Bugfixes to docs with newer version of banzai

CHANGES.md

@@ -1,3 +1,7 @@
+1.1.4 (2024-03-14)
+------------------
+- Fixes to documentation for updated BANZAI installs
+
 1.1.3 (2023-11-17)
 ------------------
 - Fixes to use BANZAI LoggingAdapter

banzai_nres/frames.py

@@ -12,7 +12,6 @@
 import os
 from astropy.coordinates import Angle
 from astropy import units
-from banzai.utils import fits_utils
 
 
 logger = get_logger()
@@ -112,23 +111,16 @@ def get_output_data_products(self, runtime_context):
             fits_2d[0].header['L1ID1D'] = filename_1d
             output_product_2d = DataProduct.from_fits(fits_2d, filename_2d, self.get_output_directory(runtime_context))
 
-            # make sure we pop all the fits garbage before we write the meta data.
-            summary_pdf_meta = fits_utils.sanitize_header(self.meta.copy())
-            for keyword in ['NAXIS1', 'NAXIS2', 'EXTNAME', 'EXTVER']:
-                if keyword in summary_pdf_meta:
-                    summary_pdf_meta.pop(keyword)
-
             summary_buffer = BytesIO()
-            pp = PdfPages(summary_buffer, keep_empty=False, metadata=dict(summary_pdf_meta))
+            pp = PdfPages(summary_buffer, keep_empty=False)
             for fig in self.summary_figures:
                 fig.tight_layout()
                 pp.savefig(fig)
                 pyplot.close(fig)
             pp.close()
             summary_buffer.seek(0)
 
-            output_summary = DataProduct(summary_buffer, filename_summary, self.get_output_directory(runtime_context),
-                                         meta=dict(summary_pdf_meta))
+            output_summary = DataProduct(summary_buffer, filename_summary, self.get_output_directory(runtime_context))
 
             return [output_product_1d, output_product_2d, output_summary]
 

docs/banzai_nres/ExampleReduction.ipynb

@@ -195,11 +195,11 @@
     "# THIS MAKES A FRESH DATABASE. DO NOT RUN ME UNLESS YOU WANT TO DELETE YOUR test.db AND MAKE A FRESH ONE\n",
     "full_phoenix_path=os.path.join(os.getcwd(), phoenix_dir)\n",
     "os.system(f'banzai_nres_create_db --db-address={os.environ[\"DB_ADDRESS\"]}')\n",
-    "os.system(f'banzai_nres_populate_phoenix_models --model-location={full_phoenix_path} --db-address={os.environ[\"DB_ADDRESS\"]}')\n",
+    "os.system(f'banzai_nres_populate_phoenix_models --model-location=\"{full_phoenix_path}\" --db-address={os.environ[\"DB_ADDRESS\"]}')\n",
     "os.system(f'banzai_add_site --site elp --latitude 30.67986944 --longitude -104.015175 --elevation 2027 --timezone -6 --db-address={os.environ[\"DB_ADDRESS\"]}')\n",
     "os.system(f'banzai_add_site --site lsc --latitude -30.1673833333 --longitude -70.8047888889 --elevation 2198 --timezone -4 --db-address={os.environ[\"DB_ADDRESS\"]}')   \n",
-    "os.system(f'banzai_add_instrument --site lsc --camera fl09 --name nres01 --instrument-type 1m0-NRES-SciCam --db-address={os.environ[\"DB_ADDRESS\"]}')\n",
-    "os.system(f'banzai_add_instrument --site elp --camera fl17 --name nres02 --instrument-type 1m0-NRES-SciCam --db-address={os.environ[\"DB_ADDRESS\"]}')"
+    "os.system(f'banzai_add_instrument --site lsc --camera fl09 --name nres01 --instrument-type 1m0-NRES-SciCam --nx=4096 --ny=4096 --db-address={os.environ[\"DB_ADDRESS\"]}')\n",
+    "os.system(f'banzai_add_instrument --site elp --camera fl17 --name nres02 --instrument-type 1m0-NRES-SciCam --nx=4096 --ny=4096 --db-address={os.environ[\"DB_ADDRESS\"]}')"
    ]
   },
   {
@@ -334,6 +334,15 @@
     "    run_pipeline_stages([{'path': flat_file}], context)"
    ]
   },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "mark_frames_as_good('*w92*')"
+   ]
+  },
   {
    "cell_type": "code",
    "execution_count": null,
@@ -362,6 +371,15 @@
     "    run_pipeline_stages([{'path': arc_file}], context)"
    ]
   },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "mark_frames_as_good('*a92*')"
+   ]
+  },
   {
    "cell_type": "code",
    "execution_count": null,
@@ -389,18 +407,11 @@
     "for science_file in science_files: \n",
     "    run_pipeline_stages([{'path': science_file}], context)"
    ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": []
   }
  ],
  "metadata": {
   "kernelspec": {
-   "display_name": "Python 3",
+   "display_name": "Python 3 (ipykernel)",
    "language": "python",
    "name": "python3"
   },
@@ -414,7 +425,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.8.5"
+   "version": "3.10.13"
   }
  },
  "nbformat": 4,