[gdcm] Initial import (#566725).
mrceresa
mrceresa at fedoraproject.org
Fri Oct 29 09:46:23 UTC 2010
commit 2a156e2f4f0e1ad325b3c9aa5bb5a6b313594b69
Author: Mario Ceresa <mrceresa at gmail.com>
Date: Fri Oct 29 11:46:23 2010 +0200
Initial import (#566725).
.gitignore | 1 +
FindCharLS.cmake | 34 ++++++
gdcm-2.0.14-inplacebuild.patch | 14 ++
gdcm-2.0.14-use_system_charls.patch | 101 ++++++++++++++++
gdcm-2.0.14-usecopyright.patch | 15 +++
gdcm.spec | 225 +++++++++++++++++++++++++++++++++++
sources | 1 +
7 files changed, 391 insertions(+), 0 deletions(-)
---
diff --git a/.gitignore b/.gitignore
index e69de29..c46a9a9 100644
--- a/.gitignore
+++ b/.gitignore
@@ -0,0 +1 @@
+/gdcm-2.0.16.tar.bz2
diff --git a/FindCharLS.cmake b/FindCharLS.cmake
new file mode 100644
index 0000000..eaa45b7
--- /dev/null
+++ b/FindCharLS.cmake
@@ -0,0 +1,34 @@
+FIND_PATH(CHARLS_INCLUDE_DIR CharLS/interface.h
+/usr/local/include
+/usr/include
+)
+
+FIND_LIBRARY(CHARLS_LIBRARY
+ NAMES CharLS
+ PATHS /usr/lib /usr/local/lib /usr/lib64 /usr/local/lib64
+ )
+
+
+IF (CHARLS_LIBRARY AND CHARLS_INCLUDE_DIR)
+ SET(CHARLS_LIBRARIES ${CHARLS_LIBRARY})
+ SET(CHARLS_INCLUDE_DIRS ${CHARLS_INCLUDE_DIR})
+ SET(CHARLS_FOUND "YES")
+ELSE (CHARLS_LIBRARY AND CHARLS_INCLUDE_DIR)
+ SET(CHARLS_FOUND "NO")
+ENDIF (CHARLS_LIBRARY AND CHARLS_INCLUDE_DIR)
+
+
+IF (CHARLS_FOUND)
+ IF (NOT CHARLS_FIND_QUIETLY)
+ MESSAGE(STATUS "Found CHARLS: ${CHARLS_LIBRARIES}")
+ ENDIF (NOT CHARLS_FIND_QUIETLY)
+ELSE (CHARLS_FOUND)
+ IF (CHARLS_FIND_REQUIRED)
+ MESSAGE(FATAL_ERROR "Could not find CHARLS library")
+ ENDIF (CHARLS_FIND_REQUIRED)
+ENDIF (CHARLS_FOUND)
+
+MARK_AS_ADVANCED(
+ CHARLS_LIBRARIES
+ CHARLS_INCLUDE_DIR
+ )
diff --git a/gdcm-2.0.14-inplacebuild.patch b/gdcm-2.0.14-inplacebuild.patch
new file mode 100644
index 0000000..3a36994
--- /dev/null
+++ b/gdcm-2.0.14-inplacebuild.patch
@@ -0,0 +1,14 @@
+--- CMakeLists.txt 2009-11-12 23:09:48.000000000 +0100
++++ CMakeLists2.txt 2010-02-05 18:08:06.000000000 +0100
+@@ -38,10 +38,7 @@
+ STRING(COMPARE EQUAL "${GDCM_SOURCE_DIR}" "${GDCM_BINARY_DIR}" INSOURCE)
+ GET_FILENAME_COMPONENT(PARENTDIR ${GDCM_BINARY_DIR} PATH)
+ STRING(COMPARE EQUAL "${GDCM_SOURCE_DIR}" "${PARENTDIR}" INSOURCESUBDIR)
+-IF(INSOURCE OR INSOURCESUBDIR)
+- MESSAGE(FATAL_ERROR "GDCM requires an out of source Build. "
+- "Please create a separate binary directory and run CMake there.")
+-ENDIF(INSOURCE OR INSOURCESUBDIR)
++
+
+ #-----------------------------------------------------------------------------
+ SET(GDCM_MAJOR_VERSION 2)
diff --git a/gdcm-2.0.14-use_system_charls.patch b/gdcm-2.0.14-use_system_charls.patch
new file mode 100644
index 0000000..7541749
--- /dev/null
+++ b/gdcm-2.0.14-use_system_charls.patch
@@ -0,0 +1,101 @@
+--- CMakeLists.txt 2010-02-19 19:18:30.000000000 +0100
++++ CMakeLists2.txt 2010-02-19 19:21:51.000000000 +0100
+@@ -197,7 +197,7 @@
+
+ IF(NOT GDCM_INSTALL_LIB_DIR)
+ #SET(GDCM_INSTALL_LIB_DIR "lib/${PROJECT_NAME}")
+- SET(GDCM_INSTALL_LIB_DIR "lib")
++ SET(GDCM_INSTALL_LIB_DIR "lib${LIB_SUFFIX}")
+ ENDIF(NOT GDCM_INSTALL_LIB_DIR)
+
+ IF(NOT GDCM_INSTALL_DATA_DIR)
+@@ -261,6 +261,11 @@
+ OPTION(GDCM_USE_SYSTEM_EXPAT "Use system expat" OFF)
+ OPTION(GDCM_USE_SYSTEM_LJPEG "Use system ljpeg (ijg lib)" OFF)
+ OPTION(GDCM_USE_SYSTEM_OPENJPEG "Use system openjpeg (1.x)" OFF)
++IF(GDCM_USE_JPEGLS)
++ OPTION(GDCM_USE_SYSTEM_JPEGLS "Use system JPEGLS (CharLS)" OFF)
++ MARK_AS_ADVANCED(GDCM_USE_SYSTEM_JPEGLS)
++ENDIF(GDCM_USE_JPEGLS)
++
+ MARK_AS_ADVANCED(GDCM_USE_SYSTEM_ZLIB GDCM_USE_SYSTEM_UUID GDCM_USE_SYSTEM_EXPAT GDCM_USE_SYSTEM_OPENSSL)
+ MARK_AS_ADVANCED(GDCM_USE_SYSTEM_OPENJPEG GDCM_USE_SYSTEM_LJPEG)
+ OPTION(GDCM_USE_SYSTEM_POPPLER "Use system poppler (pdf)" OFF)
+@@ -283,6 +288,14 @@
+ SET(GDCM_OPENJPEG_LIBRARIES gdcmopenjpeg)
+ ENDIF(GDCM_USE_SYSTEM_OPENJPEG)
+
++IF(GDCM_USE_SYSTEM_JPEGLS)
++ FIND_PACKAGE(CharLS REQUIRED)
++ SET(GDCM_CHARLS_LIBRARIES ${CHARLS_LIBRARIES})
++ELSE(GDCM_USE_SYSTEM_JPEGLS)
++ SET(GDCM_CHARLS_LIBRARIES gdcmcharls)
++ENDIF(GDCM_USE_SYSTEM_JPEGLS)
++
++
+ # Very advanced user option:
+ # This will cause building of the broken JPEG library released by the Standford PVRG group:
+ OPTION(GDCM_USE_PVRG "Use pvrg lib, only turn it on if you know what you are doing." OFF)
+
+--- Utilities/CMakeLists.txt 2009-11-12 23:09:48.000000000 +0100
++++ Utilities/CMakeLists2.txt 2010-02-19 19:21:59.000000000 +0100
+@@ -35,12 +35,14 @@
+ # Do jpegls (JPEG-LS aka near lossless implementation)
+ APPEND_COPYRIGHT(${CMAKE_CURRENT_SOURCE_DIR}/gdcmcharls/License.txt)
+ IF(GDCM_USE_JPEGLS)
+- SET(CHARLS_NAMESPACE "GDCMCHARLS")
+- SET(CHARLS_INSTALL_NO_LIBRARIES ${GDCM_INSTALL_NO_LIBRARIES})
+- SET(CHARLS_INSTALL_BIN_DIR ${GDCM_INSTALL_BIN_DIR})
+- SET(CHARLS_INSTALL_LIB_DIR ${GDCM_INSTALL_LIB_DIR})
+- SET(CHARLS_INSTALL_INCLUDE_DIR ${GDCM_INSTALL_INCLUDE_DIR})
+- SUBDIRS(gdcmcharls)
++ IF(NOT GDCM_USE_SYSTEM_JPEGLS)
++ SET(CHARLS_NAMESPACE "GDCMCHARLS")
++ SET(CHARLS_INSTALL_NO_LIBRARIES ${GDCM_INSTALL_NO_LIBRARIES})
++ SET(CHARLS_INSTALL_BIN_DIR ${GDCM_INSTALL_BIN_DIR})
++ SET(CHARLS_INSTALL_LIB_DIR ${GDCM_INSTALL_LIB_DIR})
++ SET(CHARLS_INSTALL_INCLUDE_DIR ${GDCM_INSTALL_INCLUDE_DIR})
++ SUBDIRS(gdcmcharls)
++ ENDIF(NOT GDCM_USE_SYSTEM_JPEGLS)
+ ENDIF(GDCM_USE_JPEGLS)
+
+ # Do md5
+--- Source/MediaStorageAndFileFormat/CMakeLists.txt 2009-11-12 23:09:48.000000000 +0100
++++ Source/MediaStorageAndFileFormat/CMakeLists2.txt 2010-02-19 19:22:23.000000000 +0100
+@@ -132,7 +132,7 @@
+ TARGET_LINK_LIBRARIES(gdcmMSFF gdcmIOD gdcmDSED gdcmDICT ${GDCM_LJPEG_LIBRARIES} ${GDCM_OPENJPEG_LIBRARIES})
+ SET_TARGET_PROPERTIES(gdcmMSFF PROPERTIES ${GDCM_LIBRARY_PROPERTIES} LINK_INTERFACE_LIBRARIES "gdcmDSED;gdcmDICT;gdcmIOD")
+ IF(GDCM_USE_JPEGLS)
+- TARGET_LINK_LIBRARIES(gdcmMSFF gdcmcharls)
++ TARGET_LINK_LIBRARIES(gdcmMSFF ${GDCM_CHARLS_LIBRARIES})
+ ENDIF(GDCM_USE_JPEGLS)
+
+ IF(CMAKE_COMPILER_IS_GNUCXX AND MINGW)
+--- Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec.cxx 2009-11-12 23:09:48.000000000 +0100
++++ Source/MediaStorageAndFileFormat/gdcmJPEGLSCodec2.cxx 2010-02-19 19:22:09.000000000 +0100
+@@ -18,6 +18,16 @@
+ #include "gdcmDataElement.h"
+
+ // CharLS includes
++#ifdef GDCM_USE_SYSTEM_EXPAT
++#include "CharLS/stdafx.h" // sigh...
++#include "CharLS/interface.h"
++#include "CharLS/util.h"
++#include "CharLS/defaulttraits.h"
++#include "CharLS/losslesstraits.h"
++#include "CharLS/colortransform.h"
++#include "CharLS/streams.h"
++#include "CharLS/processline.h"
++#else
+ #include "gdcmcharls/stdafx.h" // sigh...
+ #include "gdcmcharls/interface.h"
+ #include "gdcmcharls/util.h"
+@@ -26,6 +36,8 @@
+ #include "gdcmcharls/colortransform.h"
+ #include "gdcmcharls/streams.h"
+ #include "gdcmcharls/processline.h"
++#endif
++
+
+
+ namespace gdcm
diff --git a/gdcm-2.0.14-usecopyright.patch b/gdcm-2.0.14-usecopyright.patch
new file mode 100644
index 0000000..2a3fdb8
--- /dev/null
+++ b/gdcm-2.0.14-usecopyright.patch
@@ -0,0 +1,15 @@
+--- CMake/UseCopyright.cmake 2009-11-12 23:09:48.000000000 +0100
++++ CMake/UseCopyright2.cmake 2010-02-17 13:24:09.000000000 +0100
+@@ -18,8 +18,10 @@
+ # need to raise an error if COPYRIGHT_MODULE_FILENAME is not set...
+ IF(EXISTS ${COPYRIGHT_MODULE_FILENAME} )
+ FOREACH(filename ${ARGN})
+- FILE(READ ${filename} content)
+- FILE(APPEND ${COPYRIGHT_MODULE_FILENAME} ${content})
++ IF(EXISTS ${filename} )
++ FILE(READ ${filename} content)
++ FILE(APPEND ${COPYRIGHT_MODULE_FILENAME} ${content})
++ ENDIF(EXISTS ${filename} )
+ ENDFOREACH(filename)
+ ENDIF(EXISTS ${COPYRIGHT_MODULE_FILENAME} )
+ ENDMACRO(APPEND_COPYRIGHT)
diff --git a/gdcm.spec b/gdcm.spec
new file mode 100644
index 0000000..2ae0473
--- /dev/null
+++ b/gdcm.spec
@@ -0,0 +1,225 @@
+# we don't want to provide private python extension libs
+%{?filter_setup:
+%filter_provides_in %{python_sitearch}/.*\.so$
+%filter_setup
+}
+
+%if ! (0%{?fedora} > 12 || 0%{?rhel} > 5)
+%{!?python_sitelib: %global python_sitelib %(%{__python} -c "from distutils.sysconfig import get_python_lib; print(get_python_lib())")}
+%{!?python_sitearch: %global python_sitearch %(%{__python} -c "from distutils.sysconfig import get_python_lib; print(get_python_lib(1))")}
+%endif
+
+Name: gdcm
+Version: 2.0.16
+Release: 5%{?dist}
+Summary: Grassroots DiCoM is a C++ library to parse DICOM medical files
+Group: Development/Libraries
+License: BSD
+URL: http://sourceforge.net/apps/mediawiki/gdcm/index.php?title=Main_Page
+Source0: http://download.sourceforge.net/project/gdcm/gdcm%202.x/GDCM%202.0.16/gdcm-2.0.16.tar.bz2
+#Source1: http://downloads.sourceforge.net/project/gdcm/gdcmData/gdcmData/gdcmData.tar.bz2
+Source2: FindCharLS.cmake
+Buildroot: %{_tmppath}/%{name}-%{version}-%{release}-root-%(%{__id_u} -n)
+# There is a bug in doxygen preventing compilation on:
+ExcludeArch: ppc ppc64
+
+Patch1: gdcm-2.0.14-inplacebuild.patch
+Patch2: gdcm-2.0.14-usecopyright.patch
+Patch3: gdcm-2.0.14-use_system_charls.patch
+
+BuildRequires: cmake >= 2.6.0
+BuildRequires: openssl-devel
+BuildRequires: libuuid-devel
+BuildRequires: expat-devel
+BuildRequires: openjpeg-devel
+BuildRequires: poppler-devel
+BuildRequires: mesa-libOSMesa-devel
+BuildRequires: fontconfig-devel
+BuildRequires: doxygen
+BuildRequires: CharLS-devel
+BuildRequires: texlive-latex
+BuildRequires: graphviz
+BuildRequires: python2-devel
+BuildRequires: swig
+
+
+%description
+GDCM implements the dicom base standard part 5 that concentrates on image file
+format. Hence GDCM supports the following formats:
+- ACR-NEMA version 1 and 2 (huffman compression is not supported),
+- DICOM version 3.0, including various encodings of JPEG - lossless & lossy-,
+RLE, J2K, deflated, JPEG-LS (very experimental) (MPEG2 compression is not
+supported)
+- Papyrus V2 and V3 file headers should be readable,
+
+%package devel
+Summary: Libraries and headers for GDCM
+Group: Development/Libraries
+Requires: %{name} = %{version}-%{release}
+
+%description devel
+
+You should install the gdcm-devel package if you would like to
+compile applications based on gdcm
+
+%package python
+Summary: Python binding for GDCM
+Group: Development/Libraries
+Requires: %{name} = %{version}-%{release}
+
+%description python
+
+You should install the gdcm-python package if you would like to
+used this library with python
+
+
+
+%prep
+%setup -q
+%patch1
+%patch2
+%patch3
+
+# Remove bundled utilities (we use Fedora's ones)
+
+rm -rf Utilities/gdcmexpat
+rm -rf Utilities/gdcmopenjpeg
+rm -rf Utilities/gdcmzlib
+rm -rf Utilities/gdcmuuid
+rm -rf Utilities/gdcmcharls
+
+# Remove bundled utilities (we don't use them)
+rm -rf Utilities/gdcmmd5
+rm -rf Utilities/getopt
+rm -rf Utilities/pvrg
+rm -rf Utilities/rle
+rm -rf Utilities/wxWidgets
+
+cp %{SOURCE2} CMake/
+
+%build
+%cmake -DCMAKE_VERBOSE_MAKEFILE=ON \
+ -DCMAKE_SKIP_RPATH:BOOL=YES \
+ -DGDCM_BUILD_TESTING=OFF \
+ -DGDCM_BUILD_EXAMPLES:BOOL=ON \
+ -DGDCM_DOCUMENTATION:BOOL=ON \
+ -DGDCM_PDF_DOCUMENTATION:BOOL=ON \
+ -DGDCM_WRAP_PYTHON:BOOL=ON \
+ -DGDCM_WRAP_JAVA=OFF \
+ -DGDCM_BUILD_SHARED_LIBS:BOOL=ON \
+ -DGDCM_BUILD_APPLICATIONS:BOOL=ON \
+ -DCMAKE_BUILD_TYPE:STRING="Release" \
+ -DGDCM_USE_VTK:BOOL=OFF \
+ -DGDCM_USE_SYSTEM_EXPAT=ON \
+ -DGDCM_USE_SYSTEM_OPENJPEG=ON \
+ -DGDCM_USE_SYSTEM_ZLIB=ON \
+ -DGDCM_USE_SYSTEM_UUID=ON \
+ -DGDCM_USE_SYSTEM_LJPEG=OFF \
+ -DGDCM_USE_SYSTEM_OPENSSL=ON \
+ -DGDCM_USE_JPEGLS=ON \
+ -DGDCM_USE_SYSTEM_JPEGLS=ON \
+ -DGDCM_USE_SYSTEM_POPPLER=ON .
+
+#Cannot build wrap_java:
+# -DGDCM_VTK_JAVA_JAR:PATH=/usr/share/java/vtk.jar no found!
+# yum provides */vtk.jar -> No results found
+
+make %{?_smp_mflags}
+
+
+%install
+rm -rf $RPM_BUILD_ROOT
+make install DESTDIR=$RPM_BUILD_ROOT
+
+install -d $RPM_BUILD_ROOT%{python_sitelib}/
+mv $RPM_BUILD_ROOT%{_libdir}/gdcm.py $RPM_BUILD_ROOT%{python_sitelib}/
+mv $RPM_BUILD_ROOT%{_libdir}/gdcmswig.py $RPM_BUILD_ROOT%{python_sitelib}/
+mv $RPM_BUILD_ROOT%{_libdir}/_gdcmswig.so $RPM_BUILD_ROOT%{python_sitelib}/
+
+
+## Rearranging directory layout and removing version from dir
+mv $RPM_BUILD_ROOT%{_datadir}/gdcm-2.0 $RPM_BUILD_ROOT%{_datadir}/gdcm
+mv $RPM_BUILD_ROOT%{_libdir}/gdcm-2.0/*.cmake $RPM_BUILD_ROOT%{_datadir}/gdcm/
+rmdir $RPM_BUILD_ROOT%{_libdir}/gdcm-2.0/
+mv $RPM_BUILD_ROOT%{_includedir}/gdcm-2.0 $RPM_BUILD_ROOT%{_includedir}/gdcm
+
+## Cleaning Example dir from cmake cache files + remove 0-lenght files
+find %{_builddir}/%{?buildsubdir}/Examples -depth -name CMakeFiles | xargs rm -rf
+find %{_builddir}/%{?buildsubdir}/Examples -depth -size 0 | xargs rm -rf
+
+%clean
+rm -rf $RPM_BUILD_ROOT
+
+%files
+%defattr(-,root,root,-)
+%doc %{_mandir}/man1/*.1*
+%doc AUTHORS Copyright.txt README.Copyright.txt README.txt
+%dir %{_datadir}/gdcm/
+%{_bindir}/*
+%{_libdir}/*.so.*
+%{_datadir}/gdcm/XML
+
+%check
+export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$(pwd)/bin
+ctest .
+
+%post -p /sbin/ldconfig
+
+%postun -p /sbin/ldconfig
+
+%files devel
+%defattr(-,root,root)
+%dir %{_includedir}/gdcm/
+%doc Examples
+%{_includedir}/gdcm/*
+%{_libdir}/*.so
+%{_datadir}/gdcm/*.cmake
+
+%files python
+%defattr(-,root,root,-)
+%{python_sitelib}/*
+
+%changelog
+* Tue Oct 19 2010 Mario Ceresa <mrceresa at gmail.com> 2.0.16-5
+- Filtered out private python extension lib
+- Added documentation
+
+* Tue Oct 19 2010 Mario Ceresa <mrceresa at gmail.com> 2.0.16-4
+- Changed directory ownership
+
+* Fri Oct 15 2010 Mario Ceresa <mrceresa at gmail.com> 2.0.16-3
+- Rearranged directory layout to remove version in dir names
+
+* Sat Sep 18 2010 Mario Ceresa <mrceresa at gmail.com> 2.0.16-2
+- Added ExcludeArch for ppc and ppc64 because of a bug in doxygen
+see https://bugzilla.redhat.com/show_bug.cgi?id=566725#c9
+
+* Sat Sep 18 2010 Mario Ceresa <mrceresa at gmail.com> 2.0.16-1
+- Updated to release 2.0.16
+- Removed patch "stack_namespace" and "poppler_breaks_api" because
+already included upstream
+- Added swig and texlive-pdflatex to BuildRequires
+- Moved python files to a separate package
+
+* Sun Apr 11 2010 Mario Ceresa <mrceresa at gmail.com> 2.0.14-5
+- Fixed some issues pointed out by Martin Gieseking. In details:
+- BR to build documentation (tex + graphviz)
+- Changed man page inclusion
+- Fixed changelog format
+- Removed VTK support because cmake 2.8 is needed to recognize vtk 5.4!
+- Fixed python support
+
+* Thu Mar 25 2010 Mario Ceresa <mrceresa at gmail.com> 2.0.14-4
+- Added VTK support
+- Added python support
+
+* Mon Mar 21 2010 Mario Ceresa <mrceresa at gmail.com> 2.0.14-3
+- Added BuildRequires fontconfig-devel
+- Fixed lib /lib64 issue with base CMakeLists.txt
+
+* Mon Mar 15 2010 Mario Ceresa <mrceresa at gmail.com> 2.0.14-2
+- Added BuildRequires CharLS-devel
+
+* Wed Feb 17 2010 Mario Ceresa <mrceresa at gmail.com> 2.0.14
+- Initial RPM Release
+
diff --git a/sources b/sources
index e69de29..c08ca74 100644
--- a/sources
+++ b/sources
@@ -0,0 +1 @@
+e9e8e7703bedef939d7dc88350c25691 gdcm-2.0.16.tar.bz2
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