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| * Create HISTORY-1_13.txt and update release.txt (#1466)Larry Knox2022-03-013-1419/+1775
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| * Update version to 1.13.2-1 after 1.13.1 release; add new Makefile.in files ↵Larry Knox2022-03-0111-20/+24
| | | | | | | | | | | | to MANIFEST (#1460)
| * Fix install config and java test name conflict (#1467)Allen Byrne2022-03-012-3/+2
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| * fixed buf definition in h5dfill_f (#1465)Scot Breitenfeld2022-03-011-8/+4
| | | | | | | | | | | | | | * H5Lexists docs: Removed reference to 1.8.16 since the change is the 1.8.x releases, HDFFV-11289 * H5Oget_info_by_name, name can be any object, not just a group * fixed buf definition in h5dfill_f
| * Remove targets PERMISSIONS setting (#1462)Allen Byrne2022-03-011-1/+0
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| * Fix metadata cache bug when resizing a pinned/protected entry (v2) (#1463)jhendersonHDF2022-03-012-15/+84
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| * Fix for parallel compression examples on Windows (#1459)jhendersonHDF2022-02-282-11/+23
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| * Amend RELEASE.txt with note about parallel compression testing assertion ↵jhendersonHDF2022-02-251-0/+9
| | | | | | | | failure (#1458)
| * Add release note for #1438 (#1457)Allen Byrne2022-02-252-1/+18
| | | | | | | | | | * Add release note for #1438 * fix typos.
| * Fix release check version logic (#1438)Allen Byrne2022-02-242-11/+11
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| * Parallel Compression improvements (#1302)jhendersonHDF2022-02-2428-3356/+9308
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| * Enable creation of RPM/DEB binaries GH#1394 (#1398)Allen Byrne2022-02-223-1/+17
| | | | | | Co-authored-by: Larry Knox <lrknox@hdfgroup.org>
| * Oess 168 utils mirror vfd (#1444)Larry Knox2022-02-215-23/+20
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Committing clang-format changes * Spelling of preceed was corrected to proceed, but should have been corrected to precede. * Correct spelling correction of 'preceed' incorrectly to 'proceed'. It should be 'precede'. * OESS-168: Remove clang warnings. * OESS-168: Address @lrknox and @gnuoyd reviews. * Eliminate clang warnings listed in PR #1310 without adding new ssize_t variables. * Committing clang-format changes * Add H5_ATTR_UNUSED to wait_for_child call. Remove unneeded casts in mirror_log calls. * Keep ssize_t in mirror_server.c line 479. Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Hyo-Kyung Lee <hyoklee@hdfgroup.org>
| * Sprinkle H5_ATTR_FORMAT over printf(3)-like functions in tools and fix ↵David Young2022-02-2113-146/+139
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | issues (#1423) * Correct some conversion specifications. * Replace many "%lld" occurrences with "%" PRIuHSIZE except for a few instances where PRIdHSIZE was appropriate. Remove a couple of casts and use correct format strings, instead. * Copy values from a possibly unaligned buffer to aligned local variables instead of casting and dereferencing pointers into the buffer. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
| * Fix cache sanity checking code by moving functions to wider scope (#1435)jhendersonHDF2022-02-212-99/+88
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| * Fix issue with copying null new references (#1440)Neil Fortner2022-02-185-49/+57
| | | | | | | | | | | | | | | | * Fix issue with copying null new references. Fix assertion failure when reference copying fails. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
| * Implement support for big I/O for independent reads (#1446)Neil Fortner2022-02-182-23/+64
| | | | | | | | | | | | | | | | | | | | * Implement big I/O support for independent reads. Add test for this. * Committing clang-format changes * Update big I/O code in H5FD__mpio_write() to match that in H5FD__mpio_read(). Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
| * Updated reference for Multi Dataset RFC. (#1442)Gerd Heber2022-02-181-1/+1
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| * Add SZ filter and adjust compression file names to avoid conflicts (#1434)Allen Byrne2022-02-179-92/+90
| | | | | | | | | | | | | | | | | | * Updated plugins project required adjustments * Updated plugins need to distinguish external libs * Fix missed rename * Use same name for windows as linux - avoid name clash
| * Fixed AbstractDs::getVarLenType documentation (#1441)myd73492022-02-161-1/+1
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| * Creating FUNDING.yml (#1427)loricooperhdf2022-02-162-0/+4
| | | | | | | | | | | | | | | | | | | | | | * Creating FUNDING.yml Will add sponsor this project widget to the repo's page. * Correct file name Add sponsor widget; filename typo fixed. * Update MANIFEST
| * Revert "Fix metadata cache bug when resizing a pinned/protected entry ↵Larry Knox2022-02-122-21/+4
| | | | | | | | | | (#1358)" (#1437) This reverts commit 01092658a3095c31d7dc1ed1beebbd965095c244.
| * Add -showconfig to h5cc scripts to dump libhdf5.settings file (#1391)Allen Byrne2022-02-112-1/+29
| | | | | | | | | | * Add -showconfig to h5cc scripts to dump libhdf5.settings file * Added note
| * Make a buffer bigger: GCC 8.3.0 warned that a `snprintf` may be (#1403)David Young2022-02-111-1/+1
| | | | | | | | | | truncated because the recipient buffer was too small, and the warning is one that we promote to an error. Now there is a warning that the buffer is too big (-Wlarger-than=), but we don't promote those to errors, yet.
| * Fixed H5Dget_storage_size_f for zero sized datasets (#1430)Scot Breitenfeld2022-02-111-4/+4
| | | | | | | | | | | | | | | | | | | | | | * H5Lexists docs: Removed reference to 1.8.16 since the change is the 1.8.x releases, HDFFV-11289 * H5Oget_info_by_name, name can be any object, not just a group * fixed handling size 0 datasets * fixed handling size 0 datasets * format
| * Fix issue with H5_now_usec() with 32 bit systems (#1416)Neil Fortner2022-02-102-6/+39
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Implement H5ESget_requests() to retrieve request pointers and corresponding connector IDs from an event set. Add tests for this function. * Add "order" parameter to H5ESget_requests, to allow the user to specify the order in which requests are returned. * Fix bugs with H5ESinsert_request() * Change H5ESget_requests() API to have separate input and output parameters for the allocated array length(s) (in) and the number of events in the event set (out). * Fix issue with H5_now_usec() with 32 bit systems. Also improve event set test. * Committing clang-format changes * Add comments to H5_now_usec() explaining rationale for uint64_t casts. Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
| * Fix metadata cache bug when resizing a pinned/protected entry (#1358)jhendersonHDF2022-02-082-4/+21
| | | | | | | | | | | | | | | | | | | | | | | | | | | | When resizing a pinned/protected cache entry, the metadata cache code previously would wait until after resizing the entry to attempt to log the newly-dirtied entry. This would cause H5C_resize_entry to mark the entry as dirty and make H5AC_resize_entry think that it doesn't need to add the newly-dirtied entry to the dirty entries skiplist. Thus, a subsequent H5AC__log_moved_entry would think it needs to allocate a new entry for insertion into the dirty entry skip list, since the entry doesn't exist on that list. This causes an assertion failure, as the code to allocate a new entry assumes that the entry is not dirty.
| * Implemented suggestion in #1381 for dtransform test (#1415)Allen Byrne2022-02-042-11/+13
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Implemented suggestion in #1380 * fix typo * Use differently named files in tests * format fix * Revise comments * fic typos * Change test display and file name
| * Fix a few issues noted by LGTM (#1421)jhendersonHDF2022-02-0410-32/+38
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| * Don't use a nonliteral format string in test/fheap.c:begin_test(). (#1401)David Young2022-02-031-87/+60
| | | | | | | | | | | | | | | | | | * Avoid using a non-literal formatting string with sprintf in begin_test. Use snprintf. Don't duplicate a string on the heap unnecessarily. * Do not deactivate -Wformat-nonliteral: we don't use a nonliteral format string any more. Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
| * Update doc with HDF5_ROOT usage. (#1414)Allen Byrne2022-02-023-14/+16
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| * Unify handling of collective metadata reads status (#1206)jhendersonHDF2022-01-2911-136/+357
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| * Added another missing override keyword on a dtor (#1384)Sean McBride2022-01-291-1/+1
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| * Fix some spelling. (#1402)David Young2022-01-281-3/+3
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| * Snprintf2 (#1399)Sean McBride2022-01-2841-425/+467
| | | | | | | | | | | | | | | | | | | | | | | | | | * Replaced many uses of sprintf with safer snprintf Many very straightforward, but in a few cases added a length parameter to some private functions, because buffer length was otherwise unknowable. * Removed unnecessary use of static on small buffers This improves thread safety. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
| * Remove const from the argv tools/tests main sig. (#1390)Allen Byrne2022-01-2838-78/+82
| | | | | | | | | | | | | | | | | | * Remove const from the argv tools/tests main sig. * also remove const from H5_get_option and parse_command_line. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* | NFCI: write some comments.David Young2022-03-101-3/+19
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* | In a comment, put back a sentence that mentions H5Tget_native_type().David Young2022-03-101-0/+2
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* | Briefly explain alignments_t.David Young2022-03-101-0/+8
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* | To find the alignment of types, use a type instead of an object andDavid Young2022-01-281-141/+141
| | | | | | | | | | offsetof() instead of pointer arithmetic. I hope that this is what MSVC wants.
* | Reorder the initializer macro to try to satisfy MSVC. Put the formatDavid Young2022-01-281-12/+16
| | | | | | | | of the macro back the way it was and disable clang-format.
* | Let the compiler check alignment in H5detect since it does notDavid Young2022-01-281-29/+0
| | | | | | | | | | | | purposefully make unaligned accesses any longer. Remove some setjmp(3)-related code.
* | Committing clang-format changesgithub-actions2022-01-281-62/+60
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* | Replace H5detect's build-time detection of C99 integer properties with aDavid Young2022-01-284-535/+312
|/ | | | | | | | | | | | | table-driven routine, `H5T__init_native_int()`, that is run at library initialization time. Always respect the alignment used by the compiler for integers. The library invites trouble by using different alignment than the compiler expects. Here and there update a comment about alignment. Retire the H5detect code that tries to find the least permissible integer alignment by running experiments and catching any signals thrown or unexpected results.
* Replaced several uses of sprintf with safer snprintf (#1383)Sean McBride2022-01-2824-46/+43
| | | | | | | * Replaced several uses of sprintf with safer snprintf * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Used clang-tidy to change all floating point f suffixes to F (#1359)Sean McBride2022-01-286-8/+8
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* Revert 61464d7e (#1396)Larry Knox2022-01-261-10/+22
| | | | | | | | Commit 61464d7e was a fix for a compiler error on OpenBSD where int_fast8_t is in fact larger than 1 byte. However, the changes broke H5detect.c generation of H5Tinit.c on Power8 big-endian, and probably on all big-endian machines. Switching DETECT_BYTE to DETECT_I for 8 byte types doesn't work on our big-endian Power8 machine because switching the last parameter of DETECT_I_BYTE_CORE from "int" to the 8 byte type incorrectly sets dt->shared->u.atomic.order = H5T_ORDER_LE on a big-endian machine. A different fix to accomodate both big-endian and OpenBSD is needed. See commit 61464d7e for OpenBSD info. Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Update code owners file with more names (#1386)Allen Byrne2022-01-261-15/+15
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* Fix cmake dynamic analysis on windows (#1373)Allen Byrne2022-01-242-5/+21
| | | | | * Fix sanitizer flag form on windows * Add search paths to windows code-coverage
* Parallel rank0 deadlock fixes (#1183)jhendersonHDF2022-01-229-71/+180
| | | | | | | * Fix several places where rank 0 can skip past collective MPI operations on failure * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
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