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CMakeLists.txt
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CMakeLists.txt
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CMAKE_MINIMUM_REQUIRED(VERSION 3.7.2)
# set project name. The exe name is taken from this
SET( PROJECT_NAME CaPTk )
PROJECT( CaPTk )
SET( ${PROJECT_NAME} )
SET( ${PROJECT_NAME}_Variant "Full" ) # the particular variant of CaPTk (Full/Neuro/Torso/Viewer)
# WARNING: captk-pkg (the linux packager) directly tries to pattern match these lines (excluding the actual number/patch text)
# to read the version number.
# So small changes here to formatting or naming convention *may potentially break the linux packager*!
# STRING(TIMESTAMP TODAY "%Y%m%d")
SET( PROJECT_VERSION_MAJOR 1 )
SET( PROJECT_VERSION_MINOR 9 )
SET( PROJECT_VERSION_PATCH 0 )
SET( PROJECT_VERSION_TWEAK )
# check for the string "nonRelease" in the PROJECT_VERSION_PATCH variable
# if it is found, add timestamp and git hash of commit to the version
STRING(FIND ${PROJECT_VERSION_PATCH} "nonRelease" NONRELEASE_FOUND)
IF( ${NONRELEASE_FOUND} GREATER 0 )
# get the timestamp
STRING(TIMESTAMP TODAY "%Y%m%d")
# get git hash
IF(EXISTS ${CMAKE_CURRENT_SOURCE_DIR}/.git)
FIND_PACKAGE(Git)
IF(GIT_FOUND)
EXECUTE_PROCESS(
COMMAND ${GIT_EXECUTABLE} rev-parse --short HEAD
WORKING_DIRECTORY "${CMAKE_CURRENT_SOURCE_DIR}"
OUTPUT_VARIABLE "GIT_HASH"
ERROR_QUIET
OUTPUT_STRIP_TRAILING_WHITESPACE)
#MESSAGE( STATUS "Git version: ${GIT_HASH}" )
ELSE(GIT_FOUND)
SET(GIT_HASH 0)
ENDIF(GIT_FOUND)
ENDIF(EXISTS ${CMAKE_CURRENT_SOURCE_DIR}/.git)
SET( PROJECT_VERSION_PATCH "${PROJECT_VERSION_PATCH}.${TODAY}.${GIT_HASH}" )
#MESSAGE( STATUS "PROJECT_VERSION_PATCH: ${PROJECT_VERSION_PATCH}")
ENDIF()
# Configure CCache if available
FIND_PROGRAM(CCACHE_FOUND ccache)
IF(CCACHE_FOUND)
SET_PROPERTY(GLOBAL PROPERTY RULE_LAUNCH_COMPILE ccache)
SET_PROPERTY(GLOBAL PROPERTY RULE_LAUNCH_LINK ccache)
SET_PROPERTY(GLOBAL PROPERTY RULE_LAUNCH_COMPILE "${CCACHE_PROGRAM}")
ENDIF(CCACHE_FOUND)
FIND_PROGRAM(CCacheExectuable ccache)
IF( CCacheExectuable )
# only used with >=cmake-3.4
SET( CMAKE_C_COMPILER_LAUNCHER "${CCacheExectuable}" )
SET( CMAKE_CXX_COMPILER_LAUNCHER "${CCacheExectuable}" )
#MESSAGE( STATUS "Speeding up build with ccache" )
ENDIF()
IF(WIN32)
# enable parallel builds for windows
SET(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} /bigobj /MP")
SET(CMAKE_C_FLAGS "${CMAKE_C_FLAGS} /MP")
ENDIF()
SET(CMAKE_MODULE_PATH ${CMAKE_MODULE_PATH} ${PROJECT_SOURCE_DIR}/cmake_modules/)
INCLUDE( CaPTk_macros )
#SET (SVN_REVISION "${SVN_REVISION}")
OPTION( CAPTK_SUPERBUILD_FORCE "Force CaPTk Superbuild regardless of whether dependencies are found or not" OFF )
# claire option is not present for Windows, unfortunately
IF( UNIX )
SET( BUILD_CLAIRE OFF CACHE BOOL "Do you want to build CLAIRE (this changes the Superbuild)?" )
ENDIF()
SET( QT_VERSION_ACTUAL "5.12.1" )
if(UNIX)
if(CMAKE_SYSTEM_NAME MATCHES "Linux")
if(EXISTS "/etc/issue")
file(READ "/etc/issue" LINUX_ISSUE)
if(LINUX_ISSUE MATCHES "CentOS")
SET( QT_VERSION_ACTUAL "5.11.1" )
endif()
endif()
endif()
endif()
SET( QT_VERSION ${QT_VERSION_ACTUAL} CACHE STRING "Superbuild Qt version to build CaPTk against" FORCE )
SET( OPENCV_VERSION "3.4.7" CACHE STRING "Superbuild OpenCV version to build CaPTk against" FORCE )
SET(CAPTK_BUILD_DIR "${PROJECT_BINARY_DIR}" CACHE STRING "CaPTk build directory" FORCE )
ADD_DEFINITIONS(-DCAPTK_BUILD_DIR="${PROJECT_BINARY_DIR}")
CAPTK_INITIAL_SETUP()
IF( CAPTK_SUPERBUILD_FORCE )
PROJECT(${PROJECT_NAME}_Depends)
INCLUDE( ${PROJECT_SOURCE_DIR}/cmake_modules/Superbuild.cmake )
return()
ELSE()
FIND_PACKAGE(ITK)
IF(NOT EXISTS ${ITK_USE_FILE})
#MESSAGE( AUTHOR_WARNING "=== [DEBUG] PROJECT_BIN_DIR=${PROJECT_BINARY_DIR}" )
IF( NOT EXISTS ${PROJECT_BINARY_DIR}/ITK-build/ITKConfig.cmake )
OPTION( CAPTK_SUPERBUILD "Do a Superbuild of the CaPTk dependencies or Specify ITK install directory with the defined components" ON )
IF( CAPTK_SUPERBUILD )
PROJECT(${PROJECT_NAME}_Depends)
INCLUDE( ${PROJECT_SOURCE_DIR}/cmake_modules/Superbuild.cmake )
return()
ENDIF()
ENDIF()
ENDIF()
IF( EXISTS ${PROJECT_BINARY_DIR}/ITK-build/ITKConfig.cmake )
SET( ITK_DIR "${PROJECT_BINARY_DIR}/ITK-build/" CACHE STRING "ITK_DIR Path for use in other builds" FORCE )
SET( DCMTK_DIR "${PROJECT_BINARY_DIR}/DCMTK-build/" CACHE STRING "ITK_DIR Path for use in other builds" FORCE )
IF (APPLE) # THIS QT FOLDER STRUCTURE WAS NOT REQUIRED FOR 5.11.2
SET( ENV{PATH} "${PROJECT_BINARY_DIR}/qt/${QT_VERSION}/clang_64/lib/cmake/Qt5/:${PROJECT_BINARY_DIR}/qt/${QT_VERSION}/clang_64/bin:$ENV{PATH}" CACHE PATH "" FORCE)
SET( ENV{CMAKE_PREFIX_PATH} "${PROJECT_BINARY_DIR}/qt/${QT_VERSION}/clang_64/lib/cmake/Qt5/:${PROJECT_BINARY_DIR}/qt/${QT_VERSION}/clang_64/bin:${PROJECT_BINARY_DIR}/ITK-build/:${PROJECT_BINARY_DIR}/DCMTK-build/:${PROJECT_BINARY_DIR}/OpenCV-build/:${PROJECT_BINARY_DIR}/VTK-build:$ENV{CMAKE_PREFIX_PATH}" CACHE PATH "" FORCE )
SET( ENV{CMAKE_PROGRAM_PATH} "${PROJECT_BINARY_DIR}/qt/${QT_VERSION}/clang_64/lib/cmake/Qt5/:${PROJECT_BINARY_DIR}/qt/${QT_VERSION}/clang_64/bin:$ENV{CMAKE_PROGRAM_PATH}" CACHE PATH "" FORCE )
ELSE()
SET( ENV{CMAKE_PREFIX_PATH} "${PROJECT_BINARY_DIR}/qt/${QT_VERSION}/lib/cmake/Qt5/:${PROJECT_BINARY_DIR}/qt/${QT_VERSION}/bin:${PROJECT_BINARY_DIR}/ITK-build/:${PROJECT_BINARY_DIR}/DCMTK-build/:${PROJECT_BINARY_DIR}/OpenCV-build/:${PROJECT_BINARY_DIR}/VTK-build:$ENV{CMAKE_PREFIX_PATH}" CACHE PATH "" FORCE )
SET( ENV{LD_LIBRARY_PATH} "${QT_EXTRACTED_DIR}/${QT_VERSION}/lib/:$ENV{LD_LIBRARY_PATH}" CACHE PATH "" FORCE )
SET( ENV{CMAKE_PROGRAM_PATH} "${PROJECT_BINARY_DIR}/qt/${QT_VERSION}/lib/cmake/Qt5/:${PROJECT_BINARY_DIR}/qt/${QT_VERSION}/bin:$ENV{CMAKE_PROGRAM_PATH}" CACHE PATH "" FORCE )
SET( ENV{PATH} "${PROJECT_BINARY_DIR}/qt/${QT_VERSION}/lib/cmake/Qt5/:${PROJECT_BINARY_DIR}/qt/${QT_VERSION}/bin:$ENV{PATH}" CACHE PATH "" FORCE)
ENDIF()
#MESSAGE( AUTHOR_WARNING "=== [DEBUG] ENV{CMAKE_PREFIX_PATH}=$ENV{CMAKE_PREFIX_PATH}" )
ENDIF()
ENDIF()
# MESSAGE()
SET( PROJECT_VERSION "${PROJECT_VERSION_MAJOR}.${PROJECT_VERSION_MINOR}.${PROJECT_VERSION_PATCH}" CACHE STRING "The project version" FORCE )
MESSAGE( AUTHOR_WARNING "Building CaPTk version ${PROJECT_VERSION}")
IF (APPLE)
SET (EXE_NAME "${PROJECT_NAME}_${PROJECT_VERSION}")
ELSE()
SET( EXE_NAME "${PROJECT_NAME}" )
ENDIF()
#IF( NOT( ${SVN_REVISION} STREQUAL "" ) )
# SET( PROJECT_VERSION "${PROJECT_VERSION}_${SVN_REVISION}")
#ENDIF()
IF(${PROJECT_NAME}_Variant MATCHES "Full" )
SET( PROJECT_NAME_EXTENDED "Cancer Imaging Phenomics Toolkit (${PROJECT_NAME})")
ELSE()
SET( PROJECT_NAME_EXTENDED "Cancer Imaging Phenomics Toolkit (${PROJECT_NAME}_${${PROJECT_NAME}_Variant})" )
ENDIF()
SET( PROJECT_VENDOR "CBICA - UPenn" )
SET( LICENSE_FILE "${PROJECT_SOURCE_DIR}/LICENSE" )
SET( README_FILE "${PROJECT_SOURCE_DIR}/README.txt" )
SET( PROJECT_DOMAIN "https://www.med.upenn.edu/cbica/captk/" )
SET( PROJECT_CONTACT "software@cbica.upenn.edu" )
SET( COPYRIGHT "Copyright (c) 2019 CBICA. All rights reserved.")
SET( IDENTIFIER "")
ADD_DEFINITIONS(-DPROJECT_NAME="${PROJECT_NAME}" )
ADD_DEFINITIONS(-DPROJECT_VERSION="${PROJECT_VERSION}" )
ADD_DEFINITIONS(-DEXE_NAME="${EXE_NAME}")
ADD_DEFINITIONS(-DCaPTk_Variant="${CaPTk_Variant}")
ADD_DEFINITIONS(-DPROJECT_NAME_EXTENDED="${PROJECT_NAME_EXTENDED}")
ADD_DEFINITIONS(-DCONTACT="${PROJECT_CONTACT}")
ADD_DEFINITIONS(-DPROJECT_CONTACT="${PROJECT_CONTACT}")
ADD_DEFINITIONS(-DPROJECT_DOMAIN="${PROJECT_DOMAIN}")
ADD_DEFINITIONS(-DPROJECT_LICENSE="${LICENSE_FILE}")
ADD_DEFINITIONS(-DLICENSE="${LICENSE_FILE}")
ADD_DEFINITIONS(-DPROJECT_README="${README_FILE}")
ADD_DEFINITIONS(-DREADME="${README_FILE}")
ADD_DEFINITIONS(-DPROJECT_SOURCE_DIR="${PROJECT_SOURCE_DIR}/")
ADD_DEFINITIONS(-DPROJECT_BINARY_DIR="${PROJECT_BINARY_DIR}/")
ADD_DEFINITIONS(-DPROJECT_VARIANT="${${PROJECT_NAME}_Variant}")
### Building the documentation
## The following 4 lines are for generation of public documentation
SET( BUILD_DOCUMENTATION ON CACHE BOOL "Do you want to build Documentation (needs Doxygen)?" )
SET( BUILD_DOCUMENTATION_ONLY OFF CACHE BOOL "This doesn't build anything else in the project" )
SET( CAPTK_UPDATE_DOCS OFF CACHE BOOL "Copy HTML files to $PROJECT_SOURCE_DIR/docs for git commit" )
MARK_AS_ADVANCED(BUILD_DOCUMENTATION)
MARK_AS_ADVANCED(BUILD_DOCUMENTATION_ONLY)
IF( BUILD_DOCUMENTATION_ONLY )
SET( BUILD_DOCUMENTATION ON )
SET( CAPTK_UPDATE_DOCS ON ) #in this case, the HTML files are updated all the time
ENDIF()
IF( BUILD_DOCUMENTATION )
ADD_SUBDIRECTORY( docs_sources )
ENDIF ()
IF( NOT BUILD_DOCUMENTATION_ONLY )
# Provide build configuration option
SET( CAPTK_BUILD_OPTION "PACKAGE_PROJECT" CACHE STRING "Toggle between packaging mode (optimized code) or developer mode (provides debugging info)" )
SET_PROPERTY( CACHE CAPTK_BUILD_OPTION PROPERTY STRINGS PACKAGE_PROJECT DEVELOPER_MODE )
SET(CMAKE_BUILD_TYPE Release CACHE STRING "Choose the type of build." FORCE)
IF( CAPTK_BUILD_OPTION STREQUAL PACKAGE_PROJECT)
SET( CAPTK_PACKAGE_PROJECT ON )
SET( CAPTK_UPDATE_DOCS ON CACHE BOOL "Copy HTML files to $PROJECT_SOURCE_DIR/docs for git commit" )
SET( CMAKE_CONFIGURATION_TYPES "Release" CACHE STRING "Default configuration types" FORCE )
ADD_DEFINITIONS(-DCAPTK_PACKAGE_PROJECT)
# add a few compiler options for GCC and MSVC
IF( CMAKE_COMPILER_IS_GNUCXX )
SET( CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -Wno-unused-function -O3" )
ENDIF()
if(APPLE)
SET (CAPTK_MACOSX_BUNDLE_NAME "${PROJECT_NAME}_${PROJECT_VERSION}")
SET (CMAKE_INSTALL_PREFIX "${PROJECT_BINARY_DIR}/${PROJECT}" )
endif()
IF(MSVC)
ADD_DEFINITIONS(-D_CRT_SECURE_NO_WARNINGS -D_CRT_NONSTDC_NO_DEPRECATE -D_SCL_SECURE_NO_WARNINGS)
ENDIF(MSVC)
ELSE()
SET( CAPTK_PACKAGE_PROJECT OFF )
SET( CMAKE_CONFIGURATION_TYPES "Debug" CACHE STRING "Default configuration types" FORCE )
ENDIF()
OPTION( CAPTK_DISABLE_CWL "Disable CWL file generation - useful for debug builds or devops" ON )
MARK_AS_ADVANCED(CAPTK_PACKAGE_PROJECT)
MARK_AS_ADVANCED(CAPTK_BUILD_OPTION)
MARK_AS_ADVANCED(CAPTK_DISABLE_CWL)
SET( CMAKE_COLOR_MAKEFILE ON )
# option to compile only the viewer
SET( CAPTK_BUILD_CONSOLE_ONLY OFF CACHE BOOL "Do you want only the interactive capabilities of ${PROJECT_NAME}? Enabling this will remove all algorithms from compilation." )
IF (CAPTK_BUILD_CONSOLE_ONLY)
ADD_DEFINITIONS(-DCAPTK_BUILD_CONSOLE_ONLY)
ENDIF()
MARK_AS_ADVANCED(CAPTK_BUILD_CONSOLE_ONLY)
SET( CAPTK_CLI_MODE OFF CACHE BOOL "Builds only CLI apps of CaPTk." )
ADD_DEFINITIONS(-DCAPTK_CLI_MODE)
# find dependencies START
SET( THIRDPARTY_LIB_PATH ${PROJECT_SOURCE_DIR}/src/thirdparty )
INCLUDE_DIRECTORIES( ${THIRDPARTY_LIB_PATH} )
### third party library processing
# find and include all third party libraries
SUBDIRLIST(SUBDIRECTORIES ${THIRDPARTY_LIB_PATH})
FIND_PACKAGE( ITK REQUIRED )
#FIND_PACKAGE( ITK REQUIRED )
INCLUDE("${ITK_USE_FILE}")
FIND_PACKAGE(OpenCV REQUIRED)
INCLUDE_DIRECTORIES(${OpenCV_INCLUDE_DIRS})
FOREACH(thirdParty_include ${SUBDIRECTORIES})
INCLUDE_DIRECTORIES( ${THIRDPARTY_LIB_PATH}/${thirdParty_include} )
IF( EXISTS "${THIRDPARTY_LIB_PATH}/${thirdParty_include}/include" )
INCLUDE_DIRECTORIES( ${THIRDPARTY_LIB_PATH}/${thirdParty_include}/include )
ENDIF()
#SUBDIRLIST(SUBDIRECTORIES_INT ${THIRDPARTY_LIB_PATH})
#FOREACH(thirdParty_int_include ${THIRDPARTY_LIB_PATH}/${thirdParty_include})
# INCLUDE_DIRECTORIES( ${THIRDPARTY_LIB_PATH}/${thirdParty_include}/${thirdParty_int_include} )
#ENDFOREACH()
ENDFOREACH()
# for YAML-CPP
FILE(GLOB_RECURSE YAMLCPP_Headers "${PROJECT_SOURCE_DIR}/src/thirdparty/yaml-cpp/include/yaml-cpp/*.h")
FILE(GLOB_RECURSE YAMLCPP_Sources "${PROJECT_SOURCE_DIR}/src/thirdparty/yaml-cpp/src/*.cpp")
SET( YAMLCPP_Headers ${YAMLCPP_Headers} CACHE STRING "YAML-CPP headers" FORCE )
SET( YAMLCPP_Sources ${YAMLCPP_Sources} CACHE STRING "YAML-CPP sources" FORCE )
### third party library processing
FIND_PACKAGE(VTK REQUIRED)
INCLUDE("${VTK_USE_FILE}")
IF(VTK_VERSION VERSION_LESS 6.0.0)
SET(VTK_LIBRARIES
vtkCommon
vtkRendering
vtkIO
vtkFiltering
vtkGraphics
vtkWidgets
vtkImaging
vtkHybrid
QVTK
)
ENDIF(VTK_VERSION VERSION_LESS 6.0.0)
IF(VTK_VERSION VERSION_LESS 5.6.0)
SET(VTK_LIBRARIES
${VTK_LIBRARIES}
#vtkQVTK
)
ENDIF(VTK_VERSION VERSION_LESS 5.6.0)
FIND_PACKAGE(Qt5 COMPONENTS Core Gui Svg Widgets WebView WebEngine WebEngineCore WebEngineWidgets Concurrent Test Sql REQUIRED)
# For some reason IF(LINUX) doesn't work properly on linux
# This is necessary for the whole project to compile on linux
IF(WIN32)
ELSEIF(APPLE)
ELSE()
FIND_PACKAGE(Qt5 COMPONENTS X11Extras REQUIRED)
ENDIF()
#INCLUDE(${QT_USE_FILE})
SET(QT_USE_QTGUI TRUE)
SET(QT_USE_QTMAIN TRUE)
SET(QT_USE_QTGUI TRUE)
ADD_DEFINITIONS(${QT_DEFINITIONS})
ADD_DEFINITIONS(-DQT_PLUGIN)
ADD_DEFINITIONS(-DQT_THREAD_SUPPORT)
LINK_DIRECTORIES(${QT_LIBRARY_DIR})
# link dependent libraries
SET( DEPENDENT_LIBS
Qt5::Core
Qt5::Gui
Qt5::Svg
Qt5::Widgets
Qt5::WebView
Qt5::WebEngine
Qt5::WebEngineCore
Qt5::WebEngineWidgets
Qt5::Concurrent
Qt5::Test
Qt5::Sql
${ITK_LIBRARIES}
${VTK_LIBRARIES}
${OpenCV_LIBRARIES}
${OpenMP_LIBRARIES}
)
IF(UNIX AND NOT APPLE)
SET( DEPENDENT_LIBS
${DEPENDENT_LIBS}
Qt5::X11Extras
)
ENDIF()
SET( DEPENDENT_LIBS ${DEPENDENT_LIBS} CACHE STRING "All dependent libraries" )
# find dependencies END
SET( DATA_DIR "${PROJECT_SOURCE_DIR}/data" )
# define build options for applications and add the respective definitions
SET( BUILD_TRAINING ON CACHE BOOL "Do you want to build Training Module?" )
SET( BUILD_EGFRvIII ON CACHE BOOL "Do you want to build EGFRvIII Estimation?" )
SET( BUILD_EGFRvIIISVM ON CACHE BOOL "Do you want to build EGFRvIII SVM Estimation?" )
SET( BUILD_RECURRENCE ON CACHE BOOL "Do you want to build Recurrence Estimation?" )
SET( BUILD_PSEUDOPROGRESSION ON CACHE BOOL "Do you want to build Pseudoprogression Estimation?" )
SET( BUILD_SURVIVAL ON CACHE BOOL "Do you want to build Survival Estimation?" )
SET( BUILD_ISUBTYPE OFF CACHE BOOL "Do you want to build Imaging Subtype Estimation?" )
SET( BUILD_MSUBTYPE ON CACHE BOOL "Do you want to build Molecular Subtype Estimation?" )
SET( BUILD_ATLAS ON CACHE BOOL "Do you want to build Population Atlas?" )
SET( BUILD_ALIGNMENT ON CACHE BOOL "Do you want to build Perfusion Alignment?" )
SET( BUILD_PCA ON CACHE BOOL "Do you want to build Perfusion PCA?" )
SET( BUILD_GEODESIC ON CACHE BOOL "Do you want to build Geodesic Segmentation?" )
SET( BUILD_GEODESICTRAINING ON CACHE BOOL "Do you want to build Geodesic Training Segmentation?" )
SET( BUILD_SBRT ON CACHE BOOL "Do you want to build SBRT Lung?" )
SET( BUILD_WHITESTRIPE ON CACHE BOOL "Do you want to build WhiteStripe Normalization?" )
SET( BUILD_ITKSNAP ON CACHE BOOL "Do you want to connect ITK-SNAP to CaPTk Console?" )
SET( BUILD_LIBRASINGLE ON CACHE BOOL "Do you want to connect LIBRA to CaPTk Console (needs MATLAB runtime)?" )
SET( BUILD_LIBRABATCH ON CACHE BOOL "Do you want to connect LIBRA to CaPTk Console (needs MATLAB runtime)?" )
SET( BUILD_CONFETTI ON CACHE BOOL "Do you want to connect Confetti to CaPTk Console (needs Python 2.7 and other dependencies)?" )
SET( BUILD_FETALBRAIN OFF CACHE BOOL "Do you want to build FetalBrain?" )
SET( BUILD_DEEPMEDIC ON CACHE BOOL "Do you want to package DeepMedic?" )
IF(BUILD_EGFRvIII)
ADD_DEFINITIONS(-DBUILD_EGFRvIII)
ENDIF()
IF(BUILD_EGFRvIIISVM)
ADD_DEFINITIONS(-DBUILD_EGFRvIIISVM)
ENDIF()
IF(BUILD_ALIGNMENT)
ADD_DEFINITIONS(-DBUILD_ALIGNMENT)
ENDIF()
IF(BUILD_PCA)
ADD_DEFINITIONS(-DBUILD_PCA)
ENDIF()
IF(BUILD_RECURRENCE)
ADD_DEFINITIONS(-DBUILD_RECURRENCE)
ENDIF()
IF(BUILD_PSEUDOPROGRESSION)
ADD_DEFINITIONS(-DBUILD_PSEUDOPROGRESSION)
ENDIF()
IF(BUILD_ISUBTYPE)
ADD_DEFINITIONS(-DBUILD_ISUBTYPE)
ENDIF()
IF(BUILD_MSUBTYPE)
ADD_DEFINITIONS(-DBUILD_MSUBTYPE)
ENDIF()
IF(BUILD_ATLAS)
ADD_DEFINITIONS(-DBUILD_ATLAS)
ENDIF()
IF(BUILD_RECURRENCE)
ADD_DEFINITIONS(-DBUILD_RECURRENCE)
ENDIF()
IF(BUILD_SURVIVAL)
ADD_DEFINITIONS(-DBUILD_SURVIVAL)
ENDIF()
IF(BUILD_GEODESIC)
ADD_DEFINITIONS(-DBUILD_GEODESIC)
ENDIF()
IF(BUILD_SBRT)
ADD_DEFINITIONS(-DBUILD_SBRT)
ENDIF()
IF(BUILD_WHITESTRIPE)
ADD_DEFINITIONS(-DBUILD_WHITESTRIPE)
ENDIF()
IF(BUILD_ITKSNAP)
ADD_DEFINITIONS(-DBUILD_ITKSNAP)
ENDIF()
IF(BUILD_LIBRA)
ADD_DEFINITIONS(-DBUILD_LIBRA)
ENDIF()
IF(BUILD_CONFETTI)
ADD_DEFINITIONS(-DBUILD_CONFETTI)
ENDIF()
IF(BUILD_FETALBRAIN)
ADD_DEFINITIONS(-DBUILD_FETALBRAIN)
ENDIF()
IF(BUILD_GEODESICTRAINING)
ADD_DEFINITIONS(-DBUILD_GEODESICTRAINING)
ENDIF()
# set stand-alone applications and libs directories
SET_PROPERTY( GLOBAL PROPERTY USE_FOLDERS ON )
SET( CaPTk_CLIs_Folder "CaPTk_CLIApps")
SET( CaPTk_Libs_Folder "CaPTk_Libs")
ADD_SUBDIRECTORY(${PROJECT_SOURCE_DIR}/src)
SET(INDIVIDUAL_APPLICATIONS_DIR ${PROJECT_SOURCE_DIR}/src/applications/individualApps)
# include dependencies
# add source code include directories
INCLUDE_DIRECTORIES(
${CACHED_INCLUDE_DIRS}
${PROJECT_SOURCE_DIR}/src/
${PROJECT_SOURCE_DIR}/src/applications/
${PROJECT_SOURCE_DIR}/src/applications/common_includes/
${PROJECT_SOURCE_DIR}/src/applications/FeatureExtraction/src/depends/
${PROJECT_SOURCE_DIR}/src/applications/FeatureExtraction/src/
${PROJECT_SOURCE_DIR}/src/applications/FeatureExtraction_includes/
${PROJECT_SOURCE_DIR}/src/applications/GeodesicTraining/
${PROJECT_SOURCE_DIR}/src/applications/GeodesicTraining/include/
${PROJECT_SOURCE_DIR}/src/cbica_toolkit/src/
${PROJECT_SOURCE_DIR}/src/cbica_toolkit/src/IO/inc
${PROJECT_SOURCE_DIR}/src/common/inc/
${PROJECT_SOURCE_DIR}/src/view/gui/
${GEODESIC_TRAINING_INCLUDE_DIRS}
${APPLICATION_INCLUDES}
${CACHED_INCLUDE_DIRS}
${OpenMP_INCLUDE_DIRS}
)
IF( BUILD_CONFETTI )
IF (WIN32)
# do nothing for windows since the pre-compiled binaries will be used
ELSE()
SET(ConfettiSrcs ${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/src/main.cpp
${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/src/confetti.cpp)
SET(ConfettiHeaders
${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/src/confetti.h
${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/src/dtiUtils.h
${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/src/multinomialModel.h)
#CAPTK_ADD_EXECUTABLE(${STANDALONE_APP_NAME} "${ConfettiSrcs} ${ConfettiHeaders}" "${OpenCV_LIBS} ${ITK_LIBRARIES}")
ADD_EXECUTABLE(Confetti ${ConfettiSrcs} ${ConfettiHeaders})
TARGET_LINK_LIBRARIES(Confetti ${OpenCV_LIBS} ${ITK_LIBRARIES})
SET_TARGET_PROPERTIES( Confetti PROPERTIES FOLDER "${CaPTk_CLIApps}" )
ADD_LIBRARY(ConfettiCore SHARED
${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/src/confetti.cpp
${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/src/confetti.h
${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/src/multinomialModel.h
${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/src/dtiUtils.h
${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/src/confettiApi.cpp
)
TARGET_LINK_LIBRARIES(ConfettiCore ${OpenCV_LIBS} ${ITK_LIBRARIES})
# install all targets and scripts
IF (APPLE)
INSTALL( TARGETS Confetti
BUNDLE DESTINATION .
RUNTIME DESTINATION ${EXE_NAME}.app/Contents/Resources/bin
LIBRARY DESTINATION ${EXE_NAME}.app/Contents/Resources/lib
CONFIGURATIONS "${CMAKE_CONFIGURATION_TYPES}"
PERMISSIONS OWNER_READ OWNER_WRITE OWNER_EXECUTE GROUP_READ GROUP_EXECUTE WORLD_READ WORLD_EXECUTE
)
INSTALL( TARGETS ConfettiCore
DESTINATION ${EXE_NAME}.app/Contents/Resources/lib
)
INSTALL( FILES ${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/pyGUI/ConfettiCore.py
DESTINATION ${EXE_NAME}.app/Contents/Resources/libexec
)
IF( NOT CAPTK_CLI_MODE )
INSTALL( FILES ${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/pyGUI/ConfettiGUI.py
DESTINATION ${EXE_NAME}.app/Contents/Resources/bin
#CONFIGURATIONS "${CMAKE_CONFIGURATION_TYPES}"
PERMISSIONS OWNER_READ OWNER_WRITE OWNER_EXECUTE GROUP_READ GROUP_EXECUTE WORLD_READ WORLD_EXECUTE
)
ENDIF()
ELSE()
INSTALL( TARGETS Confetti
BUNDLE DESTINATION .
RUNTIME DESTINATION bin
LIBRARY DESTINATION lib
CONFIGURATIONS "${CMAKE_CONFIGURATION_TYPES}"
PERMISSIONS OWNER_READ OWNER_WRITE OWNER_EXECUTE GROUP_READ GROUP_EXECUTE WORLD_READ WORLD_EXECUTE
)
INSTALL( TARGETS ConfettiCore
DESTINATION lib
)
INSTALL( FILES ${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/pyGUI/ConfettiCore.py
DESTINATION libexec
)
IF( NOT CAPTK_CLI_MODE )
INSTALL( FILES ${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/pyGUI/ConfettiGUI.py
DESTINATION bin
#CONFIGURATIONS "${CMAKE_CONFIGURATION_TYPES}"
PERMISSIONS OWNER_READ OWNER_WRITE OWNER_EXECUTE GROUP_READ GROUP_EXECUTE WORLD_READ WORLD_EXECUTE
)
ENDIF()
ENDIF()
ENDIF()
ENDIF()
ADD_DEFINITIONS(-DDATA_DIR="${DATA_DIR}")
ADD_DEFINITIONS(-DICON_DIR="${DATA_DIR}/icons")
ADD_DEFINITIONS(-DCAPTK_APP_LIST="${CAPTK_APP_LIST}")
ADD_DEFINITIONS(-DPREPROCESS_ALGOS="${PREPROCESSING_ALGOS}")
ADD_DEFINITIONS(-DCAPTK_APP_LIST_PY_GUI="${CAPTK_APP_LIST_PY_GUI}")
ADD_DEFINITIONS(-DCAPTK_APP_LIST_PY_CLI="${CAPTK_APP_LIST_PY_CLI}")
# keep source files structured as folders for clarity
SOURCE_GROUP( GUI FILES ${GUI_SOURCES_UPDATED} )
SOURCE_GROUP( CBICA-TK FILES ${CBICA-TK_SOURCES} )
SOURCE_GROUP( APPLICATIONS FILES ${APPLICATION_SOURCES} )
SOURCE_GROUP( APPLICATIONS_Dependencies FILES ${APPLICATION_DEPENDS} )
#SET( LIBNAME_GUI "${PROJECT_NAME}_GUI" )
SET( LIBNAME_Applications "${PROJECT_NAME}_Applications" )
SET( LIBNAME_FeatureExtractor "${PROJECT_NAME}_FeatureExtractor" )
SET( LIBNAME_CBICATK "${PROJECT_NAME}_CBICATK" )
# add all dependenciesO of ${application} to compilation
FILE( GLOB
FEATURE_EXTRACTION_DEPENDS
"${PROJECT_SOURCE_DIR}/src/applications/FeatureExtraction_includes/*.h"
"${PROJECT_SOURCE_DIR}/src/applications/FeatureExtraction_includes/*.cpp"
"${PROJECT_SOURCE_DIR}/src/applications/FeatureExtraction_includes/*.hxx"
)
ADD_LIBRARY(
${LIBNAME_FeatureExtractor}
${FEATURE_EXTRACTION_DEPENDS}
${PROJECT_SOURCE_DIR}/src/applications/FeatureExtraction/src/FeatureExtraction.h
${PROJECT_SOURCE_DIR}/src/applications/FeatureExtraction/src/FeatureExtraction.hxx
${PROJECT_SOURCE_DIR}/src/applications/FeatureExtraction/src/depends/LBPFeatures2D.h
${PROJECT_SOURCE_DIR}/src/applications/FeatureExtraction/src/depends/LBPFeatures2D.cpp
#${CBICA-TK_SOURCES}
)
TARGET_LINK_LIBRARIES(
${LIBNAME_FeatureExtractor}
#${DEPENDENT_LIBS}
${LIBNAME_CBICATK}
${ITK_LIBRARIES}
${OpenCV_LIBRARIES}
)
ADD_LIBRARY(
${LIBNAME_Applications}
${APPLICATION_SOURCES}
${APPLICATION_DEPENDS}
#${CBICA-TK_SOURCES}
)
TARGET_LINK_LIBRARIES(
${LIBNAME_Applications}
${DEPENDENT_LIBS}
${LIBNAME_CBICATK}
${ITK_LIBRARIES}
${OpenCV_LIBRARIES}
)
ADD_DEPENDENCIES( ${LIBNAME_Applications} ${LIBNAME_GUI} ${LIBNAME_FeatureExtractor} )
SET_TARGET_PROPERTIES( ${LIBNAME_CBICATK} PROPERTIES FOLDER "${CaPTk_Libs_Folder}" )
SET_TARGET_PROPERTIES( ${LIBNAME_Applications} PROPERTIES FOLDER "${CaPTk_Libs_Folder}" )
SET_TARGET_PROPERTIES( ${LIBNAME_FeatureExtractor} PROPERTIES FOLDER "${CaPTk_Libs_Folder}" )
SET_TARGET_PROPERTIES( CaPTk_GUI PROPERTIES FOLDER "${CaPTk_Libs_Folder}" )
SET_TARGET_PROPERTIES( CaPTk_Common PROPERTIES FOLDER "${CaPTk_Libs_Folder}" )
SET_TARGET_PROPERTIES( GeodesicTrainingCaPTkLib PROPERTIES FOLDER "${CaPTk_Libs_Folder}" )
SET_TARGET_PROPERTIES( GeodesicTrainingComputeLib PROPERTIES FOLDER "${CaPTk_Libs_Folder}" )
SET( CAPTK_LIBRARIES
${LIBNAME_CBICATK}
${LIBNAME_Applications}
${LIBNAME_FeatureExtractor}
)
# find stand-alone CMD applications
FILE( GLOB STANDALONE_APPS
"${PROJECT_SOURCE_DIR}/src/applications/*.cxx"
)
#MESSAGE( STATUS "[debug]STANDALONE_APPS == ${STANDALONE_APPS}")
#SET(STANDALONE_APPS_LIST "")
FOREACH(application ${STANDALONE_APPS})
GET_FILENAME_COMPONENT( STANDALONE_APP_NAME ${application} NAME_WE )
IF( NOT (${STANDALONE_APP_NAME} STREQUAL "ImagingSubtypePredictor" ) )
CAPTK_ADD_EXECUTABLE(${STANDALONE_APP_NAME} ${PROJECT_SOURCE_DIR}/src/applications/${STANDALONE_APP_NAME}.cxx "${CAPTK_LIBRARIES}" )
ENDIF()
ENDFOREACH()
IF (CMAKE_INSTALL_PREFIX_INITIALIZED_TO_DEFAULT)
SET(CMAKE_INSTALL_PREFIX "${PROJECT_BINARY_DIR}/install" CACHE PATH "Default Install Path" FORCE )
ENDIF()
## Build test(s) only if CAPTK_PACKAGE_PROJECT is OFF
#IF( NOT CAPTK_PACKAGE_PROJECT )
SET( BUILD_TESTING TRUE CACHE BOOL "Build testing" )
IF( BUILD_TESTING )
ENABLE_TESTING()
ADD_SUBDIRECTORY( testing )
#INCLUDE(CTest)
ENDIF( BUILD_TESTING )
#ENDIF()
# installation
IF (UNIX)
IF(NOT LIBEXEC_INSTALL_DIR)
SET(LIBEXEC_INSTALL_DIR "./libexec")
ENDIF()
ENDIF()
## symlink creation for UNIX machines - currently only works for DEB or RPM
# IF (UNIX OR APPLE)
# INSTALL(CODE "execute_process(COMMAND ${CMAKE_COMMAND} -E create_symlink ${CMAKE_INSTALL_PREFIX}/bin/${EXE_NAME} ${CMAKE_INSTALL_PREFIX}/bin/captk)")
# ENDIF()
SET(META_FILES_TO_INCLUDE "") # used for Apple package
#IF( BUILD_DOCUMENTATION )
IF (APPLE)
# TODO: Figure out how to set properties on files only present after configuration
FILE(GLOB ALL_DOC_FILES_BASE "${PROJECT_BINARY_DIR}/docs_sources/html/*.*")
FOREACH(docFiles ${ALL_DOC_FILES_BASE})
SET_SOURCE_FILES_PROPERTIES(${docFiles} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/share/doc)
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${docFiles})
ENDFOREACH()
ELSE() # Windows or Linux
# Need to install the directory to pick up files that are not present at configure time (for CI/Azure)
INSTALL( DIRECTORY ${PROJECT_BINARY_DIR}/docs_sources/html/ DESTINATION share/doc )
ENDIF()
#ENDIF()
# ensure all licenses are in the package
FILE( GLOB_RECURSE ALL_LICENSES "${PROJECT_SOURCE_DIR}/licenses/*.txt" )
IF (APPLE)
SET_SOURCE_FILES_PROPERTIES(${ALL_LICENSES} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/license)
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${ALL_LICENSES})
ELSE()
FOREACH( license ${ALL_LICENSES} )
INSTALL( FILES "${license}" DESTINATION licenses )
ENDFOREACH()
ENDIF()
#INSTALL(FILES "${README_FILE}" DESTINATION ".") # not needed any more
# ensure all icons are in the package
FILE( GLOB_RECURSE ALL_ICONS "${DATA_DIR}/icons/*.png" )
IF (APPLE)
SET_SOURCE_FILES_PROPERTIES(${ALL_ICONS} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/data/icons)
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${ALL_ICONS})
ELSE()
FOREACH( icon ${ALL_ICONS} )
INSTALL(FILES "${icon}" DESTINATION data/icons )
ENDFOREACH()
ENDIF()
SET( CAPTK_STYLESHEET_FILE "captk.qss" )
ADD_DEFINITIONS( -DCAPTK_STYLESHEET_FILE="${CAPTK_STYLESHEET_FILE}" )
#INSTALL(FILES "${DATA_DIR}/FetalModel.xml" DESTINATION data)
IF (WIN32)
# Can't be used with Linuxdeployqt or macdeployqt
INSTALL(FILES "${DATA_DIR}/${CAPTK_STYLESHEET_FILE}" DESTINATION etc)
INSTALL(FILES "${DATA_DIR}/qt.conf" DESTINATION bin)
ELSEIF (APPLE)
SET_SOURCE_FILES_PROPERTIES("${DATA_DIR}/${CAPTK_STYLESHEET_FILE}" PROPERTIES MACOSX_PACKAGE_LOCATION Resources/etc)
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} "${DATA_DIR}/${CAPTK_STYLESHEET_FILE}")
ELSE ()
INSTALL(FILES "${DATA_DIR}/${CAPTK_STYLESHEET_FILE}" DESTINATION etc)
# Linux needs the applications folder to be able to create a binary with linuxdeployqt
INSTALL(DIRECTORY "${DATA_DIR}/applications" DESTINATION share)
ENDIF()
IF (APPLE)
SET( FLAIR_FILE "${DATA_DIR}/AAAC0_flair_pp_shrunk.nii.gz")
SET_SOURCE_FILES_PROPERTIES( ${FLAIR_FILE} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/data)
SET( FLAIR_TESTTUMOR_FILE "${DATA_DIR}/AAAC0_flair_pp_shrunk_testTumor.nii.gz")
SET_SOURCE_FILES_PROPERTIES( ${FLAIR_TESTTUMOR_FILE} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/data)
FILE(GLOB survival_FILES "${DATA_DIR}/survival/*.*")
SET_SOURCE_FILES_PROPERTIES(${survival_FILES} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/data/survival)
FILE(GLOB egfrv3_FILES "${DATA_DIR}/egfrv3/*.*")
SET_SOURCE_FILES_PROPERTIES(${egfrv3_FILES} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/data/egfrv3)
FILE(GLOB egfrv3_FILES "${DATA_DIR}/molecular/*.*")
SET_SOURCE_FILES_PROPERTIES(${egfrv3_FILES} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/data/molecular)
FILE(GLOB sri24_FILES "${DATA_DIR}/sri24/*.*")
SET_SOURCE_FILES_PROPERTIES(${sri24_FILES} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/data/sri24)
FILE(GLOB DOWNLOAD_LINKS "${DATA_DIR}/links.yaml")
SET_SOURCE_FILES_PROPERTIES(${DOWNLOAD_LINKS} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/data)
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${FLAIR_FILE} ${FLAIR_TESTTUMOR_FILE} ${survival_FILES} ${egfrv3_FILES} ${sri24_FILES} ${DOWNLOAD_LINKS})
ELSE ()
INSTALL(FILES "${DATA_DIR}/AAAC0_flair_pp_shrunk.nii.gz" DESTINATION data)
INSTALL(FILES "${DATA_DIR}/AAAC0_flair_pp_shrunk_testTumor.nii.gz" DESTINATION data)
INSTALL(FILES "${DATA_DIR}/links.yaml" DESTINATION data)
INSTALL(DIRECTORY "${DATA_DIR}/survival" DESTINATION data PATTERN ".svn" EXCLUDE)
INSTALL(DIRECTORY "${DATA_DIR}/egfrv3" DESTINATION data PATTERN ".svn" EXCLUDE)
INSTALL(DIRECTORY "${DATA_DIR}/molecular" DESTINATION data PATTERN ".svn" EXCLUDE)
INSTALL(DIRECTORY "${DATA_DIR}/sri24" DESTINATION data PATTERN ".svn" EXCLUDE)
ENDIF()
# install DeepMedic files
IF (APPLE)
FILE(GLOB_RECURSE DEEPMEDIC_CONFIGFILES "${DATA_DIR}/deepMedic/configFiles/*")
FILE(GLOB_RECURSE DEEPMEDIC_SAVEDMODELS_BRAIN_TUMOR "${DATA_DIR}/deepMedic/saved_models/brainTumorSegmentation/*")
FILE(GLOB_RECURSE DEEPMEDIC_SAVEDMODELS_SKULL "${DATA_DIR}/deepMedic/saved_models/skullStripping/*")
FILE(GLOB_RECURSE DEEPMEDIC_SAVEDMODELS_SKULL_MA "${DATA_DIR}/deepMedic/saved_models/skullStripping_modalityAgnostic/*")
SET_SOURCE_FILES_PROPERTIES( ${DEEPMEDIC_CONFIGFILES} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/data/deepMedic/configFiles )
SET_SOURCE_FILES_PROPERTIES( ${DEEPMEDIC_SAVEDMODELS_BRAIN_TUMOR} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/data/deepMedic/saved_models/brainTumorSegmentation )
SET_SOURCE_FILES_PROPERTIES( ${DEEPMEDIC_SAVEDMODELS_SKULL} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/data/deepMedic/saved_models/skullStripping )
SET_SOURCE_FILES_PROPERTIES( ${DEEPMEDIC_SAVEDMODELS_SKULL_MA} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/data/deepMedic/saved_models/skullStripping_modalityAgnostic )
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${DEEPMEDIC_CONFIGFILES})
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${DEEPMEDIC_SAVEDMODELS_BRAIN_TUMOR})
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${DEEPMEDIC_SAVEDMODELS_SKULL})
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${DEEPMEDIC_SAVEDMODELS_SKULL_MA})
ELSE()
INSTALL(DIRECTORY "${DATA_DIR}/deepMedic/configFiles" DESTINATION data/deepMedic)
INSTALL(DIRECTORY "${DATA_DIR}/deepMedic/saved_models" DESTINATION data/deepMedic)
ENDIF()
# install CWL files if they aren't getting generated
#IF(CAPTK_DISABLE_CWL)
FILE(GLOB_RECURSE CWL_FILES "${DATA_DIR}/cwlFiles/*")
FOREACH(cwlFile ${CWL_FILES})
IF (APPLE)
SET_SOURCE_FILES_PROPERTIES(${cwlFile} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/etc/cwlDefinitions)
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${cwlFile})
INSTALL(FILES "${cwlFile}" DESTINATION ${EXE_NAME}.app/Contents/Resources/etc/cwlDefinitions)
ELSE()
INSTALL(FILES "${cwlFile}" DESTINATION etc/cwlDefinitions)
ENDIF()
ENDFOREACH()
#ENDIF()
IF(WIN32)
FILE(GLOB_RECURSE ALL_DEPENDENT_LIBS "${PROJECT_BINARY_DIR}/${CMAKE_CONFIGURATION_TYPES}/*.dll")
ELSE(WIN32)
FILE(GLOB_RECURSE ALL_DEPENDENT_LIBS "${PROJECT_BINARY_DIR}/${CMAKE_CONFIGURATION_TYPES}/*.so")
ENDIF()
FOREACH(dependent_lib ${ALL_DEPENDENT_LIBS})
IF (APPLE)
SET_SOURCE_FILES_PROPERTIES(${dependent_lib} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/bin)
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${dependent_lib})
INSTALL(FILES "${dependent_lib}" DESTINATION ${EXE_NAME}.app/Contents/Resources/bin)
ELSE()
INSTALL(FILES "${dependent_lib}" DESTINATION bin)
ENDIF()
ENDFOREACH()
#IF( WIN32 )
# INSTALL(DIRECTORY "${DATA_DIR}/GnuWin32" DESTINATION data PATTERN ".svn" EXCLUDE)
#ENDIF()
FILE(GLOB ALL_DOC_FILES_BASE "${PROJECT_BINARY_DIR}/docs_sources/html/*.*")
FOREACH(docFiles ${ALL_DOC_FILES_BASE})
IF (APPLE)
SET_SOURCE_FILES_PROPERTIES(${docFiles} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/share/doc)
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${docFiles})
ELSE()
INSTALL(FILES "${docFiles}" DESTINATION share/doc)
ENDIF()
ENDFOREACH()
set(OS_BUNDLE MACOSX_BUNDLE)
IF( NOT CAPTK_CLI_MODE )
# define the executable
IF(WIN32)
# ensures no console pops up when launching the program
ADD_EXECUTABLE(${EXE_NAME} WIN32
${EXE_SOURCES}
#${YAMLCPP_Headers}
#${YAMLCPP_Sources}
${DATA_DIR}/icons/application/windows/captk.rc
)
ELSEIF(APPLE)
SET (ICON_FILE "${DATA_DIR}/icons/application/apple/CaPTk.icns")
SET_SOURCE_FILES_PROPERTIES(${ICON_FILE} PROPERTIES MACOSX_PACKAGE_LOCATION Resources)
FOREACH(CAPTK_MACOSX_BUNDLE_FILE ${CAPTK_MACOSX_BUNDLE_FILES_INSTALL_TARGETS})
# MESSAGE(STATUS ${CAPTK_MACOSX_BUNDLE_FILES_INSTALL_TARGETS})
SET_SOURCE_FILES_PROPERTIES(${CAPTK_MACOSX_BUNDLE_FILE} PERMISSIONS OWNER_READ OWNER_WRITE OWNER_EXECUTE GROUP_READ GROUP_EXECUTE WORLD_READ WORLD_EXECUTE PROPERTIES MACOSX_PACKAGE_LOCATION Resources/bin )
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${CAPTK_MACOSX_BUNDLE_FILE})
ENDFOREACH()
FOREACH(FT_META_FILES_TO_INCLUDE ${FEATURE_EXTRACTION_META_FILES_TO_INCLUDE})
IF (${FT_META_FILES_TO_INCLUDE} STREQUAL "${PROJECT_SOURCE_DIR}/src/applications/FeatureExtraction/data/batchMode/batch_featureExtraction.csv")
SET_SOURCE_FILES_PROPERTIES(${FT_META_FILES_TO_INCLUDE} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/share/featureExtractionBatch )
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${FT_META_FILES_TO_INCLUDE})
ELSE()
SET_SOURCE_FILES_PROPERTIES(${FT_META_FILES_TO_INCLUDE} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/data/features )
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${FT_META_FILES_TO_INCLUDE})
ENDIF()
ENDFOREACH()
IF (NOT ICON_NAME)
SET(ICON_NAME CaPTk)
ENDIF()
# SET_SOURCE_FILES_PROPERTIES(Confetti PROPERTIES MACOSX_PACKAGE_LOCATION Resources/bin)
# SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} Confetti)
# # SET_SOURCE_FILES_PROPERTIES(${ConfettiCore} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/lib)
# # SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${ConfettiCore})
SET_SOURCE_FILES_PROPERTIES("${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/pyGUI/ConfettiGUI.py" PROPERTIES MACOSX_PACKAGE_LOCATION Resources/bin)
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} "${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/pyGUI/ConfettiGUI.py")
SET_SOURCE_FILES_PROPERTIES("${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/pyGUI/ConfettiCore.py" PROPERTIES MACOSX_PACKAGE_LOCATION Resources/libexec)
SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} "${INDIVIDUAL_APPLICATIONS_DIR}/confetti_source/pyGUI/ConfettiCore.py")
# FOREACH(application ${STANDALONE_APPS})
# GET_FILENAME_COMPONENT( STANDALONE_APP_NAME ${application} NAME_WE )
# IF( NOT (${STANDALONE_APP_NAME} STREQUAL "ImagingSubtypePredictor" ) )
# SET_SOURCE_FILES_PROPERTIES(${STANDALONE_APP_NAME} PROPERTIES MACOSX_PACKAGE_LOCATION Resources/bin)
# SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} ${STANDALONE_APP_NAME})
# ENDIF()
# ENDFOREACH()
# SET_SOURCE_FILES_PROPERTIES(CaPTk_Utilities PROPERTIES MACOSX_PACKAGE_LOCATION Resources/bin)
# SET(META_FILES_TO_INCLUDE ${META_FILES_TO_INCLUDE} CaPTk_Utilities)
# Identify MacOS bundle
SET(MACOSX_BUNDLE_BUNDLE_NAME "${PROJECT_NAME}_${PROJECT_VERSION}")
SET(MACOSX_BUNDLE_BUNDLE_VERSION ${PROJECT_VERSION})
SET(MACOSX_BUNDLE_LONG_VERSION_STRING ${PROJECT_VERSION})
SET(MACOSX_BUNDLE_SHORT_VERSION_STRING ${PROJECT_VERSION})
SET(MACOSX_BUNDLE_COPYRIGHT ${COPYRIGHT})
SET(MACOSX_BUNDLE_GUI_IDENTIFIER ${IDENTIFIER})
SET(MACOSX_BUNDLE_ICON_FILE ${ICON_NAME})
ADD_EXECUTABLE(${EXE_NAME}
${OS_BUNDLE}
${EXE_SOURCES}
${ICON_FILE}
${META_FILES_TO_INCLUDE}
)
ELSE()
ADD_EXECUTABLE(${EXE_NAME}
${EXE_SOURCES}
#${YAMLCPP_Headers}
#${YAMLCPP_Sources}
)
ENDIF()
TARGET_LINK_LIBRARIES( ${EXE_NAME}
${DEPENDENT_LIBS}
CaPTk_GUI
CaPTk_Common
GeodesicTrainingComputeLib
GeodesicTrainingCaPTkLib
${LIBNAME_Applications}
${LIBNAME_FeatureExtractor}
${LIBNAME_CBICATK}
)
ADD_DEPENDENCIES( ${EXE_NAME}
CaPTk_GUI
CaPTk_Common
${LIBNAME_Applications}
${LIBNAME_FeatureExtractor}
${LIBNAME_CBICATK}
)
# set properties for the executable
# SET_TARGET_PROPERTIES( ${EXE_NAME}
# PROPERTIES INSTALL_RPATH_USE_LINK_PATH TRUE
# OUTPUT_NAME ${EXE_NAME}
# )
ENDIF()
IF (APPLE)
INSTALL( TARGETS ${EXE_NAME}
BUNDLE DESTINATION .
PERMISSIONS OWNER_READ OWNER_WRITE OWNER_EXECUTE GROUP_READ GROUP_EXECUTE WORLD_READ WORLD_EXECUTE
)
# INSTALL( FILES "${PROJECT_BINARY_DIR}/${EXE_NAME}.app/Contents/MacOS/${EXE_NAME}"
# DESTINATION ${EXE_NAME}.app/Contents/MacOS
# PERMISSIONS OWNER_READ OWNER_WRITE OWNER_EXECUTE GROUP_READ GROUP_EXECUTE WORLD_READ WORLD_EXECUTE
# )
ELSE()
INSTALL( TARGETS ${EXE_NAME}
BUNDLE DESTINATION .
RUNTIME DESTINATION bin
LIBRARY DESTINATION lib
CONFIGURATIONS "${CMAKE_CONFIGURATION_TYPES}"
PERMISSIONS OWNER_READ OWNER_WRITE OWNER_EXECUTE GROUP_READ GROUP_EXECUTE WORLD_READ WORLD_EXECUTE
)
ENDIF()