diff --git a/CMake/PackageDepends/MITK_PythonLibs_Config.cmake b/CMake/PackageDepends/MITK_PythonLibs_Config.cmake
index 7827d1d448..c6e9e19544 100644
--- a/CMake/PackageDepends/MITK_PythonLibs_Config.cmake
+++ b/CMake/PackageDepends/MITK_PythonLibs_Config.cmake
@@ -1,4 +1,3 @@
 list(APPEND ALL_LIBRARIES "${Python3_LIBRARIES}")
 list(APPEND ALL_INCLUDE_DIRECTORIES "${Python3_INCLUDE_DIRS}")
-message(STATUS "BLA")
 list(APPEND ALL_INCLUDE_DIRECTORIES "${NUMPY_INCLUDE_DIR}")
diff --git a/CMake/mitkFunctionGetLibrarySearchPaths.cmake b/CMake/mitkFunctionGetLibrarySearchPaths.cmake
index 5c9f8a66b8..a019dfe347 100644
--- a/CMake/mitkFunctionGetLibrarySearchPaths.cmake
+++ b/CMake/mitkFunctionGetLibrarySearchPaths.cmake
@@ -1,213 +1,213 @@
 #! Helper function that gets all library search paths.
 #!
 #! Usage:
 #!
 #!   mitkFunctionGetLibrarySearchPaths(search_path intermediate_dir [DEBUG|MINSIZEREL|RELWITHDEBINFO])
 #!
 #!
 #! The function creates the variable ${search_path}. The variable intermediate_dir contains
 #! paths that should be added to the search_path but should not be checked for existance,
 #! because the are not yet created. The option DEBUG, MINSIZEREL or RELWITHDEBINFO can be used to indicate that
 #! not the paths for release configuration are requested but the debug, min size release or "release with debug info"
 #! paths.
 #!
 
 function(mitkFunctionGetLibrarySearchPaths search_path intermediate_dir)
 
   cmake_parse_arguments(PARSE_ARGV 2 GLS "RELEASE;DEBUG;MINSIZEREL;RELWITHDEBINFO" "" "")
 
   set(_dir_candidates
       "${MITK_CMAKE_RUNTIME_OUTPUT_DIRECTORY}"
       "${MITK_CMAKE_RUNTIME_OUTPUT_DIRECTORY}/plugins"
       "${MITK_CMAKE_LIBRARY_OUTPUT_DIRECTORY}"
       "${MITK_CMAKE_LIBRARY_OUTPUT_DIRECTORY}/plugins"
      )
   if(MITK_EXTERNAL_PROJECT_PREFIX)
     list(APPEND _dir_candidates
          "${MITK_EXTERNAL_PROJECT_PREFIX}/bin"
          "${MITK_EXTERNAL_PROJECT_PREFIX}/lib"
         )
   endif()
 
   # Determine the Qt5 library installation prefix
   set(_qmake_location )
   if(MITK_USE_Qt5 AND TARGET ${Qt5Core_QMAKE_EXECUTABLE})
     get_property(_qmake_location TARGET ${Qt5Core_QMAKE_EXECUTABLE}
                  PROPERTY IMPORT_LOCATION)
   endif()
   if(_qmake_location)
     if(NOT _qt_install_libs)
       if(WIN32)
         execute_process(COMMAND ${_qmake_location} -query QT_INSTALL_BINS
                         OUTPUT_VARIABLE _qt_install_libs
                         OUTPUT_STRIP_TRAILING_WHITESPACE)
       else()
         execute_process(COMMAND ${_qmake_location} -query QT_INSTALL_LIBS
                         OUTPUT_VARIABLE _qt_install_libs
                         OUTPUT_STRIP_TRAILING_WHITESPACE)
       endif()
       file(TO_CMAKE_PATH "${_qt_install_libs}" _qt_install_libs)
       set(_qt_install_libs ${_qt_install_libs} CACHE INTERNAL "Qt library installation prefix" FORCE)
     endif()
     if(_qt_install_libs)
       list(APPEND _dir_candidates ${_qt_install_libs})
     endif()
   elseif(MITK_USE_Qt5)
     message(WARNING "The qmake executable could not be found.")
   endif()
 
   get_property(_additional_paths GLOBAL PROPERTY MITK_ADDITIONAL_LIBRARY_SEARCH_PATHS)
 
   if(TARGET OpenSSL::SSL)
     if(GLS_DEBUG)
       get_target_property(_openssl_location OpenSSL::SSL IMPORTED_LOCATION_DEBUG)
     else()
       get_target_property(_openssl_location OpenSSL::SSL IMPORTED_LOCATION_RELEASE)
     endif()
     if(_openssl_location)
       get_filename_component(_openssl_location ${_openssl_location} DIRECTORY)
       set(_openssl_location "${_openssl_location}/../../bin")
       if(EXISTS ${_openssl_location})
         get_filename_component(_openssl_location ${_openssl_location} ABSOLUTE)
         list(APPEND _dir_candidates ${_openssl_location})
       endif()
     endif()
   endif()
 
   if(MITK_USE_HDF5)
     FIND_PACKAGE(HDF5 COMPONENTS C HL NO_MODULE REQUIRED shared)
     get_target_property(_location hdf5-shared LOCATION)
     get_filename_component(_location ${_location} PATH)
     list(APPEND _additional_paths ${_location})
 
     # This is a work-around. The hdf5-config.cmake file is not robust enough
     # to be included several times via find_pakcage calls.
     set(HDF5_LIBRARIES ${HDF5_LIBRARIES} PARENT_SCOPE)
   endif()
   if(MITK_USE_Vigra)
     # we cannot use _find_package(Vigra) here because the vigra-config.cmake file
     # always includes the target-exports files without using an include guard. This
     # would lead to errors when another find_package(Vigra) call is processed. The
     # (bad) assumption here is that for the time being, only the Classification module
     # is using Vigra.
     if(UNIX)
       list(APPEND _additional_paths ${Vigra_DIR}/lib)
     else()
       list(APPEND _additional_paths ${Vigra_DIR}/bin)
     endif()
   endif()
 
   if(_additional_paths)
     list(APPEND _dir_candidates ${_additional_paths})
   endif()
 
   # The code below is sub-optimal. It makes assumptions about
   # the structure of the build directories, pointed to by
   # the *_DIR variables. Instead, we should rely on package
   # specific "LIBRARY_DIRS" variables, if they exist.
   if(WIN32)
     list(APPEND _dir_candidates "${ITK_DIR}/bin")
   endif()
 
   if(MITK_USE_MatchPoint)
     if(WIN32)
       list(APPEND _dir_candidates "${MatchPoint_DIR}/bin")
     else()
       list(APPEND _dir_candidates "${MatchPoint_DIR}/lib")
     endif()
   endif()
 
   # If OpenCV is built within the MITK superbuild set the binary directory
   # according to the lib path provided by OpenCV.
   # In the case where an external OpenCV is provided use the binary directory
   #  of this OpenCV directory
   if(MITK_USE_OpenCV)
     if(WIN32)
       if (EXISTS ${OpenCV_LIB_PATH})
         list(APPEND _dir_candidates "${OpenCV_LIB_PATH}/../bin") # OpenCV is built in superbuild
       else()
         list(APPEND _dir_candidates "${OpenCV_DIR}/bin") # External OpenCV build is used
       endif()
     endif()
   endif()
 
   if(MITK_USE_Python)
     list(APPEND _dir_candidates "${CTK_DIR}/CMakeExternals/Install/bin")
-    get_filename_component(_python_dir ${Python3_EXECUTABLE} DIRECTORY)
+    get_filename_component(_python_dir "${Python3_EXECUTABLE}" DIRECTORY)
     list(APPEND _dir_candidates "${_python_dir}")
   endif()
 
   if(MITK_USE_TOF_PMDO3 OR MITK_USE_TOF_PMDCAMCUBE OR MITK_USE_TOF_PMDCAMBOARD)
     list(APPEND _dir_candidates "${MITK_PMD_SDK_DIR}/plugins" "${MITK_PMD_SDK_DIR}/bin")
   endif()
 
   if(MITK_USE_CTK)
     list(APPEND _dir_candidates "${CTK_LIBRARY_DIRS}")
     foreach(_ctk_library ${CTK_LIBRARIES})
       if(${_ctk_library}_LIBRARY_DIRS)
         list(APPEND _dir_candidates "${${_ctk_library}_LIBRARY_DIRS}")
       endif()
     endforeach()
   endif()
 
   if(MITK_USE_BLUEBERRY)
     if(DEFINED CTK_PLUGIN_RUNTIME_OUTPUT_DIRECTORY)
       if(IS_ABSOLUTE "${CTK_PLUGIN_RUNTIME_OUTPUT_DIRECTORY}")
         list(APPEND _dir_candidates "${CTK_PLUGIN_RUNTIME_OUTPUT_DIRECTORY}")
       else()
         list(APPEND _dir_candidates "${CMAKE_RUNTIME_OUTPUT_DIRECTORY}/${CTK_PLUGIN_RUNTIME_OUTPUT_DIRECTORY}")
       endif()
     endif()
   endif()
 
   if(MITK_LIBRARY_DIRS)
     list(APPEND _dir_candidates ${MITK_LIBRARY_DIRS})
   endif()
 
   ###################################################################
   #get the search paths added by the mitkFunctionAddLibrarySearchPath
   file(GLOB _additional_path_info_files "${MITK_SUPERBUILD_BINARY_DIR}/MITK-AdditionalLibPaths/*.cmake")
 
   foreach(_additional_path_info_file ${_additional_path_info_files})
     get_filename_component(_additional_info_name ${_additional_path_info_file} NAME_WE)
     include(${_additional_path_info_file})
     if(GLS_DEBUG)
       list(APPEND _dir_candidates ${${_additional_info_name}_ADDITIONAL_DEBUG_LIBRARY_SEARCH_PATHS})
     elseif(GLS_MINSIZEREL)
       list(APPEND _dir_candidates ${${_additional_info_name}_ADDITIONAL_MINSIZEREL_LIBRARY_SEARCH_PATHS})
     elseif(GLS_RELWITHDEBINFO)
       list(APPEND _dir_candidates ${${_additional_info_name}_ADDITIONAL_RELWITHDEBINFO_LIBRARY_SEARCH_PATHS})
     else() #Release
       list(APPEND _dir_candidates ${${_additional_info_name}_ADDITIONAL_RELEASE_LIBRARY_SEARCH_PATHS})
     endif()
   endforeach(_additional_path_info_file ${_additional_path_info_files})
 
 
   ###############################################
   #sanitize all candidates and compile final list
   list(REMOVE_DUPLICATES _dir_candidates)
 
   set(_search_dirs )
   foreach(_dir ${_dir_candidates})
     if(EXISTS "${_dir}/${intermediate_dir}")
       list(APPEND _search_dirs "${_dir}/${intermediate_dir}")
     else()
       list(APPEND _search_dirs "${_dir}")
     endif()
   endforeach()
 
   # Special handling for "internal" search dirs. The intermediate directory
   # might not have been created yet, so we can't check for its existence.
   # Hence we just add it for Windows without checking.
   set(_internal_search_dirs "${CMAKE_RUNTIME_OUTPUT_DIRECTORY}" "${CMAKE_RUNTIME_OUTPUT_DIRECTORY}/plugins")
   if(WIN32)
     foreach(_dir ${_internal_search_dirs})
       set(_search_dirs "${_dir}/${intermediate_dir}" ${_search_dirs})
     endforeach()
   else()
     set(_search_dirs ${_internal_search_dirs} ${_search_dirs})
   endif()
   list(REMOVE_DUPLICATES _search_dirs)
 
   set(${search_path} ${_search_dirs} PARENT_SCOPE)
 endfunction()
diff --git a/CMakeExternals/CTK.cmake b/CMakeExternals/CTK.cmake
index 891b291fb4..8bb9152ab8 100644
--- a/CMakeExternals/CTK.cmake
+++ b/CMakeExternals/CTK.cmake
@@ -1,107 +1,107 @@
 #-----------------------------------------------------------------------------
 # CTK
 #-----------------------------------------------------------------------------
 
 if(MITK_USE_CTK)
 
   # Sanity checks
   if(DEFINED CTK_DIR AND NOT EXISTS ${CTK_DIR})
     message(FATAL_ERROR "CTK_DIR variable is defined but corresponds to non-existing directory")
   endif()
 
   set(proj CTK)
   set(proj_DEPENDENCIES DCMTK)
   set(CTK_DEPENDS ${proj})
 
   if(NOT DEFINED CTK_DIR)
 
     set(revision_tag 6c0eddaa)
 
     set(ctk_optional_cache_args )
     if(MITK_USE_Python)
       list(APPEND ctk_optional_cache_args
            -DCTK_LIB_Scripting/Python/Widgets:BOOL=ON
            -DCTK_ENABLE_Python_Wrapping:BOOL=OFF
            -DCTK_APP_ctkSimplePythonShell:BOOL=ON
-           -DPYTHON_EXECUTABLE:FILEPATH=${Python3_EXECUTABLE}
-           -DPYTHON_INCLUDE_DIR:PATH=${Python3_INCLUDE_DIR}
-           -DPYTHON_LIBRARY:FILEPATH=${Python3_LIBRARY}
+           "-DPYTHON_EXECUTABLE:FILEPATH=${Python3_EXECUTABLE}"
+           "-DPYTHON_INCLUDE_DIR:PATH=${Python3_INCLUDE_DIR}"
+           "-DPYTHON_LIBRARY:FILEPATH=${Python3_LIBRARY}"
       )
     else()
       list(APPEND ctk_optional_cache_args
            -DCTK_LIB_Scripting/Python/Widgets:BOOL=OFF
            -DCTK_ENABLE_Python_Wrapping:BOOL=OFF
            -DCTK_APP_ctkSimplePythonShell:BOOL=OFF
       )
     endif()
 
     if(NOT MITK_USE_Python)
       list(APPEND ctk_optional_cache_args
         -DDCMTK_CMAKE_DEBUG_POSTFIX:STRING=d
       )
     endif()
 
     if(CTEST_USE_LAUNCHERS)
       list(APPEND ctk_optional_cache_args
         "-DCMAKE_PROJECT_${proj}_INCLUDE:FILEPATH=${CMAKE_ROOT}/Modules/CTestUseLaunchers.cmake"
       )
     endif()
 
     FOREACH(type RUNTIME ARCHIVE LIBRARY)
       IF(DEFINED CTK_PLUGIN_${type}_OUTPUT_DIRECTORY)
         LIST(APPEND mitk_optional_cache_args -DCTK_PLUGIN_${type}_OUTPUT_DIRECTORY:PATH=${CTK_PLUGIN_${type}_OUTPUT_DIRECTORY})
       ENDIF()
     ENDFOREACH()
 
     mitk_query_custom_ep_vars()
 
     ExternalProject_Add(${proj}
       LIST_SEPARATOR ${sep}
       URL ${MITK_THIRDPARTY_DOWNLOAD_PREFIX_URL}/CTK_${revision_tag}.tar.gz
       URL_MD5 c8025c0009d5dd207cd442eadca409b4
       UPDATE_COMMAND ""
       INSTALL_COMMAND ""
       CMAKE_GENERATOR ${gen}
       CMAKE_GENERATOR_PLATFORM ${gen_platform}
       CMAKE_ARGS
         ${ep_common_args}
         ${ctk_optional_cache_args}
         # The CTK PluginFramework cannot cope with
         # a non-empty CMAKE_DEBUG_POSTFIX for the plugin
         # libraries yet.
         -DCMAKE_DEBUG_POSTFIX:STRING=
         -DCTK_QT_VERSION:STRING=5
         -DQt5_DIR=${Qt5_DIR}
         -DGit_EXECUTABLE:FILEPATH=${GIT_EXECUTABLE}
         -DGIT_EXECUTABLE:FILEPATH=${GIT_EXECUTABLE}
         -DCTK_BUILD_QTDESIGNER_PLUGINS:BOOL=OFF
         -DCTK_LIB_CommandLineModules/Backend/LocalProcess:BOOL=ON
         -DCTK_LIB_CommandLineModules/Frontend/QtGui:BOOL=ON
         -DCTK_LIB_PluginFramework:BOOL=ON
         -DCTK_LIB_DICOM/Widgets:BOOL=ON
         -DCTK_LIB_XNAT/Core:BOOL=ON
         -DCTK_PLUGIN_org.commontk.eventadmin:BOOL=ON
         -DCTK_PLUGIN_org.commontk.configadmin:BOOL=ON
         -DCTK_USE_GIT_PROTOCOL:BOOL=OFF
         -DDCMTK_DIR:PATH=${DCMTK_DIR}
         -DPythonQt_URL:STRING=${MITK_THIRDPARTY_DOWNLOAD_PREFIX_URL}/PythonQt_e39be131.tar.gz # From https://github.com/kislinsk/PythonQt.git
         ${${proj}_CUSTOM_CMAKE_ARGS}
       CMAKE_CACHE_ARGS
         ${ep_common_cache_args}
         ${${proj}_CUSTOM_CMAKE_CACHE_ARGS}
       CMAKE_CACHE_DEFAULT_ARGS
         ${ep_common_cache_default_args}
         ${${proj}_CUSTOM_CMAKE_CACHE_DEFAULT_ARGS}
       DEPENDS ${proj_DEPENDENCIES}
      )
 
     ExternalProject_Get_Property(${proj} binary_dir)
     set(CTK_DIR ${binary_dir})
 
   else()
 
     mitkMacroEmptyExternalProject(${proj} "${proj_DEPENDENCIES}")
 
   endif()
 
 endif()
diff --git a/CMakeExternals/SWIG.cmake b/CMakeExternals/SWIG.cmake
index 1d549a60e8..0c008b722e 100644
--- a/CMakeExternals/SWIG.cmake
+++ b/CMakeExternals/SWIG.cmake
@@ -1,71 +1,71 @@
 #------------------------------------------------------------
 # SWIG (Simple Wrapper Interface Generator)
 #-----------------------------------------------------------
 if(MITK_USE_SWIG)
   if(DEFINED SWIG_DIR AND NOT EXISTS ${SWIG_DIR})
     message(FATAL_ERROR "SWIG_DIR variable is defined but corresponds to non-existing directory")
   endif()
 
   set(SWIG_TARGET_VERSION 3.0.2)
   set(proj SWIG)
   set(proj_DEPENDENCIES PCRE)
   set(SWIG_DEPENDS ${proj})
 
   if(NOT SWIG_DIR)
 
     # We don't "install" SWIG in the common install prefix,
     # since it is only used as a tool during the MITK super-build
     # to generate the Python wrappings for some projects.
 
     # binary SWIG for windows
     if(WIN32)
       set(swig_source_dir ${CMAKE_CURRENT_BINARY_DIR}/swigwin-${SWIG_TARGET_VERSION})
 
       # swig.exe available as pre-built binary on Windows:
       ExternalProject_Add(${proj}
         URL ${MITK_THIRDPARTY_DOWNLOAD_PREFIX_URL}/swigwin-${SWIG_TARGET_VERSION}.zip
         URL_MD5 "3f18de4fc09ab9abb0d3be37c11fbc8f"
         CONFIGURE_COMMAND ""
         BUILD_COMMAND ""
         INSTALL_COMMAND ""
         )
 
       ExternalProject_Get_Property(${proj} source_dir)
       set(SWIG_DIR ${source_dir})
       set(SWIG_EXECUTABLE ${source_dir}/swig.exe)
 
     else()
 
       list(APPEND SWIG_DEPENDENCIES PCRE)
 
       # swig uses bison find it by cmake and pass it down
       find_package(BISON)
       set(BISON_FLAGS "" CACHE STRING "Flags used by bison")
       mark_as_advanced( BISON_FLAGS)
 
       ExternalProject_add(${proj}
         LIST_SEPARATOR ${sep}
         URL ${MITK_THIRDPARTY_DOWNLOAD_PREFIX_URL}/swig-${SWIG_TARGET_VERSION}.tar.gz
         # Custom install dir for SWIG
         INSTALL_DIR ${ep_prefix}/src/${proj}-install
         URL_MD5 "62f9b0d010cef36a13a010dc530d0d41"
         CONFIGURE_COMMAND <SOURCE_DIR>/./configure
                           CC=${CMAKE_C_COMPILER}${CMAKE_C_COMPILER_ARG1}
                           LDFLAGS=${CMAKE_LINKER_FLAGS} ${CMAKE_LINKER_FLAGS_RELEASE}
                           CXX=${CMAKE_CXX_COMPILER}${CMAKE_CXX_COMPILER_ARG1}
-                            --prefix=<INSTALL_DIR>
-                            --with-pcre-prefix=${PCRE_DIR}
+                            "--prefix=<INSTALL_DIR>"
+                            "--with-pcre-prefix=${PCRE_DIR}"
                             --without-octave
-                            --with-python=${Python3_EXECUTABLE}
+                            "--with-python=${Python3_EXECUTABLE}"
         DEPENDS ${proj_DEPENDENCIES}
         )
 
       ExternalProject_Get_Property(${proj} install_dir)
       set(SWIG_DIR ${install_dir}/share/swig/${SWIG_TARGET_VERSION})
       set(SWIG_EXECUTABLE ${install_dir}/bin/swig)
 
     endif()
   else()
     mitkMacroEmptyExternalProject(${proj} "${proj_DEPENDENCIES}")
   endif()
 endif()
diff --git a/SuperBuild.cmake b/SuperBuild.cmake
index 84befdc271..186bcf0fad 100644
--- a/SuperBuild.cmake
+++ b/SuperBuild.cmake
@@ -1,471 +1,471 @@
 include(mitkFunctionInstallExternalCMakeProject)
 
 #-----------------------------------------------------------------------------
 # Convenient macro allowing to download a file
 #-----------------------------------------------------------------------------
 
 if(NOT MITK_THIRDPARTY_DOWNLOAD_PREFIX_URL)
   set(MITK_THIRDPARTY_DOWNLOAD_PREFIX_URL http://mitk.org/download/thirdparty)
 endif()
 
 macro(downloadFile url dest)
   file(DOWNLOAD ${url} ${dest} STATUS status)
   list(GET status 0 error_code)
   list(GET status 1 error_msg)
   if(error_code)
     message(FATAL_ERROR "error: Failed to download ${url} - ${error_msg}")
   endif()
 endmacro()
 
 #-----------------------------------------------------------------------------
 # MITK Prerequisites
 #-----------------------------------------------------------------------------
 
 if(UNIX AND NOT APPLE)
 
   include(mitkFunctionCheckPackageHeader)
 
   # Check for libxt-dev
   mitkFunctionCheckPackageHeader(StringDefs.h libxt-dev /usr/include/X11/)
 
   # Check for libtiff4-dev
   mitkFunctionCheckPackageHeader(tiff.h libtiff4-dev)
 
 endif()
 
 # We need a proper patch program. On Linux and MacOS, we assume
 # that "patch" is available. On Windows, we download patch.exe
 # if not patch program is found.
 find_program(PATCH_COMMAND patch)
 if((NOT PATCH_COMMAND OR NOT EXISTS ${PATCH_COMMAND}) AND WIN32)
   downloadFile(${MITK_THIRDPARTY_DOWNLOAD_PREFIX_URL}/patch.exe
                ${CMAKE_CURRENT_BINARY_DIR}/patch.exe)
   find_program(PATCH_COMMAND patch ${CMAKE_CURRENT_BINARY_DIR})
 endif()
 if(NOT PATCH_COMMAND)
   message(FATAL_ERROR "No patch program found.")
 endif()
 
 #-----------------------------------------------------------------------------
 # ExternalProjects
 #-----------------------------------------------------------------------------
 
 get_property(external_projects GLOBAL PROPERTY MITK_EXTERNAL_PROJECTS)
 
 list(REMOVE_ITEM external_projects Python)
 list(REMOVE_ITEM external_projects OpenMP)
 if(MITK_CTEST_SCRIPT_MODE)
   # Write a file containing the list of enabled external project targets.
   # This file can be read by a ctest script to separately build projects.
   set(SUPERBUILD_TARGETS )
   foreach(proj ${external_projects})
     if(MITK_USE_${proj})
       list(APPEND SUPERBUILD_TARGETS ${proj})
     endif()
   endforeach()
   file(WRITE "${CMAKE_BINARY_DIR}/SuperBuildTargets.cmake" "set(SUPERBUILD_TARGETS ${SUPERBUILD_TARGETS})")
 endif()
 
 # A list of "nice" external projects, playing well together with CMake
 set(nice_external_projects ${external_projects})
 list(REMOVE_ITEM nice_external_projects Boost)
 foreach(proj ${nice_external_projects})
   if(MITK_USE_${proj})
     set(EXTERNAL_${proj}_DIR "${${proj}_DIR}" CACHE PATH "Path to ${proj} build directory")
     mark_as_advanced(EXTERNAL_${proj}_DIR)
     if(EXTERNAL_${proj}_DIR)
       set(${proj}_DIR ${EXTERNAL_${proj}_DIR})
     endif()
   endif()
 endforeach()
 
 set(EXTERNAL_BOOST_ROOT "${BOOST_ROOT}" CACHE PATH "Path to Boost directory")
 mark_as_advanced(EXTERNAL_BOOST_ROOT)
 if(EXTERNAL_BOOST_ROOT)
   set(BOOST_ROOT ${EXTERNAL_BOOST_ROOT})
 endif()
 
 # Setup file for setting custom ctest vars
 configure_file(
   CMake/SuperbuildCTestCustom.cmake.in
   ${MITK_BINARY_DIR}/CTestCustom.cmake
   @ONLY
 )
 
 if(BUILD_TESTING)
   set(EXTERNAL_MITK_DATA_DIR "${MITK_DATA_DIR}" CACHE PATH "Path to the MITK data directory")
   mark_as_advanced(EXTERNAL_MITK_DATA_DIR)
   if(EXTERNAL_MITK_DATA_DIR)
     set(MITK_DATA_DIR ${EXTERNAL_MITK_DATA_DIR})
   endif()
 endif()
 
 #-----------------------------------------------------------------------------
 # External project settings
 #-----------------------------------------------------------------------------
 
 include(ExternalProject)
 include(mitkMacroQueryCustomEPVars)
 
 set(ep_prefix "${CMAKE_BINARY_DIR}/ep")
 set_property(DIRECTORY PROPERTY EP_PREFIX ${ep_prefix})
 
 # Compute -G arg for configuring external projects with the same CMake generator:
 if(CMAKE_EXTRA_GENERATOR)
   set(gen "${CMAKE_EXTRA_GENERATOR} - ${CMAKE_GENERATOR}")
 else()
   set(gen "${CMAKE_GENERATOR}")
 endif()
 
 set(gen_platform ${CMAKE_GENERATOR_PLATFORM})
 
 # Use this value where semi-colons are needed in ep_add args:
 set(sep "^^")
 
 ##
 
 if(MSVC_VERSION)
   set(CMAKE_C_FLAGS "${CMAKE_C_FLAGS} /bigobj /MP")
   set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} /bigobj /MP")
 endif()
 
 if(MITK_USE_Boost_LIBRARIES)
   set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -DBOOST_ALL_DYN_LINK")
 endif()
 
 # This is a workaround for passing linker flags
 # actually down to the linker invocation
 set(_cmake_required_flags_orig ${CMAKE_REQUIRED_FLAGS})
 set(CMAKE_REQUIRED_FLAGS "-Wl,-rpath")
 mitkFunctionCheckCompilerFlags(${CMAKE_REQUIRED_FLAGS} _has_rpath_flag)
 set(CMAKE_REQUIRED_FLAGS ${_cmake_required_flags_orig})
 
 set(_install_rpath_linkflag )
 if(_has_rpath_flag)
   if(APPLE)
     set(_install_rpath_linkflag "-Wl,-rpath,@loader_path/../lib")
   else()
     set(_install_rpath_linkflag "-Wl,-rpath='$ORIGIN/../lib'")
   endif()
 endif()
 
 set(_install_rpath)
 if(APPLE)
   set(_install_rpath "@loader_path/../lib")
 elseif(UNIX)
   # this work for libraries as well as executables
   set(_install_rpath "\$ORIGIN/../lib")
 endif()
 
 set(ep_common_args
   -DCMAKE_CXX_EXTENSIONS:STRING=${CMAKE_CXX_EXTENSIONS}
   -DCMAKE_CXX_STANDARD:STRING=${CMAKE_CXX_STANDARD}
   -DCMAKE_CXX_STANDARD_REQUIRED:BOOL=${CMAKE_CXX_STANDARD_REQUIRED}
   -DCMAKE_MACOSX_RPATH:BOOL=TRUE
   "-DCMAKE_INSTALL_RPATH:STRING=${_install_rpath}"
   -DBUILD_TESTING:BOOL=OFF
   -DCMAKE_INSTALL_PREFIX:PATH=<INSTALL_DIR>
   -DBUILD_SHARED_LIBS:BOOL=ON
   -DCMAKE_BUILD_TYPE:STRING=${CMAKE_BUILD_TYPE}
   -DCMAKE_C_COMPILER:FILEPATH=${CMAKE_C_COMPILER}
   -DCMAKE_CXX_COMPILER:FILEPATH=${CMAKE_CXX_COMPILER}
   -DCMAKE_C_FLAGS:STRING=${CMAKE_C_FLAGS}
   "-DCMAKE_CXX_FLAGS:STRING=${CMAKE_CXX_FLAGS} ${MITK_CXX14_FLAG}"
   #debug flags
   -DCMAKE_CXX_FLAGS_DEBUG:STRING=${CMAKE_CXX_FLAGS_DEBUG}
   -DCMAKE_C_FLAGS_DEBUG:STRING=${CMAKE_C_FLAGS_DEBUG}
   #release flags
   -DCMAKE_CXX_FLAGS_RELEASE:STRING=${CMAKE_CXX_FLAGS_RELEASE}
   -DCMAKE_C_FLAGS_RELEASE:STRING=${CMAKE_C_FLAGS_RELEASE}
   #relwithdebinfo
   -DCMAKE_CXX_FLAGS_RELWITHDEBINFO:STRING=${CMAKE_CXX_FLAGS_RELWITHDEBINFO}
   -DCMAKE_C_FLAGS_RELWITHDEBINFO:STRING=${CMAKE_C_FLAGS_RELWITHDEBINFO}
   #link flags
   -DCMAKE_EXE_LINKER_FLAGS:STRING=${CMAKE_EXE_LINKER_FLAGS}
   -DCMAKE_SHARED_LINKER_FLAGS:STRING=${CMAKE_SHARED_LINKER_FLAGS}
   -DCMAKE_MODULE_LINKER_FLAGS:STRING=${CMAKE_MODULE_LINKER_FLAGS}
 )
 
 set(DCMTK_CMAKE_DEBUG_POSTFIX )
 
 # python libraries wont work with it
 if(NOT MITK_USE_Python)
   list(APPEND ep_common_args -DCMAKE_DEBUG_POSTFIX:STRING=d)
   set(DCMTK_CMAKE_DEBUG_POSTFIX d)
 endif()
 
 set(ep_common_cache_args
 )
 
 set(ep_common_cache_default_args
   "-DCMAKE_PREFIX_PATH:PATH=<INSTALL_DIR>;${CMAKE_PREFIX_PATH}"
   "-DCMAKE_INCLUDE_PATH:PATH=${CMAKE_INCLUDE_PATH}"
   "-DCMAKE_LIBRARY_PATH:PATH=${CMAKE_LIBRARY_PATH}"
 )
 
 # Pass the CMAKE_OSX variables to external projects
 if(APPLE)
   set(MAC_OSX_ARCHITECTURE_ARGS
         -DCMAKE_OSX_ARCHITECTURES:PATH=${CMAKE_OSX_ARCHITECTURES}
         -DCMAKE_OSX_DEPLOYMENT_TARGET:PATH=${CMAKE_OSX_DEPLOYMENT_TARGET}
         -DCMAKE_OSX_SYSROOT:PATH=${CMAKE_OSX_SYSROOT}
   )
   set(ep_common_args
         ${MAC_OSX_ARCHITECTURE_ARGS}
         ${ep_common_args}
   )
 endif()
 
 set(mitk_superbuild_ep_args)
 set(mitk_depends )
 
 # Include external projects
 include(CMakeExternals/MITKData.cmake)
 foreach(p ${external_projects})
   if(EXISTS ${CMAKE_SOURCE_DIR}/CMakeExternals/${p}.cmake)
     include(CMakeExternals/${p}.cmake)
   else()
     foreach(MITK_EXTENSION_DIR ${MITK_EXTENSION_DIRS})
       get_filename_component(MITK_EXTENSION_DIR ${MITK_EXTENSION_DIR} ABSOLUTE)
       set(MITK_CMAKE_EXTERNALS_EXTENSION_DIR ${MITK_EXTENSION_DIR}/CMakeExternals)
       if(EXISTS ${MITK_CMAKE_EXTERNALS_EXTENSION_DIR}/${p}.cmake)
         include(${MITK_CMAKE_EXTERNALS_EXTENSION_DIR}/${p}.cmake)
         break()
       endif()
     endforeach()
   endif()
 
   list(APPEND mitk_superbuild_ep_args
        -DMITK_USE_${p}:BOOL=${MITK_USE_${p}}
       )
   get_property(_package GLOBAL PROPERTY MITK_${p}_PACKAGE)
   if(_package)
     list(APPEND mitk_superbuild_ep_args -D${p}_DIR:PATH=${${p}_DIR})
   endif()
 
   list(APPEND mitk_depends ${${p}_DEPENDS})
 endforeach()
 if (SWIG_EXECUTABLE)
   list(APPEND mitk_superbuild_ep_args -DSWIG_EXECUTABLE=${SWIG_EXECUTABLE})
 endif()
 
 #-----------------------------------------------------------------------------
 # Set superbuild boolean args
 #-----------------------------------------------------------------------------
 
 set(mitk_cmake_boolean_args
   BUILD_SHARED_LIBS
   WITH_COVERAGE
   BUILD_TESTING
 
   MITK_BUILD_ALL_PLUGINS
   MITK_BUILD_ALL_APPS
   MITK_BUILD_EXAMPLES
 
   MITK_USE_Qt5
   MITK_USE_SYSTEM_Boost
   MITK_USE_BLUEBERRY
   MITK_USE_OpenCL
 
   MITK_ENABLE_PIC_READER
   )
 
 #-----------------------------------------------------------------------------
 # Create the final variable containing superbuild boolean args
 #-----------------------------------------------------------------------------
 
 set(mitk_superbuild_boolean_args)
 foreach(mitk_cmake_arg ${mitk_cmake_boolean_args})
   list(APPEND mitk_superbuild_boolean_args -D${mitk_cmake_arg}:BOOL=${${mitk_cmake_arg}})
 endforeach()
 
 if(MITK_BUILD_ALL_PLUGINS)
   list(APPEND mitk_superbuild_boolean_args -DBLUEBERRY_BUILD_ALL_PLUGINS:BOOL=ON)
 endif()
 
 #-----------------------------------------------------------------------------
 # MITK Utilities
 #-----------------------------------------------------------------------------
 
 set(proj MITK-Utilities)
 ExternalProject_Add(${proj}
   DOWNLOAD_COMMAND ""
   CONFIGURE_COMMAND ""
   BUILD_COMMAND ""
   INSTALL_COMMAND ""
   DEPENDS
     ${mitk_depends}
 )
 #-----------------------------------------------------------------------------
 # Additional MITK CXX/C Flags
 #-----------------------------------------------------------------------------
 
 set(MITK_ADDITIONAL_C_FLAGS "" CACHE STRING "Additional C Flags for MITK")
 set(MITK_ADDITIONAL_C_FLAGS_RELEASE "" CACHE STRING "Additional Release C Flags for MITK")
 set(MITK_ADDITIONAL_C_FLAGS_DEBUG "" CACHE STRING "Additional Debug C Flags for MITK")
 mark_as_advanced(MITK_ADDITIONAL_C_FLAGS MITK_ADDITIONAL_C_FLAGS_DEBUG MITK_ADDITIONAL_C_FLAGS_RELEASE)
 
 set(MITK_ADDITIONAL_CXX_FLAGS "" CACHE STRING "Additional CXX Flags for MITK")
 set(MITK_ADDITIONAL_CXX_FLAGS_RELEASE "" CACHE STRING "Additional Release CXX Flags for MITK")
 set(MITK_ADDITIONAL_CXX_FLAGS_DEBUG "" CACHE STRING "Additional Debug CXX Flags for MITK")
 mark_as_advanced(MITK_ADDITIONAL_CXX_FLAGS MITK_ADDITIONAL_CXX_FLAGS_DEBUG MITK_ADDITIONAL_CXX_FLAGS_RELEASE)
 
 set(MITK_ADDITIONAL_EXE_LINKER_FLAGS "" CACHE STRING "Additional exe linker flags for MITK")
 set(MITK_ADDITIONAL_SHARED_LINKER_FLAGS "" CACHE STRING "Additional shared linker flags for MITK")
 set(MITK_ADDITIONAL_MODULE_LINKER_FLAGS "" CACHE STRING "Additional module linker flags for MITK")
 mark_as_advanced(MITK_ADDITIONAL_EXE_LINKER_FLAGS MITK_ADDITIONAL_SHARED_LINKER_FLAGS MITK_ADDITIONAL_MODULE_LINKER_FLAGS)
 
 #-----------------------------------------------------------------------------
 # MITK Configure
 #-----------------------------------------------------------------------------
 
 if(MITK_INITIAL_CACHE_FILE)
   set(mitk_initial_cache_arg -C "${MITK_INITIAL_CACHE_FILE}")
 endif()
 
 set(mitk_optional_cache_args )
 foreach(type RUNTIME ARCHIVE LIBRARY)
   if(DEFINED CTK_PLUGIN_${type}_OUTPUT_DIRECTORY)
     list(APPEND mitk_optional_cache_args -DCTK_PLUGIN_${type}_OUTPUT_DIRECTORY:PATH=${CTK_PLUGIN_${type}_OUTPUT_DIRECTORY})
   endif()
 endforeach()
 
 # Optional python variables
 if(MITK_USE_Python)
   list(APPEND mitk_optional_cache_args
        -DMITK_USE_Python:BOOL=${MITK_USE_Python}
-       -DPython3_EXECUTABLE:FILEPATH=${Python3_EXECUTABLE}
-       -DPython3_INCLUDE_DIR:PATH=${Python3_INCLUDE_DIR}
-       -DPython3_LIBRARY:FILEPATH=${Python3_LIBRARY}
-       -DPython3_STDLIB:FILEPATH=${Python3_STDLIB}
-       -DPython3_SITELIB:FILEPATH=${Python3_SITELIB}
+       "-DPython3_EXECUTABLE:FILEPATH=${Python3_EXECUTABLE}"
+       "-DPython3_INCLUDE_DIR:PATH=${Python3_INCLUDE_DIR}"
+       "-DPython3_LIBRARY:FILEPATH=${Python3_LIBRARY}"
+       "-DPython3_STDLIB:FILEPATH=${Python3_STDLIB}"
+       "-DPython3_SITELIB:FILEPATH=${Python3_SITELIB}"
       )
 endif()
 
 if(Eigen_INCLUDE_DIR)
     list(APPEND mitk_optional_cache_args
       -DEigen_INCLUDE_DIR:PATH=${Eigen_INCLUDE_DIR}
     )
 endif()
 
 # Optional pass through of Doxygen
 if(DOXYGEN_EXECUTABLE)
   list(APPEND mitk_optional_cache_args
        -DDOXYGEN_EXECUTABLE:FILEPATH=${DOXYGEN_EXECUTABLE}
   )
 endif()
 
 set(proj MITK-Configure)
 
 ExternalProject_Add(${proj}
   LIST_SEPARATOR ${sep}
   DOWNLOAD_COMMAND ""
   CMAKE_GENERATOR ${gen}
   CMAKE_GENERATOR_PLATFORM ${gen_platform}
   CMAKE_CACHE_ARGS
     # --------------- Build options ----------------
     -DCMAKE_INSTALL_PREFIX:PATH=${CMAKE_INSTALL_PREFIX}
     -DCMAKE_BUILD_TYPE:STRING=${CMAKE_BUILD_TYPE}
     "-DCMAKE_PREFIX_PATH:PATH=${ep_prefix};${CMAKE_PREFIX_PATH}"
     "-DCMAKE_LIBRARY_PATH:PATH=${CMAKE_LIBRARY_PATH}"
     "-DCMAKE_INCLUDE_PATH:PATH=${CMAKE_INCLUDE_PATH}"
     # --------------- Compile options ----------------
     -DCMAKE_CXX_EXTENSIONS:STRING=${CMAKE_CXX_EXTENSIONS}
     -DCMAKE_CXX_STANDARD:STRING=${CMAKE_CXX_STANDARD}
     -DCMAKE_CXX_STANDARD_REQUIRED:BOOL=${CMAKE_CXX_STANDARD_REQUIRED}
     -DCMAKE_C_COMPILER:FILEPATH=${CMAKE_C_COMPILER}
     -DCMAKE_CXX_COMPILER:FILEPATH=${CMAKE_CXX_COMPILER}
     "-DCMAKE_C_FLAGS:STRING=${CMAKE_C_FLAGS} ${MITK_ADDITIONAL_C_FLAGS}"
     "-DCMAKE_CXX_FLAGS:STRING=${CMAKE_CXX_FLAGS} ${MITK_ADDITIONAL_CXX_FLAGS}"
     # debug flags
     "-DCMAKE_CXX_FLAGS_DEBUG:STRING=${CMAKE_CXX_FLAGS_DEBUG} ${MITK_ADDITIONAL_CXX_FLAGS_DEBUG}"
     "-DCMAKE_C_FLAGS_DEBUG:STRING=${CMAKE_C_FLAGS_DEBUG} ${MITK_ADDITIONAL_C_FLAGS_DEBUG}"
     # release flags
     "-DCMAKE_CXX_FLAGS_RELEASE:STRING=${CMAKE_CXX_FLAGS_RELEASE} ${MITK_ADDITIONAL_CXX_FLAGS_RELEASE}"
     "-DCMAKE_C_FLAGS_RELEASE:STRING=${CMAKE_C_FLAGS_RELEASE} ${MITK_ADDITIONAL_C_FLAGS_RELEASE}"
     # relwithdebinfo
     -DCMAKE_CXX_FLAGS_RELWITHDEBINFO:STRING=${CMAKE_CXX_FLAGS_RELWITHDEBINFO}
     -DCMAKE_C_FLAGS_RELWITHDEBINFO:STRING=${CMAKE_C_FLAGS_RELWITHDEBINFO}
     # link flags
     "-DCMAKE_EXE_LINKER_FLAGS:STRING=${CMAKE_EXE_LINKER_FLAGS} ${MITK_ADDITIONAL_EXE_LINKER_FLAGS}"
     "-DCMAKE_SHARED_LINKER_FLAGS:STRING=${CMAKE_SHARED_LINKER_FLAGS} ${MITK_ADDITIONAL_SHARED_LINKER_FLAGS}"
     "-DCMAKE_MODULE_LINKER_FLAGS:STRING=${CMAKE_MODULE_LINKER_FLAGS} ${MITK_ADDITIONAL_MODULE_LINKER_FLAGS}"
     # Output directories
     -DMITK_CMAKE_LIBRARY_OUTPUT_DIRECTORY:PATH=${MITK_CMAKE_LIBRARY_OUTPUT_DIRECTORY}
     -DMITK_CMAKE_RUNTIME_OUTPUT_DIRECTORY:PATH=${MITK_CMAKE_RUNTIME_OUTPUT_DIRECTORY}
     -DMITK_CMAKE_ARCHIVE_OUTPUT_DIRECTORY:PATH=${MITK_CMAKE_ARCHIVE_OUTPUT_DIRECTORY}
     # ------------- Boolean build options --------------
     ${mitk_superbuild_boolean_args}
     ${mitk_optional_cache_args}
     -DMITK_USE_SUPERBUILD:BOOL=OFF
     -DMITK_BUILD_CONFIGURATION:STRING=${MITK_BUILD_CONFIGURATION}
     -DCTEST_USE_LAUNCHERS:BOOL=${CTEST_USE_LAUNCHERS}
     # ----------------- Miscellaneous ---------------
     -DCMAKE_LIBRARY_PATH:PATH=${CMAKE_LIBRARY_PATH}
     -DCMAKE_INCLUDE_PATH:PATH=${CMAKE_INCLUDE_PATH}
     -DMITK_CTEST_SCRIPT_MODE:STRING=${MITK_CTEST_SCRIPT_MODE}
     -DMITK_SUPERBUILD_BINARY_DIR:PATH=${MITK_BINARY_DIR}
     -DMITK_MODULES_TO_BUILD:INTERNAL=${MITK_MODULES_TO_BUILD}
     -DMITK_WHITELIST:STRING=${MITK_WHITELIST}
     -DMITK_WHITELISTS_EXTERNAL_PATH:STRING=${MITK_WHITELISTS_EXTERNAL_PATH}
     -DMITK_WHITELISTS_INTERNAL_PATH:STRING=${MITK_WHITELISTS_INTERNAL_PATH}
     -DMITK_EXTENSION_DIRS:STRING=${MITK_EXTENSION_DIRS}
     -DMITK_ACCESSBYITK_INTEGRAL_PIXEL_TYPES:STRING=${MITK_ACCESSBYITK_INTEGRAL_PIXEL_TYPES}
     -DMITK_ACCESSBYITK_FLOATING_PIXEL_TYPES:STRING=${MITK_ACCESSBYITK_FLOATING_PIXEL_TYPES}
     -DMITK_ACCESSBYITK_COMPOSITE_PIXEL_TYPES:STRING=${MITK_ACCESSBYITK_COMPOSITE_PIXEL_TYPES}
     -DMITK_ACCESSBYITK_VECTOR_PIXEL_TYPES:STRING=${MITK_ACCESSBYITK_VECTOR_PIXEL_TYPES}
     -DMITK_ACCESSBYITK_DIMENSIONS:STRING=${MITK_ACCESSBYITK_DIMENSIONS}
     # --------------- External project options ---------------
     -DMITK_DATA_DIR:PATH=${MITK_DATA_DIR}
     -DMITK_EXTERNAL_PROJECT_PREFIX:PATH=${ep_prefix}
     -DCppMicroServices_DIR:PATH=${CppMicroServices_DIR}
     -DDCMTK_CMAKE_DEBUG_POSTFIX:STRING=${DCMTK_CMAKE_DEBUG_POSTFIX}
     -DBOOST_ROOT:PATH=${BOOST_ROOT}
     -DBOOST_LIBRARYDIR:PATH=${BOOST_LIBRARYDIR}
     -DMITK_USE_Boost_LIBRARIES:STRING=${MITK_USE_Boost_LIBRARIES}
     -DQt5_DIR:PATH=${Qt5_DIR}
   CMAKE_ARGS
     ${mitk_initial_cache_arg}
     ${MAC_OSX_ARCHITECTURE_ARGS}
     ${mitk_superbuild_ep_args}
   SOURCE_DIR ${CMAKE_CURRENT_SOURCE_DIR}
   BINARY_DIR ${CMAKE_BINARY_DIR}/MITK-build
   BUILD_COMMAND ""
   INSTALL_COMMAND ""
   DEPENDS
     MITK-Utilities
   )
 
 mitkFunctionInstallExternalCMakeProject(${proj})
 
 #-----------------------------------------------------------------------------
 # MITK
 #-----------------------------------------------------------------------------
 
 if(CMAKE_GENERATOR MATCHES ".*Makefiles.*")
   set(mitk_build_cmd "$(MAKE)")
 else()
   set(mitk_build_cmd ${CMAKE_COMMAND} --build ${CMAKE_CURRENT_BINARY_DIR}/MITK-build --config ${CMAKE_CFG_INTDIR})
 endif()
 
 if(NOT DEFINED SUPERBUILD_EXCLUDE_MITKBUILD_TARGET OR NOT SUPERBUILD_EXCLUDE_MITKBUILD_TARGET)
   set(MITKBUILD_TARGET_ALL_OPTION "ALL")
 else()
   set(MITKBUILD_TARGET_ALL_OPTION "")
 endif()
 
 add_custom_target(MITK-build ${MITKBUILD_TARGET_ALL_OPTION}
   COMMAND ${mitk_build_cmd}
   WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/MITK-build
   DEPENDS MITK-Configure
   )
 
 #-----------------------------------------------------------------------------
 # Custom target allowing to drive the build of the MITK project itself
 #-----------------------------------------------------------------------------
 
 add_custom_target(MITK
   COMMAND ${mitk_build_cmd}
   WORKING_DIRECTORY ${CMAKE_CURRENT_BINARY_DIR}/MITK-build
 )