Updated documentation and recompiled cleanly

traitecoevo · Nov 28, 2023 · bb7fb71 · bb7fb71
1 parent d57091f
commit bb7fb71
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Showing 18 changed files with 3,707 additions and 2,008 deletions.
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -25,7 +25,7 @@ License: MIT + file LICENSE
 Encoding: UTF-8
 LazyData: true
 Roxygen: list(markdown = TRUE)
-RoxygenNote: 7.2.1
+RoxygenNote: 7.2.3
 Biarch: true
 Depends: 
     R (>= 3.4.0)

diff --git a/man/age_dist_model.Rd b/man/age_dist_model.Rd
diff --git a/man/default_pars.Rd b/man/default_pars.Rd
diff --git a/man/default_priors.Rd b/man/default_priors.Rd
diff --git a/man/extract_fitted.Rd b/man/extract_fitted.Rd
diff --git a/man/simulate_cumulative_mortality.Rd b/man/simulate_cumulative_mortality.Rd
diff --git a/man/simulate_growth.Rd b/man/simulate_growth.Rd
diff --git a/man/size_dist_model.Rd b/man/size_dist_model.Rd
diff --git a/src/Makevars b/src/Makevars
@@ -2,9 +2,9 @@
 
 STANHEADERS_SRC = $(shell "$(R_HOME)/bin$(R_ARCH_BIN)/Rscript" -e "message()" -e "cat(system.file('include', 'src', package = 'StanHeaders', mustWork = TRUE))" -e "message()" | grep "StanHeaders")
 
-STANC_FLAGS = $(shell "$(R_HOME)/bin$(R_ARCH_BIN)/Rscript" -e "cat(ifelse(utils::packageVersion('rstan') >= 2.26, '-DUSE_STANC3',''))")
-PKG_CPPFLAGS = -I"../inst/include" -I"$(STANHEADERS_SRC)" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error $(STANC_FLAGS)
+STANC_FLAGS = $(shell "$(R_HOME)/bin$(R_ARCH_BIN)/Rscript" -e "cat(ifelse(utils::packageVersion('rstan') >= '2.26', '-DUSE_STANC3',''))")
+PKG_CPPFLAGS = -I"../inst/include" -I"$(STANHEADERS_SRC)" -DBOOST_DISABLE_ASSERTS -DEIGEN_NO_DEBUG -DBOOST_MATH_OVERFLOW_ERROR_POLICY=errno_on_error $(STANC_FLAGS) -D_HAS_AUTO_PTR_ETC=0
 PKG_CXXFLAGS = $(shell "$(R_HOME)/bin$(R_ARCH_BIN)/Rscript" -e "RcppParallel::CxxFlags()") $(shell "$(R_HOME)/bin$(R_ARCH_BIN)/Rscript" -e "StanHeaders:::CxxFlags()")
 PKG_LIBS = $(shell "$(R_HOME)/bin$(R_ARCH_BIN)/Rscript" -e "RcppParallel::RcppParallelLibs()") $(shell "$(R_HOME)/bin$(R_ARCH_BIN)/Rscript" -e "StanHeaders:::LdFlags()")
 
-CXX_STD = CXX14
+CXX_STD = CXX17