[ITK] Update to 5.1 (#11208)

* [vtk-m] new port vtk-m

* [VTK] Update to 9.0

* include local buildtree changes

* [pcl] disable VTK due to API changes in VTK 9.0

* [vtk-m] add supports field to be only x64

* [vtk-dicom] add python executable.

* fix vtkm dependency

* [vtk-dicom] fix missing std:: namespace

* [vtk-m] add uwp to unsupported triplets

* [vtk] add pegtl include patch, reenable IOMotionFX

* remove hdf5 changes for testing

* use different pgetl patch which redirects to the installed config of pegtl

* [pegtl-2] version file needs renaming too

* [vtk] change dependency to pgetl-2 and fix the patch

* [vtk] put in hdf5 fix again and correct manually installed include files

* remove deprecated function to retrigger CI

* [lz4] correctly lowercase the lz4 config

* [vtk] remove unnecessary code

* [pegtl-2] add homepage

* [pegtl] modernize portfiles

* [vtk-dicom] add homepage

* [vtk-dicom] modernize portfile

* [vtk-m] remove empty build depends

* [vtk] try fixing the permission issue

* [vtk] minimal dependency correction

* [itk] update

* fix portfile errors

* WIP commit

* should make ITK green in VCPKG CI but there a still issues with features

* more dependencies and features....

* remove itk from baseline failure so the check can get green

* more dependency updating.

* minor build fixes

* [openjpeg] Fix dll location

* fix other issues

* add rtkcuda

* [openjpeg] remove default features to make arm and uwp platforms happy

* [itk] more dependency fixes

* [openjpeg] fix no tools case

* [itk] fix wip patch

* [itk] split up patches & cleanup & and move rtk tools if build

* [itk] fix patch and remove old and wip patch

* [nifticlib] Add new port required by minc

* [nifticlib] change repo and add features

* [nifticilib] add zlib dependency & cleanup

* [minc] add new port

* [vcpkg/scripts] add swig to find acquire programm

* [itk/minc] update for external minc

* add supports field for nifticlib

* [itk] make python a default feature for testing

* [itk] cleanup python vars a bit
[vcpkg/scripts] correct swig hash

* [vcpkg/scripts] fix swig

* [itk] fix python include path on unix system

* [itk] remove python as a default. A bit of feature cleanup

* [itk] update remote RTK

* [itk|rtk] remove RTK module before configure to allow patching

* [opencl] update opencl wrapper

* [itk] fix opencl static linkage

* [itk] add cufftw fix

* update baseline

* [itk] fix itk[tbb]

* [itk] update python paths to 3.8

* [itk] add failure messages for unsupported architectures for some features

* [vcpkg_find_acquire_program] update swig to 4.0.2

* Update portfile.cmake

* [itk] move the module removal out of the if for people reusing the old source tree

* [itk] add missing auto_clean to vcpkg_copy_tools

* Update ports/nifticlib/CONTROL

Co-authored-by: Robert Schumacher <roschuma@microsoft.com>

* Update ports/openjpeg/portfile.cmake

Co-authored-by: Robert Schumacher <roschuma@microsoft.com>

* Update scripts/cmake/vcpkg_find_acquire_program.cmake

Co-authored-by: Robert Schumacher <roschuma@microsoft.com>

* [openjpeg] pass OPTIONS to vcpkg_configure_cmake

* [itk] fix typo and leave a todo.

* use sourceforge args for swig

* Update ports/openjpeg/CONTROL

Co-authored-by: Jack·Boos·Yu <47264268+JackBoosY@users.noreply.github.com>

* Update ports/opencl/CONTROL

Co-authored-by: Jack·Boos·Yu <47264268+JackBoosY@users.noreply.github.com>

* [itk] remove debug msgs from patch

* pre-install yasm on OSX

Co-authored-by: Lily <47812810+LilyWangL@users.noreply.github.com>
Co-authored-by: Robert Schumacher <roschuma@microsoft.com>
Co-authored-by: Jack·Boos·Yu <47264268+JackBoosY@users.noreply.github.com>
Co-authored-by: JackBoosY <yuzaiyang@beyondsoft.com>

1 files changed, 176 insertions, 0 deletions

diff --git a/ports/itk/opencl.patch b/ports/itk/opencl.patch
new file mode 100644
index 000000000..f935d09d4
--- /dev/null
+++ b/ports/itk/opencl.patch
@@ -0,0 +1,176 @@
+diff --git a/Modules/Core/GPUCommon/CMakeLists.txt b/Modules/Core/GPUCommon/CMakeLists.txt
+index da2d66b63..6fb476680 100644
+--- a/Modules/Core/GPUCommon/CMakeLists.txt
++++ b/Modules/Core/GPUCommon/CMakeLists.txt
+@@ -24,9 +24,13 @@ if(ITK_USE_GPU AND APPLE AND NOT ITK_COMPILER_HAS_BLOCKS)
+ endif()
+ 
+ if(ITK_USE_GPU)
++  message(STATUS "OPENCL_LIBRARIES:${OPENCL_LIBRARIES}")
++  if(TARGET OpenCL::OpenCL)
++	message(STATUS "OPENCL_LIBRARIES:${OpenCL_LIBRARIES}")
++  endif()
+   set(ITKGPUCommon_LIBRARIES ITKGPUCommon)
+-  set(ITKGPUCommon_SYSTEM_INCLUDE_DIRS ${OPENCL_INCLUDE_DIRS})
+-  set(ITKGPUCommon_SYSTEM_LIBRARY_DIRS ${OPENCL_LIBRARIES})
++  set(ITKGPUCommon_SYSTEM_INCLUDE_DIRS ${OpenCL_INCLUDE_DIRS})
++  set(ITKGPUCommon_SYSTEM_LIBRARY_DIRS ${OpenCL_LIBRARIES})
+ endif()
+ 
+ if(NOT ITK_SOURCE_DIR)
+diff --git a/Modules/Core/GPUCommon/src/CMakeLists.txt b/Modules/Core/GPUCommon/src/CMakeLists.txt
+index 0b39f2a9a..160f7a752 100644
+--- a/Modules/Core/GPUCommon/src/CMakeLists.txt
++++ b/Modules/Core/GPUCommon/src/CMakeLists.txt
+@@ -14,5 +14,5 @@ if (ITK_USE_GPU)
+   write_gpu_kernels("${ITKGPUCommon_Kernels}" ITKGPUCommon_SRCS)
+ 
+   itk_module_add_library(ITKGPUCommon ${ITKGPUCommon_SRCS})
+-  target_link_libraries(ITKGPUCommon LINK_PUBLIC ${OPENCL_LIBRARIES})
++  target_link_libraries(ITKGPUCommon LINK_PUBLIC ${OpenCL_LIBRARIES})
+ endif()
+diff --git a/Modules/Core/GPUFiniteDifference/CMakeLists.txt b/Modules/Core/GPUFiniteDifference/CMakeLists.txt
+index c1bfde450..a642d9230 100644
+--- a/Modules/Core/GPUFiniteDifference/CMakeLists.txt
++++ b/Modules/Core/GPUFiniteDifference/CMakeLists.txt
+@@ -9,8 +9,8 @@ if(NOT ITK_SOURCE_DIR)
+ endif()
+ 
+ if (ITK_USE_GPU)
+-  set(ITKGPUFiniteDifference_SYSTEM_INCLUDE_DIRS ${OPENCL_INCLUDE_DIRS})
+-  set(ITKGPUFiniteDifference_SYSTEM_LIBRARY_DIRS ${OPENCL_LIBRARIES})
++  set(ITKGPUFiniteDifference_SYSTEM_INCLUDE_DIRS ${OpenCL_INCLUDE_DIRS})
++  set(ITKGPUFiniteDifference_SYSTEM_LIBRARY_DIRS ${OpenCL_LIBRARIES})
+   set(ITKGPUFiniteDifference_LIBRARIES ITKGPUFiniteDifference)
+ endif()
+ 
+diff --git a/Modules/Core/GPUFiniteDifference/src/CMakeLists.txt b/Modules/Core/GPUFiniteDifference/src/CMakeLists.txt
+index 8425cc025..8335c69a0 100644
+--- a/Modules/Core/GPUFiniteDifference/src/CMakeLists.txt
++++ b/Modules/Core/GPUFiniteDifference/src/CMakeLists.txt
+@@ -9,5 +9,5 @@ if (ITK_USE_GPU)
+   write_gpu_kernels("${ITKGPUFiniteDifference_Kernels}" ITKGPUFiniteDifference_SRCS)
+ 
+   itk_module_add_library(ITKGPUFiniteDifference ${ITKGPUFiniteDifference_SRCS})
+-  target_link_libraries(ITKGPUFiniteDifference LINK_PUBLIC ${OPENCL_LIBRARIES})
++  target_link_libraries(ITKGPUFiniteDifference LINK_PUBLIC ${OpenCL_LIBRARIES})
+ endif()
+diff --git a/Modules/Filtering/GPUAnisotropicSmoothing/CMakeLists.txt b/Modules/Filtering/GPUAnisotropicSmoothing/CMakeLists.txt
+index f36fd887d..310d983fa 100644
+--- a/Modules/Filtering/GPUAnisotropicSmoothing/CMakeLists.txt
++++ b/Modules/Filtering/GPUAnisotropicSmoothing/CMakeLists.txt
+@@ -10,8 +10,8 @@ endif()
+ 
+ if (ITK_USE_GPU)
+   set(ITKGPUAnisotropicSmoothing_LIBRARIES ITKGPUAnisotropicSmoothing)
+-  set(ITKGPUAnisotropicSmoothing_SYSTEM_INCLUDE_DIRS ${OPENCL_INCLUDE_DIRS})
+-  set(ITKGPUAnisotropicSmoothing_SYSTEM_LIBRARY_DIRS ${OPENCL_LIBRARIES})
++  set(ITKGPUAnisotropicSmoothing_SYSTEM_INCLUDE_DIRS ${OpenCL_INCLUDE_DIRS})
++  set(ITKGPUAnisotropicSmoothing_SYSTEM_LIBRARY_DIRS ${OpenCL_LIBRARIES})
+ endif()
+ 
+ if(NOT ITK_SOURCE_DIR)
+diff --git a/Modules/Filtering/GPUImageFilterBase/CMakeLists.txt b/Modules/Filtering/GPUImageFilterBase/CMakeLists.txt
+index 078905521..67fd7b832 100644
+--- a/Modules/Filtering/GPUImageFilterBase/CMakeLists.txt
++++ b/Modules/Filtering/GPUImageFilterBase/CMakeLists.txt
+@@ -10,8 +10,8 @@ endif()
+ 
+ if (ITK_USE_GPU)
+   set(ITKGPUImageFilterBase_LIBRARIES ITKGPUImageFilterBase)
+-  set(ITKGPUImageFilterBase_SYSTEM_INCLUDE_DIRS ${OPENCL_INCLUDE_DIRS})
+-  set(ITKGPUImageFilterBase_SYSTEM_LIBRARY_DIRS ${OPENCL_LIBRARIES})
++  set(ITKGPUImageFilterBase_SYSTEM_INCLUDE_DIRS ${OpenCL_INCLUDE_DIRS})
++  set(ITKGPUImageFilterBase_SYSTEM_LIBRARY_DIRS ${OpenCL_LIBRARIES})
+ endif()
+ 
+ if(NOT ITK_SOURCE_DIR)
+diff --git a/Modules/Filtering/GPUImageFilterBase/src/CMakeLists.txt b/Modules/Filtering/GPUImageFilterBase/src/CMakeLists.txt
+index 251493f5e..6d33fa964 100644
+--- a/Modules/Filtering/GPUImageFilterBase/src/CMakeLists.txt
++++ b/Modules/Filtering/GPUImageFilterBase/src/CMakeLists.txt
+@@ -10,5 +10,5 @@ if (ITK_USE_GPU)
+   write_gpu_kernels("${ITKGPUImageFilterBase_Kernels}" ITKGPUImageFilterBase_SRCS)
+ 
+   itk_module_add_library(ITKGPUImageFilterBase ${ITKGPUImageFilterBase_SRCS})
+-  target_link_libraries(ITKGPUImageFilterBase LINK_PUBLIC ${OPENCL_LIBRARIES})
++  target_link_libraries(ITKGPUImageFilterBase LINK_PUBLIC ${OpenCL_LIBRARIES})
+ endif()
+diff --git a/Modules/Filtering/GPUSmoothing/CMakeLists.txt b/Modules/Filtering/GPUSmoothing/CMakeLists.txt
+index 9bac40921..2ed493d40 100644
+--- a/Modules/Filtering/GPUSmoothing/CMakeLists.txt
++++ b/Modules/Filtering/GPUSmoothing/CMakeLists.txt
+@@ -10,8 +10,8 @@ endif()
+ 
+ if (ITK_USE_GPU)
+   set(ITKGPUSmoothing_LIBRARIES ITKGPUSmoothing)
+-  set(ITKGPUSmoothing_SYSTEM_INCLUDE_DIRS ${OPENCL_INCLUDE_DIRS})
+-  set(ITKGPUSmoothing_SYSTEM_LIBRARY_DIRS ${OPENCL_LIBRARIES})
++  set(ITKGPUSmoothing_SYSTEM_INCLUDE_DIRS ${OpenCL_INCLUDE_DIRS})
++  set(ITKGPUSmoothing_SYSTEM_LIBRARY_DIRS ${OpenCL_LIBRARIES})
+ endif()
+ 
+ if(NOT ITK_SOURCE_DIR)
+diff --git a/Modules/Filtering/GPUSmoothing/src/CMakeLists.txt b/Modules/Filtering/GPUSmoothing/src/CMakeLists.txt
+index d2120e842..2c6ca4a4a 100644
+--- a/Modules/Filtering/GPUSmoothing/src/CMakeLists.txt
++++ b/Modules/Filtering/GPUSmoothing/src/CMakeLists.txt
+@@ -9,5 +9,5 @@ if (ITK_USE_GPU)
+   write_gpu_kernels("${ITKGPUSmoothing_Kernels}" ITKGPUSmoothing_SRCS)
+ 
+   itk_module_add_library(ITKGPUSmoothing ${ITKGPUSmoothing_SRCS})
+-  target_link_libraries(ITKGPUSmoothing LINK_PUBLIC ${OPENCL_LIBRARIES})
++  target_link_libraries(ITKGPUSmoothing LINK_PUBLIC ${OpenCL_LIBRARIES})
+ endif()
+diff --git a/Modules/Filtering/GPUThresholding/CMakeLists.txt b/Modules/Filtering/GPUThresholding/CMakeLists.txt
+index 4390785f5..61786b7a8 100644
+--- a/Modules/Filtering/GPUThresholding/CMakeLists.txt
++++ b/Modules/Filtering/GPUThresholding/CMakeLists.txt
+@@ -2,8 +2,8 @@ project(ITKGPUThresholding)
+ 
+ if (ITK_USE_GPU)
+   set(ITKGPUThresholding_LIBRARIES ITKGPUThresholding)
+-  set(ITKGPUThresholding_SYSTEM_INCLUDE_DIRS ${OPENCL_INCLUDE_DIRS})
+-  set(ITKGPUThresholding_SYSTEM_LIBRARY_DIRS ${OPENCL_LIBRARIES})
++  set(ITKGPUThresholding_SYSTEM_INCLUDE_DIRS ${OpenCL_INCLUDE_DIRS})
++  set(ITKGPUThresholding_SYSTEM_LIBRARY_DIRS ${OpenCL_LIBRARIES})
+ endif()
+ 
+ itk_module_impl()
+diff --git a/Modules/Filtering/GPUThresholding/src/CMakeLists.txt b/Modules/Filtering/GPUThresholding/src/CMakeLists.txt
+index 326c86859..c07c80414 100644
+--- a/Modules/Filtering/GPUThresholding/src/CMakeLists.txt
++++ b/Modules/Filtering/GPUThresholding/src/CMakeLists.txt
+@@ -9,5 +9,5 @@ if (ITK_USE_GPU)
+   write_gpu_kernels("${ITKGPUThresholding_Kernels}" ITKGPUThresholding_SRCS)
+ 
+   itk_module_add_library(ITKGPUThresholding ${ITKGPUThresholding_SRCS})
+-  target_link_libraries(ITKGPUThresholding LINK_PUBLIC ${OPENCL_LIBRARIES})
++  target_link_libraries(ITKGPUThresholding LINK_PUBLIC ${OpenCL_LIBRARIES})
+ endif()
+diff --git a/Modules/Registration/GPUPDEDeformable/CMakeLists.txt b/Modules/Registration/GPUPDEDeformable/CMakeLists.txt
+index c8d70a423..097c974c5 100644
+--- a/Modules/Registration/GPUPDEDeformable/CMakeLists.txt
++++ b/Modules/Registration/GPUPDEDeformable/CMakeLists.txt
+@@ -2,8 +2,8 @@ project(ITKGPUPDEDeformableRegistration)
+ 
+ if (ITK_USE_GPU)
+   set(ITKGPUPDEDeformableRegistration_LIBRARIES ITKGPUPDEDeformableRegistration)
+-  set(ITKGPUPDEDeformableRegistration_SYSTEM_INCLUDE_DIRS ${OPENCL_INCLUDE_DIRS})
+-  set(ITKGPUPDEDeformableRegistration_SYSTEM_LIBRARY_DIRS ${OPENCL_LIBRARIES})
++  set(ITKGPUPDEDeformableRegistration_SYSTEM_INCLUDE_DIRS ${OpenCL_INCLUDE_DIRS})
++  set(ITKGPUPDEDeformableRegistration_SYSTEM_LIBRARY_DIRS ${OpenCL_LIBRARIES})
+ endif()
+ 
+ itk_module_impl()
+diff --git a/Modules/Registration/GPUPDEDeformable/src/CMakeLists.txt b/Modules/Registration/GPUPDEDeformable/src/CMakeLists.txt
+index 28b1d194c..1a049bdde 100644
+--- a/Modules/Registration/GPUPDEDeformable/src/CMakeLists.txt
++++ b/Modules/Registration/GPUPDEDeformable/src/CMakeLists.txt
+@@ -10,5 +10,5 @@ if (ITK_USE_GPU)
+   write_gpu_kernels("${ITKGPUPDEDeformableRegistration_Kernels}" ITKGPUPDEDeformableRegistration_SRCS)
+ 
+   itk_module_add_library(ITKGPUPDEDeformableRegistration ${ITKGPUPDEDeformableRegistration_SRCS})
+-  target_link_libraries(ITKGPUPDEDeformableRegistration LINK_PUBLIC ${OPENCL_LIBRARIES})
++  target_link_libraries(ITKGPUPDEDeformableRegistration LINK_PUBLIC ${OpenCL_LIBRARIES})
+ endif()