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* develop Merge doxygen from 1.12 branch (#2095)Allen Byrne2022-09-14322-14783/+38360
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* removed H5R interface definition (#2090)Scot Breitenfeld2022-09-141-1/+1
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* Fix memory bug in selection I/O (#2096)Neil Fortner2022-09-141-14/+18
| | | | | | * Fix memory bug in selection I/O * Change error messages for calls to H5I_remove() in H5FD_read/write_selection()
* Adds file locking documentation (#2084)Dana Robinson2022-09-141-0/+366
| | | | | | | | | | | | | | | * Added initial (partial) file locking document * Almost done with file locking document * Fix intro * Cleaned up text * Updated environment variable verion info * Fix typo * Fix typos
* Remove bitbucket.hdfgroup.org dependency. #2082 (#2086)Allen Byrne2022-09-072-12/+12
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* Change `test` to `example`. (#2087)H. Joe Lee2022-09-071-2/+0
| | | | | * Remove the commented line.
* Fix grammar and spelling in comment block. (#2089)H. Joe Lee2022-09-071-1/+1
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* Doxygen Fortran (#2062)Scot Breitenfeld2022-09-0720-15614/+8610
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* Updates release schedule for 2023 (#2085)Dana Robinson2022-09-043-22/+21
| | | | | * Updates release schedule for 2023 * Updates figure to put 1.13 and 1.14 on the same line
* Update CMake code to 3.18 minimum version (#2080)Allen Byrne2022-09-03105-498/+243
| | | | | * Update CMake code to 3.18 minimum version * Updated release note
* Minor changes to CMake comments, etc. (#2078)Dana Robinson2022-08-317-56/+57
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* Updates onion VFD major error codes (#2076)Dana Robinson2022-08-314-49/+49
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* Address review comments from downstream merge of #2016 (#2073)Neil Fortner2022-08-312-4/+6
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* Fix Java tests for Developer build modes (#2079)jhendersonHDF2022-08-295-5/+5
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* Tidying of configure check C code (#2077)Dana Robinson2022-08-292-172/+200
| | | | | * Tidying of configure check C code * Fixed missing endif removal
* Adds documentation for config directory (#2065)Dana Robinson2022-08-251-0/+88
| | | | | * Adds documentation for config directory * Fix spelling error
* Added VOL connector feature flag RFC. (#2064)Gerd Heber2022-08-242-0/+2
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* Fortran module directory improvements (#2060)Dana Robinson2022-08-234-2/+4
| | | | | | * Removes the module directory from the Automake flags as this generated a large number of "missing include directory" warnings and is unecessary * Adds the module path to libhdf5.settings
* removed h5rget_object_type_f module interface (#2057)Scot Breitenfeld2022-08-232-12/+5
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* Corrects more Fortran warnings (#2059)Dana Robinson2022-08-238-9/+25
| | | | | | | | | * Moves -Wunused-dummy-arguments to the developer warnings since this generates a lot of spurious, unfixable noise due to things like callback wrappers * Changes the return cast in h5fget_fileno_c, fixes a comment, and comment on potential badness * Initializes a variable in tH5L_F03.F90 to quiet a 'maybe uninitialized' warning
* Fix inappropriate use of HGOTO_ERROR (#2055)Neil Fortner2022-08-221-1/+1
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* Quiets Fortran warnings about large arrays (#2053)Dana Robinson2022-08-222-6/+21
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* GitHub workflow cleanup (#2047)Dana Robinson2022-08-223-475/+334
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Cleans up main GitHub workflow(s) * Combines main.yml and pr-check.yml, which differed trivially * Reduces config redundancy via proper use of the matrix scheme * Adds build-only configs for: - Version 1.6 default API - No deprecated symbols - Parallel HDF5 * The -Werror config was converted to build-only * Makes the naming scheme more uniform * Spaces out the code and adds comments * Typo fix * Fix mirror VFD CMake configure typo * Debugging hack * Undo debug hack and fix CMake build mode * Set CC=mpicc for parallel builds * Another attempt to fix parallel builds * Updates comments in main.yml * Fixes a v16 API bug in the mirror VFD test code * Committing clang-format changes * Added checks for v1.8 - 1.12 APIs * Manually specify Windows configs Java debug builds time out when running tests on Windows. We'll disable them in debub mode while we investigate. * Revert "Manually specify Windows configs" This reverts commit d710d8d21990a57084841e82bd9f7e7d9f53a244. * Skip Debug Windows configs while we investigate Java H5L timeouts Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Quiets Fortran Autotools builds (#2052)Dana Robinson2022-08-221-1/+3
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* Quiets Automake rules in src directory (#2051)Dana Robinson2022-08-222-10/+12
| | | | | * Quiets Automake rules in src directory * Fix whitespace
* Removes ST from the list of debug packages (Autotools only) (#2045)Dana Robinson2022-08-221-2/+2
| | | | | | | | | | * Removes ST from the list of debug packages The ST package (ternary search trees) was removed from the library a while ago * Replaced B2 package I did some crude timing with and without the B2 debug code enabled and it doesn't seem to make much of a difference.
* Simplify the CODEOWNERS file (#2049)Dana Robinson2022-08-221-34/+3
| | | Simplify the CODEOWNERS file
* [WIP] Add Developer build mode to CMake (#1659)jhendersonHDF2022-08-2021-134/+449
| | | | | | | | | | | | | | | | * Add Developer build mode to CMake * Set a few CMake variables for Developer build modes * Refactor enabling of debug and developer-level compile definitions * Convert cache debugging macros to normal ifdef style Normal ifdef-style instead of if-style allows build system to define macros without warning about redefining macros with different values (0 vs. 1) * Add HDF5 Developer compile definitions to testing files * Temporarily disable -fanalyzer flag for GCC 12+ Developer builds
* Cleanup some warnings in Java JNI code (#2034)jhendersonHDF2022-08-194-162/+278
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* Removes cmake_ext_mod (files moved to cmake) (#2041)Dana Robinson2022-08-1951-726/+702
| | | | At one time this content was a git submodule shared between several projects but that time has long passed.
* Removes bin/deploy, which just calls h5redeploy under the hood (#2027)Dana Robinson2022-08-192-59/+0
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* Updates the warnist script to report gfortran generic warnings (#2040)Dana Robinson2022-08-191-0/+12
| | | | These are not associated with a file and line number, like specifying a non-existant include directory on the compile line.
* Release updates (#2033)Larry Knox2022-08-182-189/+611
| | | * Update HISTORy-1_13.txt and clean RELEASE.txt entries after 1.13.2 release.
* Add note to RELEASE.txt for GitHub #2016 (#2030)Neil Fortner2022-08-181-0/+9
| | | | | | | | | | | | | | | | | * Fix bug in attribute type conversion where the background buffer would not be initialized with the destination contents when necessary. Other minor simplification. * Committing clang-format changes * Fix warnings. * Address review comments. * Add RELEASE.txt note for PR #2016 * Add GitHub number to release note Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Fixes codespell issues (#2032)Dana Robinson2022-08-1713-24/+24
| | | | | * Fixes codespell issues * Fixed another typo
* Add note to RELEASE.txt for HDFFV-11308 (#2029)Neil Fortner2022-08-171-0/+10
| | | | | * Add note to RELEASE.txt for HDFFV-11308 * Fix formatting error in RELEASE.txt
* Remove unused dependency files (#2025)Dana Robinson2022-08-172-78/+0
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* Update bin/README.mdDana Robinson2022-08-171-2/+2
| | | Correct missing space after # and ##
* Adds a TODO section to bin/README.md (#2028)Dana Robinson2022-08-171-0/+5
| | | Mainly to address the semi-broken state of chkcopyright
* Adjustments to t_bigio.c for >2GiB I/O test (#1992)jhendersonHDF2022-08-171-23/+34
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* Adds a README.md file to bin that indicates script usage (#2024)Dana Robinson2022-08-171-0/+27
| | | | | * Adds a README.md file to bin that indicates script usage * Forgot header row
* Removes bin/chkconfigure (#2023)Dana Robinson2022-08-171-82/+0
| | | | We check autoconf in configure.ac and can check for anything else in autogen.sh
* Removes bin/format_source_patch (#2022)Dana Robinson2022-08-171-34/+0
| | | This differs only trivially from bin/format_source
* Removes the bin/gcov_script file (#2021)Dana Robinson2022-08-171-51/+0
| | | We don't need fragile scripts to run basic profiling programs
* Replaces bin/newer with -nt comparison in Makefiles (#2020)Dana Robinson2022-08-172-45/+2
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* Removes the bin/yodconfigure script which appears unused (#2019)Dana Robinson2022-08-171-76/+0
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* Replaced bin/mkdirs w/ `mkdir -p -m 755`, which is POSIX (#2018)Dana Robinson2022-08-172-35/+2
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* Removes the broken bin/errors script (#2017)Dana Robinson2022-08-161-139/+0
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* Fix cpp comment (#2011)bmribler2022-08-161-2/+1
| | | | | | | | | | | | | | | | | | * Fix test failure Description: - Added two H5File constructors to open file with non-default fapl - Added non-default fapl to test functions - Commented certain renaming attribute tests because of the unexpected behavior in renaming an attribute (HDFFV-11327) Platform tested: Linux/64 (jelly) * Committing clang-format changes * Update H5File.cpp Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Fix bug in attribute type conversion wiith compound types (#2016)Neil Fortner2022-08-162-9/+175
| | | | | | | | | | | | | * Fix bug in attribute type conversion where the background buffer would not be initialized with the destination contents when necessary. Other minor simplification. * Committing clang-format changes * Fix warnings. * Address review comments. Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
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