summaryrefslogtreecommitdiffstats
path: root/src/H5FDmpio.c
Commit message (Collapse)AuthorAgeFilesLines
* Fixes parallel issues from recent C99 changes (#809)Dana Robinson2021-06-301-28/+28
| | | | | | | * Fixes parallel issues from recent C99 changes * Adds MPE FUNC --> __func__ changes missed in earlier PRs * Even more missed FUNC --> __func__ macros
* Fix H5FD_mpio_Debug="rw" can report MPI_count instead of bytes (#699)Scot Breitenfeld2021-05-281-12/+12
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | * fixed missed closing of a dataset * fixed missed closing of a dataset * fixed typo in error return * Committing clang-format changes * minor edits * code format * Committing clang-format changes * code format * minor edit * switched from using MPI_count, to actual bytes written for H5FD_mpio_debug rw debugging * Committing clang-format changes * changed size_i in printf to reflect the I/O. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Brings the native implementation of H5Fdelete() from Bitbucket (#524)Dana Robinson2021-04-161-35/+91
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Committing clang-format changes * Brings the native VFD H5Fdelete() implementation from Bitbucket Only brings the 'del' callbacks, not the 'open/close' scheme. * Formatter changes * Committing clang-format changes * Fixes direct VFD callback name * Removes UNUSED macro from family API call * Adds barrier and rank 0 check to MPI-I/O VFD delete * Revert "Adds barrier and rank 0 check to MPI-I/O VFD delete" This reverts commit 909765f759d9d96e84f4b8b1cc14f7d2b3ac8143. * Revert "Revert "Adds barrier and rank 0 check to MPI-I/O VFD delete"" This reverts commit 9b04bef1157853fc79fcb8fcc3e8ba1371091702. * Adds a second barrier after the delete in MPI-I/O VFD * Only delete files in the core VFD when the backing store flag is set * Fixes string issues in multi VFD Also, h5test.c cleanup code now uses H5Fdelete(). * Formatted source * Rework fapl checks for MPI-I/O VFD delete callback Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Clean up MPI-IO VFD tracing support (#520)Quincey Koziol2021-03-261-128/+196
| | | | | | | * Clean up tracing support * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Align with "parallel fence" changes (#479)Quincey Koziol2021-03-241-38/+45
| | | | | | | | | * Small code updates and simplifications * Committing clang-format changes * Fix 'make installcheck' for parallel builds Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Update license url (#332)Larry Knox2021-02-171-1/+1
| | | | | | * Modify temporary rpath for testing in java example scripts. * Update URL in source file Copyright headers for web copy of COPYING file - src and test directories.
* develop revert source to clang-format version 11 (#293)Allen Byrne2021-01-291-2/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * OESS-98 convert plugin option to FetchContent, add tests * Fixes for pkcfg files because of plugin option * OESS-98 fix tools test for plugins * Keep doxygen comments under 100 chars long - format hint * Whitespace * HDFFV-11144 - Reclassify CMake messages * HDFFV-11099/11100 added help text * Reworked switch statement to compare string instead * Fix typo * Update CDash mode * Correct name of threadsafe * Correct option name * Undo accidental commit * Note LLVM 10 to 11 format default changes * Update format plugin * Undo clang-format version 11 changes * One more correction
* H5FD__mpio_read: Fix MPI_Bcast datatype (#205)Evan Ramos2020-12-181-1/+5
| | | Signed-off-by: Evan Ramos <evan@hpccharm.com>
* Basic alignment with async branch (#115)Quincey Koziol2020-11-231-2/+2
| | | | | | | * Basic alignment with async branch - trivial changes to reduce clutter in overall diff. * Update minor error code to reflect change within library * Update the error output to match library
* Fixes minor issues in various virtual file driversDana Robinson2020-10-291-29/+0
| | | | | | | | | | | | - HDFS VFD files now ignored in the Autotools when the HDFS VFD is not being built. - All VFD init code uses idiomatic H5I_INVALID_HID instead of -1 or FAIL. - The HDFS VFD now includes H5FDdrvr_module.h in the right place. - The HDFS tests in test/hdfs.c no longer pass NULL to VERIFY macros, which raised warnings. - Minor tweaks to fix const, unused variables, etc. warnings in several VFDs.
* Clang-format of source filesAllen Byrne2020-09-301-406/+384
|
* Revert " Checkin of fix for CGNS bug"Quincey Koziol2020-08-271-3/+1
| | | | 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.
* Normalization with hdf5_1_10Dana Robinson2020-06-011-1/+1
|
* Trim trailing whitespaceQuincey Koziol2020-04-201-15/+15
|
* Another cleanup pass as suggested by the reviewers.Richard Warren2019-10-071-1/+0
|
* At the suggestion of the PR reviewers, moved the mpio_create_large_type to ↵Richard Warren2019-10-071-1/+1
| | | | H5mpi.c and renamed the function appropriately. Also moved some support functions to set and get the vvalue where we transistion to using derived datatypes.
* No functional changes, just removed some tab charactersRichard Warren2019-10-051-4/+4
|
* Make the initial bug fixes to allow >2GB writes with Independent IORichard Warren2019-10-051-10/+28
|
* Minor tweaks to new H5P MPI code based on code review feedback.Dana Robinson2019-08-271-14/+5
|
* Added H5Pset/get_mpi_params calls and unified them with the MPI-I/ODana Robinson2019-08-261-288/+91
| | | | VFD info in H5FDmpio.c.
* Some refactoring prior to implementing new H5P MPI functions.Dana Robinson2019-08-141-321/+316
| | | | | | * 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.
* Added an H5MM_memcpy call that checks for buffer overlap.Dana Robinson2019-03-161-1/+1
|
* HDFFV-10625 -- Implemented a process-0 read and then broadcast for ↵Quincey Koziol2019-01-071-6/+37
| | | | collective read of full (HS_ALL), contiguous, atomic datasets by all the processes in the file communicator.
* Clean up style issues, make function callbacks static, correct debug statements,Quincey Koziol2019-01-051-475/+319
| | | | etc. No functionality changes at all.
* Merge branch 'develop' into vfd_init_cleanupDana Robinson2019-01-011-0/+1
|\
| * Clear driver properties before returning them to application.Quincey Koziol2018-12-191-0/+1
| | | | | | | | | | Move write_tracking and page_size properties to be inside the core VFD's driver properties.
* | Cleaned up and normalized VFD init calls.Dana Robinson2018-12-181-16/+18
|/
* Fixed HDFFV-10404Binh-Minh Ribler2018-07-131-2/+2
| | | | | | | | | Description: Applied the typo fixes from user's report. The previous pull request couldn't be merged because it was too old, and it was too complicated for me to resolve conflicts. Platform tested: Linux/64 (jelly) - very minor
* Add an assert to verify that we don't write when between MPI_Barrier() callsQuincey Koziol2018-03-271-0/+3
| | | | during a flush.
* Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into ↵Quincey Koziol2018-03-181-23/+74
|\ | | | | | | | | | | merge_func_enter_vol Plus initial steps toward merging API context push into FUNC_ENTER_API* macros
| * Removed commented out code from H5FDmpio.c, H5FDprivate.h and H5Fint.cmainzer2018-03-121-88/+0
| | | | | | | | Tested parallel (debug and production) and serial (production)
| * Optimized version of avoid truncate patch.M. Scot Breitenfeld2017-12-181-0/+198
| |
* | Add API context interface and use it throughout the library.Quincey Koziol2018-03-151-46/+22
|/
* Fixed HDFFV-10214:Dana Robinson2017-05-191-4/+5
| | | | | | | | | | | | * Updated comments in the library to accurately reflect the semantics of the H5FD_FEAT_POSIX_COMPAT_HANDLE flag. * Removed the check for the POSIX compatible handle feature flag when determining if a VFD supports SWMR. Partial work for HDFFV-10197: * Added a new H5FD_FEAT_DEFAULT_VFD_COMPATIBLE feature flag that is set when a VFD creates output that is compatible with the default VFD. Will be used in the testing but might also be generally useful to users.
* 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 bugmainzer2017-04-061-1/+36
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | (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.
* Warning and whitespace cleanup.Quincey Koziol2016-11-031-2/+2
|
* [svn-r28959] merge from trunk.Mohamad Chaarawi2016-01-221-6/+0
|\ | | | | | | renaming metadata dxpl properties.
| * [svn-r28950] - remove META_FLUSH_COLLECTIVELY property for delayed sanity ↵Mohamad Chaarawi2016-01-211-6/+0
| | | | | | | | | | | | | | | | | | | | 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-r28894] Description:Quincey Koziol2016-01-141-1/+2
| | | | | | | | | | | | | | | | Normalize against changes on phdf5_metadata_opt branch to trunk Tested on: MacoSX/64 10.11.2 (amazon) w/serial & parallel (h5committest forthcoming)
* | [svn-r27929] merge from trunk.Mohamad Chaarawi2015-10-011-127/+64
|\ \ | |/
| * [svn-r27811] Description:Quincey Koziol2015-09-161-118/+57
| | | | | | | | | | | | | | | | | | | | | | Refactor property list code to "deep copy" properties in the correct way, retraining the rest of the library to copy & release things correctly. This cleans up another batch of memory leaks, etc. within the library. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel Linux/32 2.6.x (jam) w/serial & parallel (h5committest forthcoming)
| * [svn-r27809] Minor warning fixes in the library.Dana Robinson2015-09-161-1/+1
| | | | | | | | Tested on: jam (too minor for h5committest)
| * [svn-r27768] Description:Quincey Koziol2015-09-141-8/+6
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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 Chaarawi2015-06-211-46/+35
|/ | | | branch.
* [svn-r27133] - Add a new attribute function characterstic for format:Mohamad Chaarawi2015-06-011-9/+9
| | | | | | | | * H5_ATTR_FORMAT(X,Y,Z) __attribute__((format(X, Y, Z))) - Rename UNUSED attribute characterstic to H5_ATTR_UNUSED. - Rename NORETURN attribute characterstic to H5_ATTR_NORETURN tested with h5committest.
* [svn-r26649] squish warnings.Mohamad Chaarawi2015-03-301-23/+25
|
* [svn-r25994] revert adding the has_mpi_atomicity feature flag and use the ↵Mohamad Chaarawi2015-01-211-1/+0
| | | | | | has_mpi flag instead.
* [svn-r25983] HDFFV-1125: Eliminate IS_H5FD_MPI() macro use in the library ↵Mohamad Chaarawi2015-01-201-0/+1
| | | | | | | | and replace with driver feature flag(s). Add an MPI atomicity feature flag and remove the macro from the library. tested Parallel on Jam.
generated by cgit v0.12 at 2024-07-23 06:14:24 (GMT)