[vtk-developers] can't link to MPI libraries when building on Ubuntu 15.04, VTK6.3

[Chaffra Affouda]

Utkarsh,

Yes I am:
I built with -DUSE_SYSTEM_HDF5=ON. Should I be doing something else?

Chaffra

On 09/14/2015 10:56 AM, Utkarsh Ayachit wrote:
> Chaffra,
>
> Are you by any change using system HDF5?
>
> Utkarsh
>
> On Mon, Sep 14, 2015 at 8:46 AM, Chaffra Affouda <chaffra at gmail.com> wrote:
>> Hi,
>>
>> I am getting a lot of undefined references when linking. I know it is not
>> linking to MPI or the right MPI but I cannot see how.
>> I have openmpi installed and mpicc is pointing to the openmpi version. Can
>> any reproduce or help? Error is below
>>
>> Thanks,
>> Chaffra
>>
>>     Linking CXX shared library ../../lib/libvtkIOAMR-6.3.so
>>     CMakeFiles/vtkIOAMR.dir/vtkAMREnzoParticlesReader.cxx.o: In function
>> `MPI::Op::Init(void (*)(void const*, void*, int, MPI::Datatype const&),
>> bool)':
>> vtkAMREnzoParticlesReader.cxx:(.text._ZN3MPI2Op4InitEPFvPKvPviRKNS_8DatatypeEEb[_ZN3MPI2Op4InitEPFvPKvPviRKNS_8DatatypeEEb]+0x15):
>> undefined reference to `ompi_mpi_cxx_op_intercept'
>>     CMakeFiles/vtkIOAMR.dir/vtkAMREnzoParticlesReader.cxx.o: In function
>> `MPI::Intracomm::Create_graph(int, int const*, int const*, bool) const':
>> vtkAMREnzoParticlesReader.cxx:(.text._ZNK3MPI9Intracomm12Create_graphEiPKiS2_b[_ZNK3MPI9Intracomm12Create_graphEiPKiS2_b]+0x39):
>> undefined reference to `MPI::Comm::Comm()'
>>     CMakeFiles/vtkIOAMR.dir/vtkAMREnzoParticlesReader.cxx.o: In function
>> `MPI::Graphcomm::Clone() const':
>> vtkAMREnzoParticlesReader.cxx:(.text._ZNK3MPI9Graphcomm5CloneEv[_ZNK3MPI9Graphcomm5CloneEv]+0x35):
>> undefined reference to  `MPI::Comm::Comm()'
>>     CMakeFiles/vtkIOAMR.dir/vtkAMREnzoParticlesReader.cxx.o: In function
>> `MPI::Cartcomm::Clone() const':
>> vtkAMREnzoParticlesReader.cxx:(.text._ZNK3MPI8Cartcomm5CloneEv[_ZNK3MPI8Cartcomm5CloneEv]+0x35):
>> undefined reference to   `MPI::Comm::Comm()'
>>     CMakeFiles/vtkIOAMR.dir/vtkAMREnzoParticlesReader.cxx.o: In function
>> `MPI::Intercomm::Merge(bool) const':
>> vtkAMREnzoParticlesReader.cxx:(.text._ZNK3MPI9Intercomm5MergeEb[_ZNK3MPI9Intercomm5MergeEb]+0x37):
>> undefined reference to  `MPI::Comm::Comm()'
>>     CMakeFiles/vtkIOAMR.dir/vtkAMREnzoParticlesReader.cxx.o: In function
>> `MPI::Intracomm::Create(MPI::Group const&) const':
>> vtkAMREnzoParticlesReader.cxx:(.text._ZNK3MPI9Intracomm6CreateERKNS_5GroupE[_ZNK3MPI9Intracomm6CreateERKNS_5GroupE]+0x3a):
>> undefined    reference to `MPI::Comm::Comm()'
>> CMakeFiles/vtkIOAMR.dir/vtkAMREnzoParticlesReader.cxx.o:vtkAMREnzoParticlesReader.cxx:
>> (.text._ZNK3MPI9Intracomm5SplitEii[_ZNK3MPI9Intracomm5SplitEii]+0x36): more
>> undefined references to `MPI::Comm::Comm()' follow
>> CMakeFiles/vtkIOAMR.dir/vtkAMREnzoParticlesReader.cxx.o:(.data.rel.ro._ZTVN3MPI8DatatypeE[_ZTVN3MPI8DatatypeE]+0x78):
>> undefined reference to `    MPI::Datatype::Free()'
>> CMakeFiles/vtkIOAMR.dir/vtkAMREnzoParticlesReader.cxx.o:(.data.rel.ro._ZTVN3MPI3WinE[_ZTVN3MPI3WinE]+0x48):
>> undefined reference to  `MPI::Win::Free()'
>>     collect2: error: ld returned 1 exit status
>>     IO/AMR/CMakeFiles/vtkIOAMR.dir/build.make:363: recipe for target
>> 'lib/libvtkIOAMR-6.3.so.1' failed
>> make[2]: *** [lib/libvtkIOAMR-6.3.so.1] Error 1
>>     CMakeFiles/Makefile2:6388: recipe for target
>> 'IO/AMR/CMakeFiles/vtkIOAMR.dir/all' failed
>> make[1]: *** [IO/AMR/CMakeFiles/vtkIOAMR.dir/all] Error 2
>> Makefile:107: recipe for target 'all' failed
>> make: *** [all] Error 2
>>
>> _______________________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at
>> http://www.kitware.com/opensource/opensource.html
>>
>> Search the list archives at: http://markmail.org/search/?q=vtk-developers
>>
>> Follow this link to subscribe/unsubscribe:
>> http://public.kitware.com/mailman/listinfo/vtk-developers
>>