[petsc-users] Problem with running HDF5 example

[Barry Smith]

  Did you ./configure PETSc with the option --download-hdf5 or the option --with-hdf5-dir=directoryname ?

   PETSc must be configured with hdf5 in a similar way to that it needs to be configured with hypre to use hypre

   Barry

On Sep 6, 2011, at 7:13 PM, Mohamad M. Nasr-Azadani wrote:

> Hi guys, 
> 
> I was trying to run the example on HDF5, 
> http://www.mcs.anl.gov/petsc/petsc-as/snapshots/petsc-3.1/src/dm/da/examples/tutorials/ex10.c.html
> 
> But I could not. 
> This is what I get: 
> ***************
> >>make PETSC_DIR=/home/mmnasr/Softwares/petsc-3.1-p7 PETSC_ARCH=linux-gnu-c-opt ex10
> 
> /home/mmnasr/Softwares/petsc-3.1-p7/linux-gnu-c-opt/bin/mpicc -o ex10.o -c -Wall -Wwrite-strings -Wno-strict-aliasing -O -I/home/mmnasr/Softwares/petsc-3.1-p7/linux-gnu-c-opt/include -I/home/mmnasr/Softwares/petsc-3.1-p7/include -I/home/mmnasr/Softwares/petsc-3.1-p7/linux-gnu-c-opt/include -D__INSDIR__=src/dm/da/examples/tutorials/ ex10.c
> /home/mmnasr/Softwares/petsc-3.1-p7/linux-gnu-c-opt/bin/mpicc -Wall -Wwrite-strings -Wno-strict-aliasing -O  -o ex10 ex10.o  -Wl,-rpath,/home/mmnasr/Softwares/petsc-3.1-p7/linux-gnu-c-opt/lib -L/home/mmnasr/Softwares/petsc-3.1-p7/linux-gnu-c-opt/lib -lpetsc    -Wl,-rpath,/home/mmnasr/Softwares/petsc-3.1-p7/linux-gnu-c-opt/lib -L/home/mmnasr/Softwares/petsc-3.1-p7/linux-gnu-c-opt/lib -lml -lmpichcxx -lstdc++ -lHYPRE -lmpichcxx -lstdc++ -lflapack -lfblas -lnsl -lrt -L/home/mmnasr/Softwares/petsc-3.1-p7/linux-gnu-c-opt/lib -L/usr/lib/gcc/x86_64-linux-gnu/4.4.5 -L/usr/lib/x86_64-linux-gnu -ldl -lmpich -lpthread -lrt -lgcc_s -lmpichf90 -lgfortran -lm -lm -lmpichcxx -lstdc++ -lmpichcxx -lstdc++ -ldl -lmpich -lpthread -lrt -lgcc_s -ldl 
> ex10.o: In function `main':
> ex10.c:(.text+0x3b7): undefined reference to `PetscViewerHDF5Open'
> collect2: ld returned 1 exit status
> make: [ex10] Error 1 (ignored)
> /bin/rm -f -f ex10.o
> 
> ************
> It seems that it does not find the compiled library and/or header files for it. Any ideas?
> 
> Thanks, 
> Mohamad
>