Hi Imran, Does the filesystem and MPI version you are using support MPI atomic mode? You can check that by trying any simple MPI IO program and add MPI_File_set_atomicity(fh, 1); after opening the file.
This is what this test is trying. Granted this is not a very well supported feature in terms of performance, so if this test fails, you can ignore it as long as you do not use H5Fset_mpi_atomicity(). But if you are using this routine (as this test is doing) and your filesystem does not support MPI file atomicity, then you will see that failure. Thanks, Mohamad From: Hdf-forum [mailto:[email protected]] On Behalf Of Imran Ali Sent: Monday, April 28, 2014 12:08 PM To: [email protected] Subject: [Hdf-forum] IOError: Unable to create file (Mpi_err_other: known error not in list) I have recently opened an issue at h5py github repository (https://github.com/h5py/h5py/issues/434#issuecomment-41567806) about an error I am having with my Parallel HDF5 install. I have installed HDF5 through the dorsal script (https://github.com/FEniCS/dorsal/blob/master/FEniCS/packages/hdf5.package). The install completes without any error. However, when I try to use h5py (using a test run script) , I get an odd error : ................EE................................................................................................................sss...........................x.......................s.......................................x.................................s............................................... ====================================================================== ERROR: test_mpi_atomic (h5py.tests.test_file.TestDrivers) Enable atomic mode for MPIO driver ________________________________ Traceback (most recent call last): File "/uio/hume/student-u29/imranal/Work/FEniCS/lib/python2.7/site-packages/h5py-2.3.0-py2.7- linux-x86_64.egg/h5py/tests/test_file.py", line 251, in test_mpi_atomic with File(fname, 'w', driver='mpio', comm=MPI.COMM_WORLD) as f: File "/uio/hume/student-u29/imranal/Work/FEniCS/lib/python2.7/site-packages/h5py-2.3.0-py2.7-linux-x86_64.egg/h5py/hl/files.py", line 222, in __init_ fid = make_fid(name, mode, userblock_size, fapl) File "/uio/hume/student-u29/imranal/Work/FEniCS/lib/python2.7/site-packages/h5py-2.3.0-py2.7-linux-x86_64.egg/h5py/_hl/files.py", line 85, in make_fid fid = h5f.create(name, h5f.ACC_TRUNC, fapl=fapl, fcpl=fcpl) File "h5f.pyx", line 90, in h5py.h5f.create (h5py/h5f.c:2222) IOError: Unable to create file (Mpi_err_other: known error not in list) ====================================================================== ERROR: test_mpio (h5py.tests.test_file.TestDrivers) MPIO driver and options ________________________________ Traceback (most recent call last): File "/uio/hume/student-u29/imranal/Work/FEniCS/lib/python2.7/site-packages/h5py-2.3.0-py2.7-linux-x86_64.egg/h5py/tests/test_file.py", line 241, in test_mpio with File(fname, 'w', driver='mpio', comm=MPI.COMM_WORLD) as f: File "/uio/hume/student-u29/imranal/Work/FEniCS/lib/python2.7/site-packages/h5py-2.3.0-py2.7-linux-x86_64.egg/h5py/hl/files.py", line 222, in __init_ fid = make_fid(name, mode, userblock_size, fapl) File "/uio/hume/student-u29/imranal/Work/FEniCS/lib/python2.7/site-packages/h5py-2.3.0-py2.7-linux-x86_64.egg/h5py/_hl/files.py", line 85, in make_fid fid = h5f.create(name, h5f.ACC_TRUNC, fapl=fapl, fcpl=fcpl) File "h5f.pyx", line 90, in h5py.h5f.create (h5py/h5f.c:2222) IOError: Unable to create file (Mpi_err_other: known error not in list) ________________________________ Ran 306 tests in 0.382s FAILED (errors=2, skipped=5, expected failures=2) I am able to use hdf5 just fine when I do not use the mpio driver along with the mpi communicator.
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