* Fix issues with large external data files (#4843) (#4847)
* Fixed a memory leak from H5FL_blk_malloc (#4882)
In H5F__accum_reset(), when H5F__accum_flush() failed, the freeing of
f_sh->accum.buf was never reached, causing resource leak.
@fortnern added the third argument to H5F__accum_reset() so we can free
f_sh->accum.buf when we close the file, that is, when H5F__accum_reset()
is called from the H5F__dest() route, and can leave the accumulator in place
otherwise.
* Added an entry for the GH-4585 fix (#4889)
* Fix an incorrect returned value by H5LTfind_dataset() (#4869)
H5LTfind_dataset() returns true for non-existing datasets because it only compares up to the length of the searched string, such as "Day" vs "DayNight" (issue GH-4780).
This PR applied the user's patch and added tests.
* Fix minor spelling in documentation (#4870)
* Set release version 1.14.5 and release date to 2024-09-30.
* Fix issues with large external data files (#4843) (#4847)
* Fixed a memory leak from H5FL_blk_malloc (#4882)
In H5F__accum_reset(), when H5F__accum_flush() failed, the freeing of
f_sh->accum.buf was never reached, causing resource leak.
@fortnern added the third argument to H5F__accum_reset() so we can free
f_sh->accum.buf when we close the file, that is, when H5F__accum_reset()
is called from the H5F__dest() route, and can leave the accumulator in place
otherwise.
* Added an entry for the GH-4585 fix (#4889)
* Fix an incorrect returned value by H5LTfind_dataset() (#4869)
H5LTfind_dataset() returns true for non-existing datasets because it only compares up to the length of the searched string, such as "Day" vs "DayNight" (issue GH-4780).
This PR applied the user's patch and added tests.
* Fix minor spelling in documentation (#4870)
* Updated Platforms tested in RELEASE.txt
Incremented version subrelease to -3.
* Fix issues with large external data files (#4843) (#4847)
* Fixed a memory leak from H5FL_blk_malloc (#4882)
In H5F__accum_reset(), when H5F__accum_flush() failed, the freeing of
f_sh->accum.buf was never reached, causing resource leak.
@fortnern added the third argument to H5F__accum_reset() so we can free
f_sh->accum.buf when we close the file, that is, when H5F__accum_reset()
is called from the H5F__dest() route, and can leave the accumulator in place
otherwise.
* Added an entry for the GH-4585 fix (#4889)
* Fix an incorrect returned value by H5LTfind_dataset() (#4869)
H5LTfind_dataset() returns true for non-existing datasets because it only compares up to the length of the searched string, such as "Day" vs "DayNight" (issue GH-4780).
This PR applied the user's patch and added tests.
* Fix minor spelling in documentation (#4870)
---------
Co-authored-by: Neil Fortner <fortnern@gmail.com>
Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com>
* typos and minor corrections in release.txt
* Added items to NEWSLETTER.txt
* Update RELEASE.txt
Adding ARM-based Mac language per Allen
* Update NEWSLETTER.txt
Added ARM-based Mac language per Allen
* Updated release preparation branch version number t0 1.14.5-2
* Disable AM_MAINTAINER_MODE.
Set HDF5GENERATE_HEADERS (CMAKE) to OFF.
Change default build mode from debug to production.
Ran autogen.sh to regenerate UNIX build system files.
Added generated configure, Makefile.ins, etc to commit.
* Convert exec_program to execute_process (#4819)
* Fix a bug in Subfiling VFD vector I/O setup (#4821)
Fixes a bug where the vector I/O sizes weren't being extended when
one of the entries in the array is 0. This caused an over-read of
the I/O sizes buffer and on some machines would cause a memory
allocation failure due to the calculated I/O vector size being too
large.
* Add release note for signed binaries (#4826)
* Draw attention to 3rd step in process to update so numbers for release. (#4825)
* Update RESULT_VARIABLE
* Remove dummy comments that repeat function names. (#4775)
* Fix grammar in H5Odtype.c comment block (#4777)
* Add subfiling checks to the gcc action (#4776)
* Replace non-VOL calls with VOL calls - part 3 (#4771)
This PR switches H5I_object() to H5VL_vol_object() in H5O and H5T APIs. H5M is the last one and left out of this PR because it needs more work
in documentation and there is no test for the API functions.
Fixes GH-4730
* Add subfiling to CI more places where we test parallel (#4778)
* CMake: gcc,, AOCC
* Autotools: AOCC (gcc was added in a previous commit)
NVHPC generates a lot of tools errors for some reason
* Convert Collective Calls html file to doxygen (#4779)
* Fix grammar in H5Fint.c comment block (#4782)
* Improve the consistency of configure help messages (#4783)
Fix grammar in configure message
* Fixes Fortran parallel build race condition for tests (#4789)
* Update URL documentation links to support site (#4781)
* Fix grammar and simplify comment in H5Fint.c (#4790)
* Fix char-subscripts warnings in H5private.h (#4793)
* Bump the github-actions group with 3 updates (#4798)
Bumps the github-actions group with 3 updates: [actions/checkout](https://github.com/actions/checkout), [DoozyX/clang-format-lint-action](https://github.com/doozyx/clang-format-lint-action) and [github/codeql-action](https://github.com/github/codeql-action).
Updates `actions/checkout` from 4.1.1 to 4.1.7
- [Release notes](https://github.com/actions/checkout/releases)
- [Commits](https://github.com/actions/checkout/compare/v4.1.1...v4.1.7)
Updates `DoozyX/clang-format-lint-action` from 0.17 to 0.18
- [Release notes](https://github.com/doozyx/clang-format-lint-action/releases)
- [Commits](https://github.com/doozyx/clang-format-lint-action/compare/v0.17...v0.18)
Updates `github/codeql-action` from 3.25.15 to 3.26.6
- [Release notes](https://github.com/github/codeql-action/releases)
- [Changelog](https://github.com/github/codeql-action/blob/main/CHANGELOG.md)
- [Commits](afb54ba388...4dd16135b6)
---
updated-dependencies:
- dependency-name: actions/checkout
dependency-type: direct:production
update-type: version-update:semver-patch
dependency-group: github-actions
- dependency-name: DoozyX/clang-format-lint-action
dependency-type: direct:production
update-type: version-update:semver-minor
dependency-group: github-actions
- dependency-name: github/codeql-action
dependency-type: direct:production
update-type: version-update:semver-minor
dependency-group: github-actions
...
Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
* Fix typo argueably in H5Cprivate.h (#4795)
* Fix typos in H5Cpkg.h (#4796)
* Add bounds checking to avoid Out-of-bounds Write for gif2h5 (#4786)
* Replace non-VOL calls with VOL calls - part 5 (#4788)
This PR switches H5I_object() and H5I_object_verify() to H5VL_vol_object() and H5VL_vol_object_verify(), respectively, in the H5M APIs and H5Gdeprec (was left out by mistake). This completes the fixes of issue GH-4730.
* Correct the URL paths (#4802)
* Fix a few issues with error reporting during sec2 reads/writes (#4794)
* Update windows and apple signing process (#4806)
* Use latest clang format action (#4807)
* Correct path to document (#4808)
* Detect invalid ID to H5Gmove2 (#4765)
User's application segfaulted because the returned value H5I_BADID wasn't
detected when H5I_get_type() was called. This PR adds checks for invalid
file/group identifiers passed into H5Gmove2.
This defect occurs in many other places, hence, issue GH-4764.
Fixes#4737
* Fix use of public API calls (#4809)
Switch public API calls to private ones. Root cause of #4672, which it fixes.
Also minor code cleanups
* Remove call to H5E_clear_stack() (#4810)
Remove call to H5E_clear_stack() in H5G_node_debug()
Add misc. minor cleanups
* Enable win Intel signing (#4812)
* Remove unneeded file name part (#4814)
* Update NVHPC optimization settings (#4815)
* Use -gopt in Autotools/CMake instead of -g
* Autotools uses -O3 for release, -O1 for debug
* Remove CMake optimization flag removal hack
* Add mirror VFD to serial -Werror CI action (#4753)
* Add mirror VFD to serial -Werror CI action
* NUL terminate mirror_vfd.c strings
* Add THREADS check to configuration file (#4746)
* Cleanup threads package checks
* Check first if package was found
* Remove unnecessary dependent checks
* Remove Unused options and fix names of option prefix
* Rework RFC url in aliases (#4813)
* Update config/cmake/hdf5-config.cmake.in
_ENABLE_THREADS doesn't belong in hdf5_1_14
* Use gfortran 14 for cmake-ctest.yml on mac (#4739)
* Use gfortran 14 for cmake-test on mac
* Remove notarization step
* Address @byrnHDF review
* Fix enum type mismatch warning (#4741)
* Fix macro redefined warnings (#4744)
Removes a duplicated HDopen macro from the performance testing programs
* Update nvhpc CI version to 24.7 (#4740)
* Return basic HTTP range GET logging to ROS3 (#4738)
* Add minimal amount of S3 request logging to ROS3
* Fix ROS3 logging ifdef conditions
* Replace non-VOL calls with VOL calls - part 1 (#4745)
This PR is part of the incremental switching H5I_object() and H5I_object_verify()
to their VOL counterpart, H5VL_object() and H5VL_vol_object_verify(), a newly addedinternal function.
Fixes GH-4730 partially.
* Fix inconsistent documentation of get_name functions (#4715)
- Verified that the listed functions do not include null terminator in the returned length
- Improved some of the tests
- Corrected documentation
Fixes GH-4704
* Casted a positive int to size_t
* Remove HDF-EOS5 CI action (#4750)
The code can't be downloaded due to changes that put it behind an
EarthData login. We'll disable this while we figure out a work-around.
* Replace non-VOL calls with VOL calls - part 2 (#4748)
This PR switches H5I_object_verify() to H5VL_vol_object_verify() in the H5F API
and fixes documentation of H5Fmount and H5Funmount.
* More on H5F API
* Restore rand_r in a few parallel tests (#4749)
The t_pmulti_dset and t_select_io_dset tests rely on the behavior
of the previous private rand_r-like implementation to get the
correct sequence of random numbers to pass. This has been restored
using a fully private rand_r-like implementation that doesn't
rely on rand_r and will work on Windows and other platforms
where rand_r doesn't exist.
* Don't run AOCC parallel tests with -j2 (#4752)
Don't run parallel tests in both Autotools and CMake with multiple
processes. ph5diff still runs with -j2 w/ Autotools since the test
script is in the tools/test/h5diff directory.
* Split off AOCC CMake parallel tests
* Remove unnecessary NPROCS env vars
* Put NPROCS back in serial tests
We run ph5diff tests there
* Replace non-VOL calls with VOL calls - part 3 (#4756)
This PR switches H5I_object_verify() to H5VL_vol_object_verify() in the H5G API
and removes unnecessary casts.
* Turn on parallel CI tests in Autotools & CMake (#4573)
* Fix typo in H5Centry.c (#4762)
* Set/Unset VOL wrapping context in H5VL_attr_close (#4759)
* Add missing C++ and Fortran to Intel oneAPI CI (#4761)
* Add Fortran and C++ to Autotools
* Add Fortran and C++ to Linux CMake
* Add C++ to Windows CMake
* Fix bad GitHub workspace variable
* Remove early test exit (#4757)
* Don't skip file tests
* Remove test with invalid flag for H5Fopen
* Verify that create/open of unseekable file fails
* Remove failure verification
* Restore Julia CI (#4763)
Fixes#4539
* Capitalize f in (#4766)
* Add testing to NVHPC CI actions (CMake & Autotools) (#4760)
Turns on testing, both serial and parallel, but skips:
* dt_arith and dtransform in CMake
* All main library tests in the Autotools
Due to dt_arith and dtransform segfaults when handling long doubles.
* Fix typo in H5T_order_t enum (#4773)
'bit endian' --> 'big endian'
* Correct julia workflows name for hdf5_1_14 branch.
---------
Co-authored-by: H. Joe Lee <hyoklee@hdfgroup.org>
Co-authored-by: Aleksandar Jelenak <ajelenak@users.noreply.github.com>
Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com>
Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com>
Co-authored-by: jhendersonHDF <jhenderson@hdfgroup.org>
Co-authored-by: mattjala <124107509+mattjala@users.noreply.github.com>
* Warning fix (#4682)
* warning fix
* warning fix
* CMake link line needs to use new HDF5_ENABLE_THREADS (#4685)
* Correct the properties for using THREADS library (#4690)
* Bump the github-actions group with 5 updates (#4688)
Bumps the github-actions group with 5 updates:
| Package | From | To |
| --- | --- | --- |
| [actions/download-artifact](https://github.com/actions/download-artifact) | `4.1.7` | `4.1.8` |
| [DoozyX/clang-format-lint-action](https://github.com/doozyx/clang-format-lint-action) | `0.13` | `0.17` |
| [softprops/action-gh-release](https://github.com/softprops/action-gh-release) | `2.0.6` | `2.0.8` |
| [ossf/scorecard-action](https://github.com/ossf/scorecard-action) | `2.3.3` | `2.4.0` |
| [github/codeql-action](https://github.com/github/codeql-action) | `3.25.11` | `3.25.15` |
Updates `actions/download-artifact` from 4.1.7 to 4.1.8
- [Release notes](https://github.com/actions/download-artifact/releases)
- [Commits](65a9edc588...fa0a91b85d)
Updates `DoozyX/clang-format-lint-action` from 0.13 to 0.17
- [Release notes](https://github.com/doozyx/clang-format-lint-action/releases)
- [Commits](https://github.com/doozyx/clang-format-lint-action/compare/v0.13...v0.17)
Updates `softprops/action-gh-release` from 2.0.6 to 2.0.8
- [Release notes](https://github.com/softprops/action-gh-release/releases)
- [Changelog](https://github.com/softprops/action-gh-release/blob/master/CHANGELOG.md)
- [Commits](a74c6b72af...c062e08bd5)
Updates `ossf/scorecard-action` from 2.3.3 to 2.4.0
- [Release notes](https://github.com/ossf/scorecard-action/releases)
- [Changelog](https://github.com/ossf/scorecard-action/blob/main/RELEASE.md)
- [Commits](dc50aa9510...62b2cac7ed)
Updates `github/codeql-action` from 3.25.11 to 3.25.15
- [Release notes](https://github.com/github/codeql-action/releases)
- [Changelog](https://github.com/github/codeql-action/blob/main/CHANGELOG.md)
- [Commits](b611370bb5...afb54ba388)
---
updated-dependencies:
- dependency-name: actions/download-artifact
dependency-type: direct:production
update-type: version-update:semver-patch
dependency-group: github-actions
- dependency-name: DoozyX/clang-format-lint-action
dependency-type: direct:production
update-type: version-update:semver-minor
dependency-group: github-actions
- dependency-name: softprops/action-gh-release
dependency-type: direct:production
update-type: version-update:semver-patch
dependency-group: github-actions
- dependency-name: ossf/scorecard-action
dependency-type: direct:production
update-type: version-update:semver-minor
dependency-group: github-actions
- dependency-name: github/codeql-action
dependency-type: direct:production
update-type: version-update:semver-patch
dependency-group: github-actions
...
* Fix segfault when closing datatype during failure in H5Topen2 (#4683)
* Rework Dynamic Analysis and sanitize testing (#4681)
* Ignore predetermined failing test and check pointer before use
* Rework Analysis process
* Remove another H5E_BEGIN/END_TRY within the library (#4675)
* Update logic for (deprecated) H5Gget_objinfo() call to eliminate H5E_BEGIN_TRY
* Handle case for '.' at the end of a path
* Drop H5E_BEGIN/END_TRY and just check the error return from H5I_clear_types() (#4694)
Original case that the change in commit 2dc738a321
no longer applies.
* Add check of returned value from API calls. (#4702)
These were found while investigating GH-4672, but they were not related
to GH-4672.
* Add mac dmg binary and remove old macos-13 workflows (#4699)
* Add Windows SHLWAPI lib to public interface (#4701)
* Use local variable in btree2 and print value (#4679)
* Correct logic
* Technically, level 1 Express could skip tests
* Add windows signing (#4703)
* Add tests for H5R get name APIs (#4657)
Added functionality tests for the following APIs:
H5Rget_file_name
H5Rget_obj_name
H5Rget_attr_name
Also removed "+1" when returning a name length in H5R__get_attr_name().
The exter "+1" gave an incorrect value for the length of the referenced
object's attribute name.
Fixed GH-4447
* Fix Fortran test
The C API H5Rget_attr_name incorrectly added 1 to the length of the
referenced object's attribute name, so the Fortran API h5rget_attr_name_f
removed 1 from the returned value to accommodate the incorrectness.
This PR fixes H5Rget_attr_name so this workaround in h5rget_attr_name_f
is no longer needed.
* Add test H5Aget_name against H5Rget_attr_name
* Replace Visual Studio ???? with 2022 in MSI README file (#4709)
* Change logic for checking secrets exists (#4711)
* Change osx refs to macos (#4707)
* Replace alias \Code with \TText (#4714)
Fixed GH-2151
* Correct signing names and variables (#4713)
* Add secrets to release workflow (#4719)
* Add missing blosc2 info (#4717)
* Fix error return types in H5Rdeprec.c (#4722)
Copy-pasted code from elsewhere used FAIL instead of H5G_UNKNOWN
and H5I_INVALID_HID.
* Fix the release reference name (#4721)
* Test creating unseekable file (#4720)
* Cleanup up tests (#4724)
* Add arch name to dmg file name (#4732)
The binaries in snapshot dmg file do not work on x86_64.
* Fix snapshot CI failure by adding arch name to dmg file (#4734)
See also #4732.
* Fix incorrect VOL vs. non-VOL calls partially (#4733)
* Fix incorrect VOL vs. non-VOL calls
H5Lget_info2() called H5I_object() instead of H5VL_vol_object() crashed
user application.
This is a wide-spread issue (GH-4730) but this PR only addresses GH-4705.
* Remove an incorrect change
* Fix segfault in ROS3 credential parsing (#4736)
* Fix segfault in s3 credential parsing
* Fix AWS cred parsing when >1 profile provided
* Revert gh-pages action hash to fix daily build (#4735)
* Revert gh-pages action hash to fix daily build
See also #4734
* Revert gh-pages action hash to fix daily build
* Eliminate another use of H5E_clear_stack() within the library (#4726)
* Remove call to H5E_clear_stack()
Also clean up a bunch of error macros and the return value from H5B_valid()
* publish msi binary (#4663)
* Add publish from branch workflow (#4664)
* Replace incorrect use of an internal function (#4668)
* Replace incorrect use of an internal function
In some API functions, the internal function H5I_object() was used instead
of H5I_object_verify(), which verifies the type of an ID argument. So
when an inappropriate ID was passed in to the affected API, it was accepted.
This behavior can cause issues at a later time, including a segfault, as
reported in issue #GH-4656.
The fix was applied to the following functions:
H5Fget_intent()
H5Fget_fileno()
H5Fget_freespace()
H5Fget_create_plist()
H5Fget_access_plist()
H5Fget_vfd_handle()
H5Dvlen_get_buf_size()
H5Fget_mdc_config()
H5Fset_mdc_config()
H5Freset_mdc_hit_rate_stats()
Fixes GH-4662
* Fix incorrect indentation for permissions. (#4669)
* Remove outdated line from Copyright header in new files. (#4676)
* Fix binary examples process (#4666)
---------
Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com>
Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com>
* Test fixes for log-based vol (#4618)
* fixes to address failures in the log-based VOL
* moved file cleanup to tests proper
* skipped index API test if not supported
* Add 'try' parameter to H5Z_find, and remove calls to H5E_clear_stack() (#4609)
* Bump the github-actions group with 4 updates (#4620)
Bumps the github-actions group with 4 updates: [actions/checkout](https://github.com/actions/checkout), [aws-actions/configure-aws-credentials](https://github.com/aws-actions/configure-aws-credentials), [softprops/action-gh-release](https://github.com/softprops/action-gh-release) and [github/codeql-action](https://github.com/github/codeql-action).
Updates `actions/checkout` from 4.1.1 to 4.1.7
- [Release notes](https://github.com/actions/checkout/releases)
- [Commits](https://github.com/actions/checkout/compare/v4.1.1...v4.1.7)
Updates `aws-actions/configure-aws-credentials` from 1 to 4
- [Release notes](https://github.com/aws-actions/configure-aws-credentials/releases)
- [Changelog](https://github.com/aws-actions/configure-aws-credentials/blob/main/CHANGELOG.md)
- [Commits](https://github.com/aws-actions/configure-aws-credentials/compare/v1...v4)
Updates `softprops/action-gh-release` from 2.0.5 to 2.0.6
- [Release notes](https://github.com/softprops/action-gh-release/releases)
- [Changelog](https://github.com/softprops/action-gh-release/blob/master/CHANGELOG.md)
- [Commits](69320dbe05...a74c6b72af)
Updates `github/codeql-action` from 3.25.7 to 3.25.11
- [Release notes](https://github.com/github/codeql-action/releases)
- [Changelog](https://github.com/github/codeql-action/blob/main/CHANGELOG.md)
- [Commits](f079b84933...b611370bb5)
---
updated-dependencies:
- dependency-name: actions/checkout
dependency-type: direct:production
update-type: version-update:semver-patch
dependency-group: github-actions
- dependency-name: aws-actions/configure-aws-credentials
dependency-type: direct:production
update-type: version-update:semver-major
dependency-group: github-actions
- dependency-name: softprops/action-gh-release
dependency-type: direct:production
update-type: version-update:semver-patch
dependency-group: github-actions
- dependency-name: github/codeql-action
dependency-type: direct:production
update-type: version-update:semver-patch
dependency-group: github-actions
...
Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
* Fix a stack size warning in ros3 VFD code (#4625)
Just makes a stack array dynamic. Valgrind shows no memory leaks.
* Reworked cleaning up API test files (#4626)
* Reworked cleaning up test files, only removing test files if present to account for skipped tests
* changed to using H5Fis_accessible
* update to full use of remove_test_file
* corrected offset type in C wrapper (#4622)
* Remove some internal use of API calls and H5E_BEGIN_TRY/H5E_END_TRY (#4624)
* Remove auto NSIS check because of issues with CI (#4646)
* Add python testing for examples (#4628)
* Clean up Fortran __float128 configure-time checks (#4649)
* Always use DECIMAL_DIG instead of LDBL_DIG. This was controlled by
an ifdef that is always true in C99 or greater
It's confusing to use float.h C constants as variable names in
configure.ac and the PAC_FC_LDBL_DIG macro.
* Directly compare MY_FLT128_DIG and MY_LDBL_DIG
* Make uniform across CMake and Autotools
* Don't export quadmath.h variables to H5pubconf.h
* Feature/awesome (#4604)
* Added Doxygen Awesome and fixed a few quirks.
* Fixed unterminated strings.
* Added Doxygen Awesome by copy.
* Add tools usage text as doxygen for Tools UG (#4602)
* Add h5* compiler wrapper testing for CMake #4605 (#4613)
* Add show option
* remove non-static libs and correct names of static libs
* Fixup the pkg-config libs and comp builds
* Fix commands and add fortran pkg-config test scripts
* Add help usage option
* Add temporary fix for ARM64 Mac _Float16 build failure (#4639)
* Correct H5VL_t ref count on H5O_refresh_metadata failure (#4636)
* Fix bad H5VL_t rc on H5O_refresh_metadata fail
* Decrement nrefs before raising error
* Update doxygen Learn Basics / example refs. Add Reference sections (#4640)
* Fixed messed up table captions. (#4653)
* Fixed messed up table captions. Browsers don't seem to respect relative values for width. Hardcoding 800px for now.
* Fixed FetchContent usage for new CMake reqs. (#4650)
CMake version 3.30 changed the behavior of the FetchContent module to deprecate
the use of FetchContent_Populate() in favor of FetchContent_MakeAvailable(). Therefore,
the copying of HDF specialized CMakeLists.txt files to the dependent project's source
was implemented in the FetchContent_Declare() call.
* Fixed usage issue with FindZLIB.cmake module (#4655)
* Add a comment on the FindZLIB.cmake module usage
* Allow choice of static/shared compression libs for Find Module
* Added new option to INSTALL_CMake file and changed option text
* Eliminate more H5E_BEGIN/END_TRY macros and H5E_clear_stack() calls (#4648)
* Correct name of zlib_ng option (#4658)
* Fix the examples for testing java with binaries (#4660)
* Update filename in RELEASE_PROCESS.md to current name
INSTALL_autotools.txt.
* Remove reference to V116 in tools/src/h5repack/h5repack.h.
* Fix typos in context/property documentation (#4550)
* Fix CI markdown link check http 500 errors (#4556)
Sites like GitLab can have internal problems that return http 500
errors while they fix their problems. Some sites also return http
200 OK, which is fine.
This PR adds a config file to the markdown link check so those
are considered "passing" and don't break the CI.
* Simplify property copying between lists internally (#4551)
* Add Python examples (#4546)
These examples are referred to from the replacement page of https://portal.hdfgroup.org/display/HDF5/Other+Examples.
* Correct property cb signatures in docs (#4554)
* Correct property cb signatures in docs
* Correct delete callback type name in docs
* add missing word to H5P__free_prop doc
* Move C++ and Fortran and examples to HDF5Examples folder (#4552)
* Document 'return-and-read' field in API context (#4560)
* Add compression includes to tests needing zlib support (#4561)
* Allow usage of page buffering for serial file access from parallel HDF5 builds (#4568)
* Remove old version of libaec (#4567)
* Add property names to context field docs (#4563)
* Document property shared name behavior (#4565)
* Clarify H5CX macro documentation (#4569)
* Document H5Punregister modifying default properties (#4570)
* Update NVHPC to 24.5 (#4171)
We don't test parallel in other GitHub actions, so this also converts the
NVHPC check to configure and build only while we discuss how we'll
test parallel HDF5 in GitHub.
There is a blocking GitHub issue to address the test failures for
HDF5 1.14.5 (#4571).
* Clean up comments in H5FDros3.c (#4572)
* Rename INSTALL_Auto.txt to INSTALL_Autotools.txt (#4575)
* Clean up ros3 VFD stats code (#4579)
* Removes printf debugging
* Simplifies and centralizes stats code
* Use #ifdef ROS3_STATS instead of #if
* Other misc tidying
* Turn off ros3 VFD stat collection by default (#4581)
Not a new change - an artifact from a previous check-in.
* Pause recording errors instead of clearing the error stack (#4475)
An internal capability that's similar to the H5E_BEGIN_TRY / H5E_END_TRY
macros in H5Epublic.h, but more efficient since we can avoid pushing errors on
the stack entirely (and those macros use public API routines).
This capability (and other techniques) can be used to remove use of
H5E_clear_stack() and H5E_BEGIN_TRY / H5E_END_TRY within library routines.
We want to remove H5E_clear_stack() because it can trigger calls to the H5I
interface from within the H5E code, which creates a great deal of complexity
for threadsafe code. And we want to remove H5E_BEGIN_TRY / H5E_END_TRY's
because they make public API calls from within the library code.
Also some other minor tidying in routines related to removing the use of
H5E_clear_stack() and H5E_BEGIN_TRY / H5E_END_TRY from H5Fint.c
* Add page buffer cache command line option to tools (#4562)
Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Clarify documentation for H5CX_get_data_transform (#4580)
* Correct comment for H5CX_get_data_transform
* Document why data transform ctx field doesnt use macro
* Remove public API call from ros3 VFD (#4583)
* Remove printf debugging from H5FDs3comms.c (#4584)
* Cleanup of ros3 test (#4587)
* Removed JS* macro scheme (replaced w/ h5test.h macros)
* Moved curl setup/teardown to main()
* A lot of cleanup and simplification
* Removed unused code from H5FDs3comms.c (#4588)
* H5FD_s3comms_nlowercase()
* H5FD_s3comms_trim()
* H5FD_s3comms_uriencode()
* Remove magic fields from s3comms structs (#4589)
* Remove dead H5FD_s3comms_percent_encode_char() (#4591)
* Rework the TestExpress usage and refactor dead code (#4590)
* Skip examples if running sanitizers (#4592)
* Clean up s3comms test code (#4594)
* Remove JS* macros
* Remove dead code
* Bring in line with other test code
* Add publish to bucket workflow (#4566)
* Update abi report CI workflow for last release (#4596)
* Update abi report workflow to handle 1.14.4.3 release
* Update name of java report
* Document that ctx VOL property isn't drawn from the FAPL (#4597)
* Update macos workflow to 14 (keep 13 as alternate) (#4603)
* Removed unnecessary call to H5E_clear_stack (#4607)
H5FO_opened and H5SL_search don't push errors on the stack
* Bring subfiling VFD code closer to typical library code (#4595)
Remove API calls, use FUNC_ENTER/LEAVE macros, use the library's error macros,
rename functions to have more standardized names, etc.
* Correct documentation for return-and-read fields (#4598)
* These two generators create strings without NUL for testing (#4608)
* Fix Fortran pkconfig to indicate full path of modules (#4593)
* Updated release schedule (#4615)
1.16 and 2.0 information
* Document VOL object wrapping context (#4611)
* Earray.c and farray.c in hdf5_1_14 still need time_t curr_time for HDsrandom.
* Remove line to use future 116_API from CMakeListat.txt files in HDF5
examples directories
* Fix daily-build CI and correct use of *_FOUND settings for filters (#4504)
* Correct examples tests to just run under dynamic analysis (#4505)
* Remove trailing extra whitespace in hyperlink (#4509)
* Set H5 specific vars immediately if legacy find (#4512)
* Set H5 specific vars immediately if legacy find
* Correct find process vars (vs in-line build)
* Correct SZIP find
* Everything is libaec 1.0.6 or newer
* Correct option help text
* Don't update 'pos' and 'op' fields when using pread/pwrite (#4492)
Instead of reading the absolute minimal possible, use the likely value of
a v2+ superblock w/8-byte addresses & lengths.
* Fix spelling (#4522)
* Fix typo in DAPL callback documentation (#4523)
* Move/rename libhdf5.settings input files (#4525)
Move without other changes:
src/libhdf5.settings.in -> src/libhdf5.settings.autotools.in
config/cmake/libhdf5.settings.cmake.in -> src/libhdf5.settings.cmake.in
* Disable UNITY_BUILD for now - globally (#4515)
* Fix function name in USAGE for H5Pencode2() (#4519)
* Allow HDF5_LIB_INFIX to work with DLL (#4500)
* Allow HDF5_LIB_INFIX to work with DLL
* Separate individual library name into parts and add suffix option
* Java cannot use alternative names and removed extra setting
* Incorporate the underscore into the CORE name
* Fix typos in property callback documentation (#4532)
* Fix wrong int type as some systems have int as 64-bit wide (#4534)
* H5FDquery return value (#4530)
* Switch H5FDquery() return values to use library's FAIL / SUCCEED macros
* Update return value also
* Refactor to reduce code duplication (#4531)
* Update error output w/new routine name
* Fix a few function names in USAGE comments that don't match the actual (#4533)
* Fix a few function names in USAGE comments that don't match the actual
function names.
* Remove typo '['
* Switch to working url for api-compatibility-macros.html.
* Remove julia CI actions (#4540)
These have been failing for a week or two for unclear reasons, both
in the Autotools and CMake. No obvious library changes triggered
this.
See GitHub issue #4539 for more info/discussion
The Julia tests will be disabled until the root cause is found.
* Bump the github-actions group with 3 updates (#4538)
Bumps the github-actions group with 3 updates: [softprops/action-gh-release](https://github.com/softprops/action-gh-release), [ossf/scorecard-action](https://github.com/ossf/scorecard-action) and [github/codeql-action](https://github.com/github/codeql-action).
Updates `softprops/action-gh-release` from 2.0.4 to 2.0.5
- [Release notes](https://github.com/softprops/action-gh-release/releases)
- [Changelog](https://github.com/softprops/action-gh-release/blob/master/CHANGELOG.md)
- [Commits](9d7c94cfd0...69320dbe05)
Updates `ossf/scorecard-action` from 2.3.1 to 2.3.3
- [Release notes](https://github.com/ossf/scorecard-action/releases)
- [Changelog](https://github.com/ossf/scorecard-action/blob/main/RELEASE.md)
- [Commits](0864cf1902...dc50aa9510)
Updates `github/codeql-action` from 3.25.3 to 3.25.7
- [Release notes](https://github.com/github/codeql-action/releases)
- [Changelog](https://github.com/github/codeql-action/blob/main/CHANGELOG.md)
- [Commits](d39d31e687...f079b84933)
---
updated-dependencies:
- dependency-name: softprops/action-gh-release
dependency-type: direct:production
update-type: version-update:semver-patch
dependency-group: github-actions
- dependency-name: ossf/scorecard-action
dependency-type: direct:production
update-type: version-update:semver-patch
dependency-group: github-actions
- dependency-name: github/codeql-action
dependency-type: direct:production
update-type: version-update:semver-patch
dependency-group: github-actions
...
Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
* Fix various mistakes in doxygen docs (#4541)
* Fix a dead link and example file names
* Add the missing content of a section
* Export HDF5 parallel status for CMake FetchContent'ed VOL connectors (#4542)
* Remove an unnecessary check for parallel and thread-safety from examples (#4543)
* Add option to use zlib-ng as zlib library (#4487)
* Export HDF5 version for CMake FetchContent'ed VOL connectors (#4548)
* Adjust h5repack userblock option to allow reserve size (#4544)
---------
Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: Allen Byrne <50328838+byrnHDF@users.noreply.github.com>
Co-authored-by: H. Joe Lee <hyoklee@hdfgroup.org>
Co-authored-by: Quincey Koziol <quincey@koziol.cc>
Co-authored-by: jhendersonHDF <jhenderson@hdfgroup.org>
Co-authored-by: mattjala <124107509+mattjala@users.noreply.github.com>
Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com>
Co-authored-by: Peter Chang <peter.chang@diamond.ac.uk>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com>
Co-authored-by: Scot Breitenfeld <brtnfld@hdfgroup.org>
* win32defs: Fix Wundef warning (#4467)
* Refactor error handling code to eliminate internal ID calls (#4453)
All calls to the H5I routines are now made in API routines (sometimes in
FUNC_ENTER/LEAVE_* macros), except for some calls to H5E_clear_stack() within
the library, but I'm planning to remove those over time.
Also, made all the library internal error messages into static const variables,
instead of malloc'ing them, which means that they can just be referenced
and not copied.
Several new and updated auto-generated header files were necessary to enable
this.
* CMake: Fix mingw/fortran build (#4466)
* Update for blosc2 in plugins and prefix hdf5 cmake varnames (#4468)
* Fix an issue where compound datatype member IDs can be leaked during conversion (#4459)
Also fixes issues with handling of partially initialized datatypes during library shutdown
* H5Group: Fix operator= (#4473)
Closes#4472
* Fix github issue #2523: doxygen -- fix grammatically incorrect sentence alias (#4474)
* Remove env step not used by CI in testing (#4476)
* Add H5fortkit dependecy for H5Rff.F90 (#4482)
* Properly clean up cache when failing to load an object header (#4477)
* Properly clean up cache when failing to load an object header
* Don't check message type a second time in H5G__open_oid if the first attempt returns error
* Add more asserts to H5O__assert() to avoid segfaults
---------
Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Add a missing image from the original document (#4490)
* Disable EOF checks for SWMR readers in more cases. (#4489)
Fixes a race condition where the reader opens the file and sets its EOF from the
file's size (from the stat() call in the driver open callback). Then, before
the reader can read the file's superblock, a SWMR writer races in, extends the
file, and closes the file, writing an updated superblock with the 'writer' and
'SWMR writer' flags in the superblock off (appropriately). Then the reader
proceeds to read the superblock, and flags the EOF as wrong. Taking out the
check for the 'writer' and 'SWMR writer' flags will cause SWMR readers to avoid
flagging the file as incorrect.
* Remove unnecessary fortran install (#4498)
* Only one version of binaries is produced for platforms (#4496)
* Fix for github issue #2220. (#4497)
Document the limitation in the Passthrough Conncector section of the VOL Connector Author Guide.
The limitation is posted by Neil in the github issue on Dec 22, 2022.
* Release asset tarballs with no version filenames (#4494)
* Improve spec. reading superblock into cache (a little) by using v2 size (#4491)
* Improve spec. reading superblock into cache (a little) by using v2 size
Instead of reading the absolute minimal possible, use the likely value of
a v2+ superblock w/8-byte addresses & lengths.
* Fix for github Issue #1388 can't delete renamed dense attribute with corder tracking enabled (#4462)
* Fix for github issue #1388: can't delete renamed dense attribute with corder tracking enabled
The problem occurs in step 3(b) below which will delete the attribute with corder x
from the creation order index v2 B-tree.
The rename sequence in H5A__dense_rename() occurs in the following order:
1) The old attribute with corder x was removed from the creation order index v2 B-tree
2) The new renamed attribute was inserted via H5A__dense_insert():
(a) insert the attribute with new name j into the name index v2 B-tree
(b) insert the attribute with corder x into the creation order index v2 B-tree
3) The old attribute was removed via H5A__dense_remove():
(a) remove the attribute with old name k from the name index v2 B-tree
(b) remove the attribute with coorder x from the creation order index v2 B-tree
Fix: deactivate the "corder_bt2_addr" field so that H5A__dense_remove()
won't delete the attribute with corder x from the creation order index v2 B-tree.
* Fix/revert a libtool sed hack (#4501)
* Revert "Remove Autotools sed hack (#3848)"
This reverts commit 8b3ffdef30.
* Fix libtool sed cleanup on MacOS
Convert sed -i line to sed > libtool.bak && mv libtool.bak libtool
to avoid non-portable -i option.
* Update src/H5public.h
* Set H5 specific vars immediately if legacy find (#4512)
* Correct find process vars (vs in-line build)
* Correct SZIP find
* Everything is libaec 1.0.6 or newer
* Correct option help text
* Split H5Tconv.c into modules by type (#4393)
* Split H5Tconv.c into modules by type
* Add new H5Tconv headers to list of private headers
* Fix broken links in VOL API table (#4438)
* Don't print thread ID when the library isn't multithreaded. (#4428)
Corresponding changes to make error output for regression tests agnostic
to thread setting.
Signed-off-by: Quincey Koziol <quincey@koziol.cc>
* Start refactoring H5E code to avoid using IDs internally (#4427)
* Add support for builtin_expect compiler hint (#4425)
* Add support for __builtin_expect extension
And H5_LIKELY / H5_UNLIKELY macros to wrap it
Signed-off-by: Quincey Koziol <quincey@koziol.cc>
* Committing clang-format changes
---------
Signed-off-by: Quincey Koziol <quincey@koziol.cc>
Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* sanitizer flags need set before compiler flags (#4444)
* Add navigate chapters and use release_docs in Learn Basics (#4441)
* Fix for github issue #3790: infinite loop closing library (#4445)
* Fix for github issue #3790: infinite loop closing library
Cause of the problem:
When h5dump tries to open the user provided test file, the metadata cache will
call the "get_final_load_size" callback to find out the actual size of the
the root object header. The callback function will call
H5O__prefix_deserialize() to allocate space for the object header
data structure (via H5FL_CALLOC) and to deserialize the object header prefix
in order to find the actual size of the object header.
The metadata cache will then check whether the actual size obtained
will exceed the file's EOA.
Since the actual size obtained from the test file exceeds the EOA,
the metadata cache throws an error and return.
However, the oh structure that was allocated in H5O__prefix_deserialize()
was not freed and hence causing the problem described in this issue.
Fix:
1) Deallocate the oh structure after obtaining and saving the needed
information in udata which will be used later on in the "verify_chksum" callback.
2) Deserialize the object header prefix in the "object header's
"deserialize" callback regardless. The original coding intends to keep the
deserialized prefix so that the object header's "deserialize" callback
does not need to deserialize the prefix again if the object header is coming
through the "get_final_load_size" callback.
* H5R Fortran wrappers and misc. H5R API/DOC updates (#4446)
- Add Fortran H5R APIs:
h5rcreate_attr_f, h5rcreate_object_f, h5rcreate_region_f,
h5ropen_attr_f, h5ropen_object_f, h5ropen_region_f,
h5rget_file_name_f, h5rget_attr_name_f, h5rget_obj_name_f,
h5rcopy_f, h5requal_f, h5rdestroy_f, h5rget_type_f
- Fixed function H5Requal actually to compare the reference pointers
Fixed an issue with H5Requal always returning true because the
function was only comparing the ref2_ptr to itself.
* Fix heap-buffer-overflow in H5Fio.c (#4450)
The buffer size for checksum was smaller than H5_SIZEOF_CHKSUM, causing an
overflow while calculating the offset to the checksum in the buffer.
A check was added so H5F_get_checksums would fail appropriately in all
of its occurrences.
Fix gh-4434
* Fix grammar in VOL guide (#4452)
* Fix bug in MPI-IO VFD (#4456)
Corrects incorrect usage of the vector_was_sorted parameter in H5FD__mpio_vector_build_types()
* Bump the github-actions group with 3 updates (#4455)
Bumps the github-actions group with 3 updates: [actions/download-artifact](https://github.com/actions/download-artifact), [peaceiris/actions-gh-pages](https://github.com/peaceiris/actions-gh-pages) and [github/codeql-action](https://github.com/github/codeql-action).
Updates `actions/download-artifact` from 4.1.4 to 4.1.7
- [Release notes](https://github.com/actions/download-artifact/releases)
- [Commits](c850b930e6...65a9edc588)
Updates `peaceiris/actions-gh-pages` from 3.9.3 to 4.0.0
- [Release notes](https://github.com/peaceiris/actions-gh-pages/releases)
- [Changelog](https://github.com/peaceiris/actions-gh-pages/blob/main/CHANGELOG.md)
- [Commits](373f7f263a...4f9cc6602d)
Updates `github/codeql-action` from 3.24.9 to 3.25.3
- [Release notes](https://github.com/github/codeql-action/releases)
- [Changelog](https://github.com/github/codeql-action/blob/main/CHANGELOG.md)
- [Commits](1b1aada464...d39d31e687)
---
updated-dependencies:
- dependency-name: actions/download-artifact
dependency-type: direct:production
update-type: version-update:semver-patch
dependency-group: github-actions
- dependency-name: peaceiris/actions-gh-pages
dependency-type: direct:production
update-type: version-update:semver-major
dependency-group: github-actions
- dependency-name: github/codeql-action
dependency-type: direct:production
update-type: version-update:semver-minor
dependency-group: github-actions
...
Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
* Fixed failures with xl compilers. (#4458)
* type cast constant
* fixed return types
* Convert ERR test to use grep (#4451)
* Convert ERR test to use grep
* Eliminate use of .err files in CMake
* Show error output if grep fails
* Turn off cuda in NVHPC CI
* Removed "function/code stack" debugging configure option (#4454)
Easily replaced w/third-party tools, e.g. libbacktrace
(https://github.com/ianlancetaylor/libbacktrace)
* Clean up memory leaks in t_vfd (#4457)
* Fixes and cleanup for ph5diff (#4460)
* Fixes and cleanup for ph5diff
Fixes concurrency issues in ph5diff that can cause interleaved
output
Fixes an issue where output can sometimes be dropped if it ended
up in ph5diff's output overflow file
Fixes an issue where MPI_Init is called after HDF5 has been
initialized, preventing the library from setting up an MPI
attribute to perform cleanup on MPI_Finalize
Fixes an issue in config/cmake/runTest.cmake where the CMake
logic would try to access an invalid list index if the number
of lines in a test's output and reference files don't match
* Add release note
* Remove use of err files in autotools test scripts (#4461)
* Fix typo in H5Rget_obj_type (#4463)
Issue GH-1723
* Use ADD_H5_ERR_TEST to not compare output (#4464)
* Fixed dead links in docs (#4334)
* Revert "Fixed dead links in docs (#4334)" (#4335)
This reverts commit 408fc66002.
* Fix grammar and content in HDF5Examples (#4333)
* Remove HD macros for C time functions (#4337)
* HDasctime
* HDclock
* HDctime
* HDdifftime
* HDgmtime
* HDlocaltime
* HDmktime
* HDtime
* HDtzset
HDgettimeofday will be done later
* Remove HD prefix from toupper/tolower (#4340)
* Add VDS and SWMR to documentation (#4336)
* Clean up random number generator code (#4338)
* Clean up random number generator code
Depending on the platform, we use a mix of random, rand, and rand_r
to generate pseudo-random numbers, along with a messy set of ifdefs
in H5private.h. We are not a cryptographic library, only use random
numbers in our test code, and have no need for anything more than the
C standard's (s)rand(). There's no point dithering about using rand()
vs random() when we're also doing bad things like using mod to
restrict the range, which introduces bias.
Also removes CMake/configure checks for rand_r and random
* Remove random/rand_r checks from build system
* Fix missed HDrandom after GitHub merge
* Remove the getting started guide (#4339)
This was moved to the wiki
* Remove noise comment from H5DO.c (#4342)
* Add note about H5Iregister_type hash_table param (#4345)
The hash_table parameter is unused in HDF5 1.8.13 and later, when we moved from using hash tables to skip lists for storing IDs. The current hash table implementation does not use this parameter.
* Remove `#undef ERR` from H5private.h (#4346)
This is an old work-around that is no longer necessary.
The only place where we defined ERR is in h5import, and that code
has been updated (in this PR) to rename ERR to INVALID_TOKEN.
* Add NAMECHECK_ONLY to macro list in .clang-format (#4343)
This caused H5TS.c functions to be mis-formatted
* Remove HD from last non-win32 C89 functions (#4348)
Removes the HD prefix from the last C89 functions with no special
Windows equilvalent:
* rename
* rewind
* setbuf
* signal
* tmpfile
* Fix dead links cont. (#4349)
Added img/images_to_copy.dox as a temporary solution because doxygen didn't copy
the images used in the examples/*.html files - will investigate more. This was
necessary for the links to intro_SWMR.html and intro_VDS.html.
* Fix a typo (#4352)
* Fix use of possibly uninitialized memory in h5repack (#4354)
* Match content listing with content. (#4357)
* Remove obsolete c++ doxygen config files (#4358)
* Fix typo VERSIO (#4363)
* Removed duplicate entries in compile line for h5* compiler wrappers (#4360)
* h5fc remove duplicate args
* h5 wrappers remove duplicate args
* Added CVE info to RELEASE.txt (#4367)
* Change doxygen version from 1.10.0 to 1.9.7 (#4371)
* Fix all doxygen versions (#4377)
* Change date to data in INSTALL_parallel (#4384)
* Fix a broken link for zlib url (#4383)
* Fix broken links and references in INSTALL_Auto.txt (#4382)
* Remove signature in comment (#4366)
* switched from \returns to commonly used \return (#4389)
* Add CXX flags (#4359)
* Remove TRACE macros (#4341)
* Set available CMake build types for non-multi-config generators (#4330)
* Correct the high-level library link (#4398)
* Correct the high-level library link
The link currently used points to 1.13 release. Changed to use the md file instead.
* Update Doxyfile for md files
* Update to include md files
* Add additional terms to the glossary (#4401)
Fixes GH #4390
* added missing doxygen \since (#4410)
* Update Intel oneAPI version to 2024.1 (#4412)
* Update documentation (#4403)
- Added File Image Operations to Technical Notes
* Use a correct example location
* Use aliases for URLs (#4409)
* Fix CXX sanitizer by moving marco include to after CXX code. (#4414)
* Update and use more URL alias (#4413)
* Update documentation (#4415)
Added the replacement for https://docs.hdfgroup.org/archive/support/HDF5/doc/TechNotes/Version.html
Corrected some minor typos and another deadlink
* Remove obsolete file (#4416)
* Update oneAPI version to 2024.1 for Daily Build (#4418)
* Add training videos page (#4422)
* Updates for release_docs/NEWSLETTER.txt. (#4423)
* Add release process markdown file (#4312)
* Lowercase in File Format Specification (#4424)
* Fixing string in RELEASE_PROCESS.md that is causing a doxygen error - (#4430)
Unsupported xml/html tag <n> found.
* Allow clang-format to format H5Cpkg.h (#4429)
Co-authored-by: Larry Knox <lrknox@hdfgroup.org>
* Fix broken links in md files needing full URLs.
* Add URL for Java examples that was accidentally dropped.
Change paths from develop to 1.14 directories for some doxygen generated
files.
* Correct typo.
* Fix 2 more dead URLs.
* Revert "Clean up random number generator code (#4338)"
This reverts commit 58e4d0842a.
* Remove some entries that were released in HDF5 1.14.3
* Update the NVidia compiler optimization known problem with new info
* Tidy 'known problems' section
* Fix grammar and content in HDF5Examples (#4333)
* Add VDS and SWMR to documentation (#4336)
* Fix dead links cont. (#4349)
Added img/images_to_copy.dox as a temporary solution because doxygen didn't copy
the images used in the examples/*.html files - will investigate more. This was
necessary for the links to intro_SWMR.html and intro_VDS.html.
* Remove VS ptable error from Known Problems (#4317)
* Simply check for datatypes with unusual number of unused bits (#4309)
Avoids potential undefined behavior in H5T_is_numeric_with_unusual_unused_bits
* Fix issues with empty or uninitialized link names (#4322)
Converts an assertion in H5G_loc_find into a normal error
check that checks for empty link names
Initializes H5O_link_t structure early in H5G__ent_to_link
to avoid trying to free potentially uninitialized memory
Checks for an empty link name after H5MM_strndup in
H5G__ent_to_link
Fixes GitHub #4307
* Fix h5py testing failure due to invalid datatype IDs (#4321)
Fixes an issue where invalid datatype IDs are passed to application conversion
functions in the case where the top-level conversion function is a library-internal
function that operates on a container-like datatype, but one or more of the
base datatype members are converted with an application conversion function.
* Revise _Float16 configure checks (#4323)
Run configure checks with and without CFLAGS/CMAKE_C_FLAGS since some
compilers work in one case while not working in the other case
Sync CMake configure checks with Autotools
