"Hdf-forum on behalf of Anton Shterenlikht" wrote:
Hi, I'm new to HDF5 and to this list.
I have identical problem on 2 different platforms:
- linux, hdf5-1.8.12, Intel 16.0.2 compiler, Intel MPI 1.6.5
- FreeBSD 11.0-RELEASE-p2, mpich-3.2_2, hdf5-1.10.0_1, gcc6-6.2.0 compiler
I build a third party library
which includes several HDF5 routines.
On both systems at link time I get:
undefined reference to `h5pset_fapl_mpio_f_'
undefined reference to `h5pset_dxpl_mpio_f_'
Is the HDF5 library you are linking to compiled *for* parallel? It *has* to
have been configured with --enable-parallel *and* also linked with MPI.
I suspect you don't have any MPI routines in your installations of HDF5. To
check, do this....
for file in `ls libhdf5*.a`; do nm $file |grep -i mpi; done
*Iff* it has been compiled for parallel, you should see a slew of symbols
like...
U _MPI_Allreduce
U _MPI_Barrier
U _MPI_Bcast
U _MPI_Comm_dup
U _MPI_Comm_free
U _MPI_Comm_rank
U _MPI_Comm_size
U _MPI_Error_string
U _MPI_File_close
U _MPI_File_get_atomicity
U _MPI_File_get_size
U _MPI_File_open
U _MPI_File_read_at
U _MPI_File_read_at_all
U _MPI_File_set_atomicity
U _MPI_File_set_size
U _MPI_File_set_view
U _MPI_File_sync
U _MPI_File_write_at
Otherwise, it wasn't compiled for parallel. Go back and re-configure and
re-compile it for parallel.
HTH
--
Mark C. Miller, LLNL
"You learn more about a man by what he says about
others than by what others say about him." AH
_______________________________________________
Hdf-forum is for HDF software users discussion.
[email protected]
http://lists.hdfgroup.org/mailman/listinfo/hdf-forum_lists.hdfgroup.org
Twitter: https://twitter.com/hdf5
