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* Documentation fixes right in time for the holidays (#1321)Gerd Heber2022-01-1413-164/+759
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Sketch of the H5S life cycle. * Committing clang-format changes * Fix H5S_UNLIMITED snafu. * Updated RM template and RM page. * Added H5S life cycle. * Committing clang-format changes * Added H5T life cycle. * Committing clang-format changes * Cleaner layout (?) * Cleaned the H5F life cycle. Called out unfinished biz. * Committing clang-format changes * Remaining life cycle skeletons. * Committing clang-format changes * Committing clang-format changes * Added H5Z life cycle. * Committing clang-format changes * Added H5G life cycle. * Committing clang-format changes * H5 and H5I life cycle updates. * Committing clang-format changes * Added H5PL life cycle. * Committing clang-format changes * Added H5L life cycle. * Committing clang-format changes * Fix for Chris' comment. * Add a variable for Doxygen pre-processor definitions. * Forgot to add the H5M API. * Clarify the H5Z life cycle. * Committing clang-format changes * Add H5Zdevelop.h to Doxygen.in. Added H5I life cycle. * Committing clang-format changes * Clarified introduction and fixed missing label declaration. * Added H5O life cycle. * Committing clang-format changes * H5O cleanup, part 1. * Committing clang-format changes * Cleaned up some of the endless repetition in H5O. * Committing clang-format changes * Cookbook & RFC draft layouts. * Updated manifest. * Updated the manifest, the example paths, and sketched the 1st recipe. * Committing clang-format changes * Outlined two more recipes. * Committing clang-format changes * More recipes and RFCs. * Committing clang-format changes * Draft of templatized RFC references. * Another batch of RFC changes. * Another batch of RFCs. * Fixed reference. * RFCs in reverse chronological order. * First cut of RFCs. * Fixed reference. * Updated recipes. * Updated recipes. * More RFCs. * Updated D*PL comments. * Added H5P descriptions. * Committing clang-format changes * H5R life-cycle snapshot. * Committing clang-format changes * H5R life-cycle. Added line numbers to life-cycle examples. * Committing clang-format changes * Fixed formatting for H5Dchunk_iter(). * Added comment on collective mode requirement w/ compression. * Simplified API compat. macro dox. * More API vers. updates. * Hide the async macro entrails. * Latest VFD SWMR RFC. * Create a tag file for permalinks. * Added TODOs for metadoc. * Removed duplication. * Revised RM landing page. * Trimmed more duplication. * Committing clang-format changes * Revised H5D. * Committing clang-format changes * Updated survey link. * Added Doxygen RM entry template link. * Added the "Multi-Thread HDF5" RFC. * Added DOXYGEN_TAG_FILE. * Added selection I/O RFC. * Added the VFD Sub-filing RFC. * Updated meta-documentation and added two old presentations. * Added a few more RFCs (4). * Fixed MANIFEST. * Updated meta-documentation. * Added Filters technical note. * Fixed MANIFEST. * Restore the path stripper. * Experimental full-text search via Google. * Better full-text search integration. * Whoops. Forgot this one. * Oh boy. * Make CMake happy. * Added "Debugging HDF5 Applications" technical note. * Another batch of RFCs. * Fixes for #1221. * Updated overview. * Fixed image dependencies. * CMake updates. * Fixed SET. * Better? * Update doxygen/dox/Overview.dox * Fixed documentation errors. Added missing version info. * Callback documentation updates. * Fixed indexing errors in the outline. * Doxygen-ized the HDF5 glossary. * Fix a few minor typos . Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Larry Knox <lrknox@hdfgroup.org>
* Fix H5ACmpio dirty bytes creation debugging (#1357)jhendersonHDF2022-01-121-5/+5
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* cmake custom command fix (#1356)Allen Byrne2022-01-121-32/+36
| | | | | | | | | | | | | * From gitlab.kitware.com/third-party/hdf5 rework custom commands commit/757aa42ebff8c9819c054f5e00559143c60f653d * Correct stamp file generation * Needs to support pregenerated H5Tinit.c file * Adjust custom command for all build systems types * Custom target only depends on OUTPUT of custom command
* Corrected H5Oget_info parameter description (#1349)Scot Breitenfeld2022-01-111-3/+3
| | | | | * H5Lexists docs: Removed reference to 1.8.16 since the change is the 1.8.x releases, HDFFV-11289 * H5Oget_info_by_name, name can be any object, not just a group
* Use appropriate printf format specifiers for haddr_t and hsize_t types ↵jhendersonHDF2022-01-1111-173/+129
| | | | directly (#1340)
* fixed off-by-one error in h5fget_name_f, HDFFV-11290 (#1345)Scot Breitenfeld2022-01-112-5/+37
| | | | | * fixed off-by-one error in h5fget_name_f, HDFFV-11290 * fixed typo
* H5Lexists docs: Removed reference to 1.8.16 since the change is the 1.8.x ↵Scot Breitenfeld2022-01-111-3/+3
| | | | releases, HDFFV-11289 (#1335)
* sort out/ref files for line compare (#1337)Allen Byrne2022-01-081-3/+7
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* Add tests for H5Ocopy of new object refs (#1338)Allen Byrne2022-01-0810-251/+700
| | | | | | | | | | | * Add tests for H5Ocopy of new object refs * Correct class name * Skip test because of issue with debug assertions * Update reference file * Fix object examples for new refs
* Fix compilation issues with Mingw (#1342)Baljak2022-01-086-31/+33
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* OESS-168: Remove clang warnings. (#1308)H. Joe Lee2022-01-071-1/+4
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* OESS-168: Remove clang warnings. (#1305)H. Joe Lee2022-01-071-2/+4
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* OESS-168: Remove clang warnings. (#1304)H. Joe Lee2022-01-071-1/+5
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* Fix usage of several HDfprintf format specifiers after HDfprintf removal (#1324)jhendersonHDF2022-01-0410-147/+231
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* Fix typo. (#1303)H. Joe Lee2022-01-041-1/+1
| | | chksum -> checksum
* Fix typo. (#1301)H. Joe Lee2022-01-041-1/+1
| | | If the are -> If they are
* OESS-168: Remove clang warnings. (#1300)H. Joe Lee2022-01-041-1/+1
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* Changed to correct return datatype for H5Lexists (#1330)Scot Breitenfeld2022-01-041-4/+5
| | | | | * changed to correct return datatype for H5Lexists Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* OESS-168: Remove clang warnings. (#1295)H. Joe Lee2021-12-151-1/+1
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* OESS-168: Remove clang warnings. (#1294)H. Joe Lee2021-12-151-4/+4
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* OESS-168: Remove clang warnings. (#1297)H. Joe Lee2021-12-151-1/+1
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* OESS-168: Remove clang warnings. (#1280)H. Joe Lee2021-12-131-8/+8
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* OESS-168: Remove clang warnings. (#1283)H. Joe Lee2021-12-131-2/+2
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* OESS-168: Remove clang warnings. (#1284)H. Joe Lee2021-12-131-8/+8
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* Call FUNC_ENTER immediately in H5_init_library (#1287)jhendersonHDF2021-12-131-2/+2
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* Fix free list tracking and cleanup cast alignment warnings (#1288)jhendersonHDF2021-12-131-27/+120
| | | | | * Fix free list tracking and cleanup cast alignment warnings * Add free list tracking code to H5FL 'arr' routines
* Make it easier to find version specific docs. (#1260)Gerd Heber2021-12-133-12/+27
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Sketch of the H5S life cycle. * Committing clang-format changes * Fix H5S_UNLIMITED snafu. * Updated RM template and RM page. * Added H5S life cycle. * Committing clang-format changes * Added H5T life cycle. * Committing clang-format changes * Cleaner layout (?) * Cleaned the H5F life cycle. Called out unfinished biz. * Committing clang-format changes * Remaining life cycle skeletons. * Committing clang-format changes * Committing clang-format changes * Added H5Z life cycle. * Committing clang-format changes * Added H5G life cycle. * Committing clang-format changes * H5 and H5I life cycle updates. * Committing clang-format changes * Added H5PL life cycle. * Committing clang-format changes * Added H5L life cycle. * Committing clang-format changes * Fix for Chris' comment. * Add a variable for Doxygen pre-processor definitions. * Forgot to add the H5M API. * Clarify the H5Z life cycle. * Committing clang-format changes * Add H5Zdevelop.h to Doxygen.in. Added H5I life cycle. * Committing clang-format changes * Clarified introduction and fixed missing label declaration. * Added H5O life cycle. * Committing clang-format changes * H5O cleanup, part 1. * Committing clang-format changes * Cleaned up some of the endless repetition in H5O. * Committing clang-format changes * Cookbook & RFC draft layouts. * Updated manifest. * Updated the manifest, the example paths, and sketched the 1st recipe. * Committing clang-format changes * Outlined two more recipes. * Committing clang-format changes * More recipes and RFCs. * Committing clang-format changes * Draft of templatized RFC references. * Another batch of RFC changes. * Another batch of RFCs. * Fixed reference. * RFCs in reverse chronological order. * First cut of RFCs. * Fixed reference. * Updated recipes. * Updated recipes. * More RFCs. * Updated D*PL comments. * Added H5P descriptions. * Committing clang-format changes * H5R life-cycle snapshot. * Committing clang-format changes * H5R life-cycle. Added line numbers to life-cycle examples. * Committing clang-format changes * Fixed formatting for H5Dchunk_iter(). * Added comment on collective mode requirement w/ compression. * Simplified API compat. macro dox. * More API vers. updates. * Hide the async macro entrails. * Latest VFD SWMR RFC. * Create a tag file for permalinks. * Added TODOs for metadoc. * Removed duplication. * Revised RM landing page. * Trimmed more duplication. * Committing clang-format changes * Revised H5D. * Committing clang-format changes * Updated survey link. * Added Doxygen RM entry template link. * Added the "Multi-Thread HDF5" RFC. * Added DOXYGEN_TAG_FILE. * Added selection I/O RFC. * Added the VFD Sub-filing RFC. * Updated meta-documentation and added two old presentations. * Added a few more RFCs (4). * Fixed MANIFEST. * Updated meta-documentation. * Added Filters technical note. * Fixed MANIFEST. * Restore the path stripper. * Experimental full-text search via Google. * Better full-text search integration. * Whoops. Forgot this one. * Oh boy. * Make CMake happy. * Added "Debugging HDF5 Applications" technical note. * Another batch of RFCs. * Fixes for #1221. * Updated overview. * Fixed image dependencies. * CMake updates. * Fixed SET. * Better? * Update doxygen/dox/Overview.dox Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Larry Knox <lrknox@hdfgroup.org>
* Fixes for async operations (#1272)jhendersonHDF2021-12-112-6/+68
| | | | | Setup VOL wrapping context for each "request" callback Set H5ES_event_t "next" pointer to NULL when appending to event list
* Remove duplicate memcpy in chunk_file_cb (#1285)jhendersonHDF2021-12-111-1/+0
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* OESS-168: Remove clang warnings. (#1282)H. Joe Lee2021-12-101-1/+1
| | | | | | | * OESS-168: Remove clang warnings. * OESS-168: Remove commented-out code. * OESS-168: Address @gnuoyd review.
* Remove extra space. (#1274)H. Joe Lee2021-12-101-1/+1
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* OESS-168: Remove clang warnings. (#1277)H. Joe Lee2021-12-101-1/+1
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* Fix directory variable in shell scripts (#1273)Allen Byrne2021-12-109-160/+62
| | | | | | | | | | | | | | | | | | | | | * Fix testswmr scripts with utils/test variable * Change format of configure var assignment * quote the variable value in configure * Use sh.in expected var pattern * Only ref builddir in script * Create vars for utils/test and test as H5_<path>_BUILDDIR * Use abs_top_builddir in test scripts * Change script var to make it easier to read. * Use @abs_top_builddir@ directly in paths * Correct typos/comment
* Initialize filter mask and chunk nbytes for 'Single' chunk index (#1261)jhendersonHDF2021-12-091-1/+7
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* OESS-168: Remove clang warnings. (#1269)H. Joe Lee2021-12-081-6/+10
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* Convert vds swmr test script to powershell (#1245)Allen Byrne2021-12-085-13/+781
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Convert SWMR shell scripts to Windows powershell. * Use $LastExitCode instead of $? in script * Prevent execution in a different window * Github #969 Use stdout instead of file for configure check (#1089) * 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 * Don't allow H5Pset(get)_all_coll_metadata_ops for DXPLs (#1201) * Fixes const warnings in H5ES package (#1211) * Quiets a 'set but not used' warning in h5diff_array.c (#1210) * Convert vds swmr test script to powershell * Enable vdsswmr powershell test * Add configure vdsswmr statement * Correct powershell script vars * Convert SWMR shell scripts to Windows powershell. * Use $LastExitCode instead of $? in script * Prevent execution in a different window * Github #969 Use stdout instead of file for configure check (#1089) * 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 * Convert vds swmr test script to powershell * Enable vdsswmr powershell test * Add configure vdsswmr statement * Correct powershell script vars * Cleanup review issues * Fix variable assignment * Change the wait function to pass in the path * Disable actual test execution until programs fixed * Adjust copyright text * Fix spelling Co-authored-by: jhendersonHDF <jhenderson@hdfgroup.org> Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com>
* OESS-168: Remove clang warnings. (#1263)H. Joe Lee2021-12-081-3/+3
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* Correct spelling correction of preceed incorrectly to proceed. Should (#1268)Larry Knox2021-12-071-2/+2
| | | * Correct spelling correction of 'preceed' incorrectly to 'proceed'. It should be 'precede'.
* Fixed Spelling Errors (#1166)Scot Breitenfeld2021-12-07452-1604/+1617
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * 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>
* change windows os from 2016 to latest (#1241)Allen Byrne2021-12-012-8/+8
| | | | | | | * change windows os from 2016 to latest * Upgrade the VS version used. * specify windows VS version
* Fix windows test with floating point rounding issues (#1237)Allen Byrne2021-11-301-1/+1
| | | | | | | * Check windows sdk version for test * Correct variable reference form * Use VERSION_LESS in IF check
* Update version to 1.13.1-1 after creation of branch for 1.13.0 release. (#1236)Larry Knox2021-11-309-20/+20
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* Fix indentation in RELEASE.txt to be consistent. (#1232)Larry Knox2021-11-301-519/+519
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* Make default to build high-level tools the same as default for (#1234)Larry Knox2021-11-301-1/+4
| | | high-level library.
* Add support for parallel tools based on the 3rd party library mpiFileUtils ↵rawarren2021-11-2924-4/+2825
| | | | | | | | | | (libMFU) … (#1177) Adds tool h5dwalk and configure options to enable building it. Co-authored-by: Richard Warren <Richard.Warren@hdfgroup.org> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Richard.Warren <richard.warren@jelly.ad.hdfgroup.org> Co-authored-by: Larry Knox <lrknox@hdfgroup.org>
* Fix Fortran REGEX and newlines (#1226)Allen Byrne2021-11-292-8/+8
| | | | | | | * Fix order of fortran define * fix typo * Fix REGEX and newlines
* Only check HDF5_DRIVER in MPI I/O VFD if VFD isn't initialized (#1213)jhendersonHDF2021-11-253-15/+14
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* Fix a few H5CX warnings from recent init changes (#1224)jhendersonHDF2021-11-241-8/+4
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* Fix a few warnings after recent H5S const-related changes (#1225)jhendersonHDF2021-11-242-16/+16
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* Fixes an assert in H5Pget_filter_by_id1/2 w/ out-of-range IDs (#1222)Dana Robinson2021-11-243-0/+111
| | | | | | | | | | | | * Fixes an assert in H5Pget_filter_by_id1/2 w/ out-of-range IDs Filter IDs < 0 or > H5Z_FILTER_MAX could trip an assert in the library due to missing ID range checks in H5Pget_filter_by_id1/2. The library now returns a normal error code when filter IDs are out of range. Fixes HDFFV-11286. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
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