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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