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* Avoid truncating at null byte when copying to std::string (#3083)Mark Kittisopikul2023-07-161-0/+7
| | | | | --------- Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* ROS3: (feature) Temporary security credentials (#3030)Jan-Willem Blokland2023-07-141-0/+9
| | | | | | | | | | - Implemented support for AWS temporary security credentials. For this kind of credentials also a session/security token should be included in the request by adding the x-amz-security-token header. Co-authored-by: Larry Knox <lrknox@hdfgroup.org> Co-authored-by: Jordan Henderson <jhenderson@hdfgroup.org> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Subfiling VFD source cleanup (#3241)jhendersonHDF2023-07-131-0/+7
| | | | | | | | | | | | | | | | * Subfiling VFD source cleanup Modularize Subfiling CMake code into separate CMakeLists.txt file Update Mercury util code to latest version and update Copyright Generate mercury_util_config.h header file instead of using pre-generated file Remove unnecessary Mercury functionality Fix minor warning in Subfiling VFD code * Remove Mercury headers from Autotools publicly-distributed header list
* Fix assertion failure when attempting to use IOC VFD directly (#3187)jhendersonHDF2023-06-281-0/+11
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* Fix #1978 h5vers usage message. (#3162)Larry Knox2023-06-201-36/+26
| | | Update Platforms Tested in RELEASE.txt.
* chore: fix grammar (#3150)H. Joe Lee2023-06-161-2/+2
| | | * chore: fix grammar
* CMake: (feature) ROS3 and cmake config file. (#3146)Jan-Willem Blokland2023-06-161-0/+3
| | | | | - Added a cmake variable to the hdf5-config.cmake file which indicate if the library has been build with or without the read-only S3 functionality.
* Revert long double checks (#3133)Dana Robinson2023-06-152-22/+1
| | | | | | | * Revert "Remove long double conversion work-arounds (#3097)" This reverts commit 1e1dac1dac58fa18f6b7788346d1ba7d3315b0f9. * Update comments to reflect newer systems
* Add note for issue 3056 (#3117)Allen Byrne2023-06-131-1/+9
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* Remove H5detect and H5make_libsettings (#3104)Dana Robinson2023-06-133-28/+18
| | | | | | | | Removes H5detect and H5make_libsettings from the build and replaces their functionality with things that don't affect cross-compiling. H5detect --> floating-point types are now detected on library load H5make_libsettings --> Moved functionality to a new H5build_settings.c template file
* Remove long double conversion work-arounds (#3097)Dana Robinson2023-06-122-1/+22
| | | | | | | | | | | | | | | | | | | | | Several options and public symbols that were provided to paper over non-standard long double conversions between signed/unsigned long and long long values were removed from the Autotools and CMake. These were added twenty years ago, when C99 and 64-bit platforms were less common and are no longer needed. Autotools: --enable-dconv-accuracy CMake: HDF5_WANT_DATA_ACCURACY H5pubconf.h symbols: H5_WANT_DATA_ACCURACY H5_LDOUBLE_TO_LONG_SPECIAL H5_LONG_TO_LDOUBLE_SPECIAL H5_LDOUBLE_TO_LLONG_ACCURATE H5_LLONG_TO_LDOUBLE_CORRECT H5_DISABLE_SOME_LDOUBLE_CONV
* Address memory issues when copying empty enums (#3088)Dana Robinson2023-06-121-0/+11
| | | | | | | | | | When copying an empty enum type (including implicitly, as when an enum is contained in a compound type), the library would allocate 0-size blocks of memory and attempt to memcpy 0 bytes from NULL pointers, which are undefined behavior. In debug mode, the library would raise an assert in H5MM. The library now avoid undefined memory operations when copying empty enum types and a test that copies empty enums has been added.
* Print out the VOL connector being used in the ASYNC test (#3016)Scot Breitenfeld2023-06-051-0/+3
| | | | | * Print out the VOL connector being used in the ASYNC test * Add h5pget_vol_cap_flags_f with test
* API test updates (#3018)jhendersonHDF2023-05-261-1/+33
| | | | | | | | | | | | | | | | | | | | | | | | | * Remove macros from api tests (#2929) * Remove macros and undefined callbacks (#2959) * Remove remaining macros from H5_api_tests_disabled.h (#2968) * Put some vol capability checks in testpar tests and remove remaining warnings (#2995) * API tests datatype generation cleanup * Clean up API tests' random datatype generation and fix bug with enum datatype generation * Init parallel API tests with MPI_THREAD_MULTIPLE * HDF5 API tests - Check VOL connector registration * Determine whether a VOL connector failed to load before running API tests * Cleanup some usages of H5VL_CAP_FLAG_CREATION_ORDER in API tests * Remove some now-unused macros from H5_api_tests_disabled.h * Enable HDF5 API tests by default * Implement CMake option to install HDF5 API tests * Check for invalid AAPL from H5Acreate * Enable building of VOL connectors alongside HDF5 in CMake * Prepend CMake VOL URL option indices with 0s so they come in order * Don't turn on API tests by default yet * Document VOL connector FetchContent functionality * Add release note for API test updates * Only install testing library if API tests are installed * Fix grammar
* Add release note for #2999 (#3009)Dana Robinson2023-05-251-0/+8
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* Fix plugin cache variable name (#2988)Allen Byrne2023-05-222-10/+16
| | | | * Fix plugin cache variable name * Prefix plugin project local variables
* Fix 'datatype' misspellings ('dataype') (#2984)Dana Robinson2023-05-191-2/+2
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* Change defaults of standard filters. (#2927)Allen Byrne2023-05-182-9/+16
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* Remove version specific examples from README_HPC. (#2613) (#2975)Larry Knox2023-05-171-14/+12
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* Fix CMake generator expression syntax (#2909)Allen Byrne2023-05-051-0/+13
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* remove obsolete SZIP find module (#2901)metadata_cache_macro_cleanupAllen Byrne2023-05-051-0/+2
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* Force lowercase Fortran module file names (#2891)Scot Breitenfeld2023-05-041-0/+6
| | | | | * fixed args in execvp for h5fuse * Force lowercase Fortran module file names for Cray compilers
* Add RELEASE.txt entry for API tests (#2889)jhendersonHDF2023-05-031-0/+42
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* Add Fortran Selection IO APIs (#2864)Scot Breitenfeld2023-05-011-2/+4
| | | new selection IO fortran APIs with tests
* Remove "the the" from comments and docs (#2865)Dana Robinson2023-05-012-3/+3
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* Implement selection I/O with type conversion (#2823)Neil Fortner2023-04-281-0/+10
| | | | | Initial implementation of selection I/O with type conversion. Allows Parallel collective I/O with type conversion, as long as selection I/O is enabled.
* Fix v1 object header gap bug in H5Ocopy (#2785)jhendersonHDF2023-04-261-0/+12
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* Add support for CMakePresets and fix example download (#2817)Allen Byrne2023-04-262-2/+105
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* Allow H5P_DEFAULT in H5Pget_vol_cap_flags and H5Pget_vol_id (#2807)jhendersonHDF2023-04-251-0/+6
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* Add release note for ROS3 VFD anonymous credential fix (#2801)jhendersonHDF2023-04-241-0/+13
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* Correct CMake option defaults - deprecate szip for libaec (#2778)Allen Byrne2023-04-232-64/+90
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* Added Fortran Async APIs (#2715)Scot Breitenfeld2023-04-211-1/+2
| | | H5A, H5D, H5ES, H5G, H5F, H5L and H5O async APIs were added.
* Add no subsets option to h5diff like h5dump #2688 (#2756)Allen Byrne2023-04-181-0/+7
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* Remove more author/date lines from RELEASE.txt (#2767)Dana Robinson2023-04-171-6/+0
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* Remove dates and initials from RELEASE.txt entries (#2746)Dana Robinson2023-04-161-19/+13
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* Fix memory leaks when processing OH cont messages (#2723)Dana Robinson2023-04-141-1/+14
| | | | | | | | | | | Malformed object header continuation messages can result in a too-small buffer being passed to the decode function, which could lead to reading past the end of the buffer. Additionally, errors in processing these malformed messages can lead to allocated memory not being cleaned up. This fix adds bounds checking and cleanup code to the object header continuation message processing. Fixes #2604
* Fix out of bounds in `hdf5/src/H5Fint.c:2859` (#2691)Kobrin Eli2023-04-131-0/+12
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* Fixed GH-2603, heap-buffer-overflow in H5O__linfo_decode (#2697)bmribler2023-04-131-2/+10
| | | | | | * Fixed GH-2603, heap-buffer-overflow in H5O__linfo_decode Verified with valgrind -v --tool=memcheck --leak-check=full h5dump POV-GH-2603 The several invalid reads shown originally are now gone.
* Add a RELEASE.txt note for GH #2605 (#2724)Dana Robinson2023-04-131-0/+10
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* Identify some options as advanced (#2717)Allen Byrne2023-04-131-0/+2
| | | | | | | * Identify some options as advanced Add explicit option statement to set default for CMake option * Revert advanced setting for file locks
* Fix for github issue #2599: (#2665)vchoi-hdfgroup2023-04-121-0/+15
| | | | | | | | | | | | | | | * Fix for github issue #2599: As indicated in the description, memory leak is detected when running "./h5dump pov". The problem is: when calling H5O__add_cont_msg() from H5O__chunk_deserialize(), memory is allocated for cont_msg_info->msgs. Eventually, when the library tries to load the continuation message via H5AC_protect() in H5O_protect(), error is encountered due to illegal info in the continuation message. Due to the error, H5O_protect() exits but the memory allocated for cont_msg_info->msgs is not freed. When we figure out how to handle fuzzed files that we didn't generate, a test needs to be added to run h5dump with the provided "pov" file. * Add message to release notes for the fix to github issue #2599.
* Clean up memory allocated when reading messages in H5Dlayout on error ↵glennsong092023-04-111-0/+10
| | | | (#2602) (#2687)
* Fix invalid memory access in H5O__ginfo_decode (#2663)mattjala2023-04-111-0/+8
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* Add buffer overrun checks to H5O__layout_decode and H5O__sdspace_decode (#2679)jhendersonHDF2023-04-111-0/+8
| | | Co-authored-by: Larry Knox <lrknox@hdfgroup.org>
* Perlmutter was fixed (#2677)Scot Breitenfeld2023-04-111-20/+0
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* Fix improper include of build directory (#2422, #2621) (#2667)jhendersonHDF2023-04-111-0/+18
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* Fix a heap buffer overflow during H5D__compact_readvv (GitHub #2606) (#2664)jhendersonHDF2023-04-111-0/+19
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* Fix #2598 sanitize leak (#2660)Allen Byrne2023-04-071-1/+6
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* Minor fixes for CMake code and install docs (#2623)Allen Byrne2023-04-038-55/+60
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* CMake - Match Autotools behavior for library instrumentation (#2648)jhendersonHDF2023-04-011-0/+10
| | | Enable library instrumentation by default for parallel debug builds
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