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HDF5 I/O optimizations #1129

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merged 11 commits into from
Oct 27, 2021
Merged

HDF5 I/O optimizations #1129

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04df77e
Include HDF5 optimization options
jeanbez Oct 19, 2021
d5c2232
Merge branch 'openPMD:dev' into hdf5-io-tuning
jeanbez Oct 19, 2021
b4bdc5b
Fix code style check
jeanbez Oct 19, 2021
51aa3f9
Fix validations and include checks
jeanbez Oct 20, 2021
cee8858
Fix style check
jeanbez Oct 20, 2021
ff31e04
Remove unecessary strict check
jeanbez Oct 20, 2021
e45e4b8
Update documentation with HDF5 tuning options
jeanbez Oct 20, 2021
469eb69
Update contributions
jeanbez Oct 20, 2021
983729d
Fix Guards for H5Pset_all_coll_metadata*
ax3l Oct 22, 2021
ae99116
MPI Guard: H5Pset_all_coll_metadata*
ax3l Oct 22, 2021
fa4e034
Remove duplicated variable
jeanbez Oct 23, 2021
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Fix code style check
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@jeanbez
jeanbez committed Oct 19, 2021
commit b4bdc5b50db2ac381526caed4305981b9aa90ea1
2 changes: 1 addition & 1 deletion src/IO/HDF5/HDF5IOHandler.cpp
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Expand Up @@ -1823,7 +1823,7 @@ HDF5IOHandlerImpl::listPaths(Writable* writable,
hid_t gapl = H5Pcreate(H5P_GROUP_ACCESS);
if( m_hdf5_collective_metadata )
{
H5Pset_all_coll_metadata_ops(gapl, true);
H5Pset_all_coll_metadata_ops(gapl, true);
}

hid_t node_id = H5Gopen(file.id,
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2 changes: 1 addition & 1 deletion src/IO/HDF5/ParallelHDF5IOHandler.cpp
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Expand Up @@ -118,7 +118,7 @@ ParallelHDF5IOHandlerImpl::ParallelHDF5IOHandlerImpl(

status = H5Pset_coll_metadata_write(m_fileAccessProperty, collective_metadata);
VERIFY(status >= 0, "[HDF5] Internal error: Failed to set metadata write HDF5 file access property");

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auto const strByte = auxiliary::getEnvString( "OPENPMD_HDF5_ALIGNMENT", "1" );
std::stringstream sstream(strByte);
hsize_t bytes;
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