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* Avoid calling H5FD_subfiling_init from h5open_f. (#2149)Scot Breitenfeld2022-10-071-1/+23
| | | | | * Only call H5FD_SUBFILING if subfiling conditions are met * clang format
* Subfiling Fortran wrapper work. (#2143)Scot Breitenfeld2022-10-0618-34/+870
| | | | | | | | | | | | | | | | | * added C ref. for Fortran constants * added C ref. for Fortran constants * move constant paramters to H5* module listing * added back comment * Fortran subfiling and ioc FD with tests. H5Pset/get_mpi_params wrappers with tests, misc.. parallel test clean-up. * misc. fixes * fixed CMake testpar issues, formatted, misc. updates * updated tests
* Fix static-cast format (#2141)Allen Byrne2022-10-041-3/+3
| | | | | * Fix static-cast format * clang format fix
* Fix mostly java warnings, and cpp cast (#2134)Allen Byrne2022-10-039-185/+204
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* Grouped the Fortran constants in Doxygen (#2136)Scot Breitenfeld2022-10-036-67/+104
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* Adds a first cut at a "getting started with HDF5 development" guide (#2137)Dana Robinson2022-10-011-0/+866
| | | | | | | | | | | | | | | | | * Added empty "getting started" markdown file * Added title and brief tour of source code * Moved platform-independence text to markdown * Added anatomy of a function documentation * Adds information on public/private/package calls and macros * Adds much getting started guide text * Fixed typos * Fixed codespell issues
* Subfiling testing fix and documentation (#2132)jhendersonHDF2022-09-305-29/+157
| | | | | | | | | * Fix a sporadic failure in Subfiling VFD tests * Subfiling VFD - add note to H5Pget_fapl_subfiling documentation Adds note about how H5Pget_fapl_subfiling only returns the original settings on a FAPL and those settings could have been modified by the Subfiling VFD's environment variables
* Misc. Fortran Doxygen updates (#2129)Scot Breitenfeld2022-09-2812-287/+377
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* Fixed an issue that could occur when combining hyperslab selections (#2122)Neil Fortner2022-09-273-2/+61
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* Added C references to Fortran constants. (#2126)Scot Breitenfeld2022-09-2716-425/+1077
| | | * added C references for Fortran APIs
* Restructure ref manual presentation (#2123)Allen Byrne2022-09-2712-167/+902
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* Add missing windows include/lib configure for StrStrIA (#2114)Allen Byrne2022-09-221-0/+7
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* Use case-insensitive comparison for headers fix #2100 (#2101)Frank Berghaus2022-09-218-2/+80
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Use case-inseneitive comparison for headers HTTP headers should be case-insensitive. Use case-insensitive string comparisons when working with HTTP header responses to ensure compatibility. * Revert "Use case-inseneitive comparison for headers" This reverts commit a02f591723506b62b7208449be6eef7122120398 * Ignore case when searching HTTP header responses Looking up the Content-Length in the header returned by S3 storage endpoints should ignore case. To guarantee portability implement a function for case-insensitive string search, because it is non-standard. * Add an _ after H5 for the strcasestr implementation It is a private function and should sport that underscore. * Remove author comment from the doc comment * Use search function defined by system if available Check whether the system provides a function implementing case insensitive string searches. Only use the custom implementation if the system does not provide the functionality. * Add tests for case-insensitive search Basic tests: - Search for empty string - Search with exact match - Search with case-insensitive match - search with no match * Enforce clang-format style Some variable definitions in the th5_system tests did not conform to clang-format's expectations. Updated the offending lines. * Correct comment describing test case * Added some spaces to please clang-format * Ignore discarding const Ask the compiler to ignore discarding the const when retunring a match from H5_strcasestr Co-authored-by: Frank Berghaus <frank.berghaus@mpcdf.mpg.de>
* Update examples reference to single-source version 2.0.1 (#2107)Allen Byrne2022-09-205-7/+7
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* Updates VOL capabilities flags (#2105)Dana Robinson2022-09-1713-56/+103
| | | | | | | | | | | | | | | * Added feature/vol_cap_flags branch to GitHub actions * Convert unsigned cap flag field to uint64_t and add flags * Committing clang-format changes * Convert unsigned cap flag field to uint64_t and add flags * Committing clang-format changes * Updates the VOL struct version number Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Use doxygen snippets for common tables (#2104)Allen Byrne2022-09-167-743/+1069
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* Subfiling VFD updates (#2106)jhendersonHDF2022-09-1618-2356/+5432
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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.
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