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hdf5_1_10
* commit '54957d37f5aa73912763dbb6e308555e863c43f4':
Commit copyright header change for src/H5PLpkg.c which was added after running script to make changes.
Add new files in release_docs to MANIFEST. Cimmit changes to Makefile.in(s) and H5PL.c that resulted from running autogen.sh.
Merge pull request #407 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10_1 to hdf5_1_10_1
Change copyright headers to replace url referring to file to be removed and replace it with new url for COPYING file.
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(https://jira.hdfgroup.org/browse/HDFFV-10055).
Briefly, in H5C_collective_write() in H5Cmpio.c,
the metadata cache attempts to perform a collective
write of metadata cache entries.
This worked fine as long as all processes had at
least one entry to write.
However, when the process has no entries, the
function tries to participate in the collective write
by calling MPI_File_set_view(),
MPI_File_write_all() and then MPI_File_set_view()
again, to match the calls in H5FD_mpio_write().
After pull request 183, the CGNS test benchmark_hdf5
started failing. On investigation, I determined that
the failure occurred in the first call to MPI_File_set_view()
in the "no data to write" path through H5C_collective_write().
Note that pull request 183 did not create the problem,
it only exposed it. The bug can be observed after pull
request 182 if one executes the CGNS progam
src/ptests/benchmark_hdf5 with 90 processes.
The problem appears to have been that the calls to
MPI_File_set_view() in H5C_collective_write() and
H5FD_mpio_write() were using different values for the
info parameter. I patched the problem by adding a
MPI specific VFD call allowing me to get the MPI_Info
used in H5FD_mpio_write() for use in
MPI_File_set_view() calls in H5C_collective_write().
Tested serial & parallel, debug & production on
Jelly.
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renaming metadata dxpl properties.
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checks from metadata dxpls
- remove H5AC_ind_dxpl_id and use only H5AC_dxpl_id everywhere instead.
- remove flush_me_collectively flag from cache entries
- add a collective sanity check (MPI_Barrier) for every HDF5 API routine that could possibly touch the file. This is trigerred when the environment variable H5_COLL_API_SANITY_CHECK is set to a non 0 digit.
tested on BB-8 with serial and parallel.
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Complete revamp of package initialization/shutdown mechanism in the library.
Each package now has a single init/term routine.
This new way should avoid packages being re-initialized during library
shutdown and is also be _much_ more proactive about giving feedback for
resource leaks internal to the library.
Introduces a new "module" header file for packages in the library
(e.g src/H5Fmodule.h) which sets up some necessary package configuration macros
for the FUNC_ENTER/LEAVE macros. (The VFL drivers have their own slightly
modified version of this header, src/H5FDdrvr_module.h)
Also cleaned up a bunch of resources leaks all across the library and tests,
along with addressing many warnings, as I encountered them.
Tested on:
MacOSX/64 10.10.5 (amazon) w/serial & parallel
Linux/64 3.10.x (kituo) w/serial & parallel
Linux/64 2.6.x (ostrich) w/serial
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branch.
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has_mpi
flag instead.
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and replace with driver feature flag(s).
Add an MPI atomicity feature flag and remove the macro from the library.
tested Parallel on Jam.
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Clean up warnings, switch library code to use Standard C/POSIX wrapper
macros, remove internal calls to API routines, update checkapi and checkposix
scripts.
Tested on:
Mac OSX/64 10.8.3 (amazon) w/C++ & FORTRAN
Big-Endian Linux/64 (ostrich)
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https://jira.hdfgroup.uiuc.edu/browse/HDFFV-8203
tested: h5committest
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opened with the MPI-IO VFD
Add test cases for these two routines
Jira issue HDFFV-7961
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Refactor function name macros and simplify the FUNC_ENTER macros, to clear
away the cruft and prepare for further cleanups.
Tested on:
Mac OSX/64 10.7.3 (amazon) w/debug, production & parallel
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Bring file free space branch changes through r15795 into trunk, which
includes a fair bit of code cleanup & rearrangement along with a couple of
bug fixes also.
Tested on:
Mac OS X/32 10.5.5 (amazon) in debug mode
Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe,
in production mode
FreeBSD/32 6.3 (duty) in debug mode
FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode
Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe,
in debug mode
Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x,
w/C++ & FORTRAN, in production mode
Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN,
w/szip filter, in production mode
Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN,
in production mode
Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode
Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
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