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Common.cmake
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Common.cmake
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enable_testing()
include(CTest)
#-----------------------------------------------------------------------------
# Set a default build type if none was specified
if(NOT CMAKE_BUILD_TYPE AND NOT CMAKE_CONFIGURATION_TYPES)
message(STATUS "Setting build type to 'Release' as none was specified.")
set(CMAKE_BUILD_TYPE Release CACHE STRING "Choose the type of build." FORCE)
mark_as_advanced(CMAKE_BUILD_TYPE)
# Set the possible values of build type for cmake-gui
set_property(CACHE CMAKE_BUILD_TYPE PROPERTY STRINGS "Debug" "Release" "RelWithDebInfo")
endif()
#-----------------------------------------------------------------------------
# Set a default external project build type if none was specified
set(EXTERNAL_PROJECT_BUILD_TYPE "Release" CACHE STRING "Default build type for support libraries")
set_property(CACHE EXTERNAL_PROJECT_BUILD_TYPE PROPERTY STRINGS "Debug" "Release" "RelWithDebInfo")
#-----------------------------------------------------------------------------
# Change the default install prefix for superbuild packages
if(NOT CMAKE_INSTALL_PREFIX_SET)
set(CMAKE_INSTALL_PREFIX "${CMAKE_CURRENT_BINARY_DIR}/${LOCAL_PROJECT_NAME}-${CMAKE_BUILD_TYPE}-${PROJECT_VERSION}"
CACHE PATH "Install directory used by install" FORCE)
endif()
set(CMAKE_INSTALL_PREFIX_SET TRUE
CACHE BOOL "TAG indicating that INSTALL_PREFIX_WAS_SET" FORCE )
include(GNUInstallDirs)
# Override to avoid installing in lib64 sub directories.
# This needs to be defined after GNUInstallDirs
set(CMAKE_INSTALL_LIBDIR lib)
if(NOT Slicer_BUILD_BRAINSTOOLS)
set(BRAINSTOOLS_MACOSX_RPATH ON)
endif()
#-----------------------------------------------------------------------------
if(APPLE)
#-----------------------------------------------------------------------------
# Platform check
#-----------------------------------------------------------------------------
# See CMake/Modules/Platform/Darwin.cmake)
# 6.x == Mac OSX 10.2 (Jaguar)
# 7.x == Mac OSX 10.3 (Panther)
# 8.x == Mac OSX 10.4 (Tiger)
# 9.x == Mac OSX 10.5 (Leopard)
# 10.x == Mac OSX 10.6 (Snow Leopard)
# 11.x == Mac OSX 10.7 (Lion)
# 12.x == Mac OSX 10.8 (Mountain Lion)
# 13.x == Mac OSX 10.9 (Yosemite)
# 14.x == Mac OSX 10.10 (El Capitan)
# 15.x == Mac OSX 10.12 (Sierra) # Sept 2016 -- Improve C++11 support by default, for TBB
# 17.x == Mac OSX 10.13 (High Sierra)
# 18.x == Mac OSX 10.14 (Mojave)
if (DARWIN_MAJOR_VERSION LESS "13") #https://en.wikipedia.org/wiki/Darwin_(operating_system)
message(FATAL_ERROR "Only Mac OSX >= 10.13 are supported !")
endif()
set(CMAKE_MACOSX_RPATH ${BRAINSTOOLS_MACOSX_RPATH})
mark_as_superbuild(
VARS
CMAKE_OSX_ARCHITECTURES:STRING
CMAKE_OSX_SYSROOT:PATH
CMAKE_OSX_DEPLOYMENT_TARGET:STRING
CMAKE_MACOSX_RPATH:BOOL
ALL_PROJECTS
)
endif()
#-----------------------------------------------------------------------------
# Sanity checks
#------------------------------------------------------------------------------
include(PreventInSourceBuilds)
include(PreventInBuildInstalls)
include(itkCheckSourceTree)
include(CMakeDependentOption)
include(CMakeParseArguments)
#------------------------------------------------------------------------------
if(NOT Slicer_BUILD_BRAINSTOOLS)
## HACK Force all shared libraries
set(BUILD_SHARED_LIBS OFF) ## Build everything static for non-slicer builds
set(EXTERNAL_BUILD_SHARED_LIBS OFF) ## Build external projects shared
else()
set(BUILD_SHARED_LIBS ON) ## Build everything static for non-slicer builds
set(EXTERNAL_BUILD_SHARED_LIBS ON) ## Build external projects shared
endif()
#------------------------------------------------------------------------------
# Enable this option to avoid unnecessary re-compilation associated with command line module
set(GENERATECLP_USE_MD5 ON)
#-----------------------------------------------------------------------------
# Build option(s)
#-----------------------------------------------------------------------------
# -- if(NOT Slicer_BUILD_BRAINSTOOLS AND BUILD_TESTING)
# -- message(FATAL_ERROR "USE ${LOCAL_PROJECT_NAME}_BUILD_TESTING for controlling brainstools testing")
# -- endif()
option(${LOCAL_PROJECT_NAME}_BUILD_TESTING "Control if BRAINSTools builds testing" ON)
option(${SUPERBUILD_TOPLEVEL_PROJECT}_BUILD_DICOM_SUPPORT "Build Dicom Support" OFF)
mark_as_advanced(${SUPERBUILD_TOPLEVEL_PROJECT}_BUILD_DICOM_SUPPORT)
option(${SUPERBUILD_TOPLEVEL_PROJECT}_REQUIRES_VTK "Determine if tools depending on VTK need to be built." ON)
mark_as_advanced(${SUPERBUILD_TOPLEVEL_PROJECT}_REQUIRES_VTK)
option(${SUPERBUILD_TOPLEVEL_PROJECT}_REQUIRES_TBB "Determine if tools depending on TBB need to be built." ON)
mark_as_advanced(${SUPERBUILD_TOPLEVEL_PROJECT}_REQUIRES_TBB)
option(${SUPERBUILD_TOPLEVEL_PROJECT}_REQUIRES_FFTW "Determine if tools depending on FFTW need to be built." ON)
mark_as_advanced(${SUPERBUILD_TOPLEVEL_PROJECT}_REQUIRES_FFTW)
cmake_dependent_option(${LOCAL_PROJECT_NAME}_USE_QT
"Find and use Qt with VTK to build GUI Tools" OFF
"${SUPERBUILD_TOPLEVEL_PROJECT}_REQUIRES_VTK" OFF)
# bt_option: Convenience macro allowing to set an option and call mark_as_superbuild.
macro(bt_option name)
option(${name} ${ARGN})
mark_as_superbuild(VARS ${name}:BOOL
PROJECTS ${LOCAL_PROJECT_NAME}
)
endmacro()
bt_option(USE_ANTS "Build ANTS" ON)
bt_option(USE_BRAINSFit "Build BRAINSFit" ON)
bt_option(USE_BRAINSResample "Build BRAINSResample" ON)
bt_option(USE_BRAINSROIAuto "Build BRAINSROIAuto" ON)
bt_option(USE_DWIConvert "Build DWIConvert" ${${SUPERBUILD_TOPLEVEL_PROJECT}_BUILD_DICOM_SUPPORT})
bt_option(USE_BRAINSLabelStats "Build BRAINSLabelStats" ON)
bt_option(USE_BRAINSStripRotation "Build BRAINSStripRotation" ON)
bt_option(USE_BRAINSTransformConvert "Build BRAINSTransformConvert" ON)
bt_option(USE_BRAINSConstellationDetector "Build BRAINSConstellationDetector" ON)
bt_option(USE_BRAINSInitializedControlPoints "Build BRAINSInitializedControlPoints" ON)
bt_option(USE_BRAINSLandmarkInitializer "Build BRAINSLandmarkInitializer" ON)
bt_option(USE_ImageCalculator "Build ImageCalculator" ON)
bt_option(USE_ConvertBetweenFileFormats "Build ConvertBetweenFileFormats" ON)
bt_option(USE_BRAINSDWICleanup "Build BRAINSDWICleanup" ON)
bt_option(USE_BRAINSSnapShotWriter "Build BRAINSSnapShotWriter" ON)
bt_option(USE_BRAINSDeface "Build BRAINSDeface" ON)
bt_option(USE_BRAINSIntensityNormalize "Build BRAINSIntensityNormalize" ON)
cmake_dependent_option(USE_BRAINSConstellationDetectorGUI
"Build BRAINSConstellationDetectorGUI" OFF
"${SUPERBUILD_TOPLEVEL_PROJECT}_REQUIRES_VTK" OFF)
mark_as_superbuild(VARS USE_BRAINSConstellationDetectorGUI:BOOL
PROJECTS ${LOCAL_PROJECT_NAME} )
bt_option(USE_AutoWorkup "Build AutoWorkup" ON)
bt_option(USE_ReferenceAtlas "Build the Reference Atlas" ON)
cmake_dependent_option(USE_BRAINSABC
"Build BRAINSABC" ON
"USE_AutoWorkup;USE_ReferenceAtlas" OFF)
mark_as_superbuild(VARS USE_BRAINSABC:BOOL
PROJECTS ${LOCAL_PROJECT_NAME} )
if(USE_DWIConvert AND NOT ${${SUPERBUILD_TOPLEVEL_PROJECT}_BUILD_DICOM_SUPPORT})
message(FATAL_ERROR "USE_DWIConvert requires ${SUPERBUILD_TOPLEVEL_PROJECT}_BUILD_DICOM_SUPPORT:BOOL=ON")
endif()
## These are no longer needed on a day to day basis
if(NOT BUILD_FOR_DASHBOARD)
set(BUILD_FOR_DASHBOARD OFF)
endif()
bt_option(USE_BRAINSCreateLabelMapFromProbabilityMaps "Build BRAINSCreateLabelMapFromProbabilityMaps" ${BUILD_FOR_DASHBOARD})
bt_option(USE_BRAINSSuperResolution "Build BRAINSSuperResolution" ${BUILD_FOR_DASHBOARD})
bt_option(USE_BRAINSMultiSTAPLE "Build BRAINSMultiSTAPLE" ${BUILD_FOR_DASHBOARD})
message(STATUS "BUILD_FOR_DASHBOARD: ${BUILD_FOR_DASHBOARD}")
message(STATUS "${SUPERBUILD_TOPLEVEL_PROJECT}_BUILD_DICOM_SUPPORT: ${${SUPERBUILD_TOPLEVEL_PROJECT}_BUILD_DICOM_SUPPORT}")
cmake_dependent_option(USE_GTRACT "Build GTRACT" ${BUILD_FOR_DASHBOARD} "${SUPERBUILD_TOPLEVEL_PROJECT}_REQUIRES_VTK;${SUPERBUILD_TOPLEVEL_PROJECT}_BUILD_DICOM_SUPPORT" OFF)
mark_as_superbuild(VARS USE_GTRACT:BOOL PROJECTS ${LOCAL_PROJECT_NAME} )
cmake_dependent_option(USE_ITKMatlabIO "Build ITKMatlabIO" ${BUILD_FOR_DASHBOARD} "${SUPERBUILD_TOPLEVEL_PROJECT}_REQUIRES_VTK" OFF)
mark_as_superbuild(VARS USE_ITKMatlabIO:BOOL PROJECTS ${LOCAL_PROJECT_NAME} )
bt_option(USE_BRAINSMush "Build BRAINSMush" ${BUILD_FOR_DASHBOARD})
bt_option(USE_BRAINSMultiModeSegment "Build BRAINSMultiModeSegment" ${BUILD_FOR_DASHBOARD})
## These are not yet ready for prime time.
## INFO: Move to ARCHIVE directory
bt_option(BUILD_ARCHIVE "Build old tools from archive" OFF)
bt_option(USE_BRAINSPosteriorToContinuousClass "Build BRAINSPosteriorToContinuousClass" OFF)
cmake_dependent_option(USE_DebugImageViewer "Build DebugImageViewer" OFF "${SUPERBUILD_TOPLEVEL_PROJECT}_REQUIRES_VTK" OFF)
mark_as_superbuild(VARS USE_DebugImageViewer:BOOL PROJECTS ${LOCAL_PROJECT_NAME} )
bt_option(BRAINS_DEBUG_IMAGE_WRITE "Enable writing out intermediate image results" OFF)
##~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
## Items that are archived. May be usefult for compiler testing,
## but probably wont be useful for research work.
cmake_dependent_option(USE_BRAINSTalairach "Build BRAINSTalairach is under development" ${BUILD_FOR_DASHBOARD} "${SUPERBUILD_TOPLEVEL_PROJECT}_REQUIRES_VTK;BUILD_ARCHIVE" OFF)
mark_as_superbuild(VARS USE_BRAINSTalairach:BOOL PROJECTS ${LOCAL_PROJECT_NAME} )
#if(NOT ${SUPERBUILD_TOPLEVEL_PROJECT}_REQUIRES_VTK)
# message("NOTE: Following toolkits are dependent to VTK:
# -GTRACT
# -BRAINSTalairach
# -DebugImageViewer
# -ITKMatlabIO
# -BRAINSConstellationDetectorGUI
# First you need to set ${SUPERBUILD_TOPLEVEL_PROJECT}_REQUIRES_VTK to ON to be able to choose above application for build.")
#endif()
if(${LOCAL_PROJECT_NAME}_USE_QT) #//INFO: BRAINSTools only indirectly needs QT!,
set(${LOCAL_PROJECT_NAME}_REQUIRED_QT_MODULES
Core Widgets
Multimedia
Network OpenGL
PrintSupport # Required by "Annotations" module
UiTools #no dll
Xml XmlPatterns
Svg Sql
)
find_package(Qt5 COMPONENTS Core QUIET)
if(Qt5_VERSION VERSION_LESS "5.6.0")
list(APPEND ${LOCAL_PROJECT_NAME}_REQUIRED_QT_MODULES
WebKit
)
else()
list(APPEND ${LOCAL_PROJECT_NAME}_REQUIRED_QT_MODULES
WebEngine
WebEngineWidgets
WebChannel
)
endif()
if(${LOCAL_PROJECT_NAME}_BUILD_EXTENSIONMANAGER_SUPPORT)
list(APPEND ${LOCAL_PROJECT_NAME}_REQUIRED_QT_MODULES Script)
endif()
if(${LOCAL_PROJECT_NAME}_BUILD_I18N_SUPPORT)
list(APPEND ${LOCAL_PROJECT_NAME}_REQUIRED_QT_MODULES LinguistTools) # no dll
endif()
if(${LOCAL_PROJECT_NAME}_BUILD_TESTING)
list(APPEND ${LOCAL_PROJECT_NAME}_REQUIRED_QT_MODULES Test)
endif()
find_package(Qt5 COMPONENTS ${${LOCAL_PROJECT_NAME}_REQUIRED_QT_MODULES})
endif()
#-----------------------------------------------------------------------------
if(NOT COMMAND SETIFEMPTY)
macro(SETIFEMPTY)
set(KEY ${ARGV0})
set(VALUE ${ARGV1})
if(NOT ${KEY})
set(${ARGV})
endif()
endmacro()
endif()
#-----------------------------------------------------------------------------
SETIFEMPTY(CMAKE_LIBRARY_OUTPUT_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/${LOCAL_PROJECT_NAME}-${CMAKE_BUILD_TYPE}-EP${EXTERNAL_PROJECT_BUILD_TYPE}-build/lib)
SETIFEMPTY(CMAKE_ARCHIVE_OUTPUT_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/${LOCAL_PROJECT_NAME}-${CMAKE_BUILD_TYPE}-EP${EXTERNAL_PROJECT_BUILD_TYPE}-build/lib)
SETIFEMPTY(CMAKE_RUNTIME_OUTPUT_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/${LOCAL_PROJECT_NAME}-${CMAKE_BUILD_TYPE}-EP${EXTERNAL_PROJECT_BUILD_TYPE}-build/bin)
SETIFEMPTY(CMAKE_BUNDLE_OUTPUT_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/${LOCAL_PROJECT_NAME}-${CMAKE_BUILD_TYPE}-EP${EXTERNAL_PROJECT_BUILD_TYPE}-build/bin)
file(MAKE_DIRECTORY ${CMAKE_RUNTIME_OUTPUT_DIRECTORY})
#-----------------------------------------------------------------------------
SETIFEMPTY(CMAKE_INSTALL_LIBRARY_DESTINATION lib)
SETIFEMPTY(CMAKE_INSTALL_ARCHIVE_DESTINATION lib)
SETIFEMPTY(CMAKE_INSTALL_RUNTIME_DESTINATION bin)
#-------------------------------------------------------------------------
SETIFEMPTY(BRAINSTools_CLI_LIBRARY_OUTPUT_DIRECTORY ${CMAKE_LIBRARY_OUTPUT_DIRECTORY})
SETIFEMPTY(BRAINSTools_CLI_ARCHIVE_OUTPUT_DIRECTORY ${CMAKE_ARCHIVE_OUTPUT_DIRECTORY})
SETIFEMPTY(BRAINSTools_CLI_RUNTIME_OUTPUT_DIRECTORY ${CMAKE_RUNTIME_OUTPUT_DIRECTORY})
#-------------------------------------------------------------------------
SETIFEMPTY(BRAINSTools_CLI_INSTALL_LIBRARY_DESTINATION ${CMAKE_INSTALL_LIBRARY_DESTINATION})
SETIFEMPTY(BRAINSTools_CLI_INSTALL_ARCHIVE_DESTINATION ${CMAKE_INSTALL_ARCHIVE_DESTINATION})
SETIFEMPTY(BRAINSTools_CLI_INSTALL_RUNTIME_DESTINATION ${CMAKE_INSTALL_RUNTIME_DESTINATION})
#-------------------------------------------------------------------------
# Augment compiler flags
#-------------------------------------------------------------------------
include(ITKSetStandardCompilerFlags)
string(APPEND CMAKE_C_FLAGS " ${ITK_REQUIRED_C_FLAGS}")
string(APPEND CMAKE_CXX_FLAGS " ${ITK_REQUIRED_CXX_FLAGS}")
string(APPEND CMAKE_EXE_LINKER_FLAGS " ${ITK_REQUIRED_LINK_FLAGS}")
string(APPEND CMAKE_SHARED_LINKER_FLAGS " ${ITK_REQUIRED_LINK_FLAGS}")
string(APPEND CMAKE_MODULE_LINKER_FLAGS " ${ITK_REQUIRED_LINK_FLAGS}")
#-----------------------------------------------------------------------------
# Add needed flag for gnu on linux like enviroments to build static common libs
# suitable for linking with shared object libs.
if(CMAKE_SYSTEM_PROCESSOR STREQUAL "x86_64")
if(NOT "${CMAKE_CXX_FLAGS}" MATCHES "-fPIC")
string(APPEND CMAKE_CXX_FLAGS " -fPIC")
string(APPEND ep_CMAKE_CXX_FLAGS " -fPIC")
endif()
if(NOT "${CMAKE_C_FLAGS}" MATCHES "-fPIC")
string(APPEND CMAKE_C_FLAGS " -fPIC")
string(APPEND ep_CMAKE_C_FLAGS " -fPIC")
endif()
endif()
option(BUILD_COVERAGE "Build ${LOCAL_PROJECT_NAME} for coverage analysis" OFF)
mark_as_advanced(BUILD_COVERAGE)
# ------ duplicate from ITK
# Check for the presence of AVX and figure out the flags to use for it.
# Adapted from https://gist.github.com/UnaNancyOwen/263c243ae1e05a2f9d0e
function(check_avx_flags avx_flags_var)
set(avx_flags_var)
include(CheckCXXSourceRuns)
set(_safe_cmake_required_flags "${CMAKE_REQUIRED_FLAGS}")
set(CMAKE_REQUIRED_FLAGS)
# Check AVX
if(MSVC_VERSION GREATER_EQUAL 1600)
set(CMAKE_REQUIRED_FLAGS "/arch:AVX") # set flags to be used in check_cxx_source_runs below
endif()
check_cxx_source_runs("
#include <immintrin.h>
int main()
{
__m256 a, b, c;
const float src[8] = { 1.0f, 2.0f, 3.0f, 4.0f, 5.0f, 6.0f, 7.0f, 8.0f };
float dst[8];
a = _mm256_loadu_ps( src );
b = _mm256_loadu_ps( src );
c = _mm256_add_ps( a, b );
_mm256_storeu_ps( dst, c );
for( int i = 0; i < 8; i++ ){
if( ( src[i] + src[i] ) != dst[i] ){
return -1;
}
}
return 0;
}"
have_avx_extensions_var)
# Check AVX2
if(MSVC_VERSION GREATER_EQUAL 1800)
set(CMAKE_REQUIRED_FLAGS "/arch:AVX2") # set flags to be used in check_cxx_source_runs below
endif()
check_cxx_source_runs("
#include <immintrin.h>
int main()
{
__m256i a, b, c;
const int src[8] = { 1, 2, 3, 4, 5, 6, 7, 8 };
int dst[8];
a = _mm256_loadu_si256( (__m256i*)src );
b = _mm256_loadu_si256( (__m256i*)src );
c = _mm256_add_epi32( a, b );
_mm256_storeu_si256( (__m256i*)dst, c );
for( int i = 0; i < 8; i++ ){
if( ( src[i] + src[i] ) != dst[i] ){
return -1;
}
}
return 0;
}"
have_avx2_extensions_var)
set(CMAKE_REQUIRED_FLAGS "${_safe_cmake_required_flags}")
# Set Flags
if(have_avx2_extensions_var AND MSVC_VERSION GREATER_EQUAL 1800)
set(avx_flags_var "${avx_flags_var} /arch:AVX2")
elseif(have_avx_extensions_var AND MSVC_VERSION GREATER_EQUAL 1600)
set(avx_flags_var "${avx_flags_var} /arch:AVX")
endif()
endfunction()
# ------ duplicate from ITK
function(check_compiler_optimization_flags c_optimization_flags_var cxx_optimization_flags_var)
set(${c_optimization_flags_var} "" PARENT_SCOPE)
set(${cxx_optimization_flags_var} "" PARENT_SCOPE)
if(MSVC)
check_avx_flags(InstructionSetOptimizationFlags)
if("${CMAKE_SIZEOF_VOID_P}" EQUAL "4")
list(APPEND InstructionSetOptimizationFlags
/arch:SSE /arch:SSE2)
endif()
elseif(NOT EMSCRIPTEN)
if (${CMAKE_C_COMPILER} MATCHES "icc.*$")
set(USING_INTEL_ICC_COMPILER TRUE)
endif()
if (${CMAKE_CXX_COMPILER} MATCHES "icpc.*$")
set(USING_INTEL_ICC_COMPILER TRUE)
endif()
if(USING_INTEL_ICC_COMPILER)
set(InstructionSetOptimizationFlags "")
else()
set(InstructionSetOptimizationFlags "")
endif ()
# Check this list on C compiler only
set(c_flags "")
# Check this list on C++ compiler only
set(cxx_flags "")
# Check this list on both C and C++ compilers
set(InstructionSetOptimizationFlags
# https://gcc.gnu.org/onlinedocs/gcc-4.8.0/gcc/i386-and-x86_002d64-Options.html
# NOTE the corei7 release date was 2008
-mtune=native # Tune the code for the computer used compile ITK, but allow running on generic cpu archetectures
## use corei7-avx for ARGON cluster builds
-march=native # Use ABI settings to support corei7 (circa 2008 ABI feature sets, corei7-avx circa 2013)
)
endif()
set(c_and_cxx_flags ${InstructionSetOptimizationFlags})
check_c_compiler_flags( CMAKE_C_WARNING_FLAGS ${c_and_cxx_flags} ${c_flags})
check_cxx_compiler_flags(CMAKE_CXX_WARNING_FLAGS ${c_and_cxx_flags} ${cxx_flags})
set(${c_optimization_flags_var} "${CMAKE_C_WARNING_FLAGS}" PARENT_SCOPE)
set(${cxx_optimization_flags_var} "${CMAKE_CXX_WARNING_FLAGS}" PARENT_SCOPE)
endfunction()
if(NOT BRAINSToools_C_OPTIMIZATION_FLAGS OR NOT BRAINSToools_CXX_OPTIMIZATION_FLAGS ) # Only check once if not explicitly set on command line
#-----------------------------------------------------------------------------
#Check the set of warning flags the compiler supports
check_compiler_optimization_flags(C_OPTIMIZATION_FLAGS CXX_OPTIMIZATION_FLAGS)
endif()
if(NOT BRAINSToools_C_OPTIMIZATION_FLAGS) #Not set on cmake command line option -DBRAINSToools_C_OPTIMIZATION_FLAGS:STRING=""
set(BRAINSToools_C_OPTIMIZATION_FLAGS ${C_OPTIMIZATION_FLAGS} CACHE STRING "ITK C Compiler ABI/Optimization flags, Use '-march=native' to maximize performance, but break portabilitly.")
else()
set(BRAINSToools_C_OPTIMIZATION_FLAGS ${BRAINSToools_C_OPTIMIZATION_FLAGS} CACHE STRING "ITK C Compiler ABI/Optimization flags, Use '-march=native' to maximize performance, but break portabilitly.")
endif()
if(NOT BRAINSToools_CXX_OPTIMIZATION_FLAGS) #Not set on cmake command line option -DBRAINSToools_CXX_OPTIMIZATION_FLAGS:STRING=""
set(BRAINSToools_CXX_OPTIMIZATION_FLAGS ${CXX_OPTIMIZATION_FLAGS} CACHE STRING "ITK CXX Compiler ABI/Optimization flags, Use '-march=native' to maximize performance, but break portabilitly.")
else()
set(BRAINSToools_CXX_OPTIMIZATION_FLAGS ${BRAINSToools_CXX_OPTIMIZATION_FLAGS} CACHE STRING "ITK CXX Compiler ABI/Optimization flags, Use '-march=native' to maximize performance, but break portabilitly.")
endif()
mark_as_advanced(BRAINSToools_CXX_OPTIMIZATION_FLAGS)
mark_as_advanced(BRAINSToools_C_OPTIMIZATION_FLAGS)
unset(C_OPTIMIZATION_FLAGS)
unset(CXX_OPTIMIZATION_FLAGS)
option(BUILD_OPTIMIZED "Set compiler flags for native host building." OFF)
mark_as_advanced(BUILD_OPTIMIZED)
if(BUILD_OPTIMIZED AND NOT BUILD_COVERAGE)
if(CAN_BUILD_CXX_OPTIMIZED AND CAN_BUILD_C_OPTIMIZED)
string(APPEND CMAKE_CXX_FLAGS ${BRAINSToools_CXX_OPTIMIZATION_FLAGS})
string(APPEND CMAKE_C_FLAGS ${BRAINSToools_CXX_OPTIMIZATION_FLAGS})
string(REPLACE " " ";" CMAKE_C_FLAGS "${CMAKE_C_FLAGS} ${${PROJECT_NAME}_C_OPTIMIZATION_FLAGS} ${${PROJECT_NAME}_C_WARNING_FLAGS}")
list(REMOVE_DUPLICATES CMAKE_C_FLAGS)
string(REPLACE ";" " " CMAKE_C_FLAGS "${CMAKE_C_FLAGS}")
string(REPLACE " " ";" CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${${PROJECT_NAME}_CXX_OPTIMIZATION_FLAGS} ${${PROJECT_NAME}_CXX_WARNING_FLAGS}")
list(REMOVE_DUPLICATES CMAKE_CXX_FLAGS)
string(REPLACE ";" " " CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS}")
else()
message("WARNING: Requested optimized build, but -march=native flag not supported by"
"${CMAKE_CXX_COMPILER}"
"${CMAKE_C_COMPILER}")
endif()
endif()
#--if(NOT Slicer_BUILD_BRAINSTOOLS)
#--
#--## Let Slicer use it
#--mark_as_superbuild(
#-- VARS
#-- CMAKE_BUILD_TYPE:STRING
#-- CMAKE_CXX_FLAGS_DEBUG:STRING
#-- CMAKE_CXX_FLAGS_MINSIZEREL:STRING
#-- CMAKE_CXX_FLAGS_RELEASE:STRING
#-- CMAKE_CXX_FLAGS_RELWITHDEBINFO:STRING
#-- CMAKE_C_FLAGS_DEBUG:STRING
#-- CMAKE_C_FLAGS_MINSIZEREL:STRING
#-- CMAKE_C_FLAGS_RELEASE:STRING
#-- CMAKE_C_FLAGS_RELWITHDEBINFO:STRING
#-- CMAKE_EXE_LINKER_FLAGS:STRING
#-- CMAKE_EXE_LINKER_FLAGS_DEBUG:STRING
#-- CMAKE_EXE_LINKER_FLAGS_MINSIZEREL:STRING
#-- CMAKE_EXE_LINKER_FLAGS_RELEASE:STRING
#-- CMAKE_EXE_LINKER_FLAGS_RELWITHDEBINFO:STRING
#-- CMAKE_EXTRA_GENERATOR:STRING
#-- CMAKE_GENERATOR:STRING
#-- CMAKE_MODULE_PATH:PATH
#-- CMAKE_SHARED_LINKER_FLAGS:STRING
#-- CMAKE_SHARED_LINKER_FLAGS_DEBUG:STRING
#-- CMAKE_SHARED_LINKER_FLAGS_MINSIZEREL:STRING
#-- CMAKE_SHARED_LINKER_FLAGS_RELEASE:STRING
#-- CMAKE_SHARED_LINKER_FLAGS_RELWITHDEBINFO:STRING
#-- CMAKE_SKIP_RPATH:BOOL
#-- CTEST_NEW_FORMAT:BOOL
#-- MEMORYCHECK_COMMAND:PATH
#-- MEMORYCHECK_COMMAND_OPTIONS:STRING
#-- ALL_PROJECTS
#--)
#--endif()
#-----------------------------------------------------------------------------
# Add external project CMake args
#-----------------------------------------------------------------------------
string(APPEND CMAKE_CXX_FLAGS " ${CMAKE_C_FLAGS_INIT} ${ADDITIONAL_C_FLAGS} ${BRAINSTools_C_OPTIMIZATION_FLAGS} ${BRAINSTools_C_WARNING_FLAGS}")
string(APPEND CMAKE_C_FLAGS " ${CMAKE_CXX_FLAGS_INIT} ${ADDITIONAL_CXX_FLAGS} ${BRAINSTools_CXX_OPTIMIZATION_FLAGS} ${BRAINSTools_CXX_WARNING_FLAGS}")
if(NOT CMAKE_POSITION_INDEPENDENT_CODE)
set(CMAKE_POSITION_INDEPENDENT_CODE ON)
endif()
if(NOT Slicer_BUILD_BRAINSTOOLS)
set(CMAKE_INCLUDE_DIRECTORIES_BEFORE OFF)
#----------------------------------------------------------------------------
# Always full RPATH
# https://cmake.org/Wiki/CMake_RPATH_handling
# https://gitlab.kitware.com/cmake/community/-/wikis/doc/cmake/RPATH-handling
# Always full RPATH
# In many cases you will want to make sure that the required libraries are
# always found independent from LD_LIBRARY_PATH and the install location. Then
# you can use these settings:
# Note: 'build' is different than 'install'. The 'build' binaries
# are used for running the test suite. The 'install' binaries
# will have their RPATH values changed to be appropriate
# for running from the final install locations.
# use, i.e. don't skip the full RPATH for the build tree
# build tree binaries will have RPATH set
set(CMAKE_SKIP_BUILD_RPATH FALSE)
# Create relative path references for the build path
set(CMAKE_BUILD_RPATH_USE_ORIGIN TRUE)
# when building for build tree, don't use the 'install' RPATH values
set(CMAKE_BUILD_WITH_INSTALL_RPATH FALSE)
# add the automatically determined parts of the RPATH
# which point to directories outside the build tree to the install RPATH
set(CMAKE_INSTALL_RPATH_USE_LINK_PATH TRUE)
# Specifying these internally with $ORIGIN or @rpath allows the entire install directory
# to be redistributed while maintaining relative pathing so that the proper shared libs
# are found and used.
# the RPATH to be used when installing, but only if it's not a system directory
if(APPLE)
#TODO set @rpath settings correctly, use full path for now
list(APPEND CANDIDATE_PATHS_TO_INCLUDE "@executable_path/../lib" "@executable_path/../lib/ITK-5.3" "@executable_path/ITK-5.3")
else()
# Most libararies are installed in ${CMAKE_INSTALL_PREFIX}/${CMAKE_INSTALL_LIBDIR}
list(APPEND CANDIDATE_PATHS_TO_INCLUDE "\$ORIGIN/../${CMAKE_INSTALL_LIBDIR}")
# ITK install path puts FFTW in lib subdirectory ITK-5.3
list(APPEND CANDIDATE_PATHS_TO_INCLUDE "$ORIGIN/../${CMAKE_INSTALL_LIBDIR}/ITK-5.3" "\$ORIGIN/ITK-5.3")
# Relative for binaries FROM: /bin/prog.bin /lib/libitkXXXX.so
# TBB install path is always "${CMAKE_INSTALL_PREFIX}/lib" even on rhel7
list(APPEND CANDIDATE_PATHS_TO_INCLUDE "\$ORIGIN/../lib")
# Now remove possible duplicates
list(REMOVE_DUPLICATES CANDIDATE_PATHS_TO_INCLUDE)
endif()
foreach(CANDIDATE_RPATH ${CANDIDATE_PATHS_TO_INCLUDE})
list(FIND CMAKE_PLATFORM_IMPLICIT_LINK_DIRECTORIES "${CANDIDATE_RPATH}" isSystemDir)
#message(STATUS "------------------------- #${isSystemDir}#")
if("${isSystemDir}" STREQUAL "-1")
list(APPEND NON_SYS_RPATHS "${CANDIDATE_RPATH}")
endif()
list(REMOVE_DUPLICATES NON_SYS_RPATHS)
list(JOIN NON_SYS_RPATHS ":" CMAKE_INSTALL_RPATH)
#message(STATUS "HACK^CANDIDATE_RPATH^${CANDIDATE_RPATH}^\nNON_SYS_RPATHS^${NON_SYS_RPATHS}^\nCMAKE_INSTALL_RPATH^${CMAKE_INSTALL_RPATH}^\nCMAKE_PLATFORM_IMPLICIT_LINK_DIRECTORIES^${CMAKE_PLATFORM_IMPLICIT_LINK_DIRECTORIES}")
endforeach()
mark_as_superbuild(
VARS
CMAKE_INSTALL_PREFIX:PATH
CMAKE_INSTALL_LIBDIR:STRING
CMAKE_SKIP_BUILD_RPATH:BOOL
CMAKE_BUILD_WITH_INSTALL_RPATH:BOOL
CMAKE_INSTALL_RPATH_USE_LINK_PATH:BOOL
CMAKE_INSTALL_RPATH:PATH
CMAKE_POSITION_INDEPENDENT_CODE:BOOL
# Do not pollute projects CMAKE_ARCHIVE_OUTPUT_DIRECTORY:PATH
# Do not pollute projects CMAKE_BUNDLE_OUTPUT_DIRECTORY:PATH
# Do not pollute projects CMAKE_LIBRARY_OUTPUT_DIRECTORY:PATH
# Do not pollute projects CMAKE_RUNTIME_OUTPUT_DIRECTORY:PATH
# NOT USED EXTERNAL_PROJECT_BUILD_TYPE:STRING
CMAKE_CXX_COMPILER:FILEPATH
CMAKE_C_COMPILER:FILEPATH
CMAKE_CXX_STANDARD:STRING
CMAKE_CXX_STANDARD_REQUIRED:BOOL
CMAKE_CXX_EXTENSIONS:BOOL
CMAKE_CXX_FLAGS:STRING
CMAKE_C_FLAGS:STRING
CMAKE_INSTALL_PREFIX:PATH
CMAKE_INCLUDE_DIRECTORIES_BEFORE:BOOL
BUILD_SHARED_LIBS:BOOL
MAKECOMMAND:STRING
INSTALL_RUNTIME_DESTINATION:STRING
INSTALL_LIBRARY_DESTINATION:STRING
INSTALL_ARCHIVE_DESTINATION:STRING
SITE:STRING
BUILDNAME:STRING
# NOTE: These are provided separately for each modules
# CMAKE_BUILD_TYPE:STRING
# BUILD_EXAMPLES:BOOL
# BUILD_TESTING:BOOL
ALL_PROJECTS
)
endif()
if(APPLE)
set(APPLE_CONFIGURATION_DEFAULTS
-DCMAKE_OSX_ARCHITECTURES:STRING=${CMAKE_OSX_ARCHITECTURES}
-DCMAKE_OSX_SYSROOT:PATH=${CMAKE_OSX_SYSROOT}
-DCMAKE_OSX_DEPLOYMENT_TARGET:STRING=${CMAKE_OSX_DEPLOYMENT_TARGET}
-DCMAKE_MACOSX_RPATH:BOOL=${CMAKE_MACOSX_RPATH}
)
else()
unset(APPLE_CONFIGURATION_DEFAULTS)
endif()
set( EXTERNAL_PROJECT_DEFAULTS
-DCMAKE_BUILD_TYPE:STRING=${EXTERNAL_PROJECT_BUILD_TYPE}
-DBUILD_EXAMPLES:BOOL=OFF
-DBUILD_TESTING:BOOL=OFF
#-DCMAKE_INSTALL_PREFIX:PATH=${CMAKE_CURRENT_BINARY_DIR}/${proj}-install
-DCMAKE_INSTALL_PREFIX:PATH=${CMAKE_INSTALL_PREFIX}
-DBUILD_SHARED_LIBS:BOOL=${EXTERNAL_BUILD_SHARED_LIBS}
${APPLE_CONFIGURATION_DEFAULTS}
)
#------------------------------------------------------------------------------
# Configure and build
#------------------------------------------------------------------------------
## BRAINSTools_MAX_TEST_LEVEL adjusts how agressive the test suite is
## so that long running tests or incomplete tests can easily be
## silenced
## 1 - Run the absolute minimum very fast tests (These should always pass before any code commit)
## 3 - Run fast tests on continous builds (These need immediate attention if they begin to fail)
## 5 - Run moderate nightly tests (These need immediate attention if they begin to fail)
## 7 - Run long running extensive test that are a burden to normal development (perhaps test 1x per week)
## 8 - Run tests that fail due to incomplete test building, these are good ideas for test that we don't have time to make robust)
## 9 - Run silly tests that don't have much untility
set(BRAINSTools_MAX_TEST_LEVEL 3 CACHE STRING "Testing level for managing test burden")