Added WORKING_DIRECTORY for CMake execute_process scripts (#1171)

This PR specifies the WORKING_DIRECTORY for execute_process commands invoked in root CMakeLists.txt. It is not necessarily the case that current directory = CMAKE_BINARY_DIR, so explicitly specifying the working directory is important.

CMakeLists.txt

@@ -67,19 +67,18 @@ set(networkparamfile "${CMAKE_CURRENT_SOURCE_DIR}/networks/_parameters")
 set(VODEparamfile "${CMAKE_CURRENT_SOURCE_DIR}/integration/VODE/_parameters")
 set(integrationparamfile "${CMAKE_CURRENT_SOURCE_DIR}/integration/_parameters")
 set(unittestparamfile "${CMAKE_CURRENT_SOURCE_DIR}/unit_test/_parameters")
-execute_process(COMMAND python3 "${CMAKE_CURRENT_SOURCE_DIR}/util/build_scripts/write_probin.py" --pa "${paramfile} ${EOSparamfile} ${networkpcparamfile} ${networkparamfile} ${VODEparamfile} ${integrationparamfile} ${unittestparamfile}")
 
 #similarly, we want network_properties.H
 set(networkpropfile "${CMAKE_BINARY_DIR}/network_properties.H")
 set(networkfile "${CMAKE_CURRENT_SOURCE_DIR}/networks/primordial_chem/pynucastro.net")
 set(networkdir "${CMAKE_CURRENT_SOURCE_DIR}/networks/primordial_chem/")
 set(networkpropertiesfile "${CMAKE_CURRENT_SOURCE_DIR}/networks/primordial_chem/NETWORK_PROPERTIES")
 set(networkheadertemplatefile "${CMAKE_CURRENT_SOURCE_DIR}/networks/general_null/network_header.template")
-execute_process(COMMAND python3 "${CMAKE_CURRENT_SOURCE_DIR}/networks/general_null/write_network.py" --header_template "${networkheadertemplatefile}" --header_output "${networkpropfile}" -s "${networkfile}" --other_properties "${networkpropertiesfile}")
+execute_process(COMMAND python3 "${CMAKE_CURRENT_SOURCE_DIR}/networks/general_null/write_network.py" --header_template "${networkheadertemplatefile}" --header_output "${networkpropfile}" -s "${networkfile}" --other_properties "${networkpropertiesfile}" WORKING_DIRECTORY ${CMAKE_BINARY_DIR}/)
 #below for NAUX
-execute_process(COMMAND ${CMAKE_COMMAND} -E env "PYTHONPATH=${PYTHONPATH}:${CMAKE_CURRENT_SOURCE_DIR}/networks/general_null" python3 "${CMAKE_CURRENT_SOURCE_DIR}/networks/get_naux.py" --net "${networkdir}" --microphysics_path "${CMAKE_CURRENT_SOURCE_DIR}/")
+execute_process(COMMAND ${CMAKE_COMMAND} -E env "PYTHONPATH=${PYTHONPATH}:${CMAKE_CURRENT_SOURCE_DIR}/networks/general_null" python3 "${CMAKE_CURRENT_SOURCE_DIR}/networks/get_naux.py" --net "${networkdir}" --microphysics_path "${CMAKE_CURRENT_SOURCE_DIR}/" WORKING_DIRECTORY ${CMAKE_BINARY_DIR}/)
 #below to update headers
-execute_process(COMMAND ${CMAKE_COMMAND} -E env "PYTHONPATH=${PYTHONPATH}:${CMAKE_CURRENT_SOURCE_DIR}/networks/general_null" python3 "${CMAKE_CURRENT_SOURCE_DIR}/networks/update_headers.py" --net "${networkdir}" --microphysics_path "${CMAKE_CURRENT_SOURCE_DIR}/" --odir "${CMAKE_BINARY_DIR}")
+execute_process(COMMAND ${CMAKE_COMMAND} -E env "PYTHONPATH=${PYTHONPATH}:${CMAKE_CURRENT_SOURCE_DIR}/networks/general_null" python3 "${CMAKE_CURRENT_SOURCE_DIR}/networks/update_headers.py" --net "${networkdir}" --microphysics_path "${CMAKE_CURRENT_SOURCE_DIR}/" --odir "${CMAKE_BINARY_DIR}" WORKING_DIRECTORY ${CMAKE_BINARY_DIR}/)
 
 
 #set a cache variable that controls whether
@@ -120,9 +119,10 @@ message("Building unit test -- ${BUILD_UNIT_TEST}")
 #when built as a submodule in an external code
 #otherwise these are not visible to the external code
 #this will generate a warning but it will build successfully
-
+#do not need unit_test paramfiles when unit_test is not built
 
 if(BUILD_UNIT_TEST)
+   execute_process(COMMAND python3 "${CMAKE_CURRENT_SOURCE_DIR}/util/build_scripts/write_probin.py" --pa "${paramfile} ${EOSparamfile} ${networkpcparamfile} ${networkparamfile} ${VODEparamfile} ${integrationparamfile} ${unittestparamfile}" WORKING_DIRECTORY ${CMAKE_BINARY_DIR}/)
    set (primordial_chem_dirs ${CMAKE_BINARY_DIR} ${CMAKE_CURRENT_SOURCE_DIR}/util ${CMAKE_CURRENT_SOURCE_DIR}/util/gcem/include 
                              ${CMAKE_CURRENT_SOURCE_DIR}/integration/VODE ${CMAKE_CURRENT_SOURCE_DIR}/integration/utils 
                              ${CMAKE_CURRENT_SOURCE_DIR}/integration ${CMAKE_CURRENT_SOURCE_DIR}/interfaces
@@ -143,6 +143,7 @@ if(BUILD_UNIT_TEST)
    message("Building primordial chem unit test")
 
 else()
+   execute_process(COMMAND python3 "${CMAKE_CURRENT_SOURCE_DIR}/util/build_scripts/write_probin.py" --pa "${EOSparamfile} ${networkpcparamfile} ${networkparamfile} ${VODEparamfile} ${integrationparamfile} " WORKING_DIRECTORY ${CMAKE_BINARY_DIR}/)
    set (primordial_chem_dirs ${CMAKE_BINARY_DIR} ${CMAKE_CURRENT_SOURCE_DIR}/util ${CMAKE_CURRENT_SOURCE_DIR}/util/gcem/include 
                              ${CMAKE_CURRENT_SOURCE_DIR}/integration/VODE ${CMAKE_CURRENT_SOURCE_DIR}/integration/utils 
                              ${CMAKE_CURRENT_SOURCE_DIR}/integration ${CMAKE_CURRENT_SOURCE_DIR}/interfaces