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* Sync develop branch changes since 2/16 to hdf5_1_14 branch (#4058)Larry Knox2024-03-052-1/+37
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Remove oneapi return value warning. (#4028) * Replaced last sprintf with snprintf (#4007) * Replaced last sprintf with snprintf To have the size of the buffer, it was required to change a function signature, and change all users of it. In most cases, determining the buffer size wasn't trivial and so SIZE_MAX is passed. But at least this improves the infrastructure. Someone can later figure out the correct sizes. * Test vlen sequence IO in API tests (#4027) * Check argument for CMake REGEX FCMangle.h. (#4029) * Replace deprecated Fortran 'include mpif.h' with 'USE mpi' (#4031) With MPI 4.1 the use of the mpif.h include file has been deprecated. Codes should transition to USE mpi or USE mpi_f08. Signed-off-by: Christoph Niethammer <niethammer@hlrs.de> * Fix H5F_get_access_plist to copy file locking settings (#4030) H5F_get_access_plist previously did not copy over the file locking settings from a file into the new File Access Property List that it creates. This would make it difficult to match the file locking settings between an external file and its parent file. * Fix missing NOT from if check in HL folder (#4036) * Fix the datatype passed to H5*exists_async APIs in tests. (#4033) Add a new testing function to verify C_BOOL values. * Add deb and rpm binaries to snapshots (#4035) * Update and Add general INSTALL (#4016) * Improve performance of flushing single objects (#4017) Improve performance of flushing a single object, and remove metadata cache flush markers * Fix memory leak in H5LTopen_file_image when H5LT_FILE_IMAGE_DONT_COPY flag is used (#4021) When the H5LT_FILE_IMAGE_DONT_COPY flag is passed to H5LTopen_file_image, the internally-allocated udata structure gets leaked as the core file driver doesn't have a way to determine when or if it needs to call the 'udata_free' callback. This has been fixed by freeing the udata structure when the 'image_free' callback gets made during file close, where the file is holding the last reference to the udata structure. * Fix allocating too much memory in dset API test (#4041) * Don't try to load general-19 warnings file for icc (#4042) The Autools Classic Intel compiler configuration attempts to load a file named `general-19` from the intel-warnings/classic directory, which does not exist. This removes the attempted load of the file. * Remove unused AIX cross-compile cache overrides (#4043) The ibm-aix Autotools config file had some unmaintained and unnecessary Autoconf cache overrides. These have been removed. * Consolidate Autotools linux files (#4044) There are many architecture-specific linux files in the config directory, all of which simply redirect to linux-gnulibc1. This change renames linux-gnulibc1 to linux-gnu and deletes the more specific files. * Remove check for gettimeofday + tz in CMake (#4045) This is not used in the library * Remove limitations on preset generators (#4051) * Fix issue with FAPL file locking setting inheriting test (#4053) Fixes an issue where the HDF5_USE_FILE_LOCKING environment variable being set can interfere with the file locking setting that the test expects to be returned. * Bump the github-actions group with 2 updates (#4054) Bumps the github-actions group with 2 updates: [actions/download-artifact](https://github.com/actions/download-artifact) and [github/codeql-action](https://github.com/github/codeql-action). * Fix VOL-compatibility issues in External Link API test (#4039) Fix link API tests with incorrect filename * Add upddated cmake tools from source location (#4040) * Add options to allow tools type selection and naming (#4046) * Improve error messages when tools attempt to use non-enabled S3 and HDFS VFDs. (#4047) * Correct several 1.15/1.15.0 references to 1.14/1.14.4. * Ignore HDF5Examples/CMakeUserPresets.json
* Merge with develop (#2790)Dana Robinson2023-04-221-10/+10
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* Update copyright headers (#2184)Larry Knox2022-11-011-1/+1
| | | | | * 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.
* Fixed Spelling Errors (#1166)Scot Breitenfeld2021-12-072-4/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * 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>
* Github #969 Use stdout instead of file for configure check (#1089)Allen Byrne2021-11-182-104/+67
| | | | | | | | | | | | | * Use stdout instead of file for configure check * Make change requested by #1157 * Change fortran to use stderr for configure * Correct typo * remove obsolete file check * Fortran statement fix
* C++ warning and build fixes (#707)Dana Robinson2021-06-011-79/+0
| | | | | | | | | | | | * Committing clang-format changes * C++ build and warning updates * Fixes all warnings on C++ (with gcc 9.3) * Updates CMake and Autotools C++ builds * Undo warning clobber Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Update license url part2 (#333)Larry Knox2021-02-173-3/+3
| | | | | | * Modify temporary rpath for testing in java example scripts. * Update URL in source file Copyright headers for web copy of COPYING file - files not in src or test.
* Update jni.h detection for OS version changes in Macos 11.x (#211)Quincey Koziol2020-12-201-6/+12
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* downgrade doxygen.m4 macro file to previous version.Allen Byrne2020-11-121-43/+43
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* Add missing entries, remove m4 referenceAllen Byrne2020-11-121-2/+2
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* Update to latest doxygen.m4Allen Byrne2020-11-091-187/+241
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* Add doxygen auotoconf and cmake supportAllen Byrne2020-11-031-0/+532
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* Trim trailing whitespaceQuincey Koziol2020-04-202-16/+16
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* Fixed issue building HDF5 with NAG Fortran 7.0.M. Scot Breitenfeld2020-02-271-6/+19
| | | | | | Accounted for the additon of half precision floating-point with a KIND=16. HDFFV-11033
* Update java m4 to latestAllen Byrne2019-04-0418-185/+96
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* Fixed a bug in autotools Fortran processing where a test for theDana Robinson2017-06-292-2/+1
| | | | presence of a C long double type always returned true.
* Merge pull request #426 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10 to ↵Larry Knox2017-04-253-12/+21
| | | | | | | | | | 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.
* Added number of integer KINDs found to the header files.M. Scot Breitenfeld2016-09-261-1/+4
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* [svn-r30301] Changed the print ordering of the SIZE_OF/KIND program output ↵Scot Breitenfeld2016-08-181-9/+9
| | | | | | in order to match what is done in cmake. Tested: gnu, jelly.
* [svn-r30300] Fixed the ordering for KIND and SIZE_OF in the fortarn program ↵Scot Breitenfeld2016-08-181-3/+3
| | | | | | | | in order to match the sed commands. Should only matter for the NAG compiler. Tested: (gnu, jelly)
* [svn-r30209] HDFFV-9467: Use the same test programs for CMake and autotoolsScot Breitenfeld2016-07-201-54/+14
| | | | | | -- Modified C++ to use the same test programs. Tested: jelly (gnu)
* [svn-r30198] HDFFV-9467: Use the same test programs for CMake and autotoolsScot Breitenfeld2016-07-181-0/+136
| | | | Tested: jelly (gnu)
* [svn-r30196] HDFFV-9467: Use the same test programs for CMake and autotoolsScot Breitenfeld2016-07-181-145/+24
| | | | Tested: jelly (gnu)
* [svn-r30064] Changed configure's behavior from a warning to an error Scot Breitenfeld2016-06-091-9/+9
| | | | | | | if the available Fortran KINDs, or Fortran decimal precision, can not be determined. (MSB, HDFFV-9922)
* [svn-r29928] HDFFV-9912:Scot Breitenfeld2016-05-121-48/+57
| | | | | | | | | | configure fails to detect valid KINDs on FreeBSD Added the exponential option to SELECTED_REAL_KIND to distinguish KINDs of same precision. Tested: FredBSD, jam, platypus.
* [svn-r29226] HDFFV-9552: merge in java code.Allen Byrne2016-02-2918-0/+1459
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* [svn-r27745] Merge trunk revision 27744Allen Byrne2015-09-101-1/+1
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* [svn-r27638] Merged r27500-27631 from trunk.Dana Robinson2015-09-011-17/+17
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| * [svn-r27517] Removed all perl scripts from configure.Scot Breitenfeld2015-08-171-17/+17
| | | | | | | | Tested: h5committest
* | [svn-r27507] Merge of r27237-27500 from the trunk.Dana Robinson2015-08-141-19/+326
|\ \ | |/ | | | | | | | | | | | | Tested w/ h5committest NOTES: - The manifest may still be messed up. - Cmake fails since the dual binary work needs to be merged with this repo's CMake externals.
| * [svn-r27493] Trying again to merge the F2003_v1.10 branch to the trunk.Scot Breitenfeld2015-08-111-19/+326
| | | | | | | | Tested: h5committest --PASSED--
| * [svn-r27489] reverted merge of branchScot Breitenfeld2015-08-111-326/+19
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| * [svn-r27488] Merged the F2003_v1.10 branch to the trunk.Scot Breitenfeld2015-08-111-19/+326
| |\ | | | | | | | | | Tested: h5committest
| | * [svn-r27401] code cleanupScot Breitenfeld2015-07-161-17/+4
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| | * [svn-r27326] Working version of cmake on linux.Scot Breitenfeld2015-07-021-6/+4
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| | * [svn-r27299] Changed from using sed to perl.Scot Breitenfeld2015-06-301-11/+10
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| | * [svn-r27297] changed from using sed to perlScot Breitenfeld2015-06-291-41/+47
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| | * [svn-r27285] added search replace for space to commaScot Breitenfeld2015-06-251-0/+2
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| | * [svn-r27232] fixed C test program for float128Scot Breitenfeld2015-06-171-0/+2
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| | * [svn-r27230] added test for float128Scot Breitenfeld2015-06-171-1/+5
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| | * [svn-r27225] new test for __float128Scot Breitenfeld2015-06-171-9/+7
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| | * [svn-r27223] Added check for quadmath.hScot Breitenfeld2015-06-171-0/+2
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| | * [svn-r27221] Reworked Fortran autools REAL KIND detection.Scot Breitenfeld2015-06-161-5/+35
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| | * [svn-r27167] more DT fixesScot Breitenfeld2015-06-091-5/+21
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| | * [svn-r27164] various bug fixes for DTScot Breitenfeld2015-06-081-0/+34
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| | * [svn-r27154] fixed issue with mis-matching long double between Fortran and CScot Breitenfeld2015-06-051-6/+5
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| | * [svn-r27151] fixed __float128 errorsScot Breitenfeld2015-06-041-44/+70
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| | * [svn-r27140] fixed interger*16 supportScot Breitenfeld2015-06-031-3/+2
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| | * [svn-r27134] Switched to uses a verify for each kind for the tests. Testing ↵Scot Breitenfeld2015-06-011-0/+14
| | | | | | | | | | | | quad precision.
| | * [svn-r27122] removed dependency on generatored fortran source codeScot Breitenfeld2015-05-281-2/+2
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