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* Clang-format of source filesAllen Byrne2020-09-301-51/+36
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* Revert " Checkin of fix for CGNS bug"Quincey Koziol2020-08-271-28/+0
| | | | This reverts commit 94c34773ceae5b30c4afb227d0385ebf4ab6ce28.
* Clean up private / package / static namespace issues (function naming, whichQuincey Koziol2020-08-061-1/+1
| | | | | | header file, FUNC_ENTER / LEAVE, etc). Removed remaining personal email addresses from library source code (still needs cleaned from other directories). Misc. warning, style, and whitespace cleanup.
* Refactor all the 'H5VL_*_optional' callbacks to move the type of operation outQuincey Koziol2019-12-201-6/+6
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | of the va_list, so it's at least possible for another connector to know what the operation is and decide whether to implement it or not. Added a new VOL sub-class called "introspect" where callbacks that report information about the connector or container can be placed. Added an 'opt_query' callback to this sub-class, for a connector to report back to the library whether a particular optional callback operation is supported. Also added a 'get_conn_cls' introspection callback, to retrieve the H5VL_class_t of a connector (either the "current" connector, H5VL_GET_CONN_LVL_CURR, or the terminal connector, H5VL_GET_CONN_LVL_TERM). Moved the "post open" operation from a file 'specific' operation to a file 'optional' operation, now that it's possible to detect (with the 'opt_query' introspection callback) whether a VOL connector implements an optional operation, without just returning an error. Added new internal VOL helper routines: H5VL_object_is_native, to determine if an object is in (or is a) native file, and H5VL_file_is_same, to determine if two objects are in (or are) the same terminal VOL connector's container. (And moved the special handling for FILE_IS_EQUAL operation out of internal VOL callback routine into H5VL_file_is_same) Made new dataset 'get' operation for H5Dvlen_get_buf_size, aligning it better with other 'get' operations in API. Fixed several issues with pass-through connectors, which are now passing the 'make check-passthrough-vol' tests again. A bunch of warning and style cleanups as well.
* Marked up H5Fget/set_mpi_atomicity() to use the VOL.Dana Robinson2019-09-271-29/+87
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* Added H5Pset/get_mpi_params calls and unified them with the MPI-I/ODana Robinson2019-08-261-8/+3
| | | | VFD info in H5FDmpio.c.
* Fix major error codesQuincey Koziol2019-08-221-4/+4
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* Switch shared file struct name from 'H5F_file_t' to 'H5F_shared_t', to matchQuincey Koziol2019-08-221-1/+1
| | | | naming convention for shared structs in rest of library data structures.
* First pass of converting H5PB_* routines to use shared file pointers.Quincey Koziol2019-08-191-0/+32
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* Some refactoring prior to implementing new H5P MPI functions.Dana Robinson2019-08-141-46/+40
| | | | | | * Macro cleanup and obvious warning fixes in parallel code. * Moved H5FD comm and info dup/free wrapper code to a new H5mpi.c file and separated it to deal with each MPI type separately.
* C and POSIX call cleanupDana Robinson2019-01-111-1/+1
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* VOL FEATUREDana Robinson2018-10-101-2/+2
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* Remainder of vol_normalization changes (dataset, attribute, files, objects).Dana Robinson2018-09-241-6/+6
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* Add API context interface and use it throughout the library.Quincey Koziol2018-03-151-14/+17
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* Merge pull request #426 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10 to ↵Larry Knox2017-04-251-6/+4
| | | | | | | | | | 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.
* Checkin of fix for CGNS bugmainzer2017-04-061-0/+26
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | (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.
* [svn-r28959] merge from trunk.Mohamad Chaarawi2016-01-221-0/+69
|\ | | | | | | renaming metadata dxpl properties.
| * [svn-r28950] - remove META_FLUSH_COLLECTIVELY property for delayed sanity ↵Mohamad Chaarawi2016-01-211-0/+69
| | | | | | | | | | | | | | | | | | | | 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.
* | [svn-r27929] merge from trunk.Mohamad Chaarawi2015-10-011-1/+1
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| * [svn-r27768] Description:Quincey Koziol2015-09-141-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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
* | [svn-r27261] apply metadata enhancement patch that was based on the mdc 3 ↵Mohamad Chaarawi2015-06-211-0/+29
|/ | | | branch.
* [svn-r25994] revert adding the has_mpi_atomicity feature flag and use the ↵Mohamad Chaarawi2015-01-211-2/+2
| | | | | | has_mpi flag instead.
* [svn-r25983] HDFFV-1125: Eliminate IS_H5FD_MPI() macro use in the library ↵Mohamad Chaarawi2015-01-201-4/+4
| | | | | | | | and replace with driver feature flag(s). Add an MPI atomicity feature flag and remove the macro from the library. tested Parallel on Jam.
* [svn-r23713] Description:Quincey Koziol2013-05-211-3/+3
| | | | | | | | | | 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)
* [svn-r23165] HDFF-8203 Break H5FDmpi.h header into public and private componentsMohamad Chaarawi2013-01-151-1/+0
| | | | | | https://jira.hdfgroup.uiuc.edu/browse/HDFFV-8203 tested: h5committest
* [svn-r22140] Snapshot version 1.9 release 112HDF Tester2012-03-251-2/+2
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* [svn-r22115] Add 2 new API routines to set/unset file atomicity for files ↵Mohamad Chaarawi2012-03-211-0/+82
| | | | | | | opened with the MPI-IO VFD Add test cases for these two routines Jira issue HDFFV-7961
* [svn-r21919] Description:Quincey Koziol2012-02-091-3/+3
| | | | | | | | 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
* [svn-r15800] Description:Quincey Koziol2008-10-071-0/+181
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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