itk_4_13: init at 4.13.3

* an old version of itk with extra configuration required for OTB 9.0.0
2025-02-15 16:45:15 +00:00 · 2024-11-17 12:24:41 +07:00 · 2024-11-17 12:24:41 +07:00 · b4fadb9704
commit b4fadb9704
parent 3ea89d7b62
4 changed files with 317 additions and 0 deletions
--- a/pkgs/by-name/ot/otb/itk_4_13/itk-1-fftw-all.diff
+++ b/pkgs/by-name/ot/otb/itk_4_13/itk-1-fftw-all.diff
@ -0,0 +1,31 @@
+diff -burN InsightToolkit-4.10.0.orig/CMake/FindFFTW.cmake InsightToolkit-4.10.0/CMake/FindFFTW.cmake
+--- InsightToolkit-4.10.0.orig/CMake/FindFFTW.cmake	2016-06-16 14:21:15.226203872 +0200
+++ InsightToolkit-4.10.0/CMake/FindFFTW.cmake	2016-06-16 14:23:48.966202670 +0200
+@@ -35,14 +35,12 @@
+   set(FFTW_LIB_SEARCHPATH
+     ${FFTW_INSTALL_BASE_PATH}/lib
+     ${FFTW_INSTALL_BASE_PATH}/lib64
+-    /usr/lib/fftw
+-    /usr/local/lib/fftw
+   )
+ 
+   if(ITK_USE_FFTWD)
+     mark_as_advanced(FFTWD_LIB)
+-    find_library(FFTWD_LIB fftw3 ${FFTW_LIB_SEARCHPATH}) #Double Precision Lib
+-    find_library(FFTWD_THREADS_LIB fftw3_threads ${FFTW_LIB_SEARCHPATH}) #Double Precision Lib only if compiled with threads support
+    find_library(FFTWD_LIB fftw3 ${FFTW_LIB_SEARCHPATH} NO_DEFAULT_PATH) #Double Precision Lib
+    find_library(FFTWD_THREADS_LIB fftw3_threads ${FFTW_LIB_SEARCHPATH} NO_DEFAULT_PATH) #Double Precision Lib only if compiled with threads support
+ 
+     if(FFTWD_LIB)
+       set(FFTWD_FOUND 1)
+@@ -55,8 +53,8 @@
+ 
+   if(ITK_USE_FFTWF)
+     mark_as_advanced(FFTWF_LIB)
+-    find_library(FFTWF_LIB fftw3f ${FFTW_LIB_SEARCHPATH}) #Single Precision Lib
+-    find_library(FFTWF_THREADS_LIB fftw3f_threads ${FFTW_LIB_SEARCHPATH}) #Single Precision Lib only if compiled with threads support
+    find_library(FFTWF_LIB fftw3f ${FFTW_LIB_SEARCHPATH} NO_DEFAULT_PATH) #Single Precision Lib
+    find_library(FFTWF_THREADS_LIB fftw3f_threads ${FFTW_LIB_SEARCHPATH} NO_DEFAULT_PATH) #Single Precision Lib only if compiled with threads support
+ 
+     if(FFTWF_LIB)
+       set(FFTWF_FOUND 1)
--- a/pkgs/by-name/ot/otb/itk_4_13/itk-2-itktestlib-all.diff
+++ b/pkgs/by-name/ot/otb/itk_4_13/itk-2-itktestlib-all.diff
@ -0,0 +1,35 @@
+diff -burN InsightToolkit-4.12.0.orig/Modules/ThirdParty/VNL/src/CMakeLists.txt InsightToolkit-4.12.0/Modules/ThirdParty/VNL/src/CMakeLists.txt
+--- InsightToolkit-4.12.0.orig/Modules/ThirdParty/VNL/src/CMakeLists.txt	2017-08-22 11:53:55.960938649 +0200
+++ InsightToolkit-4.12.0/Modules/ThirdParty/VNL/src/CMakeLists.txt	2017-08-22 11:56:07.289820954 +0200
+@@ -18,10 +18,14 @@
+ # Retrive the variable type to CACHE.
+ set(BUILD_EXAMPLES ${BUILD_EXAMPLES} CACHE BOOL "Build the examples from the ITK Software Guide." FORCE)
+ 
+-foreach(lib itkvcl itkv3p_netlib itktestlib itkvnl itkvnl_algo itknetlib)
+foreach(lib itkvcl itkv3p_netlib itkvnl itkvnl_algo itknetlib)
+   itk_module_target(${lib} NO_INSTALL)
+ endforeach()
+ 
+if(BUILD_TESTING)
+  itk_module_target(itktestlib NO_INSTALL)
+endif()
+
+ foreach(exe
+     netlib_integral_test
+     netlib_lbfgs_example
+diff -burN InsightToolkit-4.12.0.orig/Modules/ThirdParty/VNL/src/vxl/core/CMakeLists.txt InsightToolkit-4.12.0/Modules/ThirdParty/VNL/src/vxl/core/CMakeLists.txt
+--- InsightToolkit-4.12.0.orig/Modules/ThirdParty/VNL/src/vxl/core/CMakeLists.txt	2017-08-22 11:53:55.960938649 +0200
+++ InsightToolkit-4.12.0/Modules/ThirdParty/VNL/src/vxl/core/CMakeLists.txt	2017-08-22 11:56:56.410150930 +0200
+@@ -131,8 +131,10 @@
+   set(CORE_VIDEO_FOUND OFF CACHE INTERNAL "VXL core video libraries built")
+ endif ()
+ 
+-# common test executable
+-add_subdirectory(testlib)
+# common test executable if testing enabled
+if(BUILD_TESTING)
+  add_subdirectory(testlib)
+endif()
+ 
+ # Tests that check and output the vxl configuration
+ # NOTE: some external projects remove the tests directory (aka ITK)
--- a/pkgs/by-name/ot/otb/itk_4_13/itk-3-remove-gcc-version-debian-medteam-all.diff
+++ b/pkgs/by-name/ot/otb/itk_4_13/itk-3-remove-gcc-version-debian-medteam-all.diff
@ -0,0 +1,104 @@
+--- a/Modules/ThirdParty/VNL/src/vxl/vcl/vcl_compiler.h
+++ b/Modules/ThirdParty/VNL/src/vxl/vcl/vcl_compiler.h
+@@ -43,85 +43,7 @@
+ #endif
+ 
+ #if defined(__GNUC__) && !defined(__ICC) // icc 8.0 defines __GNUC__
+-# define VCL_GCC
+-# if (__GNUC__ < 4)
+-#  error "forget it."
+-# elif (__GNUC__==4)
+-#  define VCL_GCC_4
+-#  if (__GNUC_MINOR__ > 0 )
+-#   define VCL_GCC_41
+-#  else
+-#   define VCL_GCC_40
+-#  endif
+-# elif (__GNUC__==5)
+-#  define VCL_GCC_5
+-#  if (__GNUC_MINOR__ > 2 )
+-#   define VCL_GCC_53
+-#  elif (__GNUC_MINOR__ > 1 )
+-#   define VCL_GCC_52
+-#  elif (__GNUC_MINOR__ > 0 )
+-#   define VCL_GCC_51
+-#  else
+-#   define VCL_GCC_50
+-#  endif
+-# elif (__GNUC__==6)
+-#  define VCL_GCC_6
+-#  if (__GNUC_MINOR__ > 2 )
+-#   define VCL_GCC_63
+-#  elif (__GNUC_MINOR__ > 1 )
+-#   define VCL_GCC_62
+-#  elif (__GNUC_MINOR__ > 0 )
+-#   define VCL_GCC_61
+-#  else
+-#   define VCL_GCC_60
+-#  endif
+-# elif (__GNUC__==7)
+-#  define VCL_GCC_7
+-#  if (__GNUC_MINOR__ > 2 )
+-#   define VCL_GCC_73
+-#  elif (__GNUC_MINOR__ > 1 )
+-#   define VCL_GCC_72
+-#  elif (__GNUC_MINOR__ > 0 )
+-#   define VCL_GCC_71
+-#  else
+-#   define VCL_GCC_70
+-#  endif
+-# elif (__GNUC__==8)
+-#  define VCL_GCC_8
+-#  if (__GNUC_MINOR__ > 2 )
+-#   define VCL_GCC_83
+-#  elif (__GNUC_MINOR__ > 1 )
+-#   define VCL_GCC_82
+-#  elif (__GNUC_MINOR__ > 0 )
+-#   define VCL_GCC_81
+-#  else
+-#   define VCL_GCC_80
+-#  endif
+-# elif (__GNUC__==9)
+-#  define VCL_GCC_9
+-#  if (__GNUC_MINOR__ > 2 )
+-#   define VCL_GCC_93
+-#  elif (__GNUC_MINOR__ > 1 )
+-#   define VCL_GCC_92
+-#  elif (__GNUC_MINOR__ > 0 )
+-#   define VCL_GCC_91
+-#  else
+-#   define VCL_GCC_90
+-#  endif
+-# elif (__GNUC__==10)
+-#  define VCL_GCC_10
+-#  if (__GNUC_MINOR__ > 2 )
+-#   define VCL_GCC_103
+-#  elif (__GNUC_MINOR__ > 1 )
+-#   define VCL_GCC_102
+-#  elif (__GNUC_MINOR__ > 0 )
+-#   define VCL_GCC_101
+-#  else
+-#   define VCL_GCC_100
+-#  endif
+-# else
+-#  error "Dunno about this gcc"
+-# endif
+# define VCL_GCC_73
+ #endif
+ 
+ #if defined(_WIN32) || defined(WIN32)
+--- a/Modules/ThirdParty/VNL/src/vxl/vcl/tests/test_preprocessor.cxx
+++ b/Modules/ThirdParty/VNL/src/vxl/vcl/tests/test_preprocessor.cxx
+@@ -64,6 +64,12 @@
+   ++minor_count;
+ #endif
+ 
+#ifdef VCL_GCC_73
+  ++compiler_count;
+  ++major_count;
+  ++minor_count;
+#endif
+
+ #ifdef VCL_VC
+   ++compiler_count;
+ #endif
--- a/pkgs/by-name/ot/otb/itk_4_13/package.nix
+++ b/pkgs/by-name/ot/otb/itk_4_13/package.nix
@ -0,0 +1,147 @@
+{
+  lib,
+  stdenv,
+  fetchFromGitHub,
+  cmake,
+  expat,
+  fftw,
+  fftwFloat,
+  hdf5-cpp,
+  libjpeg,
+  libtiff,
+  libpng,
+  libuuid,
+  xz,
+  vtk,
+  zlib,
+}:
+# this ITK version is old and is only required for OTB package
+# https://gitlab.orfeo-toolbox.org/orfeotoolbox/otb/-/blob/develop/SuperBuild/CMake/External_itk.cmake?ref_type=heads#L149
+stdenv.mkDerivation (finalAttrs: {
+  pname = "itk";
+  version = "4.13.3";
+
+  src = fetchFromGitHub {
+    owner = "InsightSoftwareConsortium";
+    repo = "ITK";
+    rev = "v${finalAttrs.version}";
+    hash = "sha256-lcoJ+H+nVlvleBqbmupu+yg+4iZQ4mTs9pt1mQac+xg=";
+  };
+
+  # https://gitlab.orfeo-toolbox.org/orfeotoolbox/otb/-/tree/develop/SuperBuild/patches/ITK?ref_type=heads
+  patches = [
+    ./itk-1-fftw-all.diff
+    ./itk-2-itktestlib-all.diff
+    ./itk-3-remove-gcc-version-debian-medteam-all.diff
+  ];
+
+  # https://gitlab.orfeo-toolbox.org/orfeotoolbox/otb/-/blob/develop/SuperBuild/CMake/External_itk.cmake?ref_type=heads
+  cmakeFlags = [
+    "-DBUILD_TESTING=OFF"
+    "-DBUILD_EXAMPLES=OFF"
+    "-DBUILD_SHARED_LIBS=ON"
+    "-DITK_BUILD_DEFAULT_MODULES=OFF"
+    "-DITKGroup_Core=OFF"
+    "-DITK_FORBID_DOWNLOADS=ON"
+    "-DITK_USE_SYSTEM_LIBRARIES=ON" # finds common libraries e.g. hdf5, libpng, libtiff, libjpeg, zlib etc
+    "-DModule_ITKCommon=ON"
+    "-DModule_ITKFiniteDifference=ON"
+    "-DModule_ITKGPUCommon=ON"
+    "-DModule_ITKGPUFiniteDifference=ON"
+    "-DModule_ITKImageAdaptors=ON"
+    "-DModule_ITKImageFunction=ON"
+    "-DModule_ITKMesh=ON"
+    "-DModule_ITKQuadEdgeMesh=ON"
+    "-DModule_ITKSpatialObjects=ON"
+    "-DModule_ITKTransform=ON"
+    "-DModule_ITKTransformFactory=ON"
+    "-DModule_ITKIOTransformBase=ON"
+    "-DModule_ITKIOTransformInsightLegacy=ON"
+    "-DModule_ITKIOTransformMatlab=ON"
+    "-DModule_ITKAnisotropicSmoothing=ON"
+    "-DModule_ITKAntiAlias=ON"
+    "-DModule_ITKBiasCorrection=ON"
+    "-DModule_ITKBinaryMathematicalMorphology=ON"
+    "-DModule_ITKColormap=ON"
+    "-DModule_ITKConvolution=ON"
+    "-DModule_ITKCurvatureFlow=ON"
+    "-DModule_ITKDeconvolution=ON"
+    "-DModule_ITKDenoising=ON"
+    "-DModule_ITKDisplacementField=ON"
+    "-DModule_ITKDistanceMap=ON"
+    "-DModule_ITKFastMarching=ON"
+    "-DModule_ITKFFT=ON"
+    "-DModule_ITKGPUAnisotropicSmoothing=ON"
+    "-DModule_ITKGPUImageFilterBase=ON"
+    "-DModule_ITKGPUSmoothing=ON"
+    "-DModule_ITKGPUThresholding=ON"
+    "-DModule_ITKImageCompare=ON"
+    "-DModule_ITKImageCompose=ON"
+    "-DModule_ITKImageFeature=ON"
+    "-DModule_ITKImageFilterBase=ON"
+    "-DModule_ITKImageFusion=ON"
+    "-DModule_ITKImageGradient=ON"
+    "-DModule_ITKImageGrid=ON"
+    "-DModule_ITKImageIntensity=ON"
+    "-DModule_ITKImageLabel=ON"
+    "-DModule_ITKImageSources=ON"
+    "-DModule_ITKImageStatistics=ON"
+    "-DModule_ITKLabelMap=ON"
+    "-DModule_ITKMathematicalMorphology=ON"
+    "-DModule_ITKPath=ON"
+    "-DModule_ITKQuadEdgeMeshFiltering=ON"
+    "-DModule_ITKSmoothing=ON"
+    "-DModule_ITKSpatialFunction=ON"
+    "-DModule_ITKThresholding=ON"
+    "-DModule_ITKEigen=ON"
+    "-DModule_ITKNarrowBand=ON"
+    "-DModule_ITKNeuralNetworks=ON"
+    "-DModule_ITKOptimizers=ON"
+    "-DModule_ITKOptimizersv4=ON"
+    "-DModule_ITKPolynomials=ON"
+    "-DModule_ITKStatistics=ON"
+    "-DModule_ITKRegistrationCommon=ON"
+    "-DModule_ITKGPURegistrationCommon=ON"
+    "-DModule_ITKGPUPDEDeformableRegistration=ON"
+    "-DModule_ITKMetricsv4=ON"
+    "-DModule_ITKPDEDeformableRegistration=ON"
+    "-DModule_ITKRegistrationMethodsv4=ON"
+    "-DModule_ITKClassifiers=ON"
+    "-DModule_ITKConnectedComponents=ON"
+    "-DModule_ITKDeformableMesh=ON"
+    "-DModule_ITKKLMRegionGrowing=ON"
+    "-DModule_ITKLabelVoting=ON"
+    "-DModule_ITKLevelSets=ON"
+    "-DModule_ITKLevelSetsv4=ON"
+    "-DModule_ITKMarkovRandomFieldsClassifiers=ON"
+    "-DModule_ITKRegionGrowing=ON"
+    "-DModule_ITKSignedDistanceFunction=ON"
+    "-DModule_ITKVoronoi=ON"
+    "-DModule_ITKWatersheds=ON"
+  ];
+
+  nativeBuildInputs = [
+    cmake
+    xz
+  ];
+  buildInputs = [ libuuid ];
+  propagatedBuildInputs = [
+    # similar to 5.2.x, we progagate these inputs for OTB
+    expat
+    fftw
+    fftwFloat
+    hdf5-cpp
+    libjpeg
+    libpng
+    libtiff
+    zlib
+  ];
+
+  meta = {
+    description = "Insight Segmentation and Registration Toolkit";
+    homepage = "https://www.itk.org";
+    license = lib.licenses.asl20;
+    maintainers = with lib.maintainers; [ daspk04 ];
+    platforms = with lib.platforms; linux;
+  };
+})