[Insight-users] Wrapping ITK in OSX 10.6

Lassi Paavolainen lassi.paavolainen at jyu.fi
Thu May 6 05:50:48 EDT 2010 

Hi all,

Thanks for the comments. I'm using latest google code svn version of 
wrapITK and CableSwig-ITK-3.18 package. I started it now from the scratch. 
Here is output of make VERBOSE=1:

BioImageXDs-MacBook-Pro-15:wrapITK-svn bxd$ make VERBOSE=1
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" 
-H/Users/bxd/BioImageXD/wrapITK-svn -B/Users/bxd/BioImageXD/wrapITK-svn 
--check-build-system CMakeFiles/Makefile.cmake 0
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E cmake_progress_start 
/Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles 
/Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles/progress.marks
make -f CMakeFiles/Makefile2 all
make -f CMakeFiles/install_wrapitk_compatibility.dir/build.make 
CMakeFiles/install_wrapitk_compatibility.dir/depend
cd /Users/bxd/BioImageXD/wrapITK-svn && "/Applications/CMake 
2.8-0.app/Contents/bin/cmake" -E cmake_depends "Unix Makefiles" 
/Users/bxd/BioImageXD/wrapITK-svn /Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn /Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles/install_wrapitk_compatibility.dir/DependInfo.cmake 
--color=
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles/install_wrapitk_compatibility.dir/DependInfo.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles/install_wrapitk_compatibility.dir/depend.internal".
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles/CMakeDirectoryInformation.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles/install_wrapitk_compatibility.dir/depend.internal".
Scanning dependencies of target install_wrapitk_compatibility
make -f CMakeFiles/install_wrapitk_compatibility.dir/build.make 
CMakeFiles/install_wrapitk_compatibility.dir/build
make[2]: Nothing to be done for 
`CMakeFiles/install_wrapitk_compatibility.dir/build'.
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Built target install_wrapitk_compatibility
make -f Languages/Python/PyBase/CMakeFiles/ITKPyBaseIdx.dir/build.make 
Languages/Python/PyBase/CMakeFiles/ITKPyBaseIdx.dir/depend
cd /Users/bxd/BioImageXD/wrapITK-svn && "/Applications/CMake 
2.8-0.app/Contents/bin/cmake" -E cmake_depends "Unix Makefiles" 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/ITKPyBaseIdx.dir/DependInfo.cmake 
--color=
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/ITKPyBaseIdx.dir/DependInfo.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/ITKPyBaseIdx.dir/depend.internal".
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/CMakeDirectoryInformation.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/ITKPyBaseIdx.dir/depend.internal".
Scanning dependencies of target ITKPyBaseIdx
make -f Languages/Python/PyBase/CMakeFiles/ITKPyBaseIdx.dir/build.make 
Languages/Python/PyBase/CMakeFiles/ITKPyBaseIdx.dir/build
make[2]: Nothing to be done for 
`Languages/Python/PyBase/CMakeFiles/ITKPyBaseIdx.dir/build'.
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Built target ITKPyBaseIdx
make -f Languages/Python/PyBase/CMakeFiles/ITKPyBaseSwig.dir/build.make 
Languages/Python/PyBase/CMakeFiles/ITKPyBaseSwig.dir/depend
cd /Users/bxd/BioImageXD/wrapITK-svn && "/Applications/CMake 
2.8-0.app/Contents/bin/cmake" -E cmake_depends "Unix Makefiles" 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/ITKPyBaseSwig.dir/DependInfo.cmake 
--color=
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/ITKPyBaseSwig.dir/DependInfo.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/ITKPyBaseSwig.dir/depend.internal".
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/CMakeDirectoryInformation.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/ITKPyBaseSwig.dir/depend.internal".
Scanning dependencies of target ITKPyBaseSwig
make -f Languages/Python/PyBase/CMakeFiles/ITKPyBaseSwig.dir/build.make 
Languages/Python/PyBase/CMakeFiles/ITKPyBaseSwig.dir/build
make[2]: Nothing to be done for 
`Languages/Python/PyBase/CMakeFiles/ITKPyBaseSwig.dir/build'.
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Built target ITKPyBaseSwig
make -f Languages/Python/PyBase/CMakeFiles/ITKPyBasePython.dir/build.make 
Languages/Python/PyBase/CMakeFiles/ITKPyBasePython.dir/depend
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Generating wrap_pyBasePython.cpp, ../../../lib/pyBasePython.py
cd /Users/bxd/BioImageXD/wrapITK-svn/Typedefs/python && 
/usr/local/bin/swig -c++ -python -O -features autodoc=1 -Werror -w508 
-w312 -w314 -w509 -w302 -w362 -w389 -w384 -w383 -w361 -w467 -o 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/wrap_pyBasePython.cpp 
-I/Users/bxd/BioImageXD/wrapITK-svn/Languages 
-I/Users/bxd/BioImageXD/wrapITK-svn/Typedefs/python 
-I/Users/bxd/BioImageXD/wrapITK-svn/Typedefs -outdir 
/Users/bxd/BioImageXD/wrapITK-svn/lib 
/Users/bxd/BioImageXD/wrapITK-svn/Typedefs/wrap_pyBase.i
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Generating ITKPyBasePython.cpp, ../../../lib/ITKPyBasePython.py
cd /Users/bxd/BioImageXD/wrapITK-svn/Typedefs/python && 
/usr/local/bin/swig -c++ -python -O -features autodoc=1 -Werror -w508 
-w312 -w314 -w509 -w302 -w362 -w389 -w384 -w383 -w361 -w467 -o 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/ITKPyBasePython.cpp 
-I/Users/bxd/BioImageXD/wrapITK-svn/Languages 
-I/Users/bxd/BioImageXD/wrapITK-svn/Typedefs/python 
-I/Users/bxd/BioImageXD/wrapITK-svn/Typedefs -outdir 
/Users/bxd/BioImageXD/wrapITK-svn/lib 
/Users/bxd/BioImageXD/wrapITK-svn/Typedefs/ITKPyBase.i
cd /Users/bxd/BioImageXD/wrapITK-svn && "/Applications/CMake 
2.8-0.app/Contents/bin/cmake" -E cmake_depends "Unix Makefiles" 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/ITKPyBasePython.dir/DependInfo.cmake 
--color=
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/ITKPyBasePython.dir/DependInfo.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/ITKPyBasePython.dir/depend.internal".
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/CMakeDirectoryInformation.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/CMakeFiles/ITKPyBasePython.dir/depend.internal".
Scanning dependencies of target ITKPyBasePython
make -f Languages/Python/PyBase/CMakeFiles/ITKPyBasePython.dir/build.make 
Languages/Python/PyBase/CMakeFiles/ITKPyBasePython.dir/build
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Building CXX object 
Languages/Python/PyBase/CMakeFiles/ITKPyBasePython.dir/ITKPyBasePython.o
cd /Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase && 
/usr/bin/c++   -DITKPyBasePython_EXPORTS -DSWIG_GLOBAL -arch i386 
-isysroot /Developer/SDKs/MacOSX10.6.sdk -mmacosx-version-min=10.5 
-ftemplate-depth-50 -Wall -Wno-deprecated -msse2 -O3 -DNDEBUG -fPIC 
-I/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Review 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/gdcm/src 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/gdcm 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/vxl/core 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/vxl/vcl 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/vxl/v3p/netlib 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Numerics/Statistics 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/itkExtHdrs 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/nifti/znzlib 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/nifti/niftilib 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/expat 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/DICOMParser 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/NrrdIO 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/MetaIO 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/SpatialObject 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Numerics/NeuralNetworks 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Numerics/FEM 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/IO 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Numerics 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Common 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/BasicFilters 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Algorithms 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0 
-I/Users/bxd/BioImageXD/wrapITK-svn/Typedefs 
-I/System/Library/Frameworks/JavaVM.framework/Headers 
-I/System/Library/Frameworks/Python.framework/Headers 
-fno-strict-aliasing -o CMakeFiles/ITKPyBasePython.dir/ITKPyBasePython.o 
-c 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/ITKPyBasePython.cpp
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Building CXX object 
Languages/Python/PyBase/CMakeFiles/ITKPyBasePython.dir/wrap_pyBasePython.o
cd /Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase && 
/usr/bin/c++   -DITKPyBasePython_EXPORTS -DSWIG_GLOBAL -arch i386 
-isysroot /Developer/SDKs/MacOSX10.6.sdk -mmacosx-version-min=10.5 
-ftemplate-depth-50 -Wall -Wno-deprecated -msse2 -O3 -DNDEBUG -fPIC 
-I/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Review 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/gdcm/src 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/gdcm 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/vxl/core 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/vxl/vcl 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/vxl/v3p/netlib 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Numerics/Statistics 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/itkExtHdrs 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/nifti/znzlib 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/nifti/niftilib 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/expat 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/DICOMParser 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/NrrdIO 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/MetaIO 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/SpatialObject 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Numerics/NeuralNetworks 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Numerics/FEM 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/IO 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Numerics 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Common 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/BasicFilters 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Algorithms 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0 
-I/Users/bxd/BioImageXD/wrapITK-svn/Typedefs 
-I/System/Library/Frameworks/JavaVM.framework/Headers 
-I/System/Library/Frameworks/Python.framework/Headers 
-fno-strict-aliasing -o CMakeFiles/ITKPyBasePython.dir/wrap_pyBasePython.o 
-c 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase/wrap_pyBasePython.cpp
Linking CXX shared module ../../../lib/_ITKPyBasePython.so
cd /Users/bxd/BioImageXD/wrapITK-svn/Languages/Python/PyBase && 
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E cmake_link_script 
CMakeFiles/ITKPyBasePython.dir/link.txt --verbose=1
/usr/bin/c++   -arch i386 -isysroot /Developer/SDKs/MacOSX10.6.sdk 
-mmacosx-version-min=10.5   -ftemplate-depth-50 -Wall -Wno-deprecated 
-msse2 -O3 -DNDEBUG -bundle -headerpad_max_install_names   -o 
../../../lib/_ITKPyBasePython.so 
CMakeFiles/ITKPyBasePython.dir/ITKPyBasePython.o 
CMakeFiles/ITKPyBasePython.dir/wrap_pyBasePython.o 
-L/Users/bxd/BioImageXD/InsightToolkit-3.18.0/bin -framework Python
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Built target ITKPyBasePython
make -f Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseIdx.dir/build.make 
Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseIdx.dir/depend
cd /Users/bxd/BioImageXD/wrapITK-svn && "/Applications/CMake 
2.8-0.app/Contents/bin/cmake" -E cmake_depends "Unix Makefiles" 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseIdx.dir/DependInfo.cmake 
--color=
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseIdx.dir/DependInfo.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseIdx.dir/depend.internal".
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/CMakeDirectoryInformation.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseIdx.dir/depend.internal".
Scanning dependencies of target ITKJavaBaseIdx
make -f Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseIdx.dir/build.make 
Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseIdx.dir/build
make[2]: Nothing to be done for 
`Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseIdx.dir/build'.
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Built target ITKJavaBaseIdx
make -f Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseSwig.dir/build.make 
Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseSwig.dir/depend
cd /Users/bxd/BioImageXD/wrapITK-svn && "/Applications/CMake 
2.8-0.app/Contents/bin/cmake" -E cmake_depends "Unix Makefiles" 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseSwig.dir/DependInfo.cmake 
--color=
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseSwig.dir/DependInfo.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseSwig.dir/depend.internal".
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/CMakeDirectoryInformation.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseSwig.dir/depend.internal".
Scanning dependencies of target ITKJavaBaseSwig
make -f Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseSwig.dir/build.make 
Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseSwig.dir/build
make[2]: Nothing to be done for 
`Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseSwig.dir/build'.
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Built target ITKJavaBaseSwig
make -f Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJava.dir/build.make 
Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJava.dir/depend
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Generating ../Proxies/src/org/itk/itkjavabase/dummy
cd /Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase && 
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E make_directory 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/Proxies/src/org/itk/itkjavabase/dummy
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Generating Java wrap files for class org.itk.itkjavabase.javaBase
cd /Users/bxd/BioImageXD/wrapITK-svn/Typedefs/java && /usr/local/bin/swig 
-c++ -java -O -features autodoc=1 -package org.itk.itkjavabase -w508 -w312 
-w314 -w509 -w302 -w362 -w389 -w384 -w383 -w361 -w467 -w401 -w503 -w516 
-w303 -o 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/wrap_javaBaseJava.cpp 
-I/Users/bxd/BioImageXD/wrapITK-svn/Languages 
-I/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java 
-I/Users/bxd/BioImageXD/wrapITK-svn/Typedefs/java 
-I/Users/bxd/BioImageXD/wrapITK-svn/Typedefs -outdir 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/Proxies/src/org/itk/itkjavabase 
/Users/bxd/BioImageXD/wrapITK-svn/Typedefs/wrap_javaBase.i
cd /Users/bxd/BioImageXD/wrapITK-svn && "/Applications/CMake 
2.8-0.app/Contents/bin/cmake" -E cmake_depends "Unix Makefiles" 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJava.dir/DependInfo.cmake 
--color=
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJava.dir/DependInfo.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJava.dir/depend.internal".
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/CMakeDirectoryInformation.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJava.dir/depend.internal".
Scanning dependencies of target ITKJavaBaseJava
make -f Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJava.dir/build.make 
Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJava.dir/build
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Building CXX object 
Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJava.dir/wrap_javaBaseJava.o
cd /Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase && 
/usr/bin/c++   -DITKJavaBaseJava_EXPORTS -DSWIG_GLOBAL -arch i386 
-isysroot /Developer/SDKs/MacOSX10.6.sdk -mmacosx-version-min=10.5 
-ftemplate-depth-50 -Wall -Wno-deprecated -msse2 -O3 -DNDEBUG -fPIC 
-I/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Review 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/gdcm/src 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/gdcm 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/vxl/core 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/vxl/vcl 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/vxl/v3p/netlib 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Numerics/Statistics 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/itkExtHdrs 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/nifti/znzlib 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/nifti/niftilib 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/expat 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/DICOMParser 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/NrrdIO 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Utilities/MetaIO 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/SpatialObject 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Numerics/NeuralNetworks 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Numerics/FEM 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/IO 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Numerics 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Common 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/BasicFilters 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0/Code/Algorithms 
-I/Users/bxd/BioImageXD/InsightToolkit-3.18.0 
-I/Users/bxd/BioImageXD/wrapITK-svn/Typedefs 
-I/System/Library/Frameworks/JavaVM.framework/Headers 
-I/System/Library/Frameworks/Python.framework/Headers 
-fno-strict-aliasing -o CMakeFiles/ITKJavaBaseJava.dir/wrap_javaBaseJava.o 
-c 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/wrap_javaBaseJava.cpp
Linking CXX shared module ../../../lib/libITKJavaBaseJava.jnilib
cd /Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase && 
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E cmake_link_script 
CMakeFiles/ITKJavaBaseJava.dir/link.txt --verbose=1
/usr/bin/c++   -arch i386 -isysroot /Developer/SDKs/MacOSX10.6.sdk 
-mmacosx-version-min=10.5   -ftemplate-depth-50 -Wall -Wno-deprecated 
-msse2 -O3 -DNDEBUG -bundle -headerpad_max_install_names   -o 
../../../lib/libITKJavaBaseJava.jnilib 
CMakeFiles/ITKJavaBaseJava.dir/wrap_javaBaseJava.o 
-L/Users/bxd/BioImageXD/InsightToolkit-3.18.0/bin
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Built target ITKJavaBaseJava
make -f 
Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJavaJar.dir/build.make 
Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJavaJar.dir/depend
cd /Users/bxd/BioImageXD/wrapITK-svn && "/Applications/CMake 
2.8-0.app/Contents/bin/cmake" -E cmake_depends "Unix Makefiles" 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJavaJar.dir/DependInfo.cmake 
--color=
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJavaJar.dir/DependInfo.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJavaJar.dir/depend.internal".
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/CMakeDirectoryInformation.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJavaJar.dir/depend.internal".
Scanning dependencies of target ITKJavaBaseJavaJar
make -f 
Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJavaJar.dir/build.make 
Languages/Java/JavaBase/CMakeFiles/ITKJavaBaseJavaJar.dir/build
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Compiling java proxies: org.itk.itkjavabase
cd /Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase && 
/usr/bin/javac -classpath 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/Proxies/src/org/itk/itkjavabase:/Users/bxd/BioImageXD/wrapITK-svn/lib/org.itk.itkjavabase.jar: 
-d /Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/Proxies/src 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/Proxies/src/org/itk/itkjavabase/*.java
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Creating java archive: org.itk.itkjavabase.jar
cd /Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/Proxies/src && 
/usr/bin/jar -cmf 
/Users/bxd/BioImageXD/wrapITK-svn/Languages/Java/JavaBase/manifest 
/Users/bxd/BioImageXD/wrapITK-svn/lib/org.itk.itkjavabase.jar 
org/itk/itkjavabase/*
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Built target ITKJavaBaseJavaJar
make -f Libraries/VXLNumerics/CMakeFiles/VXLNumericsIdx.dir/build.make 
Libraries/VXLNumerics/CMakeFiles/VXLNumericsIdx.dir/depend
cd /Users/bxd/BioImageXD/wrapITK-svn && "/Applications/CMake 
2.8-0.app/Contents/bin/cmake" -E cmake_depends "Unix Makefiles" 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Libraries/VXLNumerics 
/Users/bxd/BioImageXD/wrapITK-svn 
/Users/bxd/BioImageXD/wrapITK-svn/Libraries/VXLNumerics 
/Users/bxd/BioImageXD/wrapITK-svn/Libraries/VXLNumerics/CMakeFiles/VXLNumericsIdx.dir/DependInfo.cmake 
--color=
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Libraries/VXLNumerics/CMakeFiles/VXLNumericsIdx.dir/DependInfo.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Libraries/VXLNumerics/CMakeFiles/VXLNumericsIdx.dir/depend.internal".
Dependee 
"/Users/bxd/BioImageXD/wrapITK-svn/Libraries/VXLNumerics/CMakeFiles/CMakeDirectoryInformation.cmake" 
is newer than depender 
"/Users/bxd/BioImageXD/wrapITK-svn/Libraries/VXLNumerics/CMakeFiles/VXLNumericsIdx.dir/depend.internal".
Scanning dependencies of target VXLNumericsIdx
make -f Libraries/VXLNumerics/CMakeFiles/VXLNumericsIdx.dir/build.make 
Libraries/VXLNumerics/CMakeFiles/VXLNumericsIdx.dir/build
"/Applications/CMake 2.8-0.app/Contents/bin/cmake" -E 
cmake_progress_report /Users/bxd/BioImageXD/wrapITK-svn/CMakeFiles
[  0%] Generating wrap_vcl_complex.xml
cd /Users/bxd/BioImageXD/wrapITK-svn/Libraries/VXLNumerics && 
/Users/bxd/BioImageXD/CableSwig-ITK-3.18.0/bin/gccxml -fxml-start=_cable_ 
-fxml=/Users/bxd/BioImageXD/wrapITK-svn/Libraries/VXLNumerics/wrap_vcl_complex.xml 
--gccxml-gcc-options 
/Users/bxd/BioImageXD/wrapITK-svn/Libraries/VXLNumerics/gcc_xml.inc 
-DCSWIG -DCABLE_CONFIGURATION -DITK_MANUAL_INSTANTIATION 
/Users/bxd/BioImageXD/wrapITK-svn/Libraries/VXLNumerics/wrap_vcl_complex.cxx
In file included from <built-in>:0:
<built-in>:0: internal compiler error: Bus error
Please submit a full bug report,
with preprocessed source if appropriate.
See <URL:http://gcc.gnu.org/bugs.html> for instructions.
make[2]: *** [Libraries/VXLNumerics/wrap_vcl_complex.xml] Error 4
make[1]: *** [Libraries/VXLNumerics/CMakeFiles/VXLNumericsIdx.dir/all] 
Error 2
make: *** [all] Error 2

Cheers,
Lassi

On Wed, 5 May 2010, Brad King wrote:

> Lassi Paavolainen wrote:
>> Now everytime I try to build wrapITK, it gets stuck in
>>
>> [ 0%] Generating wrap_vcl_complex.xml
>> In file included from <built-in>:0:
>> <built-in>:0: internal compiler error: Bus error
>
> As Gaëtan pointed out, this is the "gccxml" tool that gets built with
> CableSwig.  It looks like gcc is crashing because gccxml is actually
> a wrapper around a patched gcc parser.
>
> Please try "make VERBOSE=1" to see the full command line for the rule
> that leads to this crash.  Then post it.
>
> Thanks,
> -Brad

-- 
Lassi Paavolainen, M.Sc
Software Engineer, PhD Student in Computer Science
BioImageXD (http://www.bioimagexd.net)
University of Jyväskylä
lassi.paavolainen at jyu.fi

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