science/InsightToolkit521: New port: Fork of science/InsightToolkit

for graphics/elastix

science/InsightToolkit521/Makefile

@@ -0,0 +1,74 @@
+PORTNAME=	InsightToolkit
+DISTVERSIONPREFIX=	v
+DISTVERSION=	5.2.1
+CATEGORIES=	science biology
+MASTER_SITES=	https://github.com/InsightSoftwareConsortium/ITK/releases/download/v${DISTVERSION}/:data
+PKGNAMESUFFIX=	521
+DISTFILES=	InsightData-${DISTVERSION}.tar.gz:data
+
+MAINTAINER=	yuri@FreeBSD.org
+COMMENT=	Insight Toolkit
+WWW=		https://www.itk.org
+
+LICENSE=	APACHE20
+LICENSE_FILE=	${WRKSRC}/LICENSE
+
+BUILD_DEPENDS=	googletest>=0:devel/googletest
+LIB_DEPENDS=	libgdcmCommon.so:devel/gdcm \
+		libexpat.so:textproc/expat2 \
+		libfftw.so:math/fftw \
+		libhdf5.so:science/hdf5 \
+		libpng.so:graphics/png \
+		libsz.so:science/libaec \
+		libtiff.so:graphics/tiff
+
+USES=		cmake:testing compiler:c++11-lang eigen:3 jpeg pkgconfig python:test
+USE_LDCONFIG=	${PREFIX}/lib/InsightToolkit
+
+USE_GITHUB=	yes
+GH_ACCOUNT=	InsightSoftwareConsortium
+GH_PROJECT=	ITK
+
+CMAKE_ON=	BUILD_SHARED_LIBS \
+		ITK_FORBID_DOWNLOADS \
+		ITK_LEGACY_SILENT \
+		ITK_USE_SYSTEM_EXPAT \
+		ITK_USE_SYSTEM_FFTW \
+		ITK_USE_SYSTEM_GDCM \
+		ITK_USE_SYSTEM_HDF5 \
+		ITK_USE_SYSTEM_JPEG \
+		ITK_USE_SYSTEM_LIBRARIES \
+		ITK_USE_SYSTEM_PNG \
+		ITK_USE_SYSTEM_TIFF \
+		ITK_USE_SYSTEM_ZLIB \
+		Module_ITKIOMIC \
+		Module_ITKIOTransformMINC \
+		Module_ITKReview
+CMAKE_ARGS=	-DPython3_EXECUTABLE=${PYTHON_CMD}
+CMAKE_OFF=	ITK_USE_KWSTYLE BUILD_TESTING
+CMAKE_TESTING_ON=	BUILD_TESTING # 3 tests are known to fail, see https://github.com/InsightSoftwareConsortium/ITK/issues/3739
+
+ITK_VER=	${PORTVERSION:R}
+
+PLIST_SUB+=	ITK_VER=${ITK_VER}
+
+OPTIONS_DEFINE=	EXAMPLES TESTING
+EXAMPLES_DESC=	Build examples (very time consuming)
+TESTING_DESC=	Build testing programs (very time consuming)
+
+EXAMPLES_CMAKE_BOOL=	BUILD_EXAMPLES
+TESTING_CMAKE_BOOL=	BUILD_TESTING
+
+.include <bsd.port.pre.mk>
+
+.if ${CHOSEN_COMPILER_TYPE} == gcc
+PLIST_SUB+=	CHOSEN_COMPILER_TYPE="GNU"
+.else
+PLIST_SUB+=	CHOSEN_COMPILER_TYPE="Clang"
+.endif
+
+post-extract:
+	${MV} ${WRKDIR}/${PORTNAME}-${PORTVERSION}/.ExternalData/* ${WRKSRC}/.ExternalData/
+	${RM} -r ${WRKDIR}/${PORTNAME}-${PORTVERSION}
+
+.include <bsd.port.post.mk>

science/InsightToolkit521/Makefile.version

@@ -0,0 +1,3 @@
+# this file is provided for ITK users
+
+ITK_VER=5.2

science/InsightToolkit521/distinfo

@@ -0,0 +1,5 @@
+TIMESTAMP = 1668411091
+SHA256 (InsightData-5.2.1.tar.gz) = b5fcd209f456af289473ccc78f935b910168b852f3d4707d0c1e9dfd508b1757
+SIZE (InsightData-5.2.1.tar.gz) = 293448802
+SHA256 (InsightSoftwareConsortium-ITK-v5.2.1_GH0.tar.gz) = 6022b2b64624b8bcec3333fe48d5f74ff6ebceb3bdf98258ba7d7fbbc76b99ab
+SIZE (InsightSoftwareConsortium-ITK-v5.2.1_GH0.tar.gz) = 20955613

science/InsightToolkit521/files/patch-CMake_ITKModuleTest.cmake

@@ -0,0 +1,10 @@
+--- CMake/ITKModuleTest.cmake.orig	2019-08-03 09:25:42 UTC
++++ CMake/ITKModuleTest.cmake
+@@ -244,6 +244,7 @@ endfunction()
+ 
+ function(CreateGoogleTestDriver KIT KIT_LIBS KitTests)
+   set(exe "${KIT}GTestDriver")
++  find_package(GTest)
+   add_executable(${exe} ${KitTests} )
+   target_link_libraries(${exe} ${KIT_LIBS} GTest::GTest GTest::Main)
+   itk_module_target_label(${exe})

science/InsightToolkit521/files/patch-Modules_ThirdParty_MINC_src_libminc_CMakeLists.txt

@@ -0,0 +1,34 @@
+--- Modules/ThirdParty/MINC/src/libminc/CMakeLists.txt.orig	2019-07-28 10:06:31 UTC
++++ Modules/ThirdParty/MINC/src/libminc/CMakeLists.txt
+@@ -403,11 +403,11 @@ SET(LIBMINC_STATIC_LIBRARIES ${LIBMINC_LIBRARY_STATIC}
+ SET(LIBMINC_STATIC_LIBRARIES_CONFIG ${LIBMINC_LIBRARY_STATIC} ${HDF5_LIBRARY_NAME} ${NIFTI_LIBRARIES} ${ZLIB_LIBRARY_NAME})
+ 
+ IF(UNIX)
+-  SET(LIBMINC_LIBRARIES ${LIBMINC_LIBRARIES} m dl ${RT_LIBRARY})
+-  SET(LIBMINC_STATIC_LIBRARIES ${LIBMINC_STATIC_LIBRARIES} m dl  ${RT_LIBRARY})
++  SET(LIBMINC_LIBRARIES ${LIBMINC_LIBRARIES} m ${CMAKE_DL_LIBS} ${RT_LIBRARY})
++  SET(LIBMINC_STATIC_LIBRARIES ${LIBMINC_STATIC_LIBRARIES} m ${CMAKE_DL_LIBS}  ${RT_LIBRARY})
+   
+-  SET(LIBMINC_LIBRARIES_CONFIG ${LIBMINC_LIBRARIES_CONFIG} m dl ${RT_LIBRARY_NAME})
+-  SET(LIBMINC_STATIC_LIBRARIES_CONFIG ${LIBMINC_STATIC_LIBRARIES_CONFIG} m dl ${RT_LIBRARY_NAME})
++  SET(LIBMINC_LIBRARIES_CONFIG ${LIBMINC_LIBRARIES_CONFIG} m ${CMAKE_DL_LIBS} ${RT_LIBRARY_NAME})
++  SET(LIBMINC_STATIC_LIBRARIES_CONFIG ${LIBMINC_STATIC_LIBRARIES_CONFIG} m ${CMAKE_DL_LIBS} ${RT_LIBRARY_NAME})
+ ENDIF(UNIX)
+ 
+ SET(minc_LIB_SRCS ${minc2_LIB_SRCS} ${minc_common_SRCS})
+@@ -447,13 +447,13 @@ ENDIF(NOT LIBMINC_USE_SYSTEM_NIFTI  AND NOT LIBMINC_EX
+ #EXPORT(TARGETS ${LIBMINC_LIBRARY} FILE "${LIBMINC_EXPORTED_TARGETS}.cmake")
+ 
+ IF(UNIX)
+-  TARGET_LINK_LIBRARIES(${LIBMINC_LIBRARY} m dl )
++  TARGET_LINK_LIBRARIES(${LIBMINC_LIBRARY} m ${CMAKE_DL_LIBS} )
+ 
+ #ITK: Skip static library build
+ IF(0)
+   IF(LIBMINC_BUILD_SHARED_LIBS)
+     ADD_LIBRARY(${LIBMINC_LIBRARY_STATIC} STATIC ${minc_LIB_SRCS} ${minc_HEADERS} ${volume_io_LIB_SRCS} ${volume_io_HEADERS} )
+-    TARGET_LINK_LIBRARIES(${LIBMINC_LIBRARY_STATIC} ${HDF5_LIBRARY} ${NIFTI_LIBRARIES} ${ZLIB_LIBRARY} ${RT_LIBRARY} m dl )
++    TARGET_LINK_LIBRARIES(${LIBMINC_LIBRARY_STATIC} ${HDF5_LIBRARY} ${NIFTI_LIBRARIES} ${ZLIB_LIBRARY} ${RT_LIBRARY} m ${CMAKE_DL_LIBS} )
+     IF(LIBMINC_MINC1_SUPPORT)
+       TARGET_LINK_LIBRARIES(${LIBMINC_LIBRARY} ${NETCDF_LIBRARY})
+     ENDIF(LIBMINC_MINC1_SUPPORT)

science/InsightToolkit521/pkg-descr

@@ -0,0 +1,8 @@
+ITK is an open-source software toolkit for performing registration and
+segmentation. Segmentation is the process of identifying and classifying
+data found in a digitally sampled representation. Typically the sampled
+representation is an image acquired from such medical instrumentation as
+CT or MRI scanners. Registration is the task of aligning or developing
+correspondences between data. For example, in the medical environment,
+a CT scan may be aligned with a MRI scan in order to combine the
+information contained in both.

science/Makefile

@@ -5,6 +5,7 @@
     SUBDIR += ChipmunkPhysics
     SUBDIR += InsightToolkit
     SUBDIR += InsightToolkit501
+    SUBDIR += InsightToolkit521
     SUBDIR += PETSc
     SUBDIR += R-cran-DCluster
     SUBDIR += R-cran-Epi