gb396@ribolla0:~/ge_to_issmrd_dir/ge_to_ismrmrd/build$ cmake -D CMAKE_INSTALL_PREFIX=$GE_TOOLS_HOME .. -- The C compiler identification is GNU 5.4.0 -- The CXX compiler identification is GNU 5.4.0 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found LibXslt: /usr/lib/x86_64-linux-gnu/libxslt.so (found version "1.1.28") -- Found LibXml2: /usr/lib/x86_64-linux-gnu/libxml2.so (found version "2.9.3") -- Found Ismrmrd: /home/gb396/ge_to_issmrd_dir/ismrmrd/include Finding library: libEpi.a Finding library: libEpiDiffusion.a Finding library: libEpiMultiPhase.a Finding library: libEpiReferenceScan.a Finding library: libEpiDistortionCorrection.a Finding library: libAsset.a Finding library: libScic.a Finding library: libPure1.a Finding library: libPure2.a Finding library: libArc.a Finding library: libCartesian2D.a Finding library: libCartesian3D.a Finding library: libBiasCorrection.a Finding library: libCalibration3D.a Finding library: libClariview.a Finding library: libGradwarp.a Finding library: libLegacy.a Finding library: libCore.a Finding library: libFlex.a Finding library: libCalibrationCommon.a Finding library: libFoundation.a Finding library: libAcquisition.a Finding library: libControl.a Finding library: libCommon.a Finding library: libCrucial.a Finding library: libDicom.a Finding library: libHdf5.a Finding library: libMath.a Finding library: libSystemServicesImplementation.a Finding library: libSystemServicesInterface.a Finding library: libSystem.a Finding library: libMoCo.a Finding library: libSpectroMultiVoxel.a Finding library: libSpectroMCSI.a Finding library: libSpectroMCSILegacy.a Finding library: libSpectroSingleVoxel.a Finding library: libFrameDownSampler.a Finding library: libTestSupport.a Orchestra Install Root: /home/gb396/orchestra-sdk-1.7-1/ Orchestra Top Dir: /home/gb396/orchestra-sdk-1.7-1//include/recon Orchestra Include Dir: /home/gb396/orchestra-sdk-1.7-1//include/recon/;/home/gb396/orchestra-sdk-1.7-1//include/lx/include/ Orchestra Include Dirs: /home/gb396/orchestra-sdk-1.7-1//include/recon/3p/Linux/;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/hdf5-1.8.12_dev_linux64/include;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/boost_1_55_0_dev_linux64/include;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/blitz-0.10_dev_linux64/include Orchestra Libraries: /home/gb396/orchestra-sdk-1.7-1//lib/libEpi.a;/home/gb396/orchestra-sdk-1.7-1//lib/libEpiDiffusion.a;/home/gb396/orchestra-sdk-1.7-1//lib/libEpiMultiPhase.a;/home/gb396/orchestra-sdk-1.7-1//lib/libEpiReferenceScan.a;/home/gb396/orchestra-sdk-1.7-1//lib/libEpiDistortionCorrection.a;/home/gb396/orchestra-sdk-1.7-1//lib/libAsset.a;/home/gb396/orchestra-sdk-1.7-1//lib/libScic.a;/home/gb396/orchestra-sdk-1.7-1//lib/libPure1.a;/home/gb396/orchestra-sdk-1.7-1//lib/libPure2.a;/home/gb396/orchestra-sdk-1.7-1//lib/libArc.a;/home/gb396/orchestra-sdk-1.7-1//lib/libCartesian2D.a;/home/gb396/orchestra-sdk-1.7-1//lib/libCartesian3D.a;/home/gb396/orchestra-sdk-1.7-1//lib/libBiasCorrection.a;/home/gb396/orchestra-sdk-1.7-1//lib/libCalibration3D.a;/home/gb396/orchestra-sdk-1.7-1//lib/libClariview.a;/home/gb396/orchestra-sdk-1.7-1//lib/libGradwarp.a;/home/gb396/orchestra-sdk-1.7-1//lib/libLegacy.a;/home/gb396/orchestra-sdk-1.7-1//lib/libCore.a;/home/gb396/orchestra-sdk-1.7-1//lib/libFlex.a;/home/gb396/orchestra-sdk-1.7-1//lib/libCalibrationCommon.a;/home/gb396/orchestra-sdk-1.7-1//lib/libFoundation.a;/home/gb396/orchestra-sdk-1.7-1//lib/libAcquisition.a;/home/gb396/orchestra-sdk-1.7-1//lib/libControl.a;/home/gb396/orchestra-sdk-1.7-1//lib/libCommon.a;/home/gb396/orchestra-sdk-1.7-1//lib/libCrucial.a;/home/gb396/orchestra-sdk-1.7-1//lib/libDicom.a;/home/gb396/orchestra-sdk-1.7-1//lib/libHdf5.a;/home/gb396/orchestra-sdk-1.7-1//lib/libMath.a;/home/gb396/orchestra-sdk-1.7-1//lib/libSystemServicesImplementation.a;/home/gb396/orchestra-sdk-1.7-1//lib/libSystemServicesInterface.a;/home/gb396/orchestra-sdk-1.7-1//lib/libSystem.a;/home/gb396/orchestra-sdk-1.7-1//lib/libMoCo.a;/home/gb396/orchestra-sdk-1.7-1//lib/libSpectroMultiVoxel.a;/home/gb396/orchestra-sdk-1.7-1//lib/libSpectroMCSI.a;/home/gb396/orchestra-sdk-1.7-1//lib/libSpectroMCSILegacy.a;/home/gb396/orchestra-sdk-1.7-1//lib/libSpectroSingleVoxel.a;/home/gb396/orchestra-sdk-1.7-1//lib/libFrameDownSampler.a;/home/gb396/orchestra-sdk-1.7-1//lib/libTestSupport.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/hdf5-1.8.12_dev_linux64/lib/libh5tools.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/hdf5-1.8.12_dev_linux64/lib/libhdf5_cpp.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/hdf5-1.8.12_dev_linux64/lib/libhdf5.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/dcmtk-3.6.0_dev_linux64/lib/libdcmdata.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/dcmtk-3.6.0_dev_linux64/lib/libdcmnet.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/dcmtk-3.6.0_dev_linux64/lib/liboflog.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/dcmtk-3.6.0_dev_linux64/lib/libofstd.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/fftw-3.2.2_dev_linux64/lib/libfftw3f.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/fftw-3.2.2_dev_linux64/lib/libfftw3.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/boost_1_55_0_dev_linux64/lib/libboost_date_time.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/boost_1_55_0_dev_linux64/lib/libboost_program_options.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/boost_1_55_0_dev_linux64/lib/libboost_filesystem.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/boost_1_55_0_dev_linux64/lib/libboost_regex.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/boost_1_55_0_dev_linux64/lib/libboost_serialization.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/boost_1_55_0_dev_linux64/lib/libboost_wserialization.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/boost_1_55_0_dev_linux64/lib/libboost_thread.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/boost_1_55_0_dev_linux64/lib/libboost_system.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/clapack-3.2.1_dev_linux64/lib/liblapack.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/clapack-3.2.1_dev_linux64/lib/libblas.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/clapack-3.2.1_dev_linux64/lib/libf2c.a;/home/gb396/orchestra-sdk-1.7-1/include/recon/3p/Linux/blitz-0.10_dev_linux64/lib/libblitz.a -- Found Orchestra: /home/gb396/orchestra-sdk-1.7-1//include/recon/;/home/gb396/orchestra-sdk-1.7-1//include/lx/include/ -- Found Doxygen: /usr/bin/doxygen (found version "1.8.11") -- Configuring done -- Generating done -- Build files have been written to: /home/gb396/ge_to_issmrd_dir/ge_to_ismrmrd/build gb396@ribolla0:~/ge_to_issmrd_dir/ge_to_ismrmrd/build$ make install Scanning dependencies of target p2i [ 9%] Building CXX object src/CMakeFiles/p2i.dir/GERawConverter.cpp.o [ 18%] Building CXX object src/CMakeFiles/p2i.dir/Plugin.cpp.o [ 27%] Linking CXX shared library libp2i.so [ 27%] Built target p2i Scanning dependencies of target pfile2ismrmrd [ 36%] Building CXX object src/CMakeFiles/pfile2ismrmrd.dir/main.cpp.o [ 45%] Linking CXX executable pfile2ismrmrd CMakeFiles/pfile2ismrmrd.dir/main.cpp.o: In function `boost::program_options::typed_value, std::allocator >, char>::xparse(boost::any&, std::vector, std::allocator >, std::allocator, std::allocator > > > const&) const': main.cpp:(.text._ZNK5boost15program_options11typed_valueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcE6xparseERNS_3anyERKSt6vectorIS7_SaIS7_EE[_ZNK5boost15program_options11typed_valueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcE6xparseERNS_3anyERKSt6vectorIS7_SaIS7_EE]+0x31): undefined reference to `boost::program_options::validate(boost::any&, std::vector, std::allocator >, std::allocator, std::allocator > > > const&, std::__cxx11::basic_string, std::allocator >*, int)' CMakeFiles/pfile2ismrmrd.dir/main.cpp.o: In function `boost::program_options::typed_value, std::allocator >, char>::name() const': main.cpp:(.text._ZNK5boost15program_options11typed_valueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcE4nameEv[_ZNK5boost15program_options11typed_valueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcE4nameEv]+0x38): undefined reference to `boost::program_options::arg[abi:cxx11]' main.cpp:(.text._ZNK5boost15program_options11typed_valueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcE4nameEv[_ZNK5boost15program_options11typed_valueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcE4nameEv]+0x3e): undefined reference to `boost::program_options::arg[abi:cxx11]' CMakeFiles/pfile2ismrmrd.dir/main.cpp.o: In function `boost::program_options::basic_command_line_parser::basic_command_line_parser(int, char const* const*)': main.cpp:(.text._ZN5boost15program_options25basic_command_line_parserIcEC2EiPKPKc[_ZN5boost15program_options25basic_command_line_parserIcEC5EiPKPKc]+0x2a0): undefined reference to `boost::program_options::to_internal(std::__cxx11::basic_string, std::allocator > const&)' main.cpp:(.text._ZN5boost15program_options25basic_command_line_parserIcEC2EiPKPKc[_ZN5boost15program_options25basic_command_line_parserIcEC5EiPKPKc]+0x32f): undefined reference to `boost::program_options::detail::cmdline::cmdline(std::vector, std::allocator >, std::allocator, std::allocator > > > const&)' CMakeFiles/pfile2ismrmrd.dir/main.cpp.o: In function `main': main.cpp:(.text.startup+0x2b1): undefined reference to `boost::program_options::options_description::options_description(std::__cxx11::basic_string, std::allocator > const&, unsigned int, unsigned int)' main.cpp:(.text.startup+0x4f1): undefined reference to `boost::program_options::options_description::options_description(std::__cxx11::basic_string, std::allocator > const&, unsigned int, unsigned int)' main.cpp:(.text.startup+0x578): undefined reference to `boost::program_options::options_description::options_description(std::__cxx11::basic_string, std::allocator > const&, unsigned int, unsigned int)' main.cpp:(.text.startup+0x5dd): undefined reference to `boost::program_options::options_description::options_description(std::__cxx11::basic_string, std::allocator > const&, unsigned int, unsigned int)' CMakeFiles/pfile2ismrmrd.dir/main.cpp.o:(.rodata._ZTVN5boost15program_options11typed_valueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcEE[_ZTVN5boost15program_options11typed_valueINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEEcEE]+0x38): undefined reference to `boost::program_options::value_semantic_codecvt_helper::parse(boost::any&, std::vector, std::allocator >, std::allocator, std::allocator > > > const&, bool) const' libp2i.so: undefined reference to `GERecon::Control::ParamKey::ParamKey(std::__cxx11::basic_string, std::allocator > const&)' libp2i.so: undefined reference to `GERecon::AnonymizationPolicy::AnonymizationPolicy(GERecon::AnonymizationPolicy::Mode, unsigned short, std::__cxx11::basic_string, std::allocator > const&, std::__cxx11::basic_string, std::allocator > const&)' libp2i.so: undefined reference to `GESystem::TraceDetails::TraceArgument, std::allocator > >::~TraceArgument()' libp2i.so: undefined reference to `GESystem::TraceDetails::TraceArgument, std::allocator > >::TraceArgument(std::__cxx11::basic_string, std::allocator > const&)' libp2i.so: undefined reference to `GEDicom::UID::Create[abi:cxx11](GEDicom::UID::Type)' libp2i.so: undefined reference to `GESystem::AnyException::AnyException(std::__cxx11::basic_string, std::allocator > const&)' libp2i.so: undefined reference to `GESystem::TraceDetails::PrintArgument::Argument[abi:cxx11]() const' libp2i.so: undefined reference to `GESystem::TraceEntry::FilteredFormatString[abi:cxx11]() const' collect2: error: ld returned 1 exit status src/CMakeFiles/pfile2ismrmrd.dir/build.make:159: recipe for target 'src/pfile2ismrmrd' failed make[2]: *** [src/pfile2ismrmrd] Error 1 CMakeFiles/Makefile2:124: recipe for target 'src/CMakeFiles/pfile2ismrmrd.dir/all' failed make[1]: *** [src/CMakeFiles/pfile2ismrmrd.dir/all] Error 2 Makefile:127: recipe for target 'all' failed make: *** [all] Error 2