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Diffstat (limited to 'src/itk-3-find-hdf5.patch')
-rw-r--r-- | src/itk-3-find-hdf5.patch | 392 |
1 files changed, 392 insertions, 0 deletions
diff --git a/src/itk-3-find-hdf5.patch b/src/itk-3-find-hdf5.patch new file mode 100644 index 0000000..62faf46 --- /dev/null +++ b/src/itk-3-find-hdf5.patch @@ -0,0 +1,392 @@ +# This file is part of MXE. +# See index.html for further information. + +diff -urN InsightToolkit-4.4.0.orig/CMake/FindHDF5.cmake InsightToolkit-4.4.0/CMake/FindHDF5.cmake +--- InsightToolkit-4.4.0.orig/CMake/FindHDF5.cmake 1970-01-01 10:00:00.000000000 +1000 ++++ InsightToolkit-4.4.0/CMake/FindHDF5.cmake 2013-07-22 15:42:24.000000000 +1000 +@@ -0,0 +1,385 @@ ++# - Find HDF5, a library for reading and writing self describing array data. ++# ++# This module invokes the HDF5 wrapper compiler that should be installed ++# alongside HDF5. Depending upon the HDF5 Configuration, the wrapper compiler ++# is called either h5cc or h5pcc. If this succeeds, the module will then call ++# the compiler with the -show argument to see what flags are used when compiling ++# an HDF5 client application. ++# ++# The module will optionally accept the COMPONENTS argument. If no COMPONENTS ++# are specified, then the find module will default to finding only the HDF5 C ++# library. If one or more COMPONENTS are specified, the module will attempt to ++# find the language bindings for the specified components. The only valid ++# components are C, CXX, Fortran, HL, and Fortran_HL. If the COMPONENTS ++# argument is not given, the module will attempt to find only the C bindings. ++# ++# On UNIX systems, this module will read the variable HDF5_USE_STATIC_LIBRARIES ++# to determine whether or not to prefer a static link to a dynamic link for HDF5 ++# and all of it's dependencies. To use this feature, make sure that the ++# HDF5_USE_STATIC_LIBRARIES variable is set before the call to find_package. ++# ++# To provide the module with a hint about where to find your HDF5 installation, ++# you can set the environment variable HDF5_ROOT. The Find module will then ++# look in this path when searching for HDF5 executables, paths, and libraries. ++# ++# In addition to finding the includes and libraries required to compile an HDF5 ++# client application, this module also makes an effort to find tools that come ++# with the HDF5 distribution that may be useful for regression testing. ++# ++# This module will define the following variables: ++# HDF5_INCLUDE_DIRS - Location of the hdf5 includes ++# HDF5_INCLUDE_DIR - Location of the hdf5 includes (deprecated) ++# HDF5_DEFINITIONS - Required compiler definitions for HDF5 ++# HDF5_C_LIBRARIES - Required libraries for the HDF5 C bindings. ++# HDF5_CXX_LIBRARIES - Required libraries for the HDF5 C++ bindings ++# HDF5_Fortran_LIBRARIES - Required libraries for the HDF5 Fortran bindings ++# HDF5_HL_LIBRARIES - Required libraries for the HDF5 high level API ++# HDF5_Fortran_HL_LIBRARIES - Required libraries for the high level Fortran ++# bindings. ++# HDF5_LIBRARIES - Required libraries for all requested bindings ++# HDF5_FOUND - true if HDF5 was found on the system ++# HDF5_LIBRARY_DIRS - the full set of library directories ++# HDF5_IS_PARALLEL - Whether or not HDF5 was found with parallel IO support ++# HDF5_C_COMPILER_EXECUTABLE - the path to the HDF5 C wrapper compiler ++# HDF5_CXX_COMPILER_EXECUTABLE - the path to the HDF5 C++ wrapper compiler ++# HDF5_Fortran_COMPILER_EXECUTABLE - the path to the HDF5 Fortran wrapper compiler ++# HDF5_DIFF_EXECUTABLE - the path to the HDF5 dataset comparison tool ++ ++#============================================================================= ++# Copyright 2009 Kitware, Inc. ++# ++# Distributed under the OSI-approved BSD License (the "License"); ++# see accompanying file Copyright.txt for details. ++# ++# This software is distributed WITHOUT ANY WARRANTY; without even the ++# implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. ++# See the License for more information. ++#============================================================================= ++# (To distribute this file outside of CMake, substitute the full ++# License text for the above reference.) ++ ++# This module is maintained by Will Dicharry <wdicharry@stellarscience.com>. ++ ++include(SelectLibraryConfigurations) ++include(${CMAKE_CURRENT_LIST_DIR}/FindPackageHandleStandardArgs.cmake) ++ ++# List of the valid HDF5 components ++set( HDF5_VALID_COMPONENTS ++ C ++ CXX ++ Fortran ++ HL ++ Fortran_HL ++) ++ ++# Validate the list of find components. ++if( NOT HDF5_FIND_COMPONENTS ) ++ set( HDF5_LANGUAGE_BINDINGS "C" ) ++else() ++ # add the extra specified components, ensuring that they are valid. ++ foreach( component ${HDF5_FIND_COMPONENTS} ) ++ list( FIND HDF5_VALID_COMPONENTS ${component} component_location ) ++ if( ${component_location} EQUAL -1 ) ++ message( FATAL_ERROR ++ "\"${component}\" is not a valid HDF5 component." ) ++ else() ++ list( APPEND HDF5_LANGUAGE_BINDINGS ${component} ) ++ endif() ++ endforeach() ++endif() ++ ++# try to find the HDF5 wrapper compilers ++find_program( HDF5_C_COMPILER_EXECUTABLE ++ NAMES h5cc h5pcc ++ HINTS ENV HDF5_ROOT ++ PATH_SUFFIXES bin Bin ++ DOC "HDF5 Wrapper compiler. Used only to detect HDF5 compile flags." ) ++mark_as_advanced( HDF5_C_COMPILER_EXECUTABLE ) ++ ++find_program( HDF5_CXX_COMPILER_EXECUTABLE ++ NAMES h5c++ h5pc++ ++ HINTS ENV HDF5_ROOT ++ PATH_SUFFIXES bin Bin ++ DOC "HDF5 C++ Wrapper compiler. Used only to detect HDF5 compile flags." ) ++mark_as_advanced( HDF5_CXX_COMPILER_EXECUTABLE ) ++ ++find_program( HDF5_Fortran_COMPILER_EXECUTABLE ++ NAMES h5fc h5pfc ++ HINTS ENV HDF5_ROOT ++ PATH_SUFFIXES bin Bin ++ DOC "HDF5 Fortran Wrapper compiler. Used only to detect HDF5 compile flags." ) ++mark_as_advanced( HDF5_Fortran_COMPILER_EXECUTABLE ) ++ ++find_program( HDF5_DIFF_EXECUTABLE ++ NAMES h5diff ++ HINTS ENV HDF5_ROOT ++ PATH_SUFFIXES bin Bin ++ DOC "HDF5 file differencing tool." ) ++mark_as_advanced( HDF5_DIFF_EXECUTABLE ) ++ ++# Invoke the HDF5 wrapper compiler. The compiler return value is stored to the ++# return_value argument, the text output is stored to the output variable. ++macro( _HDF5_invoke_compiler language output return_value ) ++ if( HDF5_${language}_COMPILER_EXECUTABLE ) ++ exec_program( ${HDF5_${language}_COMPILER_EXECUTABLE} ++ ARGS -show ++ OUTPUT_VARIABLE ${output} ++ RETURN_VALUE ${return_value} ++ ) ++ if( ${${return_value}} EQUAL 0 ) ++ # do nothing ++ else() ++ message( STATUS ++ "Unable to determine HDF5 ${language} flags from HDF5 wrapper." ) ++ endif() ++ endif() ++endmacro() ++ ++# Parse a compile line for definitions, includes, library paths, and libraries. ++macro( _HDF5_parse_compile_line ++ compile_line_var ++ include_paths ++ definitions ++ library_paths ++ libraries ) ++ ++ # Match the include paths ++ string( REGEX MATCHALL "-I([^\" ]+)" include_path_flags ++ "${${compile_line_var}}" ++ ) ++ foreach( IPATH ${include_path_flags} ) ++ string( REGEX REPLACE "^-I" "" IPATH ${IPATH} ) ++ string( REGEX REPLACE "//" "/" IPATH ${IPATH} ) ++ list( APPEND ${include_paths} ${IPATH} ) ++ endforeach() ++ ++ # Match the definitions ++ string( REGEX MATCHALL "-D[^ ]*" definition_flags "${${compile_line_var}}" ) ++ foreach( DEF ${definition_flags} ) ++ list( APPEND ${definitions} ${DEF} ) ++ endforeach() ++ ++ # Match the library paths ++ string( REGEX MATCHALL "-L([^\" ]+|\"[^\"]+\")" library_path_flags ++ "${${compile_line_var}}" ++ ) ++ ++ foreach( LPATH ${library_path_flags} ) ++ string( REGEX REPLACE "^-L" "" LPATH ${LPATH} ) ++ string( REGEX REPLACE "//" "/" LPATH ${LPATH} ) ++ list( APPEND ${library_paths} ${LPATH} ) ++ endforeach() ++ ++ # now search for the library names specified in the compile line (match -l...) ++ # match only -l's preceded by a space or comma ++ # this is to exclude directory names like xxx-linux/ ++ string( REGEX MATCHALL "[, ]-l([^\", ]+)" library_name_flags ++ "${${compile_line_var}}" ) ++ # strip the -l from all of the library flags and add to the search list ++ foreach( LIB ${library_name_flags} ) ++ string( REGEX REPLACE "^[, ]-l" "" LIB ${LIB} ) ++ list( APPEND ${libraries} ${LIB} ) ++ endforeach() ++endmacro() ++ ++# Try to find HDF5 using an installed hdf5-config.cmake ++if( NOT HDF5_FOUND ) ++ find_package( HDF5 QUIET NO_MODULE ) ++ if( HDF5_FOUND ) ++ set( HDF5_INCLUDE_DIRS ${HDF5_INCLUDE_DIR} ) ++ set( HDF5_LIBRARIES ) ++ set( HDF5_C_TARGET hdf5 ) ++ set( HDF5_CXX_TARGET hdf5_cpp ) ++ set( HDF5_HL_TARGET hdf5_hl ) ++ set( HDF5_Fortran_TARGET hdf5_fortran ) ++ set( HDF5_Fortran_HL_TARGET hdf5_hl_fortran ) ++ foreach( _component ${HDF5_LANGUAGE_BINDINGS} ) ++ list( FIND HDF5_VALID_COMPONENTS ${_component} _component_location ) ++ get_target_property( _comp_location ${HDF5_${_component}_TARGET} LOCATION ) ++ if( _comp_location ) ++ set( HDF5_${_component}_LIBRARY ${_comp_location} CACHE PATH ++ "HDF5 ${_component} library" ) ++ mark_as_advanced( HDF5_${_component}_LIBRARY ) ++ list( APPEND HDF5_LIBRARIES ${HDF5_${_component}_LIBRARY} ) ++ endif() ++ endforeach() ++ endif() ++endif() ++ ++if( NOT HDF5_FOUND ) ++ _HDF5_invoke_compiler( C HDF5_C_COMPILE_LINE HDF5_C_RETURN_VALUE ) ++ _HDF5_invoke_compiler( CXX HDF5_CXX_COMPILE_LINE HDF5_CXX_RETURN_VALUE ) ++ _HDF5_invoke_compiler( Fortran HDF5_Fortran_COMPILE_LINE HDF5_Fortran_RETURN_VALUE ) ++ ++ # seed the initial lists of libraries to find with items we know we need ++ set( HDF5_C_LIBRARY_NAMES_INIT hdf5 ) ++ set( HDF5_HL_LIBRARY_NAMES_INIT hdf5_hl ${HDF5_C_LIBRARY_NAMES_INIT} ) ++ set( HDF5_CXX_LIBRARY_NAMES_INIT hdf5_cpp ${HDF5_C_LIBRARY_NAMES_INIT} ) ++ set( HDF5_Fortran_LIBRARY_NAMES_INIT hdf5_fortran ++ ${HDF5_C_LIBRARY_NAMES_INIT} ) ++ set( HDF5_Fortran_HL_LIBRARY_NAMES_INIT hdf5hl_fortran ++ ${HDF5_Fortran_LIBRARY_NAMES_INIT} ) ++ ++ foreach( LANGUAGE ${HDF5_LANGUAGE_BINDINGS} ) ++ if( HDF5_${LANGUAGE}_COMPILE_LINE ) ++ _HDF5_parse_compile_line( HDF5_${LANGUAGE}_COMPILE_LINE ++ HDF5_${LANGUAGE}_INCLUDE_FLAGS ++ HDF5_${LANGUAGE}_DEFINITIONS ++ HDF5_${LANGUAGE}_LIBRARY_DIRS ++ HDF5_${LANGUAGE}_LIBRARY_NAMES ++ ) ++ ++ # take a guess that the includes may be in the 'include' sibling ++ # directory of a library directory. ++ foreach( dir ${HDF5_${LANGUAGE}_LIBRARY_DIRS} ) ++ list( APPEND HDF5_${LANGUAGE}_INCLUDE_FLAGS ${dir}/../include ) ++ endforeach() ++ endif() ++ ++ # set the definitions for the language bindings. ++ list( APPEND HDF5_DEFINITIONS ${HDF5_${LANGUAGE}_DEFINITIONS} ) ++ ++ # find the HDF5 include directories ++ if(${LANGUAGE} MATCHES "Fortran.*") ++ set(HDF5_INCLUDE_FILENAME hdf5.mod) ++ else() ++ set(HDF5_INCLUDE_FILENAME hdf5.h) ++ endif() ++ ++ find_path( HDF5_${LANGUAGE}_INCLUDE_DIR ${HDF5_INCLUDE_FILENAME} ++ HINTS ++ ${HDF5_${LANGUAGE}_INCLUDE_FLAGS} ++ ENV ++ HDF5_ROOT ++ PATHS ++ $ENV{HOME}/.local/include ++ PATH_SUFFIXES ++ include ++ Include ++ ) ++ mark_as_advanced( HDF5_${LANGUAGE}_INCLUDE_DIR ) ++ list( APPEND HDF5_INCLUDE_DIRS ${HDF5_${LANGUAGE}_INCLUDE_DIR} ) ++ ++ set( HDF5_${LANGUAGE}_LIBRARY_NAMES ++ ${HDF5_${LANGUAGE}_LIBRARY_NAMES_INIT} ++ ${HDF5_${LANGUAGE}_LIBRARY_NAMES} ) ++ ++ # find the HDF5 libraries ++ foreach( LIB ${HDF5_${LANGUAGE}_LIBRARY_NAMES} ) ++ if( UNIX AND HDF5_USE_STATIC_LIBRARIES ) ++ # According to bug 1643 on the CMake bug tracker, this is the ++ # preferred method for searching for a static library. ++ # See http://www.cmake.org/Bug/view.php?id=1643. We search ++ # first for the full static library name, but fall back to a ++ # generic search on the name if the static search fails. ++ set( THIS_LIBRARY_SEARCH_DEBUG lib${LIB}d.a ${LIB}d ) ++ set( THIS_LIBRARY_SEARCH_RELEASE lib${LIB}.a ${LIB} ) ++ else() ++ set( THIS_LIBRARY_SEARCH_DEBUG ${LIB}d ) ++ set( THIS_LIBRARY_SEARCH_RELEASE ${LIB} ) ++ endif() ++ find_library( HDF5_${LIB}_LIBRARY_DEBUG ++ NAMES ${THIS_LIBRARY_SEARCH_DEBUG} ++ HINTS ${HDF5_${LANGUAGE}_LIBRARY_DIRS} ++ ENV HDF5_ROOT ++ PATH_SUFFIXES lib Lib ) ++ find_library( HDF5_${LIB}_LIBRARY_RELEASE ++ NAMES ${THIS_LIBRARY_SEARCH_RELEASE} ++ HINTS ${HDF5_${LANGUAGE}_LIBRARY_DIRS} ++ ENV HDF5_ROOT ++ PATH_SUFFIXES lib Lib ) ++ select_library_configurations( HDF5_${LIB} ) ++ # even though we adjusted the individual library names in ++ # select_library_configurations, we still need to distinguish ++ # between debug and release variants because HDF5_LIBRARIES will ++ # need to specify different lists for debug and optimized builds. ++ # We can't just use the HDF5_${LIB}_LIBRARY variable (which was set ++ # up by the selection macro above) because it may specify debug and ++ # optimized variants for a particular library, but a list of ++ # libraries is allowed to specify debug and optimized only once. ++ list( APPEND HDF5_${LANGUAGE}_LIBRARIES_DEBUG ++ ${HDF5_${LIB}_LIBRARY_DEBUG} ) ++ list( APPEND HDF5_${LANGUAGE}_LIBRARIES_RELEASE ++ ${HDF5_${LIB}_LIBRARY_RELEASE} ) ++ endforeach() ++ list( APPEND HDF5_LIBRARY_DIRS ${HDF5_${LANGUAGE}_LIBRARY_DIRS} ) ++ ++ # Append the libraries for this language binding to the list of all ++ # required libraries. ++ list( APPEND HDF5_LIBRARIES_DEBUG ++ ${HDF5_${LANGUAGE}_LIBRARIES_DEBUG} ) ++ list( APPEND HDF5_LIBRARIES_RELEASE ++ ${HDF5_${LANGUAGE}_LIBRARIES_RELEASE} ) ++ endforeach() ++ ++ # We may have picked up some duplicates in various lists during the above ++ # process for the language bindings (both the C and C++ bindings depend on ++ # libz for example). Remove the duplicates. It appears that the default ++ # CMake behavior is to remove duplicates from the end of a list. However, ++ # for link lines, this is incorrect since unresolved symbols are searched ++ # for down the link line. Therefore, we reverse the list, remove the ++ # duplicates, and then reverse it again to get the duplicates removed from ++ # the beginning. ++ macro( _remove_duplicates_from_beginning _list_name ) ++ list( REVERSE ${_list_name} ) ++ list( REMOVE_DUPLICATES ${_list_name} ) ++ list( REVERSE ${_list_name} ) ++ endmacro() ++ ++ if( HDF5_INCLUDE_DIRS ) ++ _remove_duplicates_from_beginning( HDF5_INCLUDE_DIRS ) ++ endif() ++ if( HDF5_LIBRARIES_DEBUG ) ++ _remove_duplicates_from_beginning( HDF5_LIBRARIES_DEBUG ) ++ endif() ++ if( HDF5_LIBRARIES_RELEASE ) ++ _remove_duplicates_from_beginning( HDF5_LIBRARIES_RELEASE ) ++ endif() ++ if( HDF5_LIBRARY_DIRS ) ++ _remove_duplicates_from_beginning( HDF5_LIBRARY_DIRS ) ++ endif() ++ ++ # Construct the complete list of HDF5 libraries with debug and optimized ++ # variants when the generator supports them. ++ if( CMAKE_CONFIGURATION_TYPES OR CMAKE_BUILD_TYPE ) ++ set( HDF5_LIBRARIES ) ++ foreach( _lib ${HDF5_LIBRARIES_DEBUG} ) ++ list( APPEND HDF5_LIBRARIES debug ${_lib} ) ++ endforeach() ++ foreach( _lib ${HDF5_LIBRARIES_RELEASE} ) ++ list( APPEND HDF5_LIBRARIES optimized ${_lib} ) ++ endforeach() ++ else() ++ set( HDF5_LIBRARIES ${HDF5_LIBRARIES_RELEASE} ) ++ endif() ++ ++ # If the HDF5 include directory was found, open H5pubconf.h to determine if ++ # HDF5 was compiled with parallel IO support ++ set( HDF5_IS_PARALLEL FALSE ) ++ foreach( _dir IN LISTS HDF5_INCLUDE_DIRS ) ++ if( EXISTS "${_dir}/H5pubconf.h" ) ++ file( STRINGS "${_dir}/H5pubconf.h" ++ HDF5_HAVE_PARALLEL_DEFINE ++ REGEX "HAVE_PARALLEL 1" ) ++ if( HDF5_HAVE_PARALLEL_DEFINE ) ++ set( HDF5_IS_PARALLEL TRUE ) ++ endif() ++ endif() ++ endforeach() ++ set( HDF5_IS_PARALLEL ${HDF5_IS_PARALLEL} CACHE BOOL ++ "HDF5 library compiled with parallel IO support" ) ++ mark_as_advanced( HDF5_IS_PARALLEL ) ++ ++ # For backwards compatibility we set HDF5_INCLUDE_DIR to the value of ++ # HDF5_INCLUDE_DIRS ++ if( HDF5_INCLUDE_DIRS ) ++ set( HDF5_INCLUDE_DIR "${HDF5_INCLUDE_DIRS}" ) ++ endif() ++ ++endif() ++ ++find_package_handle_standard_args( HDF5 DEFAULT_MSG ++ HDF5_LIBRARIES ++ HDF5_INCLUDE_DIRS ++) ++ |