Hello,
I am trying to build parallel hdf5 1.8.12 on RHEL6.4 using the Intel compilers
(C icc and Fortran ifort) and the IntelMPI 4.1.0 (which are included in the
Intel Cluster Studio XE 2013). Everything configured and compiled okay,
although I am getting failures when running "make check", specifically in
"testpar/testphdf5". The error message is the following:
...
Testing -- test cause for broken collective io (nocolcause)
Testing -- test cause for broken collective io (nocolcause)
Testing -- test cause for broken collective io (nocolcause)
Testing -- test cause for broken collective io (nocolcause)
Testing -- test cause for broken collective io (nocolcause)
Testing -- test cause for broken collective io (nocolcause)
Fatal error in PMPI_Barrier: Invalid communicator, error stack:
PMPI_Barrier(949): MPI_Barrier(comm=0x0) failed
PMPI_Barrier(903): Invalid communicator
Fatal error in PMPI_Barrier: Invalid communicator, error stack:
PMPI_Barrier(949): MPI_Barrier(comm=0x0) failed
PMPI_Barrier(903): Invalid communicator
Fatal error in PMPI_Barrier: Invalid communicator, error stack:
PMPI_Barrier(949): MPI_Barrier(comm=0x0) failed
PMPI_Barrier(903): Invalid communicator
Fatal error in PMPI_Barrier: Invalid communicator, error stack:
PMPI_Barrier(949): MPI_Barrier(comm=0x0) failed
PMPI_Barrier(903): Invalid communicator
Fatal error in PMPI_Barrier: Invalid communicator, error stack:
PMPI_Barrier(949): MPI_Barrier(comm=0x0) failed
PMPI_Barrier(903): Invalid communicator
Fatal error in PMPI_Barrier: Invalid communicator, error stack:
PMPI_Barrier(949): MPI_Barrier(comm=0x0) failed
PMPI_Barrier(903): Invalid communicator
...
I have managed to narrow it down - this error is generated when the MPIPOSIX
driver is used (I think it's in the call to H5Pset_fapl_mpiposix() itself).
The "nocolcause" test is in the function "no_collective_cause_tests" in file
"testpar/t_dest.c". When I comment out the two lines in this function that set
the "TEST_SET_MPIPOSIX" flag, thus skipping the MPIPOSIX test, everything else
checks successfully.
I am very new to HDF5, and to parallel io at all, so any help with this issue
will be much appreciated.
Thanks,
Boyan
PS: While poking about it, I found an inconsequential bug in testpar/t_dest.c
on line 3681 (in the same function): the line is
MPI_Comm_size(MPI_COMM_WORLD, &mpi_rank);
while it should be
MPI_Comm_rank(MPI_COMM_WORLD, &mpi_rank);
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