"></a><span class="lineno"> 3915</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
+<div class="line"><a id="l03916" name="l03916"></a><span class="lineno"> 3916</span>            array.at(i)=0;</div>
+<div class="line"><a id="l03917" name="l03917"></a><span class="lineno"> 3917</span>        }</div>
+<div class="line"><a id="l03918" name="l03918"></a><span class="lineno"> 3918</span> </div>
+<div class="line"><a id="l03919" name="l03919"></a><span class="lineno"> 3919</span>        initializeBuffer1Dui( buffer, array );</div>
 <div class="line"><a id="l03920" name="l03920"></a><span class="lineno"> 3920</span> </div>
-<div class="line"><a id="l03921" name="l03921"></a><span class="lineno"> 3921</span>        initializeBuffer1Dchar( buffer, array );</div>
-<div class="line"><a id="l03922" name="l03922"></a><span class="lineno"> 3922</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03923" name="l03923"></a><span class="lineno"> 3923</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::zeroBuffer1D): Buffer type not supported.&quot;</span>);</div>
-<div class="line"><a id="l03924" name="l03924"></a><span class="lineno"> 3924</span>    }</div>
-<div class="line"><a id="l03925" name="l03925"></a><span class="lineno"> 3925</span> </div>
-<div class="line"><a id="l03926" name="l03926"></a><span class="lineno"> 3926</span>}</div>
-<div class="line"><a id="l03927" name="l03927"></a><span class="lineno"> 3927</span> </div>
-<div class="line"><a id="l03928" name="l03928"></a><span class="lineno"> 3928</span><span class="keywordtype">void</span> RadiationModel::copyBuffer1D( RTbuffer &amp;buffer, RTbuffer &amp;buffer_copy ){</div>
-<div class="line"><a id="l03929" name="l03929"></a><span class="lineno"> 3929</span> </div>
-<div class="line"><a id="l03930" name="l03930"></a><span class="lineno"> 3930</span>  <span class="comment">/* \todo Add support for all data types (currently only works for float and float3)*/</span></div>
-<div class="line"><a id="l03931" name="l03931"></a><span class="lineno"> 3931</span> </div>
-<div class="line"><a id="l03932" name="l03932"></a><span class="lineno"> 3932</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l03933" name="l03933"></a><span class="lineno"> 3933</span>    RTformat format;</div>
-<div class="line"><a id="l03934" name="l03934"></a><span class="lineno"> 3934</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l03921" name="l03921"></a><span class="lineno"> 3921</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_BYTE ){</div>
+<div class="line"><a id="l03922" name="l03922"></a><span class="lineno"> 3922</span> </div>
+<div class="line"><a id="l03923" name="l03923"></a><span class="lineno"> 3923</span>        std::vector&lt;char&gt; array;</div>
+<div class="line"><a id="l03924" name="l03924"></a><span class="lineno"> 3924</span>        array.resize(bsize);</div>
+<div class="line"><a id="l03925" name="l03925"></a><span class="lineno"> 3925</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize; i++ ){</div>
+<div class="line"><a id="l03926" name="l03926"></a><span class="lineno"> 3926</span>            array.at(i)=0;</div>
+<div class="line"><a id="l03927" name="l03927"></a><span class="lineno"> 3927</span>        }</div>
+<div class="line"><a id="l03928" name="l03928"></a><span class="lineno"> 3928</span> </div>
+<div class="line"><a id="l03929" name="l03929"></a><span class="lineno"> 3929</span>        initializeBuffer1Dchar( buffer, array );</div>
+<div class="line"><a id="l03930" name="l03930"></a><span class="lineno"> 3930</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l03931" name="l03931"></a><span class="lineno"> 3931</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::zeroBuffer1D): Buffer type not supported.&quot;</span>);</div>
+<div class="line"><a id="l03932" name="l03932"></a><span class="lineno"> 3932</span>    }</div>
+<div class="line"><a id="l03933" name="l03933"></a><span class="lineno"> 3933</span> </div>
+<div class="line"><a id="l03934" name="l03934"></a><span class="lineno"> 3934</span>}</div>
 <div class="line"><a id="l03935" name="l03935"></a><span class="lineno"> 3935</span> </div>
-<div class="line"><a id="l03936" name="l03936"></a><span class="lineno"> 3936</span>    <span class="comment">//get buffer size</span></div>
-<div class="line"><a id="l03937" name="l03937"></a><span class="lineno"> 3937</span>    RTsize bsize;</div>
-<div class="line"><a id="l03938" name="l03938"></a><span class="lineno"> 3938</span>    rtBufferGetSize1D( buffer, &amp;bsize );</div>
+<div class="line"><a id="l03936" name="l03936"></a><span class="lineno"> 3936</span><span class="keywordtype">void</span> RadiationModel::copyBuffer1D( RTbuffer &amp;buffer, RTbuffer &amp;buffer_copy ){</div>
+<div class="line"><a id="l03937" name="l03937"></a><span class="lineno"> 3937</span> </div>
+<div class="line"><a id="l03938" name="l03938"></a><span class="lineno"> 3938</span>  <span class="comment">/* \todo Add support for all data types (currently only works for float and float3)*/</span></div>
 <div class="line"><a id="l03939" name="l03939"></a><span class="lineno"> 3939</span> </div>
-<div class="line"><a id="l03940" name="l03940"></a><span class="lineno"> 3940</span>    rtBufferSetSize1D( buffer_copy, bsize );</div>
-<div class="line"><a id="l03941" name="l03941"></a><span class="lineno"> 3941</span> </div>
-<div class="line"><a id="l03942" name="l03942"></a><span class="lineno"> 3942</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT ){</div>
+<div class="line"><a id="l03940" name="l03940"></a><span class="lineno"> 3940</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l03941" name="l03941"></a><span class="lineno"> 3941</span>    RTformat format;</div>
+<div class="line"><a id="l03942" name="l03942"></a><span class="lineno"> 3942</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
 <div class="line"><a id="l03943" name="l03943"></a><span class="lineno"> 3943</span> </div>
-<div class="line"><a id="l03944" name="l03944"></a><span class="lineno"> 3944</span>        <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l03945" name="l03945"></a><span class="lineno"> 3945</span>        RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l03946" name="l03946"></a><span class="lineno"> 3946</span>        <span class="keywordtype">float</span>* data = (<span class="keywordtype">float</span>*)ptr;</div>
+<div class="line"><a id="l03944" name="l03944"></a><span class="lineno"> 3944</span>    <span class="comment">//get buffer size</span></div>
+<div class="line"><a id="l03945" name="l03945"></a><span class="lineno"> 3945</span>    RTsize bsize;</div>
+<div class="line"><a id="l03946" name="l03946"></a><span class="lineno"> 3946</span>    rtBufferGetSize1D( buffer, &amp;bsize );</div>
 <div class="line"><a id="l03947" name="l03947"></a><span class="lineno"> 3947</span> </div>
-<div class="line"><a id="l03948" name="l03948"></a><span class="lineno"> 3948</span>        <span class="keywordtype">void</span>* ptr_copy;</div>
-<div class="line"><a id="l03949" name="l03949"></a><span class="lineno"> 3949</span>        RT_CHECK_ERROR( rtBufferMap( buffer_copy, &amp;ptr_copy ) );</div>
-<div class="line"><a id="l03950" name="l03950"></a><span class="lineno"> 3950</span>        <span class="keywordtype">float</span>* data_copy = (<span class="keywordtype">float</span>*)ptr_copy;</div>
+<div class="line"><a id="l03948" name="l03948"></a><span class="lineno"> 3948</span>    rtBufferSetSize1D( buffer_copy, bsize );</div>
+<div class="line"><a id="l03949" name="l03949"></a><span class="lineno"> 3949</span> </div>
+<div class="line"><a id="l03950" name="l03950"></a><span class="lineno"> 3950</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT ){</div>
 <div class="line"><a id="l03951" name="l03951"></a><span class="lineno"> 3951</span> </div>
-<div class="line"><a id="l03952" name="l03952"></a><span class="lineno"> 3952</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
-<div class="line"><a id="l03953" name="l03953"></a><span class="lineno"> 3953</span>            data_copy[i] = data[i];</div>
-<div class="line"><a id="l03954" name="l03954"></a><span class="lineno"> 3954</span>        }</div>
+<div class="line"><a id="l03952" name="l03952"></a><span class="lineno"> 3952</span>        <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l03953" name="l03953"></a><span class="lineno"> 3953</span>        RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l03954" name="l03954"></a><span class="lineno"> 3954</span>        <span class="keywordtype">float</span>* data = (<span class="keywordtype">float</span>*)ptr;</div>
 <div class="line"><a id="l03955" name="l03955"></a><span class="lineno"> 3955</span> </div>
-<div class="line"><a id="l03956" name="l03956"></a><span class="lineno"> 3956</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT3 ){</div>
-<div class="line"><a id="l03957" name="l03957"></a><span class="lineno"> 3957</span> </div>
-<div class="line"><a id="l03958" name="l03958"></a><span class="lineno"> 3958</span>        <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l03959" name="l03959"></a><span class="lineno"> 3959</span>        RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l03960" name="l03960"></a><span class="lineno"> 3960</span>        optix::float3* data = (optix::float3*)ptr;</div>
-<div class="line"><a id="l03961" name="l03961"></a><span class="lineno"> 3961</span> </div>
-<div class="line"><a id="l03962" name="l03962"></a><span class="lineno"> 3962</span>        <span class="keywordtype">void</span>* ptr_copy;</div>
-<div class="line"><a id="l03963" name="l03963"></a><span class="lineno"> 3963</span>        RT_CHECK_ERROR( rtBufferMap( buffer_copy, &amp;ptr_copy ) );</div>
-<div class="line"><a id="l03964" name="l03964"></a><span class="lineno"> 3964</span>        optix::float3* data_copy = (optix::float3*)ptr_copy;</div>
+<div class="line"><a id="l03956" name="l03956"></a><span class="lineno"> 3956</span>        <span class="keywordtype">void</span>* ptr_copy;</div>
+<div class="line"><a id="l03957" name="l03957"></a><span class="lineno"> 3957</span>        RT_CHECK_ERROR( rtBufferMap( buffer_copy, &amp;ptr_copy ) );</div>
+<div class="line"><a id="l03958" name="l03958"></a><span class="lineno"> 3958</span>        <span class="keywordtype">float</span>* data_copy = (<span class="keywordtype">float</span>*)ptr_copy;</div>
+<div class="line"><a id="l03959" name="l03959"></a><span class="lineno"> 3959</span> </div>
+<div class="line"><a id="l03960" name="l03960"></a><span class="lineno"> 3960</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
+<div class="line"><a id="l03961" name="l03961"></a><span class="lineno"> 3961</span>            data_copy[i] = data[i];</div>
+<div class="line"><a id="l03962" name="l03962"></a><span class="lineno"> 3962</span>        }</div>
+<div class="line"><a id="l03963" name="l03963"></a><span class="lineno"> 3963</span> </div>
+<div class="line"><a id="l03964" name="l03964"></a><span class="lineno"> 3964</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT3 ){</div>
 <div class="line"><a id="l03965" name="l03965"></a><span class="lineno"> 3965</span> </div>
-<div class="line"><a id="l03966" name="l03966"></a><span class="lineno"> 3966</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
-<div class="line"><a id="l03967" name="l03967"></a><span class="lineno"> 3967</span>            data_copy[i] = data[i];</div>
-<div class="line"><a id="l03968" name="l03968"></a><span class="lineno"> 3968</span>        }</div>
+<div class="line"><a id="l03966" name="l03966"></a><span class="lineno"> 3966</span>        <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l03967" name="l03967"></a><span class="lineno"> 3967</span>        RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l03968" name="l03968"></a><span class="lineno"> 3968</span>        optix::float3* data = (optix::float3*)ptr;</div>
 <div class="line"><a id="l03969" name="l03969"></a><span class="lineno"> 3969</span> </div>
-<div class="line"><a id="l03970" name="l03970"></a><span class="lineno"> 3970</span>    }</div>
-<div class="line"><a id="l03971" name="l03971"></a><span class="lineno"> 3971</span> </div>
-<div class="line"><a id="l03972" name="l03972"></a><span class="lineno"> 3972</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
-<div class="line"><a id="l03973" name="l03973"></a><span class="lineno"> 3973</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer_copy ) );</div>
-<div class="line"><a id="l03974" name="l03974"></a><span class="lineno"> 3974</span> </div>
-<div class="line"><a id="l03975" name="l03975"></a><span class="lineno"> 3975</span>}</div>
-<div class="line"><a id="l03976" name="l03976"></a><span class="lineno"> 3976</span> </div>
-<div class="line"><a id="l03977" name="l03977"></a><span class="lineno"> 3977</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dd(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;double&gt; &amp;array ){</div>
-<div class="line"><a id="l03978" name="l03978"></a><span class="lineno"> 3978</span> </div>
-<div class="line"><a id="l03979" name="l03979"></a><span class="lineno"> 3979</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
-<div class="line"><a id="l03980" name="l03980"></a><span class="lineno"> 3980</span> </div>
-<div class="line"><a id="l03981" name="l03981"></a><span class="lineno"> 3981</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l03982" name="l03982"></a><span class="lineno"> 3982</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
-<div class="line"><a id="l03983" name="l03983"></a><span class="lineno"> 3983</span> </div>
-<div class="line"><a id="l03984" name="l03984"></a><span class="lineno"> 3984</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l03985" name="l03985"></a><span class="lineno"> 3985</span>    RTformat format;</div>
-<div class="line"><a id="l03986" name="l03986"></a><span class="lineno"> 3986</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l03987" name="l03987"></a><span class="lineno"> 3987</span> </div>
-<div class="line"><a id="l03988" name="l03988"></a><span class="lineno"> 3988</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_USER ){</div>
-<div class="line"><a id="l03989" name="l03989"></a><span class="lineno"> 3989</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dd): Buffer must have type double.&quot;</span>);</div>
-<div class="line"><a id="l03990" name="l03990"></a><span class="lineno"> 3990</span>    }</div>
+<div class="line"><a id="l03970" name="l03970"></a><span class="lineno"> 3970</span>        <span class="keywordtype">void</span>* ptr_copy;</div>
+<div class="line"><a id="l03971" name="l03971"></a><span class="lineno"> 3971</span>        RT_CHECK_ERROR( rtBufferMap( buffer_copy, &amp;ptr_copy ) );</div>
+<div class="line"><a id="l03972" name="l03972"></a><span class="lineno"> 3972</span>        optix::float3* data_copy = (optix::float3*)ptr_copy;</div>
+<div class="line"><a id="l03973" name="l03973"></a><span class="lineno"> 3973</span> </div>
+<div class="line"><a id="l03974" name="l03974"></a><span class="lineno"> 3974</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
+<div class="line"><a id="l03975" name="l03975"></a><span class="lineno"> 3975</span>            data_copy[i] = data[i];</div>
+<div class="line"><a id="l03976" name="l03976"></a><span class="lineno"> 3976</span>        }</div>
+<div class="line"><a id="l03977" name="l03977"></a><span class="lineno"> 3977</span> </div>
+<div class="line"><a id="l03978" name="l03978"></a><span class="lineno"> 3978</span>    }</div>
+<div class="line"><a id="l03979" name="l03979"></a><span class="lineno"> 3979</span> </div>
+<div class="line"><a id="l03980" name="l03980"></a><span class="lineno"> 3980</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l03981" name="l03981"></a><span class="lineno"> 3981</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer_copy ) );</div>
+<div class="line"><a id="l03982" name="l03982"></a><span class="lineno"> 3982</span> </div>
+<div class="line"><a id="l03983" name="l03983"></a><span class="lineno"> 3983</span>}</div>
+<div class="line"><a id="l03984" name="l03984"></a><span class="lineno"> 3984</span> </div>
+<div class="line"><a id="l03985" name="l03985"></a><span class="lineno"> 3985</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dd(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;double&gt; &amp;array ){</div>
+<div class="line"><a id="l03986" name="l03986"></a><span class="lineno"> 3986</span> </div>
+<div class="line"><a id="l03987" name="l03987"></a><span class="lineno"> 3987</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l03988" name="l03988"></a><span class="lineno"> 3988</span> </div>
+<div class="line"><a id="l03989" name="l03989"></a><span class="lineno"> 3989</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l03990" name="l03990"></a><span class="lineno"> 3990</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
 <div class="line"><a id="l03991" name="l03991"></a><span class="lineno"> 3991</span> </div>
-<div class="line"><a id="l03992" name="l03992"></a><span class="lineno"> 3992</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l03993" name="l03993"></a><span class="lineno"> 3993</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l03994" name="l03994"></a><span class="lineno"> 3994</span> </div>
-<div class="line"><a id="l03995" name="l03995"></a><span class="lineno"> 3995</span>    <span class="keywordtype">double</span>* data = (<span class="keywordtype">double</span>*)ptr;</div>
-<div class="line"><a id="l03996" name="l03996"></a><span class="lineno"> 3996</span> </div>
-<div class="line"><a id="l03997" name="l03997"></a><span class="lineno"> 3997</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
-<div class="line"><a id="l03998" name="l03998"></a><span class="lineno"> 3998</span>        data[i] = array[i];</div>
-<div class="line"><a id="l03999" name="l03999"></a><span class="lineno"> 3999</span>    }</div>
-<div class="line"><a id="l04000" name="l04000"></a><span class="lineno"> 4000</span> </div>
-<div class="line"><a id="l04001" name="l04001"></a><span class="lineno"> 4001</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l03992" name="l03992"></a><span class="lineno"> 3992</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l03993" name="l03993"></a><span class="lineno"> 3993</span>    RTformat format;</div>
+<div class="line"><a id="l03994" name="l03994"></a><span class="lineno"> 3994</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l03995" name="l03995"></a><span class="lineno"> 3995</span> </div>
+<div class="line"><a id="l03996" name="l03996"></a><span class="lineno"> 3996</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_USER ){</div>
+<div class="line"><a id="l03997" name="l03997"></a><span class="lineno"> 3997</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dd): Buffer must have type double.&quot;</span>);</div>
+<div class="line"><a id="l03998" name="l03998"></a><span class="lineno"> 3998</span>    }</div>
+<div class="line"><a id="l03999" name="l03999"></a><span class="lineno"> 3999</span> </div>
+<div class="line"><a id="l04000" name="l04000"></a><span class="lineno"> 4000</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04001" name="l04001"></a><span class="lineno"> 4001</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
 <div class="line"><a id="l04002" name="l04002"></a><span class="lineno"> 4002</span> </div>
-<div class="line"><a id="l04003" name="l04003"></a><span class="lineno"> 4003</span>}</div>
+<div class="line"><a id="l04003" name="l04003"></a><span class="lineno"> 4003</span>    <span class="keywordtype">double</span>* data = (<span class="keywordtype">double</span>*)ptr;</div>
 <div class="line"><a id="l04004" name="l04004"></a><span class="lineno"> 4004</span> </div>
-<div class="line"><a id="l04005" name="l04005"></a><span class="lineno"> 4005</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Df(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;float&gt; &amp;array ){</div>
-<div class="line"><a id="l04006" name="l04006"></a><span class="lineno"> 4006</span> </div>
-<div class="line"><a id="l04007" name="l04007"></a><span class="lineno"> 4007</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04005" name="l04005"></a><span class="lineno"> 4005</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
+<div class="line"><a id="l04006" name="l04006"></a><span class="lineno"> 4006</span>        data[i] = array[i];</div>
+<div class="line"><a id="l04007" name="l04007"></a><span class="lineno"> 4007</span>    }</div>
 <div class="line"><a id="l04008" name="l04008"></a><span class="lineno"> 4008</span> </div>
-<div class="line"><a id="l04009" name="l04009"></a><span class="lineno"> 4009</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04010" name="l04010"></a><span class="lineno"> 4010</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
-<div class="line"><a id="l04011" name="l04011"></a><span class="lineno"> 4011</span> </div>
-<div class="line"><a id="l04012" name="l04012"></a><span class="lineno"> 4012</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04013" name="l04013"></a><span class="lineno"> 4013</span>    RTformat format;</div>
-<div class="line"><a id="l04014" name="l04014"></a><span class="lineno"> 4014</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04015" name="l04015"></a><span class="lineno"> 4015</span> </div>
-<div class="line"><a id="l04016" name="l04016"></a><span class="lineno"> 4016</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_FLOAT ){</div>
-<div class="line"><a id="l04017" name="l04017"></a><span class="lineno"> 4017</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Df): Buffer must have type float.&quot;</span>);</div>
-<div class="line"><a id="l04018" name="l04018"></a><span class="lineno"> 4018</span>    }</div>
+<div class="line"><a id="l04009" name="l04009"></a><span class="lineno"> 4009</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04010" name="l04010"></a><span class="lineno"> 4010</span> </div>
+<div class="line"><a id="l04011" name="l04011"></a><span class="lineno"> 4011</span>}</div>
+<div class="line"><a id="l04012" name="l04012"></a><span class="lineno"> 4012</span> </div>
+<div class="line"><a id="l04013" name="l04013"></a><span class="lineno"> 4013</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Df(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;float&gt; &amp;array ){</div>
+<div class="line"><a id="l04014" name="l04014"></a><span class="lineno"> 4014</span> </div>
+<div class="line"><a id="l04015" name="l04015"></a><span class="lineno"> 4015</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04016" name="l04016"></a><span class="lineno"> 4016</span> </div>
+<div class="line"><a id="l04017" name="l04017"></a><span class="lineno"> 4017</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04018" name="l04018"></a><span class="lineno"> 4018</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
 <div class="line"><a id="l04019" name="l04019"></a><span class="lineno"> 4019</span> </div>
-<div class="line"><a id="l04020" name="l04020"></a><span class="lineno"> 4020</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04021" name="l04021"></a><span class="lineno"> 4021</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04022" name="l04022"></a><span class="lineno"> 4022</span> </div>
-<div class="line"><a id="l04023" name="l04023"></a><span class="lineno"> 4023</span>    <span class="keywordtype">float</span>* data = (<span class="keywordtype">float</span>*)ptr;</div>
-<div class="line"><a id="l04024" name="l04024"></a><span class="lineno"> 4024</span> </div>
-<div class="line"><a id="l04025" name="l04025"></a><span class="lineno"> 4025</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
-<div class="line"><a id="l04026" name="l04026"></a><span class="lineno"> 4026</span>        data[i] = array[i];</div>
-<div class="line"><a id="l04027" name="l04027"></a><span class="lineno"> 4027</span>    }</div>
-<div class="line"><a id="l04028" name="l04028"></a><span class="lineno"> 4028</span> </div>
-<div class="line"><a id="l04029" name="l04029"></a><span class="lineno"> 4029</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04020" name="l04020"></a><span class="lineno"> 4020</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04021" name="l04021"></a><span class="lineno"> 4021</span>    RTformat format;</div>
+<div class="line"><a id="l04022" name="l04022"></a><span class="lineno"> 4022</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04023" name="l04023"></a><span class="lineno"> 4023</span> </div>
+<div class="line"><a id="l04024" name="l04024"></a><span class="lineno"> 4024</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_FLOAT ){</div>
+<div class="line"><a id="l04025" name="l04025"></a><span class="lineno"> 4025</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Df): Buffer must have type float.&quot;</span>);</div>
+<div class="line"><a id="l04026" name="l04026"></a><span class="lineno"> 4026</span>    }</div>
+<div class="line"><a id="l04027" name="l04027"></a><span class="lineno"> 4027</span> </div>
+<div class="line"><a id="l04028" name="l04028"></a><span class="lineno"> 4028</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04029" name="l04029"></a><span class="lineno"> 4029</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
 <div class="line"><a id="l04030" name="l04030"></a><span class="lineno"> 4030</span> </div>
-<div class="line"><a id="l04031" name="l04031"></a><span class="lineno"> 4031</span>}</div>
+<div class="line"><a id="l04031" name="l04031"></a><span class="lineno"> 4031</span>    <span class="keywordtype">float</span>* data = (<span class="keywordtype">float</span>*)ptr;</div>
 <div class="line"><a id="l04032" name="l04032"></a><span class="lineno"> 4032</span> </div>
-<div class="line"><a id="l04033" name="l04033"></a><span class="lineno"> 4033</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dfloat2(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;optix::float2&gt; &amp;array ){</div>
-<div class="line"><a id="l04034" name="l04034"></a><span class="lineno"> 4034</span> </div>
-<div class="line"><a id="l04035" name="l04035"></a><span class="lineno"> 4035</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04033" name="l04033"></a><span class="lineno"> 4033</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
+<div class="line"><a id="l04034" name="l04034"></a><span class="lineno"> 4034</span>        data[i] = array[i];</div>
+<div class="line"><a id="l04035" name="l04035"></a><span class="lineno"> 4035</span>    }</div>
 <div class="line"><a id="l04036" name="l04036"></a><span class="lineno"> 4036</span> </div>
-<div class="line"><a id="l04037" name="l04037"></a><span class="lineno"> 4037</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04038" name="l04038"></a><span class="lineno"> 4038</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
-<div class="line"><a id="l04039" name="l04039"></a><span class="lineno"> 4039</span> </div>
-<div class="line"><a id="l04040" name="l04040"></a><span class="lineno"> 4040</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04041" name="l04041"></a><span class="lineno"> 4041</span>    RTformat format;</div>
-<div class="line"><a id="l04042" name="l04042"></a><span class="lineno"> 4042</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04043" name="l04043"></a><span class="lineno"> 4043</span> </div>
-<div class="line"><a id="l04044" name="l04044"></a><span class="lineno"> 4044</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_FLOAT2 ){</div>
-<div class="line"><a id="l04045" name="l04045"></a><span class="lineno"> 4045</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dfloat2): Buffer must have type float2.&quot;</span>);</div>
-<div class="line"><a id="l04046" name="l04046"></a><span class="lineno"> 4046</span>    }</div>
+<div class="line"><a id="l04037" name="l04037"></a><span class="lineno"> 4037</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04038" name="l04038"></a><span class="lineno"> 4038</span> </div>
+<div class="line"><a id="l04039" name="l04039"></a><span class="lineno"> 4039</span>}</div>
+<div class="line"><a id="l04040" name="l04040"></a><span class="lineno"> 4040</span> </div>
+<div class="line"><a id="l04041" name="l04041"></a><span class="lineno"> 4041</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dfloat2(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;optix::float2&gt; &amp;array ){</div>
+<div class="line"><a id="l04042" name="l04042"></a><span class="lineno"> 4042</span> </div>
+<div class="line"><a id="l04043" name="l04043"></a><span class="lineno"> 4043</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04044" name="l04044"></a><span class="lineno"> 4044</span> </div>
+<div class="line"><a id="l04045" name="l04045"></a><span class="lineno"> 4045</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04046" name="l04046"></a><span class="lineno"> 4046</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
 <div class="line"><a id="l04047" name="l04047"></a><span class="lineno"> 4047</span> </div>
-<div class="line"><a id="l04048" name="l04048"></a><span class="lineno"> 4048</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04049" name="l04049"></a><span class="lineno"> 4049</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04050" name="l04050"></a><span class="lineno"> 4050</span> </div>
-<div class="line"><a id="l04051" name="l04051"></a><span class="lineno"> 4051</span>    optix::float2* data = (optix::float2*)ptr;</div>
-<div class="line"><a id="l04052" name="l04052"></a><span class="lineno"> 4052</span> </div>
-<div class="line"><a id="l04053" name="l04053"></a><span class="lineno"> 4053</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
-<div class="line"><a id="l04054" name="l04054"></a><span class="lineno"> 4054</span>        data[i].x = array[i].x;</div>
-<div class="line"><a id="l04055" name="l04055"></a><span class="lineno"> 4055</span>        data[i].y = array[i].y;</div>
-<div class="line"><a id="l04056" name="l04056"></a><span class="lineno"> 4056</span>    }</div>
-<div class="line"><a id="l04057" name="l04057"></a><span class="lineno"> 4057</span> </div>
-<div class="line"><a id="l04058" name="l04058"></a><span class="lineno"> 4058</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
-<div class="line"><a id="l04059" name="l04059"></a><span class="lineno"> 4059</span> </div>
-<div class="line"><a id="l04060" name="l04060"></a><span class="lineno"> 4060</span>}</div>
-<div class="line"><a id="l04061" name="l04061"></a><span class="lineno"> 4061</span> </div>
-<div class="line"><a id="l04062" name="l04062"></a><span class="lineno"> 4062</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dfloat3(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;optix::float3&gt; &amp;array ){</div>
-<div class="line"><a id="l04063" name="l04063"></a><span class="lineno"> 4063</span> </div>
-<div class="line"><a id="l04064" name="l04064"></a><span class="lineno"> 4064</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04048" name="l04048"></a><span class="lineno"> 4048</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04049" name="l04049"></a><span class="lineno"> 4049</span>    RTformat format;</div>
+<div class="line"><a id="l04050" name="l04050"></a><span class="lineno"> 4050</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04051" name="l04051"></a><span class="lineno"> 4051</span> </div>
+<div class="line"><a id="l04052" name="l04052"></a><span class="lineno"> 4052</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_FLOAT2 ){</div>
+<div class="line"><a id="l04053" name="l04053"></a><span class="lineno"> 4053</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dfloat2): Buffer must have type float2.&quot;</span>);</div>
+<div class="line"><a id="l04054" name="l04054"></a><span class="lineno"> 4054</span>    }</div>
+<div class="line"><a id="l04055" name="l04055"></a><span class="lineno"> 4055</span> </div>
+<div class="line"><a id="l04056" name="l04056"></a><span class="lineno"> 4056</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04057" name="l04057"></a><span class="lineno"> 4057</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l04058" name="l04058"></a><span class="lineno"> 4058</span> </div>
+<div class="line"><a id="l04059" name="l04059"></a><span class="lineno"> 4059</span>    optix::float2* data = (optix::float2*)ptr;</div>
+<div class="line"><a id="l04060" name="l04060"></a><span class="lineno"> 4060</span> </div>
+<div class="line"><a id="l04061" name="l04061"></a><span class="lineno"> 4061</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
+<div class="line"><a id="l04062" name="l04062"></a><span class="lineno"> 4062</span>        data[i].x = array[i].x;</div>
+<div class="line"><a id="l04063" name="l04063"></a><span class="lineno"> 4063</span>        data[i].y = array[i].y;</div>
+<div class="line"><a id="l04064" name="l04064"></a><span class="lineno"> 4064</span>    }</div>
 <div class="line"><a id="l04065" name="l04065"></a><span class="lineno"> 4065</span> </div>
-<div class="line"><a id="l04066" name="l04066"></a><span class="lineno"> 4066</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04067" name="l04067"></a><span class="lineno"> 4067</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
-<div class="line"><a id="l04068" name="l04068"></a><span class="lineno"> 4068</span> </div>
-<div class="line"><a id="l04069" name="l04069"></a><span class="lineno"> 4069</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04070" name="l04070"></a><span class="lineno"> 4070</span>    RTformat format;</div>
-<div class="line"><a id="l04071" name="l04071"></a><span class="lineno"> 4071</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04072" name="l04072"></a><span class="lineno"> 4072</span> </div>
-<div class="line"><a id="l04073" name="l04073"></a><span class="lineno"> 4073</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_FLOAT3 ){</div>
-<div class="line"><a id="l04074" name="l04074"></a><span class="lineno"> 4074</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dfloat3): Buffer must have type float3.&quot;</span>);</div>
-<div class="line"><a id="l04075" name="l04075"></a><span class="lineno"> 4075</span>    }</div>
+<div class="line"><a id="l04066" name="l04066"></a><span class="lineno"> 4066</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04067" name="l04067"></a><span class="lineno"> 4067</span> </div>
+<div class="line"><a id="l04068" name="l04068"></a><span class="lineno"> 4068</span>}</div>
+<div class="line"><a id="l04069" name="l04069"></a><span class="lineno"> 4069</span> </div>
+<div class="line"><a id="l04070" name="l04070"></a><span class="lineno"> 4070</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dfloat3(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;optix::float3&gt; &amp;array ){</div>
+<div class="line"><a id="l04071" name="l04071"></a><span class="lineno"> 4071</span> </div>
+<div class="line"><a id="l04072" name="l04072"></a><span class="lineno"> 4072</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04073" name="l04073"></a><span class="lineno"> 4073</span> </div>
+<div class="line"><a id="l04074" name="l04074"></a><span class="lineno"> 4074</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04075" name="l04075"></a><span class="lineno"> 4075</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
 <div class="line"><a id="l04076" name="l04076"></a><span class="lineno"> 4076</span> </div>
-<div class="line"><a id="l04077" name="l04077"></a><span class="lineno"> 4077</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04078" name="l04078"></a><span class="lineno"> 4078</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04079" name="l04079"></a><span class="lineno"> 4079</span> </div>
-<div class="line"><a id="l04080" name="l04080"></a><span class="lineno"> 4080</span>    optix::float3* data = (optix::float3*)ptr;</div>
-<div class="line"><a id="l04081" name="l04081"></a><span class="lineno"> 4081</span> </div>
-<div class="line"><a id="l04082" name="l04082"></a><span class="lineno"> 4082</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
-<div class="line"><a id="l04083" name="l04083"></a><span class="lineno"> 4083</span>        data[i].x = array[i].x;</div>
-<div class="line"><a id="l04084" name="l04084"></a><span class="lineno"> 4084</span>        data[i].y = array[i].y;</div>
-<div class="line"><a id="l04085" name="l04085"></a><span class="lineno"> 4085</span>        data[i].z = array[i].z;</div>
-<div class="line"><a id="l04086" name="l04086"></a><span class="lineno"> 4086</span>    }</div>
+<div class="line"><a id="l04077" name="l04077"></a><span class="lineno"> 4077</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04078" name="l04078"></a><span class="lineno"> 4078</span>    RTformat format;</div>
+<div class="line"><a id="l04079" name="l04079"></a><span class="lineno"> 4079</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04080" name="l04080"></a><span class="lineno"> 4080</span> </div>
+<div class="line"><a id="l04081" name="l04081"></a><span class="lineno"> 4081</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_FLOAT3 ){</div>
+<div class="line"><a id="l04082" name="l04082"></a><span class="lineno"> 4082</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dfloat3): Buffer must have type float3.&quot;</span>);</div>
+<div class="line"><a id="l04083" name="l04083"></a><span class="lineno"> 4083</span>    }</div>
+<div class="line"><a id="l04084" name="l04084"></a><span class="lineno"> 4084</span> </div>
+<div class="line"><a id="l04085" name="l04085"></a><span class="lineno"> 4085</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04086" name="l04086"></a><span class="lineno"> 4086</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
 <div class="line"><a id="l04087" name="l04087"></a><span class="lineno"> 4087</span> </div>
-<div class="line"><a id="l04088" name="l04088"></a><span class="lineno"> 4088</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04088" name="l04088"></a><span class="lineno"> 4088</span>    optix::float3* data = (optix::float3*)ptr;</div>
 <div class="line"><a id="l04089" name="l04089"></a><span class="lineno"> 4089</span> </div>
-<div class="line"><a id="l04090" name="l04090"></a><span class="lineno"> 4090</span>}</div>
-<div class="line"><a id="l04091" name="l04091"></a><span class="lineno"> 4091</span> </div>
-<div class="line"><a id="l04092" name="l04092"></a><span class="lineno"> 4092</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dfloat4(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;optix::float4&gt; &amp;array ){</div>
-<div class="line"><a id="l04093" name="l04093"></a><span class="lineno"> 4093</span> </div>
-<div class="line"><a id="l04094" name="l04094"></a><span class="lineno"> 4094</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04090" name="l04090"></a><span class="lineno"> 4090</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
+<div class="line"><a id="l04091" name="l04091"></a><span class="lineno"> 4091</span>        data[i].x = array[i].x;</div>
+<div class="line"><a id="l04092" name="l04092"></a><span class="lineno"> 4092</span>        data[i].y = array[i].y;</div>
+<div class="line"><a id="l04093" name="l04093"></a><span class="lineno"> 4093</span>        data[i].z = array[i].z;</div>
+<div class="line"><a id="l04094" name="l04094"></a><span class="lineno"> 4094</span>    }</div>
 <div class="line"><a id="l04095" name="l04095"></a><span class="lineno"> 4095</span> </div>
-<div class="line"><a id="l04096" name="l04096"></a><span class="lineno"> 4096</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04097" name="l04097"></a><span class="lineno"> 4097</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
-<div class="line"><a id="l04098" name="l04098"></a><span class="lineno"> 4098</span> </div>
-<div class="line"><a id="l04099" name="l04099"></a><span class="lineno"> 4099</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04100" name="l04100"></a><span class="lineno"> 4100</span>    RTformat format;</div>
-<div class="line"><a id="l04101" name="l04101"></a><span class="lineno"> 4101</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04102" name="l04102"></a><span class="lineno"> 4102</span> </div>
-<div class="line"><a id="l04103" name="l04103"></a><span class="lineno"> 4103</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_FLOAT4 ){</div>
-<div class="line"><a id="l04104" name="l04104"></a><span class="lineno"> 4104</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dfloat4): Buffer must have type float4.&quot;</span>);</div>
-<div class="line"><a id="l04105" name="l04105"></a><span class="lineno"> 4105</span>    }</div>
+<div class="line"><a id="l04096" name="l04096"></a><span class="lineno"> 4096</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04097" name="l04097"></a><span class="lineno"> 4097</span> </div>
+<div class="line"><a id="l04098" name="l04098"></a><span class="lineno"> 4098</span>}</div>
+<div class="line"><a id="l04099" name="l04099"></a><span class="lineno"> 4099</span> </div>
+<div class="line"><a id="l04100" name="l04100"></a><span class="lineno"> 4100</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dfloat4(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;optix::float4&gt; &amp;array ){</div>
+<div class="line"><a id="l04101" name="l04101"></a><span class="lineno"> 4101</span> </div>
+<div class="line"><a id="l04102" name="l04102"></a><span class="lineno"> 4102</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04103" name="l04103"></a><span class="lineno"> 4103</span> </div>
+<div class="line"><a id="l04104" name="l04104"></a><span class="lineno"> 4104</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04105" name="l04105"></a><span class="lineno"> 4105</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
 <div class="line"><a id="l04106" name="l04106"></a><span class="lineno"> 4106</span> </div>
-<div class="line"><a id="l04107" name="l04107"></a><span class="lineno"> 4107</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04108" name="l04108"></a><span class="lineno"> 4108</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04109" name="l04109"></a><span class="lineno"> 4109</span> </div>
-<div class="line"><a id="l04110" name="l04110"></a><span class="lineno"> 4110</span>    optix::float4* data = (optix::float4*)ptr;</div>
-<div class="line"><a id="l04111" name="l04111"></a><span class="lineno"> 4111</span> </div>
-<div class="line"><a id="l04112" name="l04112"></a><span class="lineno"> 4112</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
-<div class="line"><a id="l04113" name="l04113"></a><span class="lineno"> 4113</span>        data[i].x = array[i].x;</div>
-<div class="line"><a id="l04114" name="l04114"></a><span class="lineno"> 4114</span>        data[i].y = array[i].y;</div>
-<div class="line"><a id="l04115" name="l04115"></a><span class="lineno"> 4115</span>        data[i].z = array[i].z;</div>
-<div class="line"><a id="l04116" name="l04116"></a><span class="lineno"> 4116</span>        data[i].w = array[i].w;</div>
-<div class="line"><a id="l04117" name="l04117"></a><span class="lineno"> 4117</span>    }</div>
-<div class="line"><a id="l04118" name="l04118"></a><span class="lineno"> 4118</span> </div>
-<div class="line"><a id="l04119" name="l04119"></a><span class="lineno"> 4119</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
-<div class="line"><a id="l04120" name="l04120"></a><span class="lineno"> 4120</span> </div>
-<div class="line"><a id="l04121" name="l04121"></a><span class="lineno"> 4121</span>}</div>
-<div class="line"><a id="l04122" name="l04122"></a><span class="lineno"> 4122</span> </div>
-<div class="line"><a id="l04123" name="l04123"></a><span class="lineno"> 4123</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Di(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;int&gt; &amp;array ){</div>
-<div class="line"><a id="l04124" name="l04124"></a><span class="lineno"> 4124</span> </div>
-<div class="line"><a id="l04125" name="l04125"></a><span class="lineno"> 4125</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04107" name="l04107"></a><span class="lineno"> 4107</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04108" name="l04108"></a><span class="lineno"> 4108</span>    RTformat format;</div>
+<div class="line"><a id="l04109" name="l04109"></a><span class="lineno"> 4109</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04110" name="l04110"></a><span class="lineno"> 4110</span> </div>
+<div class="line"><a id="l04111" name="l04111"></a><span class="lineno"> 4111</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_FLOAT4 ){</div>
+<div class="line"><a id="l04112" name="l04112"></a><span class="lineno"> 4112</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dfloat4): Buffer must have type float4.&quot;</span>);</div>
+<div class="line"><a id="l04113" name="l04113"></a><span class="lineno"> 4113</span>    }</div>
+<div class="line"><a id="l04114" name="l04114"></a><span class="lineno"> 4114</span> </div>
+<div class="line"><a id="l04115" name="l04115"></a><span class="lineno"> 4115</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04116" name="l04116"></a><span class="lineno"> 4116</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l04117" name="l04117"></a><span class="lineno"> 4117</span> </div>
+<div class="line"><a id="l04118" name="l04118"></a><span class="lineno"> 4118</span>    optix::float4* data = (optix::float4*)ptr;</div>
+<div class="line"><a id="l04119" name="l04119"></a><span class="lineno"> 4119</span> </div>
+<div class="line"><a id="l04120" name="l04120"></a><span class="lineno"> 4120</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
+<div class="line"><a id="l04121" name="l04121"></a><span class="lineno"> 4121</span>        data[i].x = array[i].x;</div>
+<div class="line"><a id="l04122" name="l04122"></a><span class="lineno"> 4122</span>        data[i].y = array[i].y;</div>
+<div class="line"><a id="l04123" name="l04123"></a><span class="lineno"> 4123</span>        data[i].z = array[i].z;</div>
+<div class="line"><a id="l04124" name="l04124"></a><span class="lineno"> 4124</span>        data[i].w = array[i].w;</div>
+<div class="line"><a id="l04125" name="l04125"></a><span class="lineno"> 4125</span>    }</div>
 <div class="line"><a id="l04126" name="l04126"></a><span class="lineno"> 4126</span> </div>
-<div class="line"><a id="l04127" name="l04127"></a><span class="lineno"> 4127</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04128" name="l04128"></a><span class="lineno"> 4128</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
-<div class="line"><a id="l04129" name="l04129"></a><span class="lineno"> 4129</span> </div>
-<div class="line"><a id="l04130" name="l04130"></a><span class="lineno"> 4130</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04131" name="l04131"></a><span class="lineno"> 4131</span>    RTformat format;</div>
-<div class="line"><a id="l04132" name="l04132"></a><span class="lineno"> 4132</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04133" name="l04133"></a><span class="lineno"> 4133</span> </div>
-<div class="line"><a id="l04134" name="l04134"></a><span class="lineno"> 4134</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_INT ){</div>
-<div class="line"><a id="l04135" name="l04135"></a><span class="lineno"> 4135</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Di): Buffer must have type int.&quot;</span>);</div>
-<div class="line"><a id="l04136" name="l04136"></a><span class="lineno"> 4136</span>    }</div>
+<div class="line"><a id="l04127" name="l04127"></a><span class="lineno"> 4127</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04128" name="l04128"></a><span class="lineno"> 4128</span> </div>
+<div class="line"><a id="l04129" name="l04129"></a><span class="lineno"> 4129</span>}</div>
+<div class="line"><a id="l04130" name="l04130"></a><span class="lineno"> 4130</span> </div>
+<div class="line"><a id="l04131" name="l04131"></a><span class="lineno"> 4131</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Di(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;int&gt; &amp;array ){</div>
+<div class="line"><a id="l04132" name="l04132"></a><span class="lineno"> 4132</span> </div>
+<div class="line"><a id="l04133" name="l04133"></a><span class="lineno"> 4133</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04134" name="l04134"></a><span class="lineno"> 4134</span> </div>
+<div class="line"><a id="l04135" name="l04135"></a><span class="lineno"> 4135</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04136" name="l04136"></a><span class="lineno"> 4136</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
 <div class="line"><a id="l04137" name="l04137"></a><span class="lineno"> 4137</span> </div>
-<div class="line"><a id="l04138" name="l04138"></a><span class="lineno"> 4138</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04139" name="l04139"></a><span class="lineno"> 4139</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04140" name="l04140"></a><span class="lineno"> 4140</span> </div>
-<div class="line"><a id="l04141" name="l04141"></a><span class="lineno"> 4141</span>    <span class="keywordtype">int</span>* data = (<span class="keywordtype">int</span>*)ptr;</div>
-<div class="line"><a id="l04142" name="l04142"></a><span class="lineno"> 4142</span> </div>
-<div class="line"><a id="l04143" name="l04143"></a><span class="lineno"> 4143</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
-<div class="line"><a id="l04144" name="l04144"></a><span class="lineno"> 4144</span>        data[i] = array[i];</div>
-<div class="line"><a id="l04145" name="l04145"></a><span class="lineno"> 4145</span>    }</div>
-<div class="line"><a id="l04146" name="l04146"></a><span class="lineno"> 4146</span> </div>
-<div class="line"><a id="l04147" name="l04147"></a><span class="lineno"> 4147</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04138" name="l04138"></a><span class="lineno"> 4138</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04139" name="l04139"></a><span class="lineno"> 4139</span>    RTformat format;</div>
+<div class="line"><a id="l04140" name="l04140"></a><span class="lineno"> 4140</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04141" name="l04141"></a><span class="lineno"> 4141</span> </div>
+<div class="line"><a id="l04142" name="l04142"></a><span class="lineno"> 4142</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_INT ){</div>
+<div class="line"><a id="l04143" name="l04143"></a><span class="lineno"> 4143</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Di): Buffer must have type int.&quot;</span>);</div>
+<div class="line"><a id="l04144" name="l04144"></a><span class="lineno"> 4144</span>    }</div>
+<div class="line"><a id="l04145" name="l04145"></a><span class="lineno"> 4145</span> </div>
+<div class="line"><a id="l04146" name="l04146"></a><span class="lineno"> 4146</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04147" name="l04147"></a><span class="lineno"> 4147</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
 <div class="line"><a id="l04148" name="l04148"></a><span class="lineno"> 4148</span> </div>
-<div class="line"><a id="l04149" name="l04149"></a><span class="lineno"> 4149</span>}</div>
+<div class="line"><a id="l04149" name="l04149"></a><span class="lineno"> 4149</span>    <span class="keywordtype">int</span>* data = (<span class="keywordtype">int</span>*)ptr;</div>
 <div class="line"><a id="l04150" name="l04150"></a><span class="lineno"> 4150</span> </div>
-<div class="line"><a id="l04151" name="l04151"></a><span class="lineno"> 4151</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dui(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;uint&gt; &amp;array ){</div>
-<div class="line"><a id="l04152" name="l04152"></a><span class="lineno"> 4152</span> </div>
-<div class="line"><a id="l04153" name="l04153"></a><span class="lineno"> 4153</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04151" name="l04151"></a><span class="lineno"> 4151</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
+<div class="line"><a id="l04152" name="l04152"></a><span class="lineno"> 4152</span>        data[i] = array[i];</div>
+<div class="line"><a id="l04153" name="l04153"></a><span class="lineno"> 4153</span>    }</div>
 <div class="line"><a id="l04154" name="l04154"></a><span class="lineno"> 4154</span> </div>
-<div class="line"><a id="l04155" name="l04155"></a><span class="lineno"> 4155</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04156" name="l04156"></a><span class="lineno"> 4156</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
-<div class="line"><a id="l04157" name="l04157"></a><span class="lineno"> 4157</span> </div>
-<div class="line"><a id="l04158" name="l04158"></a><span class="lineno"> 4158</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04159" name="l04159"></a><span class="lineno"> 4159</span>    RTformat format;</div>
-<div class="line"><a id="l04160" name="l04160"></a><span class="lineno"> 4160</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04161" name="l04161"></a><span class="lineno"> 4161</span> </div>
-<div class="line"><a id="l04162" name="l04162"></a><span class="lineno"> 4162</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_UNSIGNED_INT ){</div>
-<div class="line"><a id="l04163" name="l04163"></a><span class="lineno"> 4163</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dui): Buffer must have type unsigned int.&quot;</span>);</div>
-<div class="line"><a id="l04164" name="l04164"></a><span class="lineno"> 4164</span>    }</div>
+<div class="line"><a id="l04155" name="l04155"></a><span class="lineno"> 4155</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04156" name="l04156"></a><span class="lineno"> 4156</span> </div>
+<div class="line"><a id="l04157" name="l04157"></a><span class="lineno"> 4157</span>}</div>
+<div class="line"><a id="l04158" name="l04158"></a><span class="lineno"> 4158</span> </div>
+<div class="line"><a id="l04159" name="l04159"></a><span class="lineno"> 4159</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dui(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;uint&gt; &amp;array ){</div>
+<div class="line"><a id="l04160" name="l04160"></a><span class="lineno"> 4160</span> </div>
+<div class="line"><a id="l04161" name="l04161"></a><span class="lineno"> 4161</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04162" name="l04162"></a><span class="lineno"> 4162</span> </div>
+<div class="line"><a id="l04163" name="l04163"></a><span class="lineno"> 4163</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04164" name="l04164"></a><span class="lineno"> 4164</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
 <div class="line"><a id="l04165" name="l04165"></a><span class="lineno"> 4165</span> </div>
-<div class="line"><a id="l04166" name="l04166"></a><span class="lineno"> 4166</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04167" name="l04167"></a><span class="lineno"> 4167</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04168" name="l04168"></a><span class="lineno"> 4168</span> </div>
-<div class="line"><a id="l04169" name="l04169"></a><span class="lineno"> 4169</span>    uint* data = (uint*)ptr;</div>
-<div class="line"><a id="l04170" name="l04170"></a><span class="lineno"> 4170</span> </div>
-<div class="line"><a id="l04171" name="l04171"></a><span class="lineno"> 4171</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
-<div class="line"><a id="l04172" name="l04172"></a><span class="lineno"> 4172</span>        data[i] = array[i];</div>
-<div class="line"><a id="l04173" name="l04173"></a><span class="lineno"> 4173</span>    }</div>
-<div class="line"><a id="l04174" name="l04174"></a><span class="lineno"> 4174</span> </div>
-<div class="line"><a id="l04175" name="l04175"></a><span class="lineno"> 4175</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04166" name="l04166"></a><span class="lineno"> 4166</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04167" name="l04167"></a><span class="lineno"> 4167</span>    RTformat format;</div>
+<div class="line"><a id="l04168" name="l04168"></a><span class="lineno"> 4168</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04169" name="l04169"></a><span class="lineno"> 4169</span> </div>
+<div class="line"><a id="l04170" name="l04170"></a><span class="lineno"> 4170</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_UNSIGNED_INT ){</div>
+<div class="line"><a id="l04171" name="l04171"></a><span class="lineno"> 4171</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dui): Buffer must have type unsigned int.&quot;</span>);</div>
+<div class="line"><a id="l04172" name="l04172"></a><span class="lineno"> 4172</span>    }</div>
+<div class="line"><a id="l04173" name="l04173"></a><span class="lineno"> 4173</span> </div>
+<div class="line"><a id="l04174" name="l04174"></a><span class="lineno"> 4174</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04175" name="l04175"></a><span class="lineno"> 4175</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
 <div class="line"><a id="l04176" name="l04176"></a><span class="lineno"> 4176</span> </div>
-<div class="line"><a id="l04177" name="l04177"></a><span class="lineno"> 4177</span>}</div>
+<div class="line"><a id="l04177" name="l04177"></a><span class="lineno"> 4177</span>    uint* data = (uint*)ptr;</div>
 <div class="line"><a id="l04178" name="l04178"></a><span class="lineno"> 4178</span> </div>
-<div class="line"><a id="l04179" name="l04179"></a><span class="lineno"> 4179</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dint2(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;optix::int2&gt; &amp;array ){</div>
-<div class="line"><a id="l04180" name="l04180"></a><span class="lineno"> 4180</span> </div>
-<div class="line"><a id="l04181" name="l04181"></a><span class="lineno"> 4181</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04179" name="l04179"></a><span class="lineno"> 4179</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
+<div class="line"><a id="l04180" name="l04180"></a><span class="lineno"> 4180</span>        data[i] = array[i];</div>
+<div class="line"><a id="l04181" name="l04181"></a><span class="lineno"> 4181</span>    }</div>
 <div class="line"><a id="l04182" name="l04182"></a><span class="lineno"> 4182</span> </div>
-<div class="line"><a id="l04183" name="l04183"></a><span class="lineno"> 4183</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04184" name="l04184"></a><span class="lineno"> 4184</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
-<div class="line"><a id="l04185" name="l04185"></a><span class="lineno"> 4185</span> </div>
-<div class="line"><a id="l04186" name="l04186"></a><span class="lineno"> 4186</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04187" name="l04187"></a><span class="lineno"> 4187</span>    RTformat format;</div>
-<div class="line"><a id="l04188" name="l04188"></a><span class="lineno"> 4188</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04189" name="l04189"></a><span class="lineno"> 4189</span> </div>
-<div class="line"><a id="l04190" name="l04190"></a><span class="lineno"> 4190</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_INT2 ){</div>
-<div class="line"><a id="l04191" name="l04191"></a><span class="lineno"> 4191</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dint2): Buffer must have type int2.&quot;</span>);</div>
-<div class="line"><a id="l04192" name="l04192"></a><span class="lineno"> 4192</span>    }</div>
+<div class="line"><a id="l04183" name="l04183"></a><span class="lineno"> 4183</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04184" name="l04184"></a><span class="lineno"> 4184</span> </div>
+<div class="line"><a id="l04185" name="l04185"></a><span class="lineno"> 4185</span>}</div>
+<div class="line"><a id="l04186" name="l04186"></a><span class="lineno"> 4186</span> </div>
+<div class="line"><a id="l04187" name="l04187"></a><span class="lineno"> 4187</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dint2(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;optix::int2&gt; &amp;array ){</div>
+<div class="line"><a id="l04188" name="l04188"></a><span class="lineno"> 4188</span> </div>
+<div class="line"><a id="l04189" name="l04189"></a><span class="lineno"> 4189</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04190" name="l04190"></a><span class="lineno"> 4190</span> </div>
+<div class="line"><a id="l04191" name="l04191"></a><span class="lineno"> 4191</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04192" name="l04192"></a><span class="lineno"> 4192</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
 <div class="line"><a id="l04193" name="l04193"></a><span class="lineno"> 4193</span> </div>
-<div class="line"><a id="l04194" name="l04194"></a><span class="lineno"> 4194</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04195" name="l04195"></a><span class="lineno"> 4195</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04196" name="l04196"></a><span class="lineno"> 4196</span> </div>
-<div class="line"><a id="l04197" name="l04197"></a><span class="lineno"> 4197</span>    optix::int2* data = (optix::int2*)ptr;</div>
-<div class="line"><a id="l04198" name="l04198"></a><span class="lineno"> 4198</span> </div>
-<div class="line"><a id="l04199" name="l04199"></a><span class="lineno"> 4199</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
-<div class="line"><a id="l04200" name="l04200"></a><span class="lineno"> 4200</span>        data[i] = array[i];</div>
-<div class="line"><a id="l04201" name="l04201"></a><span class="lineno"> 4201</span>    }</div>
-<div class="line"><a id="l04202" name="l04202"></a><span class="lineno"> 4202</span> </div>
-<div class="line"><a id="l04203" name="l04203"></a><span class="lineno"> 4203</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04194" name="l04194"></a><span class="lineno"> 4194</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04195" name="l04195"></a><span class="lineno"> 4195</span>    RTformat format;</div>
+<div class="line"><a id="l04196" name="l04196"></a><span class="lineno"> 4196</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04197" name="l04197"></a><span class="lineno"> 4197</span> </div>
+<div class="line"><a id="l04198" name="l04198"></a><span class="lineno"> 4198</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_INT2 ){</div>
+<div class="line"><a id="l04199" name="l04199"></a><span class="lineno"> 4199</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dint2): Buffer must have type int2.&quot;</span>);</div>
+<div class="line"><a id="l04200" name="l04200"></a><span class="lineno"> 4200</span>    }</div>
+<div class="line"><a id="l04201" name="l04201"></a><span class="lineno"> 4201</span> </div>
+<div class="line"><a id="l04202" name="l04202"></a><span class="lineno"> 4202</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04203" name="l04203"></a><span class="lineno"> 4203</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
 <div class="line"><a id="l04204" name="l04204"></a><span class="lineno"> 4204</span> </div>
-<div class="line"><a id="l04205" name="l04205"></a><span class="lineno"> 4205</span>}</div>
+<div class="line"><a id="l04205" name="l04205"></a><span class="lineno"> 4205</span>    optix::int2* data = (optix::int2*)ptr;</div>
 <div class="line"><a id="l04206" name="l04206"></a><span class="lineno"> 4206</span> </div>
-<div class="line"><a id="l04207" name="l04207"></a><span class="lineno"> 4207</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dint3(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;optix::int3&gt; &amp;array ){</div>
-<div class="line"><a id="l04208" name="l04208"></a><span class="lineno"> 4208</span> </div>
-<div class="line"><a id="l04209" name="l04209"></a><span class="lineno"> 4209</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04207" name="l04207"></a><span class="lineno"> 4207</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
+<div class="line"><a id="l04208" name="l04208"></a><span class="lineno"> 4208</span>        data[i] = array[i];</div>
+<div class="line"><a id="l04209" name="l04209"></a><span class="lineno"> 4209</span>    }</div>
 <div class="line"><a id="l04210" name="l04210"></a><span class="lineno"> 4210</span> </div>
-<div class="line"><a id="l04211" name="l04211"></a><span class="lineno"> 4211</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04212" name="l04212"></a><span class="lineno"> 4212</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
-<div class="line"><a id="l04213" name="l04213"></a><span class="lineno"> 4213</span> </div>
-<div class="line"><a id="l04214" name="l04214"></a><span class="lineno"> 4214</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04215" name="l04215"></a><span class="lineno"> 4215</span>    RTformat format;</div>
-<div class="line"><a id="l04216" name="l04216"></a><span class="lineno"> 4216</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04217" name="l04217"></a><span class="lineno"> 4217</span> </div>
-<div class="line"><a id="l04218" name="l04218"></a><span class="lineno"> 4218</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_INT3 ){</div>
-<div class="line"><a id="l04219" name="l04219"></a><span class="lineno"> 4219</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dint3): Buffer must have type int3.&quot;</span>);</div>
-<div class="line"><a id="l04220" name="l04220"></a><span class="lineno"> 4220</span>    }</div>
+<div class="line"><a id="l04211" name="l04211"></a><span class="lineno"> 4211</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04212" name="l04212"></a><span class="lineno"> 4212</span> </div>
+<div class="line"><a id="l04213" name="l04213"></a><span class="lineno"> 4213</span>}</div>
+<div class="line"><a id="l04214" name="l04214"></a><span class="lineno"> 4214</span> </div>
+<div class="line"><a id="l04215" name="l04215"></a><span class="lineno"> 4215</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dint3(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;optix::int3&gt; &amp;array ){</div>
+<div class="line"><a id="l04216" name="l04216"></a><span class="lineno"> 4216</span> </div>
+<div class="line"><a id="l04217" name="l04217"></a><span class="lineno"> 4217</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04218" name="l04218"></a><span class="lineno"> 4218</span> </div>
+<div class="line"><a id="l04219" name="l04219"></a><span class="lineno"> 4219</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04220" name="l04220"></a><span class="lineno"> 4220</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
 <div class="line"><a id="l04221" name="l04221"></a><span class="lineno"> 4221</span> </div>
-<div class="line"><a id="l04222" name="l04222"></a><span class="lineno"> 4222</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04223" name="l04223"></a><span class="lineno"> 4223</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04224" name="l04224"></a><span class="lineno"> 4224</span> </div>
-<div class="line"><a id="l04225" name="l04225"></a><span class="lineno"> 4225</span>    optix::int3* data = (optix::int3*)ptr;</div>
-<div class="line"><a id="l04226" name="l04226"></a><span class="lineno"> 4226</span> </div>
-<div class="line"><a id="l04227" name="l04227"></a><span class="lineno"> 4227</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
-<div class="line"><a id="l04228" name="l04228"></a><span class="lineno"> 4228</span>        data[i] = array[i];</div>
-<div class="line"><a id="l04229" name="l04229"></a><span class="lineno"> 4229</span>    }</div>
-<div class="line"><a id="l04230" name="l04230"></a><span class="lineno"> 4230</span> </div>
-<div class="line"><a id="l04231" name="l04231"></a><span class="lineno"> 4231</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04222" name="l04222"></a><span class="lineno"> 4222</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04223" name="l04223"></a><span class="lineno"> 4223</span>    RTformat format;</div>
+<div class="line"><a id="l04224" name="l04224"></a><span class="lineno"> 4224</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04225" name="l04225"></a><span class="lineno"> 4225</span> </div>
+<div class="line"><a id="l04226" name="l04226"></a><span class="lineno"> 4226</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_INT3 ){</div>
+<div class="line"><a id="l04227" name="l04227"></a><span class="lineno"> 4227</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dint3): Buffer must have type int3.&quot;</span>);</div>
+<div class="line"><a id="l04228" name="l04228"></a><span class="lineno"> 4228</span>    }</div>
+<div class="line"><a id="l04229" name="l04229"></a><span class="lineno"> 4229</span> </div>
+<div class="line"><a id="l04230" name="l04230"></a><span class="lineno"> 4230</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04231" name="l04231"></a><span class="lineno"> 4231</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
 <div class="line"><a id="l04232" name="l04232"></a><span class="lineno"> 4232</span> </div>
-<div class="line"><a id="l04233" name="l04233"></a><span class="lineno"> 4233</span>}</div>
+<div class="line"><a id="l04233" name="l04233"></a><span class="lineno"> 4233</span>    optix::int3* data = (optix::int3*)ptr;</div>
 <div class="line"><a id="l04234" name="l04234"></a><span class="lineno"> 4234</span> </div>
-<div class="line"><a id="l04235" name="l04235"></a><span class="lineno"> 4235</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dchar(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;char&gt; &amp;array ){</div>
-<div class="line"><a id="l04236" name="l04236"></a><span class="lineno"> 4236</span> </div>
-<div class="line"><a id="l04237" name="l04237"></a><span class="lineno"> 4237</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04235" name="l04235"></a><span class="lineno"> 4235</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
+<div class="line"><a id="l04236" name="l04236"></a><span class="lineno"> 4236</span>        data[i] = array[i];</div>
+<div class="line"><a id="l04237" name="l04237"></a><span class="lineno"> 4237</span>    }</div>
 <div class="line"><a id="l04238" name="l04238"></a><span class="lineno"> 4238</span> </div>
-<div class="line"><a id="l04239" name="l04239"></a><span class="lineno"> 4239</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04240" name="l04240"></a><span class="lineno"> 4240</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
-<div class="line"><a id="l04241" name="l04241"></a><span class="lineno"> 4241</span> </div>
-<div class="line"><a id="l04242" name="l04242"></a><span class="lineno"> 4242</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04243" name="l04243"></a><span class="lineno"> 4243</span>    RTformat format;</div>
-<div class="line"><a id="l04244" name="l04244"></a><span class="lineno"> 4244</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04245" name="l04245"></a><span class="lineno"> 4245</span> </div>
-<div class="line"><a id="l04246" name="l04246"></a><span class="lineno"> 4246</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_BYTE ){</div>
-<div class="line"><a id="l04247" name="l04247"></a><span class="lineno"> 4247</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dchar): Buffer must have type char.&quot;</span>);</div>
-<div class="line"><a id="l04248" name="l04248"></a><span class="lineno"> 4248</span>    }</div>
+<div class="line"><a id="l04239" name="l04239"></a><span class="lineno"> 4239</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04240" name="l04240"></a><span class="lineno"> 4240</span> </div>
+<div class="line"><a id="l04241" name="l04241"></a><span class="lineno"> 4241</span>}</div>
+<div class="line"><a id="l04242" name="l04242"></a><span class="lineno"> 4242</span> </div>
+<div class="line"><a id="l04243" name="l04243"></a><span class="lineno"> 4243</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer1Dchar(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;char&gt; &amp;array ){</div>
+<div class="line"><a id="l04244" name="l04244"></a><span class="lineno"> 4244</span> </div>
+<div class="line"><a id="l04245" name="l04245"></a><span class="lineno"> 4245</span>    <span class="keywordtype">size_t</span> bsize = array.size();</div>
+<div class="line"><a id="l04246" name="l04246"></a><span class="lineno"> 4246</span> </div>
+<div class="line"><a id="l04247" name="l04247"></a><span class="lineno"> 4247</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04248" name="l04248"></a><span class="lineno"> 4248</span>    RT_CHECK_ERROR( rtBufferSetSize1D( buffer, bsize ) );</div>
 <div class="line"><a id="l04249" name="l04249"></a><span class="lineno"> 4249</span> </div>
-<div class="line"><a id="l04250" name="l04250"></a><span class="lineno"> 4250</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04251" name="l04251"></a><span class="lineno"> 4251</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04252" name="l04252"></a><span class="lineno"> 4252</span> </div>
-<div class="line"><a id="l04253" name="l04253"></a><span class="lineno"> 4253</span>    <span class="keywordtype">char</span>* data = (<span class="keywordtype">char</span>*)ptr;</div>
-<div class="line"><a id="l04254" name="l04254"></a><span class="lineno"> 4254</span> </div>
-<div class="line"><a id="l04255" name="l04255"></a><span class="lineno"> 4255</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
-<div class="line"><a id="l04256" name="l04256"></a><span class="lineno"> 4256</span>        data[i] = array[i];</div>
-<div class="line"><a id="l04257" name="l04257"></a><span class="lineno"> 4257</span>    }</div>
-<div class="line"><a id="l04258" name="l04258"></a><span class="lineno"> 4258</span> </div>
-<div class="line"><a id="l04259" name="l04259"></a><span class="lineno"> 4259</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04250" name="l04250"></a><span class="lineno"> 4250</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04251" name="l04251"></a><span class="lineno"> 4251</span>    RTformat format;</div>
+<div class="line"><a id="l04252" name="l04252"></a><span class="lineno"> 4252</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04253" name="l04253"></a><span class="lineno"> 4253</span> </div>
+<div class="line"><a id="l04254" name="l04254"></a><span class="lineno"> 4254</span>    <span class="keywordflow">if</span>( format!=RT_FORMAT_BYTE ){</div>
+<div class="line"><a id="l04255" name="l04255"></a><span class="lineno"> 4255</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer1Dchar): Buffer must have type char.&quot;</span>);</div>
+<div class="line"><a id="l04256" name="l04256"></a><span class="lineno"> 4256</span>    }</div>
+<div class="line"><a id="l04257" name="l04257"></a><span class="lineno"> 4257</span> </div>
+<div class="line"><a id="l04258" name="l04258"></a><span class="lineno"> 4258</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04259" name="l04259"></a><span class="lineno"> 4259</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
 <div class="line"><a id="l04260" name="l04260"></a><span class="lineno"> 4260</span> </div>
-<div class="line"><a id="l04261" name="l04261"></a><span class="lineno"> 4261</span>}</div>
+<div class="line"><a id="l04261" name="l04261"></a><span class="lineno"> 4261</span>    <span class="keywordtype">char</span>* data = (<span class="keywordtype">char</span>*)ptr;</div>
 <div class="line"><a id="l04262" name="l04262"></a><span class="lineno"> 4262</span> </div>
-<div class="line"><a id="l04263" name="l04263"></a><span class="lineno"> 4263</span><span class="keywordtype">void</span> RadiationModel::zeroBuffer2D(RTbuffer &amp;buffer, optix::int2 bsize ){</div>
-<div class="line"><a id="l04264" name="l04264"></a><span class="lineno"> 4264</span> </div>
-<div class="line"><a id="l04265" name="l04265"></a><span class="lineno"> 4265</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04266" name="l04266"></a><span class="lineno"> 4266</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
-<div class="line"><a id="l04267" name="l04267"></a><span class="lineno"> 4267</span> </div>
-<div class="line"><a id="l04268" name="l04268"></a><span class="lineno"> 4268</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04269" name="l04269"></a><span class="lineno"> 4269</span>    RTformat format;</div>
-<div class="line"><a id="l04270" name="l04270"></a><span class="lineno"> 4270</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04271" name="l04271"></a><span class="lineno"> 4271</span> </div>
-<div class="line"><a id="l04272" name="l04272"></a><span class="lineno"> 4272</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_USER ){<span class="comment">//Note: for now we&#39;ll assume this means it&#39;s a double</span></div>
-<div class="line"><a id="l04273" name="l04273"></a><span class="lineno"> 4273</span>        std::vector&lt;std::vector&lt;double&gt; &gt; array;</div>
-<div class="line"><a id="l04274" name="l04274"></a><span class="lineno"> 4274</span>        array.resize(bsize.y);</div>
-<div class="line"><a id="l04275" name="l04275"></a><span class="lineno"> 4275</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
-<div class="line"><a id="l04276" name="l04276"></a><span class="lineno"> 4276</span>            array.at(j).resize(bsize.x);</div>
-<div class="line"><a id="l04277" name="l04277"></a><span class="lineno"> 4277</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
-<div class="line"><a id="l04278" name="l04278"></a><span class="lineno"> 4278</span>                array.at(j).at(i)=0.f;</div>
-<div class="line"><a id="l04279" name="l04279"></a><span class="lineno"> 4279</span>            }</div>
-<div class="line"><a id="l04280" name="l04280"></a><span class="lineno"> 4280</span>        }</div>
-<div class="line"><a id="l04281" name="l04281"></a><span class="lineno"> 4281</span>        initializeBuffer2Dd( buffer, array );</div>
-<div class="line"><a id="l04282" name="l04282"></a><span class="lineno"> 4282</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT ){</div>
-<div class="line"><a id="l04283" name="l04283"></a><span class="lineno"> 4283</span>        std::vector&lt;std::vector&lt;float&gt; &gt; array;</div>
-<div class="line"><a id="l04284" name="l04284"></a><span class="lineno"> 4284</span>        array.resize(bsize.y);</div>
-<div class="line"><a id="l04285" name="l04285"></a><span class="lineno"> 4285</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
-<div class="line"><a id="l04286" name="l04286"></a><span class="lineno"> 4286</span>            array.at(j).resize(bsize.x);</div>
-<div class="line"><a id="l04287" name="l04287"></a><span class="lineno"> 4287</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
-<div class="line"><a id="l04288" name="l04288"></a><span class="lineno"> 4288</span>                array.at(j).at(i)=0.f;</div>
-<div class="line"><a id="l04289" name="l04289"></a><span class="lineno"> 4289</span>            }</div>
-<div class="line"><a id="l04290" name="l04290"></a><span class="lineno"> 4290</span>        }</div>
-<div class="line"><a id="l04291" name="l04291"></a><span class="lineno"> 4291</span>        initializeBuffer2Df( buffer, array );</div>
-<div class="line"><a id="l04292" name="l04292"></a><span class="lineno"> 4292</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT2 ){</div>
-<div class="line"><a id="l04293" name="l04293"></a><span class="lineno"> 4293</span>        std::vector&lt;std::vector&lt;optix::float2&gt; &gt; array;</div>
-<div class="line"><a id="l04294" name="l04294"></a><span class="lineno"> 4294</span>        array.resize(bsize.y);</div>
-<div class="line"><a id="l04295" name="l04295"></a><span class="lineno"> 4295</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
-<div class="line"><a id="l04296" name="l04296"></a><span class="lineno"> 4296</span>            array.at(j).resize(bsize.x);</div>
-<div class="line"><a id="l04297" name="l04297"></a><span class="lineno"> 4297</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
-<div class="line"><a id="l04298" name="l04298"></a><span class="lineno"> 4298</span>                array.at(j).at(i).x=0.f;</div>
-<div class="line"><a id="l04299" name="l04299"></a><span class="lineno"> 4299</span>                array.at(j).at(i).y=0.f;</div>
-<div class="line"><a id="l04300" name="l04300"></a><span class="lineno"> 4300</span>            }</div>
-<div class="line"><a id="l04301" name="l04301"></a><span class="lineno"> 4301</span>        }</div>
-<div class="line"><a id="l04302" name="l04302"></a><span class="lineno"> 4302</span>        initializeBuffer2Dfloat2( buffer, array );</div>
-<div class="line"><a id="l04303" name="l04303"></a><span class="lineno"> 4303</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT3 ){</div>
-<div class="line"><a id="l04304" name="l04304"></a><span class="lineno"> 4304</span>        std::vector&lt;std::vector&lt;optix::float3&gt; &gt; array;</div>
-<div class="line"><a id="l04305" name="l04305"></a><span class="lineno"> 4305</span>        array.resize(bsize.y);</div>
-<div class="line"><a id="l04306" name="l04306"></a><span class="lineno"> 4306</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
-<div class="line"><a id="l04307" name="l04307"></a><span class="lineno"> 4307</span>            array.at(j).resize(bsize.x);</div>
-<div class="line"><a id="l04308" name="l04308"></a><span class="lineno"> 4308</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
-<div class="line"><a id="l04309" name="l04309"></a><span class="lineno"> 4309</span>                array.at(j).at(i).x=0.f;</div>
-<div class="line"><a id="l04310" name="l04310"></a><span class="lineno"> 4310</span>                array.at(j).at(i).y=0.f;</div>
-<div class="line"><a id="l04311" name="l04311"></a><span class="lineno"> 4311</span>                array.at(j).at(i).z=0.f;</div>
-<div class="line"><a id="l04312" name="l04312"></a><span class="lineno"> 4312</span>            }</div>
-<div class="line"><a id="l04313" name="l04313"></a><span class="lineno"> 4313</span>        }</div>
-<div class="line"><a id="l04314" name="l04314"></a><span class="lineno"> 4314</span>        initializeBuffer2Dfloat3( buffer, array );</div>
-<div class="line"><a id="l04315" name="l04315"></a><span class="lineno"> 4315</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT4 ){</div>
-<div class="line"><a id="l04316" name="l04316"></a><span class="lineno"> 4316</span>        std::vector&lt;std::vector&lt;optix::float4&gt; &gt; array;</div>
-<div class="line"><a id="l04317" name="l04317"></a><span class="lineno"> 4317</span>        array.resize(bsize.y);</div>
-<div class="line"><a id="l04318" name="l04318"></a><span class="lineno"> 4318</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
-<div class="line"><a id="l04319" name="l04319"></a><span class="lineno"> 4319</span>            array.at(j).resize(bsize.x);</div>
-<div class="line"><a id="l04320" name="l04320"></a><span class="lineno"> 4320</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
-<div class="line"><a id="l04321" name="l04321"></a><span class="lineno"> 4321</span>                array.at(j).at(i).x=0.f;</div>
-<div class="line"><a id="l04322" name="l04322"></a><span class="lineno"> 4322</span>                array.at(j).at(i).y=0.f;</div>
-<div class="line"><a id="l04323" name="l04323"></a><span class="lineno"> 4323</span>                array.at(j).at(i).z=0.f;</div>
-<div class="line"><a id="l04324" name="l04324"></a><span class="lineno"> 4324</span>                array.at(j).at(i).w=0.f;</div>
-<div class="line"><a id="l04325" name="l04325"></a><span class="lineno"> 4325</span>            }</div>
-<div class="line"><a id="l04326" name="l04326"></a><span class="lineno"> 4326</span>        }</div>
-<div class="line"><a id="l04327" name="l04327"></a><span class="lineno"> 4327</span>        initializeBuffer2Dfloat4( buffer, array );</div>
-<div class="line"><a id="l04328" name="l04328"></a><span class="lineno"> 4328</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_INT ){</div>
-<div class="line"><a id="l04329" name="l04329"></a><span class="lineno"> 4329</span>        std::vector&lt;std::vector&lt;int&gt; &gt; array;</div>
-<div class="line"><a id="l04330" name="l04330"></a><span class="lineno"> 4330</span>        array.resize(bsize.y);</div>
-<div class="line"><a id="l04331" name="l04331"></a><span class="lineno"> 4331</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
-<div class="line"><a id="l04332" name="l04332"></a><span class="lineno"> 4332</span>            array.at(j).resize(bsize.x);</div>
-<div class="line"><a id="l04333" name="l04333"></a><span class="lineno"> 4333</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
-<div class="line"><a id="l04334" name="l04334"></a><span class="lineno"> 4334</span>                array.at(j).at(i)=0;</div>
-<div class="line"><a id="l04335" name="l04335"></a><span class="lineno"> 4335</span>            }</div>
-<div class="line"><a id="l04336" name="l04336"></a><span class="lineno"> 4336</span>        }</div>
-<div class="line"><a id="l04337" name="l04337"></a><span class="lineno"> 4337</span>        initializeBuffer2Di( buffer, array );</div>
-<div class="line"><a id="l04338" name="l04338"></a><span class="lineno"> 4338</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_UNSIGNED_INT ){</div>
-<div class="line"><a id="l04339" name="l04339"></a><span class="lineno"> 4339</span>        std::vector&lt;std::vector&lt;uint&gt; &gt; array;</div>
-<div class="line"><a id="l04340" name="l04340"></a><span class="lineno"> 4340</span>        array.resize(bsize.y);</div>
-<div class="line"><a id="l04341" name="l04341"></a><span class="lineno"> 4341</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
-<div class="line"><a id="l04342" name="l04342"></a><span class="lineno"> 4342</span>            array.at(j).resize(bsize.x);</div>
-<div class="line"><a id="l04343" name="l04343"></a><span class="lineno"> 4343</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
-<div class="line"><a id="l04344" name="l04344"></a><span class="lineno"> 4344</span>                array.at(j).at(i)=0;</div>
-<div class="line"><a id="l04345" name="l04345"></a><span class="lineno"> 4345</span>            }</div>
-<div class="line"><a id="l04346" name="l04346"></a><span class="lineno"> 4346</span>        }</div>
-<div class="line"><a id="l04347" name="l04347"></a><span class="lineno"> 4347</span>        initializeBuffer2Dui( buffer, array );</div>
-<div class="line"><a id="l04348" name="l04348"></a><span class="lineno"> 4348</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_INT2 ){</div>
-<div class="line"><a id="l04349" name="l04349"></a><span class="lineno"> 4349</span>        std::vector&lt;std::vector&lt;optix::int2&gt; &gt; array;</div>
-<div class="line"><a id="l04350" name="l04350"></a><span class="lineno"> 4350</span>        array.resize(bsize.y);</div>
-<div class="line"><a id="l04351" name="l04351"></a><span class="lineno"> 4351</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
-<div class="line"><a id="l04352" name="l04352"></a><span class="lineno"> 4352</span>            array.at(j).resize(bsize.x);</div>
-<div class="line"><a id="l04353" name="l04353"></a><span class="lineno"> 4353</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
-<div class="line"><a id="l04354" name="l04354"></a><span class="lineno"> 4354</span>                array.at(j).at(i).x=0;</div>
-<div class="line"><a id="l04355" name="l04355"></a><span class="lineno"> 4355</span>                array.at(j).at(i).y=0;</div>
-<div class="line"><a id="l04356" name="l04356"></a><span class="lineno"> 4356</span>            }</div>
-<div class="line"><a id="l04357" name="l04357"></a><span class="lineno"> 4357</span>        }</div>
-<div class="line"><a id="l04358" name="l04358"></a><span class="lineno"> 4358</span>        initializeBuffer2Dint2( buffer, array );</div>
-<div class="line"><a id="l04359" name="l04359"></a><span class="lineno"> 4359</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_INT3 ){</div>
-<div class="line"><a id="l04360" name="l04360"></a><span class="lineno"> 4360</span>        std::vector&lt;std::vector&lt;optix::int3&gt; &gt; array;</div>
-<div class="line"><a id="l04361" name="l04361"></a><span class="lineno"> 4361</span>        array.resize(bsize.y);</div>
-<div class="line"><a id="l04362" name="l04362"></a><span class="lineno"> 4362</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
-<div class="line"><a id="l04363" name="l04363"></a><span class="lineno"> 4363</span>            array.at(j).resize(bsize.x);</div>
-<div class="line"><a id="l04364" name="l04364"></a><span class="lineno"> 4364</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
-<div class="line"><a id="l04365" name="l04365"></a><span class="lineno"> 4365</span>                array.at(j).at(i).x=0;</div>
-<div class="line"><a id="l04366" name="l04366"></a><span class="lineno"> 4366</span>                array.at(j).at(i).y=0;</div>
-<div class="line"><a id="l04367" name="l04367"></a><span class="lineno"> 4367</span>                array.at(j).at(i).z=0;</div>
-<div class="line"><a id="l04368" name="l04368"></a><span class="lineno"> 4368</span>            }</div>
-<div class="line"><a id="l04369" name="l04369"></a><span class="lineno"> 4369</span>        }</div>
-<div class="line"><a id="l04370" name="l04370"></a><span class="lineno"> 4370</span>        initializeBuffer2Dint3( buffer, array );</div>
-<div class="line"><a id="l04371" name="l04371"></a><span class="lineno"> 4371</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_BYTE ){</div>
-<div class="line"><a id="l04372" name="l04372"></a><span class="lineno"> 4372</span>        std::vector&lt;std::vector&lt;bool&gt; &gt; array;</div>
-<div class="line"><a id="l04373" name="l04373"></a><span class="lineno"> 4373</span>        array.resize(bsize.y);</div>
-<div class="line"><a id="l04374" name="l04374"></a><span class="lineno"> 4374</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
-<div class="line"><a id="l04375" name="l04375"></a><span class="lineno"> 4375</span>            array.at(j).resize(bsize.x);</div>
-<div class="line"><a id="l04376" name="l04376"></a><span class="lineno"> 4376</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
-<div class="line"><a id="l04377" name="l04377"></a><span class="lineno"> 4377</span>                array.at(j).at(i)=<span class="keyword">false</span>;</div>
-<div class="line"><a id="l04378" name="l04378"></a><span class="lineno"> 4378</span>            }</div>
-<div class="line"><a id="l04379" name="l04379"></a><span class="lineno"> 4379</span>        }</div>
-<div class="line"><a id="l04380" name="l04380"></a><span class="lineno"> 4380</span>        initializeBuffer2Dbool( buffer, array );</div>
-<div class="line"><a id="l04381" name="l04381"></a><span class="lineno"> 4381</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04382" name="l04382"></a><span class="lineno"> 4382</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::zeroBuffer2D): unknown buffer format.&quot;</span>);</div>
-<div class="line"><a id="l04383" name="l04383"></a><span class="lineno"> 4383</span>    }</div>
-<div class="line"><a id="l04384" name="l04384"></a><span class="lineno"> 4384</span> </div>
-<div class="line"><a id="l04385" name="l04385"></a><span class="lineno"> 4385</span>}</div>
-<div class="line"><a id="l04386" name="l04386"></a><span class="lineno"> 4386</span> </div>
-<div class="line"><a id="l04387" name="l04387"></a><span class="lineno"> 4387</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dd(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;double&gt;&gt; &amp;array ){</div>
-<div class="line"><a id="l04388" name="l04388"></a><span class="lineno"> 4388</span> </div>
-<div class="line"><a id="l04389" name="l04389"></a><span class="lineno"> 4389</span>    optix::int2 bsize;</div>
-<div class="line"><a id="l04390" name="l04390"></a><span class="lineno"> 4390</span>    bsize.y = array.size();</div>
-<div class="line"><a id="l04391" name="l04391"></a><span class="lineno"> 4391</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
-<div class="line"><a id="l04392" name="l04392"></a><span class="lineno"> 4392</span>        bsize.x = 0;</div>
-<div class="line"><a id="l04393" name="l04393"></a><span class="lineno"> 4393</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04394" name="l04394"></a><span class="lineno"> 4394</span>        bsize.x = array.front().size();</div>
-<div class="line"><a id="l04395" name="l04395"></a><span class="lineno"> 4395</span>    }</div>
+<div class="line"><a id="l04263" name="l04263"></a><span class="lineno"> 4263</span>    <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i &lt;bsize; i++ ) {</div>
+<div class="line"><a id="l04264" name="l04264"></a><span class="lineno"> 4264</span>        data[i] = array[i];</div>
+<div class="line"><a id="l04265" name="l04265"></a><span class="lineno"> 4265</span>    }</div>
+<div class="line"><a id="l04266" name="l04266"></a><span class="lineno"> 4266</span> </div>
+<div class="line"><a id="l04267" name="l04267"></a><span class="lineno"> 4267</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04268" name="l04268"></a><span class="lineno"> 4268</span> </div>
+<div class="line"><a id="l04269" name="l04269"></a><span class="lineno"> 4269</span>}</div>
+<div class="line"><a id="l04270" name="l04270"></a><span class="lineno"> 4270</span> </div>
+<div class="line"><a id="l04271" name="l04271"></a><span class="lineno"> 4271</span><span class="keywordtype">void</span> RadiationModel::zeroBuffer2D(RTbuffer &amp;buffer, optix::int2 bsize ){</div>
+<div class="line"><a id="l04272" name="l04272"></a><span class="lineno"> 4272</span> </div>
+<div class="line"><a id="l04273" name="l04273"></a><span class="lineno"> 4273</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04274" name="l04274"></a><span class="lineno"> 4274</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
+<div class="line"><a id="l04275" name="l04275"></a><span class="lineno"> 4275</span> </div>
+<div class="line"><a id="l04276" name="l04276"></a><span class="lineno"> 4276</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04277" name="l04277"></a><span class="lineno"> 4277</span>    RTformat format;</div>
+<div class="line"><a id="l04278" name="l04278"></a><span class="lineno"> 4278</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04279" name="l04279"></a><span class="lineno"> 4279</span> </div>
+<div class="line"><a id="l04280" name="l04280"></a><span class="lineno"> 4280</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_USER ){<span class="comment">//Note: for now we&#39;ll assume this means it&#39;s a double</span></div>
+<div class="line"><a id="l04281" name="l04281"></a><span class="lineno"> 4281</span>        std::vector&lt;std::vector&lt;double&gt; &gt; array;</div>
+<div class="line"><a id="l04282" name="l04282"></a><span class="lineno"> 4282</span>        array.resize(bsize.y);</div>
+<div class="line"><a id="l04283" name="l04283"></a><span class="lineno"> 4283</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
+<div class="line"><a id="l04284" name="l04284"></a><span class="lineno"> 4284</span>            array.at(j).resize(bsize.x);</div>
+<div class="line"><a id="l04285" name="l04285"></a><span class="lineno"> 4285</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
+<div class="line"><a id="l04286" name="l04286"></a><span class="lineno"> 4286</span>                array.at(j).at(i)=0.f;</div>
+<div class="line"><a id="l04287" name="l04287"></a><span class="lineno"> 4287</span>            }</div>
+<div class="line"><a id="l04288" name="l04288"></a><span class="lineno"> 4288</span>        }</div>
+<div class="line"><a id="l04289" name="l04289"></a><span class="lineno"> 4289</span>        initializeBuffer2Dd( buffer, array );</div>
+<div class="line"><a id="l04290" name="l04290"></a><span class="lineno"> 4290</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT ){</div>
+<div class="line"><a id="l04291" name="l04291"></a><span class="lineno"> 4291</span>        std::vector&lt;std::vector&lt;float&gt; &gt; array;</div>
+<div class="line"><a id="l04292" name="l04292"></a><span class="lineno"> 4292</span>        array.resize(bsize.y);</div>
+<div class="line"><a id="l04293" name="l04293"></a><span class="lineno"> 4293</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
+<div class="line"><a id="l04294" name="l04294"></a><span class="lineno"> 4294</span>            array.at(j).resize(bsize.x);</div>
+<div class="line"><a id="l04295" name="l04295"></a><span class="lineno"> 4295</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
+<div class="line"><a id="l04296" name="l04296"></a><span class="lineno"> 4296</span>                array.at(j).at(i)=0.f;</div>
+<div class="line"><a id="l04297" name="l04297"></a><span class="lineno"> 4297</span>            }</div>
+<div class="line"><a id="l04298" name="l04298"></a><span class="lineno"> 4298</span>        }</div>
+<div class="line"><a id="l04299" name="l04299"></a><span class="lineno"> 4299</span>        initializeBuffer2Df( buffer, array );</div>
+<div class="line"><a id="l04300" name="l04300"></a><span class="lineno"> 4300</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT2 ){</div>
+<div class="line"><a id="l04301" name="l04301"></a><span class="lineno"> 4301</span>        std::vector&lt;std::vector&lt;optix::float2&gt; &gt; array;</div>
+<div class="line"><a id="l04302" name="l04302"></a><span class="lineno"> 4302</span>        array.resize(bsize.y);</div>
+<div class="line"><a id="l04303" name="l04303"></a><span class="lineno"> 4303</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
+<div class="line"><a id="l04304" name="l04304"></a><span class="lineno"> 4304</span>            array.at(j).resize(bsize.x);</div>
+<div class="line"><a id="l04305" name="l04305"></a><span class="lineno"> 4305</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
+<div class="line"><a id="l04306" name="l04306"></a><span class="lineno"> 4306</span>                array.at(j).at(i).x=0.f;</div>
+<div class="line"><a id="l04307" name="l04307"></a><span class="lineno"> 4307</span>                array.at(j).at(i).y=0.f;</div>
+<div class="line"><a id="l04308" name="l04308"></a><span class="lineno"> 4308</span>            }</div>
+<div class="line"><a id="l04309" name="l04309"></a><span class="lineno"> 4309</span>        }</div>
+<div class="line"><a id="l04310" name="l04310"></a><span class="lineno"> 4310</span>        initializeBuffer2Dfloat2( buffer, array );</div>
+<div class="line"><a id="l04311" name="l04311"></a><span class="lineno"> 4311</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT3 ){</div>
+<div class="line"><a id="l04312" name="l04312"></a><span class="lineno"> 4312</span>        std::vector&lt;std::vector&lt;optix::float3&gt; &gt; array;</div>
+<div class="line"><a id="l04313" name="l04313"></a><span class="lineno"> 4313</span>        array.resize(bsize.y);</div>
+<div class="line"><a id="l04314" name="l04314"></a><span class="lineno"> 4314</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
+<div class="line"><a id="l04315" name="l04315"></a><span class="lineno"> 4315</span>            array.at(j).resize(bsize.x);</div>
+<div class="line"><a id="l04316" name="l04316"></a><span class="lineno"> 4316</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
+<div class="line"><a id="l04317" name="l04317"></a><span class="lineno"> 4317</span>                array.at(j).at(i).x=0.f;</div>
+<div class="line"><a id="l04318" name="l04318"></a><span class="lineno"> 4318</span>                array.at(j).at(i).y=0.f;</div>
+<div class="line"><a id="l04319" name="l04319"></a><span class="lineno"> 4319</span>                array.at(j).at(i).z=0.f;</div>
+<div class="line"><a id="l04320" name="l04320"></a><span class="lineno"> 4320</span>            }</div>
+<div class="line"><a id="l04321" name="l04321"></a><span class="lineno"> 4321</span>        }</div>
+<div class="line"><a id="l04322" name="l04322"></a><span class="lineno"> 4322</span>        initializeBuffer2Dfloat3( buffer, array );</div>
+<div class="line"><a id="l04323" name="l04323"></a><span class="lineno"> 4323</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT4 ){</div>
+<div class="line"><a id="l04324" name="l04324"></a><span class="lineno"> 4324</span>        std::vector&lt;std::vector&lt;optix::float4&gt; &gt; array;</div>
+<div class="line"><a id="l04325" name="l04325"></a><span class="lineno"> 4325</span>        array.resize(bsize.y);</div>
+<div class="line"><a id="l04326" name="l04326"></a><span class="lineno"> 4326</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
+<div class="line"><a id="l04327" name="l04327"></a><span class="lineno"> 4327</span>            array.at(j).resize(bsize.x);</div>
+<div class="line"><a id="l04328" name="l04328"></a><span class="lineno"> 4328</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
+<div class="line"><a id="l04329" name="l04329"></a><span class="lineno"> 4329</span>                array.at(j).at(i).x=0.f;</div>
+<div class="line"><a id="l04330" name="l04330"></a><span class="lineno"> 4330</span>                array.at(j).at(i).y=0.f;</div>
+<div class="line"><a id="l04331" name="l04331"></a><span class="lineno"> 4331</span>                array.at(j).at(i).z=0.f;</div>
+<div class="line"><a id="l04332" name="l04332"></a><span class="lineno"> 4332</span>                array.at(j).at(i).w=0.f;</div>
+<div class="line"><a id="l04333" name="l04333"></a><span class="lineno"> 4333</span>            }</div>
+<div class="line"><a id="l04334" name="l04334"></a><span class="lineno"> 4334</span>        }</div>
+<div class="line"><a id="l04335" name="l04335"></a><span class="lineno"> 4335</span>        initializeBuffer2Dfloat4( buffer, array );</div>
+<div class="line"><a id="l04336" name="l04336"></a><span class="lineno"> 4336</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_INT ){</div>
+<div class="line"><a id="l04337" name="l04337"></a><span class="lineno"> 4337</span>        std::vector&lt;std::vector&lt;int&gt; &gt; array;</div>
+<div class="line"><a id="l04338" name="l04338"></a><span class="lineno"> 4338</span>        array.resize(bsize.y);</div>
+<div class="line"><a id="l04339" name="l04339"></a><span class="lineno"> 4339</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
+<div class="line"><a id="l04340" name="l04340"></a><span class="lineno"> 4340</span>            array.at(j).resize(bsize.x);</div>
+<div class="line"><a id="l04341" name="l04341"></a><span class="lineno"> 4341</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
+<div class="line"><a id="l04342" name="l04342"></a><span class="lineno"> 4342</span>                array.at(j).at(i)=0;</div>
+<div class="line"><a id="l04343" name="l04343"></a><span class="lineno"> 4343</span>            }</div>
+<div class="line"><a id="l04344" name="l04344"></a><span class="lineno"> 4344</span>        }</div>
+<div class="line"><a id="l04345" name="l04345"></a><span class="lineno"> 4345</span>        initializeBuffer2Di( buffer, array );</div>
+<div class="line"><a id="l04346" name="l04346"></a><span class="lineno"> 4346</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_UNSIGNED_INT ){</div>
+<div class="line"><a id="l04347" name="l04347"></a><span class="lineno"> 4347</span>        std::vector&lt;std::vector&lt;uint&gt; &gt; array;</div>
+<div class="line"><a id="l04348" name="l04348"></a><span class="lineno"> 4348</span>        array.resize(bsize.y);</div>
+<div class="line"><a id="l04349" name="l04349"></a><span class="lineno"> 4349</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
+<div class="line"><a id="l04350" name="l04350"></a><span class="lineno"> 4350</span>            array.at(j).resize(bsize.x);</div>
+<div class="line"><a id="l04351" name="l04351"></a><span class="lineno"> 4351</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
+<div class="line"><a id="l04352" name="l04352"></a><span class="lineno"> 4352</span>                array.at(j).at(i)=0;</div>
+<div class="line"><a id="l04353" name="l04353"></a><span class="lineno"> 4353</span>            }</div>
+<div class="line"><a id="l04354" name="l04354"></a><span class="lineno"> 4354</span>        }</div>
+<div class="line"><a id="l04355" name="l04355"></a><span class="lineno"> 4355</span>        initializeBuffer2Dui( buffer, array );</div>
+<div class="line"><a id="l04356" name="l04356"></a><span class="lineno"> 4356</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_INT2 ){</div>
+<div class="line"><a id="l04357" name="l04357"></a><span class="lineno"> 4357</span>        std::vector&lt;std::vector&lt;optix::int2&gt; &gt; array;</div>
+<div class="line"><a id="l04358" name="l04358"></a><span class="lineno"> 4358</span>        array.resize(bsize.y);</div>
+<div class="line"><a id="l04359" name="l04359"></a><span class="lineno"> 4359</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
+<div class="line"><a id="l04360" name="l04360"></a><span class="lineno"> 4360</span>            array.at(j).resize(bsize.x);</div>
+<div class="line"><a id="l04361" name="l04361"></a><span class="lineno"> 4361</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
+<div class="line"><a id="l04362" name="l04362"></a><span class="lineno"> 4362</span>                array.at(j).at(i).x=0;</div>
+<div class="line"><a id="l04363" name="l04363"></a><span class="lineno"> 4363</span>                array.at(j).at(i).y=0;</div>
+<div class="line"><a id="l04364" name="l04364"></a><span class="lineno"> 4364</span>            }</div>
+<div class="line"><a id="l04365" name="l04365"></a><span class="lineno"> 4365</span>        }</div>
+<div class="line"><a id="l04366" name="l04366"></a><span class="lineno"> 4366</span>        initializeBuffer2Dint2( buffer, array );</div>
+<div class="line"><a id="l04367" name="l04367"></a><span class="lineno"> 4367</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_INT3 ){</div>
+<div class="line"><a id="l04368" name="l04368"></a><span class="lineno"> 4368</span>        std::vector&lt;std::vector&lt;optix::int3&gt; &gt; array;</div>
+<div class="line"><a id="l04369" name="l04369"></a><span class="lineno"> 4369</span>        array.resize(bsize.y);</div>
+<div class="line"><a id="l04370" name="l04370"></a><span class="lineno"> 4370</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
+<div class="line"><a id="l04371" name="l04371"></a><span class="lineno"> 4371</span>            array.at(j).resize(bsize.x);</div>
+<div class="line"><a id="l04372" name="l04372"></a><span class="lineno"> 4372</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
+<div class="line"><a id="l04373" name="l04373"></a><span class="lineno"> 4373</span>                array.at(j).at(i).x=0;</div>
+<div class="line"><a id="l04374" name="l04374"></a><span class="lineno"> 4374</span>                array.at(j).at(i).y=0;</div>
+<div class="line"><a id="l04375" name="l04375"></a><span class="lineno"> 4375</span>                array.at(j).at(i).z=0;</div>
+<div class="line"><a id="l04376" name="l04376"></a><span class="lineno"> 4376</span>            }</div>
+<div class="line"><a id="l04377" name="l04377"></a><span class="lineno"> 4377</span>        }</div>
+<div class="line"><a id="l04378" name="l04378"></a><span class="lineno"> 4378</span>        initializeBuffer2Dint3( buffer, array );</div>
+<div class="line"><a id="l04379" name="l04379"></a><span class="lineno"> 4379</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_BYTE ){</div>
+<div class="line"><a id="l04380" name="l04380"></a><span class="lineno"> 4380</span>        std::vector&lt;std::vector&lt;bool&gt; &gt; array;</div>
+<div class="line"><a id="l04381" name="l04381"></a><span class="lineno"> 4381</span>        array.resize(bsize.y);</div>
+<div class="line"><a id="l04382" name="l04382"></a><span class="lineno"> 4382</span>        <span class="keywordflow">for</span>( <span class="keywordtype">int</span> j=0; j&lt;bsize.y; j++ ){</div>
+<div class="line"><a id="l04383" name="l04383"></a><span class="lineno"> 4383</span>            array.at(j).resize(bsize.x);</div>
+<div class="line"><a id="l04384" name="l04384"></a><span class="lineno"> 4384</span>            <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;bsize.x; i++ ){</div>
+<div class="line"><a id="l04385" name="l04385"></a><span class="lineno"> 4385</span>                array.at(j).at(i)=<span class="keyword">false</span>;</div>
+<div class="line"><a id="l04386" name="l04386"></a><span class="lineno"> 4386</span>            }</div>
+<div class="line"><a id="l04387" name="l04387"></a><span class="lineno"> 4387</span>        }</div>
+<div class="line"><a id="l04388" name="l04388"></a><span class="lineno"> 4388</span>        initializeBuffer2Dbool( buffer, array );</div>
+<div class="line"><a id="l04389" name="l04389"></a><span class="lineno"> 4389</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04390" name="l04390"></a><span class="lineno"> 4390</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::zeroBuffer2D): unknown buffer format.&quot;</span>);</div>
+<div class="line"><a id="l04391" name="l04391"></a><span class="lineno"> 4391</span>    }</div>
+<div class="line"><a id="l04392" name="l04392"></a><span class="lineno"> 4392</span> </div>
+<div class="line"><a id="l04393" name="l04393"></a><span class="lineno"> 4393</span>}</div>
+<div class="line"><a id="l04394" name="l04394"></a><span class="lineno"> 4394</span> </div>
+<div class="line"><a id="l04395" name="l04395"></a><span class="lineno"> 4395</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dd(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;double&gt;&gt; &amp;array ){</div>
 <div class="line"><a id="l04396" name="l04396"></a><span class="lineno"> 4396</span> </div>
-<div class="line"><a id="l04397" name="l04397"></a><span class="lineno"> 4397</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04398" name="l04398"></a><span class="lineno"> 4398</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
-<div class="line"><a id="l04399" name="l04399"></a><span class="lineno"> 4399</span> </div>
-<div class="line"><a id="l04400" name="l04400"></a><span class="lineno"> 4400</span>    <span class="comment">//get buffer formatsyn</span></div>
-<div class="line"><a id="l04401" name="l04401"></a><span class="lineno"> 4401</span>    RTformat format;</div>
-<div class="line"><a id="l04402" name="l04402"></a><span class="lineno"> 4402</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04403" name="l04403"></a><span class="lineno"> 4403</span> </div>
-<div class="line"><a id="l04404" name="l04404"></a><span class="lineno"> 4404</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04405" name="l04405"></a><span class="lineno"> 4405</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04406" name="l04406"></a><span class="lineno"> 4406</span> </div>
-<div class="line"><a id="l04407" name="l04407"></a><span class="lineno"> 4407</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_USER ){</div>
-<div class="line"><a id="l04408" name="l04408"></a><span class="lineno"> 4408</span>        <span class="keywordtype">double</span>* data = (<span class="keywordtype">double</span>*)ptr;</div>
-<div class="line"><a id="l04409" name="l04409"></a><span class="lineno"> 4409</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
-<div class="line"><a id="l04410" name="l04410"></a><span class="lineno"> 4410</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
-<div class="line"><a id="l04411" name="l04411"></a><span class="lineno"> 4411</span>                data[i+j*bsize.x] = array[j][i];</div>
-<div class="line"><a id="l04412" name="l04412"></a><span class="lineno"> 4412</span>            }</div>
-<div class="line"><a id="l04413" name="l04413"></a><span class="lineno"> 4413</span>        }</div>
-<div class="line"><a id="l04414" name="l04414"></a><span class="lineno"> 4414</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04415" name="l04415"></a><span class="lineno"> 4415</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dd): Buffer does not have format &#39;RT_FORMAT_USER&#39;.&quot;</span>);</div>
-<div class="line"><a id="l04416" name="l04416"></a><span class="lineno"> 4416</span>    }</div>
-<div class="line"><a id="l04417" name="l04417"></a><span class="lineno"> 4417</span> </div>
-<div class="line"><a id="l04418" name="l04418"></a><span class="lineno"> 4418</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
-<div class="line"><a id="l04419" name="l04419"></a><span class="lineno"> 4419</span> </div>
-<div class="line"><a id="l04420" name="l04420"></a><span class="lineno"> 4420</span>}</div>
-<div class="line"><a id="l04421" name="l04421"></a><span class="lineno"> 4421</span> </div>
-<div class="line"><a id="l04422" name="l04422"></a><span class="lineno"> 4422</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Df(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;float&gt;&gt; &amp;array ){</div>
-<div class="line"><a id="l04423" name="l04423"></a><span class="lineno"> 4423</span> </div>
-<div class="line"><a id="l04424" name="l04424"></a><span class="lineno"> 4424</span>    optix::int2 bsize;</div>
-<div class="line"><a id="l04425" name="l04425"></a><span class="lineno"> 4425</span>    bsize.y = array.size();</div>
-<div class="line"><a id="l04426" name="l04426"></a><span class="lineno"> 4426</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
-<div class="line"><a id="l04427" name="l04427"></a><span class="lineno"> 4427</span>        bsize.x = 0;</div>
-<div class="line"><a id="l04428" name="l04428"></a><span class="lineno"> 4428</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04429" name="l04429"></a><span class="lineno"> 4429</span>        bsize.x = array.front().size();</div>
-<div class="line"><a id="l04430" name="l04430"></a><span class="lineno"> 4430</span>    }</div>
+<div class="line"><a id="l04397" name="l04397"></a><span class="lineno"> 4397</span>    optix::int2 bsize;</div>
+<div class="line"><a id="l04398" name="l04398"></a><span class="lineno"> 4398</span>    bsize.y = array.size();</div>
+<div class="line"><a id="l04399" name="l04399"></a><span class="lineno"> 4399</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
+<div class="line"><a id="l04400" name="l04400"></a><span class="lineno"> 4400</span>        bsize.x = 0;</div>
+<div class="line"><a id="l04401" name="l04401"></a><span class="lineno"> 4401</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04402" name="l04402"></a><span class="lineno"> 4402</span>        bsize.x = array.front().size();</div>
+<div class="line"><a id="l04403" name="l04403"></a><span class="lineno"> 4403</span>    }</div>
+<div class="line"><a id="l04404" name="l04404"></a><span class="lineno"> 4404</span> </div>
+<div class="line"><a id="l04405" name="l04405"></a><span class="lineno"> 4405</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04406" name="l04406"></a><span class="lineno"> 4406</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
+<div class="line"><a id="l04407" name="l04407"></a><span class="lineno"> 4407</span> </div>
+<div class="line"><a id="l04408" name="l04408"></a><span class="lineno"> 4408</span>    <span class="comment">//get buffer formatsyn</span></div>
+<div class="line"><a id="l04409" name="l04409"></a><span class="lineno"> 4409</span>    RTformat format;</div>
+<div class="line"><a id="l04410" name="l04410"></a><span class="lineno"> 4410</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04411" name="l04411"></a><span class="lineno"> 4411</span> </div>
+<div class="line"><a id="l04412" name="l04412"></a><span class="lineno"> 4412</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04413" name="l04413"></a><span class="lineno"> 4413</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l04414" name="l04414"></a><span class="lineno"> 4414</span> </div>
+<div class="line"><a id="l04415" name="l04415"></a><span class="lineno"> 4415</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_USER ){</div>
+<div class="line"><a id="l04416" name="l04416"></a><span class="lineno"> 4416</span>        <span class="keywordtype">double</span>* data = (<span class="keywordtype">double</span>*)ptr;</div>
+<div class="line"><a id="l04417" name="l04417"></a><span class="lineno"> 4417</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
+<div class="line"><a id="l04418" name="l04418"></a><span class="lineno"> 4418</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
+<div class="line"><a id="l04419" name="l04419"></a><span class="lineno"> 4419</span>                data[i+j*bsize.x] = array[j][i];</div>
+<div class="line"><a id="l04420" name="l04420"></a><span class="lineno"> 4420</span>            }</div>
+<div class="line"><a id="l04421" name="l04421"></a><span class="lineno"> 4421</span>        }</div>
+<div class="line"><a id="l04422" name="l04422"></a><span class="lineno"> 4422</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04423" name="l04423"></a><span class="lineno"> 4423</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dd): Buffer does not have format &#39;RT_FORMAT_USER&#39;.&quot;</span>);</div>
+<div class="line"><a id="l04424" name="l04424"></a><span class="lineno"> 4424</span>    }</div>
+<div class="line"><a id="l04425" name="l04425"></a><span class="lineno"> 4425</span> </div>
+<div class="line"><a id="l04426" name="l04426"></a><span class="lineno"> 4426</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04427" name="l04427"></a><span class="lineno"> 4427</span> </div>
+<div class="line"><a id="l04428" name="l04428"></a><span class="lineno"> 4428</span>}</div>
+<div class="line"><a id="l04429" name="l04429"></a><span class="lineno"> 4429</span> </div>
+<div class="line"><a id="l04430" name="l04430"></a><span class="lineno"> 4430</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Df(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;float&gt;&gt; &amp;array ){</div>
 <div class="line"><a id="l04431" name="l04431"></a><span class="lineno"> 4431</span> </div>
-<div class="line"><a id="l04432" name="l04432"></a><span class="lineno"> 4432</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04433" name="l04433"></a><span class="lineno"> 4433</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
-<div class="line"><a id="l04434" name="l04434"></a><span class="lineno"> 4434</span> </div>
-<div class="line"><a id="l04435" name="l04435"></a><span class="lineno"> 4435</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04436" name="l04436"></a><span class="lineno"> 4436</span>    RTformat format;</div>
-<div class="line"><a id="l04437" name="l04437"></a><span class="lineno"> 4437</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04438" name="l04438"></a><span class="lineno"> 4438</span> </div>
-<div class="line"><a id="l04439" name="l04439"></a><span class="lineno"> 4439</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04440" name="l04440"></a><span class="lineno"> 4440</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04441" name="l04441"></a><span class="lineno"> 4441</span> </div>
-<div class="line"><a id="l04442" name="l04442"></a><span class="lineno"> 4442</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT ){</div>
-<div class="line"><a id="l04443" name="l04443"></a><span class="lineno"> 4443</span>        <span class="keywordtype">float</span>* data = (<span class="keywordtype">float</span>*)ptr;</div>
-<div class="line"><a id="l04444" name="l04444"></a><span class="lineno"> 4444</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
-<div class="line"><a id="l04445" name="l04445"></a><span class="lineno"> 4445</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
-<div class="line"><a id="l04446" name="l04446"></a><span class="lineno"> 4446</span>                data[i+j*bsize.x] = array[j][i];</div>
-<div class="line"><a id="l04447" name="l04447"></a><span class="lineno"> 4447</span>            }</div>
-<div class="line"><a id="l04448" name="l04448"></a><span class="lineno"> 4448</span>        }</div>
-<div class="line"><a id="l04449" name="l04449"></a><span class="lineno"> 4449</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04450" name="l04450"></a><span class="lineno"> 4450</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Df): Buffer does not have format &#39;RT_FORMAT_FLOAT&#39;.&quot;</span>);</div>
-<div class="line"><a id="l04451" name="l04451"></a><span class="lineno"> 4451</span>    }</div>
-<div class="line"><a id="l04452" name="l04452"></a><span class="lineno"> 4452</span> </div>
-<div class="line"><a id="l04453" name="l04453"></a><span class="lineno"> 4453</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
-<div class="line"><a id="l04454" name="l04454"></a><span class="lineno"> 4454</span> </div>
-<div class="line"><a id="l04455" name="l04455"></a><span class="lineno"> 4455</span>}</div>
-<div class="line"><a id="l04456" name="l04456"></a><span class="lineno"> 4456</span> </div>
-<div class="line"><a id="l04457" name="l04457"></a><span class="lineno"> 4457</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dfloat2(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;optix::float2&gt;&gt; &amp;array ){</div>
-<div class="line"><a id="l04458" name="l04458"></a><span class="lineno"> 4458</span> </div>
-<div class="line"><a id="l04459" name="l04459"></a><span class="lineno"> 4459</span>    optix::int2 bsize;</div>
-<div class="line"><a id="l04460" name="l04460"></a><span class="lineno"> 4460</span>    bsize.y = array.size();</div>
-<div class="line"><a id="l04461" name="l04461"></a><span class="lineno"> 4461</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
-<div class="line"><a id="l04462" name="l04462"></a><span class="lineno"> 4462</span>        bsize.x = 0;</div>
-<div class="line"><a id="l04463" name="l04463"></a><span class="lineno"> 4463</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04464" name="l04464"></a><span class="lineno"> 4464</span>        bsize.x = array.front().size();</div>
-<div class="line"><a id="l04465" name="l04465"></a><span class="lineno"> 4465</span>    }</div>
+<div class="line"><a id="l04432" name="l04432"></a><span class="lineno"> 4432</span>    optix::int2 bsize;</div>
+<div class="line"><a id="l04433" name="l04433"></a><span class="lineno"> 4433</span>    bsize.y = array.size();</div>
+<div class="line"><a id="l04434" name="l04434"></a><span class="lineno"> 4434</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
+<div class="line"><a id="l04435" name="l04435"></a><span class="lineno"> 4435</span>        bsize.x = 0;</div>
+<div class="line"><a id="l04436" name="l04436"></a><span class="lineno"> 4436</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04437" name="l04437"></a><span class="lineno"> 4437</span>        bsize.x = array.front().size();</div>
+<div class="line"><a id="l04438" name="l04438"></a><span class="lineno"> 4438</span>    }</div>
+<div class="line"><a id="l04439" name="l04439"></a><span class="lineno"> 4439</span> </div>
+<div class="line"><a id="l04440" name="l04440"></a><span class="lineno"> 4440</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04441" name="l04441"></a><span class="lineno"> 4441</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
+<div class="line"><a id="l04442" name="l04442"></a><span class="lineno"> 4442</span> </div>
+<div class="line"><a id="l04443" name="l04443"></a><span class="lineno"> 4443</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04444" name="l04444"></a><span class="lineno"> 4444</span>    RTformat format;</div>
+<div class="line"><a id="l04445" name="l04445"></a><span class="lineno"> 4445</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04446" name="l04446"></a><span class="lineno"> 4446</span> </div>
+<div class="line"><a id="l04447" name="l04447"></a><span class="lineno"> 4447</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04448" name="l04448"></a><span class="lineno"> 4448</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l04449" name="l04449"></a><span class="lineno"> 4449</span> </div>
+<div class="line"><a id="l04450" name="l04450"></a><span class="lineno"> 4450</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT ){</div>
+<div class="line"><a id="l04451" name="l04451"></a><span class="lineno"> 4451</span>        <span class="keywordtype">float</span>* data = (<span class="keywordtype">float</span>*)ptr;</div>
+<div class="line"><a id="l04452" name="l04452"></a><span class="lineno"> 4452</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
+<div class="line"><a id="l04453" name="l04453"></a><span class="lineno"> 4453</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
+<div class="line"><a id="l04454" name="l04454"></a><span class="lineno"> 4454</span>                data[i+j*bsize.x] = array[j][i];</div>
+<div class="line"><a id="l04455" name="l04455"></a><span class="lineno"> 4455</span>            }</div>
+<div class="line"><a id="l04456" name="l04456"></a><span class="lineno"> 4456</span>        }</div>
+<div class="line"><a id="l04457" name="l04457"></a><span class="lineno"> 4457</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04458" name="l04458"></a><span class="lineno"> 4458</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Df): Buffer does not have format &#39;RT_FORMAT_FLOAT&#39;.&quot;</span>);</div>
+<div class="line"><a id="l04459" name="l04459"></a><span class="lineno"> 4459</span>    }</div>
+<div class="line"><a id="l04460" name="l04460"></a><span class="lineno"> 4460</span> </div>
+<div class="line"><a id="l04461" name="l04461"></a><span class="lineno"> 4461</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04462" name="l04462"></a><span class="lineno"> 4462</span> </div>
+<div class="line"><a id="l04463" name="l04463"></a><span class="lineno"> 4463</span>}</div>
+<div class="line"><a id="l04464" name="l04464"></a><span class="lineno"> 4464</span> </div>
+<div class="line"><a id="l04465" name="l04465"></a><span class="lineno"> 4465</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dfloat2(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;optix::float2&gt;&gt; &amp;array ){</div>
 <div class="line"><a id="l04466" name="l04466"></a><span class="lineno"> 4466</span> </div>
-<div class="line"><a id="l04467" name="l04467"></a><span class="lineno"> 4467</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04468" name="l04468"></a><span class="lineno"> 4468</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
-<div class="line"><a id="l04469" name="l04469"></a><span class="lineno"> 4469</span> </div>
-<div class="line"><a id="l04470" name="l04470"></a><span class="lineno"> 4470</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04471" name="l04471"></a><span class="lineno"> 4471</span>    RTformat format;</div>
-<div class="line"><a id="l04472" name="l04472"></a><span class="lineno"> 4472</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04473" name="l04473"></a><span class="lineno"> 4473</span> </div>
-<div class="line"><a id="l04474" name="l04474"></a><span class="lineno"> 4474</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04475" name="l04475"></a><span class="lineno"> 4475</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04476" name="l04476"></a><span class="lineno"> 4476</span> </div>
-<div class="line"><a id="l04477" name="l04477"></a><span class="lineno"> 4477</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT2 ){</div>
-<div class="line"><a id="l04478" name="l04478"></a><span class="lineno"> 4478</span>        optix::float2* data = (optix::float2*)ptr;</div>
-<div class="line"><a id="l04479" name="l04479"></a><span class="lineno"> 4479</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
-<div class="line"><a id="l04480" name="l04480"></a><span class="lineno"> 4480</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
-<div class="line"><a id="l04481" name="l04481"></a><span class="lineno"> 4481</span>                data[i+j*bsize.x].x = array[j][i].x;</div>
-<div class="line"><a id="l04482" name="l04482"></a><span class="lineno"> 4482</span>                data[i+j*bsize.x].y = array[j][i].y;</div>
-<div class="line"><a id="l04483" name="l04483"></a><span class="lineno"> 4483</span>            }</div>
-<div class="line"><a id="l04484" name="l04484"></a><span class="lineno"> 4484</span>        }</div>
-<div class="line"><a id="l04485" name="l04485"></a><span class="lineno"> 4485</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04486" name="l04486"></a><span class="lineno"> 4486</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dfloat2): Buffer does not have format &#39;RT_FORMAT_FLOAT2&#39;.&quot;</span>);</div>
-<div class="line"><a id="l04487" name="l04487"></a><span class="lineno"> 4487</span>    }</div>
-<div class="line"><a id="l04488" name="l04488"></a><span class="lineno"> 4488</span> </div>
-<div class="line"><a id="l04489" name="l04489"></a><span class="lineno"> 4489</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
-<div class="line"><a id="l04490" name="l04490"></a><span class="lineno"> 4490</span> </div>
-<div class="line"><a id="l04491" name="l04491"></a><span class="lineno"> 4491</span>}</div>
-<div class="line"><a id="l04492" name="l04492"></a><span class="lineno"> 4492</span> </div>
-<div class="line"><a id="l04493" name="l04493"></a><span class="lineno"> 4493</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dfloat3(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;optix::float3&gt;&gt; &amp;array ){</div>
-<div class="line"><a id="l04494" name="l04494"></a><span class="lineno"> 4494</span> </div>
-<div class="line"><a id="l04495" name="l04495"></a><span class="lineno"> 4495</span>    optix::int2 bsize;</div>
-<div class="line"><a id="l04496" name="l04496"></a><span class="lineno"> 4496</span>    bsize.y = array.size();</div>
-<div class="line"><a id="l04497" name="l04497"></a><span class="lineno"> 4497</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
-<div class="line"><a id="l04498" name="l04498"></a><span class="lineno"> 4498</span>        bsize.x = 0;</div>
-<div class="line"><a id="l04499" name="l04499"></a><span class="lineno"> 4499</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04500" name="l04500"></a><span class="lineno"> 4500</span>        bsize.x = array.front().size();</div>
-<div class="line"><a id="l04501" name="l04501"></a><span class="lineno"> 4501</span>    }</div>
+<div class="line"><a id="l04467" name="l04467"></a><span class="lineno"> 4467</span>    optix::int2 bsize;</div>
+<div class="line"><a id="l04468" name="l04468"></a><span class="lineno"> 4468</span>    bsize.y = array.size();</div>
+<div class="line"><a id="l04469" name="l04469"></a><span class="lineno"> 4469</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
+<div class="line"><a id="l04470" name="l04470"></a><span class="lineno"> 4470</span>        bsize.x = 0;</div>
+<div class="line"><a id="l04471" name="l04471"></a><span class="lineno"> 4471</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04472" name="l04472"></a><span class="lineno"> 4472</span>        bsize.x = array.front().size();</div>
+<div class="line"><a id="l04473" name="l04473"></a><span class="lineno"> 4473</span>    }</div>
+<div class="line"><a id="l04474" name="l04474"></a><span class="lineno"> 4474</span> </div>
+<div class="line"><a id="l04475" name="l04475"></a><span class="lineno"> 4475</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04476" name="l04476"></a><span class="lineno"> 4476</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
+<div class="line"><a id="l04477" name="l04477"></a><span class="lineno"> 4477</span> </div>
+<div class="line"><a id="l04478" name="l04478"></a><span class="lineno"> 4478</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04479" name="l04479"></a><span class="lineno"> 4479</span>    RTformat format;</div>
+<div class="line"><a id="l04480" name="l04480"></a><span class="lineno"> 4480</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04481" name="l04481"></a><span class="lineno"> 4481</span> </div>
+<div class="line"><a id="l04482" name="l04482"></a><span class="lineno"> 4482</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04483" name="l04483"></a><span class="lineno"> 4483</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l04484" name="l04484"></a><span class="lineno"> 4484</span> </div>
+<div class="line"><a id="l04485" name="l04485"></a><span class="lineno"> 4485</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT2 ){</div>
+<div class="line"><a id="l04486" name="l04486"></a><span class="lineno"> 4486</span>        optix::float2* data = (optix::float2*)ptr;</div>
+<div class="line"><a id="l04487" name="l04487"></a><span class="lineno"> 4487</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
+<div class="line"><a id="l04488" name="l04488"></a><span class="lineno"> 4488</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
+<div class="line"><a id="l04489" name="l04489"></a><span class="lineno"> 4489</span>                data[i+j*bsize.x].x = array[j][i].x;</div>
+<div class="line"><a id="l04490" name="l04490"></a><span class="lineno"> 4490</span>                data[i+j*bsize.x].y = array[j][i].y;</div>
+<div class="line"><a id="l04491" name="l04491"></a><span class="lineno"> 4491</span>            }</div>
+<div class="line"><a id="l04492" name="l04492"></a><span class="lineno"> 4492</span>        }</div>
+<div class="line"><a id="l04493" name="l04493"></a><span class="lineno"> 4493</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04494" name="l04494"></a><span class="lineno"> 4494</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dfloat2): Buffer does not have format &#39;RT_FORMAT_FLOAT2&#39;.&quot;</span>);</div>
+<div class="line"><a id="l04495" name="l04495"></a><span class="lineno"> 4495</span>    }</div>
+<div class="line"><a id="l04496" name="l04496"></a><span class="lineno"> 4496</span> </div>
+<div class="line"><a id="l04497" name="l04497"></a><span class="lineno"> 4497</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04498" name="l04498"></a><span class="lineno"> 4498</span> </div>
+<div class="line"><a id="l04499" name="l04499"></a><span class="lineno"> 4499</span>}</div>
+<div class="line"><a id="l04500" name="l04500"></a><span class="lineno"> 4500</span> </div>
+<div class="line"><a id="l04501" name="l04501"></a><span class="lineno"> 4501</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dfloat3(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;optix::float3&gt;&gt; &amp;array ){</div>
 <div class="line"><a id="l04502" name="l04502"></a><span class="lineno"> 4502</span> </div>
-<div class="line"><a id="l04503" name="l04503"></a><span class="lineno"> 4503</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04504" name="l04504"></a><span class="lineno"> 4504</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
-<div class="line"><a id="l04505" name="l04505"></a><span class="lineno"> 4505</span> </div>
-<div class="line"><a id="l04506" name="l04506"></a><span class="lineno"> 4506</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04507" name="l04507"></a><span class="lineno"> 4507</span>    RTformat format;</div>
-<div class="line"><a id="l04508" name="l04508"></a><span class="lineno"> 4508</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04509" name="l04509"></a><span class="lineno"> 4509</span> </div>
-<div class="line"><a id="l04510" name="l04510"></a><span class="lineno"> 4510</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04511" name="l04511"></a><span class="lineno"> 4511</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04512" name="l04512"></a><span class="lineno"> 4512</span> </div>
-<div class="line"><a id="l04513" name="l04513"></a><span class="lineno"> 4513</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT3 ){</div>
-<div class="line"><a id="l04514" name="l04514"></a><span class="lineno"> 4514</span>        optix::float3* data = (optix::float3*)ptr;</div>
-<div class="line"><a id="l04515" name="l04515"></a><span class="lineno"> 4515</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
-<div class="line"><a id="l04516" name="l04516"></a><span class="lineno"> 4516</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
-<div class="line"><a id="l04517" name="l04517"></a><span class="lineno"> 4517</span>                data[i+j*bsize.x].x = array.at(j).at(i).x;</div>
-<div class="line"><a id="l04518" name="l04518"></a><span class="lineno"> 4518</span>                data[i+j*bsize.x].y = array.at(j).at(i).y;</div>
-<div class="line"><a id="l04519" name="l04519"></a><span class="lineno"> 4519</span>                data[i+j*bsize.x].z = array.at(j).at(i).z;</div>
-<div class="line"><a id="l04520" name="l04520"></a><span class="lineno"> 4520</span>            }</div>
-<div class="line"><a id="l04521" name="l04521"></a><span class="lineno"> 4521</span>        }</div>
-<div class="line"><a id="l04522" name="l04522"></a><span class="lineno"> 4522</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04523" name="l04523"></a><span class="lineno"> 4523</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dfloat3): Buffer does not have format &#39;RT_FORMAT_FLOAT3&#39;.&quot;</span>);</div>
-<div class="line"><a id="l04524" name="l04524"></a><span class="lineno"> 4524</span>    }</div>
-<div class="line"><a id="l04525" name="l04525"></a><span class="lineno"> 4525</span> </div>
-<div class="line"><a id="l04526" name="l04526"></a><span class="lineno"> 4526</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
-<div class="line"><a id="l04527" name="l04527"></a><span class="lineno"> 4527</span> </div>
-<div class="line"><a id="l04528" name="l04528"></a><span class="lineno"> 4528</span>}</div>
-<div class="line"><a id="l04529" name="l04529"></a><span class="lineno"> 4529</span> </div>
-<div class="line"><a id="l04530" name="l04530"></a><span class="lineno"> 4530</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dfloat4(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;optix::float4&gt;&gt; &amp;array ){</div>
-<div class="line"><a id="l04531" name="l04531"></a><span class="lineno"> 4531</span> </div>
-<div class="line"><a id="l04532" name="l04532"></a><span class="lineno"> 4532</span>    optix::int2 bsize;</div>
-<div class="line"><a id="l04533" name="l04533"></a><span class="lineno"> 4533</span>    bsize.y = array.size();</div>
-<div class="line"><a id="l04534" name="l04534"></a><span class="lineno"> 4534</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
-<div class="line"><a id="l04535" name="l04535"></a><span class="lineno"> 4535</span>        bsize.x = 0;</div>
-<div class="line"><a id="l04536" name="l04536"></a><span class="lineno"> 4536</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04537" name="l04537"></a><span class="lineno"> 4537</span>        bsize.x = array.front().size();</div>
-<div class="line"><a id="l04538" name="l04538"></a><span class="lineno"> 4538</span>    }</div>
+<div class="line"><a id="l04503" name="l04503"></a><span class="lineno"> 4503</span>    optix::int2 bsize;</div>
+<div class="line"><a id="l04504" name="l04504"></a><span class="lineno"> 4504</span>    bsize.y = array.size();</div>
+<div class="line"><a id="l04505" name="l04505"></a><span class="lineno"> 4505</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
+<div class="line"><a id="l04506" name="l04506"></a><span class="lineno"> 4506</span>        bsize.x = 0;</div>
+<div class="line"><a id="l04507" name="l04507"></a><span class="lineno"> 4507</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04508" name="l04508"></a><span class="lineno"> 4508</span>        bsize.x = array.front().size();</div>
+<div class="line"><a id="l04509" name="l04509"></a><span class="lineno"> 4509</span>    }</div>
+<div class="line"><a id="l04510" name="l04510"></a><span class="lineno"> 4510</span> </div>
+<div class="line"><a id="l04511" name="l04511"></a><span class="lineno"> 4511</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04512" name="l04512"></a><span class="lineno"> 4512</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
+<div class="line"><a id="l04513" name="l04513"></a><span class="lineno"> 4513</span> </div>
+<div class="line"><a id="l04514" name="l04514"></a><span class="lineno"> 4514</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04515" name="l04515"></a><span class="lineno"> 4515</span>    RTformat format;</div>
+<div class="line"><a id="l04516" name="l04516"></a><span class="lineno"> 4516</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04517" name="l04517"></a><span class="lineno"> 4517</span> </div>
+<div class="line"><a id="l04518" name="l04518"></a><span class="lineno"> 4518</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04519" name="l04519"></a><span class="lineno"> 4519</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l04520" name="l04520"></a><span class="lineno"> 4520</span> </div>
+<div class="line"><a id="l04521" name="l04521"></a><span class="lineno"> 4521</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT3 ){</div>
+<div class="line"><a id="l04522" name="l04522"></a><span class="lineno"> 4522</span>        optix::float3* data = (optix::float3*)ptr;</div>
+<div class="line"><a id="l04523" name="l04523"></a><span class="lineno"> 4523</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
+<div class="line"><a id="l04524" name="l04524"></a><span class="lineno"> 4524</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
+<div class="line"><a id="l04525" name="l04525"></a><span class="lineno"> 4525</span>                data[i+j*bsize.x].x = array.at(j).at(i).x;</div>
+<div class="line"><a id="l04526" name="l04526"></a><span class="lineno"> 4526</span>                data[i+j*bsize.x].y = array.at(j).at(i).y;</div>
+<div class="line"><a id="l04527" name="l04527"></a><span class="lineno"> 4527</span>                data[i+j*bsize.x].z = array.at(j).at(i).z;</div>
+<div class="line"><a id="l04528" name="l04528"></a><span class="lineno"> 4528</span>            }</div>
+<div class="line"><a id="l04529" name="l04529"></a><span class="lineno"> 4529</span>        }</div>
+<div class="line"><a id="l04530" name="l04530"></a><span class="lineno"> 4530</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04531" name="l04531"></a><span class="lineno"> 4531</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dfloat3): Buffer does not have format &#39;RT_FORMAT_FLOAT3&#39;.&quot;</span>);</div>
+<div class="line"><a id="l04532" name="l04532"></a><span class="lineno"> 4532</span>    }</div>
+<div class="line"><a id="l04533" name="l04533"></a><span class="lineno"> 4533</span> </div>
+<div class="line"><a id="l04534" name="l04534"></a><span class="lineno"> 4534</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04535" name="l04535"></a><span class="lineno"> 4535</span> </div>
+<div class="line"><a id="l04536" name="l04536"></a><span class="lineno"> 4536</span>}</div>
+<div class="line"><a id="l04537" name="l04537"></a><span class="lineno"> 4537</span> </div>
+<div class="line"><a id="l04538" name="l04538"></a><span class="lineno"> 4538</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dfloat4(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;optix::float4&gt;&gt; &amp;array ){</div>
 <div class="line"><a id="l04539" name="l04539"></a><span class="lineno"> 4539</span> </div>
-<div class="line"><a id="l04540" name="l04540"></a><span class="lineno"> 4540</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04541" name="l04541"></a><span class="lineno"> 4541</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
-<div class="line"><a id="l04542" name="l04542"></a><span class="lineno"> 4542</span> </div>
-<div class="line"><a id="l04543" name="l04543"></a><span class="lineno"> 4543</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04544" name="l04544"></a><span class="lineno"> 4544</span>    RTformat format;</div>
-<div class="line"><a id="l04545" name="l04545"></a><span class="lineno"> 4545</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04546" name="l04546"></a><span class="lineno"> 4546</span> </div>
-<div class="line"><a id="l04547" name="l04547"></a><span class="lineno"> 4547</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04548" name="l04548"></a><span class="lineno"> 4548</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04549" name="l04549"></a><span class="lineno"> 4549</span> </div>
-<div class="line"><a id="l04550" name="l04550"></a><span class="lineno"> 4550</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT4 ){</div>
-<div class="line"><a id="l04551" name="l04551"></a><span class="lineno"> 4551</span>        optix::float4* data = (optix::float4*)ptr;</div>
-<div class="line"><a id="l04552" name="l04552"></a><span class="lineno"> 4552</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
-<div class="line"><a id="l04553" name="l04553"></a><span class="lineno"> 4553</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
-<div class="line"><a id="l04554" name="l04554"></a><span class="lineno"> 4554</span>                data[i+j*bsize.x].x = array[j][i].x;</div>
-<div class="line"><a id="l04555" name="l04555"></a><span class="lineno"> 4555</span>                data[i+j*bsize.x].y = array[j][i].y;</div>
-<div class="line"><a id="l04556" name="l04556"></a><span class="lineno"> 4556</span>                data[i+j*bsize.x].z = array[j][i].z;</div>
-<div class="line"><a id="l04557" name="l04557"></a><span class="lineno"> 4557</span>                data[i+j*bsize.x].w = array[j][i].w;</div>
-<div class="line"><a id="l04558" name="l04558"></a><span class="lineno"> 4558</span>            }</div>
-<div class="line"><a id="l04559" name="l04559"></a><span class="lineno"> 4559</span>        }</div>
-<div class="line"><a id="l04560" name="l04560"></a><span class="lineno"> 4560</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04561" name="l04561"></a><span class="lineno"> 4561</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dfloat4): Buffer does not have format &#39;RT_FORMAT_FLOAT4&#39;.&quot;</span>);</div>
-<div class="line"><a id="l04562" name="l04562"></a><span class="lineno"> 4562</span>    }</div>
-<div class="line"><a id="l04563" name="l04563"></a><span class="lineno"> 4563</span> </div>
-<div class="line"><a id="l04564" name="l04564"></a><span class="lineno"> 4564</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
-<div class="line"><a id="l04565" name="l04565"></a><span class="lineno"> 4565</span> </div>
-<div class="line"><a id="l04566" name="l04566"></a><span class="lineno"> 4566</span>}</div>
-<div class="line"><a id="l04567" name="l04567"></a><span class="lineno"> 4567</span> </div>
-<div class="line"><a id="l04568" name="l04568"></a><span class="lineno"> 4568</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Di(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;int&gt;&gt; &amp;array ){</div>
-<div class="line"><a id="l04569" name="l04569"></a><span class="lineno"> 4569</span> </div>
-<div class="line"><a id="l04570" name="l04570"></a><span class="lineno"> 4570</span>    optix::int2 bsize;</div>
-<div class="line"><a id="l04571" name="l04571"></a><span class="lineno"> 4571</span>    bsize.y = array.size();</div>
-<div class="line"><a id="l04572" name="l04572"></a><span class="lineno"> 4572</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
-<div class="line"><a id="l04573" name="l04573"></a><span class="lineno"> 4573</span>        bsize.x = 0;</div>
-<div class="line"><a id="l04574" name="l04574"></a><span class="lineno"> 4574</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04575" name="l04575"></a><span class="lineno"> 4575</span>        bsize.x = array.front().size();</div>
-<div class="line"><a id="l04576" name="l04576"></a><span class="lineno"> 4576</span>    }</div>
+<div class="line"><a id="l04540" name="l04540"></a><span class="lineno"> 4540</span>    optix::int2 bsize;</div>
+<div class="line"><a id="l04541" name="l04541"></a><span class="lineno"> 4541</span>    bsize.y = array.size();</div>
+<div class="line"><a id="l04542" name="l04542"></a><span class="lineno"> 4542</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
+<div class="line"><a id="l04543" name="l04543"></a><span class="lineno"> 4543</span>        bsize.x = 0;</div>
+<div class="line"><a id="l04544" name="l04544"></a><span class="lineno"> 4544</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04545" name="l04545"></a><span class="lineno"> 4545</span>        bsize.x = array.front().size();</div>
+<div class="line"><a id="l04546" name="l04546"></a><span class="lineno"> 4546</span>    }</div>
+<div class="line"><a id="l04547" name="l04547"></a><span class="lineno"> 4547</span> </div>
+<div class="line"><a id="l04548" name="l04548"></a><span class="lineno"> 4548</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04549" name="l04549"></a><span class="lineno"> 4549</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
+<div class="line"><a id="l04550" name="l04550"></a><span class="lineno"> 4550</span> </div>
+<div class="line"><a id="l04551" name="l04551"></a><span class="lineno"> 4551</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04552" name="l04552"></a><span class="lineno"> 4552</span>    RTformat format;</div>
+<div class="line"><a id="l04553" name="l04553"></a><span class="lineno"> 4553</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04554" name="l04554"></a><span class="lineno"> 4554</span> </div>
+<div class="line"><a id="l04555" name="l04555"></a><span class="lineno"> 4555</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04556" name="l04556"></a><span class="lineno"> 4556</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l04557" name="l04557"></a><span class="lineno"> 4557</span> </div>
+<div class="line"><a id="l04558" name="l04558"></a><span class="lineno"> 4558</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT4 ){</div>
+<div class="line"><a id="l04559" name="l04559"></a><span class="lineno"> 4559</span>        optix::float4* data = (optix::float4*)ptr;</div>
+<div class="line"><a id="l04560" name="l04560"></a><span class="lineno"> 4560</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
+<div class="line"><a id="l04561" name="l04561"></a><span class="lineno"> 4561</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
+<div class="line"><a id="l04562" name="l04562"></a><span class="lineno"> 4562</span>                data[i+j*bsize.x].x = array[j][i].x;</div>
+<div class="line"><a id="l04563" name="l04563"></a><span class="lineno"> 4563</span>                data[i+j*bsize.x].y = array[j][i].y;</div>
+<div class="line"><a id="l04564" name="l04564"></a><span class="lineno"> 4564</span>                data[i+j*bsize.x].z = array[j][i].z;</div>
+<div class="line"><a id="l04565" name="l04565"></a><span class="lineno"> 4565</span>                data[i+j*bsize.x].w = array[j][i].w;</div>
+<div class="line"><a id="l04566" name="l04566"></a><span class="lineno"> 4566</span>            }</div>
+<div class="line"><a id="l04567" name="l04567"></a><span class="lineno"> 4567</span>        }</div>
+<div class="line"><a id="l04568" name="l04568"></a><span class="lineno"> 4568</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04569" name="l04569"></a><span class="lineno"> 4569</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dfloat4): Buffer does not have format &#39;RT_FORMAT_FLOAT4&#39;.&quot;</span>);</div>
+<div class="line"><a id="l04570" name="l04570"></a><span class="lineno"> 4570</span>    }</div>
+<div class="line"><a id="l04571" name="l04571"></a><span class="lineno"> 4571</span> </div>
+<div class="line"><a id="l04572" name="l04572"></a><span class="lineno"> 4572</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04573" name="l04573"></a><span class="lineno"> 4573</span> </div>
+<div class="line"><a id="l04574" name="l04574"></a><span class="lineno"> 4574</span>}</div>
+<div class="line"><a id="l04575" name="l04575"></a><span class="lineno"> 4575</span> </div>
+<div class="line"><a id="l04576" name="l04576"></a><span class="lineno"> 4576</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Di(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;int&gt;&gt; &amp;array ){</div>
 <div class="line"><a id="l04577" name="l04577"></a><span class="lineno"> 4577</span> </div>
-<div class="line"><a id="l04578" name="l04578"></a><span class="lineno"> 4578</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04579" name="l04579"></a><span class="lineno"> 4579</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
-<div class="line"><a id="l04580" name="l04580"></a><span class="lineno"> 4580</span> </div>
-<div class="line"><a id="l04581" name="l04581"></a><span class="lineno"> 4581</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04582" name="l04582"></a><span class="lineno"> 4582</span>    RTformat format;</div>
-<div class="line"><a id="l04583" name="l04583"></a><span class="lineno"> 4583</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04584" name="l04584"></a><span class="lineno"> 4584</span> </div>
-<div class="line"><a id="l04585" name="l04585"></a><span class="lineno"> 4585</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04586" name="l04586"></a><span class="lineno"> 4586</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04587" name="l04587"></a><span class="lineno"> 4587</span> </div>
-<div class="line"><a id="l04588" name="l04588"></a><span class="lineno"> 4588</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_INT ){</div>
-<div class="line"><a id="l04589" name="l04589"></a><span class="lineno"> 4589</span>        <span class="keywordtype">int</span>* data = (<span class="keywordtype">int</span>*)ptr;</div>
-<div class="line"><a id="l04590" name="l04590"></a><span class="lineno"> 4590</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
-<div class="line"><a id="l04591" name="l04591"></a><span class="lineno"> 4591</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
-<div class="line"><a id="l04592" name="l04592"></a><span class="lineno"> 4592</span>                data[i+j*bsize.x] = array[j][i];</div>
-<div class="line"><a id="l04593" name="l04593"></a><span class="lineno"> 4593</span>            }</div>
-<div class="line"><a id="l04594" name="l04594"></a><span class="lineno"> 4594</span>        }</div>
-<div class="line"><a id="l04595" name="l04595"></a><span class="lineno"> 4595</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04596" name="l04596"></a><span class="lineno"> 4596</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Di): Buffer does not have format &#39;RT_FORMAT_INT&#39;.&quot;</span>);</div>
-<div class="line"><a id="l04597" name="l04597"></a><span class="lineno"> 4597</span>    }</div>
-<div class="line"><a id="l04598" name="l04598"></a><span class="lineno"> 4598</span> </div>
-<div class="line"><a id="l04599" name="l04599"></a><span class="lineno"> 4599</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
-<div class="line"><a id="l04600" name="l04600"></a><span class="lineno"> 4600</span> </div>
-<div class="line"><a id="l04601" name="l04601"></a><span class="lineno"> 4601</span>}</div>
-<div class="line"><a id="l04602" name="l04602"></a><span class="lineno"> 4602</span> </div>
-<div class="line"><a id="l04603" name="l04603"></a><span class="lineno"> 4603</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dui(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;uint&gt;&gt; &amp;array ){</div>
-<div class="line"><a id="l04604" name="l04604"></a><span class="lineno"> 4604</span> </div>
-<div class="line"><a id="l04605" name="l04605"></a><span class="lineno"> 4605</span>    optix::int2 bsize;</div>
-<div class="line"><a id="l04606" name="l04606"></a><span class="lineno"> 4606</span>    bsize.y = array.size();</div>
-<div class="line"><a id="l04607" name="l04607"></a><span class="lineno"> 4607</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
-<div class="line"><a id="l04608" name="l04608"></a><span class="lineno"> 4608</span>        bsize.x = 0;</div>
-<div class="line"><a id="l04609" name="l04609"></a><span class="lineno"> 4609</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04610" name="l04610"></a><span class="lineno"> 4610</span>        bsize.x = array.front().size();</div>
-<div class="line"><a id="l04611" name="l04611"></a><span class="lineno"> 4611</span>    }</div>
+<div class="line"><a id="l04578" name="l04578"></a><span class="lineno"> 4578</span>    optix::int2 bsize;</div>
+<div class="line"><a id="l04579" name="l04579"></a><span class="lineno"> 4579</span>    bsize.y = array.size();</div>
+<div class="line"><a id="l04580" name="l04580"></a><span class="lineno"> 4580</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
+<div class="line"><a id="l04581" name="l04581"></a><span class="lineno"> 4581</span>        bsize.x = 0;</div>
+<div class="line"><a id="l04582" name="l04582"></a><span class="lineno"> 4582</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04583" name="l04583"></a><span class="lineno"> 4583</span>        bsize.x = array.front().size();</div>
+<div class="line"><a id="l04584" name="l04584"></a><span class="lineno"> 4584</span>    }</div>
+<div class="line"><a id="l04585" name="l04585"></a><span class="lineno"> 4585</span> </div>
+<div class="line"><a id="l04586" name="l04586"></a><span class="lineno"> 4586</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04587" name="l04587"></a><span class="lineno"> 4587</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
+<div class="line"><a id="l04588" name="l04588"></a><span class="lineno"> 4588</span> </div>
+<div class="line"><a id="l04589" name="l04589"></a><span class="lineno"> 4589</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04590" name="l04590"></a><span class="lineno"> 4590</span>    RTformat format;</div>
+<div class="line"><a id="l04591" name="l04591"></a><span class="lineno"> 4591</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04592" name="l04592"></a><span class="lineno"> 4592</span> </div>
+<div class="line"><a id="l04593" name="l04593"></a><span class="lineno"> 4593</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04594" name="l04594"></a><span class="lineno"> 4594</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l04595" name="l04595"></a><span class="lineno"> 4595</span> </div>
+<div class="line"><a id="l04596" name="l04596"></a><span class="lineno"> 4596</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_INT ){</div>
+<div class="line"><a id="l04597" name="l04597"></a><span class="lineno"> 4597</span>        <span class="keywordtype">int</span>* data = (<span class="keywordtype">int</span>*)ptr;</div>
+<div class="line"><a id="l04598" name="l04598"></a><span class="lineno"> 4598</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
+<div class="line"><a id="l04599" name="l04599"></a><span class="lineno"> 4599</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
+<div class="line"><a id="l04600" name="l04600"></a><span class="lineno"> 4600</span>                data[i+j*bsize.x] = array[j][i];</div>
+<div class="line"><a id="l04601" name="l04601"></a><span class="lineno"> 4601</span>            }</div>
+<div class="line"><a id="l04602" name="l04602"></a><span class="lineno"> 4602</span>        }</div>
+<div class="line"><a id="l04603" name="l04603"></a><span class="lineno"> 4603</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04604" name="l04604"></a><span class="lineno"> 4604</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Di): Buffer does not have format &#39;RT_FORMAT_INT&#39;.&quot;</span>);</div>
+<div class="line"><a id="l04605" name="l04605"></a><span class="lineno"> 4605</span>    }</div>
+<div class="line"><a id="l04606" name="l04606"></a><span class="lineno"> 4606</span> </div>
+<div class="line"><a id="l04607" name="l04607"></a><span class="lineno"> 4607</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04608" name="l04608"></a><span class="lineno"> 4608</span> </div>
+<div class="line"><a id="l04609" name="l04609"></a><span class="lineno"> 4609</span>}</div>
+<div class="line"><a id="l04610" name="l04610"></a><span class="lineno"> 4610</span> </div>
+<div class="line"><a id="l04611" name="l04611"></a><span class="lineno"> 4611</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dui(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;uint&gt;&gt; &amp;array ){</div>
 <div class="line"><a id="l04612" name="l04612"></a><span class="lineno"> 4612</span> </div>
-<div class="line"><a id="l04613" name="l04613"></a><span class="lineno"> 4613</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04614" name="l04614"></a><span class="lineno"> 4614</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
-<div class="line"><a id="l04615" name="l04615"></a><span class="lineno"> 4615</span> </div>
-<div class="line"><a id="l04616" name="l04616"></a><span class="lineno"> 4616</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04617" name="l04617"></a><span class="lineno"> 4617</span>    RTformat format;</div>
-<div class="line"><a id="l04618" name="l04618"></a><span class="lineno"> 4618</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04619" name="l04619"></a><span class="lineno"> 4619</span> </div>
-<div class="line"><a id="l04620" name="l04620"></a><span class="lineno"> 4620</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04621" name="l04621"></a><span class="lineno"> 4621</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04622" name="l04622"></a><span class="lineno"> 4622</span> </div>
-<div class="line"><a id="l04623" name="l04623"></a><span class="lineno"> 4623</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_UNSIGNED_INT ){</div>
-<div class="line"><a id="l04624" name="l04624"></a><span class="lineno"> 4624</span>        uint* data = (uint*)ptr;</div>
-<div class="line"><a id="l04625" name="l04625"></a><span class="lineno"> 4625</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
-<div class="line"><a id="l04626" name="l04626"></a><span class="lineno"> 4626</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
-<div class="line"><a id="l04627" name="l04627"></a><span class="lineno"> 4627</span>                data[i+j*bsize.x] = array[j][i];</div>
-<div class="line"><a id="l04628" name="l04628"></a><span class="lineno"> 4628</span>            }</div>
-<div class="line"><a id="l04629" name="l04629"></a><span class="lineno"> 4629</span>        }</div>
-<div class="line"><a id="l04630" name="l04630"></a><span class="lineno"> 4630</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04631" name="l04631"></a><span class="lineno"> 4631</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dui): Buffer does not have format &#39;RT_FORMAT_UNSIGNED_INT&#39;.&quot;</span>);</div>
-<div class="line"><a id="l04632" name="l04632"></a><span class="lineno"> 4632</span>    }</div>
-<div class="line"><a id="l04633" name="l04633"></a><span class="lineno"> 4633</span> </div>
-<div class="line"><a id="l04634" name="l04634"></a><span class="lineno"> 4634</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
-<div class="line"><a id="l04635" name="l04635"></a><span class="lineno"> 4635</span> </div>
-<div class="line"><a id="l04636" name="l04636"></a><span class="lineno"> 4636</span>}</div>
-<div class="line"><a id="l04637" name="l04637"></a><span class="lineno"> 4637</span> </div>
-<div class="line"><a id="l04638" name="l04638"></a><span class="lineno"> 4638</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dint2(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;optix::int2&gt;&gt; &amp;array ){</div>
-<div class="line"><a id="l04639" name="l04639"></a><span class="lineno"> 4639</span> </div>
-<div class="line"><a id="l04640" name="l04640"></a><span class="lineno"> 4640</span>    optix::int2 bsize;</div>
-<div class="line"><a id="l04641" name="l04641"></a><span class="lineno"> 4641</span>    bsize.y = array.size();</div>
-<div class="line"><a id="l04642" name="l04642"></a><span class="lineno"> 4642</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
-<div class="line"><a id="l04643" name="l04643"></a><span class="lineno"> 4643</span>        bsize.x = 0;</div>
-<div class="line"><a id="l04644" name="l04644"></a><span class="lineno"> 4644</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04645" name="l04645"></a><span class="lineno"> 4645</span>        bsize.x = array.front().size();</div>
-<div class="line"><a id="l04646" name="l04646"></a><span class="lineno"> 4646</span>    }</div>
+<div class="line"><a id="l04613" name="l04613"></a><span class="lineno"> 4613</span>    optix::int2 bsize;</div>
+<div class="line"><a id="l04614" name="l04614"></a><span class="lineno"> 4614</span>    bsize.y = array.size();</div>
+<div class="line"><a id="l04615" name="l04615"></a><span class="lineno"> 4615</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
+<div class="line"><a id="l04616" name="l04616"></a><span class="lineno"> 4616</span>        bsize.x = 0;</div>
+<div class="line"><a id="l04617" name="l04617"></a><span class="lineno"> 4617</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04618" name="l04618"></a><span class="lineno"> 4618</span>        bsize.x = array.front().size();</div>
+<div class="line"><a id="l04619" name="l04619"></a><span class="lineno"> 4619</span>    }</div>
+<div class="line"><a id="l04620" name="l04620"></a><span class="lineno"> 4620</span> </div>
+<div class="line"><a id="l04621" name="l04621"></a><span class="lineno"> 4621</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04622" name="l04622"></a><span class="lineno"> 4622</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
+<div class="line"><a id="l04623" name="l04623"></a><span class="lineno"> 4623</span> </div>
+<div class="line"><a id="l04624" name="l04624"></a><span class="lineno"> 4624</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04625" name="l04625"></a><span class="lineno"> 4625</span>    RTformat format;</div>
+<div class="line"><a id="l04626" name="l04626"></a><span class="lineno"> 4626</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04627" name="l04627"></a><span class="lineno"> 4627</span> </div>
+<div class="line"><a id="l04628" name="l04628"></a><span class="lineno"> 4628</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04629" name="l04629"></a><span class="lineno"> 4629</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l04630" name="l04630"></a><span class="lineno"> 4630</span> </div>
+<div class="line"><a id="l04631" name="l04631"></a><span class="lineno"> 4631</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_UNSIGNED_INT ){</div>
+<div class="line"><a id="l04632" name="l04632"></a><span class="lineno"> 4632</span>        uint* data = (uint*)ptr;</div>
+<div class="line"><a id="l04633" name="l04633"></a><span class="lineno"> 4633</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
+<div class="line"><a id="l04634" name="l04634"></a><span class="lineno"> 4634</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
+<div class="line"><a id="l04635" name="l04635"></a><span class="lineno"> 4635</span>                data[i+j*bsize.x] = array[j][i];</div>
+<div class="line"><a id="l04636" name="l04636"></a><span class="lineno"> 4636</span>            }</div>
+<div class="line"><a id="l04637" name="l04637"></a><span class="lineno"> 4637</span>        }</div>
+<div class="line"><a id="l04638" name="l04638"></a><span class="lineno"> 4638</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04639" name="l04639"></a><span class="lineno"> 4639</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dui): Buffer does not have format &#39;RT_FORMAT_UNSIGNED_INT&#39;.&quot;</span>);</div>
+<div class="line"><a id="l04640" name="l04640"></a><span class="lineno"> 4640</span>    }</div>
+<div class="line"><a id="l04641" name="l04641"></a><span class="lineno"> 4641</span> </div>
+<div class="line"><a id="l04642" name="l04642"></a><span class="lineno"> 4642</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04643" name="l04643"></a><span class="lineno"> 4643</span> </div>
+<div class="line"><a id="l04644" name="l04644"></a><span class="lineno"> 4644</span>}</div>
+<div class="line"><a id="l04645" name="l04645"></a><span class="lineno"> 4645</span> </div>
+<div class="line"><a id="l04646" name="l04646"></a><span class="lineno"> 4646</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dint2(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;optix::int2&gt;&gt; &amp;array ){</div>
 <div class="line"><a id="l04647" name="l04647"></a><span class="lineno"> 4647</span> </div>
-<div class="line"><a id="l04648" name="l04648"></a><span class="lineno"> 4648</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04649" name="l04649"></a><span class="lineno"> 4649</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
-<div class="line"><a id="l04650" name="l04650"></a><span class="lineno"> 4650</span> </div>
-<div class="line"><a id="l04651" name="l04651"></a><span class="lineno"> 4651</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04652" name="l04652"></a><span class="lineno"> 4652</span>    RTformat format;</div>
-<div class="line"><a id="l04653" name="l04653"></a><span class="lineno"> 4653</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04654" name="l04654"></a><span class="lineno"> 4654</span> </div>
-<div class="line"><a id="l04655" name="l04655"></a><span class="lineno"> 4655</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04656" name="l04656"></a><span class="lineno"> 4656</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04657" name="l04657"></a><span class="lineno"> 4657</span> </div>
-<div class="line"><a id="l04658" name="l04658"></a><span class="lineno"> 4658</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_INT2 ){</div>
-<div class="line"><a id="l04659" name="l04659"></a><span class="lineno"> 4659</span>        optix::int2* data = (optix::int2*)ptr;</div>
-<div class="line"><a id="l04660" name="l04660"></a><span class="lineno"> 4660</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
-<div class="line"><a id="l04661" name="l04661"></a><span class="lineno"> 4661</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
-<div class="line"><a id="l04662" name="l04662"></a><span class="lineno"> 4662</span>                data[i+j*bsize.x].x = array[j][i].x;</div>
-<div class="line"><a id="l04663" name="l04663"></a><span class="lineno"> 4663</span>                data[i+j*bsize.x].y = array[j][i].y;</div>
-<div class="line"><a id="l04664" name="l04664"></a><span class="lineno"> 4664</span>            }</div>
-<div class="line"><a id="l04665" name="l04665"></a><span class="lineno"> 4665</span>        }</div>
-<div class="line"><a id="l04666" name="l04666"></a><span class="lineno"> 4666</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04667" name="l04667"></a><span class="lineno"> 4667</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dint2): Buffer does not have format &#39;RT_FORMAT_INT2&#39;.&quot;</span>);</div>
-<div class="line"><a id="l04668" name="l04668"></a><span class="lineno"> 4668</span>    }</div>
-<div class="line"><a id="l04669" name="l04669"></a><span class="lineno"> 4669</span> </div>
-<div class="line"><a id="l04670" name="l04670"></a><span class="lineno"> 4670</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
-<div class="line"><a id="l04671" name="l04671"></a><span class="lineno"> 4671</span> </div>
-<div class="line"><a id="l04672" name="l04672"></a><span class="lineno"> 4672</span>}</div>
-<div class="line"><a id="l04673" name="l04673"></a><span class="lineno"> 4673</span> </div>
-<div class="line"><a id="l04674" name="l04674"></a><span class="lineno"> 4674</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dint3(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;optix::int3&gt;&gt; &amp;array ){</div>
-<div class="line"><a id="l04675" name="l04675"></a><span class="lineno"> 4675</span> </div>
-<div class="line"><a id="l04676" name="l04676"></a><span class="lineno"> 4676</span>    optix::int2 bsize;</div>
-<div class="line"><a id="l04677" name="l04677"></a><span class="lineno"> 4677</span>    bsize.y = array.size();</div>
-<div class="line"><a id="l04678" name="l04678"></a><span class="lineno"> 4678</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
-<div class="line"><a id="l04679" name="l04679"></a><span class="lineno"> 4679</span>        bsize.x = 0;</div>
-<div class="line"><a id="l04680" name="l04680"></a><span class="lineno"> 4680</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04681" name="l04681"></a><span class="lineno"> 4681</span>        bsize.x = array.front().size();</div>
-<div class="line"><a id="l04682" name="l04682"></a><span class="lineno"> 4682</span>    }</div>
+<div class="line"><a id="l04648" name="l04648"></a><span class="lineno"> 4648</span>    optix::int2 bsize;</div>
+<div class="line"><a id="l04649" name="l04649"></a><span class="lineno"> 4649</span>    bsize.y = array.size();</div>
+<div class="line"><a id="l04650" name="l04650"></a><span class="lineno"> 4650</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
+<div class="line"><a id="l04651" name="l04651"></a><span class="lineno"> 4651</span>        bsize.x = 0;</div>
+<div class="line"><a id="l04652" name="l04652"></a><span class="lineno"> 4652</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04653" name="l04653"></a><span class="lineno"> 4653</span>        bsize.x = array.front().size();</div>
+<div class="line"><a id="l04654" name="l04654"></a><span class="lineno"> 4654</span>    }</div>
+<div class="line"><a id="l04655" name="l04655"></a><span class="lineno"> 4655</span> </div>
+<div class="line"><a id="l04656" name="l04656"></a><span class="lineno"> 4656</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04657" name="l04657"></a><span class="lineno"> 4657</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
+<div class="line"><a id="l04658" name="l04658"></a><span class="lineno"> 4658</span> </div>
+<div class="line"><a id="l04659" name="l04659"></a><span class="lineno"> 4659</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04660" name="l04660"></a><span class="lineno"> 4660</span>    RTformat format;</div>
+<div class="line"><a id="l04661" name="l04661"></a><span class="lineno"> 4661</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04662" name="l04662"></a><span class="lineno"> 4662</span> </div>
+<div class="line"><a id="l04663" name="l04663"></a><span class="lineno"> 4663</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04664" name="l04664"></a><span class="lineno"> 4664</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l04665" name="l04665"></a><span class="lineno"> 4665</span> </div>
+<div class="line"><a id="l04666" name="l04666"></a><span class="lineno"> 4666</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_INT2 ){</div>
+<div class="line"><a id="l04667" name="l04667"></a><span class="lineno"> 4667</span>        optix::int2* data = (optix::int2*)ptr;</div>
+<div class="line"><a id="l04668" name="l04668"></a><span class="lineno"> 4668</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
+<div class="line"><a id="l04669" name="l04669"></a><span class="lineno"> 4669</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
+<div class="line"><a id="l04670" name="l04670"></a><span class="lineno"> 4670</span>                data[i+j*bsize.x].x = array[j][i].x;</div>
+<div class="line"><a id="l04671" name="l04671"></a><span class="lineno"> 4671</span>                data[i+j*bsize.x].y = array[j][i].y;</div>
+<div class="line"><a id="l04672" name="l04672"></a><span class="lineno"> 4672</span>            }</div>
+<div class="line"><a id="l04673" name="l04673"></a><span class="lineno"> 4673</span>        }</div>
+<div class="line"><a id="l04674" name="l04674"></a><span class="lineno"> 4674</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04675" name="l04675"></a><span class="lineno"> 4675</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dint2): Buffer does not have format &#39;RT_FORMAT_INT2&#39;.&quot;</span>);</div>
+<div class="line"><a id="l04676" name="l04676"></a><span class="lineno"> 4676</span>    }</div>
+<div class="line"><a id="l04677" name="l04677"></a><span class="lineno"> 4677</span> </div>
+<div class="line"><a id="l04678" name="l04678"></a><span class="lineno"> 4678</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04679" name="l04679"></a><span class="lineno"> 4679</span> </div>
+<div class="line"><a id="l04680" name="l04680"></a><span class="lineno"> 4680</span>}</div>
+<div class="line"><a id="l04681" name="l04681"></a><span class="lineno"> 4681</span> </div>
+<div class="line"><a id="l04682" name="l04682"></a><span class="lineno"> 4682</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dint3(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;optix::int3&gt;&gt; &amp;array ){</div>
 <div class="line"><a id="l04683" name="l04683"></a><span class="lineno"> 4683</span> </div>
-<div class="line"><a id="l04684" name="l04684"></a><span class="lineno"> 4684</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04685" name="l04685"></a><span class="lineno"> 4685</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
-<div class="line"><a id="l04686" name="l04686"></a><span class="lineno"> 4686</span> </div>
-<div class="line"><a id="l04687" name="l04687"></a><span class="lineno"> 4687</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04688" name="l04688"></a><span class="lineno"> 4688</span>    RTformat format;</div>
-<div class="line"><a id="l04689" name="l04689"></a><span class="lineno"> 4689</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04690" name="l04690"></a><span class="lineno"> 4690</span> </div>
-<div class="line"><a id="l04691" name="l04691"></a><span class="lineno"> 4691</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04692" name="l04692"></a><span class="lineno"> 4692</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04693" name="l04693"></a><span class="lineno"> 4693</span> </div>
-<div class="line"><a id="l04694" name="l04694"></a><span class="lineno"> 4694</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_INT3 ){</div>
-<div class="line"><a id="l04695" name="l04695"></a><span class="lineno"> 4695</span>        optix::int3* data = (optix::int3*)ptr;</div>
-<div class="line"><a id="l04696" name="l04696"></a><span class="lineno"> 4696</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
-<div class="line"><a id="l04697" name="l04697"></a><span class="lineno"> 4697</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
-<div class="line"><a id="l04698" name="l04698"></a><span class="lineno"> 4698</span>                data[i+j*bsize.x].x = array[j][i].x;</div>
-<div class="line"><a id="l04699" name="l04699"></a><span class="lineno"> 4699</span>                data[i+j*bsize.x].y = array[j][i].y;</div>
-<div class="line"><a id="l04700" name="l04700"></a><span class="lineno"> 4700</span>                data[i+j*bsize.x].z = array[j][i].z;</div>
-<div class="line"><a id="l04701" name="l04701"></a><span class="lineno"> 4701</span>            }</div>
-<div class="line"><a id="l04702" name="l04702"></a><span class="lineno"> 4702</span>        }</div>
-<div class="line"><a id="l04703" name="l04703"></a><span class="lineno"> 4703</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04704" name="l04704"></a><span class="lineno"> 4704</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dint3): Buffer does not have format &#39;RT_FORMAT_INT3&#39;.&quot;</span>);</div>
-<div class="line"><a id="l04705" name="l04705"></a><span class="lineno"> 4705</span>    }</div>
-<div class="line"><a id="l04706" name="l04706"></a><span class="lineno"> 4706</span> </div>
-<div class="line"><a id="l04707" name="l04707"></a><span class="lineno"> 4707</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
-<div class="line"><a id="l04708" name="l04708"></a><span class="lineno"> 4708</span> </div>
-<div class="line"><a id="l04709" name="l04709"></a><span class="lineno"> 4709</span>}</div>
-<div class="line"><a id="l04710" name="l04710"></a><span class="lineno"> 4710</span> </div>
-<div class="line"><a id="l04711" name="l04711"></a><span class="lineno"> 4711</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dbool(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;bool&gt;&gt; &amp;array ){</div>
-<div class="line"><a id="l04712" name="l04712"></a><span class="lineno"> 4712</span> </div>
-<div class="line"><a id="l04713" name="l04713"></a><span class="lineno"> 4713</span>    optix::int2 bsize;</div>
-<div class="line"><a id="l04714" name="l04714"></a><span class="lineno"> 4714</span>    bsize.y = array.size();</div>
-<div class="line"><a id="l04715" name="l04715"></a><span class="lineno"> 4715</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
-<div class="line"><a id="l04716" name="l04716"></a><span class="lineno"> 4716</span>        bsize.x = 0;</div>
-<div class="line"><a id="l04717" name="l04717"></a><span class="lineno"> 4717</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04718" name="l04718"></a><span class="lineno"> 4718</span>        bsize.x = array.front().size();</div>
-<div class="line"><a id="l04719" name="l04719"></a><span class="lineno"> 4719</span>    }</div>
+<div class="line"><a id="l04684" name="l04684"></a><span class="lineno"> 4684</span>    optix::int2 bsize;</div>
+<div class="line"><a id="l04685" name="l04685"></a><span class="lineno"> 4685</span>    bsize.y = array.size();</div>
+<div class="line"><a id="l04686" name="l04686"></a><span class="lineno"> 4686</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
+<div class="line"><a id="l04687" name="l04687"></a><span class="lineno"> 4687</span>        bsize.x = 0;</div>
+<div class="line"><a id="l04688" name="l04688"></a><span class="lineno"> 4688</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04689" name="l04689"></a><span class="lineno"> 4689</span>        bsize.x = array.front().size();</div>
+<div class="line"><a id="l04690" name="l04690"></a><span class="lineno"> 4690</span>    }</div>
+<div class="line"><a id="l04691" name="l04691"></a><span class="lineno"> 4691</span> </div>
+<div class="line"><a id="l04692" name="l04692"></a><span class="lineno"> 4692</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04693" name="l04693"></a><span class="lineno"> 4693</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
+<div class="line"><a id="l04694" name="l04694"></a><span class="lineno"> 4694</span> </div>
+<div class="line"><a id="l04695" name="l04695"></a><span class="lineno"> 4695</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04696" name="l04696"></a><span class="lineno"> 4696</span>    RTformat format;</div>
+<div class="line"><a id="l04697" name="l04697"></a><span class="lineno"> 4697</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04698" name="l04698"></a><span class="lineno"> 4698</span> </div>
+<div class="line"><a id="l04699" name="l04699"></a><span class="lineno"> 4699</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04700" name="l04700"></a><span class="lineno"> 4700</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l04701" name="l04701"></a><span class="lineno"> 4701</span> </div>
+<div class="line"><a id="l04702" name="l04702"></a><span class="lineno"> 4702</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_INT3 ){</div>
+<div class="line"><a id="l04703" name="l04703"></a><span class="lineno"> 4703</span>        optix::int3* data = (optix::int3*)ptr;</div>
+<div class="line"><a id="l04704" name="l04704"></a><span class="lineno"> 4704</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
+<div class="line"><a id="l04705" name="l04705"></a><span class="lineno"> 4705</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
+<div class="line"><a id="l04706" name="l04706"></a><span class="lineno"> 4706</span>                data[i+j*bsize.x].x = array[j][i].x;</div>
+<div class="line"><a id="l04707" name="l04707"></a><span class="lineno"> 4707</span>                data[i+j*bsize.x].y = array[j][i].y;</div>
+<div class="line"><a id="l04708" name="l04708"></a><span class="lineno"> 4708</span>                data[i+j*bsize.x].z = array[j][i].z;</div>
+<div class="line"><a id="l04709" name="l04709"></a><span class="lineno"> 4709</span>            }</div>
+<div class="line"><a id="l04710" name="l04710"></a><span class="lineno"> 4710</span>        }</div>
+<div class="line"><a id="l04711" name="l04711"></a><span class="lineno"> 4711</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04712" name="l04712"></a><span class="lineno"> 4712</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dint3): Buffer does not have format &#39;RT_FORMAT_INT3&#39;.&quot;</span>);</div>
+<div class="line"><a id="l04713" name="l04713"></a><span class="lineno"> 4713</span>    }</div>
+<div class="line"><a id="l04714" name="l04714"></a><span class="lineno"> 4714</span> </div>
+<div class="line"><a id="l04715" name="l04715"></a><span class="lineno"> 4715</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04716" name="l04716"></a><span class="lineno"> 4716</span> </div>
+<div class="line"><a id="l04717" name="l04717"></a><span class="lineno"> 4717</span>}</div>
+<div class="line"><a id="l04718" name="l04718"></a><span class="lineno"> 4718</span> </div>
+<div class="line"><a id="l04719" name="l04719"></a><span class="lineno"> 4719</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer2Dbool(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;bool&gt;&gt; &amp;array ){</div>
 <div class="line"><a id="l04720" name="l04720"></a><span class="lineno"> 4720</span> </div>
-<div class="line"><a id="l04721" name="l04721"></a><span class="lineno"> 4721</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04722" name="l04722"></a><span class="lineno"> 4722</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
-<div class="line"><a id="l04723" name="l04723"></a><span class="lineno"> 4723</span> </div>
-<div class="line"><a id="l04724" name="l04724"></a><span class="lineno"> 4724</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04725" name="l04725"></a><span class="lineno"> 4725</span>    RTformat format;</div>
-<div class="line"><a id="l04726" name="l04726"></a><span class="lineno"> 4726</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04727" name="l04727"></a><span class="lineno"> 4727</span> </div>
-<div class="line"><a id="l04728" name="l04728"></a><span class="lineno"> 4728</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04729" name="l04729"></a><span class="lineno"> 4729</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
-<div class="line"><a id="l04730" name="l04730"></a><span class="lineno"> 4730</span> </div>
-<div class="line"><a id="l04731" name="l04731"></a><span class="lineno"> 4731</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_BYTE ){</div>
-<div class="line"><a id="l04732" name="l04732"></a><span class="lineno"> 4732</span>        <span class="keywordtype">bool</span>* data = (<span class="keywordtype">bool</span>*)ptr;</div>
-<div class="line"><a id="l04733" name="l04733"></a><span class="lineno"> 4733</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
-<div class="line"><a id="l04734" name="l04734"></a><span class="lineno"> 4734</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
-<div class="line"><a id="l04735" name="l04735"></a><span class="lineno"> 4735</span>                data[i+j*bsize.x] = array[j][i];</div>
-<div class="line"><a id="l04736" name="l04736"></a><span class="lineno"> 4736</span>            }</div>
-<div class="line"><a id="l04737" name="l04737"></a><span class="lineno"> 4737</span>        }</div>
-<div class="line"><a id="l04738" name="l04738"></a><span class="lineno"> 4738</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04739" name="l04739"></a><span class="lineno"> 4739</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dbool): Buffer does not have format &#39;RT_FORMAT_BYTE&#39;.&quot;</span>);</div>
-<div class="line"><a id="l04740" name="l04740"></a><span class="lineno"> 4740</span>    }</div>
-<div class="line"><a id="l04741" name="l04741"></a><span class="lineno"> 4741</span> </div>
-<div class="line"><a id="l04742" name="l04742"></a><span class="lineno"> 4742</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
-<div class="line"><a id="l04743" name="l04743"></a><span class="lineno"> 4743</span> </div>
-<div class="line"><a id="l04744" name="l04744"></a><span class="lineno"> 4744</span>}</div>
-<div class="line"><a id="l04745" name="l04745"></a><span class="lineno"> 4745</span> </div>
-<div class="line"><a id="l04746" name="l04746"></a><span class="lineno"> 4746</span><span class="keyword">template</span> &lt;<span class="keyword">typename</span> anytype&gt;</div>
-<div class="line"><a id="l04747" name="l04747"></a><span class="lineno"> 4747</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer3D(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;std::vector&lt;anytype&gt;&gt;&gt; &amp;array ){</div>
-<div class="line"><a id="l04748" name="l04748"></a><span class="lineno"> 4748</span> </div>
-<div class="line"><a id="l04749" name="l04749"></a><span class="lineno"> 4749</span>    optix::int3 bsize;</div>
-<div class="line"><a id="l04750" name="l04750"></a><span class="lineno"> 4750</span>    bsize.z = array.size();</div>
-<div class="line"><a id="l04751" name="l04751"></a><span class="lineno"> 4751</span>    <span class="keywordflow">if</span>( bsize.z==0 ){</div>
-<div class="line"><a id="l04752" name="l04752"></a><span class="lineno"> 4752</span>        bsize.y=0;</div>
-<div class="line"><a id="l04753" name="l04753"></a><span class="lineno"> 4753</span>        bsize.x=0;</div>
-<div class="line"><a id="l04754" name="l04754"></a><span class="lineno"> 4754</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04755" name="l04755"></a><span class="lineno"> 4755</span>        bsize.y=array.front().size();</div>
-<div class="line"><a id="l04756" name="l04756"></a><span class="lineno"> 4756</span>        <span class="keywordflow">if</span>( bsize.y==0 ){</div>
-<div class="line"><a id="l04757" name="l04757"></a><span class="lineno"> 4757</span>            bsize.x=0;</div>
-<div class="line"><a id="l04758" name="l04758"></a><span class="lineno"> 4758</span>        }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04759" name="l04759"></a><span class="lineno"> 4759</span>            bsize.x = array.front().front().size();</div>
-<div class="line"><a id="l04760" name="l04760"></a><span class="lineno"> 4760</span>        }</div>
-<div class="line"><a id="l04761" name="l04761"></a><span class="lineno"> 4761</span>    }</div>
-<div class="line"><a id="l04762" name="l04762"></a><span class="lineno"> 4762</span> </div>
-<div class="line"><a id="l04763" name="l04763"></a><span class="lineno"> 4763</span>    <span class="comment">//set buffer size</span></div>
-<div class="line"><a id="l04764" name="l04764"></a><span class="lineno"> 4764</span>    RT_CHECK_ERROR( rtBufferSetSize3D( buffer, bsize.x, bsize.y, bsize.z ) );</div>
-<div class="line"><a id="l04765" name="l04765"></a><span class="lineno"> 4765</span> </div>
-<div class="line"><a id="l04766" name="l04766"></a><span class="lineno"> 4766</span>    <span class="comment">//get buffer format</span></div>
-<div class="line"><a id="l04767" name="l04767"></a><span class="lineno"> 4767</span>    RTformat format;</div>
-<div class="line"><a id="l04768" name="l04768"></a><span class="lineno"> 4768</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
-<div class="line"><a id="l04769" name="l04769"></a><span class="lineno"> 4769</span> </div>
-<div class="line"><a id="l04770" name="l04770"></a><span class="lineno"> 4770</span>    <span class="comment">//zero out buffer</span></div>
-<div class="line"><a id="l04771" name="l04771"></a><span class="lineno"> 4771</span>    <span class="keywordtype">void</span>* ptr;</div>
-<div class="line"><a id="l04772" name="l04772"></a><span class="lineno"> 4772</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l04721" name="l04721"></a><span class="lineno"> 4721</span>    optix::int2 bsize;</div>
+<div class="line"><a id="l04722" name="l04722"></a><span class="lineno"> 4722</span>    bsize.y = array.size();</div>
+<div class="line"><a id="l04723" name="l04723"></a><span class="lineno"> 4723</span>    <span class="keywordflow">if</span>( bsize.y==0 ){</div>
+<div class="line"><a id="l04724" name="l04724"></a><span class="lineno"> 4724</span>        bsize.x = 0;</div>
+<div class="line"><a id="l04725" name="l04725"></a><span class="lineno"> 4725</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04726" name="l04726"></a><span class="lineno"> 4726</span>        bsize.x = array.front().size();</div>
+<div class="line"><a id="l04727" name="l04727"></a><span class="lineno"> 4727</span>    }</div>
+<div class="line"><a id="l04728" name="l04728"></a><span class="lineno"> 4728</span> </div>
+<div class="line"><a id="l04729" name="l04729"></a><span class="lineno"> 4729</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04730" name="l04730"></a><span class="lineno"> 4730</span>    RT_CHECK_ERROR( rtBufferSetSize2D( buffer, bsize.x, bsize.y ) );</div>
+<div class="line"><a id="l04731" name="l04731"></a><span class="lineno"> 4731</span> </div>
+<div class="line"><a id="l04732" name="l04732"></a><span class="lineno"> 4732</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04733" name="l04733"></a><span class="lineno"> 4733</span>    RTformat format;</div>
+<div class="line"><a id="l04734" name="l04734"></a><span class="lineno"> 4734</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04735" name="l04735"></a><span class="lineno"> 4735</span> </div>
+<div class="line"><a id="l04736" name="l04736"></a><span class="lineno"> 4736</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04737" name="l04737"></a><span class="lineno"> 4737</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l04738" name="l04738"></a><span class="lineno"> 4738</span> </div>
+<div class="line"><a id="l04739" name="l04739"></a><span class="lineno"> 4739</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_BYTE ){</div>
+<div class="line"><a id="l04740" name="l04740"></a><span class="lineno"> 4740</span>        <span class="keywordtype">bool</span>* data = (<span class="keywordtype">bool</span>*)ptr;</div>
+<div class="line"><a id="l04741" name="l04741"></a><span class="lineno"> 4741</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
+<div class="line"><a id="l04742" name="l04742"></a><span class="lineno"> 4742</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
+<div class="line"><a id="l04743" name="l04743"></a><span class="lineno"> 4743</span>                data[i+j*bsize.x] = array[j][i];</div>
+<div class="line"><a id="l04744" name="l04744"></a><span class="lineno"> 4744</span>            }</div>
+<div class="line"><a id="l04745" name="l04745"></a><span class="lineno"> 4745</span>        }</div>
+<div class="line"><a id="l04746" name="l04746"></a><span class="lineno"> 4746</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04747" name="l04747"></a><span class="lineno"> 4747</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer2Dbool): Buffer does not have format &#39;RT_FORMAT_BYTE&#39;.&quot;</span>);</div>
+<div class="line"><a id="l04748" name="l04748"></a><span class="lineno"> 4748</span>    }</div>
+<div class="line"><a id="l04749" name="l04749"></a><span class="lineno"> 4749</span> </div>
+<div class="line"><a id="l04750" name="l04750"></a><span class="lineno"> 4750</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
+<div class="line"><a id="l04751" name="l04751"></a><span class="lineno"> 4751</span> </div>
+<div class="line"><a id="l04752" name="l04752"></a><span class="lineno"> 4752</span>}</div>
+<div class="line"><a id="l04753" name="l04753"></a><span class="lineno"> 4753</span> </div>
+<div class="line"><a id="l04754" name="l04754"></a><span class="lineno"> 4754</span><span class="keyword">template</span> &lt;<span class="keyword">typename</span> anytype&gt;</div>
+<div class="line"><a id="l04755" name="l04755"></a><span class="lineno"> 4755</span><span class="keywordtype">void</span> RadiationModel::initializeBuffer3D(RTbuffer &amp;buffer, <span class="keyword">const</span> std::vector&lt;std::vector&lt;std::vector&lt;anytype&gt;&gt;&gt; &amp;array ){</div>
+<div class="line"><a id="l04756" name="l04756"></a><span class="lineno"> 4756</span> </div>
+<div class="line"><a id="l04757" name="l04757"></a><span class="lineno"> 4757</span>    optix::int3 bsize;</div>
+<div class="line"><a id="l04758" name="l04758"></a><span class="lineno"> 4758</span>    bsize.z = array.size();</div>
+<div class="line"><a id="l04759" name="l04759"></a><span class="lineno"> 4759</span>    <span class="keywordflow">if</span>( bsize.z==0 ){</div>
+<div class="line"><a id="l04760" name="l04760"></a><span class="lineno"> 4760</span>        bsize.y=0;</div>
+<div class="line"><a id="l04761" name="l04761"></a><span class="lineno"> 4761</span>        bsize.x=0;</div>
+<div class="line"><a id="l04762" name="l04762"></a><span class="lineno"> 4762</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04763" name="l04763"></a><span class="lineno"> 4763</span>        bsize.y=array.front().size();</div>
+<div class="line"><a id="l04764" name="l04764"></a><span class="lineno"> 4764</span>        <span class="keywordflow">if</span>( bsize.y==0 ){</div>
+<div class="line"><a id="l04765" name="l04765"></a><span class="lineno"> 4765</span>            bsize.x=0;</div>
+<div class="line"><a id="l04766" name="l04766"></a><span class="lineno"> 4766</span>        }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04767" name="l04767"></a><span class="lineno"> 4767</span>            bsize.x = array.front().front().size();</div>
+<div class="line"><a id="l04768" name="l04768"></a><span class="lineno"> 4768</span>        }</div>
+<div class="line"><a id="l04769" name="l04769"></a><span class="lineno"> 4769</span>    }</div>
+<div class="line"><a id="l04770" name="l04770"></a><span class="lineno"> 4770</span> </div>
+<div class="line"><a id="l04771" name="l04771"></a><span class="lineno"> 4771</span>    <span class="comment">//set buffer size</span></div>
+<div class="line"><a id="l04772" name="l04772"></a><span class="lineno"> 4772</span>    RT_CHECK_ERROR( rtBufferSetSize3D( buffer, bsize.x, bsize.y, bsize.z ) );</div>
 <div class="line"><a id="l04773" name="l04773"></a><span class="lineno"> 4773</span> </div>
-<div class="line"><a id="l04774" name="l04774"></a><span class="lineno"> 4774</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT ){</div>
-<div class="line"><a id="l04775" name="l04775"></a><span class="lineno"> 4775</span>        <span class="keywordtype">float</span>* data = (<span class="keywordtype">float</span>*)ptr;</div>
-<div class="line"><a id="l04776" name="l04776"></a><span class="lineno"> 4776</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> k = 0; k&lt;bsize.z; k++ ) {</div>
-<div class="line"><a id="l04777" name="l04777"></a><span class="lineno"> 4777</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
-<div class="line"><a id="l04778" name="l04778"></a><span class="lineno"> 4778</span>                <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
-<div class="line"><a id="l04779" name="l04779"></a><span class="lineno"> 4779</span>                    data[i+j*bsize.x+k*bsize.y*bsize.x] = array[k][j][i];</div>
-<div class="line"><a id="l04780" name="l04780"></a><span class="lineno"> 4780</span>                }</div>
-<div class="line"><a id="l04781" name="l04781"></a><span class="lineno"> 4781</span>            }</div>
-<div class="line"><a id="l04782" name="l04782"></a><span class="lineno"> 4782</span>        }</div>
-<div class="line"><a id="l04783" name="l04783"></a><span class="lineno"> 4783</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_INT ){</div>
-<div class="line"><a id="l04784" name="l04784"></a><span class="lineno"> 4784</span>        <span class="keywordtype">int</span>* data = (<span class="keywordtype">int</span>*)ptr;</div>
-<div class="line"><a id="l04785" name="l04785"></a><span class="lineno"> 4785</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> k = 0; k&lt;bsize.z; k++ ) {</div>
-<div class="line"><a id="l04786" name="l04786"></a><span class="lineno"> 4786</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
-<div class="line"><a id="l04787" name="l04787"></a><span class="lineno"> 4787</span>                <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
-<div class="line"><a id="l04788" name="l04788"></a><span class="lineno"> 4788</span>                    data[i+j*bsize.x+k*bsize.y*bsize.x] = array[k][j][i];</div>
-<div class="line"><a id="l04789" name="l04789"></a><span class="lineno"> 4789</span>                }</div>
-<div class="line"><a id="l04790" name="l04790"></a><span class="lineno"> 4790</span>            }</div>
-<div class="line"><a id="l04791" name="l04791"></a><span class="lineno"> 4791</span>        }</div>
-<div class="line"><a id="l04792" name="l04792"></a><span class="lineno"> 4792</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_UNSIGNED_INT ){</div>
-<div class="line"><a id="l04793" name="l04793"></a><span class="lineno"> 4793</span>        uint* data = (uint*)ptr;</div>
-<div class="line"><a id="l04794" name="l04794"></a><span class="lineno"> 4794</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> k = 0; k&lt;bsize.z; k++ ) {</div>
-<div class="line"><a id="l04795" name="l04795"></a><span class="lineno"> 4795</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
-<div class="line"><a id="l04796" name="l04796"></a><span class="lineno"> 4796</span>                <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
-<div class="line"><a id="l04797" name="l04797"></a><span class="lineno"> 4797</span>                    data[i+j*bsize.x+k*bsize.y*bsize.x] = array[k][j][i];</div>
-<div class="line"><a id="l04798" name="l04798"></a><span class="lineno"> 4798</span>                }</div>
-<div class="line"><a id="l04799" name="l04799"></a><span class="lineno"> 4799</span>            }</div>
-<div class="line"><a id="l04800" name="l04800"></a><span class="lineno"> 4800</span>        }</div>
-<div class="line"><a id="l04801" name="l04801"></a><span class="lineno"> 4801</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_BYTE ){</div>
-<div class="line"><a id="l04802" name="l04802"></a><span class="lineno"> 4802</span>        <span class="keywordtype">bool</span>* data = (<span class="keywordtype">bool</span>*)ptr;</div>
-<div class="line"><a id="l04803" name="l04803"></a><span class="lineno"> 4803</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> k = 0; k&lt;bsize.z; k++ ) {</div>
-<div class="line"><a id="l04804" name="l04804"></a><span class="lineno"> 4804</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
-<div class="line"><a id="l04805" name="l04805"></a><span class="lineno"> 4805</span>                <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
-<div class="line"><a id="l04806" name="l04806"></a><span class="lineno"> 4806</span>                    data[i+j*bsize.x+k*bsize.y*bsize.x] = array[k][j][i];</div>
-<div class="line"><a id="l04807" name="l04807"></a><span class="lineno"> 4807</span>                }</div>
-<div class="line"><a id="l04808" name="l04808"></a><span class="lineno"> 4808</span>            }</div>
-<div class="line"><a id="l04809" name="l04809"></a><span class="lineno"> 4809</span>        }</div>
-<div class="line"><a id="l04810" name="l04810"></a><span class="lineno"> 4810</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l04811" name="l04811"></a><span class="lineno"> 4811</span>        std::cerr&lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer3D): unsupported buffer format.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l04812" name="l04812"></a><span class="lineno"> 4812</span> </div>
-<div class="line"><a id="l04813" name="l04813"></a><span class="lineno"> 4813</span>    }</div>
-<div class="line"><a id="l04814" name="l04814"></a><span class="lineno"> 4814</span> </div>
-<div class="line"><a id="l04815" name="l04815"></a><span class="lineno"> 4815</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
-<div class="line"><a id="l04816" name="l04816"></a><span class="lineno"> 4816</span> </div>
-<div class="line"><a id="l04817" name="l04817"></a><span class="lineno"> 4817</span> </div>
-<div class="line"><a id="l04818" name="l04818"></a><span class="lineno"> 4818</span>}</div>
-<div class="line"><a id="l04819" name="l04819"></a><span class="lineno"> 4819</span> </div>
-<div class="foldopen" id="foldopen04820" data-start="{" data-end="}">
-<div class="line"><a id="l04820" name="l04820"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a12d9870f22e5f3719baa7fde8e07fb0a"> 4820</a></span><span class="keywordtype">float</span> <a class="code hl_function" href="class_radiation_model.html#a12d9870f22e5f3719baa7fde8e07fb0a">RadiationModel::calculateGtheta</a>(<a class="code hl_class" href="classhelios_1_1_context.html">helios::Context</a>* context, <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> view_direction ){</div>
-<div class="line"><a id="l04821" name="l04821"></a><span class="lineno"> 4821</span> </div>
-<div class="line"><a id="l04822" name="l04822"></a><span class="lineno"> 4822</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> dir = view_direction;</div>
-<div class="line"><a id="l04823" name="l04823"></a><span class="lineno"> 4823</span>    dir.<a class="code hl_function" href="structhelios_1_1vec3.html#a7a6826239394edc32ce6ae58b4622524">normalize</a>();</div>
+<div class="line"><a id="l04774" name="l04774"></a><span class="lineno"> 4774</span>    <span class="comment">//get buffer format</span></div>
+<div class="line"><a id="l04775" name="l04775"></a><span class="lineno"> 4775</span>    RTformat format;</div>
+<div class="line"><a id="l04776" name="l04776"></a><span class="lineno"> 4776</span>    RT_CHECK_ERROR( rtBufferGetFormat( buffer, &amp;format ) );</div>
+<div class="line"><a id="l04777" name="l04777"></a><span class="lineno"> 4777</span> </div>
+<div class="line"><a id="l04778" name="l04778"></a><span class="lineno"> 4778</span>    <span class="comment">//zero out buffer</span></div>
+<div class="line"><a id="l04779" name="l04779"></a><span class="lineno"> 4779</span>    <span class="keywordtype">void</span>* ptr;</div>
+<div class="line"><a id="l04780" name="l04780"></a><span class="lineno"> 4780</span>    RT_CHECK_ERROR( rtBufferMap( buffer, &amp;ptr ) );</div>
+<div class="line"><a id="l04781" name="l04781"></a><span class="lineno"> 4781</span> </div>
+<div class="line"><a id="l04782" name="l04782"></a><span class="lineno"> 4782</span>    <span class="keywordflow">if</span>( format==RT_FORMAT_FLOAT ){</div>
+<div class="line"><a id="l04783" name="l04783"></a><span class="lineno"> 4783</span>        <span class="keywordtype">float</span>* data = (<span class="keywordtype">float</span>*)ptr;</div>
+<div class="line"><a id="l04784" name="l04784"></a><span class="lineno"> 4784</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> k = 0; k&lt;bsize.z; k++ ) {</div>
+<div class="line"><a id="l04785" name="l04785"></a><span class="lineno"> 4785</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
+<div class="line"><a id="l04786" name="l04786"></a><span class="lineno"> 4786</span>                <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
+<div class="line"><a id="l04787" name="l04787"></a><span class="lineno"> 4787</span>                    data[i+j*bsize.x+k*bsize.y*bsize.x] = array[k][j][i];</div>
+<div class="line"><a id="l04788" name="l04788"></a><span class="lineno"> 4788</span>                }</div>
+<div class="line"><a id="l04789" name="l04789"></a><span class="lineno"> 4789</span>            }</div>
+<div class="line"><a id="l04790" name="l04790"></a><span class="lineno"> 4790</span>        }</div>
+<div class="line"><a id="l04791" name="l04791"></a><span class="lineno"> 4791</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_INT ){</div>
+<div class="line"><a id="l04792" name="l04792"></a><span class="lineno"> 4792</span>        <span class="keywordtype">int</span>* data = (<span class="keywordtype">int</span>*)ptr;</div>
+<div class="line"><a id="l04793" name="l04793"></a><span class="lineno"> 4793</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> k = 0; k&lt;bsize.z; k++ ) {</div>
+<div class="line"><a id="l04794" name="l04794"></a><span class="lineno"> 4794</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
+<div class="line"><a id="l04795" name="l04795"></a><span class="lineno"> 4795</span>                <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
+<div class="line"><a id="l04796" name="l04796"></a><span class="lineno"> 4796</span>                    data[i+j*bsize.x+k*bsize.y*bsize.x] = array[k][j][i];</div>
+<div class="line"><a id="l04797" name="l04797"></a><span class="lineno"> 4797</span>                }</div>
+<div class="line"><a id="l04798" name="l04798"></a><span class="lineno"> 4798</span>            }</div>
+<div class="line"><a id="l04799" name="l04799"></a><span class="lineno"> 4799</span>        }</div>
+<div class="line"><a id="l04800" name="l04800"></a><span class="lineno"> 4800</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_UNSIGNED_INT ){</div>
+<div class="line"><a id="l04801" name="l04801"></a><span class="lineno"> 4801</span>        uint* data = (uint*)ptr;</div>
+<div class="line"><a id="l04802" name="l04802"></a><span class="lineno"> 4802</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> k = 0; k&lt;bsize.z; k++ ) {</div>
+<div class="line"><a id="l04803" name="l04803"></a><span class="lineno"> 4803</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
+<div class="line"><a id="l04804" name="l04804"></a><span class="lineno"> 4804</span>                <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
+<div class="line"><a id="l04805" name="l04805"></a><span class="lineno"> 4805</span>                    data[i+j*bsize.x+k*bsize.y*bsize.x] = array[k][j][i];</div>
+<div class="line"><a id="l04806" name="l04806"></a><span class="lineno"> 4806</span>                }</div>
+<div class="line"><a id="l04807" name="l04807"></a><span class="lineno"> 4807</span>            }</div>
+<div class="line"><a id="l04808" name="l04808"></a><span class="lineno"> 4808</span>        }</div>
+<div class="line"><a id="l04809" name="l04809"></a><span class="lineno"> 4809</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( format==RT_FORMAT_BYTE ){</div>
+<div class="line"><a id="l04810" name="l04810"></a><span class="lineno"> 4810</span>        <span class="keywordtype">bool</span>* data = (<span class="keywordtype">bool</span>*)ptr;</div>
+<div class="line"><a id="l04811" name="l04811"></a><span class="lineno"> 4811</span>        <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> k = 0; k&lt;bsize.z; k++ ) {</div>
+<div class="line"><a id="l04812" name="l04812"></a><span class="lineno"> 4812</span>            <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> j = 0; j&lt;bsize.y; j++ ) {</div>
+<div class="line"><a id="l04813" name="l04813"></a><span class="lineno"> 4813</span>                <span class="keywordflow">for</span>( <span class="keywordtype">size_t</span> i = 0; i&lt;bsize.x; i++ ) {</div>
+<div class="line"><a id="l04814" name="l04814"></a><span class="lineno"> 4814</span>                    data[i+j*bsize.x+k*bsize.y*bsize.x] = array[k][j][i];</div>
+<div class="line"><a id="l04815" name="l04815"></a><span class="lineno"> 4815</span>                }</div>
+<div class="line"><a id="l04816" name="l04816"></a><span class="lineno"> 4816</span>            }</div>
+<div class="line"><a id="l04817" name="l04817"></a><span class="lineno"> 4817</span>        }</div>
+<div class="line"><a id="l04818" name="l04818"></a><span class="lineno"> 4818</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l04819" name="l04819"></a><span class="lineno"> 4819</span>        std::cerr&lt;&lt; <span class="stringliteral">&quot;ERROR (RadiationModel::initializeBuffer3D): unsupported buffer format.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l04820" name="l04820"></a><span class="lineno"> 4820</span> </div>
+<div class="line"><a id="l04821" name="l04821"></a><span class="lineno"> 4821</span>    }</div>
+<div class="line"><a id="l04822" name="l04822"></a><span class="lineno"> 4822</span> </div>
+<div class="line"><a id="l04823" name="l04823"></a><span class="lineno"> 4823</span>    RT_CHECK_ERROR( rtBufferUnmap( buffer ) );</div>
 <div class="line"><a id="l04824" name="l04824"></a><span class="lineno"> 4824</span> </div>
-<div class="line"><a id="l04825" name="l04825"></a><span class="lineno"> 4825</span>    <span class="keywordtype">float</span> Gtheta = 0;</div>
-<div class="line"><a id="l04826" name="l04826"></a><span class="lineno"> 4826</span>    <span class="keywordtype">float</span> total_area = 0;</div>
-<div class="line"><a id="l04827" name="l04827"></a><span class="lineno"> 4827</span>    <span class="keywordflow">for</span>( std::size_t u=0; u&lt;primitiveID.size(); u++ ){</div>
-<div class="line"><a id="l04828" name="l04828"></a><span class="lineno"> 4828</span> </div>
-<div class="line"><a id="l04829" name="l04829"></a><span class="lineno"> 4829</span>        uint UUID = context_UUIDs.at(primitiveID.at(u));</div>
-<div class="line"><a id="l04830" name="l04830"></a><span class="lineno"> 4830</span> </div>
-<div class="line"><a id="l04831" name="l04831"></a><span class="lineno"> 4831</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> normal = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#abfeadf8e6a35eb97da1439abc21c434e">getPrimitiveNormal</a>(UUID);</div>
-<div class="line"><a id="l04832" name="l04832"></a><span class="lineno"> 4832</span>        <span class="keywordtype">float</span> area = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a1dafe58b3251d2ef9d09112258b2e85d">getPrimitiveArea</a>(UUID);</div>
-<div class="line"><a id="l04833" name="l04833"></a><span class="lineno"> 4833</span> </div>
-<div class="line"><a id="l04834" name="l04834"></a><span class="lineno"> 4834</span>        Gtheta += fabsf(normal*dir)*area;</div>
-<div class="line"><a id="l04835" name="l04835"></a><span class="lineno"> 4835</span> </div>
-<div class="line"><a id="l04836" name="l04836"></a><span class="lineno"> 4836</span>        total_area += area;</div>
-<div class="line"><a id="l04837" name="l04837"></a><span class="lineno"> 4837</span> </div>
-<div class="line"><a id="l04838" name="l04838"></a><span class="lineno"> 4838</span>    }</div>
-<div class="line"><a id="l04839" name="l04839"></a><span class="lineno"> 4839</span> </div>
-<div class="line"><a id="l04840" name="l04840"></a><span class="lineno"> 4840</span>    <span class="keywordflow">return</span> Gtheta/total_area;</div>
+<div class="line"><a id="l04825" name="l04825"></a><span class="lineno"> 4825</span> </div>
+<div class="line"><a id="l04826" name="l04826"></a><span class="lineno"> 4826</span>}</div>
+<div class="line"><a id="l04827" name="l04827"></a><span class="lineno"> 4827</span> </div>
+<div class="foldopen" id="foldopen04828" data-start="{" data-end="}">
+<div class="line"><a id="l04828" name="l04828"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a12d9870f22e5f3719baa7fde8e07fb0a"> 4828</a></span><span class="keywordtype">float</span> <a class="code hl_function" href="class_radiation_model.html#a12d9870f22e5f3719baa7fde8e07fb0a">RadiationModel::calculateGtheta</a>(<a class="code hl_class" href="classhelios_1_1_context.html">helios::Context</a>* context, <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> view_direction ){</div>
+<div class="line"><a id="l04829" name="l04829"></a><span class="lineno"> 4829</span> </div>
+<div class="line"><a id="l04830" name="l04830"></a><span class="lineno"> 4830</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> dir = view_direction;</div>
+<div class="line"><a id="l04831" name="l04831"></a><span class="lineno"> 4831</span>    dir.<a class="code hl_function" href="structhelios_1_1vec3.html#a7a6826239394edc32ce6ae58b4622524">normalize</a>();</div>
+<div class="line"><a id="l04832" name="l04832"></a><span class="lineno"> 4832</span> </div>
+<div class="line"><a id="l04833" name="l04833"></a><span class="lineno"> 4833</span>    <span class="keywordtype">float</span> Gtheta = 0;</div>
+<div class="line"><a id="l04834" name="l04834"></a><span class="lineno"> 4834</span>    <span class="keywordtype">float</span> total_area = 0;</div>
+<div class="line"><a id="l04835" name="l04835"></a><span class="lineno"> 4835</span>    <span class="keywordflow">for</span>( std::size_t u=0; u&lt;primitiveID.size(); u++ ){</div>
+<div class="line"><a id="l04836" name="l04836"></a><span class="lineno"> 4836</span> </div>
+<div class="line"><a id="l04837" name="l04837"></a><span class="lineno"> 4837</span>        uint UUID = context_UUIDs.at(primitiveID.at(u));</div>
+<div class="line"><a id="l04838" name="l04838"></a><span class="lineno"> 4838</span> </div>
+<div class="line"><a id="l04839" name="l04839"></a><span class="lineno"> 4839</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> normal = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#abfeadf8e6a35eb97da1439abc21c434e">getPrimitiveNormal</a>(UUID);</div>
+<div class="line"><a id="l04840" name="l04840"></a><span class="lineno"> 4840</span>        <span class="keywordtype">float</span> area = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a1dafe58b3251d2ef9d09112258b2e85d">getPrimitiveArea</a>(UUID);</div>
 <div class="line"><a id="l04841" name="l04841"></a><span class="lineno"> 4841</span> </div>
-<div class="line"><a id="l04842" name="l04842"></a><span class="lineno"> 4842</span>}</div>
-</div>
+<div class="line"><a id="l04842" name="l04842"></a><span class="lineno"> 4842</span>        Gtheta += fabsf(normal*dir)*area;</div>
 <div class="line"><a id="l04843" name="l04843"></a><span class="lineno"> 4843</span> </div>
-<div class="line"><a id="l04844" name="l04844"></a><span class="lineno"> 4844</span><span class="keywordtype">void</span> RadiationModel::setCameraCalibration(<a class="code hl_struct" href="struct_camera_calibration.html">CameraCalibration</a> *<a class="code hl_struct" href="struct_camera_calibration.html">CameraCalibration</a>){</div>
-<div class="line"><a id="l04845" name="l04845"></a><span class="lineno"> 4845</span>    cameracalibration = <a class="code hl_struct" href="struct_camera_calibration.html">CameraCalibration</a>;</div>
-<div class="line"><a id="l04846" name="l04846"></a><span class="lineno"> 4846</span>    calibration_flag = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l04847" name="l04847"></a><span class="lineno"> 4847</span>}</div>
-<div class="line"><a id="l04848" name="l04848"></a><span class="lineno"> 4848</span> </div>
-<div class="foldopen" id="foldopen04849" data-start="{" data-end="}">
-<div class="line"><a id="l04849" name="l04849"></a><span class="lineno"><a class="line" href="class_radiation_model.html#afabb4e1a6c8c67ccc9c68aab7dfd07e3"> 4849</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#afabb4e1a6c8c67ccc9c68aab7dfd07e3">RadiationModel::updateCameraResponse</a>(<span class="keyword">const</span> std::string &amp;orginalcameralabel, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;sourcelabels_raw,</div>
-<div class="line"><a id="l04850" name="l04850"></a><span class="lineno"> 4850</span>                                          <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; cameraresponselabels, <a class="code hl_struct" href="structhelios_1_1vec2.html">vec2</a> &amp;wavelengthrange,</div>
-<div class="line"><a id="l04851" name="l04851"></a><span class="lineno"> 4851</span>                                          <span class="keyword">const</span> std::vector&lt;std::vector&lt;float&gt;&gt; &amp;truevalues, <span class="keyword">const</span> std::string &amp;calibratedmark) {</div>
-<div class="line"><a id="l04852" name="l04852"></a><span class="lineno"> 4852</span> </div>
-<div class="line"><a id="l04853" name="l04853"></a><span class="lineno"> 4853</span>    std::vector&lt;std::string&gt; objectlabels;</div>
-<div class="line"><a id="l04854" name="l04854"></a><span class="lineno"> 4854</span>    <a class="code hl_struct" href="structhelios_1_1vec2.html">vec2</a> wavelengthrange_c = wavelengthrange;</div>
-<div class="line"><a id="l04855" name="l04855"></a><span class="lineno"> 4855</span>    cameracalibration-&gt;<a class="code hl_function" href="struct_camera_calibration.html#a7f11687ea932b11dd32efb4a5a2d79e8">preprocessSpectra</a>(sourcelabels_raw, cameraresponselabels, objectlabels, wavelengthrange_c);</div>
+<div class="line"><a id="l04844" name="l04844"></a><span class="lineno"> 4844</span>        total_area += area;</div>
+<div class="line"><a id="l04845" name="l04845"></a><span class="lineno"> 4845</span> </div>
+<div class="line"><a id="l04846" name="l04846"></a><span class="lineno"> 4846</span>    }</div>
+<div class="line"><a id="l04847" name="l04847"></a><span class="lineno"> 4847</span> </div>
+<div class="line"><a id="l04848" name="l04848"></a><span class="lineno"> 4848</span>    <span class="keywordflow">return</span> Gtheta/total_area;</div>
+<div class="line"><a id="l04849" name="l04849"></a><span class="lineno"> 4849</span> </div>
+<div class="line"><a id="l04850" name="l04850"></a><span class="lineno"> 4850</span>}</div>
+</div>
+<div class="line"><a id="l04851" name="l04851"></a><span class="lineno"> 4851</span> </div>
+<div class="line"><a id="l04852" name="l04852"></a><span class="lineno"> 4852</span><span class="keywordtype">void</span> RadiationModel::setCameraCalibration(<a class="code hl_struct" href="struct_camera_calibration.html">CameraCalibration</a> *<a class="code hl_struct" href="struct_camera_calibration.html">CameraCalibration</a>){</div>
+<div class="line"><a id="l04853" name="l04853"></a><span class="lineno"> 4853</span>    cameracalibration = <a class="code hl_struct" href="struct_camera_calibration.html">CameraCalibration</a>;</div>
+<div class="line"><a id="l04854" name="l04854"></a><span class="lineno"> 4854</span>    calibration_flag = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l04855" name="l04855"></a><span class="lineno"> 4855</span>}</div>
 <div class="line"><a id="l04856" name="l04856"></a><span class="lineno"> 4856</span> </div>
-<div class="line"><a id="l04857" name="l04857"></a><span class="lineno"> 4857</span>    <a class="code hl_struct" href="struct_radiation_camera.html">RadiationCamera</a> calibratecamera = cameras.at(orginalcameralabel);</div>
-<div class="line"><a id="l04858" name="l04858"></a><span class="lineno"> 4858</span>    <a class="code hl_struct" href="struct_camera_properties.html">CameraProperties</a> cameraproperties;</div>
-<div class="line"><a id="l04859" name="l04859"></a><span class="lineno"> 4859</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#ac1419dfa651f1f8343f5fb5a2fad2148">HFOV</a> = calibratecamera.HFOV_degrees;</div>
-<div class="line"><a id="l04860" name="l04860"></a><span class="lineno"> 4860</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#a2806b640deeab5fbcd9dda8ea240f345">camera_resolution</a> = calibratecamera.resolution;</div>
-<div class="line"><a id="l04861" name="l04861"></a><span class="lineno"> 4861</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#a7eae760b6f6729b2e391d0b96d07b209">focal_plane_distance</a> = calibratecamera.focal_length;</div>
-<div class="line"><a id="l04862" name="l04862"></a><span class="lineno"> 4862</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#acf2d9d32a978b027658045c8068c7d1a">lens_diameter</a> = calibratecamera.lens_diameter;</div>
-<div class="line"><a id="l04863" name="l04863"></a><span class="lineno"> 4863</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#ae1e4df4d4612fd652ccd1e57fc71d104">FOV_aspect_ratio</a> = calibratecamera.FOV_aspect_ratio;</div>
+<div class="foldopen" id="foldopen04857" data-start="{" data-end="}">
+<div class="line"><a id="l04857" name="l04857"></a><span class="lineno"><a class="line" href="class_radiation_model.html#afabb4e1a6c8c67ccc9c68aab7dfd07e3"> 4857</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#afabb4e1a6c8c67ccc9c68aab7dfd07e3">RadiationModel::updateCameraResponse</a>(<span class="keyword">const</span> std::string &amp;orginalcameralabel, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;sourcelabels_raw,</div>
+<div class="line"><a id="l04858" name="l04858"></a><span class="lineno"> 4858</span>                                          <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; cameraresponselabels, <a class="code hl_struct" href="structhelios_1_1vec2.html">vec2</a> &amp;wavelengthrange,</div>
+<div class="line"><a id="l04859" name="l04859"></a><span class="lineno"> 4859</span>                                          <span class="keyword">const</span> std::vector&lt;std::vector&lt;float&gt;&gt; &amp;truevalues, <span class="keyword">const</span> std::string &amp;calibratedmark) {</div>
+<div class="line"><a id="l04860" name="l04860"></a><span class="lineno"> 4860</span> </div>
+<div class="line"><a id="l04861" name="l04861"></a><span class="lineno"> 4861</span>    std::vector&lt;std::string&gt; objectlabels;</div>
+<div class="line"><a id="l04862" name="l04862"></a><span class="lineno"> 4862</span>    <a class="code hl_struct" href="structhelios_1_1vec2.html">vec2</a> wavelengthrange_c = wavelengthrange;</div>
+<div class="line"><a id="l04863" name="l04863"></a><span class="lineno"> 4863</span>    cameracalibration-&gt;<a class="code hl_function" href="struct_camera_calibration.html#a7f11687ea932b11dd32efb4a5a2d79e8">preprocessSpectra</a>(sourcelabels_raw, cameraresponselabels, objectlabels, wavelengthrange_c);</div>
 <div class="line"><a id="l04864" name="l04864"></a><span class="lineno"> 4864</span> </div>
-<div class="line"><a id="l04865" name="l04865"></a><span class="lineno"> 4865</span>    std::vector&lt;uint&gt; UUIDs_target = cameracalibration-&gt;getColorBoardUUIDs();</div>
-<div class="line"><a id="l04866" name="l04866"></a><span class="lineno"> 4866</span>    std::string cameralabel = <span class="stringliteral">&quot;calibration&quot;</span>;</div>
-<div class="line"><a id="l04867" name="l04867"></a><span class="lineno"> 4867</span>    std::map&lt;uint,std::vector&lt;vec2&gt;&gt; simulatedcolorboardspectra;</div>
-<div class="line"><a id="l04868" name="l04868"></a><span class="lineno"> 4868</span>    <span class="keywordflow">for</span> (uint UUID:UUIDs_target){</div>
-<div class="line"><a id="l04869" name="l04869"></a><span class="lineno"> 4869</span>        simulatedcolorboardspectra.emplace(UUID, NULL);</div>
-<div class="line"><a id="l04870" name="l04870"></a><span class="lineno"> 4870</span>    }</div>
-<div class="line"><a id="l04871" name="l04871"></a><span class="lineno"> 4871</span> </div>
-<div class="line"><a id="l04872" name="l04872"></a><span class="lineno"> 4872</span>    <span class="keywordflow">for</span> (uint ID = 0; ID&lt;radiation_sources.size();ID++) {</div>
-<div class="line"><a id="l04873" name="l04873"></a><span class="lineno"> 4873</span>        <a class="code hl_function" href="class_radiation_model.html#a0d07935957cc6651d38a621513581189">RadiationModel::setSourceSpectrumIntegral</a>(ID, 1);</div>
-<div class="line"><a id="l04874" name="l04874"></a><span class="lineno"> 4874</span>    }</div>
-<div class="line"><a id="l04875" name="l04875"></a><span class="lineno"> 4875</span> </div>
-<div class="line"><a id="l04876" name="l04876"></a><span class="lineno"> 4876</span>    std::vector&lt;float&gt; wavelengths;</div>
-<div class="line"><a id="l04877" name="l04877"></a><span class="lineno"> 4877</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(<span class="stringliteral">&quot;wavelengths&quot;</span>, wavelengths);</div>
-<div class="line"><a id="l04878" name="l04878"></a><span class="lineno"> 4878</span>    <span class="keywordtype">int</span> numberwavelengths= wavelengths.size();</div>
+<div class="line"><a id="l04865" name="l04865"></a><span class="lineno"> 4865</span>    <a class="code hl_struct" href="struct_radiation_camera.html">RadiationCamera</a> calibratecamera = cameras.at(orginalcameralabel);</div>
+<div class="line"><a id="l04866" name="l04866"></a><span class="lineno"> 4866</span>    <a class="code hl_struct" href="struct_camera_properties.html">CameraProperties</a> cameraproperties;</div>
+<div class="line"><a id="l04867" name="l04867"></a><span class="lineno"> 4867</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#ac1419dfa651f1f8343f5fb5a2fad2148">HFOV</a> = calibratecamera.HFOV_degrees;</div>
+<div class="line"><a id="l04868" name="l04868"></a><span class="lineno"> 4868</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#a2806b640deeab5fbcd9dda8ea240f345">camera_resolution</a> = calibratecamera.resolution;</div>
+<div class="line"><a id="l04869" name="l04869"></a><span class="lineno"> 4869</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#a7eae760b6f6729b2e391d0b96d07b209">focal_plane_distance</a> = calibratecamera.focal_length;</div>
+<div class="line"><a id="l04870" name="l04870"></a><span class="lineno"> 4870</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#acf2d9d32a978b027658045c8068c7d1a">lens_diameter</a> = calibratecamera.lens_diameter;</div>
+<div class="line"><a id="l04871" name="l04871"></a><span class="lineno"> 4871</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#ae1e4df4d4612fd652ccd1e57fc71d104">FOV_aspect_ratio</a> = calibratecamera.FOV_aspect_ratio;</div>
+<div class="line"><a id="l04872" name="l04872"></a><span class="lineno"> 4872</span> </div>
+<div class="line"><a id="l04873" name="l04873"></a><span class="lineno"> 4873</span>    std::vector&lt;uint&gt; UUIDs_target = cameracalibration-&gt;getColorBoardUUIDs();</div>
+<div class="line"><a id="l04874" name="l04874"></a><span class="lineno"> 4874</span>    std::string cameralabel = <span class="stringliteral">&quot;calibration&quot;</span>;</div>
+<div class="line"><a id="l04875" name="l04875"></a><span class="lineno"> 4875</span>    std::map&lt;uint,std::vector&lt;vec2&gt;&gt; simulatedcolorboardspectra;</div>
+<div class="line"><a id="l04876" name="l04876"></a><span class="lineno"> 4876</span>    <span class="keywordflow">for</span> (uint UUID:UUIDs_target){</div>
+<div class="line"><a id="l04877" name="l04877"></a><span class="lineno"> 4877</span>        simulatedcolorboardspectra.emplace(UUID, NULL);</div>
+<div class="line"><a id="l04878" name="l04878"></a><span class="lineno"> 4878</span>    }</div>
 <div class="line"><a id="l04879" name="l04879"></a><span class="lineno"> 4879</span> </div>
-<div class="line"><a id="l04880" name="l04880"></a><span class="lineno"> 4880</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> iw=0; iw &lt; numberwavelengths; iw++) {</div>
-<div class="line"><a id="l04881" name="l04881"></a><span class="lineno"> 4881</span>        std::string wavelengthlabel = std::to_string(wavelengths.at(iw));</div>
-<div class="line"><a id="l04882" name="l04882"></a><span class="lineno"> 4882</span> </div>
-<div class="line"><a id="l04883" name="l04883"></a><span class="lineno"> 4883</span>        std::vector&lt;std::string&gt; sourcelabels;</div>
-<div class="line"><a id="l04884" name="l04884"></a><span class="lineno"> 4884</span>        <span class="keywordflow">for</span> (std::string sourcelabel_raw:sourcelabels_raw){</div>
-<div class="line"><a id="l04885" name="l04885"></a><span class="lineno"> 4885</span>            std::vector&lt;vec2&gt; icalsource;</div>
-<div class="line"><a id="l04886" name="l04886"></a><span class="lineno"> 4886</span>            icalsource.push_back(cameracalibration-&gt;processedspectra.at(<span class="stringliteral">&quot;source&quot;</span>).at(sourcelabel_raw).at(iw));</div>
-<div class="line"><a id="l04887" name="l04887"></a><span class="lineno"> 4887</span>            icalsource.push_back(cameracalibration-&gt;processedspectra.at(<span class="stringliteral">&quot;source&quot;</span>).at(sourcelabel_raw).at(iw));</div>
-<div class="line"><a id="l04888" name="l04888"></a><span class="lineno"> 4888</span>            icalsource.at(1).x+=1;</div>
-<div class="line"><a id="l04889" name="l04889"></a><span class="lineno"> 4889</span>            std::string sourcelable = <span class="stringliteral">&quot;Cal_source_&quot;</span>+sourcelabel_raw;</div>
-<div class="line"><a id="l04890" name="l04890"></a><span class="lineno"> 4890</span>            sourcelabels.push_back(sourcelable);</div>
-<div class="line"><a id="l04891" name="l04891"></a><span class="lineno"> 4891</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(sourcelable.c_str(),<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a6269d91d936a3d60a8a763ec122ba233">HELIOS_TYPE_VEC2</a>,2,&amp;icalsource[0]);</div>
-<div class="line"><a id="l04892" name="l04892"></a><span class="lineno"> 4892</span>        }</div>
-<div class="line"><a id="l04893" name="l04893"></a><span class="lineno"> 4893</span> </div>
-<div class="line"><a id="l04894" name="l04894"></a><span class="lineno"> 4894</span>        std::vector&lt;vec2&gt; icalcamera(2);</div>
-<div class="line"><a id="l04895" name="l04895"></a><span class="lineno"> 4895</span>        icalcamera.at(0).y=1;</div>
-<div class="line"><a id="l04896" name="l04896"></a><span class="lineno"> 4896</span>        icalcamera.at(1).y=1;</div>
-<div class="line"><a id="l04897" name="l04897"></a><span class="lineno"> 4897</span>        icalcamera.at(0).x=wavelengths.at(iw);</div>
-<div class="line"><a id="l04898" name="l04898"></a><span class="lineno"> 4898</span>        icalcamera.at(1).x=wavelengths.at(iw)+1;</div>
-<div class="line"><a id="l04899" name="l04899"></a><span class="lineno"> 4899</span>        std::string camlable = <span class="stringliteral">&quot;Cal_cameraresponse&quot;</span>;</div>
-<div class="line"><a id="l04900" name="l04900"></a><span class="lineno"> 4900</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(camlable.c_str(),<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a6269d91d936a3d60a8a763ec122ba233">HELIOS_TYPE_VEC2</a>,2,&amp;icalcamera[0]);</div>
+<div class="line"><a id="l04880" name="l04880"></a><span class="lineno"> 4880</span>    <span class="keywordflow">for</span> (uint ID = 0; ID&lt;radiation_sources.size();ID++) {</div>
+<div class="line"><a id="l04881" name="l04881"></a><span class="lineno"> 4881</span>        <a class="code hl_function" href="class_radiation_model.html#a0d07935957cc6651d38a621513581189">RadiationModel::setSourceSpectrumIntegral</a>(ID, 1);</div>
+<div class="line"><a id="l04882" name="l04882"></a><span class="lineno"> 4882</span>    }</div>
+<div class="line"><a id="l04883" name="l04883"></a><span class="lineno"> 4883</span> </div>
+<div class="line"><a id="l04884" name="l04884"></a><span class="lineno"> 4884</span>    std::vector&lt;float&gt; wavelengths;</div>
+<div class="line"><a id="l04885" name="l04885"></a><span class="lineno"> 4885</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(<span class="stringliteral">&quot;wavelengths&quot;</span>, wavelengths);</div>
+<div class="line"><a id="l04886" name="l04886"></a><span class="lineno"> 4886</span>    <span class="keywordtype">int</span> numberwavelengths= wavelengths.size();</div>
+<div class="line"><a id="l04887" name="l04887"></a><span class="lineno"> 4887</span> </div>
+<div class="line"><a id="l04888" name="l04888"></a><span class="lineno"> 4888</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> iw=0; iw &lt; numberwavelengths; iw++) {</div>
+<div class="line"><a id="l04889" name="l04889"></a><span class="lineno"> 4889</span>        std::string wavelengthlabel = std::to_string(wavelengths.at(iw));</div>
+<div class="line"><a id="l04890" name="l04890"></a><span class="lineno"> 4890</span> </div>
+<div class="line"><a id="l04891" name="l04891"></a><span class="lineno"> 4891</span>        std::vector&lt;std::string&gt; sourcelabels;</div>
+<div class="line"><a id="l04892" name="l04892"></a><span class="lineno"> 4892</span>        <span class="keywordflow">for</span> (std::string sourcelabel_raw:sourcelabels_raw){</div>
+<div class="line"><a id="l04893" name="l04893"></a><span class="lineno"> 4893</span>            std::vector&lt;vec2&gt; icalsource;</div>
+<div class="line"><a id="l04894" name="l04894"></a><span class="lineno"> 4894</span>            icalsource.push_back(cameracalibration-&gt;processedspectra.at(<span class="stringliteral">&quot;source&quot;</span>).at(sourcelabel_raw).at(iw));</div>
+<div class="line"><a id="l04895" name="l04895"></a><span class="lineno"> 4895</span>            icalsource.push_back(cameracalibration-&gt;processedspectra.at(<span class="stringliteral">&quot;source&quot;</span>).at(sourcelabel_raw).at(iw));</div>
+<div class="line"><a id="l04896" name="l04896"></a><span class="lineno"> 4896</span>            icalsource.at(1).x+=1;</div>
+<div class="line"><a id="l04897" name="l04897"></a><span class="lineno"> 4897</span>            std::string sourcelable = <span class="stringliteral">&quot;Cal_source_&quot;</span>+sourcelabel_raw;</div>
+<div class="line"><a id="l04898" name="l04898"></a><span class="lineno"> 4898</span>            sourcelabels.push_back(sourcelable);</div>
+<div class="line"><a id="l04899" name="l04899"></a><span class="lineno"> 4899</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(sourcelable.c_str(),<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a6269d91d936a3d60a8a763ec122ba233">HELIOS_TYPE_VEC2</a>,2,&amp;icalsource[0]);</div>
+<div class="line"><a id="l04900" name="l04900"></a><span class="lineno"> 4900</span>        }</div>
 <div class="line"><a id="l04901" name="l04901"></a><span class="lineno"> 4901</span> </div>
-<div class="line"><a id="l04902" name="l04902"></a><span class="lineno"> 4902</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> objectpair : cameracalibration-&gt;processedspectra.at(<span class="stringliteral">&quot;object&quot;</span>)){</div>
-<div class="line"><a id="l04903" name="l04903"></a><span class="lineno"> 4903</span>            std::vector&lt;vec2&gt; spectrum_obj;</div>
-<div class="line"><a id="l04904" name="l04904"></a><span class="lineno"> 4904</span>            spectrum_obj.push_back(objectpair.second.at(iw));</div>
-<div class="line"><a id="l04905" name="l04905"></a><span class="lineno"> 4905</span>            spectrum_obj.push_back(objectpair.second.at(iw));</div>
-<div class="line"><a id="l04906" name="l04906"></a><span class="lineno"> 4906</span>            spectrum_obj.at(1).x += 1;</div>
-<div class="line"><a id="l04907" name="l04907"></a><span class="lineno"> 4907</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(objectpair.first.c_str(), <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a6269d91d936a3d60a8a763ec122ba233">HELIOS_TYPE_VEC2</a>, 2, &amp;spectrum_obj[0]);</div>
-<div class="line"><a id="l04908" name="l04908"></a><span class="lineno"> 4908</span>        }</div>
+<div class="line"><a id="l04902" name="l04902"></a><span class="lineno"> 4902</span>        std::vector&lt;vec2&gt; icalcamera(2);</div>
+<div class="line"><a id="l04903" name="l04903"></a><span class="lineno"> 4903</span>        icalcamera.at(0).y=1;</div>
+<div class="line"><a id="l04904" name="l04904"></a><span class="lineno"> 4904</span>        icalcamera.at(1).y=1;</div>
+<div class="line"><a id="l04905" name="l04905"></a><span class="lineno"> 4905</span>        icalcamera.at(0).x=wavelengths.at(iw);</div>
+<div class="line"><a id="l04906" name="l04906"></a><span class="lineno"> 4906</span>        icalcamera.at(1).x=wavelengths.at(iw)+1;</div>
+<div class="line"><a id="l04907" name="l04907"></a><span class="lineno"> 4907</span>        std::string camlable = <span class="stringliteral">&quot;Cal_cameraresponse&quot;</span>;</div>
+<div class="line"><a id="l04908" name="l04908"></a><span class="lineno"> 4908</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(camlable.c_str(),<a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a6269d91d936a3d60a8a763ec122ba233">HELIOS_TYPE_VEC2</a>,2,&amp;icalcamera[0]);</div>
 <div class="line"><a id="l04909" name="l04909"></a><span class="lineno"> 4909</span> </div>
-<div class="line"><a id="l04910" name="l04910"></a><span class="lineno"> 4910</span>        <a class="code hl_function" href="class_radiation_model.html#ad0a4554dfa67054804de534229805054">RadiationModel::addRadiationBand</a>(wavelengthlabel, std::stof(wavelengthlabel), std::stof(wavelengthlabel) + 1);</div>
-<div class="line"><a id="l04911" name="l04911"></a><span class="lineno"> 4911</span>        <a class="code hl_function" href="class_radiation_model.html#a764f6cfd8e79569cc7a110fccd36857b">RadiationModel::disableEmission</a>(wavelengthlabel);</div>
-<div class="line"><a id="l04912" name="l04912"></a><span class="lineno"> 4912</span> </div>
-<div class="line"><a id="l04913" name="l04913"></a><span class="lineno"> 4913</span>        uint ID = 0;</div>
-<div class="line"><a id="l04914" name="l04914"></a><span class="lineno"> 4914</span>        <span class="keywordflow">for</span> (std::string sourcelabel_raw:sourcelabels_raw) {</div>
-<div class="line"><a id="l04915" name="l04915"></a><span class="lineno"> 4915</span>            <a class="code hl_function" href="class_radiation_model.html#a790ce56ed07f2f40b80be9676fa02c05">RadiationModel::setSourceSpectrum</a>(ID, sourcelabels.at(ID).c_str());</div>
-<div class="line"><a id="l04916" name="l04916"></a><span class="lineno"> 4916</span>            <a class="code hl_function" href="class_radiation_model.html#a2fa24d994612857ddc889e705b0444b1">RadiationModel::setSourceFlux</a>(ID, wavelengthlabel, 1);</div>
-<div class="line"><a id="l04917" name="l04917"></a><span class="lineno"> 4917</span>            ID ++;</div>
-<div class="line"><a id="l04918" name="l04918"></a><span class="lineno"> 4918</span>        }</div>
-<div class="line"><a id="l04919" name="l04919"></a><span class="lineno"> 4919</span>        <a class="code hl_function" href="class_radiation_model.html#a6d2c7374b0de7f50b1857b95c606182f">RadiationModel::setScatteringDepth</a>(wavelengthlabel, 1);</div>
-<div class="line"><a id="l04920" name="l04920"></a><span class="lineno"> 4920</span>        <a class="code hl_function" href="class_radiation_model.html#aa976502e7f722222399fbfe4f25dbe05">RadiationModel::setDiffuseRadiationFlux</a>(wavelengthlabel, 0);</div>
-<div class="line"><a id="l04921" name="l04921"></a><span class="lineno"> 4921</span>        <a class="code hl_function" href="class_radiation_model.html#ac85aa79af6c1b3b50081216c6c257225">RadiationModel::setDiffuseRadiationExtinctionCoeff</a>(wavelengthlabel, 0.f, <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(-0.5, 0.5, 1));</div>
-<div class="line"><a id="l04922" name="l04922"></a><span class="lineno"> 4922</span> </div>
-<div class="line"><a id="l04923" name="l04923"></a><span class="lineno"> 4923</span>        <a class="code hl_function" href="class_radiation_model.html#aedf80552eaf2bf6a8544dcb2c72cb331">RadiationModel::addRadiationCamera</a>(cameralabel, {wavelengthlabel}, calibratecamera.position, calibratecamera.lookat, cameraproperties, 10);</div>
-<div class="line"><a id="l04924" name="l04924"></a><span class="lineno"> 4924</span>        <a class="code hl_function" href="class_radiation_model.html#a1ea2acedb464217f1acc38f0e05d353f">RadiationModel::setCameraSpectralResponse</a>(cameralabel, wavelengthlabel, camlable);</div>
-<div class="line"><a id="l04925" name="l04925"></a><span class="lineno"> 4925</span>        <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a>();</div>
-<div class="line"><a id="l04926" name="l04926"></a><span class="lineno"> 4926</span>        <a class="code hl_function" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a>({wavelengthlabel});</div>
-<div class="line"><a id="l04927" name="l04927"></a><span class="lineno"> 4927</span> </div>
-<div class="line"><a id="l04928" name="l04928"></a><span class="lineno"> 4928</span>        std::vector&lt;float&gt; camera_data;</div>
-<div class="line"><a id="l04929" name="l04929"></a><span class="lineno"> 4929</span>        std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_&quot;</span> + wavelengthlabel;</div>
-<div class="line"><a id="l04930" name="l04930"></a><span class="lineno"> 4930</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_data);</div>
-<div class="line"><a id="l04931" name="l04931"></a><span class="lineno"> 4931</span> </div>
-<div class="line"><a id="l04932" name="l04932"></a><span class="lineno"> 4932</span>        std::vector&lt;uint&gt; pixel_labels;</div>
-<div class="line"><a id="l04933" name="l04933"></a><span class="lineno"> 4933</span>        std::string global_data_label_UUID = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_UUID&quot;</span>;</div>
-<div class="line"><a id="l04934" name="l04934"></a><span class="lineno"> 4934</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label_UUID.c_str(), pixel_labels);</div>
+<div class="line"><a id="l04910" name="l04910"></a><span class="lineno"> 4910</span>        <span class="keywordflow">for</span> (<span class="keyword">auto</span> objectpair : cameracalibration-&gt;processedspectra.at(<span class="stringliteral">&quot;object&quot;</span>)){</div>
+<div class="line"><a id="l04911" name="l04911"></a><span class="lineno"> 4911</span>            std::vector&lt;vec2&gt; spectrum_obj;</div>
+<div class="line"><a id="l04912" name="l04912"></a><span class="lineno"> 4912</span>            spectrum_obj.push_back(objectpair.second.at(iw));</div>
+<div class="line"><a id="l04913" name="l04913"></a><span class="lineno"> 4913</span>            spectrum_obj.push_back(objectpair.second.at(iw));</div>
+<div class="line"><a id="l04914" name="l04914"></a><span class="lineno"> 4914</span>            spectrum_obj.at(1).x += 1;</div>
+<div class="line"><a id="l04915" name="l04915"></a><span class="lineno"> 4915</span>            context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(objectpair.first.c_str(), <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a6269d91d936a3d60a8a763ec122ba233">HELIOS_TYPE_VEC2</a>, 2, &amp;spectrum_obj[0]);</div>
+<div class="line"><a id="l04916" name="l04916"></a><span class="lineno"> 4916</span>        }</div>
+<div class="line"><a id="l04917" name="l04917"></a><span class="lineno"> 4917</span> </div>
+<div class="line"><a id="l04918" name="l04918"></a><span class="lineno"> 4918</span>        <a class="code hl_function" href="class_radiation_model.html#ad0a4554dfa67054804de534229805054">RadiationModel::addRadiationBand</a>(wavelengthlabel, std::stof(wavelengthlabel), std::stof(wavelengthlabel) + 1);</div>
+<div class="line"><a id="l04919" name="l04919"></a><span class="lineno"> 4919</span>        <a class="code hl_function" href="class_radiation_model.html#a764f6cfd8e79569cc7a110fccd36857b">RadiationModel::disableEmission</a>(wavelengthlabel);</div>
+<div class="line"><a id="l04920" name="l04920"></a><span class="lineno"> 4920</span> </div>
+<div class="line"><a id="l04921" name="l04921"></a><span class="lineno"> 4921</span>        uint ID = 0;</div>
+<div class="line"><a id="l04922" name="l04922"></a><span class="lineno"> 4922</span>        <span class="keywordflow">for</span> (std::string sourcelabel_raw:sourcelabels_raw) {</div>
+<div class="line"><a id="l04923" name="l04923"></a><span class="lineno"> 4923</span>            <a class="code hl_function" href="class_radiation_model.html#a790ce56ed07f2f40b80be9676fa02c05">RadiationModel::setSourceSpectrum</a>(ID, sourcelabels.at(ID).c_str());</div>
+<div class="line"><a id="l04924" name="l04924"></a><span class="lineno"> 4924</span>            <a class="code hl_function" href="class_radiation_model.html#a2fa24d994612857ddc889e705b0444b1">RadiationModel::setSourceFlux</a>(ID, wavelengthlabel, 1);</div>
+<div class="line"><a id="l04925" name="l04925"></a><span class="lineno"> 4925</span>            ID ++;</div>
+<div class="line"><a id="l04926" name="l04926"></a><span class="lineno"> 4926</span>        }</div>
+<div class="line"><a id="l04927" name="l04927"></a><span class="lineno"> 4927</span>        <a class="code hl_function" href="class_radiation_model.html#a6d2c7374b0de7f50b1857b95c606182f">RadiationModel::setScatteringDepth</a>(wavelengthlabel, 1);</div>
+<div class="line"><a id="l04928" name="l04928"></a><span class="lineno"> 4928</span>        <a class="code hl_function" href="class_radiation_model.html#aa976502e7f722222399fbfe4f25dbe05">RadiationModel::setDiffuseRadiationFlux</a>(wavelengthlabel, 0);</div>
+<div class="line"><a id="l04929" name="l04929"></a><span class="lineno"> 4929</span>        <a class="code hl_function" href="class_radiation_model.html#ac85aa79af6c1b3b50081216c6c257225">RadiationModel::setDiffuseRadiationExtinctionCoeff</a>(wavelengthlabel, 0.f, <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(-0.5, 0.5, 1));</div>
+<div class="line"><a id="l04930" name="l04930"></a><span class="lineno"> 4930</span> </div>
+<div class="line"><a id="l04931" name="l04931"></a><span class="lineno"> 4931</span>        <a class="code hl_function" href="class_radiation_model.html#aedf80552eaf2bf6a8544dcb2c72cb331">RadiationModel::addRadiationCamera</a>(cameralabel, {wavelengthlabel}, calibratecamera.position, calibratecamera.lookat, cameraproperties, 10);</div>
+<div class="line"><a id="l04932" name="l04932"></a><span class="lineno"> 4932</span>        <a class="code hl_function" href="class_radiation_model.html#a1ea2acedb464217f1acc38f0e05d353f">RadiationModel::setCameraSpectralResponse</a>(cameralabel, wavelengthlabel, camlable);</div>
+<div class="line"><a id="l04933" name="l04933"></a><span class="lineno"> 4933</span>        <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a>();</div>
+<div class="line"><a id="l04934" name="l04934"></a><span class="lineno"> 4934</span>        <a class="code hl_function" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a>({wavelengthlabel});</div>
 <div class="line"><a id="l04935" name="l04935"></a><span class="lineno"> 4935</span> </div>
-<div class="line"><a id="l04936" name="l04936"></a><span class="lineno"> 4936</span>        <span class="keywordflow">for</span> (uint j = 0; j &lt; calibratecamera.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++) {</div>
-<div class="line"><a id="l04937" name="l04937"></a><span class="lineno"> 4937</span>            <span class="keywordflow">for</span> (uint i = 0; i &lt; calibratecamera.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>; i++) {</div>
-<div class="line"><a id="l04938" name="l04938"></a><span class="lineno"> 4938</span>                <span class="keywordtype">float</span> icdata = camera_data.at(j * calibratecamera.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i);</div>
+<div class="line"><a id="l04936" name="l04936"></a><span class="lineno"> 4936</span>        std::vector&lt;float&gt; camera_data;</div>
+<div class="line"><a id="l04937" name="l04937"></a><span class="lineno"> 4937</span>        std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_&quot;</span> + wavelengthlabel;</div>
+<div class="line"><a id="l04938" name="l04938"></a><span class="lineno"> 4938</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_data);</div>
 <div class="line"><a id="l04939" name="l04939"></a><span class="lineno"> 4939</span> </div>
-<div class="line"><a id="l04940" name="l04940"></a><span class="lineno"> 4940</span>                uint UUID = pixel_labels.at(j * calibratecamera.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i)-1;</div>
-<div class="line"><a id="l04941" name="l04941"></a><span class="lineno"> 4941</span>                <span class="keywordflow">if</span> (find(UUIDs_target.begin(), UUIDs_target.end(), UUID) != UUIDs_target.end()){</div>
-<div class="line"><a id="l04942" name="l04942"></a><span class="lineno"> 4942</span>                    <span class="keywordflow">if</span> ( simulatedcolorboardspectra.at(UUID).empty()){</div>
-<div class="line"><a id="l04943" name="l04943"></a><span class="lineno"> 4943</span>                        simulatedcolorboardspectra.at(UUID).push_back(<a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(wavelengths.at(iw), icdata / <span class="keywordtype">float</span>(numberwavelengths)));</div>
-<div class="line"><a id="l04944" name="l04944"></a><span class="lineno"> 4944</span>                    }</div>
-<div class="line"><a id="l04945" name="l04945"></a><span class="lineno"> 4945</span>                    <span class="keywordflow">else</span> <span class="keywordflow">if</span> (simulatedcolorboardspectra.at(UUID).back().x == wavelengths.at(iw)){</div>
-<div class="line"><a id="l04946" name="l04946"></a><span class="lineno"> 4946</span>                        simulatedcolorboardspectra.at(UUID).back().y += icdata / float(numberwavelengths);</div>
-<div class="line"><a id="l04947" name="l04947"></a><span class="lineno"> 4947</span>                    }</div>
-<div class="line"><a id="l04948" name="l04948"></a><span class="lineno"> 4948</span>                    <span class="keywordflow">else</span> <span class="keywordflow">if</span>(simulatedcolorboardspectra.at(UUID).back().x !=wavelengths.at(iw)){</div>
-<div class="line"><a id="l04949" name="l04949"></a><span class="lineno"> 4949</span>                        simulatedcolorboardspectra.at(UUID).push_back(<a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(wavelengths.at(iw), icdata / <span class="keywordtype">float</span>(numberwavelengths)));</div>
-<div class="line"><a id="l04950" name="l04950"></a><span class="lineno"> 4950</span>                    }</div>
-<div class="line"><a id="l04951" name="l04951"></a><span class="lineno"> 4951</span>                }</div>
-<div class="line"><a id="l04952" name="l04952"></a><span class="lineno"> 4952</span>            }</div>
-<div class="line"><a id="l04953" name="l04953"></a><span class="lineno"> 4953</span>        }</div>
-<div class="line"><a id="l04954" name="l04954"></a><span class="lineno"> 4954</span>    }</div>
-<div class="line"><a id="l04955" name="l04955"></a><span class="lineno"> 4955</span>    <span class="comment">// Update camera response spectra</span></div>
-<div class="line"><a id="l04956" name="l04956"></a><span class="lineno"> 4956</span>    cameracalibration-&gt;<a class="code hl_function" href="struct_camera_calibration.html#a900b08896dc2c3bf892311478d895883">updateCameraResponseSpectra</a>(cameraresponselabels, calibratedmark ,simulatedcolorboardspectra, truevalues);</div>
-<div class="line"><a id="l04957" name="l04957"></a><span class="lineno"> 4957</span>    <span class="comment">// Reset color board spectra</span></div>
-<div class="line"><a id="l04958" name="l04958"></a><span class="lineno"> 4958</span>    std::vector&lt;uint&gt; UUIDs_colorbd = cameracalibration-&gt;getColorBoardUUIDs();</div>
-<div class="line"><a id="l04959" name="l04959"></a><span class="lineno"> 4959</span>    <span class="keywordflow">for</span> (uint UUID:UUIDs_colorbd){</div>
-<div class="line"><a id="l04960" name="l04960"></a><span class="lineno"> 4960</span>        std::string colorboardspectra;</div>
-<div class="line"><a id="l04961" name="l04961"></a><span class="lineno"> 4961</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>, colorboardspectra);</div>
-<div class="line"><a id="l04962" name="l04962"></a><span class="lineno"> 4962</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ac7677094a3bbcb62506ce461d982af1d">setPrimitiveData</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>, colorboardspectra+<span class="stringliteral">&quot;_raw&quot;</span>);</div>
-<div class="line"><a id="l04963" name="l04963"></a><span class="lineno"> 4963</span>    }</div>
-<div class="line"><a id="l04964" name="l04964"></a><span class="lineno"> 4964</span>}</div>
-</div>
-<div class="line"><a id="l04965" name="l04965"></a><span class="lineno"> 4965</span> </div>
-<div class="foldopen" id="foldopen04966" data-start="{" data-end="}">
-<div class="line"><a id="l04966" name="l04966"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a728c89b679cfcb957567b43e52023baf"> 4966</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a728c89b679cfcb957567b43e52023baf">RadiationModel::runRadiationImaging</a>(<span class="keyword">const</span> std::string&amp; cameralabel, <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; sourcelabels, <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; bandlabels,</div>
-<div class="line"><a id="l04967" name="l04967"></a><span class="lineno"> 4967</span>                                         <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; cameraresponselabels, <a class="code hl_struct" href="structhelios_1_1vec2.html">helios::vec2</a> wavelengthrange,</div>
-<div class="line"><a id="l04968" name="l04968"></a><span class="lineno"> 4968</span>                                         <span class="keywordtype">float</span> fluxscale, <span class="keywordtype">float</span> diffusefactor, uint scatteringdepth){</div>
-<div class="line"><a id="l04969" name="l04969"></a><span class="lineno"> 4969</span> </div>
-<div class="line"><a id="l04970" name="l04970"></a><span class="lineno"> 4970</span>    <span class="keywordtype">float</span> sources_fluxsum = 0;</div>
-<div class="line"><a id="l04971" name="l04971"></a><span class="lineno"> 4971</span>    std::vector&lt;float&gt; sources_fluxes;</div>
-<div class="line"><a id="l04972" name="l04972"></a><span class="lineno"> 4972</span>    <span class="keywordflow">for</span> (uint ID = 0; ID &lt; sourcelabels.size(); ID++){</div>
-<div class="line"><a id="l04973" name="l04973"></a><span class="lineno"> 4973</span>        std::vector&lt;vec2&gt; Source_spectrum = loadSpectralData(sourcelabels.at(ID).c_str());</div>
-<div class="line"><a id="l04974" name="l04974"></a><span class="lineno"> 4974</span>        sources_fluxes.push_back(<a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">RadiationModel::integrateSpectrum</a>(Source_spectrum, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>));</div>
-<div class="line"><a id="l04975" name="l04975"></a><span class="lineno"> 4975</span>        <a class="code hl_function" href="class_radiation_model.html#a790ce56ed07f2f40b80be9676fa02c05">RadiationModel::setSourceSpectrum</a>(ID, sourcelabels.at(ID).c_str());</div>
-<div class="line"><a id="l04976" name="l04976"></a><span class="lineno"> 4976</span>        <a class="code hl_function" href="class_radiation_model.html#a0d07935957cc6651d38a621513581189">RadiationModel::setSourceSpectrumIntegral</a>(ID, sources_fluxes.at(ID));</div>
-<div class="line"><a id="l04977" name="l04977"></a><span class="lineno"> 4977</span>        sources_fluxsum += sources_fluxes.at(ID);</div>
-<div class="line"><a id="l04978" name="l04978"></a><span class="lineno"> 4978</span>    }</div>
-<div class="line"><a id="l04979" name="l04979"></a><span class="lineno"> 4979</span> </div>
-<div class="line"><a id="l04980" name="l04980"></a><span class="lineno"> 4980</span>    <a class="code hl_function" href="class_radiation_model.html#ad0a4554dfa67054804de534229805054">RadiationModel::addRadiationBand</a>(bandlabels.at(0), wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
-<div class="line"><a id="l04981" name="l04981"></a><span class="lineno"> 4981</span>    <a class="code hl_function" href="class_radiation_model.html#a764f6cfd8e79569cc7a110fccd36857b">RadiationModel::disableEmission</a>(bandlabels.at(0));</div>
-<div class="line"><a id="l04982" name="l04982"></a><span class="lineno"> 4982</span>    <span class="keywordflow">for</span>( uint ID =0; ID&lt;radiation_sources.size();ID++ ) {</div>
-<div class="line"><a id="l04983" name="l04983"></a><span class="lineno"> 4983</span>        <a class="code hl_function" href="class_radiation_model.html#a2fa24d994612857ddc889e705b0444b1">RadiationModel::setSourceFlux</a>(ID, bandlabels.at(0), (1 - diffusefactor) * sources_fluxes.at(ID) * fluxscale);</div>
-<div class="line"><a id="l04984" name="l04984"></a><span class="lineno"> 4984</span>    }</div>
-<div class="line"><a id="l04985" name="l04985"></a><span class="lineno"> 4985</span>    <a class="code hl_function" href="class_radiation_model.html#a6d2c7374b0de7f50b1857b95c606182f">RadiationModel::setScatteringDepth</a>(bandlabels.at(0), scatteringdepth);</div>
-<div class="line"><a id="l04986" name="l04986"></a><span class="lineno"> 4986</span>    <a class="code hl_function" href="class_radiation_model.html#aa976502e7f722222399fbfe4f25dbe05">RadiationModel::setDiffuseRadiationFlux</a>(bandlabels.at(0), diffusefactor * sources_fluxsum );</div>
-<div class="line"><a id="l04987" name="l04987"></a><span class="lineno"> 4987</span>    <a class="code hl_function" href="class_radiation_model.html#ac85aa79af6c1b3b50081216c6c257225">RadiationModel::setDiffuseRadiationExtinctionCoeff</a>(bandlabels.at(0), 1.f, <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(-0.5, 0.5, 1) );</div>
-<div class="line"><a id="l04988" name="l04988"></a><span class="lineno"> 4988</span> </div>
-<div class="line"><a id="l04989" name="l04989"></a><span class="lineno"> 4989</span>    <span class="keywordflow">if</span> (bandlabels.size()&gt;1){</div>
-<div class="line"><a id="l04990" name="l04990"></a><span class="lineno"> 4990</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> iband=1;iband&lt;bandlabels.size();iband++){</div>
-<div class="line"><a id="l04991" name="l04991"></a><span class="lineno"> 4991</span>            <a class="code hl_function" href="class_radiation_model.html#a516dafe4d898ad38af6f5bc23bdfb4d8">RadiationModel::copyRadiationBand</a>(bandlabels.at(iband-1), bandlabels.at(iband), wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
-<div class="line"><a id="l04992" name="l04992"></a><span class="lineno"> 4992</span>            <span class="keywordflow">for</span>( uint ID =0; ID&lt;radiation_sources.size();ID++ ) {</div>
-<div class="line"><a id="l04993" name="l04993"></a><span class="lineno"> 4993</span>                <a class="code hl_function" href="class_radiation_model.html#a2fa24d994612857ddc889e705b0444b1">RadiationModel::setSourceFlux</a>(ID, bandlabels.at(iband), (1 - diffusefactor) * sources_fluxes.at(ID) * fluxscale);</div>
-<div class="line"><a id="l04994" name="l04994"></a><span class="lineno"> 4994</span>            }</div>
-<div class="line"><a id="l04995" name="l04995"></a><span class="lineno"> 4995</span>            <a class="code hl_function" href="class_radiation_model.html#aa976502e7f722222399fbfe4f25dbe05">RadiationModel::setDiffuseRadiationFlux</a>(bandlabels.at(iband), diffusefactor * sources_fluxsum );</div>
-<div class="line"><a id="l04996" name="l04996"></a><span class="lineno"> 4996</span>        }</div>
-<div class="line"><a id="l04997" name="l04997"></a><span class="lineno"> 4997</span>    }</div>
-<div class="line"><a id="l04998" name="l04998"></a><span class="lineno"> 4998</span> </div>
-<div class="line"><a id="l04999" name="l04999"></a><span class="lineno"> 4999</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> iband=0;iband&lt;bandlabels.size();iband++){</div>
-<div class="line"><a id="l05000" name="l05000"></a><span class="lineno"> 5000</span>        <a class="code hl_function" href="class_radiation_model.html#a1ea2acedb464217f1acc38f0e05d353f">RadiationModel::setCameraSpectralResponse</a>(cameralabel, bandlabels.at(iband), cameraresponselabels.at(iband));</div>
-<div class="line"><a id="l05001" name="l05001"></a><span class="lineno"> 5001</span>    }</div>
-<div class="line"><a id="l05002" name="l05002"></a><span class="lineno"> 5002</span> </div>
-<div class="line"><a id="l05003" name="l05003"></a><span class="lineno"> 5003</span>    <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a>();</div>
-<div class="line"><a id="l05004" name="l05004"></a><span class="lineno"> 5004</span>    <a class="code hl_function" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a>(bandlabels);</div>
-<div class="line"><a id="l05005" name="l05005"></a><span class="lineno"> 5005</span>}</div>
+<div class="line"><a id="l04940" name="l04940"></a><span class="lineno"> 4940</span>        std::vector&lt;uint&gt; pixel_labels;</div>
+<div class="line"><a id="l04941" name="l04941"></a><span class="lineno"> 4941</span>        std::string global_data_label_UUID = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_UUID&quot;</span>;</div>
+<div class="line"><a id="l04942" name="l04942"></a><span class="lineno"> 4942</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label_UUID.c_str(), pixel_labels);</div>
+<div class="line"><a id="l04943" name="l04943"></a><span class="lineno"> 4943</span> </div>
+<div class="line"><a id="l04944" name="l04944"></a><span class="lineno"> 4944</span>        <span class="keywordflow">for</span> (uint j = 0; j &lt; calibratecamera.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++) {</div>
+<div class="line"><a id="l04945" name="l04945"></a><span class="lineno"> 4945</span>            <span class="keywordflow">for</span> (uint i = 0; i &lt; calibratecamera.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>; i++) {</div>
+<div class="line"><a id="l04946" name="l04946"></a><span class="lineno"> 4946</span>                <span class="keywordtype">float</span> icdata = camera_data.at(j * calibratecamera.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i);</div>
+<div class="line"><a id="l04947" name="l04947"></a><span class="lineno"> 4947</span> </div>
+<div class="line"><a id="l04948" name="l04948"></a><span class="lineno"> 4948</span>                uint UUID = pixel_labels.at(j * calibratecamera.resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i)-1;</div>
+<div class="line"><a id="l04949" name="l04949"></a><span class="lineno"> 4949</span>                <span class="keywordflow">if</span> (find(UUIDs_target.begin(), UUIDs_target.end(), UUID) != UUIDs_target.end()){</div>
+<div class="line"><a id="l04950" name="l04950"></a><span class="lineno"> 4950</span>                    <span class="keywordflow">if</span> ( simulatedcolorboardspectra.at(UUID).empty()){</div>
+<div class="line"><a id="l04951" name="l04951"></a><span class="lineno"> 4951</span>                        simulatedcolorboardspectra.at(UUID).push_back(<a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(wavelengths.at(iw), icdata / <span class="keywordtype">float</span>(numberwavelengths)));</div>
+<div class="line"><a id="l04952" name="l04952"></a><span class="lineno"> 4952</span>                    }</div>
+<div class="line"><a id="l04953" name="l04953"></a><span class="lineno"> 4953</span>                    <span class="keywordflow">else</span> <span class="keywordflow">if</span> (simulatedcolorboardspectra.at(UUID).back().x == wavelengths.at(iw)){</div>
+<div class="line"><a id="l04954" name="l04954"></a><span class="lineno"> 4954</span>                        simulatedcolorboardspectra.at(UUID).back().y += icdata / float(numberwavelengths);</div>
+<div class="line"><a id="l04955" name="l04955"></a><span class="lineno"> 4955</span>                    }</div>
+<div class="line"><a id="l04956" name="l04956"></a><span class="lineno"> 4956</span>                    <span class="keywordflow">else</span> <span class="keywordflow">if</span>(simulatedcolorboardspectra.at(UUID).back().x !=wavelengths.at(iw)){</div>
+<div class="line"><a id="l04957" name="l04957"></a><span class="lineno"> 4957</span>                        simulatedcolorboardspectra.at(UUID).push_back(<a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(wavelengths.at(iw), icdata / <span class="keywordtype">float</span>(numberwavelengths)));</div>
+<div class="line"><a id="l04958" name="l04958"></a><span class="lineno"> 4958</span>                    }</div>
+<div class="line"><a id="l04959" name="l04959"></a><span class="lineno"> 4959</span>                }</div>
+<div class="line"><a id="l04960" name="l04960"></a><span class="lineno"> 4960</span>            }</div>
+<div class="line"><a id="l04961" name="l04961"></a><span class="lineno"> 4961</span>        }</div>
+<div class="line"><a id="l04962" name="l04962"></a><span class="lineno"> 4962</span>    }</div>
+<div class="line"><a id="l04963" name="l04963"></a><span class="lineno"> 4963</span>    <span class="comment">// Update camera response spectra</span></div>
+<div class="line"><a id="l04964" name="l04964"></a><span class="lineno"> 4964</span>    cameracalibration-&gt;<a class="code hl_function" href="struct_camera_calibration.html#a900b08896dc2c3bf892311478d895883">updateCameraResponseSpectra</a>(cameraresponselabels, calibratedmark ,simulatedcolorboardspectra, truevalues);</div>
+<div class="line"><a id="l04965" name="l04965"></a><span class="lineno"> 4965</span>    <span class="comment">// Reset color board spectra</span></div>
+<div class="line"><a id="l04966" name="l04966"></a><span class="lineno"> 4966</span>    std::vector&lt;uint&gt; UUIDs_colorbd = cameracalibration-&gt;getColorBoardUUIDs();</div>
+<div class="line"><a id="l04967" name="l04967"></a><span class="lineno"> 4967</span>    <span class="keywordflow">for</span> (uint UUID:UUIDs_colorbd){</div>
+<div class="line"><a id="l04968" name="l04968"></a><span class="lineno"> 4968</span>        std::string colorboardspectra;</div>
+<div class="line"><a id="l04969" name="l04969"></a><span class="lineno"> 4969</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>, colorboardspectra);</div>
+<div class="line"><a id="l04970" name="l04970"></a><span class="lineno"> 4970</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#ac7677094a3bbcb62506ce461d982af1d">setPrimitiveData</a>(UUID, <span class="stringliteral">&quot;reflectivity_spectrum&quot;</span>, colorboardspectra+<span class="stringliteral">&quot;_raw&quot;</span>);</div>
+<div class="line"><a id="l04971" name="l04971"></a><span class="lineno"> 4971</span>    }</div>
+<div class="line"><a id="l04972" name="l04972"></a><span class="lineno"> 4972</span>}</div>
 </div>
+<div class="line"><a id="l04973" name="l04973"></a><span class="lineno"> 4973</span> </div>
+<div class="foldopen" id="foldopen04974" data-start="{" data-end="}">
+<div class="line"><a id="l04974" name="l04974"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a728c89b679cfcb957567b43e52023baf"> 4974</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a728c89b679cfcb957567b43e52023baf">RadiationModel::runRadiationImaging</a>(<span class="keyword">const</span> std::string&amp; cameralabel, <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; sourcelabels, <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; bandlabels,</div>
+<div class="line"><a id="l04975" name="l04975"></a><span class="lineno"> 4975</span>                                         <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; cameraresponselabels, <a class="code hl_struct" href="structhelios_1_1vec2.html">helios::vec2</a> wavelengthrange,</div>
+<div class="line"><a id="l04976" name="l04976"></a><span class="lineno"> 4976</span>                                         <span class="keywordtype">float</span> fluxscale, <span class="keywordtype">float</span> diffusefactor, uint scatteringdepth){</div>
+<div class="line"><a id="l04977" name="l04977"></a><span class="lineno"> 4977</span> </div>
+<div class="line"><a id="l04978" name="l04978"></a><span class="lineno"> 4978</span>    <span class="keywordtype">float</span> sources_fluxsum = 0;</div>
+<div class="line"><a id="l04979" name="l04979"></a><span class="lineno"> 4979</span>    std::vector&lt;float&gt; sources_fluxes;</div>
+<div class="line"><a id="l04980" name="l04980"></a><span class="lineno"> 4980</span>    <span class="keywordflow">for</span> (uint ID = 0; ID &lt; sourcelabels.size(); ID++){</div>
+<div class="line"><a id="l04981" name="l04981"></a><span class="lineno"> 4981</span>        std::vector&lt;vec2&gt; Source_spectrum = loadSpectralData(sourcelabels.at(ID).c_str());</div>
+<div class="line"><a id="l04982" name="l04982"></a><span class="lineno"> 4982</span>        sources_fluxes.push_back(<a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">RadiationModel::integrateSpectrum</a>(Source_spectrum, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>));</div>
+<div class="line"><a id="l04983" name="l04983"></a><span class="lineno"> 4983</span>        <a class="code hl_function" href="class_radiation_model.html#a790ce56ed07f2f40b80be9676fa02c05">RadiationModel::setSourceSpectrum</a>(ID, sourcelabels.at(ID).c_str());</div>
+<div class="line"><a id="l04984" name="l04984"></a><span class="lineno"> 4984</span>        <a class="code hl_function" href="class_radiation_model.html#a0d07935957cc6651d38a621513581189">RadiationModel::setSourceSpectrumIntegral</a>(ID, sources_fluxes.at(ID));</div>
+<div class="line"><a id="l04985" name="l04985"></a><span class="lineno"> 4985</span>        sources_fluxsum += sources_fluxes.at(ID);</div>
+<div class="line"><a id="l04986" name="l04986"></a><span class="lineno"> 4986</span>    }</div>
+<div class="line"><a id="l04987" name="l04987"></a><span class="lineno"> 4987</span> </div>
+<div class="line"><a id="l04988" name="l04988"></a><span class="lineno"> 4988</span>    <a class="code hl_function" href="class_radiation_model.html#ad0a4554dfa67054804de534229805054">RadiationModel::addRadiationBand</a>(bandlabels.at(0), wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
+<div class="line"><a id="l04989" name="l04989"></a><span class="lineno"> 4989</span>    <a class="code hl_function" href="class_radiation_model.html#a764f6cfd8e79569cc7a110fccd36857b">RadiationModel::disableEmission</a>(bandlabels.at(0));</div>
+<div class="line"><a id="l04990" name="l04990"></a><span class="lineno"> 4990</span>    <span class="keywordflow">for</span>( uint ID =0; ID&lt;radiation_sources.size();ID++ ) {</div>
+<div class="line"><a id="l04991" name="l04991"></a><span class="lineno"> 4991</span>        <a class="code hl_function" href="class_radiation_model.html#a2fa24d994612857ddc889e705b0444b1">RadiationModel::setSourceFlux</a>(ID, bandlabels.at(0), (1 - diffusefactor) * sources_fluxes.at(ID) * fluxscale);</div>
+<div class="line"><a id="l04992" name="l04992"></a><span class="lineno"> 4992</span>    }</div>
+<div class="line"><a id="l04993" name="l04993"></a><span class="lineno"> 4993</span>    <a class="code hl_function" href="class_radiation_model.html#a6d2c7374b0de7f50b1857b95c606182f">RadiationModel::setScatteringDepth</a>(bandlabels.at(0), scatteringdepth);</div>
+<div class="line"><a id="l04994" name="l04994"></a><span class="lineno"> 4994</span>    <a class="code hl_function" href="class_radiation_model.html#aa976502e7f722222399fbfe4f25dbe05">RadiationModel::setDiffuseRadiationFlux</a>(bandlabels.at(0), diffusefactor * sources_fluxsum );</div>
+<div class="line"><a id="l04995" name="l04995"></a><span class="lineno"> 4995</span>    <a class="code hl_function" href="class_radiation_model.html#ac85aa79af6c1b3b50081216c6c257225">RadiationModel::setDiffuseRadiationExtinctionCoeff</a>(bandlabels.at(0), 1.f, <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(-0.5, 0.5, 1) );</div>
+<div class="line"><a id="l04996" name="l04996"></a><span class="lineno"> 4996</span> </div>
+<div class="line"><a id="l04997" name="l04997"></a><span class="lineno"> 4997</span>    <span class="keywordflow">if</span> (bandlabels.size()&gt;1){</div>
+<div class="line"><a id="l04998" name="l04998"></a><span class="lineno"> 4998</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> iband=1;iband&lt;bandlabels.size();iband++){</div>
+<div class="line"><a id="l04999" name="l04999"></a><span class="lineno"> 4999</span>            <a class="code hl_function" href="class_radiation_model.html#a516dafe4d898ad38af6f5bc23bdfb4d8">RadiationModel::copyRadiationBand</a>(bandlabels.at(iband-1), bandlabels.at(iband), wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
+<div class="line"><a id="l05000" name="l05000"></a><span class="lineno"> 5000</span>            <span class="keywordflow">for</span>( uint ID =0; ID&lt;radiation_sources.size();ID++ ) {</div>
+<div class="line"><a id="l05001" name="l05001"></a><span class="lineno"> 5001</span>                <a class="code hl_function" href="class_radiation_model.html#a2fa24d994612857ddc889e705b0444b1">RadiationModel::setSourceFlux</a>(ID, bandlabels.at(iband), (1 - diffusefactor) * sources_fluxes.at(ID) * fluxscale);</div>
+<div class="line"><a id="l05002" name="l05002"></a><span class="lineno"> 5002</span>            }</div>
+<div class="line"><a id="l05003" name="l05003"></a><span class="lineno"> 5003</span>            <a class="code hl_function" href="class_radiation_model.html#aa976502e7f722222399fbfe4f25dbe05">RadiationModel::setDiffuseRadiationFlux</a>(bandlabels.at(iband), diffusefactor * sources_fluxsum );</div>
+<div class="line"><a id="l05004" name="l05004"></a><span class="lineno"> 5004</span>        }</div>
+<div class="line"><a id="l05005" name="l05005"></a><span class="lineno"> 5005</span>    }</div>
 <div class="line"><a id="l05006" name="l05006"></a><span class="lineno"> 5006</span> </div>
-<div class="foldopen" id="foldopen05007" data-start="{" data-end="}">
-<div class="line"><a id="l05007" name="l05007"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a63f23da646aac79163c8154ef3a6e93e"> 5007</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a728c89b679cfcb957567b43e52023baf">RadiationModel::runRadiationImaging</a>(<span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; cameralabels, <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; sourcelabels, <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; bandlabels,</div>
-<div class="line"><a id="l05008" name="l05008"></a><span class="lineno"> 5008</span>                                         <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; cameraresponselabels, <a class="code hl_struct" href="structhelios_1_1vec2.html">helios::vec2</a> wavelengthrange,</div>
-<div class="line"><a id="l05009" name="l05009"></a><span class="lineno"> 5009</span>                                         <span class="keywordtype">float</span> fluxscale, <span class="keywordtype">float</span> diffusefactor, uint scatteringdepth){</div>
+<div class="line"><a id="l05007" name="l05007"></a><span class="lineno"> 5007</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> iband=0;iband&lt;bandlabels.size();iband++){</div>
+<div class="line"><a id="l05008" name="l05008"></a><span class="lineno"> 5008</span>        <a class="code hl_function" href="class_radiation_model.html#a1ea2acedb464217f1acc38f0e05d353f">RadiationModel::setCameraSpectralResponse</a>(cameralabel, bandlabels.at(iband), cameraresponselabels.at(iband));</div>
+<div class="line"><a id="l05009" name="l05009"></a><span class="lineno"> 5009</span>    }</div>
 <div class="line"><a id="l05010" name="l05010"></a><span class="lineno"> 5010</span> </div>
-<div class="line"><a id="l05011" name="l05011"></a><span class="lineno"> 5011</span>    <span class="keywordtype">float</span> sources_fluxsum = 0;</div>
-<div class="line"><a id="l05012" name="l05012"></a><span class="lineno"> 5012</span>    std::vector&lt;float&gt; sources_fluxes;</div>
-<div class="line"><a id="l05013" name="l05013"></a><span class="lineno"> 5013</span>    <span class="keywordflow">for</span> (uint ID = 0; ID &lt; sourcelabels.size(); ID++){</div>
-<div class="line"><a id="l05014" name="l05014"></a><span class="lineno"> 5014</span>        std::vector&lt;vec2&gt; Source_spectrum = loadSpectralData(sourcelabels.at(ID).c_str());</div>
-<div class="line"><a id="l05015" name="l05015"></a><span class="lineno"> 5015</span>        sources_fluxes.push_back(<a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">RadiationModel::integrateSpectrum</a>(Source_spectrum, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>));</div>
-<div class="line"><a id="l05016" name="l05016"></a><span class="lineno"> 5016</span>        <a class="code hl_function" href="class_radiation_model.html#a790ce56ed07f2f40b80be9676fa02c05">RadiationModel::setSourceSpectrum</a>(ID, sourcelabels.at(ID).c_str());</div>
-<div class="line"><a id="l05017" name="l05017"></a><span class="lineno"> 5017</span>        <a class="code hl_function" href="class_radiation_model.html#a0d07935957cc6651d38a621513581189">RadiationModel::setSourceSpectrumIntegral</a>(ID, sources_fluxes.at(ID));</div>
-<div class="line"><a id="l05018" name="l05018"></a><span class="lineno"> 5018</span>        sources_fluxsum += sources_fluxes.at(ID);</div>
-<div class="line"><a id="l05019" name="l05019"></a><span class="lineno"> 5019</span>    }</div>
-<div class="line"><a id="l05020" name="l05020"></a><span class="lineno"> 5020</span> </div>
-<div class="line"><a id="l05021" name="l05021"></a><span class="lineno"> 5021</span>    <a class="code hl_function" href="class_radiation_model.html#ad0a4554dfa67054804de534229805054">RadiationModel::addRadiationBand</a>(bandlabels.at(0), wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
-<div class="line"><a id="l05022" name="l05022"></a><span class="lineno"> 5022</span>    <a class="code hl_function" href="class_radiation_model.html#a764f6cfd8e79569cc7a110fccd36857b">RadiationModel::disableEmission</a>(bandlabels.at(0));</div>
-<div class="line"><a id="l05023" name="l05023"></a><span class="lineno"> 5023</span>    <span class="keywordflow">for</span>( uint ID =0; ID&lt;radiation_sources.size();ID++ ) {</div>
-<div class="line"><a id="l05024" name="l05024"></a><span class="lineno"> 5024</span>        <a class="code hl_function" href="class_radiation_model.html#a2fa24d994612857ddc889e705b0444b1">RadiationModel::setSourceFlux</a>(ID, bandlabels.at(0), (1 - diffusefactor) * sources_fluxes.at(ID) * fluxscale);</div>
-<div class="line"><a id="l05025" name="l05025"></a><span class="lineno"> 5025</span>    }</div>
-<div class="line"><a id="l05026" name="l05026"></a><span class="lineno"> 5026</span>    <a class="code hl_function" href="class_radiation_model.html#a6d2c7374b0de7f50b1857b95c606182f">RadiationModel::setScatteringDepth</a>(bandlabels.at(0), scatteringdepth);</div>
-<div class="line"><a id="l05027" name="l05027"></a><span class="lineno"> 5027</span>    <a class="code hl_function" href="class_radiation_model.html#aa976502e7f722222399fbfe4f25dbe05">RadiationModel::setDiffuseRadiationFlux</a>(bandlabels.at(0), diffusefactor * sources_fluxsum );</div>
-<div class="line"><a id="l05028" name="l05028"></a><span class="lineno"> 5028</span>    <a class="code hl_function" href="class_radiation_model.html#ac85aa79af6c1b3b50081216c6c257225">RadiationModel::setDiffuseRadiationExtinctionCoeff</a>(bandlabels.at(0), 1.f, <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(-0.5, 0.5, 1) );</div>
-<div class="line"><a id="l05029" name="l05029"></a><span class="lineno"> 5029</span> </div>
-<div class="line"><a id="l05030" name="l05030"></a><span class="lineno"> 5030</span>    <span class="keywordflow">if</span> (bandlabels.size()&gt;1){</div>
-<div class="line"><a id="l05031" name="l05031"></a><span class="lineno"> 5031</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> iband=1;iband&lt;bandlabels.size();iband++){</div>
-<div class="line"><a id="l05032" name="l05032"></a><span class="lineno"> 5032</span>            <a class="code hl_function" href="class_radiation_model.html#a516dafe4d898ad38af6f5bc23bdfb4d8">RadiationModel::copyRadiationBand</a>(bandlabels.at(iband-1), bandlabels.at(iband), wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
-<div class="line"><a id="l05033" name="l05033"></a><span class="lineno"> 5033</span>            <span class="keywordflow">for</span>( uint ID =0; ID&lt;radiation_sources.size();ID++ ) {</div>
-<div class="line"><a id="l05034" name="l05034"></a><span class="lineno"> 5034</span>                <a class="code hl_function" href="class_radiation_model.html#a2fa24d994612857ddc889e705b0444b1">RadiationModel::setSourceFlux</a>(ID, bandlabels.at(iband), (1 - diffusefactor) * sources_fluxes.at(ID) * fluxscale);</div>
-<div class="line"><a id="l05035" name="l05035"></a><span class="lineno"> 5035</span>            }</div>
-<div class="line"><a id="l05036" name="l05036"></a><span class="lineno"> 5036</span>            <a class="code hl_function" href="class_radiation_model.html#aa976502e7f722222399fbfe4f25dbe05">RadiationModel::setDiffuseRadiationFlux</a>(bandlabels.at(iband), diffusefactor * sources_fluxsum );</div>
-<div class="line"><a id="l05037" name="l05037"></a><span class="lineno"> 5037</span>        }</div>
-<div class="line"><a id="l05038" name="l05038"></a><span class="lineno"> 5038</span>    }</div>
-<div class="line"><a id="l05039" name="l05039"></a><span class="lineno"> 5039</span> </div>
-<div class="line"><a id="l05040" name="l05040"></a><span class="lineno"> 5040</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> ic=0;ic&lt;cameralabels.size();ic++){</div>
-<div class="line"><a id="l05041" name="l05041"></a><span class="lineno"> 5041</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> iband=0;iband&lt;bandlabels.size();iband++){</div>
-<div class="line"><a id="l05042" name="l05042"></a><span class="lineno"> 5042</span>            <a class="code hl_function" href="class_radiation_model.html#a1ea2acedb464217f1acc38f0e05d353f">RadiationModel::setCameraSpectralResponse</a>(cameralabels.at(ic), bandlabels.at(iband), cameraresponselabels.at(iband));</div>
-<div class="line"><a id="l05043" name="l05043"></a><span class="lineno"> 5043</span>        }</div>
-<div class="line"><a id="l05044" name="l05044"></a><span class="lineno"> 5044</span>    }</div>
-<div class="line"><a id="l05045" name="l05045"></a><span class="lineno"> 5045</span> </div>
-<div class="line"><a id="l05046" name="l05046"></a><span class="lineno"> 5046</span> </div>
-<div class="line"><a id="l05047" name="l05047"></a><span class="lineno"> 5047</span>    <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a>();</div>
-<div class="line"><a id="l05048" name="l05048"></a><span class="lineno"> 5048</span>    <a class="code hl_function" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a>(bandlabels);</div>
-<div class="line"><a id="l05049" name="l05049"></a><span class="lineno"> 5049</span>}</div>
+<div class="line"><a id="l05011" name="l05011"></a><span class="lineno"> 5011</span>    <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a>();</div>
+<div class="line"><a id="l05012" name="l05012"></a><span class="lineno"> 5012</span>    <a class="code hl_function" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a>(bandlabels);</div>
+<div class="line"><a id="l05013" name="l05013"></a><span class="lineno"> 5013</span>}</div>
 </div>
-<div class="line"><a id="l05050" name="l05050"></a><span class="lineno"> 5050</span> </div>
-<div class="foldopen" id="foldopen05051" data-start="{" data-end="}">
-<div class="line"><a id="l05051" name="l05051"></a><span class="lineno"><a class="line" href="class_radiation_model.html#adb5a74547d51a18018d3daeba0ec5f3c"> 5051</a></span><span class="keywordtype">float</span> <a class="code hl_function" href="class_radiation_model.html#adb5a74547d51a18018d3daeba0ec5f3c">RadiationModel::getCameraResponseScale</a>(<span class="keyword">const</span> std::string &amp;orginalcameralabel, <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; cameraresponselabels,</div>
-<div class="line"><a id="l05052" name="l05052"></a><span class="lineno"> 5052</span>                                             <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; bandlabels, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;sourcelabels,</div>
-<div class="line"><a id="l05053" name="l05053"></a><span class="lineno"> 5053</span>                                             <a class="code hl_struct" href="structhelios_1_1vec2.html">vec2</a> &amp;wavelengthrange, <span class="keyword">const</span> std::vector&lt;std::vector&lt;float&gt;&gt; &amp;truevalues){</div>
+<div class="line"><a id="l05014" name="l05014"></a><span class="lineno"> 5014</span> </div>
+<div class="foldopen" id="foldopen05015" data-start="{" data-end="}">
+<div class="line"><a id="l05015" name="l05015"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a63f23da646aac79163c8154ef3a6e93e"> 5015</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a728c89b679cfcb957567b43e52023baf">RadiationModel::runRadiationImaging</a>(<span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; cameralabels, <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; sourcelabels, <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; bandlabels,</div>
+<div class="line"><a id="l05016" name="l05016"></a><span class="lineno"> 5016</span>                                         <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; cameraresponselabels, <a class="code hl_struct" href="structhelios_1_1vec2.html">helios::vec2</a> wavelengthrange,</div>
+<div class="line"><a id="l05017" name="l05017"></a><span class="lineno"> 5017</span>                                         <span class="keywordtype">float</span> fluxscale, <span class="keywordtype">float</span> diffusefactor, uint scatteringdepth){</div>
+<div class="line"><a id="l05018" name="l05018"></a><span class="lineno"> 5018</span> </div>
+<div class="line"><a id="l05019" name="l05019"></a><span class="lineno"> 5019</span>    <span class="keywordtype">float</span> sources_fluxsum = 0;</div>
+<div class="line"><a id="l05020" name="l05020"></a><span class="lineno"> 5020</span>    std::vector&lt;float&gt; sources_fluxes;</div>
+<div class="line"><a id="l05021" name="l05021"></a><span class="lineno"> 5021</span>    <span class="keywordflow">for</span> (uint ID = 0; ID &lt; sourcelabels.size(); ID++){</div>
+<div class="line"><a id="l05022" name="l05022"></a><span class="lineno"> 5022</span>        std::vector&lt;vec2&gt; Source_spectrum = loadSpectralData(sourcelabels.at(ID).c_str());</div>
+<div class="line"><a id="l05023" name="l05023"></a><span class="lineno"> 5023</span>        sources_fluxes.push_back(<a class="code hl_function" href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">RadiationModel::integrateSpectrum</a>(Source_spectrum, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>));</div>
+<div class="line"><a id="l05024" name="l05024"></a><span class="lineno"> 5024</span>        <a class="code hl_function" href="class_radiation_model.html#a790ce56ed07f2f40b80be9676fa02c05">RadiationModel::setSourceSpectrum</a>(ID, sourcelabels.at(ID).c_str());</div>
+<div class="line"><a id="l05025" name="l05025"></a><span class="lineno"> 5025</span>        <a class="code hl_function" href="class_radiation_model.html#a0d07935957cc6651d38a621513581189">RadiationModel::setSourceSpectrumIntegral</a>(ID, sources_fluxes.at(ID));</div>
+<div class="line"><a id="l05026" name="l05026"></a><span class="lineno"> 5026</span>        sources_fluxsum += sources_fluxes.at(ID);</div>
+<div class="line"><a id="l05027" name="l05027"></a><span class="lineno"> 5027</span>    }</div>
+<div class="line"><a id="l05028" name="l05028"></a><span class="lineno"> 5028</span> </div>
+<div class="line"><a id="l05029" name="l05029"></a><span class="lineno"> 5029</span>    <a class="code hl_function" href="class_radiation_model.html#ad0a4554dfa67054804de534229805054">RadiationModel::addRadiationBand</a>(bandlabels.at(0), wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
+<div class="line"><a id="l05030" name="l05030"></a><span class="lineno"> 5030</span>    <a class="code hl_function" href="class_radiation_model.html#a764f6cfd8e79569cc7a110fccd36857b">RadiationModel::disableEmission</a>(bandlabels.at(0));</div>
+<div class="line"><a id="l05031" name="l05031"></a><span class="lineno"> 5031</span>    <span class="keywordflow">for</span>( uint ID =0; ID&lt;radiation_sources.size();ID++ ) {</div>
+<div class="line"><a id="l05032" name="l05032"></a><span class="lineno"> 5032</span>        <a class="code hl_function" href="class_radiation_model.html#a2fa24d994612857ddc889e705b0444b1">RadiationModel::setSourceFlux</a>(ID, bandlabels.at(0), (1 - diffusefactor) * sources_fluxes.at(ID) * fluxscale);</div>
+<div class="line"><a id="l05033" name="l05033"></a><span class="lineno"> 5033</span>    }</div>
+<div class="line"><a id="l05034" name="l05034"></a><span class="lineno"> 5034</span>    <a class="code hl_function" href="class_radiation_model.html#a6d2c7374b0de7f50b1857b95c606182f">RadiationModel::setScatteringDepth</a>(bandlabels.at(0), scatteringdepth);</div>
+<div class="line"><a id="l05035" name="l05035"></a><span class="lineno"> 5035</span>    <a class="code hl_function" href="class_radiation_model.html#aa976502e7f722222399fbfe4f25dbe05">RadiationModel::setDiffuseRadiationFlux</a>(bandlabels.at(0), diffusefactor * sources_fluxsum );</div>
+<div class="line"><a id="l05036" name="l05036"></a><span class="lineno"> 5036</span>    <a class="code hl_function" href="class_radiation_model.html#ac85aa79af6c1b3b50081216c6c257225">RadiationModel::setDiffuseRadiationExtinctionCoeff</a>(bandlabels.at(0), 1.f, <a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(-0.5, 0.5, 1) );</div>
+<div class="line"><a id="l05037" name="l05037"></a><span class="lineno"> 5037</span> </div>
+<div class="line"><a id="l05038" name="l05038"></a><span class="lineno"> 5038</span>    <span class="keywordflow">if</span> (bandlabels.size()&gt;1){</div>
+<div class="line"><a id="l05039" name="l05039"></a><span class="lineno"> 5039</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> iband=1;iband&lt;bandlabels.size();iband++){</div>
+<div class="line"><a id="l05040" name="l05040"></a><span class="lineno"> 5040</span>            <a class="code hl_function" href="class_radiation_model.html#a516dafe4d898ad38af6f5bc23bdfb4d8">RadiationModel::copyRadiationBand</a>(bandlabels.at(iband-1), bandlabels.at(iband), wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#a8dda241c2560b203a3b0a479d1c9e12e">x</a>, wavelengthrange.<a class="code hl_variable" href="structhelios_1_1vec2.html#ab4afff51f764cbf9bab0949ae067977e">y</a>);</div>
+<div class="line"><a id="l05041" name="l05041"></a><span class="lineno"> 5041</span>            <span class="keywordflow">for</span>( uint ID =0; ID&lt;radiation_sources.size();ID++ ) {</div>
+<div class="line"><a id="l05042" name="l05042"></a><span class="lineno"> 5042</span>                <a class="code hl_function" href="class_radiation_model.html#a2fa24d994612857ddc889e705b0444b1">RadiationModel::setSourceFlux</a>(ID, bandlabels.at(iband), (1 - diffusefactor) * sources_fluxes.at(ID) * fluxscale);</div>
+<div class="line"><a id="l05043" name="l05043"></a><span class="lineno"> 5043</span>            }</div>
+<div class="line"><a id="l05044" name="l05044"></a><span class="lineno"> 5044</span>            <a class="code hl_function" href="class_radiation_model.html#aa976502e7f722222399fbfe4f25dbe05">RadiationModel::setDiffuseRadiationFlux</a>(bandlabels.at(iband), diffusefactor * sources_fluxsum );</div>
+<div class="line"><a id="l05045" name="l05045"></a><span class="lineno"> 5045</span>        }</div>
+<div class="line"><a id="l05046" name="l05046"></a><span class="lineno"> 5046</span>    }</div>
+<div class="line"><a id="l05047" name="l05047"></a><span class="lineno"> 5047</span> </div>
+<div class="line"><a id="l05048" name="l05048"></a><span class="lineno"> 5048</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> ic=0;ic&lt;cameralabels.size();ic++){</div>
+<div class="line"><a id="l05049" name="l05049"></a><span class="lineno"> 5049</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> iband=0;iband&lt;bandlabels.size();iband++){</div>
+<div class="line"><a id="l05050" name="l05050"></a><span class="lineno"> 5050</span>            <a class="code hl_function" href="class_radiation_model.html#a1ea2acedb464217f1acc38f0e05d353f">RadiationModel::setCameraSpectralResponse</a>(cameralabels.at(ic), bandlabels.at(iband), cameraresponselabels.at(iband));</div>
+<div class="line"><a id="l05051" name="l05051"></a><span class="lineno"> 5051</span>        }</div>
+<div class="line"><a id="l05052" name="l05052"></a><span class="lineno"> 5052</span>    }</div>
+<div class="line"><a id="l05053" name="l05053"></a><span class="lineno"> 5053</span> </div>
 <div class="line"><a id="l05054" name="l05054"></a><span class="lineno"> 5054</span> </div>
-<div class="line"><a id="l05055" name="l05055"></a><span class="lineno"> 5055</span> </div>
-<div class="line"><a id="l05056" name="l05056"></a><span class="lineno"> 5056</span>    <a class="code hl_struct" href="struct_radiation_camera.html">RadiationCamera</a> calibratecamera = cameras.at(orginalcameralabel);</div>
-<div class="line"><a id="l05057" name="l05057"></a><span class="lineno"> 5057</span>    <a class="code hl_struct" href="struct_camera_properties.html">CameraProperties</a> cameraproperties;</div>
-<div class="line"><a id="l05058" name="l05058"></a><span class="lineno"> 5058</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#ac1419dfa651f1f8343f5fb5a2fad2148">HFOV</a> = calibratecamera.HFOV_degrees;</div>
-<div class="line"><a id="l05059" name="l05059"></a><span class="lineno"> 5059</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#a2806b640deeab5fbcd9dda8ea240f345">camera_resolution</a> = calibratecamera.resolution;</div>
-<div class="line"><a id="l05060" name="l05060"></a><span class="lineno"> 5060</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#a7eae760b6f6729b2e391d0b96d07b209">focal_plane_distance</a> = calibratecamera.focal_length;</div>
-<div class="line"><a id="l05061" name="l05061"></a><span class="lineno"> 5061</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#acf2d9d32a978b027658045c8068c7d1a">lens_diameter</a> = calibratecamera.lens_diameter;</div>
-<div class="line"><a id="l05062" name="l05062"></a><span class="lineno"> 5062</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#ae1e4df4d4612fd652ccd1e57fc71d104">FOV_aspect_ratio</a> = calibratecamera.FOV_aspect_ratio;</div>
-<div class="line"><a id="l05063" name="l05063"></a><span class="lineno"> 5063</span> </div>
-<div class="line"><a id="l05064" name="l05064"></a><span class="lineno"> 5064</span>    std::string cameralabel = orginalcameralabel+<span class="stringliteral">&quot;Scale&quot;</span>;</div>
-<div class="line"><a id="l05065" name="l05065"></a><span class="lineno"> 5065</span>    <a class="code hl_function" href="class_radiation_model.html#aedf80552eaf2bf6a8544dcb2c72cb331">RadiationModel::addRadiationCamera</a>(cameralabel, bandlabels, calibratecamera.position, calibratecamera.lookat, cameraproperties,20);</div>
-<div class="line"><a id="l05066" name="l05066"></a><span class="lineno"> 5066</span>    <a class="code hl_function" href="class_radiation_model.html#a728c89b679cfcb957567b43e52023baf">RadiationModel::runRadiationImaging</a>(cameralabel, sourcelabels, bandlabels, cameraresponselabels, wavelengthrange, 1, 0);</div>
-<div class="line"><a id="l05067" name="l05067"></a><span class="lineno"> 5067</span> </div>
-<div class="line"><a id="l05068" name="l05068"></a><span class="lineno"> 5068</span>    <span class="comment">// Get camera spectral response scale based on comparing true values and calibrated image</span></div>
-<div class="line"><a id="l05069" name="l05069"></a><span class="lineno"> 5069</span>    <span class="keywordtype">float</span> camerascale = cameracalibration-&gt;<a class="code hl_function" href="struct_camera_calibration.html#a18eff4a7ecab1038f27b68c3963a5513">getCameraResponseScale</a>(cameralabel, cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#a2806b640deeab5fbcd9dda8ea240f345">camera_resolution</a>, bandlabels, truevalues);</div>
-<div class="line"><a id="l05070" name="l05070"></a><span class="lineno"> 5070</span>    <span class="keywordflow">return</span> camerascale;</div>
-<div class="line"><a id="l05071" name="l05071"></a><span class="lineno"> 5071</span>}</div>
+<div class="line"><a id="l05055" name="l05055"></a><span class="lineno"> 5055</span>    <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a>();</div>
+<div class="line"><a id="l05056" name="l05056"></a><span class="lineno"> 5056</span>    <a class="code hl_function" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a>(bandlabels);</div>
+<div class="line"><a id="l05057" name="l05057"></a><span class="lineno"> 5057</span>}</div>
 </div>
-<div class="line"><a id="l05072" name="l05072"></a><span class="lineno"> 5072</span> </div>
-<div class="line"><a id="l05073" name="l05073"></a><span class="lineno"> 5073</span> </div>
-<div class="foldopen" id="foldopen05074" data-start="{" data-end="}">
-<div class="line"><a id="l05074" name="l05074"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a771c53fe19d75303c3f60017db8a2b50"> 5074</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a771c53fe19d75303c3f60017db8a2b50">RadiationModel::writePrimitiveDataLabelMap</a>(<span class="keyword">const</span> std::string &amp;cameralabel, <span class="keyword">const</span> std::string &amp;primitive_data_label, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">int</span> frame, <span class="keywordtype">float</span> padvalue){</div>
+<div class="line"><a id="l05058" name="l05058"></a><span class="lineno"> 5058</span> </div>
+<div class="foldopen" id="foldopen05059" data-start="{" data-end="}">
+<div class="line"><a id="l05059" name="l05059"></a><span class="lineno"><a class="line" href="class_radiation_model.html#adb5a74547d51a18018d3daeba0ec5f3c"> 5059</a></span><span class="keywordtype">float</span> <a class="code hl_function" href="class_radiation_model.html#adb5a74547d51a18018d3daeba0ec5f3c">RadiationModel::getCameraResponseScale</a>(<span class="keyword">const</span> std::string &amp;orginalcameralabel, <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; cameraresponselabels,</div>
+<div class="line"><a id="l05060" name="l05060"></a><span class="lineno"> 5060</span>                                             <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; bandlabels, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;sourcelabels,</div>
+<div class="line"><a id="l05061" name="l05061"></a><span class="lineno"> 5061</span>                                             <a class="code hl_struct" href="structhelios_1_1vec2.html">vec2</a> &amp;wavelengthrange, <span class="keyword">const</span> std::vector&lt;std::vector&lt;float&gt;&gt; &amp;truevalues){</div>
+<div class="line"><a id="l05062" name="l05062"></a><span class="lineno"> 5062</span> </div>
+<div class="line"><a id="l05063" name="l05063"></a><span class="lineno"> 5063</span> </div>
+<div class="line"><a id="l05064" name="l05064"></a><span class="lineno"> 5064</span>    <a class="code hl_struct" href="struct_radiation_camera.html">RadiationCamera</a> calibratecamera = cameras.at(orginalcameralabel);</div>
+<div class="line"><a id="l05065" name="l05065"></a><span class="lineno"> 5065</span>    <a class="code hl_struct" href="struct_camera_properties.html">CameraProperties</a> cameraproperties;</div>
+<div class="line"><a id="l05066" name="l05066"></a><span class="lineno"> 5066</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#ac1419dfa651f1f8343f5fb5a2fad2148">HFOV</a> = calibratecamera.HFOV_degrees;</div>
+<div class="line"><a id="l05067" name="l05067"></a><span class="lineno"> 5067</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#a2806b640deeab5fbcd9dda8ea240f345">camera_resolution</a> = calibratecamera.resolution;</div>
+<div class="line"><a id="l05068" name="l05068"></a><span class="lineno"> 5068</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#a7eae760b6f6729b2e391d0b96d07b209">focal_plane_distance</a> = calibratecamera.focal_length;</div>
+<div class="line"><a id="l05069" name="l05069"></a><span class="lineno"> 5069</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#acf2d9d32a978b027658045c8068c7d1a">lens_diameter</a> = calibratecamera.lens_diameter;</div>
+<div class="line"><a id="l05070" name="l05070"></a><span class="lineno"> 5070</span>    cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#ae1e4df4d4612fd652ccd1e57fc71d104">FOV_aspect_ratio</a> = calibratecamera.FOV_aspect_ratio;</div>
+<div class="line"><a id="l05071" name="l05071"></a><span class="lineno"> 5071</span> </div>
+<div class="line"><a id="l05072" name="l05072"></a><span class="lineno"> 5072</span>    std::string cameralabel = orginalcameralabel+<span class="stringliteral">&quot;Scale&quot;</span>;</div>
+<div class="line"><a id="l05073" name="l05073"></a><span class="lineno"> 5073</span>    <a class="code hl_function" href="class_radiation_model.html#aedf80552eaf2bf6a8544dcb2c72cb331">RadiationModel::addRadiationCamera</a>(cameralabel, bandlabels, calibratecamera.position, calibratecamera.lookat, cameraproperties,20);</div>
+<div class="line"><a id="l05074" name="l05074"></a><span class="lineno"> 5074</span>    <a class="code hl_function" href="class_radiation_model.html#a728c89b679cfcb957567b43e52023baf">RadiationModel::runRadiationImaging</a>(cameralabel, sourcelabels, bandlabels, cameraresponselabels, wavelengthrange, 1, 0);</div>
 <div class="line"><a id="l05075" name="l05075"></a><span class="lineno"> 5075</span> </div>
-<div class="line"><a id="l05076" name="l05076"></a><span class="lineno"> 5076</span>    <span class="keywordflow">if</span>( cameras.find(cameralabel)==cameras.end() ){</div>
-<div class="line"><a id="l05077" name="l05077"></a><span class="lineno"> 5077</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writePrimitiveDataLabelMap): Camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist.&quot;</span> );</div>
-<div class="line"><a id="l05078" name="l05078"></a><span class="lineno"> 5078</span>    }</div>
-<div class="line"><a id="l05079" name="l05079"></a><span class="lineno"> 5079</span> </div>
-<div class="line"><a id="l05080" name="l05080"></a><span class="lineno"> 5080</span>    <span class="comment">//Get image UUID labels</span></div>
-<div class="line"><a id="l05081" name="l05081"></a><span class="lineno"> 5081</span>    std::vector&lt;uint&gt; camera_UUIDs;</div>
-<div class="line"><a id="l05082" name="l05082"></a><span class="lineno"> 5082</span>    std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_UUID&quot;</span>;</div>
-<div class="line"><a id="l05083" name="l05083"></a><span class="lineno"> 5083</span>    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str() ) ){</div>
-<div class="line"><a id="l05084" name="l05084"></a><span class="lineno"> 5084</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writePrimitiveDataLabelMap): Pixel labels for camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; do not exist. Was the radiation model run to generate labels?&quot;</span> );</div>
-<div class="line"><a id="l05085" name="l05085"></a><span class="lineno"> 5085</span>    }</div>
-<div class="line"><a id="l05086" name="l05086"></a><span class="lineno"> 5086</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_UUIDs);</div>
-<div class="line"><a id="l05087" name="l05087"></a><span class="lineno"> 5087</span>    std::vector&lt;uint&gt; pixel_UUIDs = camera_UUIDs;</div>
-<div class="line"><a id="l05088" name="l05088"></a><span class="lineno"> 5088</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(cameralabel).resolution;</div>
-<div class="line"><a id="l05089" name="l05089"></a><span class="lineno"> 5089</span> </div>
-<div class="line"><a id="l05090" name="l05090"></a><span class="lineno"> 5090</span>    std::string frame_str;</div>
-<div class="line"><a id="l05091" name="l05091"></a><span class="lineno"> 5091</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l05092" name="l05092"></a><span class="lineno"> 5092</span>        frame_str = std::to_string(frame);</div>
+<div class="line"><a id="l05076" name="l05076"></a><span class="lineno"> 5076</span>    <span class="comment">// Get camera spectral response scale based on comparing true values and calibrated image</span></div>
+<div class="line"><a id="l05077" name="l05077"></a><span class="lineno"> 5077</span>    <span class="keywordtype">float</span> camerascale = cameracalibration-&gt;<a class="code hl_function" href="struct_camera_calibration.html#a18eff4a7ecab1038f27b68c3963a5513">getCameraResponseScale</a>(cameralabel, cameraproperties.<a class="code hl_variable" href="struct_camera_properties.html#a2806b640deeab5fbcd9dda8ea240f345">camera_resolution</a>, bandlabels, truevalues);</div>
+<div class="line"><a id="l05078" name="l05078"></a><span class="lineno"> 5078</span>    <span class="keywordflow">return</span> camerascale;</div>
+<div class="line"><a id="l05079" name="l05079"></a><span class="lineno"> 5079</span>}</div>
+</div>
+<div class="line"><a id="l05080" name="l05080"></a><span class="lineno"> 5080</span> </div>
+<div class="line"><a id="l05081" name="l05081"></a><span class="lineno"> 5081</span> </div>
+<div class="foldopen" id="foldopen05082" data-start="{" data-end="}">
+<div class="line"><a id="l05082" name="l05082"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a771c53fe19d75303c3f60017db8a2b50"> 5082</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a771c53fe19d75303c3f60017db8a2b50">RadiationModel::writePrimitiveDataLabelMap</a>(<span class="keyword">const</span> std::string &amp;cameralabel, <span class="keyword">const</span> std::string &amp;primitive_data_label, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">int</span> frame, <span class="keywordtype">float</span> padvalue){</div>
+<div class="line"><a id="l05083" name="l05083"></a><span class="lineno"> 5083</span> </div>
+<div class="line"><a id="l05084" name="l05084"></a><span class="lineno"> 5084</span>    <span class="keywordflow">if</span>( cameras.find(cameralabel)==cameras.end() ){</div>
+<div class="line"><a id="l05085" name="l05085"></a><span class="lineno"> 5085</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writePrimitiveDataLabelMap): Camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist.&quot;</span> );</div>
+<div class="line"><a id="l05086" name="l05086"></a><span class="lineno"> 5086</span>    }</div>
+<div class="line"><a id="l05087" name="l05087"></a><span class="lineno"> 5087</span> </div>
+<div class="line"><a id="l05088" name="l05088"></a><span class="lineno"> 5088</span>    <span class="comment">//Get image UUID labels</span></div>
+<div class="line"><a id="l05089" name="l05089"></a><span class="lineno"> 5089</span>    std::vector&lt;uint&gt; camera_UUIDs;</div>
+<div class="line"><a id="l05090" name="l05090"></a><span class="lineno"> 5090</span>    std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_UUID&quot;</span>;</div>
+<div class="line"><a id="l05091" name="l05091"></a><span class="lineno"> 5091</span>    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str() ) ){</div>
+<div class="line"><a id="l05092" name="l05092"></a><span class="lineno"> 5092</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writePrimitiveDataLabelMap): Pixel labels for camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; do not exist. Was the radiation model run to generate labels?&quot;</span> );</div>
 <div class="line"><a id="l05093" name="l05093"></a><span class="lineno"> 5093</span>    }</div>
-<div class="line"><a id="l05094" name="l05094"></a><span class="lineno"> 5094</span> </div>
-<div class="line"><a id="l05095" name="l05095"></a><span class="lineno"> 5095</span>    std::ostringstream outfile;</div>
-<div class="line"><a id="l05096" name="l05096"></a><span class="lineno"> 5096</span> </div>
-<div class="line"><a id="l05097" name="l05097"></a><span class="lineno"> 5097</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="_radiation_model_8h.html#a2d93cfc62b5e610b18411a9e87547f81">validateOutputPath</a>(outfile) ){</div>
-<div class="line"><a id="l05098" name="l05098"></a><span class="lineno"> 5098</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImage): Invalid image output directory &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
-<div class="line"><a id="l05099" name="l05099"></a><span class="lineno"> 5099</span>    }</div>
-<div class="line"><a id="l05100" name="l05100"></a><span class="lineno"> 5100</span> </div>
-<div class="line"><a id="l05101" name="l05101"></a><span class="lineno"> 5101</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l05102" name="l05102"></a><span class="lineno"> 5102</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
-<div class="line"><a id="l05103" name="l05103"></a><span class="lineno"> 5103</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l05104" name="l05104"></a><span class="lineno"> 5104</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
-<div class="line"><a id="l05105" name="l05105"></a><span class="lineno"> 5105</span>    }</div>
-<div class="line"><a id="l05106" name="l05106"></a><span class="lineno"> 5106</span> </div>
-<div class="line"><a id="l05107" name="l05107"></a><span class="lineno"> 5107</span>    <span class="comment">//Output label image in &quot;.txt&quot; format</span></div>
-<div class="line"><a id="l05108" name="l05108"></a><span class="lineno"> 5108</span>    std::ofstream pixel_data(outfile.str());</div>
+<div class="line"><a id="l05094" name="l05094"></a><span class="lineno"> 5094</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_UUIDs);</div>
+<div class="line"><a id="l05095" name="l05095"></a><span class="lineno"> 5095</span>    std::vector&lt;uint&gt; pixel_UUIDs = camera_UUIDs;</div>
+<div class="line"><a id="l05096" name="l05096"></a><span class="lineno"> 5096</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(cameralabel).resolution;</div>
+<div class="line"><a id="l05097" name="l05097"></a><span class="lineno"> 5097</span> </div>
+<div class="line"><a id="l05098" name="l05098"></a><span class="lineno"> 5098</span>    std::string frame_str;</div>
+<div class="line"><a id="l05099" name="l05099"></a><span class="lineno"> 5099</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l05100" name="l05100"></a><span class="lineno"> 5100</span>        frame_str = std::to_string(frame);</div>
+<div class="line"><a id="l05101" name="l05101"></a><span class="lineno"> 5101</span>    }</div>
+<div class="line"><a id="l05102" name="l05102"></a><span class="lineno"> 5102</span> </div>
+<div class="line"><a id="l05103" name="l05103"></a><span class="lineno"> 5103</span>    std::string output_path = image_path;</div>
+<div class="line"><a id="l05104" name="l05104"></a><span class="lineno"> 5104</span>    <span class="keywordflow">if</span>( !image_path.empty() &amp;&amp; !<a class="code hl_function" href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9">validateOutputPath</a>(output_path) ){</div>
+<div class="line"><a id="l05105" name="l05105"></a><span class="lineno"> 5105</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writePrimitiveDataLabelMap): Invalid image output directory &#39;&quot;</span> + image_path + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
+<div class="line"><a id="l05106" name="l05106"></a><span class="lineno"> 5106</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902">getFileName</a>(output_path).empty() ){</div>
+<div class="line"><a id="l05107" name="l05107"></a><span class="lineno"> 5107</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR(RadiationModel::writePrimitiveDataLabelMap): Image output directory contains a filename. This argument should be the path to a directory not a file.&quot;</span>);</div>
+<div class="line"><a id="l05108" name="l05108"></a><span class="lineno"> 5108</span>    }</div>
 <div class="line"><a id="l05109" name="l05109"></a><span class="lineno"> 5109</span> </div>
-<div class="line"><a id="l05110" name="l05110"></a><span class="lineno"> 5110</span>    <span class="keywordflow">if</span>( !pixel_data.is_open() ){</div>
-<div class="line"><a id="l05111" name="l05111"></a><span class="lineno"> 5111</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writePrimitiveDataLabelMap): Could not open file &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39; for writing.&quot;</span> );</div>
-<div class="line"><a id="l05112" name="l05112"></a><span class="lineno"> 5112</span>    }</div>
-<div class="line"><a id="l05113" name="l05113"></a><span class="lineno"> 5113</span> </div>
-<div class="line"><a id="l05114" name="l05114"></a><span class="lineno"> 5114</span>    <span class="keywordtype">bool</span> empty_flag = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l05115" name="l05115"></a><span class="lineno"> 5115</span>    <span class="keywordflow">for</span> (uint j = 0; j &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++) {</div>
-<div class="line"><a id="l05116" name="l05116"></a><span class="lineno"> 5116</span>        <span class="keywordflow">for</span> (uint i = 0; i &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>; i++) {</div>
-<div class="line"><a id="l05117" name="l05117"></a><span class="lineno"> 5117</span>            uint ii = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> - i -1;</div>
-<div class="line"><a id="l05118" name="l05118"></a><span class="lineno"> 5118</span>            uint UUID =pixel_UUIDs.at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + ii)-1;</div>
-<div class="line"><a id="l05119" name="l05119"></a><span class="lineno"> 5119</span>            <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(UUID) &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID,primitive_data_label.c_str())){</div>
-<div class="line"><a id="l05120" name="l05120"></a><span class="lineno"> 5120</span>                <a class="code hl_enumeration" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">HeliosDataType</a> datatype = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID,primitive_data_label.c_str());</div>
-<div class="line"><a id="l05121" name="l05121"></a><span class="lineno"> 5121</span>                <span class="keywordflow">if</span>( datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a> ){</div>
-<div class="line"><a id="l05122" name="l05122"></a><span class="lineno"> 5122</span>                    <span class="keywordtype">float</span> labeldata;</div>
-<div class="line"><a id="l05123" name="l05123"></a><span class="lineno"> 5123</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID,primitive_data_label.c_str(),labeldata);</div>
-<div class="line"><a id="l05124" name="l05124"></a><span class="lineno"> 5124</span>                    pixel_data &lt;&lt; labeldata &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l05125" name="l05125"></a><span class="lineno"> 5125</span>                    empty_flag = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l05126" name="l05126"></a><span class="lineno"> 5126</span>                }</div>
-<div class="line"><a id="l05127" name="l05127"></a><span class="lineno"> 5127</span>                <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a>){</div>
-<div class="line"><a id="l05128" name="l05128"></a><span class="lineno"> 5128</span>                    uint labeldata;</div>
-<div class="line"><a id="l05129" name="l05129"></a><span class="lineno"> 5129</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID,primitive_data_label.c_str(),labeldata);</div>
-<div class="line"><a id="l05130" name="l05130"></a><span class="lineno"> 5130</span>                    pixel_data &lt;&lt; labeldata &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l05131" name="l05131"></a><span class="lineno"> 5131</span>                    empty_flag = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l05132" name="l05132"></a><span class="lineno"> 5132</span>                }</div>
-<div class="line"><a id="l05133" name="l05133"></a><span class="lineno"> 5133</span>                <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a>){</div>
-<div class="line"><a id="l05134" name="l05134"></a><span class="lineno"> 5134</span>                    <span class="keywordtype">int</span> labeldata;</div>
+<div class="line"><a id="l05110" name="l05110"></a><span class="lineno"> 5110</span>    std::ostringstream outfile;</div>
+<div class="line"><a id="l05111" name="l05111"></a><span class="lineno"> 5111</span>    outfile &lt;&lt; output_path;</div>
+<div class="line"><a id="l05112" name="l05112"></a><span class="lineno"> 5112</span> </div>
+<div class="line"><a id="l05113" name="l05113"></a><span class="lineno"> 5113</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l05114" name="l05114"></a><span class="lineno"> 5114</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
+<div class="line"><a id="l05115" name="l05115"></a><span class="lineno"> 5115</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l05116" name="l05116"></a><span class="lineno"> 5116</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
+<div class="line"><a id="l05117" name="l05117"></a><span class="lineno"> 5117</span>    }</div>
+<div class="line"><a id="l05118" name="l05118"></a><span class="lineno"> 5118</span> </div>
+<div class="line"><a id="l05119" name="l05119"></a><span class="lineno"> 5119</span>    <span class="comment">//Output label image in &quot;.txt&quot; format</span></div>
+<div class="line"><a id="l05120" name="l05120"></a><span class="lineno"> 5120</span>    std::ofstream pixel_data(outfile.str());</div>
+<div class="line"><a id="l05121" name="l05121"></a><span class="lineno"> 5121</span> </div>
+<div class="line"><a id="l05122" name="l05122"></a><span class="lineno"> 5122</span>    <span class="keywordflow">if</span>( !pixel_data.is_open() ){</div>
+<div class="line"><a id="l05123" name="l05123"></a><span class="lineno"> 5123</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writePrimitiveDataLabelMap): Could not open file &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39; for writing.&quot;</span> );</div>
+<div class="line"><a id="l05124" name="l05124"></a><span class="lineno"> 5124</span>    }</div>
+<div class="line"><a id="l05125" name="l05125"></a><span class="lineno"> 5125</span> </div>
+<div class="line"><a id="l05126" name="l05126"></a><span class="lineno"> 5126</span>    <span class="keywordtype">bool</span> empty_flag = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l05127" name="l05127"></a><span class="lineno"> 5127</span>    <span class="keywordflow">for</span> (uint j = 0; j &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++) {</div>
+<div class="line"><a id="l05128" name="l05128"></a><span class="lineno"> 5128</span>        <span class="keywordflow">for</span> (uint i = 0; i &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>; i++) {</div>
+<div class="line"><a id="l05129" name="l05129"></a><span class="lineno"> 5129</span>            uint ii = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> - i -1;</div>
+<div class="line"><a id="l05130" name="l05130"></a><span class="lineno"> 5130</span>            uint UUID =pixel_UUIDs.at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + ii)-1;</div>
+<div class="line"><a id="l05131" name="l05131"></a><span class="lineno"> 5131</span>            <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(UUID) &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID,primitive_data_label.c_str())){</div>
+<div class="line"><a id="l05132" name="l05132"></a><span class="lineno"> 5132</span>                <a class="code hl_enumeration" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">HeliosDataType</a> datatype = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID,primitive_data_label.c_str());</div>
+<div class="line"><a id="l05133" name="l05133"></a><span class="lineno"> 5133</span>                <span class="keywordflow">if</span>( datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a> ){</div>
+<div class="line"><a id="l05134" name="l05134"></a><span class="lineno"> 5134</span>                    <span class="keywordtype">float</span> labeldata;</div>
 <div class="line"><a id="l05135" name="l05135"></a><span class="lineno"> 5135</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID,primitive_data_label.c_str(),labeldata);</div>
 <div class="line"><a id="l05136" name="l05136"></a><span class="lineno"> 5136</span>                    pixel_data &lt;&lt; labeldata &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
 <div class="line"><a id="l05137" name="l05137"></a><span class="lineno"> 5137</span>                    empty_flag = <span class="keyword">false</span>;</div>
 <div class="line"><a id="l05138" name="l05138"></a><span class="lineno"> 5138</span>                }</div>
-<div class="line"><a id="l05139" name="l05139"></a><span class="lineno"> 5139</span>                <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a520daf05a1b3086aabd6cbe6a712c1c3">HELIOS_TYPE_DOUBLE</a>){</div>
-<div class="line"><a id="l05140" name="l05140"></a><span class="lineno"> 5140</span>                    <span class="keywordtype">double</span> labeldata;</div>
+<div class="line"><a id="l05139" name="l05139"></a><span class="lineno"> 5139</span>                <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a>){</div>
+<div class="line"><a id="l05140" name="l05140"></a><span class="lineno"> 5140</span>                    uint labeldata;</div>
 <div class="line"><a id="l05141" name="l05141"></a><span class="lineno"> 5141</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID,primitive_data_label.c_str(),labeldata);</div>
 <div class="line"><a id="l05142" name="l05142"></a><span class="lineno"> 5142</span>                    pixel_data &lt;&lt; labeldata &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
 <div class="line"><a id="l05143" name="l05143"></a><span class="lineno"> 5143</span>                    empty_flag = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l05144" name="l05144"></a><span class="lineno"> 5144</span>                }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l05145" name="l05145"></a><span class="lineno"> 5145</span>                    pixel_data &lt;&lt; padvalue &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l05146" name="l05146"></a><span class="lineno"> 5146</span>                }</div>
-<div class="line"><a id="l05147" name="l05147"></a><span class="lineno"> 5147</span>            }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l05148" name="l05148"></a><span class="lineno"> 5148</span>                pixel_data &lt;&lt; padvalue &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l05149" name="l05149"></a><span class="lineno"> 5149</span>            }</div>
-<div class="line"><a id="l05150" name="l05150"></a><span class="lineno"> 5150</span>        }</div>
-<div class="line"><a id="l05151" name="l05151"></a><span class="lineno"> 5151</span>        pixel_data &lt;&lt; <span class="stringliteral">&quot;\n&quot;</span>;</div>
-<div class="line"><a id="l05152" name="l05152"></a><span class="lineno"> 5152</span>    }</div>
-<div class="line"><a id="l05153" name="l05153"></a><span class="lineno"> 5153</span>    pixel_data.close();</div>
-<div class="line"><a id="l05154" name="l05154"></a><span class="lineno"> 5154</span> </div>
-<div class="line"><a id="l05155" name="l05155"></a><span class="lineno"> 5155</span>    <span class="keywordflow">if</span>( empty_flag ){</div>
-<div class="line"><a id="l05156" name="l05156"></a><span class="lineno"> 5156</span>        std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::writePrimitiveDataLabelMap): No primitive data of &quot;</span> &lt;&lt; primitive_data_label &lt;&lt; <span class="stringliteral">&quot; found in camera image. Primitive data map contains only padded values.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l05157" name="l05157"></a><span class="lineno"> 5157</span>    }</div>
-<div class="line"><a id="l05158" name="l05158"></a><span class="lineno"> 5158</span> </div>
-<div class="line"><a id="l05159" name="l05159"></a><span class="lineno"> 5159</span>}</div>
-</div>
-<div class="line"><a id="l05160" name="l05160"></a><span class="lineno"> 5160</span> </div>
-<div class="foldopen" id="foldopen05161" data-start="{" data-end="}">
-<div class="line"><a id="l05161" name="l05161"></a><span class="lineno"><a class="line" href="class_radiation_model.html#afdbe940b3c4ae5855a0fcbe5b0b7f708"> 5161</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#afdbe940b3c4ae5855a0fcbe5b0b7f708">RadiationModel::writeObjectDataLabelMap</a>(<span class="keyword">const</span> std::string &amp;cameralabel, <span class="keyword">const</span> std::string &amp;object_data_label, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">int</span> frame, <span class="keywordtype">float</span> padvalue){</div>
-<div class="line"><a id="l05162" name="l05162"></a><span class="lineno"> 5162</span> </div>
-<div class="line"><a id="l05163" name="l05163"></a><span class="lineno"> 5163</span>    <span class="keywordflow">if</span>( cameras.find(cameralabel)==cameras.end() ){</div>
-<div class="line"><a id="l05164" name="l05164"></a><span class="lineno"> 5164</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeObjectDataLabelMap): Camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist.&quot;</span> );</div>
-<div class="line"><a id="l05165" name="l05165"></a><span class="lineno"> 5165</span>    }</div>
+<div class="line"><a id="l05144" name="l05144"></a><span class="lineno"> 5144</span>                }</div>
+<div class="line"><a id="l05145" name="l05145"></a><span class="lineno"> 5145</span>                <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a>){</div>
+<div class="line"><a id="l05146" name="l05146"></a><span class="lineno"> 5146</span>                    <span class="keywordtype">int</span> labeldata;</div>
+<div class="line"><a id="l05147" name="l05147"></a><span class="lineno"> 5147</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID,primitive_data_label.c_str(),labeldata);</div>
+<div class="line"><a id="l05148" name="l05148"></a><span class="lineno"> 5148</span>                    pixel_data &lt;&lt; labeldata &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l05149" name="l05149"></a><span class="lineno"> 5149</span>                    empty_flag = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l05150" name="l05150"></a><span class="lineno"> 5150</span>                }</div>
+<div class="line"><a id="l05151" name="l05151"></a><span class="lineno"> 5151</span>                <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a520daf05a1b3086aabd6cbe6a712c1c3">HELIOS_TYPE_DOUBLE</a>){</div>
+<div class="line"><a id="l05152" name="l05152"></a><span class="lineno"> 5152</span>                    <span class="keywordtype">double</span> labeldata;</div>
+<div class="line"><a id="l05153" name="l05153"></a><span class="lineno"> 5153</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID,primitive_data_label.c_str(),labeldata);</div>
+<div class="line"><a id="l05154" name="l05154"></a><span class="lineno"> 5154</span>                    pixel_data &lt;&lt; labeldata &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l05155" name="l05155"></a><span class="lineno"> 5155</span>                    empty_flag = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l05156" name="l05156"></a><span class="lineno"> 5156</span>                }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l05157" name="l05157"></a><span class="lineno"> 5157</span>                    pixel_data &lt;&lt; padvalue &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l05158" name="l05158"></a><span class="lineno"> 5158</span>                }</div>
+<div class="line"><a id="l05159" name="l05159"></a><span class="lineno"> 5159</span>            }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l05160" name="l05160"></a><span class="lineno"> 5160</span>                pixel_data &lt;&lt; padvalue &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l05161" name="l05161"></a><span class="lineno"> 5161</span>            }</div>
+<div class="line"><a id="l05162" name="l05162"></a><span class="lineno"> 5162</span>        }</div>
+<div class="line"><a id="l05163" name="l05163"></a><span class="lineno"> 5163</span>        pixel_data &lt;&lt; <span class="stringliteral">&quot;\n&quot;</span>;</div>
+<div class="line"><a id="l05164" name="l05164"></a><span class="lineno"> 5164</span>    }</div>
+<div class="line"><a id="l05165" name="l05165"></a><span class="lineno"> 5165</span>    pixel_data.close();</div>
 <div class="line"><a id="l05166" name="l05166"></a><span class="lineno"> 5166</span> </div>
-<div class="line"><a id="l05167" name="l05167"></a><span class="lineno"> 5167</span>    <span class="comment">//Get image UUID labels</span></div>
-<div class="line"><a id="l05168" name="l05168"></a><span class="lineno"> 5168</span>    std::vector&lt;uint&gt; camera_UUIDs;</div>
-<div class="line"><a id="l05169" name="l05169"></a><span class="lineno"> 5169</span>    std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_UUID&quot;</span>;</div>
-<div class="line"><a id="l05170" name="l05170"></a><span class="lineno"> 5170</span>    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str() ) ){</div>
-<div class="line"><a id="l05171" name="l05171"></a><span class="lineno"> 5171</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeObjectDataLabelMap): Pixel labels for camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; do not exist. Was the radiation model run to generate labels?&quot;</span> );</div>
-<div class="line"><a id="l05172" name="l05172"></a><span class="lineno"> 5172</span>    }</div>
-<div class="line"><a id="l05173" name="l05173"></a><span class="lineno"> 5173</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_UUIDs);</div>
-<div class="line"><a id="l05174" name="l05174"></a><span class="lineno"> 5174</span>    std::vector&lt;uint&gt; pixel_UUIDs = camera_UUIDs;</div>
-<div class="line"><a id="l05175" name="l05175"></a><span class="lineno"> 5175</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(cameralabel).resolution;</div>
-<div class="line"><a id="l05176" name="l05176"></a><span class="lineno"> 5176</span> </div>
-<div class="line"><a id="l05177" name="l05177"></a><span class="lineno"> 5177</span>    std::string frame_str;</div>
-<div class="line"><a id="l05178" name="l05178"></a><span class="lineno"> 5178</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l05179" name="l05179"></a><span class="lineno"> 5179</span>        frame_str = std::to_string(frame);</div>
-<div class="line"><a id="l05180" name="l05180"></a><span class="lineno"> 5180</span>    }</div>
-<div class="line"><a id="l05181" name="l05181"></a><span class="lineno"> 5181</span> </div>
-<div class="line"><a id="l05182" name="l05182"></a><span class="lineno"> 5182</span>    std::ostringstream outfile;</div>
-<div class="line"><a id="l05183" name="l05183"></a><span class="lineno"> 5183</span> </div>
-<div class="line"><a id="l05184" name="l05184"></a><span class="lineno"> 5184</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="_radiation_model_8h.html#a2d93cfc62b5e610b18411a9e87547f81">validateOutputPath</a>(outfile) ){</div>
-<div class="line"><a id="l05185" name="l05185"></a><span class="lineno"> 5185</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImage): Invalid image output directory &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
-<div class="line"><a id="l05186" name="l05186"></a><span class="lineno"> 5186</span>    }</div>
-<div class="line"><a id="l05187" name="l05187"></a><span class="lineno"> 5187</span> </div>
-<div class="line"><a id="l05188" name="l05188"></a><span class="lineno"> 5188</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l05189" name="l05189"></a><span class="lineno"> 5189</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
-<div class="line"><a id="l05190" name="l05190"></a><span class="lineno"> 5190</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l05191" name="l05191"></a><span class="lineno"> 5191</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
+<div class="line"><a id="l05167" name="l05167"></a><span class="lineno"> 5167</span>    <span class="keywordflow">if</span>( empty_flag ){</div>
+<div class="line"><a id="l05168" name="l05168"></a><span class="lineno"> 5168</span>        std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::writePrimitiveDataLabelMap): No primitive data of &quot;</span> &lt;&lt; primitive_data_label &lt;&lt; <span class="stringliteral">&quot; found in camera image. Primitive data map contains only padded values.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l05169" name="l05169"></a><span class="lineno"> 5169</span>    }</div>
+<div class="line"><a id="l05170" name="l05170"></a><span class="lineno"> 5170</span> </div>
+<div class="line"><a id="l05171" name="l05171"></a><span class="lineno"> 5171</span>}</div>
+</div>
+<div class="line"><a id="l05172" name="l05172"></a><span class="lineno"> 5172</span> </div>
+<div class="foldopen" id="foldopen05173" data-start="{" data-end="}">
+<div class="line"><a id="l05173" name="l05173"></a><span class="lineno"><a class="line" href="class_radiation_model.html#afdbe940b3c4ae5855a0fcbe5b0b7f708"> 5173</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#afdbe940b3c4ae5855a0fcbe5b0b7f708">RadiationModel::writeObjectDataLabelMap</a>(<span class="keyword">const</span> std::string &amp;cameralabel, <span class="keyword">const</span> std::string &amp;object_data_label, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">int</span> frame, <span class="keywordtype">float</span> padvalue){</div>
+<div class="line"><a id="l05174" name="l05174"></a><span class="lineno"> 5174</span> </div>
+<div class="line"><a id="l05175" name="l05175"></a><span class="lineno"> 5175</span>    <span class="keywordflow">if</span>( cameras.find(cameralabel)==cameras.end() ){</div>
+<div class="line"><a id="l05176" name="l05176"></a><span class="lineno"> 5176</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeObjectDataLabelMap): Camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist.&quot;</span> );</div>
+<div class="line"><a id="l05177" name="l05177"></a><span class="lineno"> 5177</span>    }</div>
+<div class="line"><a id="l05178" name="l05178"></a><span class="lineno"> 5178</span> </div>
+<div class="line"><a id="l05179" name="l05179"></a><span class="lineno"> 5179</span>    <span class="comment">//Get image UUID labels</span></div>
+<div class="line"><a id="l05180" name="l05180"></a><span class="lineno"> 5180</span>    std::vector&lt;uint&gt; camera_UUIDs;</div>
+<div class="line"><a id="l05181" name="l05181"></a><span class="lineno"> 5181</span>    std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_UUID&quot;</span>;</div>
+<div class="line"><a id="l05182" name="l05182"></a><span class="lineno"> 5182</span>    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str() ) ){</div>
+<div class="line"><a id="l05183" name="l05183"></a><span class="lineno"> 5183</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeObjectDataLabelMap): Pixel labels for camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; do not exist. Was the radiation model run to generate labels?&quot;</span> );</div>
+<div class="line"><a id="l05184" name="l05184"></a><span class="lineno"> 5184</span>    }</div>
+<div class="line"><a id="l05185" name="l05185"></a><span class="lineno"> 5185</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_UUIDs);</div>
+<div class="line"><a id="l05186" name="l05186"></a><span class="lineno"> 5186</span>    std::vector&lt;uint&gt; pixel_UUIDs = camera_UUIDs;</div>
+<div class="line"><a id="l05187" name="l05187"></a><span class="lineno"> 5187</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(cameralabel).resolution;</div>
+<div class="line"><a id="l05188" name="l05188"></a><span class="lineno"> 5188</span> </div>
+<div class="line"><a id="l05189" name="l05189"></a><span class="lineno"> 5189</span>    std::string frame_str;</div>
+<div class="line"><a id="l05190" name="l05190"></a><span class="lineno"> 5190</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l05191" name="l05191"></a><span class="lineno"> 5191</span>        frame_str = std::to_string(frame);</div>
 <div class="line"><a id="l05192" name="l05192"></a><span class="lineno"> 5192</span>    }</div>
 <div class="line"><a id="l05193" name="l05193"></a><span class="lineno"> 5193</span> </div>
-<div class="line"><a id="l05194" name="l05194"></a><span class="lineno"> 5194</span>    <span class="comment">//Output label image in &quot;.txt&quot; format</span></div>
-<div class="line"><a id="l05195" name="l05195"></a><span class="lineno"> 5195</span>    std::ofstream pixel_data(outfile.str());</div>
-<div class="line"><a id="l05196" name="l05196"></a><span class="lineno"> 5196</span> </div>
-<div class="line"><a id="l05197" name="l05197"></a><span class="lineno"> 5197</span>    <span class="keywordflow">if</span>( !pixel_data.is_open() ){</div>
-<div class="line"><a id="l05198" name="l05198"></a><span class="lineno"> 5198</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeObjectDataLabelMap): Could not open file &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39; for writing.&quot;</span> );</div>
+<div class="line"><a id="l05194" name="l05194"></a><span class="lineno"> 5194</span>    std::string output_path = image_path;</div>
+<div class="line"><a id="l05195" name="l05195"></a><span class="lineno"> 5195</span>    <span class="keywordflow">if</span>( !image_path.empty() &amp;&amp; !<a class="code hl_function" href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9">validateOutputPath</a>(output_path) ){</div>
+<div class="line"><a id="l05196" name="l05196"></a><span class="lineno"> 5196</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeObjectDataLabelMap): Invalid image output directory &#39;&quot;</span> + image_path + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
+<div class="line"><a id="l05197" name="l05197"></a><span class="lineno"> 5197</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902">getFileName</a>(output_path).empty() ){</div>
+<div class="line"><a id="l05198" name="l05198"></a><span class="lineno"> 5198</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR(RadiationModel::writeObjectDataLabelMap): Image output directory contains a filename. This argument should be the path to a directory not a file.&quot;</span>);</div>
 <div class="line"><a id="l05199" name="l05199"></a><span class="lineno"> 5199</span>    }</div>
 <div class="line"><a id="l05200" name="l05200"></a><span class="lineno"> 5200</span> </div>
-<div class="line"><a id="l05201" name="l05201"></a><span class="lineno"> 5201</span>    <span class="keywordtype">bool</span> empty_flag = <span class="keyword">true</span>;</div>
-<div class="line"><a id="l05202" name="l05202"></a><span class="lineno"> 5202</span>    <span class="keywordflow">for</span> (uint j = 0; j &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++) {</div>
-<div class="line"><a id="l05203" name="l05203"></a><span class="lineno"> 5203</span>        <span class="keywordflow">for</span> (uint i = 0; i &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>; i++) {</div>
-<div class="line"><a id="l05204" name="l05204"></a><span class="lineno"> 5204</span>            uint ii = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> - i -1;</div>
-<div class="line"><a id="l05205" name="l05205"></a><span class="lineno"> 5205</span>            uint UUID =pixel_UUIDs.at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + ii)-1;</div>
-<div class="line"><a id="l05206" name="l05206"></a><span class="lineno"> 5206</span>            uint objID = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2d3e254d04f913e590a645b54886436e">getPrimitiveParentObjectID</a>(UUID);</div>
-<div class="line"><a id="l05207" name="l05207"></a><span class="lineno"> 5207</span>            <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">doesObjectExist</a>(objID) &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2834b9a6eee49d644f201f696ae5a4d5">doesObjectDataExist</a>(objID,object_data_label.c_str())){</div>
-<div class="line"><a id="l05208" name="l05208"></a><span class="lineno"> 5208</span>                <a class="code hl_enumeration" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">HeliosDataType</a> datatype = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#af77ff3ea4a7668d2b5cb03bc6fc5f5b6">getObjectDataType</a>(objID,object_data_label.c_str());</div>
-<div class="line"><a id="l05209" name="l05209"></a><span class="lineno"> 5209</span>                <span class="keywordflow">if</span>( datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a> ){</div>
-<div class="line"><a id="l05210" name="l05210"></a><span class="lineno"> 5210</span>                    <span class="keywordtype">float</span> labeldata;</div>
-<div class="line"><a id="l05211" name="l05211"></a><span class="lineno"> 5211</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3511ff568337b501ca878c99d97c9b52">getObjectData</a>(UUID,object_data_label.c_str(),labeldata);</div>
-<div class="line"><a id="l05212" name="l05212"></a><span class="lineno"> 5212</span>                    pixel_data &lt;&lt; labeldata &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l05213" name="l05213"></a><span class="lineno"> 5213</span>                    empty_flag = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l05214" name="l05214"></a><span class="lineno"> 5214</span>                }</div>
-<div class="line"><a id="l05215" name="l05215"></a><span class="lineno"> 5215</span>                <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a>){</div>
-<div class="line"><a id="l05216" name="l05216"></a><span class="lineno"> 5216</span>                    uint labeldata;</div>
-<div class="line"><a id="l05217" name="l05217"></a><span class="lineno"> 5217</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3511ff568337b501ca878c99d97c9b52">getObjectData</a>(UUID,object_data_label.c_str(),labeldata);</div>
-<div class="line"><a id="l05218" name="l05218"></a><span class="lineno"> 5218</span>                    pixel_data &lt;&lt; labeldata &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l05219" name="l05219"></a><span class="lineno"> 5219</span>                    empty_flag = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l05220" name="l05220"></a><span class="lineno"> 5220</span>                }</div>
-<div class="line"><a id="l05221" name="l05221"></a><span class="lineno"> 5221</span>                <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a>){</div>
-<div class="line"><a id="l05222" name="l05222"></a><span class="lineno"> 5222</span>                    <span class="keywordtype">int</span> labeldata;</div>
-<div class="line"><a id="l05223" name="l05223"></a><span class="lineno"> 5223</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3511ff568337b501ca878c99d97c9b52">getObjectData</a>(UUID,object_data_label.c_str(),labeldata);</div>
-<div class="line"><a id="l05224" name="l05224"></a><span class="lineno"> 5224</span>                    pixel_data &lt;&lt; labeldata &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l05225" name="l05225"></a><span class="lineno"> 5225</span>                    empty_flag = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l05226" name="l05226"></a><span class="lineno"> 5226</span>                }</div>
-<div class="line"><a id="l05227" name="l05227"></a><span class="lineno"> 5227</span>                <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a520daf05a1b3086aabd6cbe6a712c1c3">HELIOS_TYPE_DOUBLE</a>){</div>
-<div class="line"><a id="l05228" name="l05228"></a><span class="lineno"> 5228</span>                    <span class="keywordtype">double</span> labeldata;</div>
-<div class="line"><a id="l05229" name="l05229"></a><span class="lineno"> 5229</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3511ff568337b501ca878c99d97c9b52">getObjectData</a>(UUID,object_data_label.c_str(),labeldata);</div>
-<div class="line"><a id="l05230" name="l05230"></a><span class="lineno"> 5230</span>                    pixel_data &lt;&lt; labeldata &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l05231" name="l05231"></a><span class="lineno"> 5231</span>                    empty_flag = <span class="keyword">false</span>;</div>
-<div class="line"><a id="l05232" name="l05232"></a><span class="lineno"> 5232</span>                }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l05233" name="l05233"></a><span class="lineno"> 5233</span>                    pixel_data &lt;&lt; padvalue &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l05234" name="l05234"></a><span class="lineno"> 5234</span>                }</div>
-<div class="line"><a id="l05235" name="l05235"></a><span class="lineno"> 5235</span>            }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l05236" name="l05236"></a><span class="lineno"> 5236</span>                pixel_data &lt;&lt; padvalue &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l05237" name="l05237"></a><span class="lineno"> 5237</span>            }</div>
-<div class="line"><a id="l05238" name="l05238"></a><span class="lineno"> 5238</span>        }</div>
-<div class="line"><a id="l05239" name="l05239"></a><span class="lineno"> 5239</span>        pixel_data &lt;&lt; <span class="stringliteral">&quot;\n&quot;</span>;</div>
-<div class="line"><a id="l05240" name="l05240"></a><span class="lineno"> 5240</span>    }</div>
-<div class="line"><a id="l05241" name="l05241"></a><span class="lineno"> 5241</span>    pixel_data.close();</div>
-<div class="line"><a id="l05242" name="l05242"></a><span class="lineno"> 5242</span> </div>
-<div class="line"><a id="l05243" name="l05243"></a><span class="lineno"> 5243</span>    <span class="keywordflow">if</span>( empty_flag ){</div>
-<div class="line"><a id="l05244" name="l05244"></a><span class="lineno"> 5244</span>        std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::writeObjectDataLabelMap): No object data of &quot;</span> &lt;&lt; object_data_label &lt;&lt; <span class="stringliteral">&quot; found in camera image. Object data map contains only padded values.&quot;</span> &lt;&lt; std::endl;</div>
-<div class="line"><a id="l05245" name="l05245"></a><span class="lineno"> 5245</span>    }</div>
-<div class="line"><a id="l05246" name="l05246"></a><span class="lineno"> 5246</span> </div>
-<div class="line"><a id="l05247" name="l05247"></a><span class="lineno"> 5247</span>}</div>
+<div class="line"><a id="l05201" name="l05201"></a><span class="lineno"> 5201</span>    std::ostringstream outfile;</div>
+<div class="line"><a id="l05202" name="l05202"></a><span class="lineno"> 5202</span>    outfile &lt;&lt; output_path;</div>
+<div class="line"><a id="l05203" name="l05203"></a><span class="lineno"> 5203</span> </div>
+<div class="line"><a id="l05204" name="l05204"></a><span class="lineno"> 5204</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l05205" name="l05205"></a><span class="lineno"> 5205</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
+<div class="line"><a id="l05206" name="l05206"></a><span class="lineno"> 5206</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l05207" name="l05207"></a><span class="lineno"> 5207</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
+<div class="line"><a id="l05208" name="l05208"></a><span class="lineno"> 5208</span>    }</div>
+<div class="line"><a id="l05209" name="l05209"></a><span class="lineno"> 5209</span> </div>
+<div class="line"><a id="l05210" name="l05210"></a><span class="lineno"> 5210</span>    <span class="comment">//Output label image in &quot;.txt&quot; format</span></div>
+<div class="line"><a id="l05211" name="l05211"></a><span class="lineno"> 5211</span>    std::ofstream pixel_data(outfile.str());</div>
+<div class="line"><a id="l05212" name="l05212"></a><span class="lineno"> 5212</span> </div>
+<div class="line"><a id="l05213" name="l05213"></a><span class="lineno"> 5213</span>    <span class="keywordflow">if</span>( !pixel_data.is_open() ){</div>
+<div class="line"><a id="l05214" name="l05214"></a><span class="lineno"> 5214</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeObjectDataLabelMap): Could not open file &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39; for writing.&quot;</span> );</div>
+<div class="line"><a id="l05215" name="l05215"></a><span class="lineno"> 5215</span>    }</div>
+<div class="line"><a id="l05216" name="l05216"></a><span class="lineno"> 5216</span> </div>
+<div class="line"><a id="l05217" name="l05217"></a><span class="lineno"> 5217</span>    <span class="keywordtype">bool</span> empty_flag = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l05218" name="l05218"></a><span class="lineno"> 5218</span>    <span class="keywordflow">for</span> (uint j = 0; j &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++) {</div>
+<div class="line"><a id="l05219" name="l05219"></a><span class="lineno"> 5219</span>        <span class="keywordflow">for</span> (uint i = 0; i &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>; i++) {</div>
+<div class="line"><a id="l05220" name="l05220"></a><span class="lineno"> 5220</span>            uint ii = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> - i -1;</div>
+<div class="line"><a id="l05221" name="l05221"></a><span class="lineno"> 5221</span>            uint UUID =pixel_UUIDs.at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + ii)-1;</div>
+<div class="line"><a id="l05222" name="l05222"></a><span class="lineno"> 5222</span>            uint objID = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2d3e254d04f913e590a645b54886436e">getPrimitiveParentObjectID</a>(UUID);</div>
+<div class="line"><a id="l05223" name="l05223"></a><span class="lineno"> 5223</span>            <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">doesObjectExist</a>(objID) &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2834b9a6eee49d644f201f696ae5a4d5">doesObjectDataExist</a>(objID,object_data_label.c_str())){</div>
+<div class="line"><a id="l05224" name="l05224"></a><span class="lineno"> 5224</span>                <a class="code hl_enumeration" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">HeliosDataType</a> datatype = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#af77ff3ea4a7668d2b5cb03bc6fc5f5b6">getObjectDataType</a>(objID,object_data_label.c_str());</div>
+<div class="line"><a id="l05225" name="l05225"></a><span class="lineno"> 5225</span>                <span class="keywordflow">if</span>( datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a> ){</div>
+<div class="line"><a id="l05226" name="l05226"></a><span class="lineno"> 5226</span>                    <span class="keywordtype">float</span> labeldata;</div>
+<div class="line"><a id="l05227" name="l05227"></a><span class="lineno"> 5227</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3511ff568337b501ca878c99d97c9b52">getObjectData</a>(UUID,object_data_label.c_str(),labeldata);</div>
+<div class="line"><a id="l05228" name="l05228"></a><span class="lineno"> 5228</span>                    pixel_data &lt;&lt; labeldata &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l05229" name="l05229"></a><span class="lineno"> 5229</span>                    empty_flag = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l05230" name="l05230"></a><span class="lineno"> 5230</span>                }</div>
+<div class="line"><a id="l05231" name="l05231"></a><span class="lineno"> 5231</span>                <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a>){</div>
+<div class="line"><a id="l05232" name="l05232"></a><span class="lineno"> 5232</span>                    uint labeldata;</div>
+<div class="line"><a id="l05233" name="l05233"></a><span class="lineno"> 5233</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3511ff568337b501ca878c99d97c9b52">getObjectData</a>(UUID,object_data_label.c_str(),labeldata);</div>
+<div class="line"><a id="l05234" name="l05234"></a><span class="lineno"> 5234</span>                    pixel_data &lt;&lt; labeldata &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l05235" name="l05235"></a><span class="lineno"> 5235</span>                    empty_flag = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l05236" name="l05236"></a><span class="lineno"> 5236</span>                }</div>
+<div class="line"><a id="l05237" name="l05237"></a><span class="lineno"> 5237</span>                <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a>){</div>
+<div class="line"><a id="l05238" name="l05238"></a><span class="lineno"> 5238</span>                    <span class="keywordtype">int</span> labeldata;</div>
+<div class="line"><a id="l05239" name="l05239"></a><span class="lineno"> 5239</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3511ff568337b501ca878c99d97c9b52">getObjectData</a>(UUID,object_data_label.c_str(),labeldata);</div>
+<div class="line"><a id="l05240" name="l05240"></a><span class="lineno"> 5240</span>                    pixel_data &lt;&lt; labeldata &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l05241" name="l05241"></a><span class="lineno"> 5241</span>                    empty_flag = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l05242" name="l05242"></a><span class="lineno"> 5242</span>                }</div>
+<div class="line"><a id="l05243" name="l05243"></a><span class="lineno"> 5243</span>                <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a520daf05a1b3086aabd6cbe6a712c1c3">HELIOS_TYPE_DOUBLE</a>){</div>
+<div class="line"><a id="l05244" name="l05244"></a><span class="lineno"> 5244</span>                    <span class="keywordtype">double</span> labeldata;</div>
+<div class="line"><a id="l05245" name="l05245"></a><span class="lineno"> 5245</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3511ff568337b501ca878c99d97c9b52">getObjectData</a>(UUID,object_data_label.c_str(),labeldata);</div>
+<div class="line"><a id="l05246" name="l05246"></a><span class="lineno"> 5246</span>                    pixel_data &lt;&lt; labeldata &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l05247" name="l05247"></a><span class="lineno"> 5247</span>                    empty_flag = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l05248" name="l05248"></a><span class="lineno"> 5248</span>                }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l05249" name="l05249"></a><span class="lineno"> 5249</span>                    pixel_data &lt;&lt; padvalue &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l05250" name="l05250"></a><span class="lineno"> 5250</span>                }</div>
+<div class="line"><a id="l05251" name="l05251"></a><span class="lineno"> 5251</span>            }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l05252" name="l05252"></a><span class="lineno"> 5252</span>                pixel_data &lt;&lt; padvalue &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l05253" name="l05253"></a><span class="lineno"> 5253</span>            }</div>
+<div class="line"><a id="l05254" name="l05254"></a><span class="lineno"> 5254</span>        }</div>
+<div class="line"><a id="l05255" name="l05255"></a><span class="lineno"> 5255</span>        pixel_data &lt;&lt; <span class="stringliteral">&quot;\n&quot;</span>;</div>
+<div class="line"><a id="l05256" name="l05256"></a><span class="lineno"> 5256</span>    }</div>
+<div class="line"><a id="l05257" name="l05257"></a><span class="lineno"> 5257</span>    pixel_data.close();</div>
+<div class="line"><a id="l05258" name="l05258"></a><span class="lineno"> 5258</span> </div>
+<div class="line"><a id="l05259" name="l05259"></a><span class="lineno"> 5259</span>    <span class="keywordflow">if</span>( empty_flag ){</div>
+<div class="line"><a id="l05260" name="l05260"></a><span class="lineno"> 5260</span>        std::cerr &lt;&lt; <span class="stringliteral">&quot;WARNING (RadiationModel::writeObjectDataLabelMap): No object data of &quot;</span> &lt;&lt; object_data_label &lt;&lt; <span class="stringliteral">&quot; found in camera image. Object data map contains only padded values.&quot;</span> &lt;&lt; std::endl;</div>
+<div class="line"><a id="l05261" name="l05261"></a><span class="lineno"> 5261</span>    }</div>
+<div class="line"><a id="l05262" name="l05262"></a><span class="lineno"> 5262</span> </div>
+<div class="line"><a id="l05263" name="l05263"></a><span class="lineno"> 5263</span>}</div>
 </div>
-<div class="line"><a id="l05248" name="l05248"></a><span class="lineno"> 5248</span> </div>
-<div class="foldopen" id="foldopen05249" data-start="{" data-end="}">
-<div class="line"><a id="l05249" name="l05249"></a><span class="lineno"><a class="line" href="class_radiation_model.html#ad495efb7a88df316cc8117e1d181d104"> 5249</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#ad495efb7a88df316cc8117e1d181d104">RadiationModel::writeDepthImageData</a>(<span class="keyword">const</span> std::string &amp;cameralabel, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">int</span> frame) {</div>
-<div class="line"><a id="l05250" name="l05250"></a><span class="lineno"> 5250</span> </div>
-<div class="line"><a id="l05251" name="l05251"></a><span class="lineno"> 5251</span>    <span class="keywordflow">if</span>( cameras.find(cameralabel)==cameras.end() ){</div>
-<div class="line"><a id="l05252" name="l05252"></a><span class="lineno"> 5252</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeDepthImageData): Camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist.&quot;</span> );</div>
-<div class="line"><a id="l05253" name="l05253"></a><span class="lineno"> 5253</span>    }</div>
-<div class="line"><a id="l05254" name="l05254"></a><span class="lineno"> 5254</span> </div>
-<div class="line"><a id="l05255" name="l05255"></a><span class="lineno"> 5255</span>    std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_depth&quot;</span>;</div>
-<div class="line"><a id="l05256" name="l05256"></a><span class="lineno"> 5256</span>    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str()) ){</div>
-<div class="line"><a id="l05257" name="l05257"></a><span class="lineno"> 5257</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeDepthImageData): Depth data for camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist. Was the radiation model run for the camera?&quot;</span> );</div>
-<div class="line"><a id="l05258" name="l05258"></a><span class="lineno"> 5258</span>    }</div>
-<div class="line"><a id="l05259" name="l05259"></a><span class="lineno"> 5259</span>    std::vector&lt;float&gt; camera_depth;</div>
-<div class="line"><a id="l05260" name="l05260"></a><span class="lineno"> 5260</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_depth);</div>
-<div class="line"><a id="l05261" name="l05261"></a><span class="lineno"> 5261</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> camera_position = cameras.at(cameralabel).position;</div>
-<div class="line"><a id="l05262" name="l05262"></a><span class="lineno"> 5262</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> camera_lookat = cameras.at(cameralabel).lookat;</div>
-<div class="line"><a id="l05263" name="l05263"></a><span class="lineno"> 5263</span> </div>
-<div class="line"><a id="l05264" name="l05264"></a><span class="lineno"> 5264</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(cameralabel).resolution;</div>
-<div class="line"><a id="l05265" name="l05265"></a><span class="lineno"> 5265</span> </div>
-<div class="line"><a id="l05266" name="l05266"></a><span class="lineno"> 5266</span>    std::string frame_str;</div>
-<div class="line"><a id="l05267" name="l05267"></a><span class="lineno"> 5267</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l05268" name="l05268"></a><span class="lineno"> 5268</span>        frame_str = std::to_string(frame);</div>
+<div class="line"><a id="l05264" name="l05264"></a><span class="lineno"> 5264</span> </div>
+<div class="foldopen" id="foldopen05265" data-start="{" data-end="}">
+<div class="line"><a id="l05265" name="l05265"></a><span class="lineno"><a class="line" href="class_radiation_model.html#ad495efb7a88df316cc8117e1d181d104"> 5265</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#ad495efb7a88df316cc8117e1d181d104">RadiationModel::writeDepthImageData</a>(<span class="keyword">const</span> std::string &amp;cameralabel, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">int</span> frame) {</div>
+<div class="line"><a id="l05266" name="l05266"></a><span class="lineno"> 5266</span> </div>
+<div class="line"><a id="l05267" name="l05267"></a><span class="lineno"> 5267</span>    <span class="keywordflow">if</span>( cameras.find(cameralabel)==cameras.end() ){</div>
+<div class="line"><a id="l05268" name="l05268"></a><span class="lineno"> 5268</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeDepthImageData): Camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist.&quot;</span> );</div>
 <div class="line"><a id="l05269" name="l05269"></a><span class="lineno"> 5269</span>    }</div>
 <div class="line"><a id="l05270" name="l05270"></a><span class="lineno"> 5270</span> </div>
-<div class="line"><a id="l05271" name="l05271"></a><span class="lineno"> 5271</span>    std::ostringstream outfile;</div>
-<div class="line"><a id="l05272" name="l05272"></a><span class="lineno"> 5272</span> </div>
-<div class="line"><a id="l05273" name="l05273"></a><span class="lineno"> 5273</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="_radiation_model_8h.html#a2d93cfc62b5e610b18411a9e87547f81">validateOutputPath</a>(outfile) ){</div>
-<div class="line"><a id="l05274" name="l05274"></a><span class="lineno"> 5274</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImage): Invalid image output directory &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
-<div class="line"><a id="l05275" name="l05275"></a><span class="lineno"> 5275</span>    }</div>
-<div class="line"><a id="l05276" name="l05276"></a><span class="lineno"> 5276</span> </div>
-<div class="line"><a id="l05277" name="l05277"></a><span class="lineno"> 5277</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l05278" name="l05278"></a><span class="lineno"> 5278</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
-<div class="line"><a id="l05279" name="l05279"></a><span class="lineno"> 5279</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l05280" name="l05280"></a><span class="lineno"> 5280</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
-<div class="line"><a id="l05281" name="l05281"></a><span class="lineno"> 5281</span>    }</div>
-<div class="line"><a id="l05282" name="l05282"></a><span class="lineno"> 5282</span> </div>
-<div class="line"><a id="l05283" name="l05283"></a><span class="lineno"> 5283</span>    <span class="comment">//Output label image in &quot;.txt&quot; format</span></div>
-<div class="line"><a id="l05284" name="l05284"></a><span class="lineno"> 5284</span>    std::ofstream pixel_data(outfile.str());</div>
-<div class="line"><a id="l05285" name="l05285"></a><span class="lineno"> 5285</span> </div>
-<div class="line"><a id="l05286" name="l05286"></a><span class="lineno"> 5286</span>    <span class="keywordflow">if</span>( !pixel_data.is_open() ){</div>
-<div class="line"><a id="l05287" name="l05287"></a><span class="lineno"> 5287</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeDepthImageData): Could not open file &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39; for writing.&quot;</span> );</div>
-<div class="line"><a id="l05288" name="l05288"></a><span class="lineno"> 5288</span>    }</div>
-<div class="line"><a id="l05289" name="l05289"></a><span class="lineno"> 5289</span> </div>
-<div class="line"><a id="l05290" name="l05290"></a><span class="lineno"> 5290</span>    <span class="keywordflow">for</span> ( <span class="keywordtype">int</span> j = 0; j&lt;camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++ ) {</div>
-<div class="line"><a id="l05291" name="l05291"></a><span class="lineno"> 5291</span>        <span class="keywordflow">for</span> ( <span class="keywordtype">int</span> i = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>-1; i &gt;= 0; i--) {</div>
-<div class="line"><a id="l05292" name="l05292"></a><span class="lineno"> 5292</span>            pixel_data &lt;&lt; camera_depth.at(j*camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i) &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
-<div class="line"><a id="l05293" name="l05293"></a><span class="lineno"> 5293</span>        }</div>
-<div class="line"><a id="l05294" name="l05294"></a><span class="lineno"> 5294</span>        pixel_data &lt;&lt; <span class="stringliteral">&quot;\n&quot;</span>;</div>
-<div class="line"><a id="l05295" name="l05295"></a><span class="lineno"> 5295</span>    }</div>
+<div class="line"><a id="l05271" name="l05271"></a><span class="lineno"> 5271</span>    std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_depth&quot;</span>;</div>
+<div class="line"><a id="l05272" name="l05272"></a><span class="lineno"> 5272</span>    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str()) ){</div>
+<div class="line"><a id="l05273" name="l05273"></a><span class="lineno"> 5273</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeDepthImageData): Depth data for camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist. Was the radiation model run for the camera?&quot;</span> );</div>
+<div class="line"><a id="l05274" name="l05274"></a><span class="lineno"> 5274</span>    }</div>
+<div class="line"><a id="l05275" name="l05275"></a><span class="lineno"> 5275</span>    std::vector&lt;float&gt; camera_depth;</div>
+<div class="line"><a id="l05276" name="l05276"></a><span class="lineno"> 5276</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_depth);</div>
+<div class="line"><a id="l05277" name="l05277"></a><span class="lineno"> 5277</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> camera_position = cameras.at(cameralabel).position;</div>
+<div class="line"><a id="l05278" name="l05278"></a><span class="lineno"> 5278</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> camera_lookat = cameras.at(cameralabel).lookat;</div>
+<div class="line"><a id="l05279" name="l05279"></a><span class="lineno"> 5279</span> </div>
+<div class="line"><a id="l05280" name="l05280"></a><span class="lineno"> 5280</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(cameralabel).resolution;</div>
+<div class="line"><a id="l05281" name="l05281"></a><span class="lineno"> 5281</span> </div>
+<div class="line"><a id="l05282" name="l05282"></a><span class="lineno"> 5282</span>    std::string frame_str;</div>
+<div class="line"><a id="l05283" name="l05283"></a><span class="lineno"> 5283</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l05284" name="l05284"></a><span class="lineno"> 5284</span>        frame_str = std::to_string(frame);</div>
+<div class="line"><a id="l05285" name="l05285"></a><span class="lineno"> 5285</span>    }</div>
+<div class="line"><a id="l05286" name="l05286"></a><span class="lineno"> 5286</span> </div>
+<div class="line"><a id="l05287" name="l05287"></a><span class="lineno"> 5287</span>    std::string output_path = image_path;</div>
+<div class="line"><a id="l05288" name="l05288"></a><span class="lineno"> 5288</span>    <span class="keywordflow">if</span>( !image_path.empty() &amp;&amp; !<a class="code hl_function" href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9">validateOutputPath</a>(output_path) ){</div>
+<div class="line"><a id="l05289" name="l05289"></a><span class="lineno"> 5289</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeDepthImageData): Invalid image output directory &#39;&quot;</span> + image_path + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
+<div class="line"><a id="l05290" name="l05290"></a><span class="lineno"> 5290</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902">getFileName</a>(output_path).empty() ){</div>
+<div class="line"><a id="l05291" name="l05291"></a><span class="lineno"> 5291</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR(RadiationModel::writeDepthImageData): Image output directory contains a filename. This argument should be the path to a directory not a file.&quot;</span>);</div>
+<div class="line"><a id="l05292" name="l05292"></a><span class="lineno"> 5292</span>    }</div>
+<div class="line"><a id="l05293" name="l05293"></a><span class="lineno"> 5293</span> </div>
+<div class="line"><a id="l05294" name="l05294"></a><span class="lineno"> 5294</span>    std::ostringstream outfile;</div>
+<div class="line"><a id="l05295" name="l05295"></a><span class="lineno"> 5295</span>    outfile &lt;&lt; output_path;</div>
 <div class="line"><a id="l05296" name="l05296"></a><span class="lineno"> 5296</span> </div>
-<div class="line"><a id="l05297" name="l05297"></a><span class="lineno"> 5297</span>    pixel_data.close();</div>
-<div class="line"><a id="l05298" name="l05298"></a><span class="lineno"> 5298</span> </div>
-<div class="line"><a id="l05299" name="l05299"></a><span class="lineno"> 5299</span>}</div>
-</div>
-<div class="line"><a id="l05300" name="l05300"></a><span class="lineno"> 5300</span> </div>
-<div class="foldopen" id="foldopen05301" data-start="{" data-end="}">
-<div class="line"><a id="l05301" name="l05301"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a633d84a823ad4cd99495a06afc13d7a3"> 5301</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a633d84a823ad4cd99495a06afc13d7a3">RadiationModel::writeNormDepthImage</a>(<span class="keyword">const</span> std::string &amp;cameralabel, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keywordtype">float</span> max_depth, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">int</span> frame){</div>
+<div class="line"><a id="l05297" name="l05297"></a><span class="lineno"> 5297</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l05298" name="l05298"></a><span class="lineno"> 5298</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
+<div class="line"><a id="l05299" name="l05299"></a><span class="lineno"> 5299</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l05300" name="l05300"></a><span class="lineno"> 5300</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
+<div class="line"><a id="l05301" name="l05301"></a><span class="lineno"> 5301</span>    }</div>
 <div class="line"><a id="l05302" name="l05302"></a><span class="lineno"> 5302</span> </div>
-<div class="line"><a id="l05303" name="l05303"></a><span class="lineno"> 5303</span>    <span class="keywordflow">if</span>( cameras.find(cameralabel)==cameras.end() ){</div>
-<div class="line"><a id="l05304" name="l05304"></a><span class="lineno"> 5304</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeNormDepthImage): Camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist.&quot;</span> );</div>
-<div class="line"><a id="l05305" name="l05305"></a><span class="lineno"> 5305</span>    }</div>
-<div class="line"><a id="l05306" name="l05306"></a><span class="lineno"> 5306</span> </div>
-<div class="line"><a id="l05307" name="l05307"></a><span class="lineno"> 5307</span>    std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_depth&quot;</span>;</div>
-<div class="line"><a id="l05308" name="l05308"></a><span class="lineno"> 5308</span>    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str()) ){</div>
-<div class="line"><a id="l05309" name="l05309"></a><span class="lineno"> 5309</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeNormDepthImage): Depth data for camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist. Was the radiation model run for the camera?&quot;</span> );</div>
-<div class="line"><a id="l05310" name="l05310"></a><span class="lineno"> 5310</span>    }</div>
-<div class="line"><a id="l05311" name="l05311"></a><span class="lineno"> 5311</span>    std::vector&lt;float&gt; camera_depth;</div>
-<div class="line"><a id="l05312" name="l05312"></a><span class="lineno"> 5312</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_depth);</div>
-<div class="line"><a id="l05313" name="l05313"></a><span class="lineno"> 5313</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> camera_position = cameras.at(cameralabel).position;</div>
-<div class="line"><a id="l05314" name="l05314"></a><span class="lineno"> 5314</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> camera_lookat = cameras.at(cameralabel).lookat;</div>
-<div class="line"><a id="l05315" name="l05315"></a><span class="lineno"> 5315</span> </div>
-<div class="line"><a id="l05316" name="l05316"></a><span class="lineno"> 5316</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(cameralabel).resolution;</div>
-<div class="line"><a id="l05317" name="l05317"></a><span class="lineno"> 5317</span> </div>
-<div class="line"><a id="l05318" name="l05318"></a><span class="lineno"> 5318</span>    std::string frame_str;</div>
-<div class="line"><a id="l05319" name="l05319"></a><span class="lineno"> 5319</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l05320" name="l05320"></a><span class="lineno"> 5320</span>        frame_str = std::to_string(frame);</div>
-<div class="line"><a id="l05321" name="l05321"></a><span class="lineno"> 5321</span>    }</div>
+<div class="line"><a id="l05303" name="l05303"></a><span class="lineno"> 5303</span>    <span class="comment">//Output label image in &quot;.txt&quot; format</span></div>
+<div class="line"><a id="l05304" name="l05304"></a><span class="lineno"> 5304</span>    std::ofstream pixel_data(outfile.str());</div>
+<div class="line"><a id="l05305" name="l05305"></a><span class="lineno"> 5305</span> </div>
+<div class="line"><a id="l05306" name="l05306"></a><span class="lineno"> 5306</span>    <span class="keywordflow">if</span>( !pixel_data.is_open() ){</div>
+<div class="line"><a id="l05307" name="l05307"></a><span class="lineno"> 5307</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeDepthImageData): Could not open file &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39; for writing.&quot;</span> );</div>
+<div class="line"><a id="l05308" name="l05308"></a><span class="lineno"> 5308</span>    }</div>
+<div class="line"><a id="l05309" name="l05309"></a><span class="lineno"> 5309</span> </div>
+<div class="line"><a id="l05310" name="l05310"></a><span class="lineno"> 5310</span>    <span class="keywordflow">for</span> ( <span class="keywordtype">int</span> j = 0; j&lt;camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++ ) {</div>
+<div class="line"><a id="l05311" name="l05311"></a><span class="lineno"> 5311</span>        <span class="keywordflow">for</span> ( <span class="keywordtype">int</span> i = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>-1; i &gt;= 0; i--) {</div>
+<div class="line"><a id="l05312" name="l05312"></a><span class="lineno"> 5312</span>            pixel_data &lt;&lt; camera_depth.at(j*camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i) &lt;&lt; <span class="stringliteral">&quot; &quot;</span>;</div>
+<div class="line"><a id="l05313" name="l05313"></a><span class="lineno"> 5313</span>        }</div>
+<div class="line"><a id="l05314" name="l05314"></a><span class="lineno"> 5314</span>        pixel_data &lt;&lt; <span class="stringliteral">&quot;\n&quot;</span>;</div>
+<div class="line"><a id="l05315" name="l05315"></a><span class="lineno"> 5315</span>    }</div>
+<div class="line"><a id="l05316" name="l05316"></a><span class="lineno"> 5316</span> </div>
+<div class="line"><a id="l05317" name="l05317"></a><span class="lineno"> 5317</span>    pixel_data.close();</div>
+<div class="line"><a id="l05318" name="l05318"></a><span class="lineno"> 5318</span> </div>
+<div class="line"><a id="l05319" name="l05319"></a><span class="lineno"> 5319</span>}</div>
+</div>
+<div class="line"><a id="l05320" name="l05320"></a><span class="lineno"> 5320</span> </div>
+<div class="foldopen" id="foldopen05321" data-start="{" data-end="}">
+<div class="line"><a id="l05321" name="l05321"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a633d84a823ad4cd99495a06afc13d7a3"> 5321</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a633d84a823ad4cd99495a06afc13d7a3">RadiationModel::writeNormDepthImage</a>(<span class="keyword">const</span> std::string &amp;cameralabel, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keywordtype">float</span> max_depth, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">int</span> frame){</div>
 <div class="line"><a id="l05322" name="l05322"></a><span class="lineno"> 5322</span> </div>
-<div class="line"><a id="l05323" name="l05323"></a><span class="lineno"> 5323</span>    std::ostringstream outfile;</div>
-<div class="line"><a id="l05324" name="l05324"></a><span class="lineno"> 5324</span> </div>
-<div class="line"><a id="l05325" name="l05325"></a><span class="lineno"> 5325</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="_radiation_model_8h.html#a2d93cfc62b5e610b18411a9e87547f81">validateOutputPath</a>(outfile) ){</div>
-<div class="line"><a id="l05326" name="l05326"></a><span class="lineno"> 5326</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImage): Invalid image output directory &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
-<div class="line"><a id="l05327" name="l05327"></a><span class="lineno"> 5327</span>    }</div>
-<div class="line"><a id="l05328" name="l05328"></a><span class="lineno"> 5328</span> </div>
-<div class="line"><a id="l05329" name="l05329"></a><span class="lineno"> 5329</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l05330" name="l05330"></a><span class="lineno"> 5330</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.jpeg&quot;</span>;</div>
-<div class="line"><a id="l05331" name="l05331"></a><span class="lineno"> 5331</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l05332" name="l05332"></a><span class="lineno"> 5332</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.jpeg&quot;</span>;</div>
-<div class="line"><a id="l05333" name="l05333"></a><span class="lineno"> 5333</span>    }</div>
-<div class="line"><a id="l05334" name="l05334"></a><span class="lineno"> 5334</span> </div>
-<div class="line"><a id="l05335" name="l05335"></a><span class="lineno"> 5335</span>    <span class="keywordtype">float</span> min_depth = 99999;</div>
-<div class="line"><a id="l05336" name="l05336"></a><span class="lineno"> 5336</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;camera_depth.size(); i++ ){</div>
-<div class="line"><a id="l05337" name="l05337"></a><span class="lineno"> 5337</span>        <span class="keywordflow">if</span>( camera_depth.at(i)&lt;0 || camera_depth.at(i)&gt;max_depth ){</div>
-<div class="line"><a id="l05338" name="l05338"></a><span class="lineno"> 5338</span>            camera_depth.at(i) = max_depth;</div>
-<div class="line"><a id="l05339" name="l05339"></a><span class="lineno"> 5339</span>        }</div>
-<div class="line"><a id="l05340" name="l05340"></a><span class="lineno"> 5340</span>        <span class="keywordflow">if</span>( camera_depth.at(i)&lt;min_depth ){</div>
-<div class="line"><a id="l05341" name="l05341"></a><span class="lineno"> 5341</span>            min_depth = camera_depth.at(i);</div>
-<div class="line"><a id="l05342" name="l05342"></a><span class="lineno"> 5342</span>        }</div>
-<div class="line"><a id="l05343" name="l05343"></a><span class="lineno"> 5343</span>    }</div>
-<div class="line"><a id="l05344" name="l05344"></a><span class="lineno"> 5344</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;camera_depth.size(); i++ ){</div>
-<div class="line"><a id="l05345" name="l05345"></a><span class="lineno"> 5345</span>        camera_depth.at(i) = 1.f-(camera_depth.at(i)-min_depth)/(max_depth-min_depth);</div>
-<div class="line"><a id="l05346" name="l05346"></a><span class="lineno"> 5346</span>    }</div>
-<div class="line"><a id="l05347" name="l05347"></a><span class="lineno"> 5347</span> </div>
-<div class="line"><a id="l05348" name="l05348"></a><span class="lineno"> 5348</span>    std::vector&lt;RGBcolor&gt; pixel_data(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>);</div>
+<div class="line"><a id="l05323" name="l05323"></a><span class="lineno"> 5323</span>    <span class="keywordflow">if</span>( cameras.find(cameralabel)==cameras.end() ){</div>
+<div class="line"><a id="l05324" name="l05324"></a><span class="lineno"> 5324</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeNormDepthImage): Camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist.&quot;</span> );</div>
+<div class="line"><a id="l05325" name="l05325"></a><span class="lineno"> 5325</span>    }</div>
+<div class="line"><a id="l05326" name="l05326"></a><span class="lineno"> 5326</span> </div>
+<div class="line"><a id="l05327" name="l05327"></a><span class="lineno"> 5327</span>    std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_depth&quot;</span>;</div>
+<div class="line"><a id="l05328" name="l05328"></a><span class="lineno"> 5328</span>    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str()) ){</div>
+<div class="line"><a id="l05329" name="l05329"></a><span class="lineno"> 5329</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeNormDepthImage): Depth data for camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist. Was the radiation model run for the camera?&quot;</span> );</div>
+<div class="line"><a id="l05330" name="l05330"></a><span class="lineno"> 5330</span>    }</div>
+<div class="line"><a id="l05331" name="l05331"></a><span class="lineno"> 5331</span>    std::vector&lt;float&gt; camera_depth;</div>
+<div class="line"><a id="l05332" name="l05332"></a><span class="lineno"> 5332</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_depth);</div>
+<div class="line"><a id="l05333" name="l05333"></a><span class="lineno"> 5333</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> camera_position = cameras.at(cameralabel).position;</div>
+<div class="line"><a id="l05334" name="l05334"></a><span class="lineno"> 5334</span>    <a class="code hl_struct" href="structhelios_1_1vec3.html">helios::vec3</a> camera_lookat = cameras.at(cameralabel).lookat;</div>
+<div class="line"><a id="l05335" name="l05335"></a><span class="lineno"> 5335</span> </div>
+<div class="line"><a id="l05336" name="l05336"></a><span class="lineno"> 5336</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(cameralabel).resolution;</div>
+<div class="line"><a id="l05337" name="l05337"></a><span class="lineno"> 5337</span> </div>
+<div class="line"><a id="l05338" name="l05338"></a><span class="lineno"> 5338</span>    std::string frame_str;</div>
+<div class="line"><a id="l05339" name="l05339"></a><span class="lineno"> 5339</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l05340" name="l05340"></a><span class="lineno"> 5340</span>        frame_str = std::to_string(frame);</div>
+<div class="line"><a id="l05341" name="l05341"></a><span class="lineno"> 5341</span>    }</div>
+<div class="line"><a id="l05342" name="l05342"></a><span class="lineno"> 5342</span> </div>
+<div class="line"><a id="l05343" name="l05343"></a><span class="lineno"> 5343</span>    std::string output_path = image_path;</div>
+<div class="line"><a id="l05344" name="l05344"></a><span class="lineno"> 5344</span>    <span class="keywordflow">if</span>( !image_path.empty() &amp;&amp; !<a class="code hl_function" href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9">validateOutputPath</a>(output_path) ){</div>
+<div class="line"><a id="l05345" name="l05345"></a><span class="lineno"> 5345</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeNormDepthImage): Invalid image output directory &#39;&quot;</span> + image_path + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
+<div class="line"><a id="l05346" name="l05346"></a><span class="lineno"> 5346</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902">getFileName</a>(output_path).empty() ){</div>
+<div class="line"><a id="l05347" name="l05347"></a><span class="lineno"> 5347</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR(RadiationModel::writeNormDepthImage): Image output directory contains a filename. This argument should be the path to a directory not a file.&quot;</span>);</div>
+<div class="line"><a id="l05348" name="l05348"></a><span class="lineno"> 5348</span>    }</div>
 <div class="line"><a id="l05349" name="l05349"></a><span class="lineno"> 5349</span> </div>
-<div class="line"><a id="l05350" name="l05350"></a><span class="lineno"> 5350</span>    <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> pixel_color;</div>
-<div class="line"><a id="l05351" name="l05351"></a><span class="lineno"> 5351</span>    <span class="keywordflow">for</span> (uint j = 0; j &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++) {</div>
-<div class="line"><a id="l05352" name="l05352"></a><span class="lineno"> 5352</span>        <span class="keywordflow">for</span> (uint i=0; i &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>; i++) {</div>
-<div class="line"><a id="l05353" name="l05353"></a><span class="lineno"> 5353</span> </div>
-<div class="line"><a id="l05354" name="l05354"></a><span class="lineno"> 5354</span>            <span class="keywordtype">float</span> c = camera_depth.at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i);</div>
-<div class="line"><a id="l05355" name="l05355"></a><span class="lineno"> 5355</span>            pixel_color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(c,c,c);</div>
-<div class="line"><a id="l05356" name="l05356"></a><span class="lineno"> 5356</span> </div>
-<div class="line"><a id="l05357" name="l05357"></a><span class="lineno"> 5357</span>            uint ii = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> - i -1;</div>
-<div class="line"><a id="l05358" name="l05358"></a><span class="lineno"> 5358</span>            uint jj = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> - j - 1;</div>
-<div class="line"><a id="l05359" name="l05359"></a><span class="lineno"> 5359</span>            pixel_data.at(jj * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + ii) = pixel_color;</div>
-<div class="line"><a id="l05360" name="l05360"></a><span class="lineno"> 5360</span>        }</div>
-<div class="line"><a id="l05361" name="l05361"></a><span class="lineno"> 5361</span>    }</div>
-<div class="line"><a id="l05362" name="l05362"></a><span class="lineno"> 5362</span> </div>
-<div class="line"><a id="l05363" name="l05363"></a><span class="lineno"> 5363</span>    <a class="code hl_function" href="global_8h.html#a95600894b45bcc627d66c3dd8c202cd8">writeJPEG</a>( outfile.str(), camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>, camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>, pixel_data );</div>
-<div class="line"><a id="l05364" name="l05364"></a><span class="lineno"> 5364</span> </div>
-<div class="line"><a id="l05365" name="l05365"></a><span class="lineno"> 5365</span>}</div>
-</div>
-<div class="line"><a id="l05366" name="l05366"></a><span class="lineno"> 5366</span> </div>
-<div class="line"><a id="l05367" name="l05367"></a><span class="lineno"> 5367</span> </div>
-<div class="foldopen" id="foldopen05368" data-start="{" data-end="}">
-<div class="line"><a id="l05368" name="l05368"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a59db63fb5cf7d82ab641f636378923fd"> 5368</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a59db63fb5cf7d82ab641f636378923fd">RadiationModel::writeImageBoundingBoxes</a>(<span class="keyword">const</span> std::string &amp;cameralabel, <span class="keyword">const</span> std::string &amp;primitive_data_label, uint object_class_ID, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">bool</span> append_label_file, <span class="keywordtype">int</span> frame){</div>
-<div class="line"><a id="l05369" name="l05369"></a><span class="lineno"> 5369</span> </div>
-<div class="line"><a id="l05370" name="l05370"></a><span class="lineno"> 5370</span>    <span class="keywordflow">if</span>( cameras.find(cameralabel)==cameras.end() ){</div>
-<div class="line"><a id="l05371" name="l05371"></a><span class="lineno"> 5371</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeImageBoundingBoxes): Camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist.&quot;</span> );</div>
-<div class="line"><a id="l05372" name="l05372"></a><span class="lineno"> 5372</span>    }</div>
+<div class="line"><a id="l05350" name="l05350"></a><span class="lineno"> 5350</span>    std::ostringstream outfile;</div>
+<div class="line"><a id="l05351" name="l05351"></a><span class="lineno"> 5351</span>    outfile &lt;&lt; output_path;</div>
+<div class="line"><a id="l05352" name="l05352"></a><span class="lineno"> 5352</span> </div>
+<div class="line"><a id="l05353" name="l05353"></a><span class="lineno"> 5353</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l05354" name="l05354"></a><span class="lineno"> 5354</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.jpeg&quot;</span>;</div>
+<div class="line"><a id="l05355" name="l05355"></a><span class="lineno"> 5355</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l05356" name="l05356"></a><span class="lineno"> 5356</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.jpeg&quot;</span>;</div>
+<div class="line"><a id="l05357" name="l05357"></a><span class="lineno"> 5357</span>    }</div>
+<div class="line"><a id="l05358" name="l05358"></a><span class="lineno"> 5358</span> </div>
+<div class="line"><a id="l05359" name="l05359"></a><span class="lineno"> 5359</span>    <span class="keywordtype">float</span> min_depth = 99999;</div>
+<div class="line"><a id="l05360" name="l05360"></a><span class="lineno"> 5360</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;camera_depth.size(); i++ ){</div>
+<div class="line"><a id="l05361" name="l05361"></a><span class="lineno"> 5361</span>        <span class="keywordflow">if</span>( camera_depth.at(i)&lt;0 || camera_depth.at(i)&gt;max_depth ){</div>
+<div class="line"><a id="l05362" name="l05362"></a><span class="lineno"> 5362</span>            camera_depth.at(i) = max_depth;</div>
+<div class="line"><a id="l05363" name="l05363"></a><span class="lineno"> 5363</span>        }</div>
+<div class="line"><a id="l05364" name="l05364"></a><span class="lineno"> 5364</span>        <span class="keywordflow">if</span>( camera_depth.at(i)&lt;min_depth ){</div>
+<div class="line"><a id="l05365" name="l05365"></a><span class="lineno"> 5365</span>            min_depth = camera_depth.at(i);</div>
+<div class="line"><a id="l05366" name="l05366"></a><span class="lineno"> 5366</span>        }</div>
+<div class="line"><a id="l05367" name="l05367"></a><span class="lineno"> 5367</span>    }</div>
+<div class="line"><a id="l05368" name="l05368"></a><span class="lineno"> 5368</span>    <span class="keywordflow">for</span>( <span class="keywordtype">int</span> i=0; i&lt;camera_depth.size(); i++ ){</div>
+<div class="line"><a id="l05369" name="l05369"></a><span class="lineno"> 5369</span>        camera_depth.at(i) = 1.f-(camera_depth.at(i)-min_depth)/(max_depth-min_depth);</div>
+<div class="line"><a id="l05370" name="l05370"></a><span class="lineno"> 5370</span>    }</div>
+<div class="line"><a id="l05371" name="l05371"></a><span class="lineno"> 5371</span> </div>
+<div class="line"><a id="l05372" name="l05372"></a><span class="lineno"> 5372</span>    std::vector&lt;RGBcolor&gt; pixel_data(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>*camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>);</div>
 <div class="line"><a id="l05373" name="l05373"></a><span class="lineno"> 5373</span> </div>
-<div class="line"><a id="l05374" name="l05374"></a><span class="lineno"> 5374</span>    <span class="comment">//Get image UUID labels</span></div>
-<div class="line"><a id="l05375" name="l05375"></a><span class="lineno"> 5375</span>    std::vector&lt;uint&gt; camera_UUIDs;</div>
-<div class="line"><a id="l05376" name="l05376"></a><span class="lineno"> 5376</span>    std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_UUID&quot;</span>;</div>
-<div class="line"><a id="l05377" name="l05377"></a><span class="lineno"> 5377</span>    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str() ) ){</div>
-<div class="line"><a id="l05378" name="l05378"></a><span class="lineno"> 5378</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeImageBoundingBoxes): Pixel labels for camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; do not exist. Was the radiation model run to generate labels?&quot;</span> );</div>
-<div class="line"><a id="l05379" name="l05379"></a><span class="lineno"> 5379</span>    }</div>
-<div class="line"><a id="l05380" name="l05380"></a><span class="lineno"> 5380</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_UUIDs);</div>
-<div class="line"><a id="l05381" name="l05381"></a><span class="lineno"> 5381</span>    std::vector&lt;uint&gt; pixel_UUIDs = camera_UUIDs;</div>
-<div class="line"><a id="l05382" name="l05382"></a><span class="lineno"> 5382</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(cameralabel).resolution;</div>
-<div class="line"><a id="l05383" name="l05383"></a><span class="lineno"> 5383</span> </div>
-<div class="line"><a id="l05384" name="l05384"></a><span class="lineno"> 5384</span>    std::string frame_str;</div>
-<div class="line"><a id="l05385" name="l05385"></a><span class="lineno"> 5385</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l05386" name="l05386"></a><span class="lineno"> 5386</span>        frame_str = std::to_string(frame);</div>
-<div class="line"><a id="l05387" name="l05387"></a><span class="lineno"> 5387</span>    }</div>
+<div class="line"><a id="l05374" name="l05374"></a><span class="lineno"> 5374</span>    <a class="code hl_struct" href="structhelios_1_1_r_g_bcolor.html">RGBcolor</a> pixel_color;</div>
+<div class="line"><a id="l05375" name="l05375"></a><span class="lineno"> 5375</span>    <span class="keywordflow">for</span> (uint j = 0; j &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++) {</div>
+<div class="line"><a id="l05376" name="l05376"></a><span class="lineno"> 5376</span>        <span class="keywordflow">for</span> (uint i=0; i &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>; i++) {</div>
+<div class="line"><a id="l05377" name="l05377"></a><span class="lineno"> 5377</span> </div>
+<div class="line"><a id="l05378" name="l05378"></a><span class="lineno"> 5378</span>            <span class="keywordtype">float</span> c = camera_depth.at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i);</div>
+<div class="line"><a id="l05379" name="l05379"></a><span class="lineno"> 5379</span>            pixel_color = <a class="code hl_function" href="group__vectors.html#gae5b981fa224fe6f30b850467ec655c0b">make_RGBcolor</a>(c,c,c);</div>
+<div class="line"><a id="l05380" name="l05380"></a><span class="lineno"> 5380</span> </div>
+<div class="line"><a id="l05381" name="l05381"></a><span class="lineno"> 5381</span>            uint ii = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> - i -1;</div>
+<div class="line"><a id="l05382" name="l05382"></a><span class="lineno"> 5382</span>            uint jj = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> - j - 1;</div>
+<div class="line"><a id="l05383" name="l05383"></a><span class="lineno"> 5383</span>            pixel_data.at(jj * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + ii) = pixel_color;</div>
+<div class="line"><a id="l05384" name="l05384"></a><span class="lineno"> 5384</span>        }</div>
+<div class="line"><a id="l05385" name="l05385"></a><span class="lineno"> 5385</span>    }</div>
+<div class="line"><a id="l05386" name="l05386"></a><span class="lineno"> 5386</span> </div>
+<div class="line"><a id="l05387" name="l05387"></a><span class="lineno"> 5387</span>    <a class="code hl_function" href="global_8h.html#a95600894b45bcc627d66c3dd8c202cd8">writeJPEG</a>( outfile.str(), camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>, camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>, pixel_data );</div>
 <div class="line"><a id="l05388" name="l05388"></a><span class="lineno"> 5388</span> </div>
-<div class="line"><a id="l05389" name="l05389"></a><span class="lineno"> 5389</span>    std::ostringstream outfile;</div>
+<div class="line"><a id="l05389" name="l05389"></a><span class="lineno"> 5389</span>}</div>
+</div>
 <div class="line"><a id="l05390" name="l05390"></a><span class="lineno"> 5390</span> </div>
-<div class="line"><a id="l05391" name="l05391"></a><span class="lineno"> 5391</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="_radiation_model_8h.html#a2d93cfc62b5e610b18411a9e87547f81">validateOutputPath</a>(outfile) ){</div>
-<div class="line"><a id="l05392" name="l05392"></a><span class="lineno"> 5392</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImage): Invalid image output directory &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
-<div class="line"><a id="l05393" name="l05393"></a><span class="lineno"> 5393</span>    }</div>
-<div class="line"><a id="l05394" name="l05394"></a><span class="lineno"> 5394</span> </div>
-<div class="line"><a id="l05395" name="l05395"></a><span class="lineno"> 5395</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l05396" name="l05396"></a><span class="lineno"> 5396</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
-<div class="line"><a id="l05397" name="l05397"></a><span class="lineno"> 5397</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l05398" name="l05398"></a><span class="lineno"> 5398</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
-<div class="line"><a id="l05399" name="l05399"></a><span class="lineno"> 5399</span>    }</div>
-<div class="line"><a id="l05400" name="l05400"></a><span class="lineno"> 5400</span> </div>
-<div class="line"><a id="l05401" name="l05401"></a><span class="lineno"> 5401</span>    <span class="comment">//Output label image in &quot;.txt&quot; format</span></div>
-<div class="line"><a id="l05402" name="l05402"></a><span class="lineno"> 5402</span>    std::ofstream label_file;</div>
-<div class="line"><a id="l05403" name="l05403"></a><span class="lineno"> 5403</span>    <span class="keywordflow">if</span>( append_label_file ){</div>
-<div class="line"><a id="l05404" name="l05404"></a><span class="lineno"> 5404</span>        label_file.open(outfile.str(), std::ios::out | std::ios::app);</div>
-<div class="line"><a id="l05405" name="l05405"></a><span class="lineno"> 5405</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l05406" name="l05406"></a><span class="lineno"> 5406</span>        label_file.open(outfile.str());</div>
-<div class="line"><a id="l05407" name="l05407"></a><span class="lineno"> 5407</span>    }</div>
-<div class="line"><a id="l05408" name="l05408"></a><span class="lineno"> 5408</span> </div>
-<div class="line"><a id="l05409" name="l05409"></a><span class="lineno"> 5409</span>    <span class="keywordflow">if</span>( !label_file.is_open() ){</div>
-<div class="line"><a id="l05410" name="l05410"></a><span class="lineno"> 5410</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeImageBoundingBoxes): Could not open file &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39;.&quot;</span> );</div>
+<div class="line"><a id="l05391" name="l05391"></a><span class="lineno"> 5391</span> </div>
+<div class="foldopen" id="foldopen05392" data-start="{" data-end="}">
+<div class="line"><a id="l05392" name="l05392"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a59db63fb5cf7d82ab641f636378923fd"> 5392</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a59db63fb5cf7d82ab641f636378923fd">RadiationModel::writeImageBoundingBoxes</a>(<span class="keyword">const</span> std::string &amp;cameralabel, <span class="keyword">const</span> std::string &amp;primitive_data_label, uint object_class_ID, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">bool</span> append_label_file, <span class="keywordtype">int</span> frame){</div>
+<div class="line"><a id="l05393" name="l05393"></a><span class="lineno"> 5393</span> </div>
+<div class="line"><a id="l05394" name="l05394"></a><span class="lineno"> 5394</span>    <span class="keywordflow">if</span>( cameras.find(cameralabel)==cameras.end() ){</div>
+<div class="line"><a id="l05395" name="l05395"></a><span class="lineno"> 5395</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeImageBoundingBoxes): Camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist.&quot;</span> );</div>
+<div class="line"><a id="l05396" name="l05396"></a><span class="lineno"> 5396</span>    }</div>
+<div class="line"><a id="l05397" name="l05397"></a><span class="lineno"> 5397</span> </div>
+<div class="line"><a id="l05398" name="l05398"></a><span class="lineno"> 5398</span>    <span class="comment">//Get image UUID labels</span></div>
+<div class="line"><a id="l05399" name="l05399"></a><span class="lineno"> 5399</span>    std::vector&lt;uint&gt; camera_UUIDs;</div>
+<div class="line"><a id="l05400" name="l05400"></a><span class="lineno"> 5400</span>    std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_UUID&quot;</span>;</div>
+<div class="line"><a id="l05401" name="l05401"></a><span class="lineno"> 5401</span>    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str() ) ){</div>
+<div class="line"><a id="l05402" name="l05402"></a><span class="lineno"> 5402</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeImageBoundingBoxes): Pixel labels for camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; do not exist. Was the radiation model run to generate labels?&quot;</span> );</div>
+<div class="line"><a id="l05403" name="l05403"></a><span class="lineno"> 5403</span>    }</div>
+<div class="line"><a id="l05404" name="l05404"></a><span class="lineno"> 5404</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_UUIDs);</div>
+<div class="line"><a id="l05405" name="l05405"></a><span class="lineno"> 5405</span>    std::vector&lt;uint&gt; pixel_UUIDs = camera_UUIDs;</div>
+<div class="line"><a id="l05406" name="l05406"></a><span class="lineno"> 5406</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(cameralabel).resolution;</div>
+<div class="line"><a id="l05407" name="l05407"></a><span class="lineno"> 5407</span> </div>
+<div class="line"><a id="l05408" name="l05408"></a><span class="lineno"> 5408</span>    std::string frame_str;</div>
+<div class="line"><a id="l05409" name="l05409"></a><span class="lineno"> 5409</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l05410" name="l05410"></a><span class="lineno"> 5410</span>        frame_str = std::to_string(frame);</div>
 <div class="line"><a id="l05411" name="l05411"></a><span class="lineno"> 5411</span>    }</div>
 <div class="line"><a id="l05412" name="l05412"></a><span class="lineno"> 5412</span> </div>
-<div class="line"><a id="l05413" name="l05413"></a><span class="lineno"> 5413</span>    std::map&lt;int, vec4&gt; pdata_bounds;</div>
-<div class="line"><a id="l05414" name="l05414"></a><span class="lineno"> 5414</span> </div>
-<div class="line"><a id="l05415" name="l05415"></a><span class="lineno"> 5415</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> j = 0; j &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++) {</div>
-<div class="line"><a id="l05416" name="l05416"></a><span class="lineno"> 5416</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>; i++) {</div>
-<div class="line"><a id="l05417" name="l05417"></a><span class="lineno"> 5417</span>            uint ii = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> - i -1;</div>
-<div class="line"><a id="l05418" name="l05418"></a><span class="lineno"> 5418</span>            uint UUID =pixel_UUIDs.at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + ii)-1;</div>
-<div class="line"><a id="l05419" name="l05419"></a><span class="lineno"> 5419</span>            <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(UUID) &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID,primitive_data_label.c_str())){</div>
-<div class="line"><a id="l05420" name="l05420"></a><span class="lineno"> 5420</span> </div>
-<div class="line"><a id="l05421" name="l05421"></a><span class="lineno"> 5421</span>                uint labeldata;</div>
+<div class="line"><a id="l05413" name="l05413"></a><span class="lineno"> 5413</span>    std::string output_path = image_path;</div>
+<div class="line"><a id="l05414" name="l05414"></a><span class="lineno"> 5414</span>    <span class="keywordflow">if</span>( !image_path.empty() &amp;&amp; !<a class="code hl_function" href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9">validateOutputPath</a>(output_path) ){</div>
+<div class="line"><a id="l05415" name="l05415"></a><span class="lineno"> 5415</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeImageBoundingBoxes): Invalid image output directory &#39;&quot;</span> + image_path + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
+<div class="line"><a id="l05416" name="l05416"></a><span class="lineno"> 5416</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902">getFileName</a>(output_path).empty() ){</div>
+<div class="line"><a id="l05417" name="l05417"></a><span class="lineno"> 5417</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR(RadiationModel::writeImageBoundingBoxes): Image output directory contains a filename. This argument should be the path to a directory not a file.&quot;</span>);</div>
+<div class="line"><a id="l05418" name="l05418"></a><span class="lineno"> 5418</span>    }</div>
+<div class="line"><a id="l05419" name="l05419"></a><span class="lineno"> 5419</span> </div>
+<div class="line"><a id="l05420" name="l05420"></a><span class="lineno"> 5420</span>    std::ostringstream outfile;</div>
+<div class="line"><a id="l05421" name="l05421"></a><span class="lineno"> 5421</span>    outfile &lt;&lt; output_path;</div>
 <div class="line"><a id="l05422" name="l05422"></a><span class="lineno"> 5422</span> </div>
-<div class="line"><a id="l05423" name="l05423"></a><span class="lineno"> 5423</span>                <a class="code hl_enumeration" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">HeliosDataType</a> datatype = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID,primitive_data_label.c_str());</div>
-<div class="line"><a id="l05424" name="l05424"></a><span class="lineno"> 5424</span>                <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a>){</div>
-<div class="line"><a id="l05425" name="l05425"></a><span class="lineno"> 5425</span>                    uint labeldata_ui;</div>
-<div class="line"><a id="l05426" name="l05426"></a><span class="lineno"> 5426</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID,primitive_data_label.c_str(),labeldata_ui);</div>
-<div class="line"><a id="l05427" name="l05427"></a><span class="lineno"> 5427</span>                    labeldata = labeldata_ui;</div>
-<div class="line"><a id="l05428" name="l05428"></a><span class="lineno"> 5428</span>                }</div>
-<div class="line"><a id="l05429" name="l05429"></a><span class="lineno"> 5429</span>                <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a>){</div>
-<div class="line"><a id="l05430" name="l05430"></a><span class="lineno"> 5430</span>                    <span class="keywordtype">int</span> labeldata_i;</div>
-<div class="line"><a id="l05431" name="l05431"></a><span class="lineno"> 5431</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID,primitive_data_label.c_str(),labeldata_i);</div>
-<div class="line"><a id="l05432" name="l05432"></a><span class="lineno"> 5432</span>                    labeldata = (uint)labeldata_i;</div>
-<div class="line"><a id="l05433" name="l05433"></a><span class="lineno"> 5433</span>                }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l05434" name="l05434"></a><span class="lineno"> 5434</span>                    <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l05435" name="l05435"></a><span class="lineno"> 5435</span>                }</div>
+<div class="line"><a id="l05423" name="l05423"></a><span class="lineno"> 5423</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l05424" name="l05424"></a><span class="lineno"> 5424</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
+<div class="line"><a id="l05425" name="l05425"></a><span class="lineno"> 5425</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l05426" name="l05426"></a><span class="lineno"> 5426</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
+<div class="line"><a id="l05427" name="l05427"></a><span class="lineno"> 5427</span>    }</div>
+<div class="line"><a id="l05428" name="l05428"></a><span class="lineno"> 5428</span> </div>
+<div class="line"><a id="l05429" name="l05429"></a><span class="lineno"> 5429</span>    <span class="comment">//Output label image in &quot;.txt&quot; format</span></div>
+<div class="line"><a id="l05430" name="l05430"></a><span class="lineno"> 5430</span>    std::ofstream label_file;</div>
+<div class="line"><a id="l05431" name="l05431"></a><span class="lineno"> 5431</span>    <span class="keywordflow">if</span>( append_label_file ){</div>
+<div class="line"><a id="l05432" name="l05432"></a><span class="lineno"> 5432</span>        label_file.open(outfile.str(), std::ios::out | std::ios::app);</div>
+<div class="line"><a id="l05433" name="l05433"></a><span class="lineno"> 5433</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l05434" name="l05434"></a><span class="lineno"> 5434</span>        label_file.open(outfile.str());</div>
+<div class="line"><a id="l05435" name="l05435"></a><span class="lineno"> 5435</span>    }</div>
 <div class="line"><a id="l05436" name="l05436"></a><span class="lineno"> 5436</span> </div>
-<div class="line"><a id="l05437" name="l05437"></a><span class="lineno"> 5437</span>                <span class="keywordflow">if</span>( pdata_bounds.find(labeldata) == pdata_bounds.end() ) {</div>
-<div class="line"><a id="l05438" name="l05438"></a><span class="lineno"> 5438</span>                    pdata_bounds[labeldata] = <a class="code hl_function" href="helios__vector__types_8h.html#ab232dd96cf103ad9ac02b6f5c264ced0">make_vec4</a>(1e6, -1, 1e6, -1);</div>
-<div class="line"><a id="l05439" name="l05439"></a><span class="lineno"> 5439</span>                }</div>
+<div class="line"><a id="l05437" name="l05437"></a><span class="lineno"> 5437</span>    <span class="keywordflow">if</span>( !label_file.is_open() ){</div>
+<div class="line"><a id="l05438" name="l05438"></a><span class="lineno"> 5438</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeImageBoundingBoxes): Could not open file &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39;.&quot;</span> );</div>
+<div class="line"><a id="l05439" name="l05439"></a><span class="lineno"> 5439</span>    }</div>
 <div class="line"><a id="l05440" name="l05440"></a><span class="lineno"> 5440</span> </div>
-<div class="line"><a id="l05441" name="l05441"></a><span class="lineno"> 5441</span>                <span class="keywordflow">if</span>( i&lt;pdata_bounds[labeldata].x ){</div>
-<div class="line"><a id="l05442" name="l05442"></a><span class="lineno"> 5442</span>                    pdata_bounds[labeldata].x = i;</div>
-<div class="line"><a id="l05443" name="l05443"></a><span class="lineno"> 5443</span>                }</div>
-<div class="line"><a id="l05444" name="l05444"></a><span class="lineno"> 5444</span>                <span class="keywordflow">if</span>( i&gt;pdata_bounds[labeldata].y ){</div>
-<div class="line"><a id="l05445" name="l05445"></a><span class="lineno"> 5445</span>                    pdata_bounds[labeldata].y = i;</div>
-<div class="line"><a id="l05446" name="l05446"></a><span class="lineno"> 5446</span>                }</div>
-<div class="line"><a id="l05447" name="l05447"></a><span class="lineno"> 5447</span>                <span class="keywordflow">if</span>( j&lt;pdata_bounds[labeldata].z ){</div>
-<div class="line"><a id="l05448" name="l05448"></a><span class="lineno"> 5448</span>                    pdata_bounds[labeldata].z = j;</div>
-<div class="line"><a id="l05449" name="l05449"></a><span class="lineno"> 5449</span>                }</div>
-<div class="line"><a id="l05450" name="l05450"></a><span class="lineno"> 5450</span>                <span class="keywordflow">if</span>( j&gt;pdata_bounds[labeldata].w ){</div>
-<div class="line"><a id="l05451" name="l05451"></a><span class="lineno"> 5451</span>                    pdata_bounds[labeldata].w = j;</div>
-<div class="line"><a id="l05452" name="l05452"></a><span class="lineno"> 5452</span>                }</div>
-<div class="line"><a id="l05453" name="l05453"></a><span class="lineno"> 5453</span> </div>
-<div class="line"><a id="l05454" name="l05454"></a><span class="lineno"> 5454</span>            }</div>
-<div class="line"><a id="l05455" name="l05455"></a><span class="lineno"> 5455</span>        }</div>
-<div class="line"><a id="l05456" name="l05456"></a><span class="lineno"> 5456</span>    }</div>
-<div class="line"><a id="l05457" name="l05457"></a><span class="lineno"> 5457</span> </div>
-<div class="line"><a id="l05458" name="l05458"></a><span class="lineno"> 5458</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> box : pdata_bounds ){</div>
-<div class="line"><a id="l05459" name="l05459"></a><span class="lineno"> 5459</span>        <a class="code hl_struct" href="structhelios_1_1vec4.html">vec4</a> bbox = box.second;</div>
-<div class="line"><a id="l05460" name="l05460"></a><span class="lineno"> 5460</span>        <span class="keywordflow">if</span>( bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a>==bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a3dd547e787593c51f07a6ea131bcab8d">y</a> || bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a>==bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a5d4e8add341c4076176aac3574fe0937">w</a> ){ <span class="comment">//filter boxes of zeros size</span></div>
-<div class="line"><a id="l05461" name="l05461"></a><span class="lineno"> 5461</span>            <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l05462" name="l05462"></a><span class="lineno"> 5462</span>        }</div>
-<div class="line"><a id="l05463" name="l05463"></a><span class="lineno"> 5463</span>        label_file &lt;&lt; object_class_ID &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a> + 0.5 * (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a3dd547e787593c51f07a6ea131bcab8d">y</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a>)) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>) &lt;&lt; <span class="stringliteral">&quot; &quot;</span></div>
-<div class="line"><a id="l05464" name="l05464"></a><span class="lineno"> 5464</span>                   &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a> + 0.5 * (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a5d4e8add341c4076176aac3574fe0937">w</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a>)) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>) &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::setprecision(6)</div>
-<div class="line"><a id="l05465" name="l05465"></a><span class="lineno"> 5465</span>                   &lt;&lt; std::fixed &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a3dd547e787593c51f07a6ea131bcab8d">y</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a>) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>) &lt;&lt; <span class="stringliteral">&quot; &quot;</span></div>
-<div class="line"><a id="l05466" name="l05466"></a><span class="lineno"> 5466</span>                   &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a5d4e8add341c4076176aac3574fe0937">w</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a>) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>) &lt;&lt; std::endl;</div>
-<div class="line"><a id="l05467" name="l05467"></a><span class="lineno"> 5467</span>    }</div>
+<div class="line"><a id="l05441" name="l05441"></a><span class="lineno"> 5441</span>    std::map&lt;int, vec4&gt; pdata_bounds;</div>
+<div class="line"><a id="l05442" name="l05442"></a><span class="lineno"> 5442</span> </div>
+<div class="line"><a id="l05443" name="l05443"></a><span class="lineno"> 5443</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> j = 0; j &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++) {</div>
+<div class="line"><a id="l05444" name="l05444"></a><span class="lineno"> 5444</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>; i++) {</div>
+<div class="line"><a id="l05445" name="l05445"></a><span class="lineno"> 5445</span>            uint ii = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> - i -1;</div>
+<div class="line"><a id="l05446" name="l05446"></a><span class="lineno"> 5446</span>            uint UUID =pixel_UUIDs.at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + ii)-1;</div>
+<div class="line"><a id="l05447" name="l05447"></a><span class="lineno"> 5447</span>            <span class="keywordflow">if</span> (context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(UUID) &amp;&amp; context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a780d83edd66f25cd38b5059359b48a7b">doesPrimitiveDataExist</a>(UUID,primitive_data_label.c_str())){</div>
+<div class="line"><a id="l05448" name="l05448"></a><span class="lineno"> 5448</span> </div>
+<div class="line"><a id="l05449" name="l05449"></a><span class="lineno"> 5449</span>                uint labeldata;</div>
+<div class="line"><a id="l05450" name="l05450"></a><span class="lineno"> 5450</span> </div>
+<div class="line"><a id="l05451" name="l05451"></a><span class="lineno"> 5451</span>                <a class="code hl_enumeration" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">HeliosDataType</a> datatype = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9c894ecd12e0d893c53ffcfa9e90c0b6">getPrimitiveDataType</a>(UUID,primitive_data_label.c_str());</div>
+<div class="line"><a id="l05452" name="l05452"></a><span class="lineno"> 5452</span>                <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a>){</div>
+<div class="line"><a id="l05453" name="l05453"></a><span class="lineno"> 5453</span>                    uint labeldata_ui;</div>
+<div class="line"><a id="l05454" name="l05454"></a><span class="lineno"> 5454</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID,primitive_data_label.c_str(),labeldata_ui);</div>
+<div class="line"><a id="l05455" name="l05455"></a><span class="lineno"> 5455</span>                    labeldata = labeldata_ui;</div>
+<div class="line"><a id="l05456" name="l05456"></a><span class="lineno"> 5456</span>                }</div>
+<div class="line"><a id="l05457" name="l05457"></a><span class="lineno"> 5457</span>                <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a>){</div>
+<div class="line"><a id="l05458" name="l05458"></a><span class="lineno"> 5458</span>                    <span class="keywordtype">int</span> labeldata_i;</div>
+<div class="line"><a id="l05459" name="l05459"></a><span class="lineno"> 5459</span>                    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2144eea981e4030c973287ce2c38315e">getPrimitiveData</a>(UUID,primitive_data_label.c_str(),labeldata_i);</div>
+<div class="line"><a id="l05460" name="l05460"></a><span class="lineno"> 5460</span>                    labeldata = (uint)labeldata_i;</div>
+<div class="line"><a id="l05461" name="l05461"></a><span class="lineno"> 5461</span>                }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l05462" name="l05462"></a><span class="lineno"> 5462</span>                    <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l05463" name="l05463"></a><span class="lineno"> 5463</span>                }</div>
+<div class="line"><a id="l05464" name="l05464"></a><span class="lineno"> 5464</span> </div>
+<div class="line"><a id="l05465" name="l05465"></a><span class="lineno"> 5465</span>                <span class="keywordflow">if</span>( pdata_bounds.find(labeldata) == pdata_bounds.end() ) {</div>
+<div class="line"><a id="l05466" name="l05466"></a><span class="lineno"> 5466</span>                    pdata_bounds[labeldata] = <a class="code hl_function" href="helios__vector__types_8h.html#ab232dd96cf103ad9ac02b6f5c264ced0">make_vec4</a>(1e6, -1, 1e6, -1);</div>
+<div class="line"><a id="l05467" name="l05467"></a><span class="lineno"> 5467</span>                }</div>
 <div class="line"><a id="l05468" name="l05468"></a><span class="lineno"> 5468</span> </div>
-<div class="line"><a id="l05469" name="l05469"></a><span class="lineno"> 5469</span>    label_file.close();</div>
-<div class="line"><a id="l05470" name="l05470"></a><span class="lineno"> 5470</span> </div>
-<div class="line"><a id="l05471" name="l05471"></a><span class="lineno"> 5471</span>}</div>
-</div>
-<div class="line"><a id="l05472" name="l05472"></a><span class="lineno"> 5472</span> </div>
-<div class="foldopen" id="foldopen05473" data-start="{" data-end="}">
-<div class="line"><a id="l05473" name="l05473"></a><span class="lineno"><a class="line" href="class_radiation_model.html#ac78340f2c7f5cf9089e26d15ea5dc41b"> 5473</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#ac78340f2c7f5cf9089e26d15ea5dc41b">RadiationModel::writeImageBoundingBoxes_ObjectData</a>(<span class="keyword">const</span> std::string &amp;cameralabel, <span class="keyword">const</span> std::string &amp;object_data_label, uint object_class_ID, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">bool</span> append_label_file, <span class="keywordtype">int</span> frame){</div>
-<div class="line"><a id="l05474" name="l05474"></a><span class="lineno"> 5474</span> </div>
-<div class="line"><a id="l05475" name="l05475"></a><span class="lineno"> 5475</span>    <span class="keywordflow">if</span>( cameras.find(cameralabel)==cameras.end() ){</div>
-<div class="line"><a id="l05476" name="l05476"></a><span class="lineno"> 5476</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeImageBoundingBoxes_ObjectData): Camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist.&quot;</span> );</div>
-<div class="line"><a id="l05477" name="l05477"></a><span class="lineno"> 5477</span>    }</div>
-<div class="line"><a id="l05478" name="l05478"></a><span class="lineno"> 5478</span> </div>
-<div class="line"><a id="l05479" name="l05479"></a><span class="lineno"> 5479</span>    <span class="comment">//Get image UUID labels</span></div>
-<div class="line"><a id="l05480" name="l05480"></a><span class="lineno"> 5480</span>    std::vector&lt;uint&gt; camera_UUIDs;</div>
-<div class="line"><a id="l05481" name="l05481"></a><span class="lineno"> 5481</span>    std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_UUID&quot;</span>;</div>
-<div class="line"><a id="l05482" name="l05482"></a><span class="lineno"> 5482</span>    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str() ) ){</div>
-<div class="line"><a id="l05483" name="l05483"></a><span class="lineno"> 5483</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeImageBoundingBoxes_ObjectData): Pixel labels for camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; do not exist. Was the radiation model run to generate labels?&quot;</span> );</div>
+<div class="line"><a id="l05469" name="l05469"></a><span class="lineno"> 5469</span>                <span class="keywordflow">if</span>( i&lt;pdata_bounds[labeldata].x ){</div>
+<div class="line"><a id="l05470" name="l05470"></a><span class="lineno"> 5470</span>                    pdata_bounds[labeldata].x = i;</div>
+<div class="line"><a id="l05471" name="l05471"></a><span class="lineno"> 5471</span>                }</div>
+<div class="line"><a id="l05472" name="l05472"></a><span class="lineno"> 5472</span>                <span class="keywordflow">if</span>( i&gt;pdata_bounds[labeldata].y ){</div>
+<div class="line"><a id="l05473" name="l05473"></a><span class="lineno"> 5473</span>                    pdata_bounds[labeldata].y = i;</div>
+<div class="line"><a id="l05474" name="l05474"></a><span class="lineno"> 5474</span>                }</div>
+<div class="line"><a id="l05475" name="l05475"></a><span class="lineno"> 5475</span>                <span class="keywordflow">if</span>( j&lt;pdata_bounds[labeldata].z ){</div>
+<div class="line"><a id="l05476" name="l05476"></a><span class="lineno"> 5476</span>                    pdata_bounds[labeldata].z = j;</div>
+<div class="line"><a id="l05477" name="l05477"></a><span class="lineno"> 5477</span>                }</div>
+<div class="line"><a id="l05478" name="l05478"></a><span class="lineno"> 5478</span>                <span class="keywordflow">if</span>( j&gt;pdata_bounds[labeldata].w ){</div>
+<div class="line"><a id="l05479" name="l05479"></a><span class="lineno"> 5479</span>                    pdata_bounds[labeldata].w = j;</div>
+<div class="line"><a id="l05480" name="l05480"></a><span class="lineno"> 5480</span>                }</div>
+<div class="line"><a id="l05481" name="l05481"></a><span class="lineno"> 5481</span> </div>
+<div class="line"><a id="l05482" name="l05482"></a><span class="lineno"> 5482</span>            }</div>
+<div class="line"><a id="l05483" name="l05483"></a><span class="lineno"> 5483</span>        }</div>
 <div class="line"><a id="l05484" name="l05484"></a><span class="lineno"> 5484</span>    }</div>
-<div class="line"><a id="l05485" name="l05485"></a><span class="lineno"> 5485</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_UUIDs);</div>
-<div class="line"><a id="l05486" name="l05486"></a><span class="lineno"> 5486</span>    std::vector&lt;uint&gt; pixel_UUIDs = camera_UUIDs;</div>
-<div class="line"><a id="l05487" name="l05487"></a><span class="lineno"> 5487</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(cameralabel).resolution;</div>
-<div class="line"><a id="l05488" name="l05488"></a><span class="lineno"> 5488</span> </div>
-<div class="line"><a id="l05489" name="l05489"></a><span class="lineno"> 5489</span>    std::string frame_str;</div>
-<div class="line"><a id="l05490" name="l05490"></a><span class="lineno"> 5490</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l05491" name="l05491"></a><span class="lineno"> 5491</span>        frame_str = std::to_string(frame);</div>
-<div class="line"><a id="l05492" name="l05492"></a><span class="lineno"> 5492</span>    }</div>
-<div class="line"><a id="l05493" name="l05493"></a><span class="lineno"> 5493</span> </div>
-<div class="line"><a id="l05494" name="l05494"></a><span class="lineno"> 5494</span>    std::ostringstream outfile;</div>
-<div class="line"><a id="l05495" name="l05495"></a><span class="lineno"> 5495</span> </div>
-<div class="line"><a id="l05496" name="l05496"></a><span class="lineno"> 5496</span>    <span class="keywordflow">if</span>( !<a class="code hl_function" href="_radiation_model_8h.html#a2d93cfc62b5e610b18411a9e87547f81">validateOutputPath</a>(outfile) ){</div>
-<div class="line"><a id="l05497" name="l05497"></a><span class="lineno"> 5497</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeCameraImage): Invalid image output directory &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
-<div class="line"><a id="l05498" name="l05498"></a><span class="lineno"> 5498</span>    }</div>
-<div class="line"><a id="l05499" name="l05499"></a><span class="lineno"> 5499</span> </div>
-<div class="line"><a id="l05500" name="l05500"></a><span class="lineno"> 5500</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
-<div class="line"><a id="l05501" name="l05501"></a><span class="lineno"> 5501</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
-<div class="line"><a id="l05502" name="l05502"></a><span class="lineno"> 5502</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l05503" name="l05503"></a><span class="lineno"> 5503</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
-<div class="line"><a id="l05504" name="l05504"></a><span class="lineno"> 5504</span>    }</div>
-<div class="line"><a id="l05505" name="l05505"></a><span class="lineno"> 5505</span> </div>
-<div class="line"><a id="l05506" name="l05506"></a><span class="lineno"> 5506</span>    <span class="comment">//Output label image in &quot;.txt&quot; format</span></div>
-<div class="line"><a id="l05507" name="l05507"></a><span class="lineno"> 5507</span>    std::ofstream label_file;</div>
-<div class="line"><a id="l05508" name="l05508"></a><span class="lineno"> 5508</span>    <span class="keywordflow">if</span>( append_label_file ){</div>
-<div class="line"><a id="l05509" name="l05509"></a><span class="lineno"> 5509</span>        label_file.open(outfile.str(), std::ios::out | std::ios::app);</div>
-<div class="line"><a id="l05510" name="l05510"></a><span class="lineno"> 5510</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l05511" name="l05511"></a><span class="lineno"> 5511</span>        label_file.open(outfile.str());</div>
+<div class="line"><a id="l05485" name="l05485"></a><span class="lineno"> 5485</span> </div>
+<div class="line"><a id="l05486" name="l05486"></a><span class="lineno"> 5486</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> box : pdata_bounds ){</div>
+<div class="line"><a id="l05487" name="l05487"></a><span class="lineno"> 5487</span>        <a class="code hl_struct" href="structhelios_1_1vec4.html">vec4</a> bbox = box.second;</div>
+<div class="line"><a id="l05488" name="l05488"></a><span class="lineno"> 5488</span>        <span class="keywordflow">if</span>( bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a>==bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a3dd547e787593c51f07a6ea131bcab8d">y</a> || bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a>==bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a5d4e8add341c4076176aac3574fe0937">w</a> ){ <span class="comment">//filter boxes of zeros size</span></div>
+<div class="line"><a id="l05489" name="l05489"></a><span class="lineno"> 5489</span>            <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l05490" name="l05490"></a><span class="lineno"> 5490</span>        }</div>
+<div class="line"><a id="l05491" name="l05491"></a><span class="lineno"> 5491</span>        label_file &lt;&lt; object_class_ID &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a> + 0.5 * (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a3dd547e787593c51f07a6ea131bcab8d">y</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a>)) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>) &lt;&lt; <span class="stringliteral">&quot; &quot;</span></div>
+<div class="line"><a id="l05492" name="l05492"></a><span class="lineno"> 5492</span>                   &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a> + 0.5 * (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a5d4e8add341c4076176aac3574fe0937">w</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a>)) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>) &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::setprecision(6)</div>
+<div class="line"><a id="l05493" name="l05493"></a><span class="lineno"> 5493</span>                   &lt;&lt; std::fixed &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a3dd547e787593c51f07a6ea131bcab8d">y</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a>) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>) &lt;&lt; <span class="stringliteral">&quot; &quot;</span></div>
+<div class="line"><a id="l05494" name="l05494"></a><span class="lineno"> 5494</span>                   &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a5d4e8add341c4076176aac3574fe0937">w</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a>) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>) &lt;&lt; std::endl;</div>
+<div class="line"><a id="l05495" name="l05495"></a><span class="lineno"> 5495</span>    }</div>
+<div class="line"><a id="l05496" name="l05496"></a><span class="lineno"> 5496</span> </div>
+<div class="line"><a id="l05497" name="l05497"></a><span class="lineno"> 5497</span>    label_file.close();</div>
+<div class="line"><a id="l05498" name="l05498"></a><span class="lineno"> 5498</span> </div>
+<div class="line"><a id="l05499" name="l05499"></a><span class="lineno"> 5499</span>}</div>
+</div>
+<div class="line"><a id="l05500" name="l05500"></a><span class="lineno"> 5500</span> </div>
+<div class="foldopen" id="foldopen05501" data-start="{" data-end="}">
+<div class="line"><a id="l05501" name="l05501"></a><span class="lineno"><a class="line" href="class_radiation_model.html#ac78340f2c7f5cf9089e26d15ea5dc41b"> 5501</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#ac78340f2c7f5cf9089e26d15ea5dc41b">RadiationModel::writeImageBoundingBoxes_ObjectData</a>(<span class="keyword">const</span> std::string &amp;cameralabel, <span class="keyword">const</span> std::string &amp;object_data_label, uint object_class_ID, <span class="keyword">const</span> std::string &amp;imagefile_base, <span class="keyword">const</span> std::string &amp;image_path, <span class="keywordtype">bool</span> append_label_file, <span class="keywordtype">int</span> frame){</div>
+<div class="line"><a id="l05502" name="l05502"></a><span class="lineno"> 5502</span> </div>
+<div class="line"><a id="l05503" name="l05503"></a><span class="lineno"> 5503</span>    <span class="keywordflow">if</span>( cameras.find(cameralabel)==cameras.end() ){</div>
+<div class="line"><a id="l05504" name="l05504"></a><span class="lineno"> 5504</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeImageBoundingBoxes_ObjectData): Camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; does not exist.&quot;</span> );</div>
+<div class="line"><a id="l05505" name="l05505"></a><span class="lineno"> 5505</span>    }</div>
+<div class="line"><a id="l05506" name="l05506"></a><span class="lineno"> 5506</span> </div>
+<div class="line"><a id="l05507" name="l05507"></a><span class="lineno"> 5507</span>    <span class="comment">//Get image UUID labels</span></div>
+<div class="line"><a id="l05508" name="l05508"></a><span class="lineno"> 5508</span>    std::vector&lt;uint&gt; camera_UUIDs;</div>
+<div class="line"><a id="l05509" name="l05509"></a><span class="lineno"> 5509</span>    std::string global_data_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_UUID&quot;</span>;</div>
+<div class="line"><a id="l05510" name="l05510"></a><span class="lineno"> 5510</span>    <span class="keywordflow">if</span>( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a65ad9cb057b0cb2be3ef2734847608cc">doesGlobalDataExist</a>(global_data_label.c_str() ) ){</div>
+<div class="line"><a id="l05511" name="l05511"></a><span class="lineno"> 5511</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeImageBoundingBoxes_ObjectData): Pixel labels for camera &#39;&quot;</span> + cameralabel + <span class="stringliteral">&quot;&#39; do not exist. Was the radiation model run to generate labels?&quot;</span> );</div>
 <div class="line"><a id="l05512" name="l05512"></a><span class="lineno"> 5512</span>    }</div>
-<div class="line"><a id="l05513" name="l05513"></a><span class="lineno"> 5513</span> </div>
-<div class="line"><a id="l05514" name="l05514"></a><span class="lineno"> 5514</span>    <span class="keywordflow">if</span>( !label_file.is_open() ){</div>
-<div class="line"><a id="l05515" name="l05515"></a><span class="lineno"> 5515</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeImageBoundingBoxes_ObjectData): Could not open file &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39;.&quot;</span> );</div>
-<div class="line"><a id="l05516" name="l05516"></a><span class="lineno"> 5516</span>    }</div>
-<div class="line"><a id="l05517" name="l05517"></a><span class="lineno"> 5517</span> </div>
-<div class="line"><a id="l05518" name="l05518"></a><span class="lineno"> 5518</span>    std::map&lt;int, vec4&gt; pdata_bounds;</div>
-<div class="line"><a id="l05519" name="l05519"></a><span class="lineno"> 5519</span> </div>
-<div class="line"><a id="l05520" name="l05520"></a><span class="lineno"> 5520</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> j = 0; j &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++) {</div>
-<div class="line"><a id="l05521" name="l05521"></a><span class="lineno"> 5521</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>; i++) {</div>
-<div class="line"><a id="l05522" name="l05522"></a><span class="lineno"> 5522</span>            uint ii = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> - i -1;</div>
-<div class="line"><a id="l05523" name="l05523"></a><span class="lineno"> 5523</span>            uint UUID = pixel_UUIDs.at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + ii)-1;</div>
-<div class="line"><a id="l05524" name="l05524"></a><span class="lineno"> 5524</span> </div>
-<div class="line"><a id="l05525" name="l05525"></a><span class="lineno"> 5525</span>            <span class="keywordflow">if</span> ( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(UUID) ){</div>
-<div class="line"><a id="l05526" name="l05526"></a><span class="lineno"> 5526</span>                <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l05527" name="l05527"></a><span class="lineno"> 5527</span>            }</div>
+<div class="line"><a id="l05513" name="l05513"></a><span class="lineno"> 5513</span>    context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(global_data_label.c_str(), camera_UUIDs);</div>
+<div class="line"><a id="l05514" name="l05514"></a><span class="lineno"> 5514</span>    std::vector&lt;uint&gt; pixel_UUIDs = camera_UUIDs;</div>
+<div class="line"><a id="l05515" name="l05515"></a><span class="lineno"> 5515</span>    <a class="code hl_struct" href="structhelios_1_1int2.html">int2</a> camera_resolution = cameras.at(cameralabel).resolution;</div>
+<div class="line"><a id="l05516" name="l05516"></a><span class="lineno"> 5516</span> </div>
+<div class="line"><a id="l05517" name="l05517"></a><span class="lineno"> 5517</span>    std::string frame_str;</div>
+<div class="line"><a id="l05518" name="l05518"></a><span class="lineno"> 5518</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l05519" name="l05519"></a><span class="lineno"> 5519</span>        frame_str = std::to_string(frame);</div>
+<div class="line"><a id="l05520" name="l05520"></a><span class="lineno"> 5520</span>    }</div>
+<div class="line"><a id="l05521" name="l05521"></a><span class="lineno"> 5521</span> </div>
+<div class="line"><a id="l05522" name="l05522"></a><span class="lineno"> 5522</span>    std::string output_path = image_path;</div>
+<div class="line"><a id="l05523" name="l05523"></a><span class="lineno"> 5523</span>    <span class="keywordflow">if</span>( !image_path.empty() &amp;&amp; !<a class="code hl_function" href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9">validateOutputPath</a>(output_path) ){</div>
+<div class="line"><a id="l05524" name="l05524"></a><span class="lineno"> 5524</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::writeImageBoundingBoxes_ObjectData): Invalid image output directory &#39;&quot;</span> + image_path + <span class="stringliteral">&quot;&#39;. Check that the path exists and that you have write permission.&quot;</span>);</div>
+<div class="line"><a id="l05525" name="l05525"></a><span class="lineno"> 5525</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( !<a class="code hl_function" href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902">getFileName</a>(output_path).empty() ){</div>
+<div class="line"><a id="l05526" name="l05526"></a><span class="lineno"> 5526</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR(RadiationModel::writeImageBoundingBoxes_ObjectData): Image output directory contains a filename. This argument should be the path to a directory not a file.&quot;</span>);</div>
+<div class="line"><a id="l05527" name="l05527"></a><span class="lineno"> 5527</span>    }</div>
 <div class="line"><a id="l05528" name="l05528"></a><span class="lineno"> 5528</span> </div>
-<div class="line"><a id="l05529" name="l05529"></a><span class="lineno"> 5529</span>            uint objID = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2d3e254d04f913e590a645b54886436e">getPrimitiveParentObjectID</a>(UUID);</div>
-<div class="line"><a id="l05530" name="l05530"></a><span class="lineno"> 5530</span> </div>
-<div class="line"><a id="l05531" name="l05531"></a><span class="lineno"> 5531</span>            <span class="keywordflow">if</span> ( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">doesObjectExist</a>(objID) || !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2834b9a6eee49d644f201f696ae5a4d5">doesObjectDataExist</a>(objID,object_data_label.c_str())) {</div>
-<div class="line"><a id="l05532" name="l05532"></a><span class="lineno"> 5532</span>                <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l05533" name="l05533"></a><span class="lineno"> 5533</span>            }</div>
-<div class="line"><a id="l05534" name="l05534"></a><span class="lineno"> 5534</span> </div>
-<div class="line"><a id="l05535" name="l05535"></a><span class="lineno"> 5535</span>            uint labeldata;</div>
-<div class="line"><a id="l05536" name="l05536"></a><span class="lineno"> 5536</span> </div>
-<div class="line"><a id="l05537" name="l05537"></a><span class="lineno"> 5537</span>            <a class="code hl_enumeration" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">HeliosDataType</a> datatype = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#af77ff3ea4a7668d2b5cb03bc6fc5f5b6">getObjectDataType</a>(objID,object_data_label.c_str());</div>
-<div class="line"><a id="l05538" name="l05538"></a><span class="lineno"> 5538</span>            <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a>){</div>
-<div class="line"><a id="l05539" name="l05539"></a><span class="lineno"> 5539</span>                uint labeldata_ui;</div>
-<div class="line"><a id="l05540" name="l05540"></a><span class="lineno"> 5540</span>                context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3511ff568337b501ca878c99d97c9b52">getObjectData</a>(objID,object_data_label.c_str(),labeldata_ui);</div>
-<div class="line"><a id="l05541" name="l05541"></a><span class="lineno"> 5541</span>                labeldata = labeldata_ui;</div>
-<div class="line"><a id="l05542" name="l05542"></a><span class="lineno"> 5542</span>            }</div>
-<div class="line"><a id="l05543" name="l05543"></a><span class="lineno"> 5543</span>            <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a>){</div>
-<div class="line"><a id="l05544" name="l05544"></a><span class="lineno"> 5544</span>                <span class="keywordtype">int</span> labeldata_i;</div>
-<div class="line"><a id="l05545" name="l05545"></a><span class="lineno"> 5545</span>                context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3511ff568337b501ca878c99d97c9b52">getObjectData</a>(objID,object_data_label.c_str(),labeldata_i);</div>
-<div class="line"><a id="l05546" name="l05546"></a><span class="lineno"> 5546</span>                labeldata = (uint)labeldata_i;</div>
-<div class="line"><a id="l05547" name="l05547"></a><span class="lineno"> 5547</span>            }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l05548" name="l05548"></a><span class="lineno"> 5548</span>                <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l05549" name="l05549"></a><span class="lineno"> 5549</span>            }</div>
-<div class="line"><a id="l05550" name="l05550"></a><span class="lineno"> 5550</span> </div>
-<div class="line"><a id="l05551" name="l05551"></a><span class="lineno"> 5551</span>            <span class="keywordflow">if</span>( pdata_bounds.find(labeldata) == pdata_bounds.end() ) {</div>
-<div class="line"><a id="l05552" name="l05552"></a><span class="lineno"> 5552</span>                pdata_bounds[labeldata] = <a class="code hl_function" href="helios__vector__types_8h.html#ab232dd96cf103ad9ac02b6f5c264ced0">make_vec4</a>(1e6, -1, 1e6, -1);</div>
-<div class="line"><a id="l05553" name="l05553"></a><span class="lineno"> 5553</span>            }</div>
-<div class="line"><a id="l05554" name="l05554"></a><span class="lineno"> 5554</span> </div>
-<div class="line"><a id="l05555" name="l05555"></a><span class="lineno"> 5555</span>            <span class="keywordflow">if</span>( i&lt;pdata_bounds[labeldata].x ){</div>
-<div class="line"><a id="l05556" name="l05556"></a><span class="lineno"> 5556</span>                pdata_bounds[labeldata].x = i;</div>
-<div class="line"><a id="l05557" name="l05557"></a><span class="lineno"> 5557</span>            }</div>
-<div class="line"><a id="l05558" name="l05558"></a><span class="lineno"> 5558</span>            <span class="keywordflow">if</span>( i&gt;pdata_bounds[labeldata].y ){</div>
-<div class="line"><a id="l05559" name="l05559"></a><span class="lineno"> 5559</span>                pdata_bounds[labeldata].y = i;</div>
-<div class="line"><a id="l05560" name="l05560"></a><span class="lineno"> 5560</span>            }</div>
-<div class="line"><a id="l05561" name="l05561"></a><span class="lineno"> 5561</span>            <span class="keywordflow">if</span>( j&lt;pdata_bounds[labeldata].z ){</div>
-<div class="line"><a id="l05562" name="l05562"></a><span class="lineno"> 5562</span>                pdata_bounds[labeldata].z = j;</div>
-<div class="line"><a id="l05563" name="l05563"></a><span class="lineno"> 5563</span>            }</div>
-<div class="line"><a id="l05564" name="l05564"></a><span class="lineno"> 5564</span>            <span class="keywordflow">if</span>( j&gt;pdata_bounds[labeldata].w ){</div>
-<div class="line"><a id="l05565" name="l05565"></a><span class="lineno"> 5565</span>                pdata_bounds[labeldata].w = j;</div>
-<div class="line"><a id="l05566" name="l05566"></a><span class="lineno"> 5566</span>            }</div>
-<div class="line"><a id="l05567" name="l05567"></a><span class="lineno"> 5567</span> </div>
-<div class="line"><a id="l05568" name="l05568"></a><span class="lineno"> 5568</span>        }</div>
-<div class="line"><a id="l05569" name="l05569"></a><span class="lineno"> 5569</span>    }</div>
-<div class="line"><a id="l05570" name="l05570"></a><span class="lineno"> 5570</span> </div>
-<div class="line"><a id="l05571" name="l05571"></a><span class="lineno"> 5571</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> box : pdata_bounds ){</div>
-<div class="line"><a id="l05572" name="l05572"></a><span class="lineno"> 5572</span>        <a class="code hl_struct" href="structhelios_1_1vec4.html">vec4</a> bbox = box.second;</div>
-<div class="line"><a id="l05573" name="l05573"></a><span class="lineno"> 5573</span>        <span class="keywordflow">if</span>( bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a>==bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a3dd547e787593c51f07a6ea131bcab8d">y</a> || bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a>==bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a5d4e8add341c4076176aac3574fe0937">w</a> ){ <span class="comment">//filter boxes of zeros size</span></div>
-<div class="line"><a id="l05574" name="l05574"></a><span class="lineno"> 5574</span>            <span class="keywordflow">continue</span>;</div>
-<div class="line"><a id="l05575" name="l05575"></a><span class="lineno"> 5575</span>        }</div>
-<div class="line"><a id="l05576" name="l05576"></a><span class="lineno"> 5576</span>        label_file &lt;&lt; object_class_ID &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a> + 0.5 * (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a3dd547e787593c51f07a6ea131bcab8d">y</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a>)) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>) &lt;&lt; <span class="stringliteral">&quot; &quot;</span></div>
-<div class="line"><a id="l05577" name="l05577"></a><span class="lineno"> 5577</span>                   &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a> + 0.5 * (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a5d4e8add341c4076176aac3574fe0937">w</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a>)) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>) &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::setprecision(6)</div>
-<div class="line"><a id="l05578" name="l05578"></a><span class="lineno"> 5578</span>                   &lt;&lt; std::fixed &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a3dd547e787593c51f07a6ea131bcab8d">y</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a>) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>) &lt;&lt; <span class="stringliteral">&quot; &quot;</span></div>
-<div class="line"><a id="l05579" name="l05579"></a><span class="lineno"> 5579</span>                   &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a5d4e8add341c4076176aac3574fe0937">w</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a>) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>) &lt;&lt; std::endl;</div>
-<div class="line"><a id="l05580" name="l05580"></a><span class="lineno"> 5580</span>    }</div>
-<div class="line"><a id="l05581" name="l05581"></a><span class="lineno"> 5581</span> </div>
-<div class="line"><a id="l05582" name="l05582"></a><span class="lineno"> 5582</span>    label_file.close();</div>
-<div class="line"><a id="l05583" name="l05583"></a><span class="lineno"> 5583</span> </div>
-<div class="line"><a id="l05584" name="l05584"></a><span class="lineno"> 5584</span>}</div>
-</div>
-<div class="line"><a id="l05585" name="l05585"></a><span class="lineno"> 5585</span> </div>
+<div class="line"><a id="l05529" name="l05529"></a><span class="lineno"> 5529</span>    std::ostringstream outfile;</div>
+<div class="line"><a id="l05530" name="l05530"></a><span class="lineno"> 5530</span>    outfile &lt;&lt; output_path;</div>
+<div class="line"><a id="l05531" name="l05531"></a><span class="lineno"> 5531</span> </div>
+<div class="line"><a id="l05532" name="l05532"></a><span class="lineno"> 5532</span>    <span class="keywordflow">if</span>( frame&gt;=0 ) {</div>
+<div class="line"><a id="l05533" name="l05533"></a><span class="lineno"> 5533</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; std::setw(5) &lt;&lt; std::setfill(<span class="charliteral">&#39;0&#39;</span>) &lt;&lt; frame_str &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
+<div class="line"><a id="l05534" name="l05534"></a><span class="lineno"> 5534</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l05535" name="l05535"></a><span class="lineno"> 5535</span>        outfile &lt;&lt; cameralabel &lt;&lt; <span class="stringliteral">&quot;_&quot;</span> &lt;&lt; imagefile_base &lt;&lt; <span class="stringliteral">&quot;.txt&quot;</span>;</div>
+<div class="line"><a id="l05536" name="l05536"></a><span class="lineno"> 5536</span>    }</div>
+<div class="line"><a id="l05537" name="l05537"></a><span class="lineno"> 5537</span> </div>
+<div class="line"><a id="l05538" name="l05538"></a><span class="lineno"> 5538</span>    <span class="comment">//Output label image in &quot;.txt&quot; format</span></div>
+<div class="line"><a id="l05539" name="l05539"></a><span class="lineno"> 5539</span>    std::ofstream label_file;</div>
+<div class="line"><a id="l05540" name="l05540"></a><span class="lineno"> 5540</span>    <span class="keywordflow">if</span>( append_label_file ){</div>
+<div class="line"><a id="l05541" name="l05541"></a><span class="lineno"> 5541</span>        label_file.open(outfile.str(), std::ios::out | std::ios::app);</div>
+<div class="line"><a id="l05542" name="l05542"></a><span class="lineno"> 5542</span>    }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l05543" name="l05543"></a><span class="lineno"> 5543</span>        label_file.open(outfile.str());</div>
+<div class="line"><a id="l05544" name="l05544"></a><span class="lineno"> 5544</span>    }</div>
+<div class="line"><a id="l05545" name="l05545"></a><span class="lineno"> 5545</span> </div>
+<div class="line"><a id="l05546" name="l05546"></a><span class="lineno"> 5546</span>    <span class="keywordflow">if</span>( !label_file.is_open() ){</div>
+<div class="line"><a id="l05547" name="l05547"></a><span class="lineno"> 5547</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>( <span class="stringliteral">&quot;ERROR (RadiationModel::writeImageBoundingBoxes_ObjectData): Could not open file &#39;&quot;</span> + outfile.str() + <span class="stringliteral">&quot;&#39;.&quot;</span> );</div>
+<div class="line"><a id="l05548" name="l05548"></a><span class="lineno"> 5548</span>    }</div>
+<div class="line"><a id="l05549" name="l05549"></a><span class="lineno"> 5549</span> </div>
+<div class="line"><a id="l05550" name="l05550"></a><span class="lineno"> 5550</span>    std::map&lt;int, vec4&gt; pdata_bounds;</div>
+<div class="line"><a id="l05551" name="l05551"></a><span class="lineno"> 5551</span> </div>
+<div class="line"><a id="l05552" name="l05552"></a><span class="lineno"> 5552</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> j = 0; j &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>; j++) {</div>
+<div class="line"><a id="l05553" name="l05553"></a><span class="lineno"> 5553</span>        <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>; i++) {</div>
+<div class="line"><a id="l05554" name="l05554"></a><span class="lineno"> 5554</span>            uint ii = camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> - i -1;</div>
+<div class="line"><a id="l05555" name="l05555"></a><span class="lineno"> 5555</span>            uint UUID = pixel_UUIDs.at(j * camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + ii)-1;</div>
+<div class="line"><a id="l05556" name="l05556"></a><span class="lineno"> 5556</span> </div>
+<div class="line"><a id="l05557" name="l05557"></a><span class="lineno"> 5557</span>            <span class="keywordflow">if</span> ( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(UUID) ){</div>
+<div class="line"><a id="l05558" name="l05558"></a><span class="lineno"> 5558</span>                <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l05559" name="l05559"></a><span class="lineno"> 5559</span>            }</div>
+<div class="line"><a id="l05560" name="l05560"></a><span class="lineno"> 5560</span> </div>
+<div class="line"><a id="l05561" name="l05561"></a><span class="lineno"> 5561</span>            uint objID = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2d3e254d04f913e590a645b54886436e">getPrimitiveParentObjectID</a>(UUID);</div>
+<div class="line"><a id="l05562" name="l05562"></a><span class="lineno"> 5562</span> </div>
+<div class="line"><a id="l05563" name="l05563"></a><span class="lineno"> 5563</span>            <span class="keywordflow">if</span> ( !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a9b410e55075482b8cbc549f9bf571541">doesObjectExist</a>(objID) || !context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a2834b9a6eee49d644f201f696ae5a4d5">doesObjectDataExist</a>(objID,object_data_label.c_str())) {</div>
+<div class="line"><a id="l05564" name="l05564"></a><span class="lineno"> 5564</span>                <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l05565" name="l05565"></a><span class="lineno"> 5565</span>            }</div>
+<div class="line"><a id="l05566" name="l05566"></a><span class="lineno"> 5566</span> </div>
+<div class="line"><a id="l05567" name="l05567"></a><span class="lineno"> 5567</span>            uint labeldata;</div>
+<div class="line"><a id="l05568" name="l05568"></a><span class="lineno"> 5568</span> </div>
+<div class="line"><a id="l05569" name="l05569"></a><span class="lineno"> 5569</span>            <a class="code hl_enumeration" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">HeliosDataType</a> datatype = context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#af77ff3ea4a7668d2b5cb03bc6fc5f5b6">getObjectDataType</a>(objID,object_data_label.c_str());</div>
+<div class="line"><a id="l05570" name="l05570"></a><span class="lineno"> 5570</span>            <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3aa8887c77409aaaecc3cd1a097488776f">HELIOS_TYPE_UINT</a>){</div>
+<div class="line"><a id="l05571" name="l05571"></a><span class="lineno"> 5571</span>                uint labeldata_ui;</div>
+<div class="line"><a id="l05572" name="l05572"></a><span class="lineno"> 5572</span>                context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3511ff568337b501ca878c99d97c9b52">getObjectData</a>(objID,object_data_label.c_str(),labeldata_ui);</div>
+<div class="line"><a id="l05573" name="l05573"></a><span class="lineno"> 5573</span>                labeldata = labeldata_ui;</div>
+<div class="line"><a id="l05574" name="l05574"></a><span class="lineno"> 5574</span>            }</div>
+<div class="line"><a id="l05575" name="l05575"></a><span class="lineno"> 5575</span>            <span class="keywordflow">else</span> <span class="keywordflow">if</span> (datatype == <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a7a7039490fc92b5d76ca18b70563ed52">HELIOS_TYPE_INT</a>){</div>
+<div class="line"><a id="l05576" name="l05576"></a><span class="lineno"> 5576</span>                <span class="keywordtype">int</span> labeldata_i;</div>
+<div class="line"><a id="l05577" name="l05577"></a><span class="lineno"> 5577</span>                context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a3511ff568337b501ca878c99d97c9b52">getObjectData</a>(objID,object_data_label.c_str(),labeldata_i);</div>
+<div class="line"><a id="l05578" name="l05578"></a><span class="lineno"> 5578</span>                labeldata = (uint)labeldata_i;</div>
+<div class="line"><a id="l05579" name="l05579"></a><span class="lineno"> 5579</span>            }<span class="keywordflow">else</span>{</div>
+<div class="line"><a id="l05580" name="l05580"></a><span class="lineno"> 5580</span>                <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l05581" name="l05581"></a><span class="lineno"> 5581</span>            }</div>
+<div class="line"><a id="l05582" name="l05582"></a><span class="lineno"> 5582</span> </div>
+<div class="line"><a id="l05583" name="l05583"></a><span class="lineno"> 5583</span>            <span class="keywordflow">if</span>( pdata_bounds.find(labeldata) == pdata_bounds.end() ) {</div>
+<div class="line"><a id="l05584" name="l05584"></a><span class="lineno"> 5584</span>                pdata_bounds[labeldata] = <a class="code hl_function" href="helios__vector__types_8h.html#ab232dd96cf103ad9ac02b6f5c264ced0">make_vec4</a>(1e6, -1, 1e6, -1);</div>
+<div class="line"><a id="l05585" name="l05585"></a><span class="lineno"> 5585</span>            }</div>
 <div class="line"><a id="l05586" name="l05586"></a><span class="lineno"> 5586</span> </div>
-<div class="foldopen" id="foldopen05587" data-start="{" data-end="}">
-<div class="line"><a id="l05587" name="l05587"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a73fac0b01c685471de95cd7bdfb5ef7b"> 5587</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a73fac0b01c685471de95cd7bdfb5ef7b">RadiationModel::setPadValue</a>(<span class="keyword">const</span> std::string &amp;cameralabel, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;bandlabels, <span class="keyword">const</span> std::vector&lt;float&gt; &amp;padvalues) {</div>
-<div class="line"><a id="l05588" name="l05588"></a><span class="lineno"> 5588</span>    <span class="keywordflow">for</span> (uint b = 0; b &lt; bandlabels.size(); b++) {</div>
-<div class="line"><a id="l05589" name="l05589"></a><span class="lineno"> 5589</span>        std::string bandlabel = bandlabels.at(b);</div>
-<div class="line"><a id="l05590" name="l05590"></a><span class="lineno"> 5590</span> </div>
-<div class="line"><a id="l05591" name="l05591"></a><span class="lineno"> 5591</span>        std::string image_value_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_&quot;</span> + bandlabel;</div>
-<div class="line"><a id="l05592" name="l05592"></a><span class="lineno"> 5592</span>        std::vector&lt;float&gt; cameradata;</div>
-<div class="line"><a id="l05593" name="l05593"></a><span class="lineno"> 5593</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(image_value_label.c_str(), cameradata);</div>
-<div class="line"><a id="l05594" name="l05594"></a><span class="lineno"> 5594</span> </div>
-<div class="line"><a id="l05595" name="l05595"></a><span class="lineno"> 5595</span>        std::vector&lt;uint&gt; camera_UUIDs;</div>
-<div class="line"><a id="l05596" name="l05596"></a><span class="lineno"> 5596</span>        std::string image_UUID_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_UUID&quot;</span>;</div>
-<div class="line"><a id="l05597" name="l05597"></a><span class="lineno"> 5597</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(image_UUID_label.c_str(), camera_UUIDs);</div>
-<div class="line"><a id="l05598" name="l05598"></a><span class="lineno"> 5598</span> </div>
-<div class="line"><a id="l05599" name="l05599"></a><span class="lineno"> 5599</span>        <span class="keywordflow">for</span> (uint i = 0; i &lt; cameradata.size(); i++) {</div>
-<div class="line"><a id="l05600" name="l05600"></a><span class="lineno"> 5600</span>            uint UUID = camera_UUIDs.at(i)-1;</div>
-<div class="line"><a id="l05601" name="l05601"></a><span class="lineno"> 5601</span>            <span class="keywordflow">if</span> (!context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(UUID)) {</div>
-<div class="line"><a id="l05602" name="l05602"></a><span class="lineno"> 5602</span>                cameradata.at(i) = padvalues.at(b);</div>
-<div class="line"><a id="l05603" name="l05603"></a><span class="lineno"> 5603</span>            }</div>
-<div class="line"><a id="l05604" name="l05604"></a><span class="lineno"> 5604</span>        }</div>
-<div class="line"><a id="l05605" name="l05605"></a><span class="lineno"> 5605</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(image_value_label.c_str(), <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a>, cameradata.size(), &amp;cameradata[0]);</div>
-<div class="line"><a id="l05606" name="l05606"></a><span class="lineno"> 5606</span>    }</div>
-<div class="line"><a id="l05607" name="l05607"></a><span class="lineno"> 5607</span>}</div>
+<div class="line"><a id="l05587" name="l05587"></a><span class="lineno"> 5587</span>            <span class="keywordflow">if</span>( i&lt;pdata_bounds[labeldata].x ){</div>
+<div class="line"><a id="l05588" name="l05588"></a><span class="lineno"> 5588</span>                pdata_bounds[labeldata].x = i;</div>
+<div class="line"><a id="l05589" name="l05589"></a><span class="lineno"> 5589</span>            }</div>
+<div class="line"><a id="l05590" name="l05590"></a><span class="lineno"> 5590</span>            <span class="keywordflow">if</span>( i&gt;pdata_bounds[labeldata].y ){</div>
+<div class="line"><a id="l05591" name="l05591"></a><span class="lineno"> 5591</span>                pdata_bounds[labeldata].y = i;</div>
+<div class="line"><a id="l05592" name="l05592"></a><span class="lineno"> 5592</span>            }</div>
+<div class="line"><a id="l05593" name="l05593"></a><span class="lineno"> 5593</span>            <span class="keywordflow">if</span>( j&lt;pdata_bounds[labeldata].z ){</div>
+<div class="line"><a id="l05594" name="l05594"></a><span class="lineno"> 5594</span>                pdata_bounds[labeldata].z = j;</div>
+<div class="line"><a id="l05595" name="l05595"></a><span class="lineno"> 5595</span>            }</div>
+<div class="line"><a id="l05596" name="l05596"></a><span class="lineno"> 5596</span>            <span class="keywordflow">if</span>( j&gt;pdata_bounds[labeldata].w ){</div>
+<div class="line"><a id="l05597" name="l05597"></a><span class="lineno"> 5597</span>                pdata_bounds[labeldata].w = j;</div>
+<div class="line"><a id="l05598" name="l05598"></a><span class="lineno"> 5598</span>            }</div>
+<div class="line"><a id="l05599" name="l05599"></a><span class="lineno"> 5599</span> </div>
+<div class="line"><a id="l05600" name="l05600"></a><span class="lineno"> 5600</span>        }</div>
+<div class="line"><a id="l05601" name="l05601"></a><span class="lineno"> 5601</span>    }</div>
+<div class="line"><a id="l05602" name="l05602"></a><span class="lineno"> 5602</span> </div>
+<div class="line"><a id="l05603" name="l05603"></a><span class="lineno"> 5603</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> box : pdata_bounds ){</div>
+<div class="line"><a id="l05604" name="l05604"></a><span class="lineno"> 5604</span>        <a class="code hl_struct" href="structhelios_1_1vec4.html">vec4</a> bbox = box.second;</div>
+<div class="line"><a id="l05605" name="l05605"></a><span class="lineno"> 5605</span>        <span class="keywordflow">if</span>( bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a>==bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a3dd547e787593c51f07a6ea131bcab8d">y</a> || bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a>==bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a5d4e8add341c4076176aac3574fe0937">w</a> ){ <span class="comment">//filter boxes of zeros size</span></div>
+<div class="line"><a id="l05606" name="l05606"></a><span class="lineno"> 5606</span>            <span class="keywordflow">continue</span>;</div>
+<div class="line"><a id="l05607" name="l05607"></a><span class="lineno"> 5607</span>        }</div>
+<div class="line"><a id="l05608" name="l05608"></a><span class="lineno"> 5608</span>        label_file &lt;&lt; object_class_ID &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a> + 0.5 * (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a3dd547e787593c51f07a6ea131bcab8d">y</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a>)) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>) &lt;&lt; <span class="stringliteral">&quot; &quot;</span></div>
+<div class="line"><a id="l05609" name="l05609"></a><span class="lineno"> 5609</span>                   &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a> + 0.5 * (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a5d4e8add341c4076176aac3574fe0937">w</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a>)) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>) &lt;&lt; <span class="stringliteral">&quot; &quot;</span> &lt;&lt; std::setprecision(6)</div>
+<div class="line"><a id="l05610" name="l05610"></a><span class="lineno"> 5610</span>                   &lt;&lt; std::fixed &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a3dd547e787593c51f07a6ea131bcab8d">y</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a96036e1d3ac15f03190a7bbf74ce0d73">x</a>) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>) &lt;&lt; <span class="stringliteral">&quot; &quot;</span></div>
+<div class="line"><a id="l05611" name="l05611"></a><span class="lineno"> 5611</span>                   &lt;&lt; (bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a5d4e8add341c4076176aac3574fe0937">w</a> - bbox.<a class="code hl_variable" href="structhelios_1_1vec4.html#a660ee0cf07d74bac3c989ce39e035d3b">z</a>) / <span class="keywordtype">float</span>(camera_resolution.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a>) &lt;&lt; std::endl;</div>
+<div class="line"><a id="l05612" name="l05612"></a><span class="lineno"> 5612</span>    }</div>
+<div class="line"><a id="l05613" name="l05613"></a><span class="lineno"> 5613</span> </div>
+<div class="line"><a id="l05614" name="l05614"></a><span class="lineno"> 5614</span>    label_file.close();</div>
+<div class="line"><a id="l05615" name="l05615"></a><span class="lineno"> 5615</span> </div>
+<div class="line"><a id="l05616" name="l05616"></a><span class="lineno"> 5616</span>}</div>
 </div>
-<div class="line"><a id="l05608" name="l05608"></a><span class="lineno"> 5608</span> </div>
-<div class="foldopen" id="foldopen05609" data-start="{" data-end="}">
-<div class="line"><a id="l05609" name="l05609"></a><span class="lineno"><a class="line" href="class_radiation_model.html#ab04cda35cd54937070cb63344630ada8"> 5609</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#ab04cda35cd54937070cb63344630ada8">RadiationModel::calibrateCamera</a>(<span class="keyword">const</span> std::string &amp;originalcameralabel, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;sourcelabels,</div>
-<div class="line"><a id="l05610" name="l05610"></a><span class="lineno"> 5610</span>                                     <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; cameraresplabels_raw, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;bandlabels, <span class="keyword">const</span> <span class="keywordtype">float</span> scalefactor,</div>
-<div class="line"><a id="l05611" name="l05611"></a><span class="lineno"> 5611</span>                                     <span class="keyword">const</span> std::vector&lt;std::vector&lt;float&gt;&gt; &amp;truevalues, <span class="keyword">const</span> std::string &amp;calibratedmark) {</div>
-<div class="line"><a id="l05612" name="l05612"></a><span class="lineno"> 5612</span> </div>
-<div class="line"><a id="l05613" name="l05613"></a><span class="lineno"> 5613</span>    <span class="keywordflow">if</span>( cameras.find(originalcameralabel) == cameras.end() ){</div>
-<div class="line"><a id="l05614" name="l05614"></a><span class="lineno"> 5614</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::calibrateCamera): Camera &quot;</span> + originalcameralabel + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l05615" name="l05615"></a><span class="lineno"> 5615</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( radiation_sources.empty() ){</div>
-<div class="line"><a id="l05616" name="l05616"></a><span class="lineno"> 5616</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::calibrateCamera): No radiation sources were added to the radiation model. Cannot perform calibration.&quot;</span>);</div>
-<div class="line"><a id="l05617" name="l05617"></a><span class="lineno"> 5617</span>    }</div>
+<div class="line"><a id="l05617" name="l05617"></a><span class="lineno"> 5617</span> </div>
 <div class="line"><a id="l05618" name="l05618"></a><span class="lineno"> 5618</span> </div>
-<div class="line"><a id="l05619" name="l05619"></a><span class="lineno"> 5619</span>    <a class="code hl_struct" href="struct_camera_calibration.html">CameraCalibration</a> cameracalibration_(context);</div>
-<div class="line"><a id="l05620" name="l05620"></a><span class="lineno"> 5620</span>    <span class="keywordflow">if</span> (!calibration_flag){</div>
-<div class="line"><a id="l05621" name="l05621"></a><span class="lineno"> 5621</span>        std::cout&lt;&lt; <span class="stringliteral">&quot;No color board added, use default color calibration.&quot;</span> &lt;&lt;std::endl;</div>
-<div class="line"><a id="l05622" name="l05622"></a><span class="lineno"> 5622</span>        cameracalibration = &amp;cameracalibration_;</div>
-<div class="line"><a id="l05623" name="l05623"></a><span class="lineno"> 5623</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> centrelocation =<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,0.2); <span class="comment">// Location of color board</span></div>
-<div class="line"><a id="l05624" name="l05624"></a><span class="lineno"> 5624</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> rotationrad =<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,1.5705); <span class="comment">// Rotation angle of color board</span></div>
-<div class="line"><a id="l05625" name="l05625"></a><span class="lineno"> 5625</span>        cameracalibration-&gt;<a class="code hl_function" href="struct_camera_calibration.html#a4b1c43adcd27bc075327a239f31f03b8">addDefaultColorboard</a>(centrelocation, 0.1, rotationrad);</div>
-<div class="line"><a id="l05626" name="l05626"></a><span class="lineno"> 5626</span>    }</div>
-<div class="line"><a id="l05627" name="l05627"></a><span class="lineno"> 5627</span>    <a class="code hl_struct" href="structhelios_1_1vec2.html">vec2</a> wavelengthrange = <a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(-10000,10000);</div>
-<div class="line"><a id="l05628" name="l05628"></a><span class="lineno"> 5628</span> </div>
-<div class="line"><a id="l05629" name="l05629"></a><span class="lineno"> 5629</span>    <span class="comment">// Calibrated camera response labels</span></div>
-<div class="line"><a id="l05630" name="l05630"></a><span class="lineno"> 5630</span>    std::vector&lt;std::string&gt; cameraresplabels_cal(cameraresplabels_raw.size());</div>
-<div class="line"><a id="l05631" name="l05631"></a><span class="lineno"> 5631</span> </div>
-<div class="line"><a id="l05632" name="l05632"></a><span class="lineno"> 5632</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> iband=0;iband&lt;bandlabels.size();iband++){</div>
-<div class="line"><a id="l05633" name="l05633"></a><span class="lineno"> 5633</span>        cameraresplabels_cal.at(iband) = calibratedmark + <span class="stringliteral">&quot;_&quot;</span> + cameraresplabels_raw.at(iband);</div>
-<div class="line"><a id="l05634" name="l05634"></a><span class="lineno"> 5634</span>    }</div>
-<div class="line"><a id="l05635" name="l05635"></a><span class="lineno"> 5635</span> </div>
-<div class="line"><a id="l05636" name="l05636"></a><span class="lineno"> 5636</span>    <a class="code hl_function" href="class_radiation_model.html#a728c89b679cfcb957567b43e52023baf">RadiationModel::runRadiationImaging</a>(originalcameralabel, sourcelabels, bandlabels, cameraresplabels_raw, wavelengthrange, 1, 0);</div>
-<div class="line"><a id="l05637" name="l05637"></a><span class="lineno"> 5637</span>    <span class="comment">// Update camera responses</span></div>
-<div class="line"><a id="l05638" name="l05638"></a><span class="lineno"> 5638</span>    <a class="code hl_function" href="class_radiation_model.html#afabb4e1a6c8c67ccc9c68aab7dfd07e3">RadiationModel::updateCameraResponse</a>(originalcameralabel, sourcelabels, cameraresplabels_raw, wavelengthrange, truevalues, calibratedmark);</div>
-<div class="line"><a id="l05639" name="l05639"></a><span class="lineno"> 5639</span> </div>
-<div class="line"><a id="l05640" name="l05640"></a><span class="lineno"> 5640</span>    <span class="keywordtype">float</span> camerascale = <a class="code hl_function" href="class_radiation_model.html#adb5a74547d51a18018d3daeba0ec5f3c">RadiationModel::getCameraResponseScale</a>(originalcameralabel, cameraresplabels_cal, bandlabels,sourcelabels, wavelengthrange, truevalues);</div>
-<div class="line"><a id="l05641" name="l05641"></a><span class="lineno"> 5641</span> </div>
-<div class="line"><a id="l05642" name="l05642"></a><span class="lineno"> 5642</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;Camera response scale: &quot;</span> &lt;&lt; camerascale &lt;&lt; std::endl;</div>
-<div class="line"><a id="l05643" name="l05643"></a><span class="lineno"> 5643</span>    <span class="comment">// Scale and write calibrated camera responses</span></div>
-<div class="line"><a id="l05644" name="l05644"></a><span class="lineno"> 5644</span>    cameracalibration-&gt;<a class="code hl_function" href="struct_camera_calibration.html#a148bdc83d9f7a3d564a3aa10793a5d70">writeCalibratedCameraResponses</a>(cameraresplabels_raw, calibratedmark, camerascale*scalefactor);</div>
-<div class="line"><a id="l05645" name="l05645"></a><span class="lineno"> 5645</span> </div>
-<div class="line"><a id="l05646" name="l05646"></a><span class="lineno"> 5646</span>}</div>
+<div class="foldopen" id="foldopen05619" data-start="{" data-end="}">
+<div class="line"><a id="l05619" name="l05619"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a73fac0b01c685471de95cd7bdfb5ef7b"> 5619</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#a73fac0b01c685471de95cd7bdfb5ef7b">RadiationModel::setPadValue</a>(<span class="keyword">const</span> std::string &amp;cameralabel, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;bandlabels, <span class="keyword">const</span> std::vector&lt;float&gt; &amp;padvalues) {</div>
+<div class="line"><a id="l05620" name="l05620"></a><span class="lineno"> 5620</span>    <span class="keywordflow">for</span> (uint b = 0; b &lt; bandlabels.size(); b++) {</div>
+<div class="line"><a id="l05621" name="l05621"></a><span class="lineno"> 5621</span>        std::string bandlabel = bandlabels.at(b);</div>
+<div class="line"><a id="l05622" name="l05622"></a><span class="lineno"> 5622</span> </div>
+<div class="line"><a id="l05623" name="l05623"></a><span class="lineno"> 5623</span>        std::string image_value_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_&quot;</span> + bandlabel;</div>
+<div class="line"><a id="l05624" name="l05624"></a><span class="lineno"> 5624</span>        std::vector&lt;float&gt; cameradata;</div>
+<div class="line"><a id="l05625" name="l05625"></a><span class="lineno"> 5625</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(image_value_label.c_str(), cameradata);</div>
+<div class="line"><a id="l05626" name="l05626"></a><span class="lineno"> 5626</span> </div>
+<div class="line"><a id="l05627" name="l05627"></a><span class="lineno"> 5627</span>        std::vector&lt;uint&gt; camera_UUIDs;</div>
+<div class="line"><a id="l05628" name="l05628"></a><span class="lineno"> 5628</span>        std::string image_UUID_label = <span class="stringliteral">&quot;camera_&quot;</span> + cameralabel + <span class="stringliteral">&quot;_pixel_UUID&quot;</span>;</div>
+<div class="line"><a id="l05629" name="l05629"></a><span class="lineno"> 5629</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#a972fa4a45b2775f6047d41b88dc69d03">getGlobalData</a>(image_UUID_label.c_str(), camera_UUIDs);</div>
+<div class="line"><a id="l05630" name="l05630"></a><span class="lineno"> 5630</span> </div>
+<div class="line"><a id="l05631" name="l05631"></a><span class="lineno"> 5631</span>        <span class="keywordflow">for</span> (uint i = 0; i &lt; cameradata.size(); i++) {</div>
+<div class="line"><a id="l05632" name="l05632"></a><span class="lineno"> 5632</span>            uint UUID = camera_UUIDs.at(i)-1;</div>
+<div class="line"><a id="l05633" name="l05633"></a><span class="lineno"> 5633</span>            <span class="keywordflow">if</span> (!context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#acf4a7fa9ba97f03d0a9218e5c4b7bc66">doesPrimitiveExist</a>(UUID)) {</div>
+<div class="line"><a id="l05634" name="l05634"></a><span class="lineno"> 5634</span>                cameradata.at(i) = padvalues.at(b);</div>
+<div class="line"><a id="l05635" name="l05635"></a><span class="lineno"> 5635</span>            }</div>
+<div class="line"><a id="l05636" name="l05636"></a><span class="lineno"> 5636</span>        }</div>
+<div class="line"><a id="l05637" name="l05637"></a><span class="lineno"> 5637</span>        context-&gt;<a class="code hl_function" href="classhelios_1_1_context.html#aa92b28a9c26bbff7e5621e1c9dd48086">setGlobalData</a>(image_value_label.c_str(), <a class="code hl_enumvalue" href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3ae8cb6622468bda0078b0bcfde7677ba0">HELIOS_TYPE_FLOAT</a>, cameradata.size(), &amp;cameradata[0]);</div>
+<div class="line"><a id="l05638" name="l05638"></a><span class="lineno"> 5638</span>    }</div>
+<div class="line"><a id="l05639" name="l05639"></a><span class="lineno"> 5639</span>}</div>
 </div>
-<div class="line"><a id="l05647" name="l05647"></a><span class="lineno"> 5647</span> </div>
-<div class="foldopen" id="foldopen05648" data-start="{" data-end="}">
-<div class="line"><a id="l05648" name="l05648"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a1da3d8b0b1654693cb1261e909612997"> 5648</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#ab04cda35cd54937070cb63344630ada8">RadiationModel::calibrateCamera</a>(<span class="keyword">const</span> std::string &amp;originalcameralabel, <span class="keyword">const</span> <span class="keywordtype">float</span> scalefactor, <span class="keyword">const</span> std::vector&lt;std::vector&lt;float&gt;&gt; &amp;truevalues,</div>
-<div class="line"><a id="l05649" name="l05649"></a><span class="lineno"> 5649</span>                                     <span class="keyword">const</span> std::string &amp;calibratedmark) {</div>
+<div class="line"><a id="l05640" name="l05640"></a><span class="lineno"> 5640</span> </div>
+<div class="foldopen" id="foldopen05641" data-start="{" data-end="}">
+<div class="line"><a id="l05641" name="l05641"></a><span class="lineno"><a class="line" href="class_radiation_model.html#ab04cda35cd54937070cb63344630ada8"> 5641</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#ab04cda35cd54937070cb63344630ada8">RadiationModel::calibrateCamera</a>(<span class="keyword">const</span> std::string &amp;originalcameralabel, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;sourcelabels,</div>
+<div class="line"><a id="l05642" name="l05642"></a><span class="lineno"> 5642</span>                                     <span class="keyword">const</span> std::vector&lt;std::string&gt;&amp; cameraresplabels_raw, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;bandlabels, <span class="keyword">const</span> <span class="keywordtype">float</span> scalefactor,</div>
+<div class="line"><a id="l05643" name="l05643"></a><span class="lineno"> 5643</span>                                     <span class="keyword">const</span> std::vector&lt;std::vector&lt;float&gt;&gt; &amp;truevalues, <span class="keyword">const</span> std::string &amp;calibratedmark) {</div>
+<div class="line"><a id="l05644" name="l05644"></a><span class="lineno"> 5644</span> </div>
+<div class="line"><a id="l05645" name="l05645"></a><span class="lineno"> 5645</span>    <span class="keywordflow">if</span>( cameras.find(originalcameralabel) == cameras.end() ){</div>
+<div class="line"><a id="l05646" name="l05646"></a><span class="lineno"> 5646</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::calibrateCamera): Camera &quot;</span> + originalcameralabel + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l05647" name="l05647"></a><span class="lineno"> 5647</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( radiation_sources.empty() ){</div>
+<div class="line"><a id="l05648" name="l05648"></a><span class="lineno"> 5648</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::calibrateCamera): No radiation sources were added to the radiation model. Cannot perform calibration.&quot;</span>);</div>
+<div class="line"><a id="l05649" name="l05649"></a><span class="lineno"> 5649</span>    }</div>
 <div class="line"><a id="l05650" name="l05650"></a><span class="lineno"> 5650</span> </div>
-<div class="line"><a id="l05651" name="l05651"></a><span class="lineno"> 5651</span>    <span class="keywordflow">if</span>( cameras.find(originalcameralabel) == cameras.end() ){</div>
-<div class="line"><a id="l05652" name="l05652"></a><span class="lineno"> 5652</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::calibrateCamera): Camera &quot;</span> + originalcameralabel + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
-<div class="line"><a id="l05653" name="l05653"></a><span class="lineno"> 5653</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( radiation_sources.empty() ){</div>
-<div class="line"><a id="l05654" name="l05654"></a><span class="lineno"> 5654</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::calibrateCamera): No radiation sources were added to the radiation model. Cannot perform calibration.&quot;</span>);</div>
-<div class="line"><a id="l05655" name="l05655"></a><span class="lineno"> 5655</span>    }</div>
-<div class="line"><a id="l05656" name="l05656"></a><span class="lineno"> 5656</span> </div>
-<div class="line"><a id="l05657" name="l05657"></a><span class="lineno"> 5657</span>    <a class="code hl_struct" href="struct_camera_calibration.html">CameraCalibration</a> cameracalibration_(context);</div>
-<div class="line"><a id="l05658" name="l05658"></a><span class="lineno"> 5658</span>    <span class="keywordflow">if</span> (!calibration_flag){</div>
-<div class="line"><a id="l05659" name="l05659"></a><span class="lineno"> 5659</span>        std::cout&lt;&lt; <span class="stringliteral">&quot;No color board added, use default color calibration.&quot;</span> &lt;&lt;std::endl;</div>
-<div class="line"><a id="l05660" name="l05660"></a><span class="lineno"> 5660</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> centrelocation =<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,0.2); <span class="comment">// Location of color board</span></div>
-<div class="line"><a id="l05661" name="l05661"></a><span class="lineno"> 5661</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> rotationrad =<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,1.5705); <span class="comment">// Rotation angle of color board</span></div>
-<div class="line"><a id="l05662" name="l05662"></a><span class="lineno"> 5662</span>        cameracalibration_.<a class="code hl_function" href="struct_camera_calibration.html#a4b1c43adcd27bc075327a239f31f03b8">addDefaultColorboard</a>(centrelocation, 0.1, rotationrad);</div>
-<div class="line"><a id="l05663" name="l05663"></a><span class="lineno"> 5663</span>        RadiationModel::setCameraCalibration(&amp;cameracalibration_);</div>
-<div class="line"><a id="l05664" name="l05664"></a><span class="lineno"> 5664</span>    }</div>
-<div class="line"><a id="l05665" name="l05665"></a><span class="lineno"> 5665</span> </div>
-<div class="line"><a id="l05666" name="l05666"></a><span class="lineno"> 5666</span>    <a class="code hl_struct" href="structhelios_1_1vec2.html">vec2</a> wavelengthrange = <a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(-10000,10000);</div>
+<div class="line"><a id="l05651" name="l05651"></a><span class="lineno"> 5651</span>    <a class="code hl_struct" href="struct_camera_calibration.html">CameraCalibration</a> cameracalibration_(context);</div>
+<div class="line"><a id="l05652" name="l05652"></a><span class="lineno"> 5652</span>    <span class="keywordflow">if</span> (!calibration_flag){</div>
+<div class="line"><a id="l05653" name="l05653"></a><span class="lineno"> 5653</span>        std::cout&lt;&lt; <span class="stringliteral">&quot;No color board added, use default color calibration.&quot;</span> &lt;&lt;std::endl;</div>
+<div class="line"><a id="l05654" name="l05654"></a><span class="lineno"> 5654</span>        cameracalibration = &amp;cameracalibration_;</div>
+<div class="line"><a id="l05655" name="l05655"></a><span class="lineno"> 5655</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> centrelocation =<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,0.2); <span class="comment">// Location of color board</span></div>
+<div class="line"><a id="l05656" name="l05656"></a><span class="lineno"> 5656</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> rotationrad =<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,1.5705); <span class="comment">// Rotation angle of color board</span></div>
+<div class="line"><a id="l05657" name="l05657"></a><span class="lineno"> 5657</span>        cameracalibration-&gt;<a class="code hl_function" href="struct_camera_calibration.html#a4b1c43adcd27bc075327a239f31f03b8">addDefaultColorboard</a>(centrelocation, 0.1, rotationrad);</div>
+<div class="line"><a id="l05658" name="l05658"></a><span class="lineno"> 5658</span>    }</div>
+<div class="line"><a id="l05659" name="l05659"></a><span class="lineno"> 5659</span>    <a class="code hl_struct" href="structhelios_1_1vec2.html">vec2</a> wavelengthrange = <a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(-10000,10000);</div>
+<div class="line"><a id="l05660" name="l05660"></a><span class="lineno"> 5660</span> </div>
+<div class="line"><a id="l05661" name="l05661"></a><span class="lineno"> 5661</span>    <span class="comment">// Calibrated camera response labels</span></div>
+<div class="line"><a id="l05662" name="l05662"></a><span class="lineno"> 5662</span>    std::vector&lt;std::string&gt; cameraresplabels_cal(cameraresplabels_raw.size());</div>
+<div class="line"><a id="l05663" name="l05663"></a><span class="lineno"> 5663</span> </div>
+<div class="line"><a id="l05664" name="l05664"></a><span class="lineno"> 5664</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> iband=0;iband&lt;bandlabels.size();iband++){</div>
+<div class="line"><a id="l05665" name="l05665"></a><span class="lineno"> 5665</span>        cameraresplabels_cal.at(iband) = calibratedmark + <span class="stringliteral">&quot;_&quot;</span> + cameraresplabels_raw.at(iband);</div>
+<div class="line"><a id="l05666" name="l05666"></a><span class="lineno"> 5666</span>    }</div>
 <div class="line"><a id="l05667" name="l05667"></a><span class="lineno"> 5667</span> </div>
-<div class="line"><a id="l05668" name="l05668"></a><span class="lineno"> 5668</span>    std::vector&lt;std::string&gt; bandlabels = cameras.at(originalcameralabel).band_labels;</div>
-<div class="line"><a id="l05669" name="l05669"></a><span class="lineno"> 5669</span> </div>
-<div class="line"><a id="l05670" name="l05670"></a><span class="lineno"> 5670</span>    <span class="comment">// Get camera response spectra labels from camera</span></div>
-<div class="line"><a id="l05671" name="l05671"></a><span class="lineno"> 5671</span>    std::vector&lt;std::string&gt; cameraresplabels_cal(cameras.at(originalcameralabel).band_spectral_response.size() );</div>
-<div class="line"><a id="l05672" name="l05672"></a><span class="lineno"> 5672</span>    std::vector&lt;std::string&gt; cameraresplabels_raw = cameraresplabels_cal;</div>
+<div class="line"><a id="l05668" name="l05668"></a><span class="lineno"> 5668</span>    <a class="code hl_function" href="class_radiation_model.html#a728c89b679cfcb957567b43e52023baf">RadiationModel::runRadiationImaging</a>(originalcameralabel, sourcelabels, bandlabels, cameraresplabels_raw, wavelengthrange, 1, 0);</div>
+<div class="line"><a id="l05669" name="l05669"></a><span class="lineno"> 5669</span>    <span class="comment">// Update camera responses</span></div>
+<div class="line"><a id="l05670" name="l05670"></a><span class="lineno"> 5670</span>    <a class="code hl_function" href="class_radiation_model.html#afabb4e1a6c8c67ccc9c68aab7dfd07e3">RadiationModel::updateCameraResponse</a>(originalcameralabel, sourcelabels, cameraresplabels_raw, wavelengthrange, truevalues, calibratedmark);</div>
+<div class="line"><a id="l05671" name="l05671"></a><span class="lineno"> 5671</span> </div>
+<div class="line"><a id="l05672" name="l05672"></a><span class="lineno"> 5672</span>    <span class="keywordtype">float</span> camerascale = <a class="code hl_function" href="class_radiation_model.html#adb5a74547d51a18018d3daeba0ec5f3c">RadiationModel::getCameraResponseScale</a>(originalcameralabel, cameraresplabels_cal, bandlabels,sourcelabels, wavelengthrange, truevalues);</div>
 <div class="line"><a id="l05673" name="l05673"></a><span class="lineno"> 5673</span> </div>
-<div class="line"><a id="l05674" name="l05674"></a><span class="lineno"> 5674</span>    <span class="keywordtype">int</span> iband = 0;</div>
-<div class="line"><a id="l05675" name="l05675"></a><span class="lineno"> 5675</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;band : cameras.at(originalcameralabel).band_spectral_response ){</div>
-<div class="line"><a id="l05676" name="l05676"></a><span class="lineno"> 5676</span>        cameraresplabels_raw.at(iband) = band.second;</div>
-<div class="line"><a id="l05677" name="l05677"></a><span class="lineno"> 5677</span>        cameraresplabels_cal.at(iband) = calibratedmark + <span class="stringliteral">&quot;_&quot;</span> + band.second;</div>
-<div class="line"><a id="l05678" name="l05678"></a><span class="lineno"> 5678</span>        iband++;</div>
-<div class="line"><a id="l05679" name="l05679"></a><span class="lineno"> 5679</span>    }</div>
-<div class="line"><a id="l05680" name="l05680"></a><span class="lineno"> 5680</span> </div>
-<div class="line"><a id="l05681" name="l05681"></a><span class="lineno"> 5681</span>    <span class="comment">// Get labels of radiation sources from camera</span></div>
-<div class="line"><a id="l05682" name="l05682"></a><span class="lineno"> 5682</span>    std::vector&lt;std::string&gt; sourcelabels(radiation_sources.size());</div>
-<div class="line"><a id="l05683" name="l05683"></a><span class="lineno"> 5683</span>    <span class="keywordtype">int</span> isource = 0;</div>
-<div class="line"><a id="l05684" name="l05684"></a><span class="lineno"> 5684</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;source : radiation_sources ){</div>
-<div class="line"><a id="l05685" name="l05685"></a><span class="lineno"> 5685</span>        <span class="keywordflow">if</span>( source.<a class="code hl_variable" href="struct_radiation_source.html#a2a5320be3f9facc5863928f81dbc8823">source_spectrum</a>.empty() ){</div>
-<div class="line"><a id="l05686" name="l05686"></a><span class="lineno"> 5686</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::calibrateCamera): A spectral distribution was not specified for source &quot;</span> + source.source_spectrum_label + <span class="stringliteral">&quot;. Cannot perform camera calibration.&quot;</span>);</div>
-<div class="line"><a id="l05687" name="l05687"></a><span class="lineno"> 5687</span>        }</div>
-<div class="line"><a id="l05688" name="l05688"></a><span class="lineno"> 5688</span>        sourcelabels.at(isource) = source.source_spectrum_label;</div>
-<div class="line"><a id="l05689" name="l05689"></a><span class="lineno"> 5689</span>        isource++;</div>
-<div class="line"><a id="l05690" name="l05690"></a><span class="lineno"> 5690</span>    }</div>
-<div class="line"><a id="l05691" name="l05691"></a><span class="lineno"> 5691</span> </div>
-<div class="line"><a id="l05692" name="l05692"></a><span class="lineno"> 5692</span>    <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a>();</div>
-<div class="line"><a id="l05693" name="l05693"></a><span class="lineno"> 5693</span>    <a class="code hl_function" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a>(bandlabels);</div>
-<div class="line"><a id="l05694" name="l05694"></a><span class="lineno"> 5694</span>    <span class="comment">// Update camera responses</span></div>
-<div class="line"><a id="l05695" name="l05695"></a><span class="lineno"> 5695</span>    <a class="code hl_function" href="class_radiation_model.html#afabb4e1a6c8c67ccc9c68aab7dfd07e3">RadiationModel::updateCameraResponse</a>(originalcameralabel, sourcelabels, cameraresplabels_raw, wavelengthrange, truevalues, calibratedmark);</div>
-<div class="line"><a id="l05696" name="l05696"></a><span class="lineno"> 5696</span> </div>
-<div class="line"><a id="l05697" name="l05697"></a><span class="lineno"> 5697</span>    <span class="keywordtype">float</span> camerascale = <a class="code hl_function" href="class_radiation_model.html#adb5a74547d51a18018d3daeba0ec5f3c">RadiationModel::getCameraResponseScale</a>(originalcameralabel, cameraresplabels_cal, bandlabels,sourcelabels, wavelengthrange, truevalues);</div>
-<div class="line"><a id="l05698" name="l05698"></a><span class="lineno"> 5698</span> </div>
-<div class="line"><a id="l05699" name="l05699"></a><span class="lineno"> 5699</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;Camera response scale: &quot;</span> &lt;&lt; camerascale &lt;&lt; std::endl;</div>
-<div class="line"><a id="l05700" name="l05700"></a><span class="lineno"> 5700</span>    <span class="comment">// Scale and write calibrated camera responses</span></div>
-<div class="line"><a id="l05701" name="l05701"></a><span class="lineno"> 5701</span>    cameracalibration-&gt;<a class="code hl_function" href="struct_camera_calibration.html#a148bdc83d9f7a3d564a3aa10793a5d70">writeCalibratedCameraResponses</a>(cameraresplabels_raw, calibratedmark, camerascale*scalefactor);</div>
-<div class="line"><a id="l05702" name="l05702"></a><span class="lineno"> 5702</span> </div>
-<div class="line"><a id="l05703" name="l05703"></a><span class="lineno"> 5703</span>}</div>
+<div class="line"><a id="l05674" name="l05674"></a><span class="lineno"> 5674</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;Camera response scale: &quot;</span> &lt;&lt; camerascale &lt;&lt; std::endl;</div>
+<div class="line"><a id="l05675" name="l05675"></a><span class="lineno"> 5675</span>    <span class="comment">// Scale and write calibrated camera responses</span></div>
+<div class="line"><a id="l05676" name="l05676"></a><span class="lineno"> 5676</span>    cameracalibration-&gt;<a class="code hl_function" href="struct_camera_calibration.html#a148bdc83d9f7a3d564a3aa10793a5d70">writeCalibratedCameraResponses</a>(cameraresplabels_raw, calibratedmark, camerascale*scalefactor);</div>
+<div class="line"><a id="l05677" name="l05677"></a><span class="lineno"> 5677</span> </div>
+<div class="line"><a id="l05678" name="l05678"></a><span class="lineno"> 5678</span>}</div>
 </div>
-<div class="line"><a id="l05704" name="l05704"></a><span class="lineno"> 5704</span> </div>
-<div class="line"><a id="l05705" name="l05705"></a><span class="lineno"> 5705</span>std::vector&lt;helios::vec2&gt; RadiationModel::generateGaussianCameraResponse(<span class="keywordtype">float</span> FWHM, <span class="keywordtype">float</span> mu, <span class="keywordtype">float</span> centrawavelength, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1int2.html">helios::int2</a> &amp;wavebanrange){</div>
-<div class="line"><a id="l05706" name="l05706"></a><span class="lineno"> 5706</span> </div>
-<div class="line"><a id="l05707" name="l05707"></a><span class="lineno"> 5707</span>    <span class="comment">// Convert FWHM to sigma</span></div>
-<div class="line"><a id="l05708" name="l05708"></a><span class="lineno"> 5708</span>    <span class="keywordtype">float</span> sigma = FWHM / (2 * std::sqrt(2 * std::log(2)));</div>
-<div class="line"><a id="l05709" name="l05709"></a><span class="lineno"> 5709</span> </div>
-<div class="line"><a id="l05710" name="l05710"></a><span class="lineno"> 5710</span>    <span class="keywordtype">size_t</span> lenspectra = wavebanrange.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> - wavebanrange.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>;</div>
-<div class="line"><a id="l05711" name="l05711"></a><span class="lineno"> 5711</span>    std::vector&lt;helios::vec2&gt; cameraresponse(lenspectra);</div>
+<div class="line"><a id="l05679" name="l05679"></a><span class="lineno"> 5679</span> </div>
+<div class="foldopen" id="foldopen05680" data-start="{" data-end="}">
+<div class="line"><a id="l05680" name="l05680"></a><span class="lineno"><a class="line" href="class_radiation_model.html#a1da3d8b0b1654693cb1261e909612997"> 5680</a></span><span class="keywordtype">void</span> <a class="code hl_function" href="class_radiation_model.html#ab04cda35cd54937070cb63344630ada8">RadiationModel::calibrateCamera</a>(<span class="keyword">const</span> std::string &amp;originalcameralabel, <span class="keyword">const</span> <span class="keywordtype">float</span> scalefactor, <span class="keyword">const</span> std::vector&lt;std::vector&lt;float&gt;&gt; &amp;truevalues,</div>
+<div class="line"><a id="l05681" name="l05681"></a><span class="lineno"> 5681</span>                                     <span class="keyword">const</span> std::string &amp;calibratedmark) {</div>
+<div class="line"><a id="l05682" name="l05682"></a><span class="lineno"> 5682</span> </div>
+<div class="line"><a id="l05683" name="l05683"></a><span class="lineno"> 5683</span>    <span class="keywordflow">if</span>( cameras.find(originalcameralabel) == cameras.end() ){</div>
+<div class="line"><a id="l05684" name="l05684"></a><span class="lineno"> 5684</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::calibrateCamera): Camera &quot;</span> + originalcameralabel + <span class="stringliteral">&quot; does not exist.&quot;</span>);</div>
+<div class="line"><a id="l05685" name="l05685"></a><span class="lineno"> 5685</span>    }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( radiation_sources.empty() ){</div>
+<div class="line"><a id="l05686" name="l05686"></a><span class="lineno"> 5686</span>        <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::calibrateCamera): No radiation sources were added to the radiation model. Cannot perform calibration.&quot;</span>);</div>
+<div class="line"><a id="l05687" name="l05687"></a><span class="lineno"> 5687</span>    }</div>
+<div class="line"><a id="l05688" name="l05688"></a><span class="lineno"> 5688</span> </div>
+<div class="line"><a id="l05689" name="l05689"></a><span class="lineno"> 5689</span>    <a class="code hl_struct" href="struct_camera_calibration.html">CameraCalibration</a> cameracalibration_(context);</div>
+<div class="line"><a id="l05690" name="l05690"></a><span class="lineno"> 5690</span>    <span class="keywordflow">if</span> (!calibration_flag){</div>
+<div class="line"><a id="l05691" name="l05691"></a><span class="lineno"> 5691</span>        std::cout&lt;&lt; <span class="stringliteral">&quot;No color board added, use default color calibration.&quot;</span> &lt;&lt;std::endl;</div>
+<div class="line"><a id="l05692" name="l05692"></a><span class="lineno"> 5692</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> centrelocation =<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,0.2); <span class="comment">// Location of color board</span></div>
+<div class="line"><a id="l05693" name="l05693"></a><span class="lineno"> 5693</span>        <a class="code hl_struct" href="structhelios_1_1vec3.html">vec3</a> rotationrad =<a class="code hl_function" href="helios__vector__types_8h.html#aa19986ef06f067d450534135735bc36b">make_vec3</a>(0,0,1.5705); <span class="comment">// Rotation angle of color board</span></div>
+<div class="line"><a id="l05694" name="l05694"></a><span class="lineno"> 5694</span>        cameracalibration_.<a class="code hl_function" href="struct_camera_calibration.html#a4b1c43adcd27bc075327a239f31f03b8">addDefaultColorboard</a>(centrelocation, 0.1, rotationrad);</div>
+<div class="line"><a id="l05695" name="l05695"></a><span class="lineno"> 5695</span>        RadiationModel::setCameraCalibration(&amp;cameracalibration_);</div>
+<div class="line"><a id="l05696" name="l05696"></a><span class="lineno"> 5696</span>    }</div>
+<div class="line"><a id="l05697" name="l05697"></a><span class="lineno"> 5697</span> </div>
+<div class="line"><a id="l05698" name="l05698"></a><span class="lineno"> 5698</span>    <a class="code hl_struct" href="structhelios_1_1vec2.html">vec2</a> wavelengthrange = <a class="code hl_function" href="group__vectors.html#ga7e3752eb5ff9909862380d188d2b3f24">make_vec2</a>(-10000,10000);</div>
+<div class="line"><a id="l05699" name="l05699"></a><span class="lineno"> 5699</span> </div>
+<div class="line"><a id="l05700" name="l05700"></a><span class="lineno"> 5700</span>    std::vector&lt;std::string&gt; bandlabels = cameras.at(originalcameralabel).band_labels;</div>
+<div class="line"><a id="l05701" name="l05701"></a><span class="lineno"> 5701</span> </div>
+<div class="line"><a id="l05702" name="l05702"></a><span class="lineno"> 5702</span>    <span class="comment">// Get camera response spectra labels from camera</span></div>
+<div class="line"><a id="l05703" name="l05703"></a><span class="lineno"> 5703</span>    std::vector&lt;std::string&gt; cameraresplabels_cal(cameras.at(originalcameralabel).band_spectral_response.size() );</div>
+<div class="line"><a id="l05704" name="l05704"></a><span class="lineno"> 5704</span>    std::vector&lt;std::string&gt; cameraresplabels_raw = cameraresplabels_cal;</div>
+<div class="line"><a id="l05705" name="l05705"></a><span class="lineno"> 5705</span> </div>
+<div class="line"><a id="l05706" name="l05706"></a><span class="lineno"> 5706</span>    <span class="keywordtype">int</span> iband = 0;</div>
+<div class="line"><a id="l05707" name="l05707"></a><span class="lineno"> 5707</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;band : cameras.at(originalcameralabel).band_spectral_response ){</div>
+<div class="line"><a id="l05708" name="l05708"></a><span class="lineno"> 5708</span>        cameraresplabels_raw.at(iband) = band.second;</div>
+<div class="line"><a id="l05709" name="l05709"></a><span class="lineno"> 5709</span>        cameraresplabels_cal.at(iband) = calibratedmark + <span class="stringliteral">&quot;_&quot;</span> + band.second;</div>
+<div class="line"><a id="l05710" name="l05710"></a><span class="lineno"> 5710</span>        iband++;</div>
+<div class="line"><a id="l05711" name="l05711"></a><span class="lineno"> 5711</span>    }</div>
 <div class="line"><a id="l05712" name="l05712"></a><span class="lineno"> 5712</span> </div>
-<div class="line"><a id="l05713" name="l05713"></a><span class="lineno"> 5713</span> </div>
-<div class="line"><a id="l05714" name="l05714"></a><span class="lineno"> 5714</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; lenspectra; ++i) {</div>
-<div class="line"><a id="l05715" name="l05715"></a><span class="lineno"> 5715</span>        cameraresponse.at(i).x = float(wavebanrange.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i);</div>
-<div class="line"><a id="l05716" name="l05716"></a><span class="lineno"> 5716</span>    }</div>
-<div class="line"><a id="l05717" name="l05717"></a><span class="lineno"> 5717</span> </div>
-<div class="line"><a id="l05718" name="l05718"></a><span class="lineno"> 5718</span>    <span class="comment">// Gaussian function</span></div>
-<div class="line"><a id="l05719" name="l05719"></a><span class="lineno"> 5719</span>    <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; lenspectra; ++i) {</div>
-<div class="line"><a id="l05720" name="l05720"></a><span class="lineno"> 5720</span>        cameraresponse.at(i).y = centrawavelength * std::exp(-std::pow((cameraresponse.at(i).x - mu), 2) / (2 * std::pow(sigma, 2)));</div>
-<div class="line"><a id="l05721" name="l05721"></a><span class="lineno"> 5721</span>    }</div>
-<div class="line"><a id="l05722" name="l05722"></a><span class="lineno"> 5722</span> </div>
+<div class="line"><a id="l05713" name="l05713"></a><span class="lineno"> 5713</span>    <span class="comment">// Get labels of radiation sources from camera</span></div>
+<div class="line"><a id="l05714" name="l05714"></a><span class="lineno"> 5714</span>    std::vector&lt;std::string&gt; sourcelabels(radiation_sources.size());</div>
+<div class="line"><a id="l05715" name="l05715"></a><span class="lineno"> 5715</span>    <span class="keywordtype">int</span> isource = 0;</div>
+<div class="line"><a id="l05716" name="l05716"></a><span class="lineno"> 5716</span>    <span class="keywordflow">for</span>( <span class="keyword">auto</span> &amp;source : radiation_sources ){</div>
+<div class="line"><a id="l05717" name="l05717"></a><span class="lineno"> 5717</span>        <span class="keywordflow">if</span>( source.<a class="code hl_variable" href="struct_radiation_source.html#a2a5320be3f9facc5863928f81dbc8823">source_spectrum</a>.empty() ){</div>
+<div class="line"><a id="l05718" name="l05718"></a><span class="lineno"> 5718</span>            <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (RadiationModel::calibrateCamera): A spectral distribution was not specified for source &quot;</span> + source.source_spectrum_label + <span class="stringliteral">&quot;. Cannot perform camera calibration.&quot;</span>);</div>
+<div class="line"><a id="l05719" name="l05719"></a><span class="lineno"> 5719</span>        }</div>
+<div class="line"><a id="l05720" name="l05720"></a><span class="lineno"> 5720</span>        sourcelabels.at(isource) = source.source_spectrum_label;</div>
+<div class="line"><a id="l05721" name="l05721"></a><span class="lineno"> 5721</span>        isource++;</div>
+<div class="line"><a id="l05722" name="l05722"></a><span class="lineno"> 5722</span>    }</div>
 <div class="line"><a id="l05723" name="l05723"></a><span class="lineno"> 5723</span> </div>
-<div class="line"><a id="l05724" name="l05724"></a><span class="lineno"> 5724</span>    <span class="keywordflow">return</span> cameraresponse;</div>
-<div class="line"><a id="l05725" name="l05725"></a><span class="lineno"> 5725</span>}</div>
-<div class="line"><a id="l05726" name="l05726"></a><span class="lineno"> 5726</span> </div>
-<div class="foldopen" id="foldopen05727" data-start="{" data-end="}">
-<div class="line"><a id="l05727" name="l05727"></a><span class="lineno"><a class="line" href="_radiation_model_8h.html#a2d93cfc62b5e610b18411a9e87547f81"> 5727</a></span><span class="keywordtype">bool</span> <a class="code hl_function" href="_radiation_model_8cpp.html#a2d93cfc62b5e610b18411a9e87547f81">validateOutputPath</a>(std::ostringstream &amp;output_directory){</div>
+<div class="line"><a id="l05724" name="l05724"></a><span class="lineno"> 5724</span>    <a class="code hl_function" href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a>();</div>
+<div class="line"><a id="l05725" name="l05725"></a><span class="lineno"> 5725</span>    <a class="code hl_function" href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a>(bandlabels);</div>
+<div class="line"><a id="l05726" name="l05726"></a><span class="lineno"> 5726</span>    <span class="comment">// Update camera responses</span></div>
+<div class="line"><a id="l05727" name="l05727"></a><span class="lineno"> 5727</span>    <a class="code hl_function" href="class_radiation_model.html#afabb4e1a6c8c67ccc9c68aab7dfd07e3">RadiationModel::updateCameraResponse</a>(originalcameralabel, sourcelabels, cameraresplabels_raw, wavelengthrange, truevalues, calibratedmark);</div>
 <div class="line"><a id="l05728" name="l05728"></a><span class="lineno"> 5728</span> </div>
-<div class="line"><a id="l05729" name="l05729"></a><span class="lineno"> 5729</span>    <span class="comment">// Make sure directory has a trailing slash</span></div>
-<div class="line"><a id="l05730" name="l05730"></a><span class="lineno"> 5730</span>    <span class="keywordflow">if</span>( output_directory.str().find_last_of(<span class="charliteral">&#39;/&#39;</span>)!=output_directory.str().length()-1 ) {</div>
-<div class="line"><a id="l05731" name="l05731"></a><span class="lineno"> 5731</span>        output_directory &lt;&lt; <span class="stringliteral">&quot;/&quot;</span>;</div>
-<div class="line"><a id="l05732" name="l05732"></a><span class="lineno"> 5732</span>    }</div>
-<div class="line"><a id="l05733" name="l05733"></a><span class="lineno"> 5733</span> </div>
-<div class="line"><a id="l05734" name="l05734"></a><span class="lineno"> 5734</span>    <span class="comment">// Create the output directory if it does not exist</span></div>
-<div class="line"><a id="l05735" name="l05735"></a><span class="lineno"> 5735</span>    <span class="keywordflow">if</span>( !std::filesystem::exists(output_directory.str()) ){</div>
-<div class="line"><a id="l05736" name="l05736"></a><span class="lineno"> 5736</span>        <span class="keywordflow">if</span>( !std::filesystem::create_directory(output_directory.str()) ){</div>
-<div class="line"><a id="l05737" name="l05737"></a><span class="lineno"> 5737</span>            <span class="keywordflow">return</span> <span class="keyword">false</span>;</div>
-<div class="line"><a id="l05738" name="l05738"></a><span class="lineno"> 5738</span>        }</div>
-<div class="line"><a id="l05739" name="l05739"></a><span class="lineno"> 5739</span>    }</div>
-<div class="line"><a id="l05740" name="l05740"></a><span class="lineno"> 5740</span> </div>
-<div class="line"><a id="l05741" name="l05741"></a><span class="lineno"> 5741</span>    <span class="keywordflow">return</span> <span class="keyword">true</span>;</div>
-<div class="line"><a id="l05742" name="l05742"></a><span class="lineno"> 5742</span> </div>
-<div class="line"><a id="l05743" name="l05743"></a><span class="lineno"> 5743</span>}</div>
+<div class="line"><a id="l05729" name="l05729"></a><span class="lineno"> 5729</span>    <span class="keywordtype">float</span> camerascale = <a class="code hl_function" href="class_radiation_model.html#adb5a74547d51a18018d3daeba0ec5f3c">RadiationModel::getCameraResponseScale</a>(originalcameralabel, cameraresplabels_cal, bandlabels,sourcelabels, wavelengthrange, truevalues);</div>
+<div class="line"><a id="l05730" name="l05730"></a><span class="lineno"> 5730</span> </div>
+<div class="line"><a id="l05731" name="l05731"></a><span class="lineno"> 5731</span>    std::cout &lt;&lt; <span class="stringliteral">&quot;Camera response scale: &quot;</span> &lt;&lt; camerascale &lt;&lt; std::endl;</div>
+<div class="line"><a id="l05732" name="l05732"></a><span class="lineno"> 5732</span>    <span class="comment">// Scale and write calibrated camera responses</span></div>
+<div class="line"><a id="l05733" name="l05733"></a><span class="lineno"> 5733</span>    cameracalibration-&gt;<a class="code hl_function" href="struct_camera_calibration.html#a148bdc83d9f7a3d564a3aa10793a5d70">writeCalibratedCameraResponses</a>(cameraresplabels_raw, calibratedmark, camerascale*scalefactor);</div>
+<div class="line"><a id="l05734" name="l05734"></a><span class="lineno"> 5734</span> </div>
+<div class="line"><a id="l05735" name="l05735"></a><span class="lineno"> 5735</span>}</div>
 </div>
+<div class="line"><a id="l05736" name="l05736"></a><span class="lineno"> 5736</span> </div>
+<div class="line"><a id="l05737" name="l05737"></a><span class="lineno"> 5737</span>std::vector&lt;helios::vec2&gt; RadiationModel::generateGaussianCameraResponse(<span class="keywordtype">float</span> FWHM, <span class="keywordtype">float</span> mu, <span class="keywordtype">float</span> centrawavelength, <span class="keyword">const</span> <a class="code hl_struct" href="structhelios_1_1int2.html">helios::int2</a> &amp;wavebanrange){</div>
+<div class="line"><a id="l05738" name="l05738"></a><span class="lineno"> 5738</span> </div>
+<div class="line"><a id="l05739" name="l05739"></a><span class="lineno"> 5739</span>    <span class="comment">// Convert FWHM to sigma</span></div>
+<div class="line"><a id="l05740" name="l05740"></a><span class="lineno"> 5740</span>    <span class="keywordtype">float</span> sigma = FWHM / (2 * std::sqrt(2 * std::log(2)));</div>
+<div class="line"><a id="l05741" name="l05741"></a><span class="lineno"> 5741</span> </div>
+<div class="line"><a id="l05742" name="l05742"></a><span class="lineno"> 5742</span>    <span class="keywordtype">size_t</span> lenspectra = wavebanrange.<a class="code hl_variable" href="structhelios_1_1int2.html#a369861259a6061aa4287f954238e1e21">y</a> - wavebanrange.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a>;</div>
+<div class="line"><a id="l05743" name="l05743"></a><span class="lineno"> 5743</span>    std::vector&lt;helios::vec2&gt; cameraresponse(lenspectra);</div>
 <div class="line"><a id="l05744" name="l05744"></a><span class="lineno"> 5744</span> </div>
-<div class="line"><a id="l05745" name="l05745"></a><span class="lineno"> 5745</span><span class="keywordtype">void</span> sutilHandleError(RTcontext context, RTresult code, <span class="keyword">const</span> <span class="keywordtype">char</span>* file, <span class="keywordtype">int</span> line)</div>
-<div class="line"><a id="l05746" name="l05746"></a><span class="lineno"> 5746</span>{</div>
-<div class="line"><a id="l05747" name="l05747"></a><span class="lineno"> 5747</span>    <span class="keyword">const</span> <span class="keywordtype">char</span>* message;</div>
-<div class="line"><a id="l05748" name="l05748"></a><span class="lineno"> 5748</span>    <span class="keywordtype">char</span> s[2048];</div>
-<div class="line"><a id="l05749" name="l05749"></a><span class="lineno"> 5749</span>    rtContextGetErrorString(context, code, &amp;message);</div>
-<div class="line"><a id="l05750" name="l05750"></a><span class="lineno"> 5750</span>    sprintf(s, <span class="stringliteral">&quot;%s\n(%s:%d)&quot;</span>, message, file, line);</div>
-<div class="line"><a id="l05751" name="l05751"></a><span class="lineno"> 5751</span>    sutilReportError( s );</div>
-<div class="line"><a id="l05752" name="l05752"></a><span class="lineno"> 5752</span>    exit(1);</div>
-<div class="line"><a id="l05753" name="l05753"></a><span class="lineno"> 5753</span>}</div>
+<div class="line"><a id="l05745" name="l05745"></a><span class="lineno"> 5745</span> </div>
+<div class="line"><a id="l05746" name="l05746"></a><span class="lineno"> 5746</span>    <span class="keywordflow">for</span> (<span class="keywordtype">int</span> i = 0; i &lt; lenspectra; ++i) {</div>
+<div class="line"><a id="l05747" name="l05747"></a><span class="lineno"> 5747</span>        cameraresponse.at(i).x = float(wavebanrange.<a class="code hl_variable" href="structhelios_1_1int2.html#ae14968ab74816df03efc977bb5d7b9c7">x</a> + i);</div>
+<div class="line"><a id="l05748" name="l05748"></a><span class="lineno"> 5748</span>    }</div>
+<div class="line"><a id="l05749" name="l05749"></a><span class="lineno"> 5749</span> </div>
+<div class="line"><a id="l05750" name="l05750"></a><span class="lineno"> 5750</span>    <span class="comment">// Gaussian function</span></div>
+<div class="line"><a id="l05751" name="l05751"></a><span class="lineno"> 5751</span>    <span class="keywordflow">for</span> (<span class="keywordtype">size_t</span> i = 0; i &lt; lenspectra; ++i) {</div>
+<div class="line"><a id="l05752" name="l05752"></a><span class="lineno"> 5752</span>        cameraresponse.at(i).y = centrawavelength * std::exp(-std::pow((cameraresponse.at(i).x - mu), 2) / (2 * std::pow(sigma, 2)));</div>
+<div class="line"><a id="l05753" name="l05753"></a><span class="lineno"> 5753</span>    }</div>
 <div class="line"><a id="l05754" name="l05754"></a><span class="lineno"> 5754</span> </div>
-<div class="line"><a id="l05755" name="l05755"></a><span class="lineno"> 5755</span><span class="keywordtype">void</span> sutilReportError(<span class="keyword">const</span> <span class="keywordtype">char</span>* message)</div>
-<div class="line"><a id="l05756" name="l05756"></a><span class="lineno"> 5756</span>{</div>
-<div class="line"><a id="l05757" name="l05757"></a><span class="lineno"> 5757</span>    fprintf( stderr, <span class="stringliteral">&quot;OptiX Error: %s\n&quot;</span>, message );</div>
-<div class="line"><a id="l05758" name="l05758"></a><span class="lineno"> 5758</span><span class="preprocessor">#if defined(_WIN32) &amp;&amp; defined(RELEASE_PUBLIC)</span></div>
-<div class="line"><a id="l05759" name="l05759"></a><span class="lineno"> 5759</span>    {</div>
-<div class="line"><a id="l05760" name="l05760"></a><span class="lineno"> 5760</span>    <span class="keywordtype">char</span> s[2048];</div>
-<div class="line"><a id="l05761" name="l05761"></a><span class="lineno"> 5761</span>    sprintf( s, <span class="stringliteral">&quot;OptiX Error: %s&quot;</span>, message );</div>
-<div class="line"><a id="l05762" name="l05762"></a><span class="lineno"> 5762</span>    MessageBox( 0, s, <span class="stringliteral">&quot;OptiX Error&quot;</span>, MB_OK|MB_ICONWARNING|MB_SYSTEMMODAL );</div>
-<div class="line"><a id="l05763" name="l05763"></a><span class="lineno"> 5763</span>  }</div>
-<div class="line"><a id="l05764" name="l05764"></a><span class="lineno"> 5764</span><span class="preprocessor">#endif</span></div>
-<div class="line"><a id="l05765" name="l05765"></a><span class="lineno"> 5765</span>}</div>
+<div class="line"><a id="l05755" name="l05755"></a><span class="lineno"> 5755</span> </div>
+<div class="line"><a id="l05756" name="l05756"></a><span class="lineno"> 5756</span>    <span class="keywordflow">return</span> cameraresponse;</div>
+<div class="line"><a id="l05757" name="l05757"></a><span class="lineno"> 5757</span>}</div>
+<div class="line"><a id="l05758" name="l05758"></a><span class="lineno"> 5758</span> </div>
+<div class="line"><a id="l05759" name="l05759"></a><span class="lineno"> 5759</span><span class="keywordtype">void</span> sutilHandleError(RTcontext context, RTresult code, <span class="keyword">const</span> <span class="keywordtype">char</span>* file, <span class="keywordtype">int</span> line)</div>
+<div class="line"><a id="l05760" name="l05760"></a><span class="lineno"> 5760</span>{</div>
+<div class="line"><a id="l05761" name="l05761"></a><span class="lineno"> 5761</span>    <span class="keyword">const</span> <span class="keywordtype">char</span>* message;</div>
+<div class="line"><a id="l05762" name="l05762"></a><span class="lineno"> 5762</span>    <span class="keywordtype">char</span> s[2048];</div>
+<div class="line"><a id="l05763" name="l05763"></a><span class="lineno"> 5763</span>    rtContextGetErrorString(context, code, &amp;message);</div>
+<div class="line"><a id="l05764" name="l05764"></a><span class="lineno"> 5764</span>    sprintf(s, <span class="stringliteral">&quot;%s\n(%s:%d)&quot;</span>, message, file, line);</div>
+<div class="line"><a id="l05765" name="l05765"></a><span class="lineno"> 5765</span>    sutilReportError( s );</div>
+<div class="line"><a id="l05766" name="l05766"></a><span class="lineno"> 5766</span>    exit(1);</div>
+<div class="line"><a id="l05767" name="l05767"></a><span class="lineno"> 5767</span>}</div>
+<div class="line"><a id="l05768" name="l05768"></a><span class="lineno"> 5768</span> </div>
+<div class="line"><a id="l05769" name="l05769"></a><span class="lineno"> 5769</span><span class="keywordtype">void</span> sutilReportError(<span class="keyword">const</span> <span class="keywordtype">char</span>* message)</div>
+<div class="line"><a id="l05770" name="l05770"></a><span class="lineno"> 5770</span>{</div>
+<div class="line"><a id="l05771" name="l05771"></a><span class="lineno"> 5771</span>    fprintf( stderr, <span class="stringliteral">&quot;OptiX Error: %s\n&quot;</span>, message );</div>
+<div class="line"><a id="l05772" name="l05772"></a><span class="lineno"> 5772</span><span class="preprocessor">#if defined(_WIN32) &amp;&amp; defined(RELEASE_PUBLIC)</span></div>
+<div class="line"><a id="l05773" name="l05773"></a><span class="lineno"> 5773</span>    {</div>
+<div class="line"><a id="l05774" name="l05774"></a><span class="lineno"> 5774</span>    <span class="keywordtype">char</span> s[2048];</div>
+<div class="line"><a id="l05775" name="l05775"></a><span class="lineno"> 5775</span>    sprintf( s, <span class="stringliteral">&quot;OptiX Error: %s&quot;</span>, message );</div>
+<div class="line"><a id="l05776" name="l05776"></a><span class="lineno"> 5776</span>    MessageBox( 0, s, <span class="stringliteral">&quot;OptiX Error&quot;</span>, MB_OK|MB_ICONWARNING|MB_SYSTEMMODAL );</div>
+<div class="line"><a id="l05777" name="l05777"></a><span class="lineno"> 5777</span>  }</div>
+<div class="line"><a id="l05778" name="l05778"></a><span class="lineno"> 5778</span><span class="preprocessor">#endif</span></div>
+<div class="line"><a id="l05779" name="l05779"></a><span class="lineno"> 5779</span>}</div>
 <div class="ttc" id="a_context_8h_html_a935eb2a4249411a8f376a27820c70de3"><div class="ttname"><a href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3">helios::HeliosDataType</a></div><div class="ttdeci">HeliosDataType</div><div class="ttdoc">Data types.</div><div class="ttdef"><b>Definition</b> <a href="_context_8h_source.html#l00041">Context.h:41</a></div></div>
 <div class="ttc" id="a_context_8h_html_a935eb2a4249411a8f376a27820c70de3a520daf05a1b3086aabd6cbe6a712c1c3"><div class="ttname"><a href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a520daf05a1b3086aabd6cbe6a712c1c3">helios::HELIOS_TYPE_DOUBLE</a></div><div class="ttdeci">@ HELIOS_TYPE_DOUBLE</div><div class="ttdoc">double data type</div><div class="ttdef"><b>Definition</b> <a href="_context_8h_source.html#l00049">Context.h:49</a></div></div>
 <div class="ttc" id="a_context_8h_html_a935eb2a4249411a8f376a27820c70de3a6269d91d936a3d60a8a763ec122ba233"><div class="ttname"><a href="_context_8h.html#a935eb2a4249411a8f376a27820c70de3a6269d91d936a3d60a8a763ec122ba233">helios::HELIOS_TYPE_VEC2</a></div><div class="ttdeci">@ HELIOS_TYPE_VEC2</div><div class="ttdoc">helios::vec2 data type</div><div class="ttdef"><b>Definition</b> <a href="_context_8h_source.html#l00051">Context.h:51</a></div></div>
@@ -6064,13 +6076,11 @@
 <div class="ttc" id="a_context_8h_html_aa2778fcacd9c556a5ce0d9de2ffc1601a963e2e943d9bd4d5c4648473802cf78c"><div class="ttname"><a href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601a963e2e943d9bd4d5c4648473802cf78c">helios::PRIMITIVE_TYPE_VOXEL</a></div><div class="ttdeci">@ PRIMITIVE_TYPE_VOXEL</div><div class="ttdoc">Rectangular prism primitive.</div><div class="ttdef"><b>Definition</b> <a href="_context_8h_source.html#l00038">Context.h:37</a></div></div>
 <div class="ttc" id="a_context_8h_html_aa2778fcacd9c556a5ce0d9de2ffc1601aeed8005c1692d92beefcbafe8147207c"><div class="ttname"><a href="_context_8h.html#aa2778fcacd9c556a5ce0d9de2ffc1601aeed8005c1692d92beefcbafe8147207c">helios::PRIMITIVE_TYPE_TRIANGLE</a></div><div class="ttdeci">@ PRIMITIVE_TYPE_TRIANGLE</div><div class="ttdoc">&lt; Triangular primitive</div><div class="ttdef"><b>Definition</b> <a href="_context_8h_source.html#l00035">Context.h:35</a></div></div>
 <div class="ttc" id="a_context_8h_html_ad0894682f41916c84c2026b3cb8ac682aed347b5fb08bc5551b61310a964f0bde"><div class="ttname"><a href="_context_8h.html#ad0894682f41916c84c2026b3cb8ac682aed347b5fb08bc5551b61310a964f0bde">helios::OBJECT_TYPE_TILE</a></div><div class="ttdeci">@ OBJECT_TYPE_TILE</div><div class="ttdoc">&lt; Tile</div><div class="ttdef"><b>Definition</b> <a href="_context_8h_source.html#l00130">Context.h:130</a></div></div>
-<div class="ttc" id="a_radiation_model_8cpp_html_a2d93cfc62b5e610b18411a9e87547f81"><div class="ttname"><a href="_radiation_model_8cpp.html#a2d93cfc62b5e610b18411a9e87547f81">validateOutputPath</a></div><div class="ttdeci">bool validateOutputPath(std::ostringstream &amp;output_directory)</div><div class="ttdoc">Validates the file path for output file writing by 1) making sure the directory string has a trailing...</div><div class="ttdef"><b>Definition</b> <a href="#l05727">RadiationModel.cpp:5727</a></div></div>
 <div class="ttc" id="a_radiation_model_8h_html"><div class="ttname"><a href="_radiation_model_8h.html">RadiationModel.h</a></div></div>
-<div class="ttc" id="a_radiation_model_8h_html_a2d93cfc62b5e610b18411a9e87547f81"><div class="ttname"><a href="_radiation_model_8h.html#a2d93cfc62b5e610b18411a9e87547f81">validateOutputPath</a></div><div class="ttdeci">bool validateOutputPath(std::ostringstream &amp;output_directory)</div><div class="ttdoc">Validates the file path for output file writing by 1) making sure the directory string has a trailing...</div><div class="ttdef"><b>Definition</b> <a href="#l05727">RadiationModel.cpp:5727</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a0b67b056aa1f2b5e6c42a06e358f4eb8"><div class="ttname"><a href="class_radiation_model.html#a0b67b056aa1f2b5e6c42a06e358f4eb8">RadiationModel::getCameraOrientation</a></div><div class="ttdeci">helios::SphericalCoord getCameraOrientation(const std::string &amp;camera_label) const</div><div class="ttdoc">Get the orientation of the radiation camera based on a spherical coordinate.</div><div class="ttdef"><b>Definition</b> <a href="#l01271">RadiationModel.cpp:1271</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a0d07935957cc6651d38a621513581189"><div class="ttname"><a href="class_radiation_model.html#a0d07935957cc6651d38a621513581189">RadiationModel::setSourceSpectrumIntegral</a></div><div class="ttdeci">void setSourceSpectrumIntegral(uint source_ID, float source_integral)</div><div class="ttdoc">Set the integral of the source spectral flux distribution across all possible wavelengths (=∫Sdλ)</div><div class="ttdef"><b>Definition</b> <a href="#l00471">RadiationModel.cpp:471</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a1078def47ddf309e01c908a775c1ecd4"><div class="ttname"><a href="class_radiation_model.html#a1078def47ddf309e01c908a775c1ecd4">RadiationModel::deleteRadiationSource</a></div><div class="ttdeci">void deleteRadiationSource(uint sourceID)</div><div class="ttdoc">Delete an existing radiation source (any type)</div><div class="ttdef"><b>Definition</b> <a href="#l00461">RadiationModel.cpp:461</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a12d9870f22e5f3719baa7fde8e07fb0a"><div class="ttname"><a href="class_radiation_model.html#a12d9870f22e5f3719baa7fde8e07fb0a">RadiationModel::calculateGtheta</a></div><div class="ttdeci">float calculateGtheta(helios::Context *context, helios::vec3 view_direction)</div><div class="ttdoc">Calculate G(theta) (i.e., projected area fraction) for a group of primitives given a certain viewing ...</div><div class="ttdef"><b>Definition</b> <a href="#l04820">RadiationModel.cpp:4820</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a12d9870f22e5f3719baa7fde8e07fb0a"><div class="ttname"><a href="class_radiation_model.html#a12d9870f22e5f3719baa7fde8e07fb0a">RadiationModel::calculateGtheta</a></div><div class="ttdeci">float calculateGtheta(helios::Context *context, helios::vec3 view_direction)</div><div class="ttdoc">Calculate G(theta) (i.e., projected area fraction) for a group of primitives given a certain viewing ...</div><div class="ttdef"><b>Definition</b> <a href="#l04828">RadiationModel.cpp:4828</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a173a9cb77b4dfda7a008267d6331b7b7"><div class="ttname"><a href="class_radiation_model.html#a173a9cb77b4dfda7a008267d6331b7b7">RadiationModel::disableMessages</a></div><div class="ttdeci">void disableMessages()</div><div class="ttdoc">Disable/silence status messages.</div><div class="ttdef"><b>Definition</b> <a href="#l00054">RadiationModel.cpp:54</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a1ea2acedb464217f1acc38f0e05d353f"><div class="ttname"><a href="class_radiation_model.html#a1ea2acedb464217f1acc38f0e05d353f">RadiationModel::setCameraSpectralResponse</a></div><div class="ttdeci">void setCameraSpectralResponse(const std::string &amp;camera_label, const std::string &amp;band_label, const std::string &amp;global_data)</div><div class="ttdoc">Set the spectral response of a camera band based on reference to global data. This function version u...</div><div class="ttdef"><b>Definition</b> <a href="#l01199">RadiationModel.cpp:1199</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a2fa24d994612857ddc889e705b0444b1"><div class="ttname"><a href="class_radiation_model.html#a2fa24d994612857ddc889e705b0444b1">RadiationModel::setSourceFlux</a></div><div class="ttdeci">void setSourceFlux(uint source_ID, const std::string &amp;band_label, float flux)</div><div class="ttdoc">Set the flux of radiation source for this band.</div><div class="ttdef"><b>Definition</b> <a href="#l00508">RadiationModel.cpp:508</a></div></div>
@@ -6084,36 +6094,36 @@
 <div class="ttc" id="aclass_radiation_model_html_a47c0fce1e3ee937cd53f7380b6002c69"><div class="ttname"><a href="class_radiation_model.html#a47c0fce1e3ee937cd53f7380b6002c69">RadiationModel::integrateSpectrum</a></div><div class="ttdeci">float integrateSpectrum(const std::vector&lt; helios::vec2 &gt; &amp;object_spectrum, float wavelength1, float wavelength2) const</div><div class="ttdoc">Integrate a spectral distribution between two wavelength bounds.</div><div class="ttdef"><b>Definition</b> <a href="#l00835">RadiationModel.cpp:835</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a48c6ea6e90806e3c4942348996c29391"><div class="ttname"><a href="class_radiation_model.html#a48c6ea6e90806e3c4942348996c29391">RadiationModel::setDirectRayCount</a></div><div class="ttdeci">void setDirectRayCount(const std::string &amp;label, size_t N)</div><div class="ttdoc">Sets variable directRayCount, the number of rays to be used in direct radiation model.</div><div class="ttdef"><b>Definition</b> <a href="#l00072">RadiationModel.cpp:72</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a516dafe4d898ad38af6f5bc23bdfb4d8"><div class="ttname"><a href="class_radiation_model.html#a516dafe4d898ad38af6f5bc23bdfb4d8">RadiationModel::copyRadiationBand</a></div><div class="ttdeci">void copyRadiationBand(const std::string &amp;old_label, const std::string &amp;new_label)</div><div class="ttdoc">Copy a spectral radiation band based on a previously created band.</div><div class="ttdef"><b>Definition</b> <a href="#l00230">RadiationModel.cpp:230</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a546c959be8d158f17ab1cb9ada0ebe6d"><div class="ttname"><a href="class_radiation_model.html#a546c959be8d158f17ab1cb9ada0ebe6d">RadiationModel::writeCameraImageData</a></div><div class="ttdeci">void writeCameraImageData(const std::string &amp;camera, const std::string &amp;band, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1)</div><div class="ttdoc">Write camera data for one band to an ASCII text file.</div><div class="ttdef"><b>Definition</b> <a href="#l01420">RadiationModel.cpp:1420</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a59db63fb5cf7d82ab641f636378923fd"><div class="ttname"><a href="class_radiation_model.html#a59db63fb5cf7d82ab641f636378923fd">RadiationModel::writeImageBoundingBoxes</a></div><div class="ttdeci">void writeImageBoundingBoxes(const std::string &amp;cameralabel, const std::string &amp;primitive_data_label, uint object_class_ID, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, bool append_label_file=false, int frame=-1)</div><div class="ttdoc">Write bounding boxes based on primitive data labels (Ultralytic's YOLO format). Primitive data must h...</div><div class="ttdef"><b>Definition</b> <a href="#l05368">RadiationModel.cpp:5368</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a546c959be8d158f17ab1cb9ada0ebe6d"><div class="ttname"><a href="class_radiation_model.html#a546c959be8d158f17ab1cb9ada0ebe6d">RadiationModel::writeCameraImageData</a></div><div class="ttdeci">void writeCameraImageData(const std::string &amp;camera, const std::string &amp;band, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1)</div><div class="ttdoc">Write camera data for one band to an ASCII text file.</div><div class="ttdef"><b>Definition</b> <a href="#l01424">RadiationModel.cpp:1424</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a59db63fb5cf7d82ab641f636378923fd"><div class="ttname"><a href="class_radiation_model.html#a59db63fb5cf7d82ab641f636378923fd">RadiationModel::writeImageBoundingBoxes</a></div><div class="ttdeci">void writeImageBoundingBoxes(const std::string &amp;cameralabel, const std::string &amp;primitive_data_label, uint object_class_ID, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, bool append_label_file=false, int frame=-1)</div><div class="ttdoc">Write bounding boxes based on primitive data labels (Ultralytic's YOLO format). Primitive data must h...</div><div class="ttdef"><b>Definition</b> <a href="#l05392">RadiationModel.cpp:5392</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a5a4c7643cb05be9f7f893d65dee33dc2"><div class="ttname"><a href="class_radiation_model.html#a5a4c7643cb05be9f7f893d65dee33dc2">RadiationModel::enableLightModelVisualization</a></div><div class="ttdeci">void enableLightModelVisualization()</div><div class="ttdoc">Add a 3D model of the light source (rectangular, disk, and sphere) to the Context for visualization p...</div><div class="ttdef"><b>Definition</b> <a href="#l00665">RadiationModel.cpp:665</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a5e95e775550a2000798a97b00857bdd2"><div class="ttname"><a href="class_radiation_model.html#a5e95e775550a2000798a97b00857bdd2">RadiationModel::getTotalAbsorbedFlux</a></div><div class="ttdeci">std::vector&lt; float &gt; getTotalAbsorbedFlux()</div><div class="ttdoc">Get the total absorbed radiation flux summed over all bands for each primitive.</div><div class="ttdef"><b>Definition</b> <a href="#l03721">RadiationModel.cpp:3721</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a61abdff90fd75f3ebebc6b8f189cdac9"><div class="ttname"><a href="class_radiation_model.html#a61abdff90fd75f3ebebc6b8f189cdac9">RadiationModel::writeNormCameraImage</a></div><div class="ttdeci">void writeNormCameraImage(const std::string &amp;camera, const std::vector&lt; std::string &gt; &amp;bands, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1)</div><div class="ttdoc">Write normalized camera data (maximum value is 1) for one or more bands to a JPEG image.</div><div class="ttdef"><b>Definition</b> <a href="#l01386">RadiationModel.cpp:1386</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a633d84a823ad4cd99495a06afc13d7a3"><div class="ttname"><a href="class_radiation_model.html#a633d84a823ad4cd99495a06afc13d7a3">RadiationModel::writeNormDepthImage</a></div><div class="ttdeci">void writeNormDepthImage(const std::string &amp;cameralabel, const std::string &amp;imagefile_base, float max_depth, const std::string &amp;image_path=&quot;./&quot;, int frame=-1)</div><div class="ttdoc">Write depth image file, with grayscale normalized to the minimum and maximum depth values.</div><div class="ttdef"><b>Definition</b> <a href="#l05301">RadiationModel.cpp:5301</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a5e95e775550a2000798a97b00857bdd2"><div class="ttname"><a href="class_radiation_model.html#a5e95e775550a2000798a97b00857bdd2">RadiationModel::getTotalAbsorbedFlux</a></div><div class="ttdeci">std::vector&lt; float &gt; getTotalAbsorbedFlux()</div><div class="ttdoc">Get the total absorbed radiation flux summed over all bands for each primitive.</div><div class="ttdef"><b>Definition</b> <a href="#l03729">RadiationModel.cpp:3729</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a61abdff90fd75f3ebebc6b8f189cdac9"><div class="ttname"><a href="class_radiation_model.html#a61abdff90fd75f3ebebc6b8f189cdac9">RadiationModel::writeNormCameraImage</a></div><div class="ttdeci">void writeNormCameraImage(const std::string &amp;camera, const std::vector&lt; std::string &gt; &amp;bands, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1)</div><div class="ttdoc">Write normalized camera data (maximum value is 1) for one or more bands to a JPEG image.</div><div class="ttdef"><b>Definition</b> <a href="#l01390">RadiationModel.cpp:1390</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a633d84a823ad4cd99495a06afc13d7a3"><div class="ttname"><a href="class_radiation_model.html#a633d84a823ad4cd99495a06afc13d7a3">RadiationModel::writeNormDepthImage</a></div><div class="ttdeci">void writeNormDepthImage(const std::string &amp;cameralabel, const std::string &amp;imagefile_base, float max_depth, const std::string &amp;image_path=&quot;./&quot;, int frame=-1)</div><div class="ttdoc">Write depth image file, with grayscale normalized to the minimum and maximum depth values.</div><div class="ttdef"><b>Definition</b> <a href="#l05321">RadiationModel.cpp:5321</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a6785deae272a9464920030fc3f124bc3"><div class="ttname"><a href="class_radiation_model.html#a6785deae272a9464920030fc3f124bc3">RadiationModel::getCameraPosition</a></div><div class="ttdeci">helios::vec3 getCameraPosition(const std::string &amp;camera_label) const</div><div class="ttdoc">Get the position of the radiation camera.</div><div class="ttdef"><b>Definition</b> <a href="#l01225">RadiationModel.cpp:1225</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a68adae041b6d017cc640ff90a2648f02"><div class="ttname"><a href="class_radiation_model.html#a68adae041b6d017cc640ff90a2648f02">RadiationModel::setMinScatterEnergy</a></div><div class="ttdeci">void setMinScatterEnergy(const std::string &amp;label, uint energy)</div><div class="ttdoc">Set the energy threshold used to terminate scattering iterations. Scattering iterations are terminate...</div><div class="ttdef"><b>Definition</b> <a href="#l01130">RadiationModel.cpp:1130</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a68c8736e58c7daf440ff9c93bb00522d"><div class="ttname"><a href="class_radiation_model.html#a68c8736e58c7daf440ff9c93bb00522d">RadiationModel::getCameraLookat</a></div><div class="ttdeci">helios::vec3 getCameraLookat(const std::string &amp;camera_label) const</div><div class="ttdoc">Get the position the radiation camera is pointed toward (used to calculate camera orientation)</div><div class="ttdef"><b>Definition</b> <a href="#l01248">RadiationModel.cpp:1248</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a697a43f3706fe60094dab0e525b370f8"><div class="ttname"><a href="class_radiation_model.html#a697a43f3706fe60094dab0e525b370f8">RadiationModel::disableCameraModelVisualization</a></div><div class="ttdeci">void disableCameraModelVisualization()</div><div class="ttdoc">Remove the 3D model of the camera from the Context.</div><div class="ttdef"><b>Definition</b> <a href="#l00692">RadiationModel.cpp:692</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a6b733f931af8bed3bf13452d971d5c29"><div class="ttname"><a href="class_radiation_model.html#a6b733f931af8bed3bf13452d971d5c29">RadiationModel::setDiffuseSpectrumIntegral</a></div><div class="ttdeci">void setDiffuseSpectrumIntegral(float spectrum_integral)</div><div class="ttdoc">Set the integral of the diffuse spectral flux distribution across all possible wavelengths FOR ALL EX...</div><div class="ttdef"><b>Definition</b> <a href="#l00132">RadiationModel.cpp:132</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a6d2c7374b0de7f50b1857b95c606182f"><div class="ttname"><a href="class_radiation_model.html#a6d2c7374b0de7f50b1857b95c606182f">RadiationModel::setScatteringDepth</a></div><div class="ttdeci">void setScatteringDepth(const std::string &amp;label, uint depth)</div><div class="ttdoc">Set the number of scattering iterations for a certain band.</div><div class="ttdef"><b>Definition</b> <a href="#l01121">RadiationModel.cpp:1121</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a728c89b679cfcb957567b43e52023baf"><div class="ttname"><a href="class_radiation_model.html#a728c89b679cfcb957567b43e52023baf">RadiationModel::runRadiationImaging</a></div><div class="ttdeci">void runRadiationImaging(const std::string &amp;cameralabel, const std::vector&lt; std::string &gt; &amp;sourcelabels, const std::vector&lt; std::string &gt; &amp;bandlabels, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, helios::vec2 wavelengthrange, float fluxscale=1, float diffusefactor=0.0005, uint scatteringdepth=4)</div><div class="ttdoc">Run radiation imaging simulation.</div><div class="ttdef"><b>Definition</b> <a href="#l04966">RadiationModel.cpp:4966</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a73fac0b01c685471de95cd7bdfb5ef7b"><div class="ttname"><a href="class_radiation_model.html#a73fac0b01c685471de95cd7bdfb5ef7b">RadiationModel::setPadValue</a></div><div class="ttdeci">void setPadValue(const std::string &amp;cameralabel, const std::vector&lt; std::string &gt; &amp;bandlabels, const std::vector&lt; float &gt; &amp;padvalues)</div><div class="ttdoc">Set padding value for pixels do not have valid values.</div><div class="ttdef"><b>Definition</b> <a href="#l05587">RadiationModel.cpp:5587</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a728c89b679cfcb957567b43e52023baf"><div class="ttname"><a href="class_radiation_model.html#a728c89b679cfcb957567b43e52023baf">RadiationModel::runRadiationImaging</a></div><div class="ttdeci">void runRadiationImaging(const std::string &amp;cameralabel, const std::vector&lt; std::string &gt; &amp;sourcelabels, const std::vector&lt; std::string &gt; &amp;bandlabels, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, helios::vec2 wavelengthrange, float fluxscale=1, float diffusefactor=0.0005, uint scatteringdepth=4)</div><div class="ttdoc">Run radiation imaging simulation.</div><div class="ttdef"><b>Definition</b> <a href="#l04974">RadiationModel.cpp:4974</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a73fac0b01c685471de95cd7bdfb5ef7b"><div class="ttname"><a href="class_radiation_model.html#a73fac0b01c685471de95cd7bdfb5ef7b">RadiationModel::setPadValue</a></div><div class="ttdeci">void setPadValue(const std::string &amp;cameralabel, const std::vector&lt; std::string &gt; &amp;bandlabels, const std::vector&lt; float &gt; &amp;padvalues)</div><div class="ttdoc">Set padding value for pixels do not have valid values.</div><div class="ttdef"><b>Definition</b> <a href="#l05619">RadiationModel.cpp:5619</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a764f6cfd8e79569cc7a110fccd36857b"><div class="ttname"><a href="class_radiation_model.html#a764f6cfd8e79569cc7a110fccd36857b">RadiationModel::disableEmission</a></div><div class="ttdeci">void disableEmission(const std::string &amp;label)</div><div class="ttdoc">Disable emission calculations for all primitives in this band.</div><div class="ttdef"><b>Definition</b> <a href="#l00268">RadiationModel.cpp:268</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a771c53fe19d75303c3f60017db8a2b50"><div class="ttname"><a href="class_radiation_model.html#a771c53fe19d75303c3f60017db8a2b50">RadiationModel::writePrimitiveDataLabelMap</a></div><div class="ttdeci">void writePrimitiveDataLabelMap(const std::string &amp;cameralabel, const std::string &amp;primitive_data_label, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1, float padvalue=NAN)</div><div class="ttdoc">Write image pixel labels to text file based on primitive data. Primitive data must have type 'float',...</div><div class="ttdef"><b>Definition</b> <a href="#l05074">RadiationModel.cpp:5074</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a771c53fe19d75303c3f60017db8a2b50"><div class="ttname"><a href="class_radiation_model.html#a771c53fe19d75303c3f60017db8a2b50">RadiationModel::writePrimitiveDataLabelMap</a></div><div class="ttdeci">void writePrimitiveDataLabelMap(const std::string &amp;cameralabel, const std::string &amp;primitive_data_label, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1, float padvalue=NAN)</div><div class="ttdoc">Write image pixel labels to text file based on primitive data. Primitive data must have type 'float',...</div><div class="ttdef"><b>Definition</b> <a href="#l05082">RadiationModel.cpp:5082</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a790ce56ed07f2f40b80be9676fa02c05"><div class="ttname"><a href="class_radiation_model.html#a790ce56ed07f2f40b80be9676fa02c05">RadiationModel::setSourceSpectrum</a></div><div class="ttdeci">void setSourceSpectrum(uint source_ID, const std::vector&lt; helios::vec2 &gt; &amp;spectrum)</div><div class="ttdoc">Set the spectral distribution of a radiation source according to a vector of wavelength-intensity pai...</div><div class="ttdef"><b>Definition</b> <a href="#l00556">RadiationModel.cpp:556</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a7ac4bd9e9cf3ff4252818d984b782e79"><div class="ttname"><a href="class_radiation_model.html#a7ac4bd9e9cf3ff4252818d984b782e79">RadiationModel::enableEmission</a></div><div class="ttdeci">void enableEmission(const std::string &amp;label)</div><div class="ttdoc">Enable emission calculations for all primitives in this band.</div><div class="ttdef"><b>Definition</b> <a href="#l00278">RadiationModel.cpp:278</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a7d803f2b67bc4d0d89b2dc98a58d9ff1"><div class="ttname"><a href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a></div><div class="ttdeci">void runBand(const std::string &amp;label)</div><div class="ttdoc">Run the simulation for a single radiative band.</div><div class="ttdef"><b>Definition</b> <a href="#l03098">RadiationModel.cpp:3098</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a7d803f2b67bc4d0d89b2dc98a58d9ff1"><div class="ttname"><a href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a></div><div class="ttdeci">void runBand(const std::string &amp;label)</div><div class="ttdoc">Run the simulation for a single radiative band.</div><div class="ttdef"><b>Definition</b> <a href="#l03106">RadiationModel.cpp:3106</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a8560b5c278ae279e0a2bf78ec33409bf"><div class="ttname"><a href="class_radiation_model.html#a8560b5c278ae279e0a2bf78ec33409bf">RadiationModel::setCameraLookat</a></div><div class="ttdeci">void setCameraLookat(const std::string &amp;camera_label, const helios::vec3 &amp;lookat)</div><div class="ttdoc">Set the position the radiation camera is pointed toward (used to calculate camera orientation)</div><div class="ttdef"><b>Definition</b> <a href="#l01235">RadiationModel.cpp:1235</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a8edb972e53fecddc21f0c23d08e355d0"><div class="ttname"><a href="class_radiation_model.html#a8edb972e53fecddc21f0c23d08e355d0">RadiationModel::addSunSphereRadiationSource</a></div><div class="ttdeci">uint addSunSphereRadiationSource()</div><div class="ttdoc">Add a sphere radiation source that models the sun assuming the default direction of (0,...</div><div class="ttdef"><b>Definition</b> <a href="#l00362">RadiationModel.cpp:362</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a8ef94c0bf6286d3e64d7d8c8b96f33bc"><div class="ttname"><a href="class_radiation_model.html#a8ef94c0bf6286d3e64d7d8c8b96f33bc">RadiationModel::addDiskRadiationSource</a></div><div class="ttdeci">uint addDiskRadiationSource(const helios::vec3 &amp;position, float radius, const helios::vec3 &amp;rotation)</div><div class="ttdoc">Add planar circular radiation source.</div><div class="ttdef"><b>Definition</b> <a href="#l00430">RadiationModel.cpp:430</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a966780925811e3a710a6d91f4ac852fb"><div class="ttname"><a href="class_radiation_model.html#a966780925811e3a710a6d91f4ac852fb">RadiationModel::doesBandExist</a></div><div class="ttdeci">bool doesBandExist(const std::string &amp;label) const</div><div class="ttdoc">Check if a radiation band exists based on its label.</div><div class="ttdef"><b>Definition</b> <a href="#l00260">RadiationModel.cpp:260</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a9c9a5f6cb6b0ba6e3780aba8a4da8a0d"><div class="ttname"><a href="class_radiation_model.html#a9c9a5f6cb6b0ba6e3780aba8a4da8a0d">RadiationModel::getSkyEnergy</a></div><div class="ttdeci">float getSkyEnergy()</div><div class="ttdoc">Get the radiative energy lost to the sky (surroundings)</div><div class="ttdef"><b>Definition</b> <a href="#l03709">RadiationModel.cpp:3709</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a9c9a5f6cb6b0ba6e3780aba8a4da8a0d"><div class="ttname"><a href="class_radiation_model.html#a9c9a5f6cb6b0ba6e3780aba8a4da8a0d">RadiationModel::getSkyEnergy</a></div><div class="ttdeci">float getSkyEnergy()</div><div class="ttdoc">Get the radiative energy lost to the sky (surroundings)</div><div class="ttdef"><b>Definition</b> <a href="#l03717">RadiationModel.cpp:3717</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a9d4ea3e08514b90e617695ab2ee2fbf8"><div class="ttname"><a href="class_radiation_model.html#a9d4ea3e08514b90e617695ab2ee2fbf8">RadiationModel::getSourceFlux</a></div><div class="ttdeci">float getSourceFlux(uint source_ID, const std::string &amp;band_label) const</div><div class="ttdoc">Get the flux of radiation source for this band.</div><div class="ttdef"><b>Definition</b> <a href="#l00530">RadiationModel.cpp:530</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a9ec01ae743b29b5a0e9da04b24a7b230"><div class="ttname"><a href="class_radiation_model.html#a9ec01ae743b29b5a0e9da04b24a7b230">RadiationModel::setCameraPosition</a></div><div class="ttdeci">void setCameraPosition(const std::string &amp;camera_label, const helios::vec3 &amp;position)</div><div class="ttdoc">Set the position of the radiation camera.</div><div class="ttdef"><b>Definition</b> <a href="#l01210">RadiationModel.cpp:1210</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_aa25715f947c98e00efebb1cc96af7071"><div class="ttname"><a href="class_radiation_model.html#aa25715f947c98e00efebb1cc96af7071">RadiationModel::setSourcePosition</a></div><div class="ttdeci">void setSourcePosition(uint source_ID, const helios::vec3 &amp;position)</div><div class="ttdoc">Set the position/direction of radiation source based on a Cartesian vector.</div><div class="ttdef"><b>Definition</b> <a href="#l01090">RadiationModel.cpp:1090</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_aa30ec7ec3b6c3b109e9a9544b890e8de"><div class="ttname"><a href="class_radiation_model.html#aa30ec7ec3b6c3b109e9a9544b890e8de">RadiationModel::writeCameraImage</a></div><div class="ttdeci">void writeCameraImage(const std::string &amp;camera, const std::vector&lt; std::string &gt; &amp;bands, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1, float flux_to_pixel_conversion=1.f)</div><div class="ttdoc">Write camera data for one or more bands to a JPEG image.</div><div class="ttdef"><b>Definition</b> <a href="#l01304">RadiationModel.cpp:1304</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_aa976502e7f722222399fbfe4f25dbe05"><div class="ttname"><a href="class_radiation_model.html#aa976502e7f722222399fbfe4f25dbe05">RadiationModel::setDiffuseRadiationFlux</a></div><div class="ttdeci">void setDiffuseRadiationFlux(const std::string &amp;label, float flux)</div><div class="ttdoc">Diffuse (ambient) radiation flux.</div><div class="ttdef"><b>Definition</b> <a href="#l00086">RadiationModel.cpp:86</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_ab04cda35cd54937070cb63344630ada8"><div class="ttname"><a href="class_radiation_model.html#ab04cda35cd54937070cb63344630ada8">RadiationModel::calibrateCamera</a></div><div class="ttdeci">void calibrateCamera(const std::string &amp;orginalcameralabel, const std::vector&lt; std::string &gt; &amp;sourcelabels, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, const std::vector&lt; std::string &gt; &amp;bandlabels, const float scalefactor, const std::vector&lt; std::vector&lt; float &gt; &gt; &amp;truevalues, const std::string &amp;calibratedmark)</div><div class="ttdoc">Calibrate camera.</div><div class="ttdef"><b>Definition</b> <a href="#l05609">RadiationModel.cpp:5609</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_ab04cda35cd54937070cb63344630ada8"><div class="ttname"><a href="class_radiation_model.html#ab04cda35cd54937070cb63344630ada8">RadiationModel::calibrateCamera</a></div><div class="ttdeci">void calibrateCamera(const std::string &amp;orginalcameralabel, const std::vector&lt; std::string &gt; &amp;sourcelabels, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, const std::vector&lt; std::string &gt; &amp;bandlabels, const float scalefactor, const std::vector&lt; std::vector&lt; float &gt; &gt; &amp;truevalues, const std::string &amp;calibratedmark)</div><div class="ttdoc">Calibrate camera.</div><div class="ttdef"><b>Definition</b> <a href="#l05641">RadiationModel.cpp:5641</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_ab279259e3c925d3213d8bf097156fd02"><div class="ttname"><a href="class_radiation_model.html#ab279259e3c925d3213d8bf097156fd02">RadiationModel::setDiffuseRayCount</a></div><div class="ttdeci">void setDiffuseRayCount(const std::string &amp;label, size_t N)</div><div class="ttdoc">Sets variable diffuseRayCount, the number of rays to be used in diffuse (ambient) radiation model.</div><div class="ttdef"><b>Definition</b> <a href="#l00079">RadiationModel.cpp:79</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_ab8ec35514a0e4b53ce8a64d3f390427c"><div class="ttname"><a href="class_radiation_model.html#ab8ec35514a0e4b53ce8a64d3f390427c">RadiationModel::getSourcePosition</a></div><div class="ttdeci">helios::vec3 getSourcePosition(uint source_ID) const</div><div class="ttdoc">Get the position/direction of radiation source.</div><div class="ttdef"><b>Definition</b> <a href="#l01114">RadiationModel.cpp:1114</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_abb39d616c6b37bd56b2ea3014a19c6bf"><div class="ttname"><a href="class_radiation_model.html#abb39d616c6b37bd56b2ea3014a19c6bf">RadiationModel::addRectangleRadiationSource</a></div><div class="ttdeci">uint addRectangleRadiationSource(const helios::vec3 &amp;position, const helios::vec2 &amp;size, const helios::vec3 &amp;rotation)</div><div class="ttdoc">Add planar rectangular radiation source.</div><div class="ttdef"><b>Definition</b> <a href="#l00400">RadiationModel.cpp:400</a></div></div>
@@ -6121,22 +6131,22 @@
 <div class="ttc" id="aclass_radiation_model_html_abe728e1b9804571c0125ad92659d6a9e"><div class="ttname"><a href="class_radiation_model.html#abe728e1b9804571c0125ad92659d6a9e">RadiationModel::disableLightModelVisualization</a></div><div class="ttdeci">void disableLightModelVisualization()</div><div class="ttdoc">Remove the 3D model of the light source from the Context.</div><div class="ttdef"><b>Definition</b> <a href="#l00675">RadiationModel.cpp:675</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_ac292f5d218647fc7cbb0a58bc3d284ae"><div class="ttname"><a href="class_radiation_model.html#ac292f5d218647fc7cbb0a58bc3d284ae">RadiationModel::scaleSpectrumRandomly</a></div><div class="ttdeci">void scaleSpectrumRandomly(const std::string &amp;existing_global_data_label, const std::string &amp;new_global_data_label, float minimum_scale_factor, float maximum_scale_factor) const</div><div class="ttdoc">Scale an entire spectrum by a random factor following a uniform distribution.</div><div class="ttdef"><b>Definition</b> <a href="#l00988">RadiationModel.cpp:988</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_ac42245154cfb4f125cfe1ef4671ca19f"><div class="ttname"><a href="class_radiation_model.html#ac42245154cfb4f125cfe1ef4671ca19f">RadiationModel::optionalOutputPrimitiveData</a></div><div class="ttdeci">void optionalOutputPrimitiveData(const char *label)</div><div class="ttdoc">Add optional output primitive data values to the Context.</div><div class="ttdef"><b>Definition</b> <a href="#l00062">RadiationModel.cpp:62</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_ac78340f2c7f5cf9089e26d15ea5dc41b"><div class="ttname"><a href="class_radiation_model.html#ac78340f2c7f5cf9089e26d15ea5dc41b">RadiationModel::writeImageBoundingBoxes_ObjectData</a></div><div class="ttdeci">void writeImageBoundingBoxes_ObjectData(const std::string &amp;cameralabel, const std::string &amp;object_data_label, uint object_class_ID, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, bool append_label_file=false, int frame=-1)</div><div class="ttdoc">Write bounding boxes based on object data labels (Ultralytic's YOLO format). Object data must have ty...</div><div class="ttdef"><b>Definition</b> <a href="#l05473">RadiationModel.cpp:5473</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_ac78340f2c7f5cf9089e26d15ea5dc41b"><div class="ttname"><a href="class_radiation_model.html#ac78340f2c7f5cf9089e26d15ea5dc41b">RadiationModel::writeImageBoundingBoxes_ObjectData</a></div><div class="ttdeci">void writeImageBoundingBoxes_ObjectData(const std::string &amp;cameralabel, const std::string &amp;object_data_label, uint object_class_ID, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, bool append_label_file=false, int frame=-1)</div><div class="ttdoc">Write bounding boxes based on object data labels (Ultralytic's YOLO format). Object data must have ty...</div><div class="ttdef"><b>Definition</b> <a href="#l05501">RadiationModel.cpp:5501</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_ac85aa79af6c1b3b50081216c6c257225"><div class="ttname"><a href="class_radiation_model.html#ac85aa79af6c1b3b50081216c6c257225">RadiationModel::setDiffuseRadiationExtinctionCoeff</a></div><div class="ttdeci">void setDiffuseRadiationExtinctionCoeff(const std::string &amp;label, float K, const helios::vec3 &amp;peak_dir)</div><div class="ttdoc">Extinction coefficient of diffuse ambient radiation.</div><div class="ttdef"><b>Definition</b> <a href="#l00097">RadiationModel.cpp:97</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_acf5fe304146a9270bf0e841f59e51934"><div class="ttname"><a href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a></div><div class="ttdeci">void updateGeometry()</div><div class="ttdoc">Adds all geometric primitives from the Context to OptiX.</div><div class="ttdef"><b>Definition</b> <a href="#l01966">RadiationModel.cpp:1966</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_acf5fe304146a9270bf0e841f59e51934"><div class="ttname"><a href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a></div><div class="ttdeci">void updateGeometry()</div><div class="ttdoc">Adds all geometric primitives from the Context to OptiX.</div><div class="ttdef"><b>Definition</b> <a href="#l01974">RadiationModel.cpp:1974</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_acfcbd32e59e2b2728dabde1c7fa74329"><div class="ttname"><a href="class_radiation_model.html#acfcbd32e59e2b2728dabde1c7fa74329">RadiationModel::RadiationModel</a></div><div class="ttdeci">RadiationModel(helios::Context *context)</div><div class="ttdoc">Default constructor.</div><div class="ttdef"><b>Definition</b> <a href="#l00020">RadiationModel.cpp:20</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_ad0a4554dfa67054804de534229805054"><div class="ttname"><a href="class_radiation_model.html#ad0a4554dfa67054804de534229805054">RadiationModel::addRadiationBand</a></div><div class="ttdeci">void addRadiationBand(const std::string &amp;label)</div><div class="ttdoc">Add a spectral radiation band to the model.</div><div class="ttdef"><b>Definition</b> <a href="#l00183">RadiationModel.cpp:183</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_ad4236469b34bcb4b216a78c96872b760"><div class="ttname"><a href="class_radiation_model.html#ad4236469b34bcb4b216a78c96872b760">RadiationModel::enableCameraModelVisualization</a></div><div class="ttdeci">void enableCameraModelVisualization()</div><div class="ttdoc">Add a 3D model of the camera to the Context for visualization purposes.</div><div class="ttdef"><b>Definition</b> <a href="#l00682">RadiationModel.cpp:682</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_ad495efb7a88df316cc8117e1d181d104"><div class="ttname"><a href="class_radiation_model.html#ad495efb7a88df316cc8117e1d181d104">RadiationModel::writeDepthImageData</a></div><div class="ttdeci">void writeDepthImageData(const std::string &amp;cameralabel, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1)</div><div class="ttdoc">Write depth image data to text file.</div><div class="ttdef"><b>Definition</b> <a href="#l05249">RadiationModel.cpp:5249</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_adb5a74547d51a18018d3daeba0ec5f3c"><div class="ttname"><a href="class_radiation_model.html#adb5a74547d51a18018d3daeba0ec5f3c">RadiationModel::getCameraResponseScale</a></div><div class="ttdeci">float getCameraResponseScale(const std::string &amp;orginalcameralabel, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, const std::vector&lt; std::string &gt; &amp;bandlabels, const std::vector&lt; std::string &gt; &amp;sourcelabels, helios::vec2 &amp;wavelengthrange, const std::vector&lt; std::vector&lt; float &gt; &gt; &amp;truevalues)</div><div class="ttdoc">Get the scale factor of the camera response for a given camera.</div><div class="ttdef"><b>Definition</b> <a href="#l05051">RadiationModel.cpp:5051</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_ad495efb7a88df316cc8117e1d181d104"><div class="ttname"><a href="class_radiation_model.html#ad495efb7a88df316cc8117e1d181d104">RadiationModel::writeDepthImageData</a></div><div class="ttdeci">void writeDepthImageData(const std::string &amp;cameralabel, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1)</div><div class="ttdoc">Write depth image data to text file.</div><div class="ttdef"><b>Definition</b> <a href="#l05265">RadiationModel.cpp:5265</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_adb5a74547d51a18018d3daeba0ec5f3c"><div class="ttname"><a href="class_radiation_model.html#adb5a74547d51a18018d3daeba0ec5f3c">RadiationModel::getCameraResponseScale</a></div><div class="ttdeci">float getCameraResponseScale(const std::string &amp;orginalcameralabel, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, const std::vector&lt; std::string &gt; &amp;bandlabels, const std::vector&lt; std::string &gt; &amp;sourcelabels, helios::vec2 &amp;wavelengthrange, const std::vector&lt; std::vector&lt; float &gt; &gt; &amp;truevalues)</div><div class="ttdoc">Get the scale factor of the camera response for a given camera.</div><div class="ttdef"><b>Definition</b> <a href="#l05059">RadiationModel.cpp:5059</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_adea522844d6fe85df2f1dc3b78f514eb"><div class="ttname"><a href="class_radiation_model.html#adea522844d6fe85df2f1dc3b78f514eb">RadiationModel::addCollimatedRadiationSource</a></div><div class="ttdeci">uint addCollimatedRadiationSource()</div><div class="ttdoc">Add an external source of collimated radiation (i.e., source at infinite distance with parallel rays)...</div><div class="ttdef"><b>Definition</b> <a href="#l00288">RadiationModel.cpp:288</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_aeae03b4de9b9c57ac987407fdfd6afa4"><div class="ttname"><a href="class_radiation_model.html#aeae03b4de9b9c57ac987407fdfd6afa4">RadiationModel::~RadiationModel</a></div><div class="ttdeci">~RadiationModel()</div><div class="ttdoc">Destructor.</div><div class="ttdef"><b>Definition</b> <a href="#l00050">RadiationModel.cpp:50</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_aedf80552eaf2bf6a8544dcb2c72cb331"><div class="ttname"><a href="class_radiation_model.html#aedf80552eaf2bf6a8544dcb2c72cb331">RadiationModel::addRadiationCamera</a></div><div class="ttdeci">void addRadiationCamera(const std::string &amp;camera_label, const std::vector&lt; std::string &gt; &amp;band_label, const helios::vec3 &amp;position, const helios::vec3 &amp;lookat, const CameraProperties &amp;camera_properties, uint antialiasing_samples)</div><div class="ttdoc">Add a radiation camera sensor.</div><div class="ttdef"><b>Definition</b> <a href="#l01162">RadiationModel.cpp:1162</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_af698122e4c9cb2855cca5e54037c985d"><div class="ttname"><a href="class_radiation_model.html#af698122e4c9cb2855cca5e54037c985d">RadiationModel::setDiffuseSpectrum</a></div><div class="ttdeci">void setDiffuseSpectrum(const std::string &amp;spectrum_label)</div><div class="ttdoc">Set the spectral distribution of diffuse ambient radiation FOR ALL BANDS based on global data of wave...</div><div class="ttdef"><b>Definition</b> <a href="#l00607">RadiationModel.cpp:607</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_af8450f2308aee38272b4aef87f0c547b"><div class="ttname"><a href="class_radiation_model.html#af8450f2308aee38272b4aef87f0c547b">RadiationModel::getDiffuseFlux</a></div><div class="ttdeci">float getDiffuseFlux(const std::string &amp;band_label) const</div><div class="ttdoc">Get the diffuse flux for a given band.</div><div class="ttdef"><b>Definition</b> <a href="#l00643">RadiationModel.cpp:643</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_afabb4e1a6c8c67ccc9c68aab7dfd07e3"><div class="ttname"><a href="class_radiation_model.html#afabb4e1a6c8c67ccc9c68aab7dfd07e3">RadiationModel::updateCameraResponse</a></div><div class="ttdeci">void updateCameraResponse(const std::string &amp;orginalcameralabel, const std::vector&lt; std::string &gt; &amp;sourcelabels_raw, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, helios::vec2 &amp;wavelengthrange, const std::vector&lt; std::vector&lt; float &gt; &gt; &amp;truevalues, const std::string &amp;calibratedmark)</div><div class="ttdoc">Update the camera response for a given camera based on color board.</div><div class="ttdef"><b>Definition</b> <a href="#l04849">RadiationModel.cpp:4849</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_afabb4e1a6c8c67ccc9c68aab7dfd07e3"><div class="ttname"><a href="class_radiation_model.html#afabb4e1a6c8c67ccc9c68aab7dfd07e3">RadiationModel::updateCameraResponse</a></div><div class="ttdeci">void updateCameraResponse(const std::string &amp;orginalcameralabel, const std::vector&lt; std::string &gt; &amp;sourcelabels_raw, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, helios::vec2 &amp;wavelengthrange, const std::vector&lt; std::vector&lt; float &gt; &gt; &amp;truevalues, const std::string &amp;calibratedmark)</div><div class="ttdoc">Update the camera response for a given camera based on color board.</div><div class="ttdef"><b>Definition</b> <a href="#l04857">RadiationModel.cpp:4857</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_afadd1370bef086ee0e69c3d0469c5941"><div class="ttname"><a href="class_radiation_model.html#afadd1370bef086ee0e69c3d0469c5941">RadiationModel::integrateSourceSpectrum</a></div><div class="ttdeci">float integrateSourceSpectrum(uint source_ID, float wavelength1, float wavelength2) const</div><div class="ttdoc">Integrate a source spectral distribution between two wavelength bounds.</div><div class="ttdef"><b>Definition</b> <a href="#l00952">RadiationModel.cpp:952</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_afdbe940b3c4ae5855a0fcbe5b0b7f708"><div class="ttname"><a href="class_radiation_model.html#afdbe940b3c4ae5855a0fcbe5b0b7f708">RadiationModel::writeObjectDataLabelMap</a></div><div class="ttdeci">void writeObjectDataLabelMap(const std::string &amp;cameralabel, const std::string &amp;object_data_label, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1, float padvalue=NAN)</div><div class="ttdoc">Write image pixel labels to text file based on object data. Object data must have type 'float',...</div><div class="ttdef"><b>Definition</b> <a href="#l05161">RadiationModel.cpp:5161</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_afdbe940b3c4ae5855a0fcbe5b0b7f708"><div class="ttname"><a href="class_radiation_model.html#afdbe940b3c4ae5855a0fcbe5b0b7f708">RadiationModel::writeObjectDataLabelMap</a></div><div class="ttdeci">void writeObjectDataLabelMap(const std::string &amp;cameralabel, const std::string &amp;object_data_label, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1, float padvalue=NAN)</div><div class="ttdoc">Write image pixel labels to text file based on object data. Object data must have type 'float',...</div><div class="ttdef"><b>Definition</b> <a href="#l05173">RadiationModel.cpp:5173</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_compound_object_html_ab07473392ca1e4c439c909c83cc9730b"><div class="ttname"><a href="classhelios_1_1_compound_object.html#ab07473392ca1e4c439c909c83cc9730b">helios::CompoundObject::getObjectType</a></div><div class="ttdeci">helios::ObjectType getObjectType() const</div><div class="ttdoc">Get an enumeration specifying the type of the object.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l02227">Context.cpp:2227</a></div></div>
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@@ -6161,7 +6171,7 @@
 <div class="ttc" id="aclasshelios_1_1_context_html_a67bfd66f0a445f6485f1099f9eadc949"><div class="ttname"><a href="classhelios_1_1_context.html#a67bfd66f0a445f6485f1099f9eadc949">helios::Context::getPrimitiveType</a></div><div class="ttdeci">PrimitiveType getPrimitiveType(uint UUID) const</div><div class="ttdoc">Method to get the Primitive type.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l06928">Context.cpp:6928</a></div></div>
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+<div class="ttc" id="aclasshelios_1_1_context_html_a8657240a0b2926e8c73b083f0fdc339d"><div class="ttname"><a href="classhelios_1_1_context.html#a8657240a0b2926e8c73b083f0fdc339d">helios::Context::loadOBJ</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadOBJ(const char *filename, bool silent=false)</div><div class="ttdoc">Load geometry contained in a Wavefront OBJ file (.obj). Model will be placed at the origin without an...</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l03742">Context_fileIO.cpp:3742</a></div></div>
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@@ -6182,6 +6192,8 @@
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+<div class="ttc" id="aglobal_8h_html_a614486c4ac0686c5b58813f03f0cedf9"><div class="ttname"><a href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9">helios::validateOutputPath</a></div><div class="ttdeci">bool validateOutputPath(std::string &amp;output_directory, const std::vector&lt; std::string &gt; &amp;allowable_file_extensions={})</div><div class="ttdoc">Check whether output file and/or directory is valid. Add a trailing slash if it is a directory.</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l03020">global.cpp:3020</a></div></div>
+<div class="ttc" id="aglobal_8h_html_a63bd49091fdab0e262b051f61fb9a902"><div class="ttname"><a href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902">helios::getFileName</a></div><div class="ttdeci">std::string getFileName(const std::string &amp;filepath)</div><div class="ttdoc">Parse a file string to get the filename including extension.</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l03003">global.cpp:3003</a></div></div>
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diff --git a/doc/html/_radiation_model_8h.html b/doc/html/_radiation_model_8h.html
index 72a1872a1..1aee9f562 100644
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-<p class="definition">Definition at line <a class="el" href="_radiation_model_8h_source.html#l01669">1669</a> of file <a class="el" href="_radiation_model_8h_source.html">RadiationModel.h</a>.</p>
+<p class="definition">Definition at line <a class="el" href="_radiation_model_8h_source.html#l01662">1662</a> of file <a class="el" href="_radiation_model_8h_source.html">RadiationModel.h</a>.</p>
 
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-<p>Validates the file path for output file writing by 1) making sure the directory string has a trailing slash, 2) creating the output directory if it does not exist. </p>
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+<p class="definition">Definition at line <a class="el" href="_radiation_model_8cpp_source.html#l05769">5769</a> of file <a class="el" href="_radiation_model_8cpp_source.html">RadiationModel.cpp</a>.</p>
 
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+<div class="ttc" id="aclass_radiation_model_html_a546c959be8d158f17ab1cb9ada0ebe6d"><div class="ttname"><a href="class_radiation_model.html#a546c959be8d158f17ab1cb9ada0ebe6d">RadiationModel::writeCameraImageData</a></div><div class="ttdeci">void writeCameraImageData(const std::string &amp;camera, const std::string &amp;band, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1)</div><div class="ttdoc">Write camera data for one band to an ASCII text file.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l01424">RadiationModel.cpp:1424</a></div></div>
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+<div class="ttc" id="aclass_radiation_model_html_a5e95e775550a2000798a97b00857bdd2"><div class="ttname"><a href="class_radiation_model.html#a5e95e775550a2000798a97b00857bdd2">RadiationModel::getTotalAbsorbedFlux</a></div><div class="ttdeci">std::vector&lt; float &gt; getTotalAbsorbedFlux()</div><div class="ttdoc">Get the total absorbed radiation flux summed over all bands for each primitive.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l03729">RadiationModel.cpp:3729</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a61abdff90fd75f3ebebc6b8f189cdac9"><div class="ttname"><a href="class_radiation_model.html#a61abdff90fd75f3ebebc6b8f189cdac9">RadiationModel::writeNormCameraImage</a></div><div class="ttdeci">void writeNormCameraImage(const std::string &amp;camera, const std::vector&lt; std::string &gt; &amp;bands, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1)</div><div class="ttdoc">Write normalized camera data (maximum value is 1) for one or more bands to a JPEG image.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l01390">RadiationModel.cpp:1390</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a633d84a823ad4cd99495a06afc13d7a3"><div class="ttname"><a href="class_radiation_model.html#a633d84a823ad4cd99495a06afc13d7a3">RadiationModel::writeNormDepthImage</a></div><div class="ttdeci">void writeNormDepthImage(const std::string &amp;cameralabel, const std::string &amp;imagefile_base, float max_depth, const std::string &amp;image_path=&quot;./&quot;, int frame=-1)</div><div class="ttdoc">Write depth image file, with grayscale normalized to the minimum and maximum depth values.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05321">RadiationModel.cpp:5321</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a6785deae272a9464920030fc3f124bc3"><div class="ttname"><a href="class_radiation_model.html#a6785deae272a9464920030fc3f124bc3">RadiationModel::getCameraPosition</a></div><div class="ttdeci">helios::vec3 getCameraPosition(const std::string &amp;camera_label) const</div><div class="ttdoc">Get the position of the radiation camera.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l01225">RadiationModel.cpp:1225</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a68adae041b6d017cc640ff90a2648f02"><div class="ttname"><a href="class_radiation_model.html#a68adae041b6d017cc640ff90a2648f02">RadiationModel::setMinScatterEnergy</a></div><div class="ttdeci">void setMinScatterEnergy(const std::string &amp;label, uint energy)</div><div class="ttdoc">Set the energy threshold used to terminate scattering iterations. Scattering iterations are terminate...</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l01130">RadiationModel.cpp:1130</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a68c8736e58c7daf440ff9c93bb00522d"><div class="ttname"><a href="class_radiation_model.html#a68c8736e58c7daf440ff9c93bb00522d">RadiationModel::getCameraLookat</a></div><div class="ttdeci">helios::vec3 getCameraLookat(const std::string &amp;camera_label) const</div><div class="ttdoc">Get the position the radiation camera is pointed toward (used to calculate camera orientation)</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l01248">RadiationModel.cpp:1248</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a697a43f3706fe60094dab0e525b370f8"><div class="ttname"><a href="class_radiation_model.html#a697a43f3706fe60094dab0e525b370f8">RadiationModel::disableCameraModelVisualization</a></div><div class="ttdeci">void disableCameraModelVisualization()</div><div class="ttdoc">Remove the 3D model of the camera from the Context.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00692">RadiationModel.cpp:692</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a6b733f931af8bed3bf13452d971d5c29"><div class="ttname"><a href="class_radiation_model.html#a6b733f931af8bed3bf13452d971d5c29">RadiationModel::setDiffuseSpectrumIntegral</a></div><div class="ttdeci">void setDiffuseSpectrumIntegral(float spectrum_integral)</div><div class="ttdoc">Set the integral of the diffuse spectral flux distribution across all possible wavelengths FOR ALL EX...</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00132">RadiationModel.cpp:132</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a6d2c7374b0de7f50b1857b95c606182f"><div class="ttname"><a href="class_radiation_model.html#a6d2c7374b0de7f50b1857b95c606182f">RadiationModel::setScatteringDepth</a></div><div class="ttdeci">void setScatteringDepth(const std::string &amp;label, uint depth)</div><div class="ttdoc">Set the number of scattering iterations for a certain band.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l01121">RadiationModel.cpp:1121</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a728c89b679cfcb957567b43e52023baf"><div class="ttname"><a href="class_radiation_model.html#a728c89b679cfcb957567b43e52023baf">RadiationModel::runRadiationImaging</a></div><div class="ttdeci">void runRadiationImaging(const std::string &amp;cameralabel, const std::vector&lt; std::string &gt; &amp;sourcelabels, const std::vector&lt; std::string &gt; &amp;bandlabels, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, helios::vec2 wavelengthrange, float fluxscale=1, float diffusefactor=0.0005, uint scatteringdepth=4)</div><div class="ttdoc">Run radiation imaging simulation.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l04966">RadiationModel.cpp:4966</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a73fac0b01c685471de95cd7bdfb5ef7b"><div class="ttname"><a href="class_radiation_model.html#a73fac0b01c685471de95cd7bdfb5ef7b">RadiationModel::setPadValue</a></div><div class="ttdeci">void setPadValue(const std::string &amp;cameralabel, const std::vector&lt; std::string &gt; &amp;bandlabels, const std::vector&lt; float &gt; &amp;padvalues)</div><div class="ttdoc">Set padding value for pixels do not have valid values.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05587">RadiationModel.cpp:5587</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a728c89b679cfcb957567b43e52023baf"><div class="ttname"><a href="class_radiation_model.html#a728c89b679cfcb957567b43e52023baf">RadiationModel::runRadiationImaging</a></div><div class="ttdeci">void runRadiationImaging(const std::string &amp;cameralabel, const std::vector&lt; std::string &gt; &amp;sourcelabels, const std::vector&lt; std::string &gt; &amp;bandlabels, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, helios::vec2 wavelengthrange, float fluxscale=1, float diffusefactor=0.0005, uint scatteringdepth=4)</div><div class="ttdoc">Run radiation imaging simulation.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l04974">RadiationModel.cpp:4974</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a73fac0b01c685471de95cd7bdfb5ef7b"><div class="ttname"><a href="class_radiation_model.html#a73fac0b01c685471de95cd7bdfb5ef7b">RadiationModel::setPadValue</a></div><div class="ttdeci">void setPadValue(const std::string &amp;cameralabel, const std::vector&lt; std::string &gt; &amp;bandlabels, const std::vector&lt; float &gt; &amp;padvalues)</div><div class="ttdoc">Set padding value for pixels do not have valid values.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05619">RadiationModel.cpp:5619</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a764f6cfd8e79569cc7a110fccd36857b"><div class="ttname"><a href="class_radiation_model.html#a764f6cfd8e79569cc7a110fccd36857b">RadiationModel::disableEmission</a></div><div class="ttdeci">void disableEmission(const std::string &amp;label)</div><div class="ttdoc">Disable emission calculations for all primitives in this band.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00268">RadiationModel.cpp:268</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a771c53fe19d75303c3f60017db8a2b50"><div class="ttname"><a href="class_radiation_model.html#a771c53fe19d75303c3f60017db8a2b50">RadiationModel::writePrimitiveDataLabelMap</a></div><div class="ttdeci">void writePrimitiveDataLabelMap(const std::string &amp;cameralabel, const std::string &amp;primitive_data_label, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1, float padvalue=NAN)</div><div class="ttdoc">Write image pixel labels to text file based on primitive data. Primitive data must have type 'float',...</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05074">RadiationModel.cpp:5074</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a771c53fe19d75303c3f60017db8a2b50"><div class="ttname"><a href="class_radiation_model.html#a771c53fe19d75303c3f60017db8a2b50">RadiationModel::writePrimitiveDataLabelMap</a></div><div class="ttdeci">void writePrimitiveDataLabelMap(const std::string &amp;cameralabel, const std::string &amp;primitive_data_label, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1, float padvalue=NAN)</div><div class="ttdoc">Write image pixel labels to text file based on primitive data. Primitive data must have type 'float',...</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05082">RadiationModel.cpp:5082</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a790ce56ed07f2f40b80be9676fa02c05"><div class="ttname"><a href="class_radiation_model.html#a790ce56ed07f2f40b80be9676fa02c05">RadiationModel::setSourceSpectrum</a></div><div class="ttdeci">void setSourceSpectrum(uint source_ID, const std::vector&lt; helios::vec2 &gt; &amp;spectrum)</div><div class="ttdoc">Set the spectral distribution of a radiation source according to a vector of wavelength-intensity pai...</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00556">RadiationModel.cpp:556</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a7ac4bd9e9cf3ff4252818d984b782e79"><div class="ttname"><a href="class_radiation_model.html#a7ac4bd9e9cf3ff4252818d984b782e79">RadiationModel::enableEmission</a></div><div class="ttdeci">void enableEmission(const std::string &amp;label)</div><div class="ttdoc">Enable emission calculations for all primitives in this band.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00278">RadiationModel.cpp:278</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a7d803f2b67bc4d0d89b2dc98a58d9ff1"><div class="ttname"><a href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a></div><div class="ttdeci">void runBand(const std::string &amp;label)</div><div class="ttdoc">Run the simulation for a single radiative band.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l03098">RadiationModel.cpp:3098</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a7d803f2b67bc4d0d89b2dc98a58d9ff1"><div class="ttname"><a href="class_radiation_model.html#a7d803f2b67bc4d0d89b2dc98a58d9ff1">RadiationModel::runBand</a></div><div class="ttdeci">void runBand(const std::string &amp;label)</div><div class="ttdoc">Run the simulation for a single radiative band.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l03106">RadiationModel.cpp:3106</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a8560b5c278ae279e0a2bf78ec33409bf"><div class="ttname"><a href="class_radiation_model.html#a8560b5c278ae279e0a2bf78ec33409bf">RadiationModel::setCameraLookat</a></div><div class="ttdeci">void setCameraLookat(const std::string &amp;camera_label, const helios::vec3 &amp;lookat)</div><div class="ttdoc">Set the position the radiation camera is pointed toward (used to calculate camera orientation)</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l01235">RadiationModel.cpp:1235</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a8edb972e53fecddc21f0c23d08e355d0"><div class="ttname"><a href="class_radiation_model.html#a8edb972e53fecddc21f0c23d08e355d0">RadiationModel::addSunSphereRadiationSource</a></div><div class="ttdeci">uint addSunSphereRadiationSource()</div><div class="ttdoc">Add a sphere radiation source that models the sun assuming the default direction of (0,...</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00362">RadiationModel.cpp:362</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a8ef94c0bf6286d3e64d7d8c8b96f33bc"><div class="ttname"><a href="class_radiation_model.html#a8ef94c0bf6286d3e64d7d8c8b96f33bc">RadiationModel::addDiskRadiationSource</a></div><div class="ttdeci">uint addDiskRadiationSource(const helios::vec3 &amp;position, float radius, const helios::vec3 &amp;rotation)</div><div class="ttdoc">Add planar circular radiation source.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00430">RadiationModel.cpp:430</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a966780925811e3a710a6d91f4ac852fb"><div class="ttname"><a href="class_radiation_model.html#a966780925811e3a710a6d91f4ac852fb">RadiationModel::doesBandExist</a></div><div class="ttdeci">bool doesBandExist(const std::string &amp;label) const</div><div class="ttdoc">Check if a radiation band exists based on its label.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00260">RadiationModel.cpp:260</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_a9c9a5f6cb6b0ba6e3780aba8a4da8a0d"><div class="ttname"><a href="class_radiation_model.html#a9c9a5f6cb6b0ba6e3780aba8a4da8a0d">RadiationModel::getSkyEnergy</a></div><div class="ttdeci">float getSkyEnergy()</div><div class="ttdoc">Get the radiative energy lost to the sky (surroundings)</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l03709">RadiationModel.cpp:3709</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_a9c9a5f6cb6b0ba6e3780aba8a4da8a0d"><div class="ttname"><a href="class_radiation_model.html#a9c9a5f6cb6b0ba6e3780aba8a4da8a0d">RadiationModel::getSkyEnergy</a></div><div class="ttdeci">float getSkyEnergy()</div><div class="ttdoc">Get the radiative energy lost to the sky (surroundings)</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l03717">RadiationModel.cpp:3717</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a9d4ea3e08514b90e617695ab2ee2fbf8"><div class="ttname"><a href="class_radiation_model.html#a9d4ea3e08514b90e617695ab2ee2fbf8">RadiationModel::getSourceFlux</a></div><div class="ttdeci">float getSourceFlux(uint source_ID, const std::string &amp;band_label) const</div><div class="ttdoc">Get the flux of radiation source for this band.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00530">RadiationModel.cpp:530</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_a9ec01ae743b29b5a0e9da04b24a7b230"><div class="ttname"><a href="class_radiation_model.html#a9ec01ae743b29b5a0e9da04b24a7b230">RadiationModel::setCameraPosition</a></div><div class="ttdeci">void setCameraPosition(const std::string &amp;camera_label, const helios::vec3 &amp;position)</div><div class="ttdoc">Set the position of the radiation camera.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l01210">RadiationModel.cpp:1210</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_aa25715f947c98e00efebb1cc96af7071"><div class="ttname"><a href="class_radiation_model.html#aa25715f947c98e00efebb1cc96af7071">RadiationModel::setSourcePosition</a></div><div class="ttdeci">void setSourcePosition(uint source_ID, const helios::vec3 &amp;position)</div><div class="ttdoc">Set the position/direction of radiation source based on a Cartesian vector.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l01090">RadiationModel.cpp:1090</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_aa30ec7ec3b6c3b109e9a9544b890e8de"><div class="ttname"><a href="class_radiation_model.html#aa30ec7ec3b6c3b109e9a9544b890e8de">RadiationModel::writeCameraImage</a></div><div class="ttdeci">void writeCameraImage(const std::string &amp;camera, const std::vector&lt; std::string &gt; &amp;bands, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1, float flux_to_pixel_conversion=1.f)</div><div class="ttdoc">Write camera data for one or more bands to a JPEG image.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l01304">RadiationModel.cpp:1304</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_aa976502e7f722222399fbfe4f25dbe05"><div class="ttname"><a href="class_radiation_model.html#aa976502e7f722222399fbfe4f25dbe05">RadiationModel::setDiffuseRadiationFlux</a></div><div class="ttdeci">void setDiffuseRadiationFlux(const std::string &amp;label, float flux)</div><div class="ttdoc">Diffuse (ambient) radiation flux.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00086">RadiationModel.cpp:86</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_ab04cda35cd54937070cb63344630ada8"><div class="ttname"><a href="class_radiation_model.html#ab04cda35cd54937070cb63344630ada8">RadiationModel::calibrateCamera</a></div><div class="ttdeci">void calibrateCamera(const std::string &amp;orginalcameralabel, const std::vector&lt; std::string &gt; &amp;sourcelabels, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, const std::vector&lt; std::string &gt; &amp;bandlabels, const float scalefactor, const std::vector&lt; std::vector&lt; float &gt; &gt; &amp;truevalues, const std::string &amp;calibratedmark)</div><div class="ttdoc">Calibrate camera.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05609">RadiationModel.cpp:5609</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_ab04cda35cd54937070cb63344630ada8"><div class="ttname"><a href="class_radiation_model.html#ab04cda35cd54937070cb63344630ada8">RadiationModel::calibrateCamera</a></div><div class="ttdeci">void calibrateCamera(const std::string &amp;orginalcameralabel, const std::vector&lt; std::string &gt; &amp;sourcelabels, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, const std::vector&lt; std::string &gt; &amp;bandlabels, const float scalefactor, const std::vector&lt; std::vector&lt; float &gt; &gt; &amp;truevalues, const std::string &amp;calibratedmark)</div><div class="ttdoc">Calibrate camera.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05641">RadiationModel.cpp:5641</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_ab279259e3c925d3213d8bf097156fd02"><div class="ttname"><a href="class_radiation_model.html#ab279259e3c925d3213d8bf097156fd02">RadiationModel::setDiffuseRayCount</a></div><div class="ttdeci">void setDiffuseRayCount(const std::string &amp;label, size_t N)</div><div class="ttdoc">Sets variable diffuseRayCount, the number of rays to be used in diffuse (ambient) radiation model.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00079">RadiationModel.cpp:79</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_ab8ec35514a0e4b53ce8a64d3f390427c"><div class="ttname"><a href="class_radiation_model.html#ab8ec35514a0e4b53ce8a64d3f390427c">RadiationModel::getSourcePosition</a></div><div class="ttdeci">helios::vec3 getSourcePosition(uint source_ID) const</div><div class="ttdoc">Get the position/direction of radiation source.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l01114">RadiationModel.cpp:1114</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_abb39d616c6b37bd56b2ea3014a19c6bf"><div class="ttname"><a href="class_radiation_model.html#abb39d616c6b37bd56b2ea3014a19c6bf">RadiationModel::addRectangleRadiationSource</a></div><div class="ttdeci">uint addRectangleRadiationSource(const helios::vec3 &amp;position, const helios::vec2 &amp;size, const helios::vec3 &amp;rotation)</div><div class="ttdoc">Add planar rectangular radiation source.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00400">RadiationModel.cpp:400</a></div></div>
@@ -1111,22 +1107,22 @@
 <div class="ttc" id="aclass_radiation_model_html_abe728e1b9804571c0125ad92659d6a9e"><div class="ttname"><a href="class_radiation_model.html#abe728e1b9804571c0125ad92659d6a9e">RadiationModel::disableLightModelVisualization</a></div><div class="ttdeci">void disableLightModelVisualization()</div><div class="ttdoc">Remove the 3D model of the light source from the Context.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00675">RadiationModel.cpp:675</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_ac292f5d218647fc7cbb0a58bc3d284ae"><div class="ttname"><a href="class_radiation_model.html#ac292f5d218647fc7cbb0a58bc3d284ae">RadiationModel::scaleSpectrumRandomly</a></div><div class="ttdeci">void scaleSpectrumRandomly(const std::string &amp;existing_global_data_label, const std::string &amp;new_global_data_label, float minimum_scale_factor, float maximum_scale_factor) const</div><div class="ttdoc">Scale an entire spectrum by a random factor following a uniform distribution.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00988">RadiationModel.cpp:988</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_ac42245154cfb4f125cfe1ef4671ca19f"><div class="ttname"><a href="class_radiation_model.html#ac42245154cfb4f125cfe1ef4671ca19f">RadiationModel::optionalOutputPrimitiveData</a></div><div class="ttdeci">void optionalOutputPrimitiveData(const char *label)</div><div class="ttdoc">Add optional output primitive data values to the Context.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00062">RadiationModel.cpp:62</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_ac78340f2c7f5cf9089e26d15ea5dc41b"><div class="ttname"><a href="class_radiation_model.html#ac78340f2c7f5cf9089e26d15ea5dc41b">RadiationModel::writeImageBoundingBoxes_ObjectData</a></div><div class="ttdeci">void writeImageBoundingBoxes_ObjectData(const std::string &amp;cameralabel, const std::string &amp;object_data_label, uint object_class_ID, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, bool append_label_file=false, int frame=-1)</div><div class="ttdoc">Write bounding boxes based on object data labels (Ultralytic's YOLO format). Object data must have ty...</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05473">RadiationModel.cpp:5473</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_ac78340f2c7f5cf9089e26d15ea5dc41b"><div class="ttname"><a href="class_radiation_model.html#ac78340f2c7f5cf9089e26d15ea5dc41b">RadiationModel::writeImageBoundingBoxes_ObjectData</a></div><div class="ttdeci">void writeImageBoundingBoxes_ObjectData(const std::string &amp;cameralabel, const std::string &amp;object_data_label, uint object_class_ID, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, bool append_label_file=false, int frame=-1)</div><div class="ttdoc">Write bounding boxes based on object data labels (Ultralytic's YOLO format). Object data must have ty...</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05501">RadiationModel.cpp:5501</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_ac85aa79af6c1b3b50081216c6c257225"><div class="ttname"><a href="class_radiation_model.html#ac85aa79af6c1b3b50081216c6c257225">RadiationModel::setDiffuseRadiationExtinctionCoeff</a></div><div class="ttdeci">void setDiffuseRadiationExtinctionCoeff(const std::string &amp;label, float K, const helios::vec3 &amp;peak_dir)</div><div class="ttdoc">Extinction coefficient of diffuse ambient radiation.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00097">RadiationModel.cpp:97</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_acf5fe304146a9270bf0e841f59e51934"><div class="ttname"><a href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a></div><div class="ttdeci">void updateGeometry()</div><div class="ttdoc">Adds all geometric primitives from the Context to OptiX.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l01966">RadiationModel.cpp:1966</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_acf5fe304146a9270bf0e841f59e51934"><div class="ttname"><a href="class_radiation_model.html#acf5fe304146a9270bf0e841f59e51934">RadiationModel::updateGeometry</a></div><div class="ttdeci">void updateGeometry()</div><div class="ttdoc">Adds all geometric primitives from the Context to OptiX.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l01974">RadiationModel.cpp:1974</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_acfcbd32e59e2b2728dabde1c7fa74329"><div class="ttname"><a href="class_radiation_model.html#acfcbd32e59e2b2728dabde1c7fa74329">RadiationModel::RadiationModel</a></div><div class="ttdeci">RadiationModel(helios::Context *context)</div><div class="ttdoc">Default constructor.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00020">RadiationModel.cpp:20</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_ad0a4554dfa67054804de534229805054"><div class="ttname"><a href="class_radiation_model.html#ad0a4554dfa67054804de534229805054">RadiationModel::addRadiationBand</a></div><div class="ttdeci">void addRadiationBand(const std::string &amp;label)</div><div class="ttdoc">Add a spectral radiation band to the model.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00183">RadiationModel.cpp:183</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_ad4236469b34bcb4b216a78c96872b760"><div class="ttname"><a href="class_radiation_model.html#ad4236469b34bcb4b216a78c96872b760">RadiationModel::enableCameraModelVisualization</a></div><div class="ttdeci">void enableCameraModelVisualization()</div><div class="ttdoc">Add a 3D model of the camera to the Context for visualization purposes.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00682">RadiationModel.cpp:682</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_ad495efb7a88df316cc8117e1d181d104"><div class="ttname"><a href="class_radiation_model.html#ad495efb7a88df316cc8117e1d181d104">RadiationModel::writeDepthImageData</a></div><div class="ttdeci">void writeDepthImageData(const std::string &amp;cameralabel, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1)</div><div class="ttdoc">Write depth image data to text file.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05249">RadiationModel.cpp:5249</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_adb5a74547d51a18018d3daeba0ec5f3c"><div class="ttname"><a href="class_radiation_model.html#adb5a74547d51a18018d3daeba0ec5f3c">RadiationModel::getCameraResponseScale</a></div><div class="ttdeci">float getCameraResponseScale(const std::string &amp;orginalcameralabel, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, const std::vector&lt; std::string &gt; &amp;bandlabels, const std::vector&lt; std::string &gt; &amp;sourcelabels, helios::vec2 &amp;wavelengthrange, const std::vector&lt; std::vector&lt; float &gt; &gt; &amp;truevalues)</div><div class="ttdoc">Get the scale factor of the camera response for a given camera.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05051">RadiationModel.cpp:5051</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_ad495efb7a88df316cc8117e1d181d104"><div class="ttname"><a href="class_radiation_model.html#ad495efb7a88df316cc8117e1d181d104">RadiationModel::writeDepthImageData</a></div><div class="ttdeci">void writeDepthImageData(const std::string &amp;cameralabel, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1)</div><div class="ttdoc">Write depth image data to text file.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05265">RadiationModel.cpp:5265</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_adb5a74547d51a18018d3daeba0ec5f3c"><div class="ttname"><a href="class_radiation_model.html#adb5a74547d51a18018d3daeba0ec5f3c">RadiationModel::getCameraResponseScale</a></div><div class="ttdeci">float getCameraResponseScale(const std::string &amp;orginalcameralabel, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, const std::vector&lt; std::string &gt; &amp;bandlabels, const std::vector&lt; std::string &gt; &amp;sourcelabels, helios::vec2 &amp;wavelengthrange, const std::vector&lt; std::vector&lt; float &gt; &gt; &amp;truevalues)</div><div class="ttdoc">Get the scale factor of the camera response for a given camera.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05059">RadiationModel.cpp:5059</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_adea522844d6fe85df2f1dc3b78f514eb"><div class="ttname"><a href="class_radiation_model.html#adea522844d6fe85df2f1dc3b78f514eb">RadiationModel::addCollimatedRadiationSource</a></div><div class="ttdeci">uint addCollimatedRadiationSource()</div><div class="ttdoc">Add an external source of collimated radiation (i.e., source at infinite distance with parallel rays)...</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00288">RadiationModel.cpp:288</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_aeae03b4de9b9c57ac987407fdfd6afa4"><div class="ttname"><a href="class_radiation_model.html#aeae03b4de9b9c57ac987407fdfd6afa4">RadiationModel::~RadiationModel</a></div><div class="ttdeci">~RadiationModel()</div><div class="ttdoc">Destructor.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00050">RadiationModel.cpp:50</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_aedf80552eaf2bf6a8544dcb2c72cb331"><div class="ttname"><a href="class_radiation_model.html#aedf80552eaf2bf6a8544dcb2c72cb331">RadiationModel::addRadiationCamera</a></div><div class="ttdeci">void addRadiationCamera(const std::string &amp;camera_label, const std::vector&lt; std::string &gt; &amp;band_label, const helios::vec3 &amp;position, const helios::vec3 &amp;lookat, const CameraProperties &amp;camera_properties, uint antialiasing_samples)</div><div class="ttdoc">Add a radiation camera sensor.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l01162">RadiationModel.cpp:1162</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_af698122e4c9cb2855cca5e54037c985d"><div class="ttname"><a href="class_radiation_model.html#af698122e4c9cb2855cca5e54037c985d">RadiationModel::setDiffuseSpectrum</a></div><div class="ttdeci">void setDiffuseSpectrum(const std::string &amp;spectrum_label)</div><div class="ttdoc">Set the spectral distribution of diffuse ambient radiation FOR ALL BANDS based on global data of wave...</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00607">RadiationModel.cpp:607</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_af8450f2308aee38272b4aef87f0c547b"><div class="ttname"><a href="class_radiation_model.html#af8450f2308aee38272b4aef87f0c547b">RadiationModel::getDiffuseFlux</a></div><div class="ttdeci">float getDiffuseFlux(const std::string &amp;band_label) const</div><div class="ttdoc">Get the diffuse flux for a given band.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00643">RadiationModel.cpp:643</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_afabb4e1a6c8c67ccc9c68aab7dfd07e3"><div class="ttname"><a href="class_radiation_model.html#afabb4e1a6c8c67ccc9c68aab7dfd07e3">RadiationModel::updateCameraResponse</a></div><div class="ttdeci">void updateCameraResponse(const std::string &amp;orginalcameralabel, const std::vector&lt; std::string &gt; &amp;sourcelabels_raw, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, helios::vec2 &amp;wavelengthrange, const std::vector&lt; std::vector&lt; float &gt; &gt; &amp;truevalues, const std::string &amp;calibratedmark)</div><div class="ttdoc">Update the camera response for a given camera based on color board.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l04849">RadiationModel.cpp:4849</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_afabb4e1a6c8c67ccc9c68aab7dfd07e3"><div class="ttname"><a href="class_radiation_model.html#afabb4e1a6c8c67ccc9c68aab7dfd07e3">RadiationModel::updateCameraResponse</a></div><div class="ttdeci">void updateCameraResponse(const std::string &amp;orginalcameralabel, const std::vector&lt; std::string &gt; &amp;sourcelabels_raw, const std::vector&lt; std::string &gt; &amp;cameraresponselabels, helios::vec2 &amp;wavelengthrange, const std::vector&lt; std::vector&lt; float &gt; &gt; &amp;truevalues, const std::string &amp;calibratedmark)</div><div class="ttdoc">Update the camera response for a given camera based on color board.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l04857">RadiationModel.cpp:4857</a></div></div>
 <div class="ttc" id="aclass_radiation_model_html_afadd1370bef086ee0e69c3d0469c5941"><div class="ttname"><a href="class_radiation_model.html#afadd1370bef086ee0e69c3d0469c5941">RadiationModel::integrateSourceSpectrum</a></div><div class="ttdeci">float integrateSourceSpectrum(uint source_ID, float wavelength1, float wavelength2) const</div><div class="ttdoc">Integrate a source spectral distribution between two wavelength bounds.</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l00952">RadiationModel.cpp:952</a></div></div>
-<div class="ttc" id="aclass_radiation_model_html_afdbe940b3c4ae5855a0fcbe5b0b7f708"><div class="ttname"><a href="class_radiation_model.html#afdbe940b3c4ae5855a0fcbe5b0b7f708">RadiationModel::writeObjectDataLabelMap</a></div><div class="ttdeci">void writeObjectDataLabelMap(const std::string &amp;cameralabel, const std::string &amp;object_data_label, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1, float padvalue=NAN)</div><div class="ttdoc">Write image pixel labels to text file based on object data. Object data must have type 'float',...</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05161">RadiationModel.cpp:5161</a></div></div>
+<div class="ttc" id="aclass_radiation_model_html_afdbe940b3c4ae5855a0fcbe5b0b7f708"><div class="ttname"><a href="class_radiation_model.html#afdbe940b3c4ae5855a0fcbe5b0b7f708">RadiationModel::writeObjectDataLabelMap</a></div><div class="ttdeci">void writeObjectDataLabelMap(const std::string &amp;cameralabel, const std::string &amp;object_data_label, const std::string &amp;imagefile_base, const std::string &amp;image_path=&quot;./&quot;, int frame=-1, float padvalue=NAN)</div><div class="ttdoc">Write image pixel labels to text file based on object data. Object data must have type 'float',...</div><div class="ttdef"><b>Definition</b> <a href="_radiation_model_8cpp_source.html#l05173">RadiationModel.cpp:5173</a></div></div>
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 <div class="ttc" id="agroup__vectors_html_ga39457188bb8c3aba1fdc9217ecc16f74"><div class="ttname"><a href="group__vectors.html#ga39457188bb8c3aba1fdc9217ecc16f74">helios::make_int2</a></div><div class="ttdeci">int2 make_int2(int x, int y)</div><div class="ttdoc">Make an int2 vector from two ints.</div><div class="ttdef"><b>Definition</b> <a href="helios__vector__types_8h_source.html#l00099">helios_vector_types.h:99</a></div></div>
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index 456f5f7ab..57c37bb7a 100644
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diff --git a/doc/html/context_primdata.html b/doc/html/context_primdata.html
index dd37c0732..f1d8b5ea3 100644
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diff --git a/doc/html/context_primitives.html b/doc/html/context_primitives.html
index 53d8e9f57..6a3e15ffc 100644
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index 19063597e..e1314c358 100644
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index cb033755d..359563fd4 100644
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index 656c7a96a..63dd84216 100644
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 <div class="ttc" id="aclasshelios_1_1_context_html_a129516a8fce035705a541e7b877eba2f"><div class="ttname"><a href="classhelios_1_1_context.html#a129516a8fce035705a541e7b877eba2f">helios::Context::loadXML</a></div><div class="ttdeci">std::vector&lt; uint &gt; loadXML(const char *filename, bool quiet=false)</div><div class="ttdoc">Load inputs specified in an XML file.</div><div class="ttdef"><b>Definition</b> <a href="_context__file_i_o_8cpp_source.html#l01217">Context_fileIO.cpp:1217</a></div></div>
 <div class="ttc" id="aclasshelios_1_1_context_html_a1ae827c4e0c90a883430bd1db95993e1"><div class="ttname"><a href="classhelios_1_1_context.html#a1ae827c4e0c90a883430bd1db95993e1">helios::Context::translatePrimitive</a></div><div class="ttdeci">void translatePrimitive(uint UUID, const vec3 &amp;shift)</div><div class="ttdoc">Translate a primitive using its UUID.</div><div class="ttdef"><b>Definition</b> <a href="_context_8cpp_source.html#l01396">Context.cpp:1396</a></div></div>
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@@ -1391,7 +1391,7 @@
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@@ -1411,10 +1411,10 @@
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+<div class="ttc" id="aglobal_8h_html_ad76f15d03b511d1bf5123d64d804d6e8"><div class="ttname"><a href="global_8h.html#ad76f15d03b511d1bf5123d64d804d6e8">helios::getFilePath</a></div><div class="ttdeci">std::string getFilePath(const std::string &amp;filepath, bool trailingslash=true)</div><div class="ttdoc">Parse a file string to get the path (i.e., portion of the string before the file name).</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l03008">global.cpp:3008</a></div></div>
 <div class="ttc" id="aglobal_8h_html_adcd5a98ec7c45292736ec8e19ce9de51"><div class="ttname"><a href="global_8h.html#adcd5a98ec7c45292736ec8e19ce9de51">helios::nullrotation</a></div><div class="ttdeci">SphericalCoord nullrotation</div><div class="ttdoc">Default null SphericalCoord that applies no rotation.</div><div class="ttdef"><b>Definition</b> <a href="global_8cpp_source.html#l00057">global.cpp:57</a></div></div>
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+<div class="foldopen" id="foldopen03003" data-start="{" data-end="}">
+<div class="line"><a id="l03003" name="l03003"></a><span class="lineno"><a class="line" href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902"> 3003</a></span>std::string <a class="code hl_function" href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902">helios::getFileName</a>( <span class="keyword">const</span> std::string &amp;filepath ){</div>
+<div class="line"><a id="l03004" name="l03004"></a><span class="lineno"> 3004</span>    std::filesystem::path output_path_fs = filepath;</div>
+<div class="line"><a id="l03005" name="l03005"></a><span class="lineno"> 3005</span>    <span class="keywordflow">return</span> output_path_fs.filename().string();</div>
+<div class="line"><a id="l03006" name="l03006"></a><span class="lineno"> 3006</span>}</div>
+</div>
+<div class="line"><a id="l03007" name="l03007"></a><span class="lineno"> 3007</span> </div>
+<div class="foldopen" id="foldopen03008" data-start="{" data-end="}">
+<div class="line"><a id="l03008" name="l03008"></a><span class="lineno"><a class="line" href="global_8h.html#ad76f15d03b511d1bf5123d64d804d6e8"> 3008</a></span>std::string <a class="code hl_function" href="global_8h.html#ad76f15d03b511d1bf5123d64d804d6e8">helios::getFilePath</a>( <span class="keyword">const</span> std::string &amp;filepath, <span class="keywordtype">bool</span> trailingslash ){</div>
+<div class="line"><a id="l03009" name="l03009"></a><span class="lineno"> 3009</span>    std::filesystem::path output_path_fs = filepath;</div>
+<div class="line"><a id="l03010" name="l03010"></a><span class="lineno"> 3010</span>    std::string output_path = output_path_fs.parent_path().string();</div>
+<div class="line"><a id="l03011" name="l03011"></a><span class="lineno"> 3011</span>    <span class="keywordflow">if</span>( trailingslash ) {</div>
+<div class="line"><a id="l03012" name="l03012"></a><span class="lineno"> 3012</span>        <span class="keywordflow">if</span> (output_path.find_last_of(<span class="charliteral">&#39;/&#39;</span>) != output_path.length() - 1) {</div>
+<div class="line"><a id="l03013" name="l03013"></a><span class="lineno"> 3013</span>            output_path += <span class="stringliteral">&quot;/&quot;</span>;</div>
+<div class="line"><a id="l03014" name="l03014"></a><span class="lineno"> 3014</span>        }</div>
+<div class="line"><a id="l03015" name="l03015"></a><span class="lineno"> 3015</span>    }</div>
+<div class="line"><a id="l03016" name="l03016"></a><span class="lineno"> 3016</span> </div>
+<div class="line"><a id="l03017" name="l03017"></a><span class="lineno"> 3017</span>    <span class="keywordflow">return</span> output_path;</div>
+<div class="line"><a id="l03018" name="l03018"></a><span class="lineno"> 3018</span>}</div>
+</div>
+<div class="line"><a id="l03019" name="l03019"></a><span class="lineno"> 3019</span> </div>
+<div class="foldopen" id="foldopen03020" data-start="{" data-end="}">
+<div class="line"><a id="l03020" name="l03020"></a><span class="lineno"><a class="line" href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9"> 3020</a></span><span class="keywordtype">bool</span> <a class="code hl_function" href="global_8h.html#a614486c4ac0686c5b58813f03f0cedf9">helios::validateOutputPath</a>(std::string &amp;output_path, <span class="keyword">const</span> std::vector&lt;std::string&gt; &amp;allowable_file_extensions){</div>
+<div class="line"><a id="l03021" name="l03021"></a><span class="lineno"> 3021</span> </div>
+<div class="line"><a id="l03022" name="l03022"></a><span class="lineno"> 3022</span>    <span class="keywordflow">if</span>( output_path.empty() ){ <span class="comment">//path was empty</span></div>
+<div class="line"><a id="l03023" name="l03023"></a><span class="lineno"> 3023</span>        <span class="keywordflow">return</span> <span class="keyword">false</span>;</div>
+<div class="line"><a id="l03024" name="l03024"></a><span class="lineno"> 3024</span>    }</div>
+<div class="line"><a id="l03025" name="l03025"></a><span class="lineno"> 3025</span> </div>
+<div class="line"><a id="l03026" name="l03026"></a><span class="lineno"> 3026</span>    std::filesystem::path output_path_fs = output_path;</div>
+<div class="line"><a id="l03027" name="l03027"></a><span class="lineno"> 3027</span> </div>
+<div class="line"><a id="l03028" name="l03028"></a><span class="lineno"> 3028</span>    std::string output_file = output_path_fs.filename().string();</div>
+<div class="line"><a id="l03029" name="l03029"></a><span class="lineno"> 3029</span>    std::string output_file_ext = output_path_fs.extension().string();</div>
+<div class="line"><a id="l03030" name="l03030"></a><span class="lineno"> 3030</span>    std::string output_dir = output_path_fs.parent_path().string();</div>
+<div class="line"><a id="l03031" name="l03031"></a><span class="lineno"> 3031</span> </div>
+<div class="line"><a id="l03032" name="l03032"></a><span class="lineno"> 3032</span>    <span class="keywordflow">if</span>( output_file.empty() ) { <span class="comment">//path was a directory without a file</span></div>
 <div class="line"><a id="l03033" name="l03033"></a><span class="lineno"> 3033</span> </div>
-<div class="foldopen" id="foldopen03034" data-start="{" data-end="}">
-<div class="line"><a id="l03034" name="l03034"></a><span class="lineno"><a class="line" href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902"> 3034</a></span>std::string <a class="code hl_function" href="global_8h.html#a63bd49091fdab0e262b051f61fb9a902">helios::getFileName</a>( <span class="keyword">const</span> std::string &amp;filepath ){</div>
-<div class="line"><a id="l03035" name="l03035"></a><span class="lineno"> 3035</span>  <span class="keywordflow">if</span>( filepath.find(<span class="charliteral">&#39;/&#39;</span>)&lt;filepath.size() ) {</div>
-<div class="line"><a id="l03036" name="l03036"></a><span class="lineno"> 3036</span>    <span class="keywordflow">return</span> filepath.substr(filepath.find_last_of(<span class="charliteral">&#39;/&#39;</span>) + 1);</div>
-<div class="line"><a id="l03037" name="l03037"></a><span class="lineno"> 3037</span>  }<span class="keywordflow">else</span> <span class="keywordflow">if</span>( filepath.find(<span class="charliteral">&#39;\\&#39;</span>)==filepath.size() ) {</div>
-<div class="line"><a id="l03038" name="l03038"></a><span class="lineno"> 3038</span>    <span class="keywordflow">return</span> filepath.substr(filepath.find_last_of(<span class="charliteral">&#39;\\&#39;</span>) + 1);</div>
-<div class="line"><a id="l03039" name="l03039"></a><span class="lineno"> 3039</span>  }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03040" name="l03040"></a><span class="lineno"> 3040</span>    <span class="keywordflow">return</span> filepath;</div>
-<div class="line"><a id="l03041" name="l03041"></a><span class="lineno"> 3041</span>  }</div>
-<div class="line"><a id="l03042" name="l03042"></a><span class="lineno"> 3042</span> </div>
-<div class="line"><a id="l03043" name="l03043"></a><span class="lineno"> 3043</span>}</div>
-</div>
-<div class="line"><a id="l03044" name="l03044"></a><span class="lineno"> 3044</span> </div>
-<div class="foldopen" id="foldopen03045" data-start="{" data-end="}">
-<div class="line"><a id="l03045" name="l03045"></a><span class="lineno"><a class="line" href="global_8h.html#ad76f15d03b511d1bf5123d64d804d6e8"> 3045</a></span>std::string <a class="code hl_function" href="global_8h.html#ad76f15d03b511d1bf5123d64d804d6e8">helios::getFilePath</a>( <span class="keyword">const</span> std::string &amp;filepath, <span class="keywordtype">bool</span> trailingslash ){</div>
-<div class="line"><a id="l03046" name="l03046"></a><span class="lineno"> 3046</span>  <span class="keywordflow">if</span>( filepath.find(<span class="charliteral">&#39;/&#39;</span>)==filepath.size() ){</div>
-<div class="line"><a id="l03047" name="l03047"></a><span class="lineno"> 3047</span>    <span class="keywordflow">if</span>( trailingslash ){</div>
-<div class="line"><a id="l03048" name="l03048"></a><span class="lineno"> 3048</span>      std::string str = <span class="stringliteral">&quot;/&quot;</span>;</div>
-<div class="line"><a id="l03049" name="l03049"></a><span class="lineno"> 3049</span>      <span class="keywordflow">return</span> str;</div>
-<div class="line"><a id="l03050" name="l03050"></a><span class="lineno"> 3050</span>    }<span class="keywordflow">else</span> {</div>
-<div class="line"><a id="l03051" name="l03051"></a><span class="lineno"> 3051</span>      std::string str;</div>
-<div class="line"><a id="l03052" name="l03052"></a><span class="lineno"> 3052</span>      <span class="keywordflow">return</span> str;</div>
-<div class="line"><a id="l03053" name="l03053"></a><span class="lineno"> 3053</span>    }</div>
-<div class="line"><a id="l03054" name="l03054"></a><span class="lineno"> 3054</span>  }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03055" name="l03055"></a><span class="lineno"> 3055</span>    <span class="keywordflow">if</span>( trailingslash ) {</div>
-<div class="line"><a id="l03056" name="l03056"></a><span class="lineno"> 3056</span>      <span class="keywordflow">return</span> filepath.substr(0, filepath.find_last_of(<span class="charliteral">&#39;/&#39;</span>) + 1);</div>
-<div class="line"><a id="l03057" name="l03057"></a><span class="lineno"> 3057</span>    }<span class="keywordflow">else</span>{</div>
-<div class="line"><a id="l03058" name="l03058"></a><span class="lineno"> 3058</span>      <span class="keywordflow">return</span> filepath.substr(0, filepath.find_last_of(<span class="charliteral">&#39;/&#39;</span>));</div>
-<div class="line"><a id="l03059" name="l03059"></a><span class="lineno"> 3059</span>    }</div>
-<div class="line"><a id="l03060" name="l03060"></a><span class="lineno"> 3060</span>  }</div>
-<div class="line"><a id="l03061" name="l03061"></a><span class="lineno"> 3061</span>}</div>
-</div>
-<div class="line"><a id="l03062" name="l03062"></a><span class="lineno"> 3062</span> </div>
-<div class="foldopen" id="foldopen03063" data-start="{" data-end="}">
-<div class="line"><a id="l03063" name="l03063"></a><span class="lineno"><a class="line" href="global_8h.html#a125e8bef86fb7272d4d66898afb7d368"> 3063</a></span>std::vector&lt;float&gt; <a class="code hl_function" href="global_8h.html#a125e8bef86fb7272d4d66898afb7d368">helios::importVectorFromFile</a>(<span class="keyword">const</span> std::string &amp;filepath){</div>
-<div class="line"><a id="l03064" name="l03064"></a><span class="lineno"> 3064</span> </div>
-<div class="line"><a id="l03065" name="l03065"></a><span class="lineno"> 3065</span>  std::ifstream stream(filepath.c_str());</div>
-<div class="line"><a id="l03066" name="l03066"></a><span class="lineno"> 3066</span> </div>
-<div class="line"><a id="l03067" name="l03067"></a><span class="lineno"> 3067</span>  <span class="keywordflow">if</span>( !stream.is_open() ){</div>
-<div class="line"><a id="l03068" name="l03068"></a><span class="lineno"> 3068</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (helios::importVectorFromFile): File &quot;</span> + filepath + <span class="stringliteral">&quot; could not be opened for reading. Check that it exists and that you have permission to read it.&quot;</span>);</div>
-<div class="line"><a id="l03069" name="l03069"></a><span class="lineno"> 3069</span>  }</div>
-<div class="line"><a id="l03070" name="l03070"></a><span class="lineno"> 3070</span> </div>
-<div class="line"><a id="l03071" name="l03071"></a><span class="lineno"> 3071</span>  std::istream_iterator&lt;float&gt; start(stream), end;</div>
-<div class="line"><a id="l03072" name="l03072"></a><span class="lineno"> 3072</span>  std::vector&lt;float&gt; vec(start, end);</div>
-<div class="line"><a id="l03073" name="l03073"></a><span class="lineno"> 3073</span>  <span class="keywordflow">return</span> vec;</div>
-<div class="line"><a id="l03074" name="l03074"></a><span class="lineno"> 3074</span> </div>
-<div class="line"><a id="l03075" name="l03075"></a><span class="lineno"> 3075</span>}</div>
+<div class="line"><a id="l03034" name="l03034"></a><span class="lineno"> 3034</span>        <span class="comment">// Make sure directory has a trailing slash</span></div>
+<div class="line"><a id="l03035" name="l03035"></a><span class="lineno"> 3035</span>        <span class="keywordflow">if</span> (output_dir.find_last_of(<span class="charliteral">&#39;/&#39;</span>) != output_dir.length() - 1) {</div>
+<div class="line"><a id="l03036" name="l03036"></a><span class="lineno"> 3036</span>            output_path += <span class="stringliteral">&quot;/&quot;</span>;</div>
+<div class="line"><a id="l03037" name="l03037"></a><span class="lineno"> 3037</span>        }</div>
+<div class="line"><a id="l03038" name="l03038"></a><span class="lineno"> 3038</span> </div>
+<div class="line"><a id="l03039" name="l03039"></a><span class="lineno"> 3039</span>    }</div>
+<div class="line"><a id="l03040" name="l03040"></a><span class="lineno"> 3040</span> </div>
+<div class="line"><a id="l03041" name="l03041"></a><span class="lineno"> 3041</span>    <span class="comment">// Create the output directory if it does not exist</span></div>
+<div class="line"><a id="l03042" name="l03042"></a><span class="lineno"> 3042</span>    <span class="keywordflow">if</span> ( !output_dir.empty() &amp;&amp; !std::filesystem::exists(output_dir)) {</div>
+<div class="line"><a id="l03043" name="l03043"></a><span class="lineno"> 3043</span>        <span class="keywordflow">if</span> (!std::filesystem::create_directory(output_dir)) {</div>
+<div class="line"><a id="l03044" name="l03044"></a><span class="lineno"> 3044</span>            <span class="keywordflow">return</span> <span class="keyword">false</span>;</div>
+<div class="line"><a id="l03045" name="l03045"></a><span class="lineno"> 3045</span>        }</div>
+<div class="line"><a id="l03046" name="l03046"></a><span class="lineno"> 3046</span>    }</div>
+<div class="line"><a id="l03047" name="l03047"></a><span class="lineno"> 3047</span> </div>
+<div class="line"><a id="l03048" name="l03048"></a><span class="lineno"> 3048</span>    <span class="keywordflow">if</span>( !output_file.empty() &amp;&amp; !allowable_file_extensions.empty() ){</div>
+<div class="line"><a id="l03049" name="l03049"></a><span class="lineno"> 3049</span> </div>
+<div class="line"><a id="l03050" name="l03050"></a><span class="lineno"> 3050</span>        <span class="comment">//validate file extension</span></div>
+<div class="line"><a id="l03051" name="l03051"></a><span class="lineno"> 3051</span>        <span class="keywordtype">bool</span> valid_extension = <span class="keyword">false</span>;</div>
+<div class="line"><a id="l03052" name="l03052"></a><span class="lineno"> 3052</span>        <span class="keywordflow">for</span>( <span class="keyword">const</span> <span class="keyword">auto</span> &amp;ext : allowable_file_extensions ){</div>
+<div class="line"><a id="l03053" name="l03053"></a><span class="lineno"> 3053</span>            <span class="keywordflow">if</span>( output_file_ext == ext ){</div>
+<div class="line"><a id="l03054" name="l03054"></a><span class="lineno"> 3054</span>                valid_extension = <span class="keyword">true</span>;</div>
+<div class="line"><a id="l03055" name="l03055"></a><span class="lineno"> 3055</span>                <span class="keywordflow">break</span>;</div>
+<div class="line"><a id="l03056" name="l03056"></a><span class="lineno"> 3056</span>            }</div>
+<div class="line"><a id="l03057" name="l03057"></a><span class="lineno"> 3057</span>        }</div>
+<div class="line"><a id="l03058" name="l03058"></a><span class="lineno"> 3058</span>        <span class="keywordflow">if</span>( !valid_extension ){</div>
+<div class="line"><a id="l03059" name="l03059"></a><span class="lineno"> 3059</span>            <span class="keywordflow">return</span> <span class="keyword">false</span>;</div>
+<div class="line"><a id="l03060" name="l03060"></a><span class="lineno"> 3060</span>        }</div>
+<div class="line"><a id="l03061" name="l03061"></a><span class="lineno"> 3061</span> </div>
+<div class="line"><a id="l03062" name="l03062"></a><span class="lineno"> 3062</span>    }</div>
+<div class="line"><a id="l03063" name="l03063"></a><span class="lineno"> 3063</span> </div>
+<div class="line"><a id="l03064" name="l03064"></a><span class="lineno"> 3064</span>    <span class="keywordflow">return</span> <span class="keyword">true</span>;</div>
+<div class="line"><a id="l03065" name="l03065"></a><span class="lineno"> 3065</span> </div>
+<div class="line"><a id="l03066" name="l03066"></a><span class="lineno"> 3066</span>}</div>
+</div>
+<div class="line"><a id="l03067" name="l03067"></a><span class="lineno"> 3067</span> </div>
+<div class="foldopen" id="foldopen03068" data-start="{" data-end="}">
+<div class="line"><a id="l03068" name="l03068"></a><span class="lineno"><a class="line" href="global_8h.html#a125e8bef86fb7272d4d66898afb7d368"> 3068</a></span>std::vector&lt;float&gt; <a class="code hl_function" href="global_8h.html#a125e8bef86fb7272d4d66898afb7d368">helios::importVectorFromFile</a>(<span class="keyword">const</span> std::string &amp;filepath){</div>
+<div class="line"><a id="l03069" name="l03069"></a><span class="lineno"> 3069</span> </div>
+<div class="line"><a id="l03070" name="l03070"></a><span class="lineno"> 3070</span>  std::ifstream stream(filepath.c_str());</div>
+<div class="line"><a id="l03071" name="l03071"></a><span class="lineno"> 3071</span> </div>
+<div class="line"><a id="l03072" name="l03072"></a><span class="lineno"> 3072</span>  <span class="keywordflow">if</span>( !stream.is_open() ){</div>
+<div class="line"><a id="l03073" name="l03073"></a><span class="lineno"> 3073</span>    <a class="code hl_function" href="global_8h.html#a672182e7d8beb63c7cf256fa8294dc86">helios_runtime_error</a>(<span class="stringliteral">&quot;ERROR (helios::importVectorFromFile): File &quot;</span> + filepath + <span class="stringliteral">&quot; could not be opened for reading. Check that it exists and that you have permission to read it.&quot;</span>);</div>
+<div class="line"><a id="l03074" name="l03074"></a><span class="lineno"> 3074</span>  }</div>
+<div class="line"><a id="l03075" name="l03075"></a><span class="lineno"> 3075</span> </div>
+<div class="line"><a id="l03076" name="l03076"></a><span class="lineno"> 3076</span>  std::istream_iterator&lt;float&gt; start(stream), end;</div>
+<div class="line"><a id="l03077" name="l03077"></a><span class="lineno"> 3077</span>  std::vector&lt;float&gt; vec(start, end);</div>
+<div class="line"><a id="l03078" name="l03078"></a><span class="lineno"> 3078</span>  <span class="keywordflow">return</span> vec;</div>
+<div class="line"><a id="l03079" name="l03079"></a><span class="lineno"> 3079</span> </div>
+<div class="line"><a id="l03080" name="l03080"></a><span class="lineno"> 3080</span>}</div>
 </div>
 <div class="ttc" id="aglobal_8h_html"><div class="ttname"><a href="global_8h.html">global.h</a></div></div>
 <div class="ttc" id="aglobal_8h_html_a0209e53a2bdd31c9977de93b27e968b6"><div class="ttname"><a href="global_8h.html#a0209e53a2bdd31c9977de93b27e968b6">helios::parse_double</a></div><div class="ttdeci">bool parse_double(const std::string &amp;input_string, double &amp;converted_double)</div><div class="ttdoc">Convert a string into a double with error checking.</div><div class="ttdef"><b>Definition</b> <a href="#l00779">global.cpp:779</a></div></div>
@@ -3435,7 +3442,7 @@
 <div class="ttc" id="aglobal_8h_html_a07b0dda8b9aee4100e9f6332dbfe7f64"><div class="ttname"><a href="global_8h.html#a07b0dda8b9aee4100e9f6332dbfe7f64">helios::PNGHasAlpha</a></div><div class="ttdeci">bool PNGHasAlpha(const char *filename)</div><div class="ttdoc">Check whether PNG image file has an alpha/transparency channel.</div><div class="ttdef"><b>Definition</b> <a href="#l01352">global.cpp:1352</a></div></div>
 <div class="ttc" id="aglobal_8h_html_a08c21d08fc1e1dd07ff612f8b503e295"><div class="ttname"><a href="global_8h.html#a08c21d08fc1e1dd07ff612f8b503e295">helios::XMLloadint4</a></div><div class="ttdeci">helios::int4 XMLloadint4(pugi::xml_node node, const char *field)</div><div class="ttdoc">Function to load and convert a field in a pugi XML node into a int4.</div><div class="ttdef"><b>Definition</b> <a href="#l02850">global.cpp:2850</a></div></div>
 <div class="ttc" id="aglobal_8h_html_a09ae9efe6ba5dddb144519931bcf94b5"><div class="ttname"><a href="global_8h.html#a09ae9efe6ba5dddb144519931bcf94b5">helios::rotatePointAboutLine</a></div><div class="ttdeci">vec3 rotatePointAboutLine(const vec3 &amp;point, const vec3 &amp;line_base, const vec3 &amp;line_direction, float theta)</div><div class="ttdoc">Rotate a 3D vector about an arbitrary line.</div><div class="ttdef"><b>Definition</b> <a href="#l00140">global.cpp:140</a></div></div>
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@@ -3465,11 +3473,11 @@
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+<div class="ttc" id="aglobal_8h_html_a9fff8cb6c3474de479f81c12f173d3ed"><div class="ttname"><a href="global_8h.html#a9fff8cb6c3474de479f81c12f173d3ed">helios::getFileStem</a></div><div class="ttdeci">std::string getFileStem(const std::string &amp;filepath)</div><div class="ttdoc">Parse a file string to get the filename without extension.</div><div class="ttdef"><b>Definition</b> <a href="#l02998">global.cpp:2998</a></div></div>
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+<div class="ttc" id="aglobal_8h_html_ad76f15d03b511d1bf5123d64d804d6e8"><div class="ttname"><a href="global_8h.html#ad76f15d03b511d1bf5123d64d804d6e8">helios::getFilePath</a></div><div class="ttdeci">std::string getFilePath(const std::string &amp;filepath, bool trailingslash=true)</div><div class="ttdoc">Parse a file string to get the path (i.e., portion of the string before the file name).</div><div class="ttdef"><b>Definition</b> <a href="#l03008">global.cpp:3008</a></div></div>
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diff --git a/doc/html/global_8h.html b/doc/html/global_8h.html
index 574a37702..8b2f15809 100644
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+<tr class="memdesc:a614486c4ac0686c5b58813f03f0cedf9"><td class="mdescLeft">&#160;</td><td class="mdescRight">Check whether output file and/or directory is valid. Add a trailing slash if it is a directory.  <br /></td></tr>
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+<p class="definition">Definition at line <a class="el" href="global_8cpp_source.html#l03008">3008</a> of file <a class="el" href="global_8cpp_source.html">global.cpp</a>.</p>
 
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+<p class="definition">Definition at line <a class="el" href="global_8cpp_source.html#l02998">2998</a> of file <a class="el" href="global_8cpp_source.html">global.cpp</a>.</p>
 
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 </dl>
 <dl class="section return"><dt>Returns</dt><dd>One-dimensional vector of floats contained in text file </dd></dl>
 
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+<p class="definition">Definition at line <a class="el" href="global_8cpp_source.html#l03068">3068</a> of file <a class="el" href="global_8cpp_source.html">global.cpp</a>.</p>
 
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 <p class="definition">Definition at line <a class="el" href="global_8cpp_source.html#l00140">140</a> of file <a class="el" href="global_8cpp_source.html">global.cpp</a>.</p>
 
+</div>
+</div>
+<a id="a614486c4ac0686c5b58813f03f0cedf9" name="a614486c4ac0686c5b58813f03f0cedf9"></a>
+<h2 class="memtitle"><span class="permalink"><a href="#a614486c4ac0686c5b58813f03f0cedf9">&#9670;&#160;</a></span>validateOutputPath()</h2>
+
+<div class="memitem">
+<div class="memproto">
+      <table class="memname">
+        <tr>
+          <td class="memname">bool helios::validateOutputPath </td>
+          <td>(</td>
+          <td class="paramtype">std::string &amp;</td>          <td class="paramname"><span class="paramname"><em>output_directory</em></span>, </td>
+        </tr>
+        <tr>
+          <td class="paramkey"></td>
+          <td></td>
+          <td class="paramtype">const std::vector&lt; std::string &gt; &amp;</td>          <td class="paramname"><span class="paramname"><em>allowable_file_extensions</em></span><span class="paramdefsep"> = </span><span class="paramdefval">{}</span>&#160;)</td>
+        </tr>
+      </table>
+</div><div class="memdoc">
+
+<p>Check whether output file and/or directory is valid. Add a trailing slash if it is a directory. </p>
+<dl class="params"><dt>Parameters</dt><dd>
+  <table class="params">
+    <tr><td class="paramdir">[in,out]</td><td class="paramname">output_path</td><td></td></tr>
+    <tr><td class="paramdir">[in]</td><td class="paramname">allowable_file_extensions</td><td></td></tr>
+  </table>
+  </dd>
+</dl>
+<dl class="section return"><dt>Returns</dt><dd>True if directory/file was valid, false otherwise </dd></dl>
+
+<p class="definition">Definition at line <a class="el" href="global_8cpp_source.html#l03020">3020</a> of file <a class="el" href="global_8cpp_source.html">global.cpp</a>.</p>
+
 </div>
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index a37918dde..726050183 100644
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index 93fbad592..b153d39a5 100644
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index a8a81a7fd..1001e917c 100644
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index c1eceb107..069202154 100644
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 | --- **Geometric Parameters** --- |||||
 | max_nodes | RandomParameter_int | 10 | - | Maximum number of nodes/phytomers along a shoot. |
 | internode_radius_initial | RandomParameter_float | 0.001 | meters | Initial radius of the internode when it is created. |
-| internode_radius_max | RandomParameter_float | unlimited | meters | Maximum internode radius for girth growth. For some species like grasses, girth growth stops at some radius. By default, girth growth will continue indefinitely. |
+| internode_radius_max | RandomParameter_float | unlimited | meters | Maximum internode radius for girth growth expansion. |
 | insertion_angle_tip | RandomParameter_float | 20 | degrees | Angle of the child shoot with respect to the parent shoot at the tip of the parent shoot. |
 | insertion_angle_decay_rate | RandomParameter_float | 0 | degrees/node | Rate of increase of the child insertion angle moving down the parent shoot. |
 | internode_length_max | RandomParameter_float | 0.02 | meters | Maximum length (with respect to position along the parent shoot) of the internode of a child shoot. |
@@ -302,7 +302,7 @@ Parameters defining the geometry and growth of the shoot are given in the \ref S
 | base_roll | RandomParameter_float | 0 | degrees | Roll angle of the shoot, which effectively specifies the angle of the first petiole relative to the parent shoot. |
 | base_yaw | RandomParameter_float | 0 | degrees | Yaw angle of the shoot relative to the parent shoot. |
 | gravitropic_curvature | RandomParameter_float | 0 | degrees/meter | Curvature angle of the shoot per unit length of shoot. If curvature is positive, shoot curves upward toward vertical. If negative, curvature is downward. |
-| tortuosity | RandomParameter_float | 0 | - | Factor determining the amount of random "wiggle" in internode growth along the shoot. |
+| tortuosity | RandomParameter_float | 0 | degrees/(meters)^0.5 | Factor determining the amount of random "wiggle" in internode growth along the shoot. |
 | --- **Growth Parameters** --- |||||
 | phyllochron | RandomParameter_float | 1.0 | days/leaf | Time between the emergence of successive phytomers along the shoot. |
 | leaf_flush_count | \htmlonly<font face="courier" color="green">uint</font>\endhtmlonly | 1 | - | Number of leaves/phytomers to flush at a time. Flushes will occur at an interval of phyllochron*leaf_flush_count. |
@@ -364,7 +364,7 @@ The tendency of shoots to grow toward vertical is given by the parameter \htmlon
 Random "wiggle" can be added to shoot growth using the \htmlonly<font face="courier" color="blue">tortuosity</font>\endhtmlonly parameter. Each time a phytomer is added to the shoot, some constant amount of differential curvature is added according to the parameter \htmlonly<font face="courier" color="blue">gravitropic_curvature</font>\endhtmlonly. To introduce random variation, an additional amount of noise is added to the curvature based on a <a href="https://en.wikipedia.org/wiki/Langevin_equation">Langevin</a>-like equation (Brownian motion):
 
 \f[
-    d\theta = \frac{1}{2}\left(C_g-\theta\right)dL + T\xi(dL)
+    d\theta = -\frac{1}{2}\left(\theta\right)dL + T\xi(dL)
 \f]
 
 where \f$d\theta\f$ is the change in curvature angle of the current phytomer internode relative to the previous internode, \f$\theta\f$ is the integrated curvature angle relative to the base of the shoot, \f$dL\f$ is the internode length, \f$T\f$ is the tortuosity, and \f$\xi (dL)\f$ is a Gaussian process with variance of \f$dL\f$.
diff --git a/plugins/plantarchitecture/src/InputOutput.cpp b/plugins/plantarchitecture/src/InputOutput.cpp
index a300a9df0..5453df120 100644
--- a/plugins/plantarchitecture/src/InputOutput.cpp
+++ b/plugins/plantarchitecture/src/InputOutput.cpp
@@ -441,7 +441,12 @@ void PlantArchitecture::writePlantStructureXML(uint plantID, const std::string &
         helios_runtime_error("ERROR (PlantArchitecture::writePlantStructureXML): Plant ID " + std::to_string(plantID) + " does not exist.");
     }
 
-    //\todo Check the extension of 'filename' and add .xml if needed
+    std::string output_file = filename;
+    if( !validateOutputPath(output_file,{".xml",".XML"}) ){
+        helios_runtime_error("ERROR (PlantArchitecture::writePlantStructureXML): Could not open file " + filename + " for writing. Make sure the directory exists and is writable.");
+    }else if( getFileName(output_file).empty()){
+        helios_runtime_error("ERROR (PlantArchitecture::writePlantStructureXML): The output file given was a directory. This argument should be the path to a file not to a directory.");
+    }
 
     std::ofstream output_xml(filename);
 
diff --git a/plugins/plantarchitecture/src/PlantArchitecture.cpp b/plugins/plantarchitecture/src/PlantArchitecture.cpp
index 1e539d156..db36703b4 100644
--- a/plugins/plantarchitecture/src/PlantArchitecture.cpp
+++ b/plugins/plantarchitecture/src/PlantArchitecture.cpp
@@ -948,7 +948,6 @@ Phytomer::Phytomer(const PhytomerParameters &params, Shoot *parent_shoot, uint p
     }
 
     // create internode tube
-    float dt = 1.f / float(Ndiv_internode_length);
     for(int inode_segment=1; inode_segment <= Ndiv_internode_length; inode_segment++ ){
 
         //apply curvature and tortuosity
@@ -959,12 +958,14 @@ Phytomer::Phytomer(const PhytomerParameters &params, Shoot *parent_shoot, uint p
                 current_curvature_fact *= 2.f;
             }
 
-            parent_shoot->curvature_perturbation += - 0.5f*parent_shoot->curvature_perturbation*dt + 5*parent_shoot_parameters.tortuosity.val()*context_ptr->randn()*sqrt(dt);
-            float curvature_angle = deg2rad((parent_shoot->gravitropic_curvature*current_curvature_fact+parent_shoot->curvature_perturbation) * dr_internode_max);
+            float dt =  dr_internode_max / float(Ndiv_internode_length);
+
+            parent_shoot->curvature_perturbation += - 0.5f*parent_shoot->curvature_perturbation*dt + parent_shoot_parameters.tortuosity.val()*context_ptr->randn()*sqrt(dt);
+            float curvature_angle = deg2rad((parent_shoot->gravitropic_curvature*current_curvature_fact * dr_internode_max + parent_shoot->curvature_perturbation));
             internode_axis = rotatePointAboutLine(internode_axis, nullorigin, shoot_bending_axis, curvature_angle);
 
-            parent_shoot->yaw_perturbation += - 0.5f*parent_shoot->yaw_perturbation*dt + 5*parent_shoot_parameters.tortuosity.val()*context_ptr->randn()*sqrt(dt);
-            float yaw_angle = deg2rad((parent_shoot->yaw_perturbation) * dr_internode_max);
+            parent_shoot->yaw_perturbation += - 0.5f*parent_shoot->yaw_perturbation*dt + parent_shoot_parameters.tortuosity.val()*context_ptr->randn()*sqrt(dt);
+            float yaw_angle = deg2rad((parent_shoot->yaw_perturbation));
             internode_axis = rotatePointAboutLine(internode_axis, nullorigin, make_vec3(0,0,1), yaw_angle);
         }
 
@@ -2729,7 +2730,7 @@ void PlantArchitecture::advanceTime( uint plantID, float dt ) {
         plant_instance.current_age += dt_max;
 
         if( plant_instance.current_age > plant_instance.dd_to_senescence ){
-            std::cout << "Going dormant " << plant_instance.current_age << " " << plant_instance.dd_to_senescence << std::endl;
+            std::cout << "Going dormant" << std::endl;
             for (const auto& shoot : *shoot_tree) {
                 shoot->makeDormant();
                 shoot->carbohydrate_pool_molC = 100;
diff --git a/plugins/plantarchitecture/src/PlantLibrary.cpp b/plugins/plantarchitecture/src/PlantLibrary.cpp
index 66b2c7896..cfdc44054 100644
--- a/plugins/plantarchitecture/src/PlantLibrary.cpp
+++ b/plugins/plantarchitecture/src/PlantLibrary.cpp
@@ -200,7 +200,7 @@ void PlantArchitecture::initializeAlmondTreeShoots(){
     shoot_parameters_trunk.phytomer_parameters.internode.phyllotactic_angle = 0;
     shoot_parameters_trunk.phytomer_parameters.internode.radial_subdivisions = 24;
     shoot_parameters_trunk.max_nodes = 20;
-    shoot_parameters_trunk.girth_area_factor = 35.f;
+    shoot_parameters_trunk.girth_area_factor = 15.f;
     shoot_parameters_trunk.internode_radius_initial = 0.01;
     shoot_parameters_trunk.vegetative_bud_break_probability = 0;
     shoot_parameters_trunk.vegetative_bud_break_time = 0;
@@ -218,7 +218,7 @@ void PlantArchitecture::initializeAlmondTreeShoots(){
     shoot_parameters_proleptic.max_nodes = 40;
     shoot_parameters_proleptic.phyllochron = 0.9;
     shoot_parameters_proleptic.elongation_rate = 0.25;
-    shoot_parameters_proleptic.girth_area_factor = 35.f;
+    shoot_parameters_proleptic.girth_area_factor = 15.f;
     shoot_parameters_proleptic.vegetative_bud_break_probability = 0.15;
     shoot_parameters_proleptic.vegetative_bud_break_time = 0;
     shoot_parameters_proleptic.leaf_flush_count = 1;
@@ -335,7 +335,7 @@ void PlantArchitecture::initializeAppleTreeShoots(){
     phytomer_parameters_apple.internode.max_floral_buds_per_petiole = 1;
 
     phytomer_parameters_apple.petiole.petioles_per_internode = 1;
-    phytomer_parameters_apple.petiole.pitch.uniformDistribution(-25,-40);
+    phytomer_parameters_apple.petiole.pitch.uniformDistribution(-40,-25);
     phytomer_parameters_apple.petiole.taper = 0.1;
     phytomer_parameters_apple.petiole.curvature = 0;
     phytomer_parameters_apple.petiole.length = 0.04;
@@ -372,11 +372,11 @@ void PlantArchitecture::initializeAppleTreeShoots(){
     shoot_parameters_trunk.phytomer_parameters.internode.phyllotactic_angle = 0;
     shoot_parameters_trunk.phytomer_parameters.internode.radial_subdivisions = 24;
     shoot_parameters_trunk.max_nodes = 20;
-    shoot_parameters_trunk.girth_area_factor = 16.f;
+    shoot_parameters_trunk.girth_area_factor = 12.f;
     shoot_parameters_trunk.internode_radius_initial = 0.01;
     shoot_parameters_trunk.vegetative_bud_break_probability = 0;
     shoot_parameters_trunk.vegetative_bud_break_time = 0;
-    shoot_parameters_trunk.tortuosity = 6;
+    shoot_parameters_trunk.tortuosity = 4;
     shoot_parameters_trunk.internode_length_max = 0.05;
     shoot_parameters_trunk.internode_length_decay_rate = 0;
     shoot_parameters_trunk.defineChildShootTypes({"scaffold"},{1});
@@ -395,7 +395,7 @@ void PlantArchitecture::initializeAppleTreeShoots(){
     shoot_parameters_proleptic.vegetative_bud_break_time = 0;
     shoot_parameters_proleptic.leaf_flush_count = 1;
     shoot_parameters_proleptic.gravitropic_curvature = 500;
-    shoot_parameters_proleptic.tortuosity = 20;
+    shoot_parameters_proleptic.tortuosity = 10;
     shoot_parameters_proleptic.internode_radius_initial = 0.006;
     shoot_parameters_proleptic.insertion_angle_tip.uniformDistribution( 20, 25);
     shoot_parameters_proleptic.insertion_angle_decay_rate = 20;
@@ -430,7 +430,7 @@ void PlantArchitecture::initializeAppleTreeShoots(){
     shoot_parameters_scaffold.max_nodes = 40;
     shoot_parameters_scaffold.gravitropic_curvature = 400;
     shoot_parameters_scaffold.internode_length_max = 0.04;
-    shoot_parameters_scaffold.tortuosity = 10;
+    shoot_parameters_scaffold.tortuosity = 6;
     shoot_parameters_scaffold.defineChildShootTypes({"proleptic"},{1.0});
 
     defineShootType("trunk", shoot_parameters_trunk);
@@ -1089,9 +1089,9 @@ void PlantArchitecture::initializeGrapevineVSPShoots() {
     shoot_parameters_main.vegetative_bud_break_time = 1;
     shoot_parameters_main.phyllochron = 0.5;
     shoot_parameters_main.elongation_rate = 0.15;
-    shoot_parameters_main.girth_area_factor = 4.f;
+    shoot_parameters_main.girth_area_factor = 2.f;
     shoot_parameters_main.gravitropic_curvature = 300;
-    shoot_parameters_main.tortuosity = 20;
+    shoot_parameters_main.tortuosity = 10;
     shoot_parameters_main.internode_length_max.uniformDistribution(0.075,0.1);
     shoot_parameters_main.internode_length_decay_rate = 0;
     shoot_parameters_main.insertion_angle_tip = 45;
@@ -1117,7 +1117,8 @@ void PlantArchitecture::initializeGrapevineVSPShoots() {
     shoot_parameters_cane.internode_radius_max = 0.1;
     shoot_parameters_cane.insertion_angle_tip.uniformDistribution(60, 120);
     shoot_parameters_cane.max_nodes = 9;
-    shoot_parameters_cane.tortuosity = 1.5;
+    shoot_parameters_cane.gravitropic_curvature.uniformDistribution(-20,20);
+    shoot_parameters_cane.tortuosity = 1;
     shoot_parameters_cane.gravitropic_curvature = 10;
     shoot_parameters_cane.vegetative_bud_break_probability = 1.0;
     shoot_parameters_cane.defineChildShootTypes({"grapevine_shoot"},{1.f});
@@ -1132,7 +1133,7 @@ void PlantArchitecture::initializeGrapevineVSPShoots() {
     shoot_parameters_trunk.phyllochron = 1.25;
     shoot_parameters_trunk.insertion_angle_tip = 90;
     shoot_parameters_trunk.max_nodes = 18;
-    shoot_parameters_trunk.tortuosity = 1;
+    shoot_parameters_trunk.tortuosity = 0;
     shoot_parameters_trunk.vegetative_bud_break_probability = 0;
     shoot_parameters_trunk.defineChildShootTypes({"grapevine_shoot"},{1.f});
 
@@ -1154,8 +1155,8 @@ uint PlantArchitecture::buildGrapevineVSP(const helios::vec3 &base_position) {
     uint uID_stem = addBaseStemShoot(plantID, 17, make_AxisRotation(context_ptr->randu(0,0.05*M_PI), 0, 0), 0.04, 0.05, 1, 1, 0.1, "grapevine_trunk");
     //appendPhytomerToShoot( plantID, uID_stem, getCurrentShootParameters("grapevine_trunk").phytomer_parameters, 1e-3, 0.1, 1, 1 );
 
-    uint uID_cane_L = appendShoot( plantID, uID_stem, 8, make_AxisRotation(context_ptr->randu(float(0.45f*M_PI),0.52f*M_PI),0,M_PI), 0.015, 0.15, 1, 1, 0.6, "grapevine_cane" );
-    uint uID_cane_R = appendShoot( plantID, uID_stem, 8, make_AxisRotation(context_ptr->randu(float(0.45f*M_PI),0.52f*M_PI),M_PI,M_PI), 0.015, 0.15, 1, 1, 0.6, "grapevine_cane" );
+    uint uID_cane_L = appendShoot( plantID, uID_stem, 8, make_AxisRotation(context_ptr->randu(float(0.45f*M_PI),0.52f*M_PI),0,M_PI), 0.005, 0.15, 1, 1, 0.5, "grapevine_cane" );
+    uint uID_cane_R = appendShoot( plantID, uID_stem, 8, make_AxisRotation(context_ptr->randu(float(0.45f*M_PI),0.52f*M_PI),M_PI,M_PI), 0.005, 0.15, 1, 1, 0.5, "grapevine_cane" );
 
 //    makePlantDormant(plantID);
 
@@ -1225,7 +1226,7 @@ void PlantArchitecture::initializeOliveTreeShoots(){
     shoot_parameters_trunk.internode_radius_initial = 0.01;
     shoot_parameters_trunk.vegetative_bud_break_probability = 0;
     shoot_parameters_trunk.vegetative_bud_break_time = 0;
-    shoot_parameters_trunk.tortuosity = 6;
+    shoot_parameters_trunk.tortuosity = 1;
     shoot_parameters_trunk.internode_length_max = 0.05;
     shoot_parameters_trunk.internode_length_decay_rate = 0;
     shoot_parameters_trunk.defineChildShootTypes({"scaffold"},{1});
@@ -1243,7 +1244,7 @@ void PlantArchitecture::initializeOliveTreeShoots(){
     shoot_parameters_proleptic.vegetative_bud_break_time = 0;
     shoot_parameters_proleptic.leaf_flush_count = 1;
     shoot_parameters_proleptic.gravitropic_curvature = 450;
-    shoot_parameters_proleptic.tortuosity = 25;
+    shoot_parameters_proleptic.tortuosity = 6;
     shoot_parameters_proleptic.internode_radius_initial = 0.002;
     shoot_parameters_proleptic.insertion_angle_tip.uniformDistribution( 15, 25);
     shoot_parameters_proleptic.insertion_angle_decay_rate = 2;
@@ -1264,7 +1265,7 @@ void PlantArchitecture::initializeOliveTreeShoots(){
     shoot_parameters_scaffold.max_nodes = 12;
     shoot_parameters_scaffold.gravitropic_curvature = 700;
     shoot_parameters_scaffold.internode_length_max = 0.04;
-    shoot_parameters_scaffold.tortuosity = 10;
+    shoot_parameters_scaffold.tortuosity = 3;
     shoot_parameters_scaffold.defineChildShootTypes({"proleptic"},{1.0});
 
     defineShootType("trunk", shoot_parameters_trunk);
@@ -1323,7 +1324,7 @@ void PlantArchitecture::initializePistachioTreeShoots(){
     phytomer_parameters_pistachio.internode.max_floral_buds_per_petiole = 3;
 
     phytomer_parameters_pistachio.petiole.petioles_per_internode = 2;
-    phytomer_parameters_pistachio.petiole.pitch.uniformDistribution(-45, -60);
+    phytomer_parameters_pistachio.petiole.pitch.uniformDistribution(-60, -45);
     phytomer_parameters_pistachio.petiole.taper = 0.1;
     phytomer_parameters_pistachio.petiole.curvature.uniformDistribution(-800,800);
     phytomer_parameters_pistachio.petiole.length = 0.075;
@@ -1371,7 +1372,7 @@ void PlantArchitecture::initializePistachioTreeShoots(){
     shoot_parameters_trunk.internode_radius_initial = 0.01;
     shoot_parameters_trunk.vegetative_bud_break_probability = 0;
     shoot_parameters_trunk.vegetative_bud_break_time = 0;
-    shoot_parameters_trunk.tortuosity = 5;
+    shoot_parameters_trunk.tortuosity = 2;
     shoot_parameters_trunk.internode_length_max = 0.05;
     shoot_parameters_trunk.internode_length_decay_rate = 0;
     shoot_parameters_trunk.defineChildShootTypes({"proleptic"},{1});
@@ -1389,7 +1390,7 @@ void PlantArchitecture::initializePistachioTreeShoots(){
     shoot_parameters_proleptic.vegetative_bud_break_time = 0;
     shoot_parameters_proleptic.leaf_flush_count = 1;
     shoot_parameters_proleptic.gravitropic_curvature = 500;
-    shoot_parameters_proleptic.tortuosity = 15;
+    shoot_parameters_proleptic.tortuosity = 10;
     shoot_parameters_proleptic.internode_radius_initial = 0.002;
     shoot_parameters_proleptic.insertion_angle_tip.uniformDistribution( 45, 55);
     shoot_parameters_proleptic.insertion_angle_decay_rate = 10;
@@ -1609,9 +1610,9 @@ void PlantArchitecture::initializeEasternRedbudShoots() {
     shoot_parameters_main.vegetative_bud_break_time = 1;
     shoot_parameters_main.phyllochron = 1.5;
     shoot_parameters_main.elongation_rate = 0.17;
-    shoot_parameters_main.girth_area_factor = 3.f;
+    shoot_parameters_main.girth_area_factor = 5.f;
     shoot_parameters_main.gravitropic_curvature = 300;
-    shoot_parameters_main.tortuosity = 20;
+    shoot_parameters_main.tortuosity = 10;
     shoot_parameters_main.internode_length_max = 0.04;
     shoot_parameters_main.internode_length_decay_rate = 0.005;
     shoot_parameters_main.insertion_angle_tip = 75;
@@ -1635,7 +1636,7 @@ void PlantArchitecture::initializeEasternRedbudShoots() {
     shoot_parameters_trunk.phyllochron = 1.25;
     shoot_parameters_trunk.insertion_angle_tip = 60;
     shoot_parameters_trunk.max_nodes = 45;
-    shoot_parameters_trunk.tortuosity = 5;
+    shoot_parameters_trunk.tortuosity = 0.5;
     shoot_parameters_trunk.defineChildShootTypes({"eastern_redbud_shoot"},{1.f});
 
     defineShootType("eastern_redbud_trunk", shoot_parameters_trunk);
diff --git a/plugins/radiation/include/RadiationModel.h b/plugins/radiation/include/RadiationModel.h
index a05678ecc..085942390 100755
--- a/plugins/radiation/include/RadiationModel.h
+++ b/plugins/radiation/include/RadiationModel.h
@@ -1654,13 +1654,6 @@ class RadiationModel{
 
 };
 
-//! Validates the file path for output file writing by 1) making sure the directory string has a trailing slash, 2) creating the output directory if it does not exist.
-/**
- * \param[inout] output_directory Path to the directory where output files will be written. If the directory does not exist, it will be created.
- * \return True if the output directory is valid, false otherwise.
-*/
-bool validateOutputPath(std::ostringstream &output_directory);
-
 void sutilHandleError(RTcontext context, RTresult code, const char* file, int line);
 
 void sutilReportError(const char* message);
diff --git a/plugins/radiation/src/RadiationModel.cpp b/plugins/radiation/src/RadiationModel.cpp
index cd53306c1..da8cffc6b 100755
--- a/plugins/radiation/src/RadiationModel.cpp
+++ b/plugins/radiation/src/RadiationModel.cpp
@@ -1340,12 +1340,16 @@ void RadiationModel::writeCameraImage(const std::string &camera, const std::vect
         frame_str = std::to_string(frame);
     }
 
-    std::ostringstream outfile;
-
-    if( !validateOutputPath(outfile) ){
-        helios_runtime_error("ERROR (RadiationModel::writeCameraImage): Invalid image output directory '" + outfile.str() + "'. Check that the path exists and that you have write permission.");
+    std::string output_path = image_path;
+    if( !image_path.empty() && !validateOutputPath(output_path) ){
+        helios_runtime_error("ERROR (RadiationModel::writeCameraImage): Invalid image output directory '" + image_path + "'. Check that the path exists and that you have write permission.");
+    }else if( !getFileName(output_path).empty() ){
+        helios_runtime_error("ERROR(RadiationModel::writeCameraImage): Image output directory contains a filename. This argument should be the path to a directory not a file.");
     }
 
+    std::ostringstream outfile;
+    outfile << output_path;
+
     if( frame>=0 ) {
         outfile << camera << "_" << imagefile_base << "_" << std::setw(5) << std::setfill('0') << frame_str << ".jpeg";
     }else{
@@ -1447,12 +1451,16 @@ void RadiationModel::writeCameraImageData(const std::string &camera, const std::
         frame_str = std::to_string(frame);
     }
 
-    std::ostringstream outfile;
-
-    if( !validateOutputPath(outfile) ){
-        helios_runtime_error("ERROR (RadiationModel::writeCameraImage): Invalid image output directory '" + outfile.str() + "'. Check that the path exists and that you have write permission.");
+    std::string output_path = image_path;
+    if( !image_path.empty() && !validateOutputPath(output_path) ){
+        helios_runtime_error("ERROR (RadiationModel::writeCameraImage): Invalid image output directory '" + image_path + "'. Check that the path exists and that you have write permission.");
+    }else if( !getFileName(output_path).empty() ){
+        helios_runtime_error("ERROR(RadiationModel::writeCameraImage): Image output directory contains a filename. This argument should be the path to a directory not a file.");
     }
 
+    std::ostringstream outfile;
+    outfile << output_path;
+
     if( frame>=0 ) {
         outfile << camera << "_" << imagefile_base << "_" << std::setw(5) << std::setfill('0') << frame_str << ".txt";
     }else{
@@ -5092,12 +5100,16 @@ void RadiationModel::writePrimitiveDataLabelMap(const std::string &cameralabel,
         frame_str = std::to_string(frame);
     }
 
-    std::ostringstream outfile;
-
-    if( !validateOutputPath(outfile) ){
-        helios_runtime_error("ERROR (RadiationModel::writeCameraImage): Invalid image output directory '" + outfile.str() + "'. Check that the path exists and that you have write permission.");
+    std::string output_path = image_path;
+    if( !image_path.empty() && !validateOutputPath(output_path) ){
+        helios_runtime_error("ERROR (RadiationModel::writePrimitiveDataLabelMap): Invalid image output directory '" + image_path + "'. Check that the path exists and that you have write permission.");
+    }else if( !getFileName(output_path).empty() ){
+        helios_runtime_error("ERROR(RadiationModel::writePrimitiveDataLabelMap): Image output directory contains a filename. This argument should be the path to a directory not a file.");
     }
 
+    std::ostringstream outfile;
+    outfile << output_path;
+
     if( frame>=0 ) {
         outfile << cameralabel << "_" << imagefile_base << "_" << std::setw(5) << std::setfill('0') << frame_str << ".txt";
     }else{
@@ -5179,12 +5191,16 @@ void RadiationModel::writeObjectDataLabelMap(const std::string &cameralabel, con
         frame_str = std::to_string(frame);
     }
 
-    std::ostringstream outfile;
-
-    if( !validateOutputPath(outfile) ){
-        helios_runtime_error("ERROR (RadiationModel::writeCameraImage): Invalid image output directory '" + outfile.str() + "'. Check that the path exists and that you have write permission.");
+    std::string output_path = image_path;
+    if( !image_path.empty() && !validateOutputPath(output_path) ){
+        helios_runtime_error("ERROR (RadiationModel::writeObjectDataLabelMap): Invalid image output directory '" + image_path + "'. Check that the path exists and that you have write permission.");
+    }else if( !getFileName(output_path).empty() ){
+        helios_runtime_error("ERROR(RadiationModel::writeObjectDataLabelMap): Image output directory contains a filename. This argument should be the path to a directory not a file.");
     }
 
+    std::ostringstream outfile;
+    outfile << output_path;
+
     if( frame>=0 ) {
         outfile << cameralabel << "_" << imagefile_base << "_" << std::setw(5) << std::setfill('0') << frame_str << ".txt";
     }else{
@@ -5268,12 +5284,16 @@ void RadiationModel::writeDepthImageData(const std::string &cameralabel, const s
         frame_str = std::to_string(frame);
     }
 
-    std::ostringstream outfile;
-
-    if( !validateOutputPath(outfile) ){
-        helios_runtime_error("ERROR (RadiationModel::writeCameraImage): Invalid image output directory '" + outfile.str() + "'. Check that the path exists and that you have write permission.");
+    std::string output_path = image_path;
+    if( !image_path.empty() && !validateOutputPath(output_path) ){
+        helios_runtime_error("ERROR (RadiationModel::writeDepthImageData): Invalid image output directory '" + image_path + "'. Check that the path exists and that you have write permission.");
+    }else if( !getFileName(output_path).empty() ){
+        helios_runtime_error("ERROR(RadiationModel::writeDepthImageData): Image output directory contains a filename. This argument should be the path to a directory not a file.");
     }
 
+    std::ostringstream outfile;
+    outfile << output_path;
+
     if( frame>=0 ) {
         outfile << cameralabel << "_" << imagefile_base << "_" << std::setw(5) << std::setfill('0') << frame_str << ".txt";
     }else{
@@ -5320,12 +5340,16 @@ void RadiationModel::writeNormDepthImage(const std::string &cameralabel, const s
         frame_str = std::to_string(frame);
     }
 
-    std::ostringstream outfile;
-
-    if( !validateOutputPath(outfile) ){
-        helios_runtime_error("ERROR (RadiationModel::writeCameraImage): Invalid image output directory '" + outfile.str() + "'. Check that the path exists and that you have write permission.");
+    std::string output_path = image_path;
+    if( !image_path.empty() && !validateOutputPath(output_path) ){
+        helios_runtime_error("ERROR (RadiationModel::writeNormDepthImage): Invalid image output directory '" + image_path + "'. Check that the path exists and that you have write permission.");
+    }else if( !getFileName(output_path).empty() ){
+        helios_runtime_error("ERROR(RadiationModel::writeNormDepthImage): Image output directory contains a filename. This argument should be the path to a directory not a file.");
     }
 
+    std::ostringstream outfile;
+    outfile << output_path;
+
     if( frame>=0 ) {
         outfile << cameralabel << "_" << imagefile_base << "_" << std::setw(5) << std::setfill('0') << frame_str << ".jpeg";
     }else{
@@ -5386,12 +5410,16 @@ void RadiationModel::writeImageBoundingBoxes(const std::string &cameralabel, con
         frame_str = std::to_string(frame);
     }
 
-    std::ostringstream outfile;
-
-    if( !validateOutputPath(outfile) ){
-        helios_runtime_error("ERROR (RadiationModel::writeCameraImage): Invalid image output directory '" + outfile.str() + "'. Check that the path exists and that you have write permission.");
+    std::string output_path = image_path;
+    if( !image_path.empty() && !validateOutputPath(output_path) ){
+        helios_runtime_error("ERROR (RadiationModel::writeImageBoundingBoxes): Invalid image output directory '" + image_path + "'. Check that the path exists and that you have write permission.");
+    }else if( !getFileName(output_path).empty() ){
+        helios_runtime_error("ERROR(RadiationModel::writeImageBoundingBoxes): Image output directory contains a filename. This argument should be the path to a directory not a file.");
     }
 
+    std::ostringstream outfile;
+    outfile << output_path;
+
     if( frame>=0 ) {
         outfile << cameralabel << "_" << imagefile_base << "_" << std::setw(5) << std::setfill('0') << frame_str << ".txt";
     }else{
@@ -5491,12 +5519,16 @@ void RadiationModel::writeImageBoundingBoxes_ObjectData(const std::string &camer
         frame_str = std::to_string(frame);
     }
 
-    std::ostringstream outfile;
-
-    if( !validateOutputPath(outfile) ){
-        helios_runtime_error("ERROR (RadiationModel::writeCameraImage): Invalid image output directory '" + outfile.str() + "'. Check that the path exists and that you have write permission.");
+    std::string output_path = image_path;
+    if( !image_path.empty() && !validateOutputPath(output_path) ){
+        helios_runtime_error("ERROR (RadiationModel::writeImageBoundingBoxes_ObjectData): Invalid image output directory '" + image_path + "'. Check that the path exists and that you have write permission.");
+    }else if( !getFileName(output_path).empty() ){
+        helios_runtime_error("ERROR(RadiationModel::writeImageBoundingBoxes_ObjectData): Image output directory contains a filename. This argument should be the path to a directory not a file.");
     }
 
+    std::ostringstream outfile;
+    outfile << output_path;
+
     if( frame>=0 ) {
         outfile << cameralabel << "_" << imagefile_base << "_" << std::setw(5) << std::setfill('0') << frame_str << ".txt";
     }else{
@@ -5724,24 +5756,6 @@ std::vector<helios::vec2> RadiationModel::generateGaussianCameraResponse(float F
     return cameraresponse;
 }
 
-bool validateOutputPath(std::ostringstream &output_directory){
-
-    // Make sure directory has a trailing slash
-    if( output_directory.str().find_last_of('/')!=output_directory.str().length()-1 ) {
-        output_directory << "/";
-    }
-
-    // Create the output directory if it does not exist
-    if( !std::filesystem::exists(output_directory.str()) ){
-        if( !std::filesystem::create_directory(output_directory.str()) ){
-            return false;
-        }
-    }
-
-    return true;
-
-}
-
 void sutilHandleError(RTcontext context, RTresult code, const char* file, int line)
 {
     const char* message;