I'm preparing to migrate over to the new Ubuntu when it comes out.
I'm having the following issues compiling it:
The included VXL library doesnt compile, using the system version seems to fix this:
/usr/pubsw/packages/vxl/current/include/vxl/core/vnl/algo/vnl_symmetric_eigensystem.h:82:1: warning: keyword 'export' not implemented, and will be ignored export template <class T>
The inline functions MRIgetVoxVal ... should be defined in the .h file, they are not, I have to comment out the inline versions
../include/mri.h:313:15: warning: inline function 'MRIgetVoxVal' declared but never defined inline float MRIgetVoxVal(const MRI *mri, int c, int r, int s, int f);
The included ITK library doesnt have the cxx11 ABI ../utils/libutils.a(mriio_nrrd_itk.o): In function `itk::MemoryAllocationError::MemoryAllocationError(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)': /usr/pubsw/packages/itk/current/include/InsightToolkit/Common/itkExceptionObject.h:174: undefined reference to `itk::ExceptionObject::ExceptionObject(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)' ../utils/libutils.a(mriio_nrrd_itk.o):(.rodata._ZTVN3itk24ImageFileReaderExceptionE[_ZTVN3itk24ImageFileReaderExceptionE]+0x40): undefined reference to `itk::ExceptionObject::SetLocation(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)' ../utils/libutils.a(mriio_nrrd_itk.o):(.rodata._ZTVN3itk24ImageFileReaderExceptionE[_ZTVN3itk24ImageFileReaderExceptionE]+0x48): undefined reference to `itk::ExceptionObject::SetDescription(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)' ../utils/libutils.a(mriio_nrrd_itk.o):(.rodata._ZTVN3itk21MemoryAllocationErrorE[_ZTVN3itk21MemoryAllocationErrorE]+0x40): undefined reference to `itk::ExceptionObject::SetLocation(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)' ../utils/libutils.a(mriio_nrrd_itk.o):(.rodata._ZTVN3itk21MemoryAllocationErrorE[_ZTVN3itk21MemoryAllocationErrorE]+0x48): undefined reference to `itk::ExceptionObject::SetDescription(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)' ../utils/libutils.a(mriio_nrrd_itk.o): In function `itk::ImageFileReader<itk::Image<itk::DiffusionTensor3D<float>, 3u>, itk::DefaultConvertPixelTraits<itk::DiffusionTensor3D<float> > >::GenerateOutputInformation()': /usr/pubsw/packages/itk/current/include/InsightToolkit/IO/itkImageFileReader.txx:136: undefined reference to `itk::ObjectFactoryBase::CreateAllInstance[abi:cxx11](char const*)' ../utils/libutils.a(mriio_nrrd_itk.o): In function `itk::ImageFileReader<itk::Image<itk::DiffusionTensor3D<float>, 3u>, itk::DefaultConvertPixelTraits<itk::DiffusionTensor3D<float> > >::DoConvertBuffer(void*, unsigned long)': /usr/pubsw/packages/itk/current/include/InsightToolkit/IO/itkImageFileReader.txx:545: undefined reference to `itk::ImageIOBase::GetComponentTypeAsString[abi:cxx11](itk::ImageIOBase::IOComponentType) const' ../utils/libutils.a(numerics.o):(.rodata._ZTV8fs_lbfgs[_ZTV8fs_lbfgs]+0x28): undefined reference to `vnl_nonlinear_minimizer::is_a[abi:cxx11]() const' ../utils/libutils.a(numerics.o):(.rodata._ZTV8fs_lbfgs[_ZTV8fs_lbfgs]+0x30): undefined reference to `vnl_nonlinear_minimizer::is_class(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const' ../utils/libutils.a(numerics.o):(.rodata._ZTV9fs_powell[_ZTV9fs_powell]+0x28): undefined reference to `vnl_nonlinear_minimizer::is_a[abi:cxx11]() const' ../utils/libutils.a(numerics.o):(.rodata._ZTV9fs_powell[_ZTV9fs_powell]+0x30): undefined reference to `vnl_nonlinear_minimizer::is_class(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
Dr Chris Adamson Research Officer, Developmental Imaging, Murdoch Childrens Research Institute Murdoch Childrens Research Institute Royal Children's Hospital Flemington Road, Parkville, Victoria 3052, Australia www.mcri.edu.auhttp://www.mcri.edu.au/ E chris.adamson@mcri.edu.au T 03 9936 6780
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Is is a warning or an error?
Passing the --disable-Werror flag to the configure script will prevent the build from erroring out if it comes across a warning from the compiler. I havent testing on Ubuntu 15 but I will give it a shot early early next week.
-Zeke
I'm preparing to migrate over to the new Ubuntu when it comes out.
I'm having the following issues compiling it:
The included VXL library doesnt compile, using the system version seems to fix this:
/usr/pubsw/packages/vxl/current/include/vxl/core/vnl/algo/vnl_symmetric_eigensystem.h:82:1: warning: keyword 'export' not implemented, and will be ignored export template <class T>
The inline functions MRIgetVoxVal ... should be defined in the .h file, they are not, I have to comment out the inline versions
../include/mri.h:313:15: warning: inline function 'MRIgetVoxVal' declared but never defined inline float MRIgetVoxVal(const MRI *mri, int c, int r, int s, int f);
The included ITK library doesnt have the cxx11 ABI ../utils/libutils.a(mriio_nrrd_itk.o): In function `itk::MemoryAllocationError::MemoryAllocationError(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)': /usr/pubsw/packages/itk/current/include/InsightToolkit/Common/itkExceptionObject.h:174: undefined reference to `itk::ExceptionObject::ExceptionObject(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)' ../utils/libutils.a(mriio_nrrd_itk.o):(.rodata._ZTVN3itk24ImageFileReaderExceptionE[_ZTVN3itk24ImageFileReaderExceptionE]+0x40): undefined reference to `itk::ExceptionObject::SetLocation(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)' ../utils/libutils.a(mriio_nrrd_itk.o):(.rodata._ZTVN3itk24ImageFileReaderExceptionE[_ZTVN3itk24ImageFileReaderExceptionE]+0x48): undefined reference to `itk::ExceptionObject::SetDescription(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)' ../utils/libutils.a(mriio_nrrd_itk.o):(.rodata._ZTVN3itk21MemoryAllocationErrorE[_ZTVN3itk21MemoryAllocationErrorE]+0x40): undefined reference to `itk::ExceptionObject::SetLocation(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)' ../utils/libutils.a(mriio_nrrd_itk.o):(.rodata._ZTVN3itk21MemoryAllocationErrorE[_ZTVN3itk21MemoryAllocationErrorE]+0x48): undefined reference to `itk::ExceptionObject::SetDescription(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)' ../utils/libutils.a(mriio_nrrd_itk.o): In function `itk::ImageFileReader<itk::Image<itk::DiffusionTensor3D<float>, 3u>, itk::DefaultConvertPixelTraits<itk::DiffusionTensor3D<float> >
::GenerateOutputInformation()':
/usr/pubsw/packages/itk/current/include/InsightToolkit/IO/itkImageFileReader.txx:136: undefined reference to `itk::ObjectFactoryBase::CreateAllInstance[abi:cxx11](char const*)' ../utils/libutils.a(mriio_nrrd_itk.o): In function `itk::ImageFileReader<itk::Image<itk::DiffusionTensor3D<float>, 3u>, itk::DefaultConvertPixelTraits<itk::DiffusionTensor3D<float> >
::DoConvertBuffer(void*, unsigned long)':
/usr/pubsw/packages/itk/current/include/InsightToolkit/IO/itkImageFileReader.txx:545: undefined reference to `itk::ImageIOBase::GetComponentTypeAsString[abi:cxx11](itk::ImageIOBase::IOComponentType) const' ../utils/libutils.a(numerics.o):(.rodata._ZTV8fs_lbfgs[_ZTV8fs_lbfgs]+0x28): undefined reference to `vnl_nonlinear_minimizer::is_a[abi:cxx11]() const' ../utils/libutils.a(numerics.o):(.rodata._ZTV8fs_lbfgs[_ZTV8fs_lbfgs]+0x30): undefined reference to `vnl_nonlinear_minimizer::is_class(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const' ../utils/libutils.a(numerics.o):(.rodata._ZTV9fs_powell[_ZTV9fs_powell]+0x28): undefined reference to `vnl_nonlinear_minimizer::is_a[abi:cxx11]() const' ../utils/libutils.a(numerics.o):(.rodata._ZTV9fs_powell[_ZTV9fs_powell]+0x30): undefined reference to `vnl_nonlinear_minimizer::is_class(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
Dr Chris Adamson Research Officer, Developmental Imaging, Murdoch Childrens Research Institute Murdoch Childrens Research Institute Royal Children's Hospital Flemington Road, Parkville, Victoria 3052, Australia www.mcri.edu.auhttp://www.mcri.edu.au/ E chris.adamson@mcri.edu.au T 03 9936 6780
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