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* Merge remote-tracking branch 'origin/develop' into namespace_cleanup_01Quincey Koziol2020-08-113-24/+32
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| * Merge pull request #2746 in HDFFV/hdf5 from bmr_HDFFV-10591-2 to developBinh-Minh Ribler2020-08-112-15/+21
| |\ | | | | | | | | | | | | | | | | | | Part of HDFFV-10591 fix. * commit 'f863d4f970c2f54298a69f95bb6a15e710e1ed75': Addition to HDFFV-10591
| | * Addition to HDFFV-10591Binh-Minh Ribler2020-08-092-15/+21
| | | | | | | | | | | | | | | | | | | | | Description Added missing parameter description and improved format. Platforms tested: Linux/64 (jelly)
| * | Merge pull request #2655 in HDFFV/hdf5 from ~JHENDERSON/hdf5:develop to developJordan Henderson2020-08-101-9/+11
| |\ \ | | |/ | |/| | | | | | | * commit '7c3d4402d730789173e413b48951fede5f6932f3': Fix issue in H5VL_wrap_register where datatype VOL objects are casted to H5T_t *
| | * Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)Jordan Henderson2020-08-0576-2402/+2773
| | |\ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * commit 'f59bb712dec221a076728b6c582818bcf814d71a': (55 commits) Fixes indenting in tools test scripts Minor normalizations with 1.12 branch Fixed bad parens in H5trace.c Minor normalizations with hdf5_1_10 Mingw copy disabled Warnings reduction in tools Correct reference file Correct h5diff filenames Fixed typos in error messages. Updated the Java tests to deal with H5Sset_extent_none changes Fixed additional typos in tselect.c comments. Fixes typo in tselect.c Updates H5Sset_extent_none() to set H5S_NULL Only one line needed to compare Revert err file Minor normalization with 1.10 branch Fix HDFFV-11120 and HDFFV-11121 (CVE-2018-13870 and CVE-2018-13869) revert error-stack enable Minor normalization with 1.10. Add release notes for tools ...
| | * | Fix issue in H5VL_wrap_register where datatype VOL objects are casted to H5T_t *Jordan Henderson2020-06-191-9/+11
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* | | | Correct typos w/HGOTO_DONE & HGOTO_ERRORQuincey Koziol2020-08-107-50/+47
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* | | | Move H5T_vlen_reclaim to package scopeQuincey Koziol2020-08-074-6/+6
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* | | | Merge remote-tracking branch 'origin/develop' into namespace_cleanup_01Quincey Koziol2020-08-0720-228/+661
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| * | | Merge pull request #2730 in HDFFV/hdf5 from ↵Dana Robinson2020-08-0620-243/+667
| |\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ~DEROBINS/hdf5_der:file_locking_squash_2 to develop * commit '47ad0ac7237b464e939fe54dd129a151944d9706': Renames BEST-EFFORT to BEST_EFFORT for file locking env var Updated the file locking Fortran property list wrappers and added a test. Fixed missing parens in VFDs Minor change to header comments in file locking C++ changes. Squash merge of file locking fixes
| | * | | Renames BEST-EFFORT to BEST_EFFORT for file locking env varDana Robinson2020-08-066-6/+6
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| | * | | Merge branch 'develop' into file_locking_squash_2Dana Robinson2020-08-0611-188/+190
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| | * | | Fixed missing parens in VFDsDana Robinson2020-08-035-5/+5
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| | * | | Squash merge of file locking fixesDana Robinson2020-08-0320-243/+667
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* | | | | Switch H5VM inline routines back to single underscope and put a comment in ↵Quincey Koziol2020-08-0637-153/+201
| | | | | | | | | | | | | | | | | | | | their header about this naming
* | | | | Clean up private / package / static namespace issues (function naming, whichQuincey Koziol2020-08-06344-9948/+6651
|/ / / / | | | | | | | | | | | | | | | | | | | | header file, FUNC_ENTER / LEAVE, etc). Removed remaining personal email addresses from library source code (still needs cleaned from other directories). Misc. warning, style, and whitespace cleanup.
* | | | Merge pull request #2715 in HDFFV/hdf5 from ~JSOUMAGNE/hdf5:fix_vlen_ref to ↵Jerome Soumagne2020-08-064-4/+35
|\ \ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | develop * commit 'ef6db167a86e6c065d46963dbd75cd325fe83813': H5R: fix encoding of references that are part of compound types
| * | | | H5R: fix encoding of references that are part of compound typesJerome Soumagne2020-07-284-4/+35
| | | | | | | | | | | | | | | | | | | | Add corresponding test and some debug information
* | | | | Reverts H5FDsplitter.c changes so they don't conflict with Quincey'sDana Robinson2020-08-061-38/+56
| | | | | | | | | | | | | | | | | | | | big cleanup patch
* | | | | Fixes -Wnull-dereference warnings around the cache logging callsDana Robinson2020-08-061-30/+40
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* | | | | Fixes warnings in the splitter VFD and testsDana Robinson2020-08-061-56/+38
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* | | | Minor normalizations with 1.12 branchDana Robinson2020-08-0110-145/+147
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* | | | Fixed bad parens in H5trace.cDana Robinson2020-07-311-43/+43
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* | | Merge branch 'develop' into develop_minorDana Robinson2020-07-302-3/+23
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| * \ \ Merge pull request #2711 in HDFFV/hdf5 from bmr-HDFFV-11120 to developBinh-Minh Ribler2020-07-291-1/+18
| |\ \ \ | | |/ / | |/| | | | | | | | | | | | | | | | | | | | | | Fix HDFFV-11120 and HDFFV-11121 (CVE-2018-13870 and CVE-2018-13869) * commit '707e30c6be1954c0027374124207e46caae68cbc': Fixed typos in error messages. Fix HDFFV-11120 and HDFFV-11121 (CVE-2018-13870 and CVE-2018-13869)
| | * | Fixed typos in error messages.Binh-Minh Ribler2020-07-281-3/+3
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| | * | Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into ↵Binh-Minh Ribler2020-07-2223-236/+162
| | |\ \ | | | | | | | | | | | | | | | bmr-HDFFV-11120
| | * | | Fix HDFFV-11120 and HDFFV-11121 (CVE-2018-13870 and CVE-2018-13869)Binh-Minh Ribler2020-07-221-1/+18
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Description: When a buffer overflow occurred because a name length was corrupted and became very large, h5dump produced a segfault on one file and a memcpy parameter overlap on another file. This commit added checks that detect a read pass the end of the buffer to prevent these error conditions. Platforms tested: Linux/64 (jelly) SunOS 5.11 (emu)
| * | | | Updates H5Sset_extent_none() to set H5S_NULLDana Robinson2020-07-281-2/+5
| | |/ / | |/| | | | | | | | | | | | | | | | | | | | | | | | | | The API call used to set the internal H5S_NO_CLASS value which produced errors when such a dataspace was passed to many other API calls. Fixes HDFFV-11027
* | | | Minor normalization with 1.10 branchDana Robinson2020-07-2711-312/+220
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* | | Merge pull request #2703 in HDFFV/hdf5 from ~DEROBINS/hdf5_der:develop_minor ↵Dana Robinson2020-07-2023-236/+162
|\ \ \ | |/ / |/| | | | | | | | | | | | | | to develop * commit '242459231b40a88741cbc85df4272914b5d8bed3': Minor normalization with 1.10.
| * | Minor normalization with 1.10.Dana Robinson2020-07-2023-236/+162
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* | | Merge pull request #2693 in HDFFV/hdf5 from ↵Vailin Choi2020-07-171-0/+4
|\ \ \ | |/ / |/| | | | | | | | | | | | | | | | | ~VCHOI/my_third_fork:bugfix/HDFFV-11080-heap-use-after-free-by-the-call to develop * commit '3023b34272cc6ada84aebfa7441a6a55afa3621c': Update MANIFEST. Add new test to Cmake. Fix for jira issue HDFFV-11080: (1) Patch up the file pointer when reading attribute of variable length datatype (2) Test to verify the fix when doing multiple threads
| * | Fix for jira issue HDFFV-11080:vchoi2020-07-141-0/+4
| | | | | | | | | | | | | | | (1) Patch up the file pointer when reading attribute of variable length datatype (2) Test to verify the fix when doing multiple threads
* | | Minor normalization with 1.10Dana Robinson2020-07-174-31/+30
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* | | H5R: fix type conversion of references within vlen typeJerome Soumagne2020-07-163-25/+66
| | | | | | | | | | | | Update trefer.c with vlen test case
* | | Fallback to older time functions in new timer code.Dana Robinson2020-07-141-23/+8
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* | Merge pull request #2683 in HDFFV/hdf5 from ↵Dana Robinson2020-07-0921-1074/+1055
|\ \ | | | | | | | | | | | | | | | | | | ~DEROBINS/hdf5_der:develop_normalization to develop * commit '127d1cfdf06e9c1cd264595c496a063848358a0a': Minor changes from normalization with 1.10
| * | Minor changes from normalization with 1.10Dana Robinson2020-07-0921-1074/+1055
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* | | Small changes discovered with mingw and windows defines movedAllen Byrne2020-07-025-223/+221
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* | | Merge pull request #2668 in HDFFV/hdf5 from monotonic_timer to developQuincey Koziol2020-07-0210-568/+1064
|\ \ \ | |/ / |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * commit '7371c83f9777b34b31909e99e052398b93c31bed': Remove non-existent example Add new source files to CMake build Clean up warnings va_arg -> HDva_arg Refactor code to remove remaining checks for H5_HAVE_GETTIMEOFDAY scattered around in various places. Also clean up iopipe.c. Correct mistake in H5_now_usec calculation for clock_gettime. Remove detection for mach/mach/time.h, since we're no longer using the time routines from that header. Update H5_now_usec to prefer using clock_gettime. Changes to make timers within the library monotonic.
| * | Merge remote-tracking branch 'origin/develop' into monotonic_timerQuincey Koziol2020-06-301-0/+6
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| * | | Clean up warningsQuincey Koziol2020-06-282-3/+7
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| * | | va_arg -> HDva_argQuincey Koziol2020-06-271-1/+1
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| * | | Refactor code to remove remaining checks for H5_HAVE_GETTIMEOFDAY scattered ↵Quincey Koziol2020-06-272-32/+41
| | | | | | | | | | | | | | | | around in various places. Also clean up iopipe.c.
| * | | Merge remote-tracking branch 'origin/develop' into monotonic_timerQuincey Koziol2020-06-26427-53399/+111938
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| * | | | Correct mistake in H5_now_usec calculation for clock_gettime.Quincey Koziol2017-09-241-1/+1
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| * | | | Update H5_now_usec to prefer using clock_gettime.Quincey Koziol2017-09-241-1/+8
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| * | | | Changes to make timers within the library monotonic.Quincey Koziol2017-09-0310-513/+991
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* | | | | Merge pull request #2669 in HDFFV/hdf5 from ↵Jake Smith2020-06-301-1/+1
|\ \ \ \ \ | |_|_|/ / |/| | | | | | | | | | | | | | | | | | | | | | | | ~JAKE.SMITH/hdf5:bugfix/HDftell_macro_typo to develop * commit 'ef05e68c38d2086c6f262744b4087f65a6e58957': Fix typo in HDftell macro definition: 'ftello -> ftell'
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