I suspect that it is an issue with the impi implementation. I have not been able to compile your code on our systems due to various compilation errors (this is using a different compiler as I don’t have access to impi). Have you tried using mpich (or some other mpi implementation) instead to see if that works? Also, have you tried using 1.10.0?
Scot On Jul 23, 2016, at 1:12 PM, victor sv <[email protected]<mailto:[email protected]>> wrote: Hi again, In order to help to understand what is happening, I've implemented and example using the HDF5 library. You can see it in the following link: https://github.com/victorsndvg/XH5For/blob/master/src/examples/hdf5_performance_test/ch_unstructured_hexahedron_perf.f90 I've compiled and launched it reproducing the previous mail and I'm getting the same behavior/errors with the new code. I also compiled and linked against HDF5 1.8.17 by myself with the same results. I'm not using any tunning hint ... this could be the problem? Thanks! Víctor 2016-07-19 11:08 GMT+02:00 victor sv <[email protected]<mailto:[email protected]>>: Hi all, I'm developing XH5For<https://github.com/victorsndvg/XH5For>, an OO fortran light-weight XDMF/HDF5 layer, and now I would like to test its scalability, but I'm lost with an issue that i'm getting. I'm going to try to explain it as best as I can. I'm performing some weak scalability tests on Marenostrum III<http://www.bsc.es/user-support/mn3.php> (GPFS file system) using Collective Writing with the Contiguous HyperSlab strategy. I'm running tests with 1, 16, 32, 64, 128, 256, 512, 1024 and 2048 MPI tasks. All seems to work as expected except for the 2048 MPI tasks test, where I think I'm getting an MPI interlock (it's still running without doing anything till the job time exceeds and the job is killed). After that, i try to reproduce an error with a number of MPI tasks between 1024-2048, and I could get the following error message while launching a smaller size job, with 1164 MPI tasks: HDF5-DIAG: Error detected in HDF5 (1.8.16) MPI-process 1009: #000: H5Dio.c line 271 in H5Dwrite(): can't prepare for writing data major: Dataset minor: Write failed #001: H5Dio.c line 352 in H5D__pre_write(): can't write data major: Dataset minor: Write failed #002: H5Dio.c line 789 in H5D__write(): can't write data major: Dataset minor: Write failed #003: H5Dmpio.c line 529 in H5D__contig_collective_write(): couldn't finish shared collective MPI-IO major: Low-level I/O minor: Write failed I have used the following libraries/versions during compilation stage: * intel/16.0.1 * impi/5.1.2.150<http://5.1.2.150/> * HDF5/1.8.16-mpi Here you can see how I open the HDF5 file for Collective Writing: https://github.com/victorsndvg/XH5For/blob/master/src/lib/hdf5_handler/hdf5_handler.f90#L531 And here, how I write HyperSlabs: https://github.com/victorsndvg/XH5For/blob/master/src/lib/hdf5_handler/contiguous_hyperslab/hdf5_contiguous_hyperslab_handler.f90#L102 Note: ENABLE_MPI, ENABLE_HDF5. ENABLE_PARALLEL_HDF5 definition flags are enabled Could anyone give me some ligth about this? I would greatly appreciate your help! Thank you in advance, Víctor. _______________________________________________ Hdf-forum is for HDF software users discussion. [email protected]<mailto:[email protected]> http://lists.hdfgroup.org/mailman/listinfo/hdf-forum_lists.hdfgroup.org Twitter: https://twitter.com/hdf5
_______________________________________________ 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
