[ITK] Compilation errors

[Apoorva Ajay]

Hi Matt,

I followed same instructions when building ITK. Initially "BUILD_SHARED_LIBS" was not enabled. I tried enabling this in ccmake and tried rebuilding. I get a build error that says:

/usr/bin/ld: CMakeFiles/ITKIOHDF5.dir/itkHDF5ImageIO.cxx.o: relocation R_X86_64_PC32 against undefined symbol `H5::DataType::fromClass() const' can not be used when making a shared object; recompile with -fPIC
 
Kindly let me know how to resolve this.

Thanks and Regards,
Apoorva.D.A
________________________________________
From: Matt McCormick <matt.mccormick at kitware.com>
Sent: Wednesday, August 9, 2017 12:55 PM
To: Apoorva Ajay
Cc: community at itk.org
Subject: Re: [ITK] Compilation errors

Hello Apoorva,

Welcome to ITK!


These messages indicate possible issues with the CMake configuration.


For more information, see the "Configuring and Building ITK" section
of the ITK Software Guide:

  https://itk.org/ITKSoftwareGuide/html/Book1/ITKSoftwareGuide-Book1ch2.html#x22-130002

and find a downloadable HelloWorld example that includes the CMake
configuration here:

  https://itk.org/ITKExamples/src/Core/Common/BuildAHelloWorldProgram/Documentation.html


Hope this helps,
Matt

On Wed, Aug 9, 2017 at 1:32 PM, Apoorva Ajay
<Apoorva.Ajay at utsouthwestern.edu> wrote:
> Hi,
>
>
> I come across this error when I try executing a HelloWorld example program
> on linux. Kindly help me resolve it.
>
>
> Linking CXX executable HelloWorld
> /ITK-sandbox/ITK-build/bin/lib/libITKCommon-4.12.a(itkDynamicLoader.cxx.o):
> In function `itk::DynamicLoader::GetSymbolAddress(void*, char const*)':
> itkDynamicLoader.cxx:(.text+0xfa): undefined reference to
> `itksys::DynamicLoader::GetSymbolAddress(void*, std::basic_string<char,
> std::char_traits<char>, std::allocator<char> > const&)'
> /ITK-sandbox/ITK-build/bin/lib/libITKCommon-4.12.a(itkDynamicLoader.cxx.o):
> In function `itk::DynamicLoader::OpenLibrary(char const*)':
> itkDynamicLoader.cxx:(.text+0x18e): undefined reference to
> `itksys::DynamicLoader::OpenLibrary(std::basic_string<char,
> std::char_traits<char>, std::allocator<char> > const&)'
> /ITK-sandbox/ITK-build/bin/lib/libITKCommon-4.12.a(itkDynamicLoader.cxx.o):
> In function `itk::DynamicLoader::LastError()':
> itkDynamicLoader.cxx:(.text+0x51): undefined reference to
> `itksys::DynamicLoader::LastError()'
> /ITK-sandbox/ITK-build/bin/lib/libITKCommon-4.12.a(itkDynamicLoader.cxx.o):
> In function `itk::DynamicLoader::CloseLibrary(void*)':
> itkDynamicLoader.cxx:(.text+0x61): undefined reference to
> `itksys::DynamicLoader::CloseLibrary(void*)'
> /ITK-sandbox/ITK-build/bin/lib/libITKCommon-4.12.a(itkMultiThreader.cxx.o):
> In function `global constructors keyed to itkMultiThreader.cxx':
> itkMultiThreader.cxx:(.text+0x122): undefined reference to
> `itksys::SystemToolsManager::SystemToolsManager()'
> itkMultiThreader.cxx:(.text+0x129): undefined reference to
> `itksys::SystemToolsManager::~SystemToolsManager()'
> /ITK-sandbox/ITK-build/bin/lib/libITKCommon-4.12.a(itkMultiThreader.cxx.o):
> In function `itk::MultiThreader::GetGlobalDefaultUseThreadPool()':
> itkMultiThreader.cxx:(.text+0x3b5): undefined reference to
> `itksys::SystemTools::GetEnv(char const*, std::basic_string<char,
> std::char_traits<char>, std::allocator<char> >&)'
> itkMultiThreader.cxx:(.text+0x3c4): undefined reference to
> `itksys::SystemTools::UpperCase(std::basic_string<char,
> std::char_traits<char>, std::allocator<char> > const&)'
> /ITK-sandbox/ITK-build/bin/lib/libITKCommon-4.12.a(itkMultiThreader.cxx.o):
> In function `itk::MultiThreader::GetGlobalDefaultNumberOfThreads()':
> itkMultiThreader.cxx:(.text+0x6bd): undefined reference to
> `itksys::SystemTools::GetEnv(char const*, std::basic_string<char,
> std::char_traits<char>, std::allocator<char> >&)'
> itkMultiThreader.cxx:(.text+0xa45): undefined reference to
> `itksys::SystemTools::GetEnv(char const*, std::basic_string<char,
> std::char_traits<char>, std::allocator<char> >&)'
> /ITK-sandbox/ITK-build/bin/lib/libITKCommon-4.12.a(itkDirectory.cxx.o): In
> function `itk::Directory::~Directory()':
> itkDirectory.cxx:(.text+0x7c): undefined reference to
> `itksys::Directory::~Directory()'
> /ITK-sandbox/ITK-build/bin/lib/libITKCommon-4.12.a(itkDirectory.cxx.o): In
> function `itk::Directory::Directory()':
> itkDirectory.cxx:(.text+0x11a): undefined reference to
> `itksys::Directory::Directory()'
>
> /ITK-sandbox/ITK-build/bin/lib/libITKCommon-4.12.a(itkDirectory.cxx.o): In
> function `itk::Directory::Load(char const*)':
> itkDirectory.cxx:(.text+0x18b): undefined reference to
> `itksys::Directory::Load(std::basic_string<char, std::char_traits<char>,
> std::allocator<char> > const&)'
> /ITK-sandbox/ITK-build/bin/lib/libITKCommon-4.12.a(itkDirectory.cxx.o): In
> function `itk::Directory::PrintSelf(std::basic_ostream<char,
> std::char_traits<char> >&, itk::Indent) const':
> itkDirectory.cxx:(.text+0x227): undefined reference to
> `itksys::Directory::GetPath() const'
> itkDirectory.cxx:(.text+0x2b3): undefined reference to
> `itksys::Directory::GetNumberOfFiles() const'
> itkDirectory.cxx:(.text+0x30d): undefined reference to
> `itksys::Directory::GetFile(unsigned long) const'
> /ITK-sandbox/ITK-build/bin/lib/libITKCommon-4.12.a(itkDirectory.cxx.o): In
> function `itk::Directory::GetFile(unsigned int)':
> itkDirectory.cxx:(.text+0x37): undefined reference to
> `itksys::Directory::GetFile(unsigned long) const'
> /ITK-sandbox/ITK-build/bin/lib/libITKCommon-4.12.a(itkDirectory.cxx.o): In
> function `itk::Directory::GetNumberOfFiles()':
> itkDirectory.cxx:(.text+0x45): undefined reference to
> `itksys::Directory::GetNumberOfFiles() const'
> collect2: ld returned 1 exit status
> make[2]: *** [HelloWorld] Error 1
> make[1]: *** [CMakeFiles/HelloWorld.dir/all] Error 2
> make: *** [all] Error 2
>
> Thanks and Regards,
>
> Apoorva.D.A
>
>
>
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