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IDProjectCategoryView StatusDate SubmittedLast Update
0016814ParaView(No Category)public2016-08-10 17:322016-08-12 10:00
ReporterOrion Poplawski 
Assigned ToKitware Robot 
PrioritynormalSeverityminorReproducibilityhave not tried
StatusclosedResolutionmoved 
PlatformOSOS Version
Product Version5.1 
Target VersionFixed in Version 
ProjectTBD
Topic Name
Typeincorrect functionality
Summary0016814: libvtkIOAMR.so fails to build with MPI version of HDF5
DescriptionIn my Fedora builds of paraview 5.1.2, I'm finally properly building against the MPI version of HDF5 to fix a compile error with Xdmf2 when I didn't. However, this is leading to a build failure of libvtkIOAMR.so:

/usr/bin/g++ -fPIC -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m64 -mtune=generic -O2 -g -DNDEBUG -Wl,--no-undefined -lc -Wl,-z,relro -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -shared -Wl,-soname,libvtkIOAMR.so.1 -o ../../../lib/libvtkIOAMR.so.1 CMakeFiles/vtkIOAMR.dir/vtkAMRDataSetCache.cxx.o CMakeFiles/vtkIOAMR.dir/vtkAMRBaseParticlesReader.cxx.o CMakeFiles/vtkIOAMR.dir/vtkAMRBaseReader.cxx.o CMakeFiles/vtkIOAMR.dir/vtkAMREnzoParticlesReader.cxx.o CMakeFiles/vtkIOAMR.dir/vtkAMREnzoReader.cxx.o CMakeFiles/vtkIOAMR.dir/vtkAMREnzoReaderInternal.cxx.o CMakeFiles/vtkIOAMR.dir/vtkAMRFlashParticlesReader.cxx.o CMakeFiles/vtkIOAMR.dir/vtkAMRFlashReader.cxx.o CMakeFiles/vtkIOAMR.dir/vtkAMRFlashReaderInternal.cxx.o ../../../lib/libvtkFiltersAMR.so.1 ../../../lib/libvtkParallelCore.so.1 /usr/lib64/openmpi/lib/libhdf5.so -lz -ldl -lm /usr/lib64/openmpi/lib/libhdf5_hl.so ../../../lib/libvtkIOLegacy.so.1 ../../../lib/libvtkIOCore.so.1 ../../../lib/libvtkFiltersGeneral.so.1 ../../../lib/libvtkCommonComputationalGeometry.so.1 ../../../lib/libvtkFiltersCore.so.1 ../../../lib/libvtkCommonExecutionModel.so.1 ../../../lib/libvtkCommonDataModel.so.1 ../../../lib/libvtkCommonMisc.so.1 ../../../lib/libvtkCommonSystem.so.1 ../../../lib/libvtksys.so.1 -ldl ../../../lib/libvtkCommonTransforms.so.1 ../../../lib/libvtkCommonMath.so.1 ../../../lib/libvtkCommonCore.so.1 -Wl,-rpath,/builddir/build/BUILD/ParaView-v5.1.2/fedora-openmpi/lib:/usr/lib64/openmpi/lib:
CMakeFiles/vtkIOAMR.dir/vtkAMREnzoParticlesReader.cxx.o: In function `MPI::Win::Set_name(char const*)':
/usr/include/openmpi-x86_64/openmpi/ompi/mpi/cxx/win_inln.h:293: undefined reference to `MPI_Win_set_name'
CMakeFiles/vtkIOAMR.dir/vtkAMREnzoParticlesReader.cxx.o: In function `MPI::Win::Set_attr(int, void const*)':
/usr/include/openmpi-x86_64/openmpi/ompi/mpi/cxx/win_inln.h:286: undefined reference to `MPI_Win_set_attr'

and lots more. It looks like anything that builds against hdf5 in MPI mode will need to link against the MPI libraries as well. This is what the vtkxdmf2 module appears to do.
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Issue History
Date ModifiedUsernameFieldChange
2016-08-10 17:32Orion PoplawskiNew Issue
2016-08-12 10:00Kitware RobotNote Added: 0039116
2016-08-12 10:00Kitware RobotStatusbacklog => closed
2016-08-12 10:00Kitware RobotResolutionopen => moved
2016-08-12 10:00Kitware RobotAssigned To => Kitware Robot

Notes
(0039116)
Kitware Robot   
2016-08-12 10:00   
Resolving issue as `moved`.

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