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* Update copyright headers (#2184)Larry Knox2022-11-011-1/+0
| | | | | * Updated source file copyright headers to remove "Copyright by the Board of Trustees of the University of Illinois", which is kept in the top-level COPYING file.
* Develop clang 13 format (#1933)Allen Byrne2022-07-261-15/+15
| | | | | * Update format source to clang 13 * More format changes
* Fix some const cast and stack/static object size warnings (#1700)jhendersonHDF2022-05-011-34/+59
| | | | | | | | | * Fix various warnings * Move HDfree_const to H5private.h for wider use * Print output from all ranks in parallel tests on allocation failure * Move const pointer freeing macro to h5test.h for now
* Removes the STATIC flavor of FUNC_ENTER macros (#1622)Dana Robinson2022-04-081-9/+9
| | | | | * Removes the STATIC flavor of FUNC_ENTER macros
* Add H5_CHECK_MPI_VERSION macro to check for at least MPI version of ↵jhendersonHDF2022-03-301-3/+3
| | | | | | | | | (version, subversion) (#1556) * Fix MPI version check for MPI_Aint_diff usage * Add H5_CHECK_MPI_VERSION macro Adds new H5_CHECK_MPI_VERSION macro to check for MPI library version/subversion pair of at least the specified pair
* Fixed Spelling Errors (#1166)Scot Breitenfeld2021-12-071-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * 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 * Fixed seg fault with xlf on BE with -qintsize=8 * fixed error function string * spelling corrections via codespell, added new spell check github actions * Committing clang-format changes * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * Committing clang-format changes * misc * misc * misc * misc * misc * misc * Committing clang-format changes * misc * work around for https://github.com/codespell-project/codespell/issues/2137 * misc * added missing file * misc * misc. * misc * switch to using Codespell with GitHub Actions * misc. * misc. * fixed more sp errors * Fix new typos found by codespell. * fixed proceed with precede * fixed variable in fortran test * fixed minnum * updated spelling list Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Larry Knox <lrknox@hdfgroup.org>
* Fixes parallel issues from recent C99 changes (#809)Dana Robinson2021-06-301-8/+8
| | | | | | | * Fixes parallel issues from recent C99 changes * Adds MPE FUNC --> __func__ changes missed in earlier PRs * Even more missed FUNC --> __func__ macros
* Purges UFAIL from the library (#637)Dana Robinson2021-05-111-2/+1
| | | | | | | | | * Committing clang-format changes * Purges UFAIL from the library * H5HL_insert change requested in PR 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.
* Clang-format of source filesAllen Byrne2020-09-301-453/+472
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* Repair more format strings.David Young2020-09-261-8/+10
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* Minor changes from normalization with 1.10Dana Robinson2020-07-091-16/+16
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* Trim trailing whitespaceQuincey Koziol2020-04-201-1/+1
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* squash cast warning fixkmu2020-01-231-13/+24
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* Implement public H5Sselect_project_intersection(). Updated internalNeil Fortner2019-11-131-13/+15
| | | | | | | | algorithm to (optionally) avoid sharing selection data structures. Tested internal code (including with valgrind) by setting VDS code to avoid sharing selection, has since been changed to share selection for performance, so this code is not yet tested in regression tests. API has not been tested.
* Change API names for get/set bitio_count. Also added H5_mpi_set_bigio_count ↵Richard Warren2019-10-231-5/+5
| | | | to H5private.h.
* At the suggestion of the PR reviewers, moved the mpio_create_large_type to ↵Richard Warren2019-10-071-151/+22
| | | | 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.
* Made code review edit suggested by Jerome, plus various code updates to ↵Richard Warren2019-10-071-4/+4
| | | | files that I touched to eliminate compile warnings (on my Linux box).
* Make the initial bug fixes to allow >2GB writes with Independent IORichard Warren2019-10-051-14/+13
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* Core changes to selection code from the hyperslab_updates branch.Quincey Koziol2019-03-161-180/+262
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* More changes to align with incoming selection improvements.Quincey Koziol2019-02-141-5/+2
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* Align develop with incoming hyperslab_updates branch changes.Quincey Koziol2019-02-131-437/+374
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* Yanked all MPI-1 callsDana Robinson2018-11-271-16/+8
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* Updated H5S to use the MPI-2 function MPI_Type_get_exten()Dana Robinson2018-11-271-2/+24
| | | | | | where available. OpenMPI 4.0 removed the deprecated MPI-1 MPI_type_extent() call by default, so this avoids needing a special OpenMPI build.
* Add configure check for MPI_Mprobe and MPI_Imrecv functionsJordan Henderson2018-07-261-3/+32
| | | | | | | | | | | | | | | Add line to libhdf5settings file for status of Parallel writes to filtered datasets status Surround Parallel Compression code in MPI_VERSION >= 3 checks Add disabled message for Parallel Compression built w/ MPI-2 Modify Parallel Compression tests to only run the parallel filtered read tests when parallel filtered writes are disabled Update big I/O code to handle being built with MPI-2 Add checks to CMakeLists.txt for MPI_Mprobe and MPI_Imrecv
* Fixed HDFFV-10404Binh-Minh Ribler2018-07-131-4/+3
| | | | | | | | | 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
* Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into ↵Quincey Koziol2018-04-291-52/+462
|\ | | | | | | merge_hyperslab_updates
| * Include code fixes and additional modifications pointed out by code reviewersRichard Warren2017-07-101-6/+6
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| * Commited changes to the development branch here to allow a pull request to ↵Richard Warren2017-07-051-46/+458
| | | | | | | | be published
| * 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.
* | Checkpoint normalization against incoming hyperslab / selection / dataspaceQuincey Koziol2017-03-281-1/+1
|/ | | | improvements.
* [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-r27045] Renamed H5_ASSIGN_OVERFLOW() to H5_CHECKED_ASSIGN() and re-orderedDana Robinson2015-05-101-3/+3
| | | | | | the arguments to be in a more logical order. Tested on: h5committest
* [svn-r25922] mpi version check for new mpi 3 features should be >= 3 rather ↵Mohamad Chaarawi2014-12-231-1/+1
| | | | than == 3.
* [svn-r25921] - wrap MPI 3 usage with MPI_VERSION compile time check.Mohamad Chaarawi2014-12-231-2/+7
| | | | - build out unbuffered stdout/err for windows
* [svn-r25766] Description:Quincey Koziol2014-11-031-1/+1
| | | | | | | | | | Revert r25273, 25283 & 25439 (the hyperslab improvement changes). They are buggy and it's taking me a long time to correct the problem. I'll check in a revised form of the changes when I've got them straightened out. Tested on: Mac OSX 10.10.0 (amazon) w/gcc 4.9.x, C++, FORTRAN Linux 2.6.x (jam) w/parallel
* [svn-r25516] remove use of MPI_LB and MPI_UB deprecated markers and use ↵Mohamad Chaarawi2014-08-061-29/+16
| | | | resize instead.
* [svn-r25514] Replace MPI deprecated routines with undeprecated ones.Mohamad Chaarawi2014-08-051-13/+14
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* [svn-r25386] remove double declaration of off and len.Mohamad Chaarawi2014-07-011-2/+0
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* [svn-r25273] Description:Quincey Koziol2014-06-131-1/+1
| | | | | | | | | | | Bring in Chao/Neil/my changes to optimize hyperslab selection operations further, along with 3 new public API routines: H5Scombine_hyperslab(), H5Sselect_select() and H5Scombine_select(), along with many minor cleanups to the code and fixing a few compiler warnings. Tested on: Mac OSX/64 10.9.3 w/gcc 4.9.x and parallel w/OpenMPI (h5commttest forthcoming)
* [svn-r24769] Description:Quincey Koziol2014-03-071-37/+406
| | | | | | | | | Check in Mohamad's changes to support collective I/O on point selections, along with some other minor cleanups. Tested on: Mac OSX/64 10.9.2 (amazon) w/parallel & serial (h5committest forthcoming)
* [svn-r24709] rename H5V to H5VM since H5V is needed in the fastforward ↵Mohamad Chaarawi2014-02-131-2/+2
| | | | | | | | | | | | project for view objects. The addition of view objects in the fastforward project is expected to be brough into the trunk sometimes in the future, which is why we need to make this change. Tested Manually on Jam and Ostrich. Tested with h5commitest - Koala with intel compilers failed, but nothing had to do with those changes. error on Koala: error while loading shared libraries: libirng.so
* [svn-r22312] Description:Quincey Koziol2012-04-231-0/+1
| | | | | | | | Correct error reported by user (Martin Otte) where we weren't using realloc'ed buffer in MPI datatype code. Tested on: Mac OSX/64 10.7.3 (amazon) w/parallel
* [svn-r21919] Description:Quincey Koziol2012-02-091-7/+7
| | | | | | | | 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-r19744] Description:Quincey Koziol2010-11-081-38/+46
| | | | | | | Clean up compiler warnings and neaten up code a bit. Tested on: Linxu/64 2.6.32 (ember) w/parallel
* [svn-r19092] Description:Quincey Koziol2010-07-191-362/+265
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring "shape same" changes from LBL branch to trunk. These changes allow shapes that are the same, but projected into dataspaces with different ranks to be detected correctly, and also contains code to project a dataspace into greater/lesser number of dimensions, so the I/O can proceed in a faster way. These changes also contain several bug fixes and _lots_ of code cleanups to the MPI datatype creation code. Many other misc. code cleanup are included as well... Tested on: FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (jam) w/PGI compilers, w/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (amani) 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-amd64 2.6 (abe) w/parallel, w/FORTRAN, in debug mode Mac OS X/32 10.6.3 (amazon) in debug mode Mac OS X/32 10.6.3 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r18565] Description:Quincey Koziol2010-04-151-32/+28
| | | | | | | | Minor whitespace and compiler warning cleanups Tested on: Mac OS X/32 10.6.3 (amazon) w/debug (too minor to require h5committest)
* [svn-r16560] Description:Quincey Koziol2009-03-101-177/+159
| | | | | | | | | | Remove another call to H5E_clear_stack() from within the library. Clean up lots of compiler warnings. Tested on: Mac OS X/32 10.5.6 (amazon) (followup on other platforms forthcoming)
* [svn-r15628] Description:Quincey Koziol2008-09-161-1/+1
| | | | | | | | | | | | | Remove trailing whitespace from C/C++ source files, with the following script: foreach f (*.[ch] *.cpp) sed 's/[[:blank:]]*$//' $f > sed.out && mv sed.out $f end Tested on: Mac OS X/32 10.5.5 (amazon) No need for h5committest, just whitespace changes...
* [svn-r14903] Undoing change committed in r14902.Scot Breitenfeld2008-04-301-7/+7
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