MPI_Type_create_hindexed errors from PNetCDF 1.7.0

[Wei-keng Liao]

Hi, Carl

I can reproduce the error message you are seeing.
After some digging, I found the cause comes from OpenMPI.

That PnetCDF test program will internally make a call to
MPI_Type_create_hindexed to create a filetype of zero length and
pass it to MPI_File_set_view which flattens the filetype without
checking whether the length is zero and hence generates the error message.

FYI. MPICH handles this case just fine.

I have added a check in PnetCDF to skip that calling MPI_Type_create_hindexed
to avoid this problem. See the SVN revision 2406.
http://trac.mcs.anl.gov/projects/parallel-netcdf/changeset/2406

Thanks for reporting the error.

Wei-keng

On Apr 23, 2016, at 6:25 PM, Carl Ponder wrote:

> On 05/27/2015 05:41 PM, Carl Ponder wrote:
>> Here are some oddities from the "make check" that I ran:
>> ./nf_test       -d .
>> rank 0: MPI error (MPI_File_delete) : MPI_ERR_IO: input/output error
>> rank 0: MPI error (MPI_File_delete) : MPI_ERR_IO: input/output error
>> *** TESTING F77 ./nf_test for CDF-1                                ------ pass
> On 05/27/2015 06:41 PM, Wei-keng Liao wrote
>> Those MPI error messages are expected if you are using OpenMPI or older versions of MPICH.
>> This error happens when trying to delete a non-existing file.
>> A correct MPI implementation should return MPI_ERR_NO_SUCH_FILE, instead of MPI_ERR_IO.
>> This has been fixed in the MPI-IO part of the latest MPICH release.
>> OpenMPI is copying the MPI-IO part of MPICH and has not updated to the latest yet.
>> You can safely ignore those error messages.
>> 
> With the 1.7.0 release of PNetCDF, I've started getting there errors from the "make check":
> ./nctst        ./testfile.nc
> [ivb106:6511] *** An error occurred in MPI_Type_create_hindexed
> [ivb106:6511] *** reported by process [46912098861057,46909632806912]
> [ivb106:6511] *** on communicator MPI_COMM_WORLD
> [ivb106:6511] *** MPI_ERR_ARG: invalid argument of some other kind
> [ivb106:6511] *** MPI_ERRORS_ARE_FATAL (processes in this communicator will now abort,
> [ivb106:6511] ***    and potentially your MPI job)
> *** TESTING C++ ./nctst for APIs with different netCDF formats     ------ make[2]: [testing] Error 13 (ignored)
> 
> ./tst_f90      ./testfile.nc
> [ivb106:7079] *** An error occurred in MPI_Type_create_hindexed
> [ivb106:7079] *** reported by process [46912052199425,46909632806912]
> [ivb106:7079] *** on communicator MPI_COMM_WORLD
> [ivb106:7079] *** MPI_ERR_ARG: invalid argument of some other kind
> [ivb106:7079] *** MPI_ERRORS_ARE_FATAL (processes in this communicator will now abort,
> [ivb106:7079] ***    and potentially your MPI job)
> make[2]: [testing] Error 13 (ignored)
> It looks like the 1.6.1 release passed the same:
> ./nctst        ./testfile.nc
> *** TESTING C++ ./nctst for APIs with different netCDF formats     ------ pass
> 
> ./tst_f90      ./testfile.nc
> *** TESTING F90 ./tst_f90                                          ------ pass
> Can you tell me what the issue is here? I'm using OpenMPI 1.10.2 in both cases.
> The error happens when I use the Intel 15.0, GCC 4.8.5 and PGI 16.4 compilers, so I don't believe the compiler is the problem.
> Thanks,
> 
>                     Carl Ponder
> 
> 
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