summaryrefslogtreecommitdiffstats
path: root/src
Commit message (Collapse)AuthorAgeFilesLines
...
* Fix out of bounds in `hdf5/src/H5Fint.c:2859` (#2691)Kobrin Eli2023-04-133-7/+72
|
* Fixed GH-2603, heap-buffer-overflow in H5O__linfo_decode (#2697)bmribler2023-04-131-6/+22
| | | | | | * 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.
* Remove unused macros (#2722)Quincey Koziol2023-04-131-147/+0
| | | * Remove unused macros
* Remove dead code for H5C__SLIST_OPT_ENABLED (#2721)Quincey Koziol2023-04-132-15/+1
| | | * Remove dead code for H5C__SLIST_OPT_ENABLED
* Refactor H5C_entry_in_skip_list (#2719)Quincey Koziol2023-04-133-13/+21
| | | * Refactor H5C__entry_in_skip_list to package scope
* Fix cache validate (#2718)Quincey Koziol2023-04-131-2/+2
|
* Refactor cache mark flush dep (#2711)Quincey Koziol2023-04-132-4/+4
|
* Refactor cache validation (#2699)Quincey Koziol2023-04-134-65/+62
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Correct concurrency bugs when running tests, along with a bugfix & small warning cleanup. * Committing clang-format changes * Allow spaces (and tabs) in VOL connector info string from environment variable. * Parse connector name from HDF5_PLUGIN_PATH environment variable better * Correct H5VLquery_optional to use H5VL routine instead of H5I. Also add an error message to the failure return value from not finding a plugin. * Play nice with existing plugin paths * Use API routine to determine if native connector is terminal. * Committing clang-format changes * Make string size larger, to allow for connectors with longer names. * Be more flexible about testing external pass through connectors, especially if they have registered new optional operations. * Make cache validation routines package local --------- Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: AWS ParallelCluster user <ec2-user@ip-10-0-0-65.us-east-2.compute.internal> Co-authored-by: Koziol <qkoziol@88665a374c70.ant.amazon.com>
* Remove duplicated H5_IS_BUFFER_OVERFLOW macro (#2700)jhendersonHDF2023-04-121-5/+0
|
* Fix for github issue #2599: (#2665)vchoi-hdfgroup2023-04-121-1/+6
| | | | | | | | | | | | | | | * 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.
* Cache tidy (#2693)Quincey Koziol2023-04-127-1189/+524
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Correct concurrency bugs when running tests, along with a bugfix & small warning cleanup. * Committing clang-format changes * Allow spaces (and tabs) in VOL connector info string from environment variable. * Parse connector name from HDF5_PLUGIN_PATH environment variable better * Correct H5VLquery_optional to use H5VL routine instead of H5I. Also add an error message to the failure return value from not finding a plugin. * Play nice with existing plugin paths * Use API routine to determine if native connector is terminal. * Committing clang-format changes * Make string size larger, to allow for connectors with longer names. * Be more flexible about testing external pass through connectors, especially if they have registered new optional operations. * Bring style closer to library's agreed coding style * Committing clang-format changes --------- Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: AWS ParallelCluster user <ec2-user@ip-10-0-0-65.us-east-2.compute.internal> Co-authored-by: Koziol <qkoziol@88665a374c70.ant.amazon.com>
* Clean up memory allocated when reading messages in H5Dlayout on error ↵glennsong092023-04-111-5/+15
| | | | (#2602) (#2687)
* Fix invalid memory access in H5O__ginfo_decode (#2663)mattjala2023-04-112-1/+21
|
* Add buffer overrun checks to H5O__layout_decode and H5O__sdspace_decode (#2679)jhendersonHDF2023-04-113-55/+268
| | | Co-authored-by: Larry Knox <lrknox@hdfgroup.org>
* Fix a heap buffer overflow during H5D__compact_readvv (GitHub #2606) (#2664)jhendersonHDF2023-04-111-0/+27
|
* Comment cleanup (#2689)Quincey Koziol2023-04-1119-1211/+146
| | | * Clean up content and redundant logging in comments.
* Remove dead code hidden behind #ifdef LATER (#2686)Dana Robinson2023-04-107-223/+0
|
* Fix memory leaks and aborts in H5O EFL decode (#2656)Dana Robinson2023-04-031-48/+61
| | | | | | | | | | | | | | | | | | | | | * Convert asserts to error handling in efl decode The function that decodes external data files object header messages would call assert() when parsing malformed files, causing applications to crash when linked against the debug library. This change converts these assert() calls to HDF5 error checks, so the messages are sanity checked in both release and debug mode and debug mode no longer crashes applications. Also cleaned up some error handling usage and debug checks. * Free memory on H5O efl decode errors * Add buffer size checks to efl msg decode * Add parentheses to math expressions Fixes GitHub #2605
* Avoid suppressing error output for non-tentative file opens (#2632)jhendersonHDF2023-04-011-11/+41
| | | | | * Avoid suppressing error output for non-tentative file opens * Update comment about tentative file opens
* Fix a memory corruption issue in H5S__point_project_simple (#2626)jhendersonHDF2023-03-241-1/+1
|
* Fix minor things noted when doing 1.10 merges (#2610)Dana Robinson2023-03-241-1/+1
| | | | * Duplicated HDF_RESOURCES_DIR from cmake_ext_mod merge * Typos in comments
* Subfiling VFD - fix issues with I/O concentrator selection strategies (#2571)jhendersonHDF2023-03-171-39/+71
| | | | | Fix multiple bugs with the SELECT_IOC_EVERY_NTH_RANK and SELECT_IOC_TOTAL I/O concentrator selection strategies and add a regression test for them
* Make sure that ONLY_SHARED_LIBS option is correctly set (#2544)Allen Byrne2023-03-131-4/+4
|
* Addressed various Doxygen grammar issues. (#2524)Scot Breitenfeld2023-03-1339-203/+203
| | | | | | | | | | * reviewed H5A * Addressed various grammar issues. * remove double words, spelling fixes * replace the use of rawdata with raw data
* Elaborate how cd_values get stored (#2522)Mark (he/his) C. Miller2023-03-081-4/+7
|
* docs: in -> out (#2514) (#2516)H. Joe Lee2023-03-081-1/+1
|
* Remove redundant and flawed documentation of H5D_chunk_iter_op_t from H5D.c ↵Mark Kittisopikul2023-03-081-26/+0
| | | | | (#2512) Forward port of 9f252f1 from #2329
* Fix new codespell issues (#2521)Mark Kittisopikul2023-03-083-3/+3
| | | | | * Fix new codespell issues * Have codespell ignore ./config/sanitizer/sanitizers.cmake
* Check for overflow when calculating on-disk attribute data size (#2459)Egbert Eich2023-03-021-4/+3
| | | | | | | | | | | | | | | | | * Remove duplicate code Signed-off-by: Egbert Eich <eich@suse.com> * Add test case for CVE-2021-37501 Bogus sizes in this test case causes the on-disk data size calculation in H5O__attr_decode() to overflow so that the calculated size becomes 0. This causes the read to overflow and h5dump to segfault. This test case was crafted, the test file was not directly generated by HDF5. Test case from: https://github.com/ST4RF4LL/Something_Found/blob/main/HDF5_v1.13.0_h5dump_heap_overflow.md
* Missing or misplaced entries in API reference tables #2470 (#2472)Allen Byrne2023-03-011-0/+2
| | | | | * Missing or misplaced entries in API reference tables #2470 * Doxy corrections
* Subfiling VFD - add option to specify config file prefix (#2495)jhendersonHDF2023-02-265-18/+165
|
* HDFFV-10368 (OESS-319): Making two useful macros (H5L_EXT_FLAGS_ALL and ↵raylu-hdf2023-02-212-6/+10
| | | | | | | | | | | | | | | | | | | | | H5L_EXT_VERSION) public (#2386) * HDFFV-10368 (OESS-319): Move two useful macros (H5L_EXT_FLAGS_ALL and H5L_EXT_VERSION) from H5Lpkg.h to H5Lpublic.h for public usage. The test in vol.c only envokes H5Lcreate_external using the passthru VOL. To test if the macros are public, one can use them in the link creation of the passthru VOL, such as printing out their values. * Committing clang-format changes * Moved the test for the external link public macros (H5L_EXT_FLAGS_ALL and H5L_EXT_VERSION) from vol.c to links.c. * Committing clang-format changes * Minor change: changed a pointer variable to an integer. * Committing clang-format changes * Moved two macros (H5L_EXT_VERSION and H5L_EXT_FLAGS_ALL) to H5Ldevelop.h for only developers to use. --------- Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* OESS-330/HDFFV-11282: Improve failure message when a VOL connector can't be ↵raylu-hdf2023-02-202-3/+8
| | | | | | | | | | | loaded (#2481) * OESS-330/HDFFV-11282: Improve failure message when a VOL connector can't be loaded. Made the error message clearer when the library can't find a plugin in the path table that contains the paths set by HDF5_PLUGIN_PATH and the default location and maybe set by H5PLxxx functions. * Committing clang-format changes --------- Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Fix issue with collective metadata writes of global heap data (#2480)jhendersonHDF2023-02-201-0/+8
|
* CMake generated pkg-config file is incorrect #2259 (#2476)Allen Byrne2023-02-171-4/+14
| | | | | | | | | | | | | * CMake generated pkg-config file is incorrect #2259 * Fix fortran pc template * hdf5.pc is incorrect for debug builds #1546 * Correct pkg name and lib name * Fix typo * Fix missing space
* GitHub #2417: to avoid the pass-through VOL failing in unexpected places, ↵raylu-hdf2023-02-171-0/+31
| | | | | | | | | | | make sure the underneath VOL ID is specified. (#2475) * GitHub #2417: to avoid the pass-through VOL failing in unexpected places, make sure the underneath VOL ID is specified. * Committing clang-format changes --------- Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Fix parallel warnings in H5Dmpio.c (#2457)Dana Robinson2023-02-131-2/+8
| | | | | | | * Mark a parameter as unused when not using a special debug define * Check for a chunk_entry NULL pointer after using HASH_FIND These should be the last parallel warnings so we can start building parallel with -Werror.
* corrected/added note about closing creation property list identifier (#2425)Scot Breitenfeld2023-02-115-19/+20
| | | | | | | * corrected/added note about closing creation property list identifier * removed immaterial \see APIs * added details to H5Literate
* Remove duplicated "help@hdfgroup.org" lines in file headers. (#2441)Larry Knox2023-02-111-1/+0
|
* Add szip/libaec to GitHub CI and fix warnings (#2438)Dana Robinson2023-02-092-10/+16
| | | | | | | | szip (or libaec) is currently not tested in CI. This adds szip to the the Autotools GitHub CI actions on Linux when building with the Autotools. This PR also cleans up a few warnings that remained in the szip- related code so the -Werror check will pass.
* Include shlwapi.h explicitly on Windows (#2407)Mark Kittisopikul2023-01-171-0/+1
| | | | | | | | * Include shlwapi.h explicitly * Add shlwapi library to LINK_LIB when header is detected Looking for StrStrIA in the shlwapi library is not reliable due to stdcall on mingw32.
* Update FORTRAN VOL connector test for external pass-through testing (#2393)Quincey Koziol2023-01-052-1/+3
| | | | | | | | | | | | | | | | | * Correct concurrency bugs when running tests, along with a bugfix & small warning cleanup. * Committing clang-format changes * Allow spaces (and tabs) in VOL connector info string from environment variable. * Parse connector name from HDF5_PLUGIN_PATH environment variable better * Correct H5VLquery_optional to use H5VL routine instead of H5I. Also add an error message to the failure return value from not finding a plugin. Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: AWS ParallelCluster user <ec2-user@ip-10-0-0-65.us-east-2.compute.internal> Co-authored-by: Koziol <qkoziol@88665a374c70.ant.amazon.com>
* Correct VOL connector env string parsing issue (#2350)Quincey Koziol2023-01-041-1/+1
| | | | | | | | | | | | * Correct concurrency bugs when running tests, along with a bugfix & small warning cleanup. * Committing clang-format changes * Allow spaces (and tabs) in VOL connector info string from environment variable. Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: AWS ParallelCluster user <ec2-user@ip-10-0-0-65.us-east-2.compute.internal> Co-authored-by: Koziol <qkoziol@88665a374c70.ant.amazon.com>
* Adds RELEASE.txt notes and updates Doxygen (#2377) (#2379)Dana Robinson2022-12-292-8/+10
|
* Adds Doxygen markup for H5FDdriver_query() (#2376)Dana Robinson2022-12-282-4/+23
|
* Purged references to HDF5 1.13.x from the Doxygen documentation (#2365)Dana Robinson2022-12-2710-38/+30
|
* Adds missing Doxygen for H5ESpublic.h (#2364)Dana Robinson2022-12-271-16/+77
| | | | | | | * Adds missing Doxygen for H5ESpublic.h * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* HL GIF tools changes (#2360)Dana Robinson2022-12-241-0/+1
| | | | * Fixes the broken Autotools option * Removes the "build HL tools" option
* Adds Doxygen VOL flag markup (#2340)Dana Robinson2022-12-211-55/+63
| | | | | | | | | | | * Initial doxygen markup * Committing clang-format changes * Adds Doxygen comments to VOL flags * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Onion VFD header cleanup (#2337)Dana Robinson2022-12-213-112/+85
| | | | | | | | | * Partial work towards cleaning up the onion VFD code * Committing clang-format changes * A few minor tweaks to the onion VFD public header Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
generated by cgit v0.12 at 2024-08-26 02:34:20 (GMT)