CMakeLists.txt 29.8 KB
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#-----------------------------------------------------------------------------
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cmake_minimum_required(VERSION 2.8.2)
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#-----------------------------------------------------------------------------

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PROJECT(Slicer)
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#-----------------------------------------------------------------------------
# See http://cmake.org/cmake/help/cmake-2-8-docs.html#section_Policies for details
#-----------------------------------------------------------------------------
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if(POLICY CMP0016)
  CMAKE_POLICY(SET CMP0016 NEW)
endif()
if(POLICY CMP0017)
  CMAKE_POLICY(SET CMP0017 OLD)
endif()
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#-----------------------------------------------------------------------------
# Set the header template which defines custom export/import macros
# for shared libraries
#-----------------------------------------------------------------------------
SET(Slicer_EXPORT_HEADER_TEMPLATE "${Slicer_SOURCE_DIR}/qSlicerExport.h.in")
SET(Slicer_LOGOS_RESOURCE "${Slicer_SOURCE_DIR}/Resources/qSlicerLogos.qrc")

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#-----------------------------------------------------------------------------
# Update CMake module path
#------------------------------------------------------------------------------

SET(CMAKE_MODULE_PATH
  ${Slicer_SOURCE_DIR}/CMake
  ${Slicer_BINARY_DIR}/CMake
  ${CMAKE_MODULE_PATH}
  )
  
SET(Slicer_CMAKE_DIR "${Slicer_SOURCE_DIR}/CMake" CACHE INTERNAL "")

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#-----------------------------------------------------------------------------
# CMake Function(s) and Macro(s)
#-----------------------------------------------------------------------------
INCLUDE(CMakeParseArguments)
INCLUDE(Slicer3PluginsMacros)
INCLUDE(SlicerMacroParseArguments)
INCLUDE(SlicerMacroBuildCLI)
INCLUDE(SlicerMacroEmptyExternalProject)
INCLUDE(SlicerFunctionCheckCompilerFlags)
INCLUDE(SlicerFunctionInstallLibrary)
INCLUDE(SlicerFunctionGetGccVersion)

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#-----------------------------------------------------------------------------
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# Platform checks
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#-----------------------------------------------------------------------------
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INCLUDE(SlicerBlockPlatformCheck)
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#-----------------------------------------------------------------------------
# Determine endian type
#-----------------------------------------------------------------------------

INCLUDE(TestBigEndian)
test_big_endian(CMAKE_WORDS_BIGENDIAN)

#-----------------------------------------------------------------------------
# Prerequisites
#-----------------------------------------------------------------------------

FIND_PACKAGE(Subversion)
IF(NOT Subversion_FOUND)
  MESSAGE(FATAL_ERROR "error: Install SVN and try to re-configure")
ENDIF()

FIND_PACKAGE(Git)
IF(NOT GIT_FOUND)
  MESSAGE(FATAL_ERROR "error: Install Git and try to re-configure")
ENDIF()

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SET(Slicer_REQUIRED_QT_VERSION "4.6.2")
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#-----------------------------------------------------------------------------
# Superbuild Option - Enabled by default
#-----------------------------------------------------------------------------

OPTION(Slicer_SUPERBUILD "Build Slicer and the projects it depends on via SuperBuild.cmake." ON)
MARK_AS_ADVANCED(Slicer_SUPERBUILD)

#-----------------------------------------------------------------------------
# Build shared lib by default
#------------------------------------------------------------------------------
# option(BUILD_SHARED_LIBS "Build Slicer with shared libraries." ON)
SET(BUILD_SHARED_LIBS ON)

#-----------------------------------------------------------------------------
# Append the library version information to the library target properties.
#------------------------------------------------------------------------------
OPTION(Slicer_WITH_LIBRARY_VERSION "Build with library version information" OFF)
MARK_AS_ADVANCED(Slicer_WITH_LIBRARY_VERSION)
IF(Slicer_WITH_LIBRARY_VERSION)
  SET(Slicer_LIBRARY_PROPERTIES ${Slicer_LIBRARY_PROPERTIES}
    VERSION ${Slicer_VERSION_FULL}
    SOVERSION ${Slicer_VERSION}
  )
ENDIF()

#-----------------------------------------------------------------------------
# Additional Slicer Options
#-----------------------------------------------------------------------------
OPTION(BUILD_TESTING "Test the project" ON)
OPTION(WITH_MEMCHECK "Run tests through valgrind." OFF)
OPTION(WITH_COVERAGE "Enable/Disable coverage" OFF)
OPTION(Slicer_USE_VTK_DEBUG_LEAKS "Enable VTKs Debug Leaks functionality in both VTK and Slicer." ON)
OPTION(Slicer_BUILD_QTLOADABLEMODULES "Build Slicer QT Loadable Modules" ON)
MARK_AS_ADVANCED(Slicer_BUILD_QTLOADABLEMODULES)
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OPTION(Slicer_BUILD_QTSCRIPTEDMODULES "Build Slicer Python QT Modules" ON)
MARK_AS_ADVANCED(Slicer_BUILD_QTSCRIPTEDMODULES)
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OPTION(Slicer_BUILD_CLI       "Build Slicer CLI Plugins" ON)
OPTION(Slicer_USE_PYTHONQT    "Integrate a python-QT interpreter into Slicer." ON)
OPTION(Slicer_USE_PYTHONQT_WITH_TCL "Enable PythonQt Tcl adapter layer" ON)
#MARK_AS_ADVANCED(Slicer_USE_PYTHONQT_WITH_TCL)
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OPTION(Slicer_USE_NUMPY       "Build Slicer with NumPy" ON)
#OPTION(Slicer_USE_WEAVE       "Build Slicer with Weave" OFF)
#MARK_AS_ADVANCED(Slicer_USE_WEAVE)
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OPTION(Slicer_USE_BatchMake   "Build Slicer with BatchMake support." ON)
OPTION(Slicer_USE_MIDAS       "Build Slicer with MIDAS support." OFF)
OPTION(Slicer_USE_OPENIGTLINK "Build Slicer with OpenIGTLink support." ON)
OPTION(Slicer_USE_OPENCV      "Build Slicer with OpenCV support." OFF)
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OPTION(Slicer_USE_CTKAPPLAUNCHER "Configure ctkAppLauncher." ON)
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MARK_AS_ADVANCED(Slicer_USE_CTKAPPLAUNCHER)
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SET(Slicer_VTK_GIT_REPOSITORY "github.com/Slicer/VTK.git" CACHE STRING "repository from which to get VTK")
MARK_AS_ADVANCED(Slicer_VTK_GIT_REPOSITORY)
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SET(Slicer_VTK_GIT_TAG "origin/slicer-4.0-gamma" CACHE STRING "VTK git tag to use")
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MARK_AS_ADVANCED(Slicer_VTK_GIT_TAG)
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SET(Slicer_ITK_GIT_REPOSITORY "github.com/Slicer/ITK.git" CACHE STRING "repository from which to get ITK")
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MARK_AS_ADVANCED(Slicer_ITK_GIT_REPOSITORY)
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SET(Slicer_ITK_GIT_TAG "origin/slicer-4.0" CACHE STRING "ITK git tag to use")
MARK_AS_ADVANCED(Slicer_ITK_GIT_TAG)
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#-----------------------------------------------------------------------------
# Install no development files by default, but allow the user to get
# them installed by setting Slicer_INSTALL_DEVELOPMENT to true.
#-----------------------------------------------------------------------------
#OPTION(Slicer_INSTALL_DEVELOPMENT "Install Slicer extension development files." OFF)
#MARK_AS_ADVANCED(Slicer_INSTALL_DEVELOPMENT)
SET(Slicer_INSTALL_DEVELOPMENT OFF)
IF(NOT Slicer_INSTALL_DEVELOPMENT)
  SET(Slicer_INSTALL_NO_DEVELOPMENT 1)
ELSE ()
  SET(Slicer_INSTALL_NO_DEVELOPMENT 0)
ENDIF()

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#-----------------------------------------------------------------------------
# Documentation
#-----------------------------------------------------------------------------

OPTION(DOCUMENTATION_TARGET_IN_ALL "Include the custom target for building documentation in 'all'" OFF)
MARK_AS_ADVANCED(DOCUMENTATION_TARGET_IN_ALL)

SET(DOCUMENTATION_ARCHIVES_OUTPUT_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}
 CACHE PATH "Where documentation archives should be stored")
MARK_AS_ADVANCED(DOCUMENTATION_ARCHIVES_OUTPUT_DIRECTORY)

# Attempt to discover Doxygen so that DOXYGEN_EXECUTABLE is set to an appropriate default value
FIND_PACKAGE(Doxygen QUIET)

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#-----------------------------------------------------------------------------
# CTestCustom
#-----------------------------------------------------------------------------
IF(BUILD_TESTING)
  CONFIGURE_FILE(
    CMake/CTestCustom.cmake.in
    ${CMAKE_CURRENT_BINARY_DIR}/CTestCustom.cmake 
    @ONLY)
ENDIF()

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#-----------------------------------------------------------------------------
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# Additional CXX/C Flags
#-----------------------------------------------------------------------------

SET(ADDITIONAL_C_FLAGS "" CACHE STRING "Additional C Flags")
MARK_AS_ADVANCED(ADDITIONAL_C_FLAGS)
SET(ADDITIONAL_CXX_FLAGS "" CACHE STRING "Additional CXX Flags")
MARK_AS_ADVANCED(ADDITIONAL_CXX_FLAGS)

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#-----------------------------------------------------------------------------
# Set coverage Flags
#-----------------------------------------------------------------------------
IF(WITH_COVERAGE)
  IF("${CMAKE_CXX_COMPILER_ID}" STREQUAL "GNU")
    SET(coverage_flags "-g -fprofile-arcs -ftest-coverage -O0 -DNDEBUG")
    SET(COVERAGE_CXX_FLAGS ${coverage_flags})
    SET(COVERAGE_C_FLAGS ${coverage_flags})
  ENDIF()
ENDIF()

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#-----------------------------------------------------------------------------
# Slicer C/CXX Flags
#-----------------------------------------------------------------------------
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SET(Slicer_C_FLAGS "${CMAKE_C_FLAGS_INIT} ${COVERAGE_C_FLAGS} ${ADDITIONAL_C_FLAGS}")
SET(Slicer_CXX_FLAGS "${CMAKE_CXX_FLAGS_INIT} ${COVERAGE_CXX_FLAGS} ${ADDITIONAL_CXX_FLAGS}")
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IF(CMAKE_COMPILER_IS_GNUCXX)
  SET(cflags "-Wall -Wextra -Wpointer-arith -Winvalid-pch -Wcast-align -Wwrite-strings -D_FORTIFY_SOURCE=2")
  SlicerFunctionCheckCompilerFlags("-fdiagnostics-show-option" cflags)
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  SlicerFunctionCheckCompilerFlags("-Wl,--no-undefined" cflags)
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  slicerFunctionGetGccVersion(${CMAKE_CXX_COMPILER} GCC_VERSION)
  # With older version of gcc supporting the flag -fstack-protector-all, an extra dependency to libssp.so
  # is introduced. If gcc is smaller than 4.4.0 and the build type is Release let's not include the flag.
  # Doing so should allow to build package made for distribution using older linux distro.
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  IF(GCC_VERSION VERSION_GREATER "4.4.0" OR (CMAKE_BUILD_TYPE STREQUAL "Debug" AND GCC_VERSION VERSION_LESS "4.4.0"))
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    SlicerFunctionCheckCompilerFlags("-fstack-protector-all" cflags)
  ENDIF()
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  IF(MINGW)
    # suppress warnings about auto imported symbols
    SET(Slicer_CXX_FLAGS "-Wl,--enable-auto-import ${Slicer_CXX_FLAGS}")
  ENDIF()
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  # Note: -Wold-style-cast is too verbose
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  #       Let's postpone the use of -Wsign-promo 
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  SET(Slicer_C_FLAGS "${cflags} ${Slicer_C_FLAGS}")
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  SET(Slicer_CXX_FLAGS "${cflags} -Wno-deprecated -Woverloaded-virtual -Wstrict-null-sentinel ${Slicer_CXX_FLAGS}")
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ELSEIF(MSVC)
  SET(cflags "/Zm1000 /W3")
  SET(Slicer_C_FLAGS "${cflags} ${Slicer_C_FLAGS}")
  SET(Slicer_CXX_FLAGS "${cflags} /EHsc /GR ${Slicer_CXX_FLAGS}")
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ENDIF()

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#-----------------------------------------------------------------------------
# Slicer install directories
#------------------------------------------------------------------------------

SET(Slicer_INSTALL_BIN_DIR "bin")
SET(Slicer_INSTALL_LIB_DIR "lib/Slicer3")
SET(Slicer_INSTALL_INCLUDE_DIR "include/Slicer")
SET(Slicer_INSTALL_SHARE_DIR "share/Slicer")
SET(Slicer_INSTALL_ITKFACTORIES_DIR "${Slicer_INSTALL_LIB_DIR}/ITKFactories")
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# Set to create Bundle in a directory
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SET(Slicer_BUNDLE_LOCATION ".")
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#-----------------------------------------------------------------------------
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# Superbuild script
#-----------------------------------------------------------------------------

IF(Slicer_SUPERBUILD)
  INCLUDE("${CMAKE_CURRENT_SOURCE_DIR}/SuperBuild.cmake")
  RETURN()
ENDIF()

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#-----------------------------------------------------------------------------
# Output directories.
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#------------------------------------------------------------------------------

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SET(CMAKE_RUNTIME_OUTPUT_DIRECTORY ${Slicer_BINARY_DIR}/bin)
SET(CMAKE_LIBRARY_OUTPUT_DIRECTORY ${Slicer_BINARY_DIR}/bin)
SET(CMAKE_ARCHIVE_OUTPUT_DIRECTORY ${Slicer_BINARY_DIR}/lib)
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#-----------------------------------------------------------------------------
# Today date
#-----------------------------------------------------------------------------
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INCLUDE(SlicerFunctionToday)
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TODAY(Slicer_BUILDDATE)

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#-----------------------------------------------------------------------------
# Slicer version number.
#-----------------------------------------------------------------------------

SET(Slicer_VERSION_MAJOR "4")
SET(Slicer_VERSION_MINOR "0")
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IF(NOT Slicer_VERSION_PATCH)
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  SET(Slicer_VERSION_PATCH "gamma-${Slicer_BUILDDATE}")
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ENDIF()
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SET(Slicer_VERSION      "${Slicer_VERSION_MAJOR}.${Slicer_VERSION_MINOR}")
SET(Slicer_VERSION_FULL "${Slicer_VERSION}.${Slicer_VERSION_PATCH}")

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#-----------------------------------------------------------------------------
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# Plugins and Modules install directories
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#------------------------------------------------------------------------------

SET(Slicer_INSTALL_PLUGINS_BIN_DIR "${Slicer_INSTALL_LIB_DIR}/Plugins")
SET(Slicer_INSTALL_PLUGINS_LIB_DIR "${Slicer_INSTALL_LIB_DIR}/Plugins")
SET(Slicer_INSTALL_PLUGINS_INCLUDE_DIR "${Slicer_INSTALL_INCLUDE_DIR}/Plugins")
SET(Slicer_INSTALL_PLUGINS_SHARE_DIR "${Slicer_INSTALL_SHARE_DIR}/Plugins")
SET(Slicer_INSTALL_PLUGINS_CACHE_DIR "${Slicer_INSTALL_LIB_DIR}/PluginsCache")
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SET(Slicer_HOME "${Slicer_BINARY_DIR}")
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#-----------------------------------------------------------------------------
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# Disable the warnings that DevStudio 2005 emits wrt to sprintf, strcpu, etc.
#
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# On Visual Studio 8 MS deprecated C. This removes all 1.276E1265 security
# warnings (copied from ITK's CMake files so that ITK templated code will compile
# correctly).
IF(WIN32)
  IF(NOT BORLAND)
    IF(NOT CYGWIN)
      IF(NOT MINGW)
        ADD_DEFINITIONS(
          -D_CRT_FAR_MAPPINGS_NO_DEPRECATE
          -D_CRT_IS_WCTYPE_NO_DEPRECATE
          -D_CRT_MANAGED_FP_NO_DEPRECATE
          -D_CRT_NONSTDC_NO_DEPRECATE
          -D_CRT_SECURE_NO_DEPRECATE
          -D_CRT_SECURE_NO_DEPRECATE_GLOBALS
          -D_CRT_SETERRORMODE_BEEP_SLEEP_NO_DEPRECATE
          -D_CRT_TIME_FUNCTIONS_NO_DEPRECATE
          -D_CRT_VCCLRIT_NO_DEPRECATE
          -D_SCL_SECURE_NO_DEPRECATE
          )
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      ENDIF()
    ENDIF()
  ENDIF()
ENDIF()
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# Disable warning C4996: [...] This function or variable may be unsafe. [...]
# To disable deprecation, use _CRT_SECURE_NO_WARNINGS. See online help for details
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IF(MSVC90)
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  add_definitions(-D_CRT_SECURE_NO_WARNINGS)
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ENDIF()
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#-----------------------------------------------------------------------------
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# Avoid linker bug in Mac OS 10.5
# See http://wiki.finkproject.org/index.php/Fink:Packaging:Preparing_for_10.5#OpenGL_Bug
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#
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IF(APPLE)
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  SET(CMAKE_SHARED_LINKER_FLAGS "-Wl,-dylib_file,/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGL.dylib:/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGL.dylib")
  SET(CMAKE_EXE_LINKER_FLAGS "-Wl,-dylib_file,/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGL.dylib:/System/Library/Frameworks/OpenGL.framework/Versions/A/Libraries/libGL.dylib")
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ENDIF()
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#-----------------------------------------------------------------------------
# Slicer include and libraries subdirectory
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#

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SET(Slicer_Libs_LIBRARIES CACHE INTERNAL "Slicer Libs libraries" FORCE)
SET(Slicer_Base_LIBRARIES CACHE INTERNAL "Slicer Base libraries" FORCE)
SET(Slicer_Modules_LIBRARIES CACHE INTERNAL "Slicer Modules libraries" FORCE)
SET(Slicer_QTModules_LIBRARIES CACHE INTERNAL "Slicer QTModules libraries" FORCE)

SET(Slicer_Libs_INCLUDE_DIRS CACHE INTERNAL "Slicer Libs includes" FORCE)
SET(Slicer_Base_INCLUDE_DIRS CACHE INTERNAL "Slicer Base includes" FORCE)
SET(Slicer_Modules_INCLUDE_DIRS CACHE INTERNAL "Slicer Modules includes" FORCE)
SET(Slicer_QTModules_INCLUDE_DIRS CACHE INTERNAL "Slicer QTModules includes" FORCE)
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#-----------------------------------------------------------------------------
# Get sytem name and architecture
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#-----------------------------------------------------------------------------

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SET(Slicer_BUILD NA)
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INCLUDE(SlicerBlockDiscoverSystemNameAndBits)
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MESSAGE(STATUS "Slicer_BUILD:${Slicer_BUILD}")
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#-----------------------------------------------------------------------------
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# Testing
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#-----------------------------------------------------------------------------
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IF(BUILD_TESTING)
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  SET(LAUNCH_EXE ${Slicer_BINARY_DIR}/Slicer3 --launch)
  
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  ENABLE_TESTING()
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  INCLUDE(CTest)
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  INCLUDE(MIDAS)
  SET(MIDAS_REST_URL "http://midas.kitware.com/api/rest" CACHE STRING "The MIDAS server where testing data resides")
  SET(MIDAS_KEY_DIR "${Slicer_SOURCE_DIR}/Testing/Data")
  SET(MIDAS_DATA_DIR "${Slicer_BINARY_DIR}/MIDAS_Data")

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  SET(CXX_TEST_PATH ${CMAKE_RUNTIME_OUTPUT_DIRECTORY})
  MARK_AS_ADVANCED(TCL_TCLSH DART_ROOT)
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  CONFIGURE_FILE(
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    ${Slicer_SOURCE_DIR}/CTestConfig.cmake
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    ${Slicer_BINARY_DIR}/${Slicer_INSTALL_LIB_DIR}/CTestConfig.cmake 
    COPYONLY)
    
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ENDIF()
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#-----------------------------------------------------------------------------
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# Python
#-----------------------------------------------------------------------------

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IF(Slicer_USE_PYTHONQT)
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  FIND_PACKAGE(PythonLibs REQUIRED)
  FIND_PACKAGE(PythonInterp REQUIRED)
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ENDIF()
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#-----------------------------------------------------------------------------
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# ITK
#-----------------------------------------------------------------------------
FIND_PACKAGE(ITK REQUIRED)
INCLUDE(${ITK_USE_FILE})
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#-----------------------------------------------------------------------------
# VTK
#-----------------------------------------------------------------------------
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FIND_PACKAGE(VTK REQUIRED)
IF(NOT VTK_USE_QVTK)
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  MESSAGE(FATAL_ERROR "error: VTK was not configured to use QT, you probably need to recompile it with VTK_USE_GUISUPPORT ON, VTK_USE_QVTK ON, DESIRED_QT_VERSION 4 and QT_QMAKE_EXECUTABLE set appropriatly. Note that Qt >= ${Slicer_REQUIRED_QT_VERSION} is *required*")
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ENDIF()
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INCLUDE(${VTK_USE_FILE})
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#-----------------------------------------------------------------------------
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# Qt 
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#-----------------------------------------------------------------------------
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# Module name should be specified as they appear in FindQt4.cmake
# For example, the module name associated with the variable QT_USE_QTXML is XML.
SET(Slicer_REQUIRED_QT_MODULES CORE GUI NETWORK)
IF(BUILD_TESTING)
  LIST(APPEND Slicer_REQUIRED_QT_MODULES TEST)
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ENDIF()
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INCLUDE(SlicerBlockFindQtAndCheckVersion)
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#-----------------------------------------------------------------------------
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# CTK
#-----------------------------------------------------------------------------

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FIND_PACKAGE(CTK REQUIRED)
INCLUDE(${CTK_USE_FILE})
# Update CMake module path
SET(CMAKE_MODULE_PATH
  ${VTK_CMAKE_DIR}
  ${CTK_CMAKE_DIR} 
  ${CMAKE_MODULE_PATH} 
  ${CTK_CMAKE_UTILITIES_DIR})
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#-----------------------------------------------------------------------------
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# PythonQt
#-----------------------------------------------------------------------------
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IF(Slicer_USE_PYTHONQT)
  IF(NOT VTK_WRAP_PYTHON)
    MESSAGE(FATAL_ERROR "Since Slicer_USE_PYTHONQT is ON, VTK_WRAP_PYTHON is expected to be ON. Re-configure VTK with python wrapping.")
  ENDIF()
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  INCLUDE(vtkMacroKitPythonWrap)
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  SET(PYTHONQT_INSTALL_DIR ${CTK_PYTHONQT_INSTALL_DIR})
  LINK_DIRECTORIES(${PYTHONQT_INSTALL_DIR}/lib)
  INCLUDE(ctkMacroWrapPythonQt)
  INCLUDE(ctkMacroCompilePythonScript)
  
  # Enable qMRMLWidgets python wrapping
  SET(qMRMLWidgets_WRAP_PYTHON ON)
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ENDIF()
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#-----------------------------------------------------------------------------
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# Teem
#-----------------------------------------------------------------------------
FIND_PACKAGE(Teem REQUIRED)
INCLUDE(${Teem_USE_FILE})
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#-----------------------------------------------------------------------------
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# SlicerLibCurl
#-----------------------------------------------------------------------------
FIND_PACKAGE(SLICERLIBCURL REQUIRED)
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INCLUDE(${SLICERLIBCURL_USE_FILE})
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#-----------------------------------------------------------------------------
# LibArchive
#-----------------------------------------------------------------------------
FIND_PACKAGE(LibArchive REQUIRED)

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#-----------------------------------------------------------------------------
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# BatchMake
#-----------------------------------------------------------------------------
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IF(Slicer_USE_BatchMake)
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  FIND_PACKAGE(BatchMake REQUIRED)
  INCLUDE(${BatchMake_USE_FILE})
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ENDIF()
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#-----------------------------------------------------------------------------
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# OpenIGTLink
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#-----------------------------------------------------------------------------
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IF(Slicer_USE_OPENIGTLINK)
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  FIND_PACKAGE(OpenIGTLink REQUIRED)
  INCLUDE(${OpenIGTLink_USE_FILE})
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ENDIF()
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#-----------------------------------------------------------------------------
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# OpenCV (Built in Slicer3-lib)
#-----------------------------------------------------------------------------
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IF(Slicer_USE_OPENCV)
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  FIND_PACKAGE(OpenCV REQUIRED)
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  IF(OPENCV_BUILD_SETTINGS_FILE AND NOT SKIP_OPENCV_BUILD_SETTINGS_FILE)
    INCLUDE(${CMAKE_ROOT}/Modules/CMakeImportBuildSettings.cmake)
    CMAKE_IMPORT_BUILD_SETTINGS(${OPENCV_BUILD_SETTINGS_FILE})
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  ENDIF()
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  # Add compiler flags needed to use OPENCV.
  SET(CMAKE_C_FLAGS "${CMAKE_C_FLAGS} ${OPENCV_REQUIRED_C_FLAGS}")
  SET(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${OPENCV_REQUIRED_CXX_FLAGS}")
  SET(CMAKE_EXE_LINKER_FLAGS "${CMAKE_EXE_LINKER_FLAGS} ${OPENCV_REQUIRED_LINK_FLAGS}")
  SET(CMAKE_SHARED_LINKER_FLAGS "${CMAKE_SHARED_LINKER_FLAGS} ${OPENCV_REQUIRED_LINK_FLAGS}")
  SET(CMAKE_MODULE_LINKER_FLAGS "${CMAKE_MODULE_LINKER_FLAGS} ${OPENCV_REQUIRED_LINK_FLAGS}")
  
  # Add include directories needed to use OPENCV.
  INCLUDE_DIRECTORIES(BEFORE ${OPENCV_INCLUDE_DIRS})
  
  # Add link directories needed to use OPENCV.
  LINK_DIRECTORIES(${OPENCV_LIBRARY_DIRS})
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  #INCLUDE(${OPENCV_USE_FILE})
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ENDIF()
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#-----------------------------------------------------------------------------
# Need some Tcl/Tk info
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#-----------------------------------------------------------------------------
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# TODO: these should be passed in by SuperBuild
# For now, use 3.2 as a fallback - we haven't changed versions in years and probably 
# never will, so this is always likely to work.
# This is needed so the launcher can set the paths to the correct subdirectories
# for incrTcl and incrTk
SET(TCL_TK_VERSION_DOT "8.4")
SET(TCL_TK_VERSION "84")
SET(INCR_TCL_VERSION_DOT "3.2")
SET(INCR_TCL_VERSION "32")
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#-----------------------------------------------------------------------------
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# Set Slicer buildin libraries *_DIR variables
#-----------------------------------------------------------------------------
SET(TCLAP_DIR ${Slicer_BINARY_DIR}/Libs/SlicerExecutionModel/tclap)
SET(ModuleDescriptionParser_DIR ${Slicer_BINARY_DIR}/Libs/SlicerExecutionModel/ModuleDescriptionParser)
SET(GenerateCLP_DIR ${Slicer_BINARY_DIR}/Libs/SlicerExecutionModel/GenerateCLP)
SET(GenerateLM_DIR ${Slicer_BINARY_DIR}/Libs/GenerateLM)
SET(vtkITK_DIR ${Slicer_BINARY_DIR}/Libs/vtkITK)
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#-----------------------------------------------------------------------------
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# Qt Loadable and Scripted Modules
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#-----------------------------------------------------------------------------
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IF(Slicer_BUILD_QTLOADABLEMODULES)
  SET(Slicer_INSTALL_QTLOADABLEMODULES_BIN_DIR "${Slicer_INSTALL_LIB_DIR}/QTLoadableModules")
  SET(Slicer_INSTALL_QTLOADABLEMODULES_LIB_DIR "${Slicer_INSTALL_LIB_DIR}/QTLoadableModules")
  SET(Slicer_INSTALL_QTLOADABLEMODULES_INCLUDE_DIR "${Slicer_INSTALL_INCLUDE_DIR}/QTLoadableModules")
  SET(Slicer_INSTALL_QTLOADABLEMODULES_SHARE_DIR "${Slicer_INSTALL_SHARE_DIR}/QTLoadableModules")
ENDIF()
IF(Slicer_BUILD_QTSCRIPTEDMODULES)
  SET(Slicer_INSTALL_QTSCRIPTEDMODULES_BIN_DIR "${Slicer_INSTALL_LIB_DIR}/QTScriptedModules")
  SET(Slicer_INSTALL_QTSCRIPTEDMODULES_LIB_DIR "${Slicer_INSTALL_LIB_DIR}/QTScriptedModules")
  SET(Slicer_INSTALL_QTSCRIPTEDMODULES_INCLUDE_DIR "${Slicer_INSTALL_INCLUDE_DIR}/QTScriptedModules")
  SET(Slicer_INSTALL_QTSCRIPTEDMODULES_SHARE_DIR "${Slicer_INSTALL_SHARE_DIR}/QTScriptedModules")
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ENDIF()
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# --------------------------------------------------------------------------
# Configure and install headers
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# --------------------------------------------------------------------------
SET(files 
  vtkSlicerConfigure.h
  vtkSlicerVersionConfigure.h
  Scripts/runValgrind.sh
  Scripts/runValgrindForOneModule.sh
  Scripts/runValgrindForOneModuleWithSlicer4AndQT.sh
  Scripts/computeCodeCoverageLocally.sh
  Scripts/computeCodeCoverageForOneTest.sh
  Scripts/runExperimentalOffScreen.sh
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  )
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FOREACH(f ${files})
  CONFIGURE_FILE(
    ${CMAKE_CURRENT_SOURCE_DIR}/${f}.in
    ${CMAKE_CURRENT_BINARY_DIR}/${f}
    )
ENDFOREACH()
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IF(NOT Slicer_INSTALL_NO_DEVELOPMENT)
  INSTALL(FILES 
    "${CMAKE_CURRENT_BINARY_DIR}/vtkSlicerConfigure.h"
    "${CMAKE_CURRENT_BINARY_DIR}/vtkSlicerVersionConfigure.h"
    DESTINATION ${Slicer_INSTALL_INCLUDE_DIR} COMPONENT Development
    )
ENDIF()
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#-----------------------------------------------------------------------------
# Set C/CXX Flags
#-----------------------------------------------------------------------------
SET(CMAKE_CXX_FLAGS ${Slicer_CXX_FLAGS} CACHE STRING "CMake C Flags" FORCE)
SET(CMAKE_C_FLAGS ${Slicer_C_FLAGS} CACHE STRING "CMake CXX Flags" FORCE)

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#-----------------------------------------------------------------------------
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# Generate SlicerVersion.txt
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#-----------------------------------------------------------------------------
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# Note that Slicer_BUILD is set above
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SET(Slicer_WC_URL NA)
SET(Slicer_WC_REVISION 0)
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SET(slicer_version_file_source ${CMAKE_CURRENT_SOURCE_DIR}/SlicerVersion.txt.in)
SET(slicer_version_file_binary ${Slicer_HOME}/lib/Slicer3/SlicerVersion.txt)

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# Case where Slicer is checkout using SVN
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IF(EXISTS ${CMAKE_CURRENT_SOURCE_DIR}/.svn)
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  Subversion_WC_INFO(${CMAKE_CURRENT_SOURCE_DIR} Slicer)
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  CONFIGURE_FILE(
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    ${slicer_version_file_source}
    ${slicer_version_file_binary}
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    )
ENDIF()

# Case where Slicer is checkout using Git-SVN
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IF(EXISTS ${CMAKE_CURRENT_SOURCE_DIR}/.git/svn/refs/remotes)
  GIT_WC_INFO(${CMAKE_CURRENT_SOURCE_DIR} Slicer)
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  CONFIGURE_FILE(
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    ${slicer_version_file_source}
    ${slicer_version_file_binary}
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    )
ENDIF()

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INSTALL(FILES
  ${slicer_version_file_binary}
  DESTINATION ${Slicer_INSTALL_LIB_DIR}
  COMPONENT Development
  )

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#-----------------------------------------------------------------------------
# Includes
#-----------------------------------------------------------------------------

INCLUDE_DIRECTORIES(
  "${CMAKE_CURRENT_SOURCE_DIR}"
  "${CMAKE_CURRENT_BINARY_DIR}"
  )
  
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#-----------------------------------------------------------------------------
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# Subdirectories
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#-----------------------------------------------------------------------------

ADD_SUBDIRECTORY(Libs)
ADD_SUBDIRECTORY(Base)
ADD_SUBDIRECTORY(Resources)
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#-----------------------------------------------------------------------------
# Module Logic
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#-----------------------------------------------------------------------------
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INCLUDE(SlicerMacroBuildModuleLogic)
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# KWWidgets and Qt modules share the same logics typically located in the
# kwwdigets modules. When KWWidgets is not build, the logic are missing for Qt
# we need to manually add them:
# Loop through Modules subdirectory and try to include Logic subdirectory if it exists
FILE(GLOB modules_subdirs RELATIVE ${CMAKE_CURRENT_SOURCE_DIR} Modules/*)
FOREACH(subdir ${modules_subdirs})
  IF(IS_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}/${subdir}/Logic)
    ADD_SUBDIRECTORY(${subdir}/Logic)
  ENDIF()
  FILE(GLOB subsubdirs RELATIVE ${CMAKE_CURRENT_SOURCE_DIR} ${subdir}/*)
  FOREACH(subsubdir ${subsubdirs})
    IF(IS_DIRECTORY ${CMAKE_CURRENT_SOURCE_DIR}/${subsubdir}/Logic)
      ADD_SUBDIRECTORY(${subsubdir}/Logic)
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    ENDIF()
  ENDFOREACH()
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ENDFOREACH()
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#-----------------------------------------------------------------------------
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# Qt Loadable Modules
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#-----------------------------------------------------------------------------

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IF(Slicer_BUILD_QTLOADABLEMODULES)
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  ADD_SUBDIRECTORY(QTModules)
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ENDIF()
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IF(Slicer_BUILD_QTSCRIPTEDMODULES)
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  ADD_SUBDIRECTORY(QTScriptedModules)
ENDIF()

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#-----------------------------------------------------------------------------
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# Applications - Added after Modules to capture the TractTracing in the correct ordering.
#-----------------------------------------------------------------------------

ADD_SUBDIRECTORY(Applications)
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#-----------------------------------------------------------------------------
# Testing
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#-----------------------------------------------------------------------------

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IF(BUILD_TESTING)
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  ADD_SUBDIRECTORY(Testing)
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ENDIF()
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# Install testing data
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IF(NOT Slicer_INSTALL_NO_DEVELOPMENT)
  INSTALL(DIRECTORY
    Testing
    DESTINATION ${Slicer_INSTALL_SHARE_DIR} COMPONENT Development
    PATTERN ".svn" EXCLUDE
    PATTERN "CMakeLists.txt" EXCLUDE
    )
ENDIF()
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#-----------------------------------------------------------------------------
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# Launcher for slicer
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#-----------------------------------------------------------------------------
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# let's build the launcher for Kww, KwwAndQt and also QtOnly slicer ...
ADD_SUBDIRECTORY(Utilities/Launcher)
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# on Mac we need to include the path of each Qt Framework in DYLD_LIBRARY_PATH in the launcher.
IF(APPLE)
  SET (QTLIBLIST QTCORE QTGUI QTNETWORK QTXML QTTEST QTSQL QTOPENGL QTWEBKIT PHONON QTXMLPATTERNS)
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  FOREACH(qtlib ${QTLIBLIST})
    IF(QT_${qtlib}_LIBRARY_RELEASE AND APPLE)
        GET_FILENAME_COMPONENT(QT_FRAMEWORK_NAME_tmp ${QT_${qtlib}_LIBRARY_RELEASE} NAME)
        SET(Slicer_QT_FRAMEWORK_DIRS "lib/Qt/${QT_FRAMEWORK_NAME_tmp}/Versions/4:${Slicer_QT_FRAMEWORK_DIRS}")
    ENDIF()
  ENDFOREACH()
ENDIF()
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CONFIGURE_FILE(
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  ${Slicer_SOURCE_DIR}/launch.tcl.in
  "${Slicer_BINARY_DIR}/${Slicer_INSTALL_LIB_DIR}/launch.tcl"
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  )
INSTALL(
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  FILES "${Slicer_BINARY_DIR}/${Slicer_INSTALL_LIB_DIR}/launch.tcl"
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  DESTINATION ${Slicer_INSTALL_LIB_DIR}
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  )
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#-----------------------------------------------------------------------------
# Launcher for QTDesigner
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#-----------------------------------------------------------------------------
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ADD_SUBDIRECTORY(Utilities/Designer)
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#-----------------------------------------------------------------------------
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# Package slicer
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#-----------------------------------------------------------------------------

ADD_SUBDIRECTORY(Utilities/Package)
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#-----------------------------------------------------------------------------
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# Documentation
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#-----------------------------------------------------------------------------

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ADD_SUBDIRECTORY(Utilities/Doxygen)
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IF(NOT Slicer_INSTALL_NO_DEVELOPMENT)
  FILE(GLOB cmake_files "${CMAKE_CURRENT_SOURCE_DIR}/CMake/*.cmake")
  INSTALL(
    FILES ${cmake_files}
    DESTINATION ${Slicer_INSTALL_LIB_DIR}/CMake COMPONENT Development
    )

  INSTALL(FILES
    ${Slicer_BINARY_DIR}/UseSlicer.cmake
    ${Slicer_BINARY_DIR}/SlicerConfig.cmake
    DESTINATION ${Slicer_INSTALL_LIB_DIR}
    COMPONENT Development
    )
ENDIF()
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#-----------------------------------------------------------------------------
# The commands in this directory are intended to be executed as
# the end of the whole configuration process, as a "last step".
# This directory is typically the last add_subdirectory in the main CMakeLists.txt.
ADD_SUBDIRECTORY(Utilities/LastConfigureStep)