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* Prevent buffer overrun in H5S_select_deserialize (#2956)mattjala2023-05-181-2/+3
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* Update Copyright headers. (#2534)Larry Knox2023-03-131-1/+0
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* Fix new codespell issues (#2521) (#2530)Larry Knox2023-03-101-1/+1
| | | | | | | | | | | | | * Fix new codespell issues (#2521) * Fix new codespell issues * Have codespell ignore ./config/sanitizer/sanitizers.cmake * Fix typo in genparser. --------- Co-authored-by: Mark Kittisopikul <mkitti@users.noreply.github.com>
* Spelling fixes for codespell (#2038)Dana Robinson2022-08-181-1/+1
| | | | | | | * Spelling fixes for codespell * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* clang 13 format #1933 (#1939)Allen Byrne2022-07-271-7/+7
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* [1.12 Merge]Hdf5 1 12 warnings fixes (#1715)jhendersonHDF2022-05-031-2/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Warnings fixes (#1680) * Clean stack size warnings in sio_engine (#1687) * Fixes stack size warnings in tcoords.c (#1688) * Address some warnings from casting away of const (#1684) * Fixes stack size warnings in ntypes (#1695) * Fixes stack size warnings in dtransform (#1696) * Fixes stack size warnings in set_extent test (#1698) * Be a bit safer with signed arithmetic, thus quieting some signed-overflow warnings from GCC (#1706) * Avoid a signed overflow: check the range of `entry_ptr->age` before increasing it instead of increasing it and then checking the range. This quiets a GCC warning. * Avoid the potential for signed overflow by rewriting expressions `MAX(0, fwidth - n)` as `MAX(n, fwidth) - n` for various `n`. This change quiets some GCC warnings. * Change some local variables that cannot take sensible negative values from signed to unsigned. This quiets GCC warnings about potential signed overflow. * In a handful of instances, check the range of a signed integer before increasing/decreasing it, just in case the increase/decrease overflows. This quiets a handful of GCC signed-overflow warnings. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Fix object size warnings in cache.c test (#1701) * Fix some const cast and stack/static object size warnings (#1700) * 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 * Stop lying about H5S_t const-ness (#1209) Hyperslabs can be reworked inside several H5S callbacks, making H5S_t non-const in some places where it is marked const. This change switches these incorrectly const H5S_t pointer parameters and variables to non-const where appropriate. * Fix a few warnings after recent H5S const-related changes (#1225) * Adjustments for HDF5 1.12 Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: David Young <dyoung@hdfgroup.org> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Commit codespell spelling corrections.Larry Knox2022-04-071-1/+1
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* Update URL in source file Copyright headers for web copy of COPYINGLarry Knox2021-02-201-1/+1
| | | | file - src and test directories.
* Source formattedAllen Byrne2020-10-011-349/+296
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* Sync with developDana Robinson2020-08-011-324/+328
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* Revert "Merge branch 'hdf5_1_12' of ↵Jerome Soumagne2019-12-091-1/+0
| | | | | | | https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into hdf5_1_12" This reverts commit 9f9336a5bd541752f472bab4c93da8de89f862cd, reversing changes made to 437a1919e7ba60fe75a33a466d264183a0255319.
* Merged HDFFV-10929_2GB_testing to hdf5_1_12Richard Warren2019-12-061-0/+1
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* Add new H5R API that abstracts object, region and attribute reference typesJerome Soumagne2019-10-081-3/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Also support references to external files Add new H5T_REF type and type conversion routines Support conversion from H5T_REF_OBJ/DSET_REG to H5T_REF Add H5Treclaim() API to reclaim memory of vlen/reference types Deprecate H5Dvlen_reclaim() Fix H5T_vlen_reclaim() and H5T_reclaim() to use private callback Add H5T_ref_reclaim() Move previous H5R APIs to H5Rdeprec.c Clean up H5Ocopy Separate H5O_copy_expand_ref() to H5Ocopy_ref() Add support for copying new reference types Clean up deprecated routines to go through VOL and same code path Fix return codes in existing trefer.c test Rename trefer.c to trefer_deprec.c trefer.c is for new references Add performance test for trefer Add additional obj_copy_ref test Make use of tokens and blobs to store references Skip blob encoding for object references Start adding new reference examples
* More whitespace synchingAllen Byrne2019-10-021-314/+314
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* New hyperslab selection routines and new public selection iterator routines.Quincey Koziol2019-06-161-0/+21
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* Fixed a memory issue where unfreed shared attribute dataspace memoryDana Robinson2019-06-111-3/+7
| | | | | | tripped an assert in our memory sanity checks. Fixes HDFFV-10774.
* HDFFV-10365: Changes as described in the RFC: H5Sencode/H5Sdecode Format Change.Vailin Choi2019-04-061-7/+15
| | | | This also addresses HDFFV-10255: H5Sencode/decode performance issue.
* Set V112 as the latest format and extend the arrays of version bounds.Vailin Choi2019-04-041-0/+1
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* - Added H5MMprivate.h #includes where neededDana Robinson2019-03-161-0/+1
| | | | | - Added casts to quiet H5MM_memcpy warnings - Removed char * casts from HDmemcpy
* Added an H5MM_memcpy call that checks for buffer overlap.Dana Robinson2019-03-161-1/+1
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* Align develop with incoming hyperslab_updates branch changes.Quincey Koziol2019-02-131-270/+121
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* Delta reduction against hyperslab_updates branch.Quincey Koziol2019-01-111-8/+7
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* H5S adjust callbacks now return an herr_t instead of void.Dana Robinson2018-09-241-2/+2
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* Revert "Merge pull request #1116 in HDFFV/hdf5 from ↵hdftest2018-06-241-7/+7
| | | | | | | ~HDFTEST/hdf5_hft:hdf5_1_10 to develop" This reverts commit e9f476dad47ce593f13dacb77b1cc664d1f24e7b, reversing changes made to 2ff00b1b937ebe36ac6ddf590c16a4c27fc0b053.
* Merge branch 'develop' into hdf5_1_10.syncM. Scot Breitenfeld2018-06-041-1/+52
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| * * Fixed the error testsDana Robinson2018-05-021-1/+52
| | | | | | | | * Moved common functionality into helper functions
* | Merge branch 'develop' into hdf5_1_10.syncM. Scot Breitenfeld2018-05-081-74/+8
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| * Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into ↵Quincey Koziol2018-04-291-87/+39
| |\ | | | | | | | | | merge_hyperslab_updates
| | * Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into ↵Quincey Koziol2018-03-181-13/+32
| | |\ | | | | | | | | | | | | | | | | | | | | merge_func_enter_vol Plus initial steps toward merging API context push into FUNC_ENTER_API* macros
| | | * Fix for HDFFV-10355 (CVE-2017-17506).Dana Robinson2018-02-271-2/+2
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| | | * Changes made based on code reviews.Vailin Choi2018-01-121-6/+9
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| | | * (1) Merge branch 'develop' into bugfix/version_boundsVailin Choi2017-11-251-6/+6
| | | |\ | | | | | | | | | | | | | | | | | | | | | | | | | (2) Add two new options to h5repack for low and high bounds as in H5Pset_libver_bounds. (3) Modify message pre_copy callbacks so that H5Ocopy can handle version bounds check. (4) Add version bounds check for cache image feature.
| | | * | Initial checkin for library version boundsVailin Choi2017-10-031-9/+25
| | | |/ | | | | | | | | | | | | Code changes to provide versioning support when adding to the enumerated defines for H5F_libver_t.
| | * | Add API context interface and use it throughout the library.Quincey Koziol2018-03-151-72/+7
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| | * Added missing casts for the return value of H5I_object_verify().Dana Robinson2017-05-241-1/+1
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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.
| * | Checkpoint normalization against incoming hyperslab / selection / dataspaceQuincey Koziol2017-03-281-2/+1
| |/ | | | | | | improvements.
* | Needs to sync with lib version and Sencode.M. Scot Breitenfeld2018-03-071-13/+32
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* | Fix for HDFFV-9947 H5SencodeVailin Choi2017-11-281-7/+7
| | | | | | | | Modifications to fix H5Sencode bug when num points selected is > 2^32.
* | Added missing casts for the return value of H5I_object_verify().Dana Robinson2017-05-251-1/+1
| | | | | | | | (cherry picked from commit 8807f918b9b00916efa822dda0301d3aa9debd80)
* | Change copyright headers to replace url referring to file to be removedlrknox2017-04-141-6/+4
|/ | | | | | | | and replace it with new url for COPYING file. Fix 2 lines in java error test expected output file where messages include line numbers changed by reducing the copyright header by 2 lines.
* [svn-r29372] minor error reporting fix.Mohamad Chaarawi2016-03-091-2/+2
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* [svn-r27956] Description:Quincey Koziol2015-10-051-2/+3
| | | | | | | | Minor code cleanups, preparing to merge to trunk. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest not required on this branch)
* [svn-r27916] Re-merge of r27884-27891 from the trunk + bugfix for a fewDana Robinson2015-09-301-18/+22
|\ | | | | | | | | | | | | | | H5S recursive functions where an aliased pointer was incorrectly set too early. Tested on: Ubuntu 15.04 (Linux 3.19 x86_64) w/ gcc 4.9.2 serial and parallel (w/ MPICH 3.1.4)
* | [svn-r27912] Revert of r27887, which caused failures in the vds test. TheseDana Robinson2015-09-291-22/+18
| | | | | | | | | | | | | | | | changes will be merged more carefully so we can more easily identify any errors that arise. Tested on: Ubuntu 15.04 (Linux 3.19 x86_64) w/ gcc 4.9.2 serial and parallel (w/ MPICH 3.1.4)
* | [svn-r27887] Description:Quincey Koziol2015-09-271-18/+22
|\ \ | |/ | | | | | | | | | | | | Merge changes from trunk to the branch. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest not required on this branch)
| * [svn-r27884] Description:Quincey Koziol2015-09-261-18/+22
| | | | | | | | | | | | | | | | | | Update dataspace selection encode/decode routines to avoid type aliasing errors. Tested on: Linux/64 2.6.x (platypus) w/production (h5committest forthcoming)
| * [svn-r27851] Description:Quincey Koziol2015-09-221-32/+63
| | | | | | | | | | | | | | | | | | Normalization changes that wouldn't otherwise be necessary if the VDS branch wasn't coming in shortly. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest forthcoming)
* | [svn-r27835] Description:Quincey Koziol2015-09-211-42/+87
|\ \ | |/ | | | | | | | | | | | | Sync w/trunk. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest not required on this branch)
| * [svn-r27768] Description:Quincey Koziol2015-09-141-42/+87
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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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