* installing *source* package ‘BioCro’ ...
** package ‘BioCro’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 14.0.3 (clang-1403.0.22.14.1)’
using C++11
using SDK: ‘MacOSX11.3.sdk’
clang++ -arch x86_64 -std=gnu++11 -MT R_dynamical_system.o -MMD -MP -MF .deps/R_dynamical_system.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o R_dynamical_system.o R_dynamical_system.cpp
clang++ -arch x86_64 -std=gnu++11 -MT R_framework_version.o -MMD -MP -MF .deps/R_framework_version.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o R_framework_version.o R_framework_version.cpp
clang++ -arch x86_64 -std=gnu++11 -MT R_get_all_ode_solvers.o -MMD -MP -MF .deps/R_get_all_ode_solvers.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o R_get_all_ode_solvers.o R_get_all_ode_solvers.cpp
clang++ -arch x86_64 -std=gnu++11 -MT R_module_library.o -MMD -MP -MF .deps/R_module_library.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o R_module_library.o R_module_library.cpp
clang++ -arch x86_64 -std=gnu++11 -MT R_modules.o -MMD -MP -MF .deps/R_modules.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o R_modules.o R_modules.cpp
clang++ -arch x86_64 -std=gnu++11 -MT R_run_biocro.o -MMD -MP -MF .deps/R_run_biocro.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o R_run_biocro.o R_run_biocro.cpp
mv -f .deps/R_framework_version.Td .deps/R_framework_version.d && touch R_framework_version.o
clang++ -arch x86_64 -std=gnu++11 -MT R_system_derivatives.o -MMD -MP -MF .deps/R_system_derivatives.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o R_system_derivatives.o R_system_derivatives.cpp
mv -f .deps/R_dynamical_system.Td .deps/R_dynamical_system.d && touch R_dynamical_system.o
clang++ -arch x86_64 -std=gnu++11 -MT init.o -MMD -MP -MF .deps/init.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o init.o init.cpp
mv -f .deps/init.Td .deps/init.d && touch init.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/AuxBioCro.o -MMD -MP -MF .deps/module_library/AuxBioCro.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/AuxBioCro.o module_library/AuxBioCro.cpp
mv -f .deps/R_modules.Td .deps/R_modules.d && touch R_modules.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/CanAC.o -MMD -MP -MF .deps/module_library/CanAC.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/CanAC.o module_library/CanAC.cpp
mv -f .deps/R_module_library.Td .deps/R_module_library.d && touch R_module_library.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/FvCB_assim.o -MMD -MP -MF .deps/module_library/FvCB_assim.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/FvCB_assim.o module_library/FvCB_assim.cpp
mv -f .deps/module_library/FvCB_assim.Td .deps/module_library/FvCB_assim.d && touch module_library/FvCB_assim.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/ball_berry_gs.o -MMD -MP -MF .deps/module_library/ball_berry_gs.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/ball_berry_gs.o module_library/ball_berry_gs.cpp
mv -f .deps/module_library/CanAC.Td .deps/module_library/CanAC.d && touch module_library/CanAC.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/c3CanAC.o -MMD -MP -MF .deps/module_library/c3CanAC.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/c3CanAC.o module_library/c3CanAC.cpp
mv -f .deps/module_library/AuxBioCro.Td .deps/module_library/AuxBioCro.d && touch module_library/AuxBioCro.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/c3EvapoTrans.o -MMD -MP -MF .deps/module_library/c3EvapoTrans.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/c3EvapoTrans.o module_library/c3EvapoTrans.cpp
mv -f .deps/R_system_derivatives.Td .deps/R_system_derivatives.d && touch R_system_derivatives.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/c3_canopy.o -MMD -MP -MF .deps/module_library/c3_canopy.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/c3_canopy.o module_library/c3_canopy.cpp
mv -f .deps/module_library/ball_berry_gs.Td .deps/module_library/ball_berry_gs.d && touch module_library/ball_berry_gs.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/c3_leaf_photosynthesis.o -MMD -MP -MF .deps/module_library/c3_leaf_photosynthesis.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/c3_leaf_photosynthesis.o module_library/c3_leaf_photosynthesis.cpp
mv -f .deps/R_get_all_ode_solvers.Td .deps/R_get_all_ode_solvers.d && touch R_get_all_ode_solvers.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/c3photo.o -MMD -MP -MF .deps/module_library/c3photo.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/c3photo.o module_library/c3photo.cpp
mv -f .deps/module_library/c3_canopy.Td .deps/module_library/c3_canopy.d && touch module_library/c3_canopy.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/c4_leaf_photosynthesis.o -MMD -MP -MF .deps/module_library/c4_leaf_photosynthesis.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/c4_leaf_photosynthesis.o module_library/c4_leaf_photosynthesis.cpp
mv -f .deps/R_run_biocro.Td .deps/R_run_biocro.d && touch R_run_biocro.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/c4photo.o -MMD -MP -MF .deps/module_library/c4photo.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/c4photo.o module_library/c4photo.cpp
mv -f .deps/module_library/c3CanAC.Td .deps/module_library/c3CanAC.d && touch module_library/c3CanAC.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/collatz_photo.o -MMD -MP -MF .deps/module_library/collatz_photo.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/collatz_photo.o module_library/collatz_photo.cpp
mv -f .deps/module_library/collatz_photo.Td .deps/module_library/collatz_photo.d && touch module_library/collatz_photo.o
mv -f .deps/module_library/c3EvapoTrans.Td .deps/module_library/c3EvapoTrans.d && touch module_library/c3EvapoTrans.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/eC4photo.o -MMD -MP -MF .deps/module_library/eC4photo.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/eC4photo.o module_library/eC4photo.cpp
clang++ -arch x86_64 -std=gnu++11 -MT module_library/lightME.o -MMD -MP -MF .deps/module_library/lightME.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/lightME.o module_library/lightME.cpp
mv -f .deps/module_library/c3_leaf_photosynthesis.Td .deps/module_library/c3_leaf_photosynthesis.d && touch module_library/c3_leaf_photosynthesis.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/module_library.o -MMD -MP -MF .deps/module_library/module_library.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/module_library.o module_library/module_library.cpp
mv -f .deps/module_library/c3photo.Td .deps/module_library/c3photo.d && touch module_library/c3photo.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/multilayer_c3_canopy.o -MMD -MP -MF .deps/module_library/multilayer_c3_canopy.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/multilayer_c3_canopy.o module_library/multilayer_c3_canopy.cpp
mv -f .deps/module_library/c4photo.Td .deps/module_library/c4photo.d && touch module_library/c4photo.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/multilayer_c4_canopy.o -MMD -MP -MF .deps/module_library/multilayer_c4_canopy.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/multilayer_c4_canopy.o module_library/multilayer_c4_canopy.cpp
mv -f .deps/module_library/c4_leaf_photosynthesis.Td .deps/module_library/c4_leaf_photosynthesis.d && touch module_library/c4_leaf_photosynthesis.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/multilayer_canopy_properties.o -MMD -MP -MF .deps/module_library/multilayer_canopy_properties.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/multilayer_canopy_properties.o module_library/multilayer_canopy_properties.cpp
mv -f .deps/module_library/lightME.Td .deps/module_library/lightME.d && touch module_library/lightME.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/multilayer_rue_canopy.o -MMD -MP -MF .deps/module_library/multilayer_rue_canopy.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/multilayer_rue_canopy.o module_library/multilayer_rue_canopy.cpp
mv -f .deps/module_library/eC4photo.Td .deps/module_library/eC4photo.d && touch module_library/eC4photo.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/penman_monteith_leaf_temperature.o -MMD -MP -MF .deps/module_library/penman_monteith_leaf_temperature.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/penman_monteith_leaf_temperature.o module_library/penman_monteith_leaf_temperature.cpp
mv -f .deps/module_library/multilayer_c3_canopy.Td .deps/module_library/multilayer_c3_canopy.d && touch module_library/multilayer_c3_canopy.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/rasmussen_specific_heat.o -MMD -MP -MF .deps/module_library/rasmussen_specific_heat.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/rasmussen_specific_heat.o module_library/rasmussen_specific_heat.cpp
mv -f .deps/module_library/penman_monteith_leaf_temperature.Td .deps/module_library/penman_monteith_leaf_temperature.d && touch module_library/penman_monteith_leaf_temperature.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/rue_leaf_photosynthesis.o -MMD -MP -MF .deps/module_library/rue_leaf_photosynthesis.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/rue_leaf_photosynthesis.o module_library/rue_leaf_photosynthesis.cpp
In file included from module_library/module_library.cpp:62:
module_library/multilayer_canopy_integrator.h:159:12: warning: variable 'canopy_photorespiration_rate' set but not used [-Wunused-but-set-variable]
    double canopy_photorespiration_rate{0.0};
           ^
mv -f .deps/module_library/multilayer_c4_canopy.Td .deps/module_library/multilayer_c4_canopy.d && touch module_library/multilayer_c4_canopy.o
clang++ -arch x86_64 -std=gnu++11 -MT module_library/sunML.o -MMD -MP -MF .deps/module_library/sunML.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o module_library/sunML.o module_library/sunML.cpp
mv -f .deps/module_library/multilayer_rue_canopy.Td .deps/module_library/multilayer_rue_canopy.d && touch module_library/multilayer_rue_canopy.o
clang++ -arch x86_64 -std=gnu++11 -MT framework/R_helper_functions.o -MMD -MP -MF .deps/framework/R_helper_functions.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o framework/R_helper_functions.o framework/R_helper_functions.cpp
mv -f .deps/module_library/multilayer_canopy_properties.Td .deps/module_library/multilayer_canopy_properties.d && touch module_library/multilayer_canopy_properties.o
clang++ -arch x86_64 -std=gnu++11 -MT framework/dynamical_system.o -MMD -MP -MF .deps/framework/dynamical_system.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o framework/dynamical_system.o framework/dynamical_system.cpp
mv -f .deps/module_library/rasmussen_specific_heat.Td .deps/module_library/rasmussen_specific_heat.d && touch module_library/rasmussen_specific_heat.o
clang++ -arch x86_64 -std=gnu++11 -MT framework/dynamical_system_helper_functions.o -MMD -MP -MF .deps/framework/dynamical_system_helper_functions.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o framework/dynamical_system_helper_functions.o framework/dynamical_system_helper_functions.cpp
mv -f .deps/module_library/rue_leaf_photosynthesis.Td .deps/module_library/rue_leaf_photosynthesis.d && touch module_library/rue_leaf_photosynthesis.o
clang++ -arch x86_64 -std=gnu++11 -MT framework/module_helper_functions.o -MMD -MP -MF .deps/framework/module_helper_functions.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o framework/module_helper_functions.o framework/module_helper_functions.cpp
mv -f .deps/module_library/sunML.Td .deps/module_library/sunML.d && touch module_library/sunML.o
clang++ -arch x86_64 -std=gnu++11 -MT framework/modules.o -MMD -MP -MF .deps/framework/modules.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o framework/modules.o framework/modules.cpp
mv -f .deps/framework/modules.Td .deps/framework/modules.d && touch framework/modules.o
mv -f .deps/framework/R_helper_functions.Td .deps/framework/R_helper_functions.d && touch framework/R_helper_functions.o
clang++ -arch x86_64 -std=gnu++11 -MT framework/ode_solver.o -MMD -MP -MF .deps/framework/ode_solver.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o framework/ode_solver.o framework/ode_solver.cpp
clang++ -arch x86_64 -std=gnu++11 -MT framework/quadratic_root.o -MMD -MP -MF .deps/framework/quadratic_root.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o framework/quadratic_root.o framework/quadratic_root.cpp
mv -f .deps/framework/dynamical_system_helper_functions.Td .deps/framework/dynamical_system_helper_functions.d && touch framework/dynamical_system_helper_functions.o
clang++ -arch x86_64 -std=gnu++11 -MT framework/state_map.o -MMD -MP -MF .deps/framework/state_map.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o framework/state_map.o framework/state_map.cpp
mv -f .deps/framework/module_helper_functions.Td .deps/framework/module_helper_functions.d && touch framework/module_helper_functions.o
clang++ -arch x86_64 -std=gnu++11 -MT framework/validate_dynamical_system.o -MMD -MP -MF .deps/framework/validate_dynamical_system.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o framework/validate_dynamical_system.o framework/validate_dynamical_system.cpp
mv -f .deps/framework/quadratic_root.Td .deps/framework/quadratic_root.d && touch framework/quadratic_root.o
clang++ -arch x86_64 -std=gnu++11 -MT framework/ode_solver_library/boost_ode_solvers.o -MMD -MP -MF .deps/framework/ode_solver_library/boost_ode_solvers.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o framework/ode_solver_library/boost_ode_solvers.o framework/ode_solver_library/boost_ode_solvers.cpp
mv -f .deps/framework/state_map.Td .deps/framework/state_map.d && touch framework/state_map.o
clang++ -arch x86_64 -std=gnu++11 -MT framework/ode_solver_library/ode_solver_factory.o -MMD -MP -MF .deps/framework/ode_solver_library/ode_solver_factory.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o framework/ode_solver_library/ode_solver_factory.o framework/ode_solver_library/ode_solver_factory.cpp
mv -f .deps/framework/dynamical_system.Td .deps/framework/dynamical_system.d && touch framework/dynamical_system.o
clang++ -arch x86_64 -std=gnu++11 -MT framework/utils/module_dependency_utilities.o -MMD -MP -MF .deps/framework/utils/module_dependency_utilities.Td -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I../src/inc -DR_NO_REMAP  -I/opt/R/x86_64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c -o framework/utils/module_dependency_utilities.o framework/utils/module_dependency_utilities.cpp
mv -f .deps/framework/ode_solver.Td .deps/framework/ode_solver.d && touch framework/ode_solver.o
mv -f .deps/framework/utils/module_dependency_utilities.Td .deps/framework/utils/module_dependency_utilities.d && touch framework/utils/module_dependency_utilities.o
mv -f .deps/framework/ode_solver_library/boost_ode_solvers.Td .deps/framework/ode_solver_library/boost_ode_solvers.d && touch framework/ode_solver_library/boost_ode_solvers.o
mv -f .deps/framework/ode_solver_library/ode_solver_factory.Td .deps/framework/ode_solver_library/ode_solver_factory.d && touch framework/ode_solver_library/ode_solver_factory.o
1 warning generated.
mv -f .deps/module_library/module_library.Td .deps/module_library/module_library.d && touch module_library/module_library.o
mv -f .deps/framework/validate_dynamical_system.Td .deps/framework/validate_dynamical_system.d && touch framework/validate_dynamical_system.o
clang++ -arch x86_64 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o BioCro.so R_dynamical_system.o R_framework_version.o R_get_all_ode_solvers.o R_module_library.o R_modules.o R_run_biocro.o R_system_derivatives.o init.o module_library/AuxBioCro.o module_library/CanAC.o module_library/FvCB_assim.o module_library/ball_berry_gs.o module_library/c3CanAC.o module_library/c3EvapoTrans.o module_library/c3_canopy.o module_library/c3_leaf_photosynthesis.o module_library/c3photo.o module_library/c4_leaf_photosynthesis.o module_library/c4photo.o module_library/collatz_photo.o module_library/eC4photo.o module_library/lightME.o module_library/module_library.o module_library/multilayer_c3_canopy.o module_library/multilayer_c4_canopy.o module_library/multilayer_canopy_properties.o module_library/multilayer_rue_canopy.o module_library/penman_monteith_leaf_temperature.o module_library/rasmussen_specific_heat.o module_library/rue_leaf_photosynthesis.o module_library/sunML.o framework/R_helper_functions.o framework/dynamical_system.o framework/dynamical_system_helper_functions.o framework/module_helper_functions.o framework/modules.o framework/ode_solver.o framework/quadratic_root.o framework/state_map.o framework/validate_dynamical_system.o framework/ode_solver_library/boost_ode_solvers.o framework/ode_solver_library/ode_solver_factory.o framework/utils/module_dependency_utilities.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Volumes/Builds/packages/big-sur-x86_64/results/4.3/BioCro.Rcheck/00LOCK-BioCro/00new/BioCro/libs
** generating debug symbols (dSYM)
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (BioCro)