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| | * | | Fix HDFFV-11101Binh-Minh Ribler2020-08-171-0/+3
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Description Added initialization to local structs in the src function H5MF_settle_raw_data_fsm() and the test function test_bt2_hdr_fd() to prevent the following error in two different occurrences: MemorySanitizer: use-of-uninitialized-value Platforms tested: Linux/64 (jelly) Linux/64 (platypus)
| * | | | Moves lock flag to H5F_shared_t and adds test.Dana Robinson2020-08-171-8/+82
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* | | | | Removes inappropriate file locking callDana Robinson2020-08-181-2/+0
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* | | | | Minor refactoring based on 1.10 normalization workDana Robinson2020-08-172-2/+1
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* | | | Merge pull request #2769 in HDFFV/hdf5 from mdc_sl_opt to developJohn Mainzer2020-08-175-1050/+1324
|\ \ \ \ | |/ / / |/| | | | | | | | | | | | | | | | | | | * commit 'd00bab96fb4da12a18b5de528c96469978c4c927': Minor copy edits to comments -- no code changes. Tab to space conversions. When flushing, the metadata cache attempts to flush entries in increasing address order. To facilitate this, the metadata cache needs a list of of dirty entries in increasing address order. This is implemented via a skip list of all dirty entries in the cache.
| * | | Merge branch 'develop' into mdc_sl_optmainzer2020-08-1517-311/+54
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| * | | | Tab to space conversions.mainzer2020-08-141-4/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Re-applied tab to space conversions accidentally reverted in the commit of the metadata cache skip list optimization, and performed some additional tab to space conversions in passing. Tested parallel / debug on Jelly.
| * | | | Merge branch 'develop' into mdc_sl_optmainzer2020-08-1375-713/+1096
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| * | | | | When flushing, the metadata cache attempts to flush entries in increasingmainzer2020-08-055-1046/+1320
| | |_|_|/ | |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | address order. To facilitate this, the metadata cache needs a list of of dirty entries in increasing address order. This is implemented via a skip list of all dirty entries in the cache. To date this skip list has been maintained at all times. However, profiling indicates that we can avoid significant overhead by constructing the skip list of dirty entries just before a flush, taking it down afterwareds, and not maintaining it during normal operation. This commit implements this optimization for both serial and parallel. Tested serial and parallel, debug and production on charis and jelly.
* | | | | Merge pull request #2771 in HDFFV/hdf5 from ↵Binh-Minh Ribler2020-08-161-0/+98
|\ \ \ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ~BMRIBLER/hdf5_bmr:hdf5_bmr_HDFFV-10933 to develop Fixed HDFFV-10933 * commit '16349c5fddce8a74644e18d01d7ea8186aaaa255': Fixed HDFFV-10933
| * | | | | Fixed HDFFV-10933Binh-Minh Ribler2020-08-141-0/+98
| | |_|/ / | |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Description: Updated the original fix by Kent Y. in commit 200a77d8c3e51663c375aafffff607ae9b438f4e - used internal functions instead of public API - moved some code into the subroutine for a cleaner look. - added test to dsets.c Platforms tested: Linux/64 (jelly)
* | | | | Trivialities noticed while merging things to 1.10Dana Robinson2020-08-154-33/+33
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* | | | Merge remote-tracking branch 'origin/develop' into remove_unneeded_taggingQuincey Koziol2020-08-1418-348/+86
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| * \ \ \ Merge pull request #2739 in HDFFV/hdf5 from namespace_cleanup_01 to developQuincey Koziol2020-08-1415-309/+44
| |\ \ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * commit '3f46a380e084d83a84783383bdfbbd9a443e9f27': Correct typos w/HGOTO_DONE & HGOTO_ERROR Move H5T_vlen_reclaim to package scope Switch H5VM inline routines back to single underscope and put a comment in their header about this naming Clean up private / package / static namespace issues (function naming, which 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 remote-tracking branch 'origin/develop' into namespace_cleanup_01Quincey Koziol2020-08-122-6/+6
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| | * \ \ \ \ Merge remote-tracking branch 'origin/develop' into namespace_cleanup_01Quincey Koziol2020-08-101-6/+6
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| | * \ \ \ \ \ Merge remote-tracking branch 'origin/develop' into namespace_cleanup_01Quincey Koziol2020-08-0766-134/+251
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| | * | | | | | | Switch H5VM inline routines back to single underscope and put a comment in ↵Quincey Koziol2020-08-063-13/+13
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | their header about this naming
| | * | | | | | | Clean up private / package / static namespace issues (function naming, whichQuincey Koziol2020-08-0616-322/+57
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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.
| * | | | | | | | Tweak to hide unused threadsafe callback in non-threadsafe buildsDana Robinson2020-08-131-2/+2
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| * | | | | | | Cleans warnings and cruft from ttsafe_attr_vlen.cDana Robinson2020-08-121-11/+9
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| * | | | | | | Fixes Windows issues due to exposed pthread codeDana Robinson2020-08-121-4/+7
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| * | | | | | | Fixes a size mismatch when copying old-style to new-style referencesDana Robinson2020-08-121-4/+4
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| * | | | | | | Fixes memory leads in trefer.cDana Robinson2020-08-121-20/+22
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* | | | | | | Merge remote-tracking branch 'origin/develop' into remove_unneeded_taggingQuincey Koziol2020-08-122-6/+6
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| * | | | | | Merge pull request #2752 in HDFFV/hdf5 from ~DEROBINS/hdf5_der:develop_minor ↵Dana Robinson2020-08-122-6/+6
| |\ \ \ \ \ \ | | |_|_|/ / / | |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | to develop * commit '78c6be05a84f854074a4df2e10c15a56444e4015': Fixes the splitter VFD test on Windows.
| | * | | | | Fixes the splitter VFD test on Windows.Dana Robinson2020-08-122-6/+6
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* | | | | | Merge remote-tracking branch 'origin/develop' into remove_unneeded_taggingQuincey Koziol2020-08-101-6/+6
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| * | | | | Fixes flock Windows failureDana Robinson2020-08-071-6/+6
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* | | | | Remove redundant calls to set the metadata cache tagQuincey Koziol2020-08-081-0/+8
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* | | | Removes staff email addresses from the repositoryDana Robinson2020-08-0765-70/+66
| | | | | | | | | | | | | | | | Removes redundant C library headers from hl library
* | | | Merge pull request #2730 in HDFFV/hdf5 from ↵Dana Robinson2020-08-063-64/+185
|\ \ \ \ | |/ / / |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ~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
| * | | Merge branch 'develop' into file_locking_squash_2Dana Robinson2020-08-064-14/+18
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| * | | | Squash merge of file locking fixesDana Robinson2020-08-033-64/+185
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* | | | | Merge pull request #2715 in HDFFV/hdf5 from ~JSOUMAGNE/hdf5:fix_vlen_ref to ↵Jerome Soumagne2020-08-061-0/+303
|\ \ \ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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 Soumagne2020-07-281-0/+303
| | |_|/ / | |/| | | | | | | | | | | | | Add corresponding test and some debug information
* | | | | Fixes warnings in the splitter VFD and testsDana Robinson2020-08-061-109/+148
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* | | | Warning fixes in tools and h5test.cDana Robinson2020-08-061-8/+15
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* | | | Minor normalizations with 1.12 branchDana Robinson2020-08-013-6/+3
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* | | Minor normalizations with hdf5_1_10Dana Robinson2020-07-319-414/+331
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* | Fixed additional typos in tselect.c comments.Dana Robinson2020-07-281-2/+2
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* | Fixes typo in tselect.cDana Robinson2020-07-281-1/+1
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* | Updates H5Sset_extent_none() to set H5S_NULLDana Robinson2020-07-281-2/+78
| | | | | | | | | | | | | | | | 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
* | Merge pull request #2693 in HDFFV/hdf5 from ↵Vailin Choi2020-07-175-1/+181
|\ \ | | | | | | | | | | | | | | | | | | | | | ~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
| * | Update MANIFEST.vchoi2020-07-161-0/+1
| | | | | | | | | | | | Add new test to Cmake.
| * | Fix for jira issue HDFFV-11080:vchoi2020-07-144-1/+180
| |/ | | | | | | | | (1) Patch up the file pointer when reading attribute of variable length datatype (2) Test to verify the fix when doing multiple threads
* | H5R: fix type conversion of references within vlen typeJerome Soumagne2020-07-161-0/+270
|/ | | | Update trefer.c with vlen test case
* Add new source files to CMake buildQuincey Koziol2020-06-281-0/+1
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* Clean up warningsQuincey Koziol2020-06-281-21/+20
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* Merge remote-tracking branch 'origin/develop' into monotonic_timerQuincey Koziol2020-06-273-54/+134
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