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* | Merge pull request #2121 in HDFFV/hdf5 from ↵Chris Hogan2019-12-111-0/+6
|\ \ | |/ |/| | | | | | | | | | | ~CHOGAN/hdf5:chogan/1.12/release_txt to hdf5_1_12 * commit '080b96fb25cd4752914f3b77f944d5982c8ab139': Latest date first in HISTORY-1_10_0-1_12_0.txt Update HISTORY-1_10_0-1_12_0..txt with performance improvements
| * Latest date first in HISTORY-1_10_0-1_12_0.txtChris Hogan2019-12-101-6/+6
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| * Update HISTORY-1_10_0-1_12_0..txt with performance improvementsChris Hogan2019-12-101-0/+6
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* Merge pull request #2116 in HDFFV/hdf5 from ↵Jerome Soumagne2019-12-0922-325/+571
|\ | | | | | | | | | | | | | | | | | | ~JSOUMAGNE/hdf5:hdf5-1_12-ref_token to hdf5_1_12 * commit '1aea46ce671daf2828ac65d0b8551b369f497922': Fix H5VL_token_t type and fix H5VL_loc_by_token to use H5VL_token_t * Change hdset_reg_ref_t and H5R_ref_t from arrays of unsigned char to structs containing those arrays. Encapsulating the arrays in this way makes it easier to write and think about pointers to these types, casts to/from these types, etc. H5R: fix H5Tconv to check for null references Remove H5VL_NATIVE_FILE_GET_FILE_ID and add H5VL_OBJECT_GET_FILE
| * Fix H5VL_token_t type and fix H5VL_loc_by_token to use H5VL_token_t *Jerome Soumagne2019-12-097-33/+35
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| * Change hdset_reg_ref_t and H5R_ref_t from arrays of unsigned char toDavid Young2019-12-094-144/+145
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | structs containing those arrays. Encapsulating the arrays in this way makes it easier to write and think about pointers to these types, casts to/from these types, etc. An interesting side-effect that we probably should *not* rely on is that the struct-encapsulation changes the alignment so that some GCC warnings about casts that increase the alignment requirement of the operand go away. Warnings like that have to be taken seriously: I will add -Werror=cast-align to the default compiler flags so that they stop the build quickly. GCC warnings led me to some surprising casts in test/trefer.c. I found that it was possible to make many simplifications after introducing the struct-encapsulation that I described, above. In test objcopy_ref `same_file` is assigned but never used. Delete it.
| * H5R: fix H5Tconv to check for null referencesJerome Soumagne2019-12-095-46/+304
| | | | | | | | | | | | Valid for both deprecated and non-deprecated references Update test
| * Remove H5VL_NATIVE_FILE_GET_FILE_ID and add H5VL_OBJECT_GET_FILEJerome Soumagne2019-12-0916-103/+88
| | | | | | | | Remove H5F__get_file_id() and use only private routine instead
* | Merge pull request #2115 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:tmp_112 to ↵Neil Fortner2019-12-091-1/+1
|\ \ | |/ |/| | | | | | | | | hdf5_1_12 * commit '096ed7a14a6b4fe19ad9d3791e769f4a650c3042': Modify H5Ssel_iter_get_seq_list() to accept iterators that have reached the end of iteration (returning zero sequences). Previously it could cause an assertion failure.
| * Modify H5Ssel_iter_get_seq_list() to accept iterators that have reachedNeil Fortner2019-12-091-1/+1
| | | | | | | | | | the end of iteration (returning zero sequences). Previously it could cause an assertion failure.
* | Merge pull request #2112 in HDFFV/hdf5 from ↵Chris Hogan2019-12-091-0/+6
|\ \ | |/ |/| | | | | | | | | ~CHOGAN/hdf5:chogan/1.12/10934_release_txt to hdf5_1_12 * commit 'b4f0d111f8c2da38521aa4d16686081d05791fce': Add RELEASE.txt entry for Jira 10934
| * Add RELEASE.txt entry for Jira 10934Chris Hogan2019-12-091-0/+6
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* | Merge pull request #2114 in HDFFV/hdf5 from ~JSOUMAGNE/hdf5:hdf5-1_12-revert ↵Jerome Soumagne2019-12-09104-5832/+275
|\ \ | |/ |/| | | | | | | | | to hdf5_1_12 * commit '49fe497201bcefcd9beb01fe8fc2175974b73799': Revert "Merge branch 'hdf5_1_12' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into hdf5_1_12"
| * Revert "Merge branch 'hdf5_1_12' of ↵Jerome Soumagne2019-12-09104-5832/+275
| | | | | | | | | | | | | | https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into hdf5_1_12" This reverts commit 9f9336a5bd541752f472bab4c93da8de89f862cd, reversing changes made to 437a1919e7ba60fe75a33a466d264183a0255319.
* | Merge pull request #2104 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:tmp_112_3 to ↵Neil Fortner2019-12-061-1/+2
|\ \ | | | | | | | | | | | | | | | | | | hdf5_1_12 * commit 'afb6ae776b3c60b37898dae4ee93f8976da90d42': Add H5VL_MAP_OPTIONAL operation id (unused currently).
| * | Add H5VL_MAP_OPTIONAL operation id (unused currently).Neil Fortner2019-12-061-1/+2
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* | Merge pull request #2103 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:tmp_112_2 to ↵Neil Fortner2019-12-063-8/+26
|\ \ | | | | | | | | | | | | | | | | | | hdf5_1_12 * commit 'aefd0cbc60eeed3319776f76f0cde889072cc31b': Implement support for using H5Dvlen_get_buf_size with non-native VOL connectors.
| * | Implement support for using H5Dvlen_get_buf_size withNeil Fortner2019-12-063-8/+26
| |/ | | | | | | non-native VOL connectors.
* | Merge pull request #2102 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:tmp_112 to ↵Neil Fortner2019-12-062-87/+130
|\ \ | |/ |/| | | | | | | | | hdf5_1_12 * commit '46a3961d086aa1d90fa8519792cf4c5e7fe2ae26': Add support for scalar dataspaces to H5Sproject_intersection. Add checking for ank validity.
| * Add support for scalar dataspaces to H5Sproject_intersection. AddNeil Fortner2019-12-062-87/+130
|/ | | | checking for ank validity.
* Merge pull request #2101 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:tmp_112_5 to ↵Neil Fortner2019-12-061-4/+4
|\ | | | | | | | | | | | | hdf5_1_12 * commit '47f6c293a78aaa92c80b327795b1f1a242ea30a5': Fix issues with using H5Pget_fill_value() with file datatypes retrieved from H5VLget_file_type().
| * Fix issues with using H5Pget_fill_value() with file datatypes retrievedNeil Fortner2019-12-061-4/+4
| | | | | | | | from H5VLget_file_type().
* | Merge pull request #2096 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:tmp_112 to ↵Neil Fortner2019-12-061-0/+9
|\ \ | | | | | | | | | | | | | | | | | | hdf5_1_12 * commit '681d227e9ee7876922fb05e609db18425cb1630d': Fix issue where H5R__reopen_file did not make the file "post open" callback.
| * | Fix issue where H5R__reopen_file did not make the file "post open"Neil Fortner2019-12-062-1/+10
| | | | | | | | | | | | callback.
* | | Merge pull request #2100 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:tmp_112_4 to ↵Neil Fortner2019-12-065-34/+163
|\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | hdf5_1_12 * commit '209a86de37497b160ff49b9956f58558194eee25': Fix missing free in H5T__ref_mem_read() Fix bugs in H5VL file comparison code. Add short circuit success to H5VL_cmp_connector_cls(). Implement file comparison VOL callback. Other changes to allow references to work with non-native connectors. There is a bug somewhere.
| * | | Fix missing free in H5T__ref_mem_read()Neil Fortner2019-12-061-0/+2
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| * | | Fix bugs in H5VL file comparison code. Add short circuit success toNeil Fortner2019-12-063-10/+16
| | | | | | | | | | | | | | | | H5VL_cmp_connector_cls().
| * | | Implement file comparison VOL callback. Other changes to allowNeil Fortner2019-12-064-31/+152
| | |/ | |/| | | | | | | | | | references to work with non-native connectors. There is a bug somewhere.
* | | Merge pull request #2099 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:tmp_112_3 to ↵Neil Fortner2019-12-061-17/+113
|\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | hdf5_1_12 * commit '2b14a8fd7e9221e258f3a2ed6dd0f79a30d5221f': Add support for point selections to H5S_select_project_intersection.
| * | | Add support for point selections to H5S_select_project_intersection.Neil Fortner2019-12-061-17/+113
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* | | Merge pull request #2097 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:tmp_112_2 to ↵Neil Fortner2019-12-0610-113/+284
|\ \ \ | |/ / |/| | | | | | | | | | | | | | | | | | | | hdf5_1_12 * commit 'd567b4569df6e00c05d4290c7edfdf499f7d138f': Add note to RELEASE.txt for H5Sselect_adjust. Move checking for zero offset in selection adjust calls to the selection callbacks. This makes the procedure for checking it consistent across selection types and between _s and _u, ensures it is always is performed even when called within the H5S package, and removes the redundant check that would occur when callins H5S_select_adjust_s() from outside the H5S package. Replace H5Sselect_adjust_u() and H5Shyper_adjust_s() with H5Sselect_adjust. Implement "adjust_s" callback for all selection types. Add range checking to H5Sselect_adjust().
| * | Add note to RELEASE.txt for H5Sselect_adjust.Neil Fortner2019-12-061-0/+8
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| * | Move checking for zero offset in selection adjust calls to the selection ↵Neil Fortner2019-12-063-87/+100
| | | | | | | | | | | | | | | | | | | | | callbacks. This makes the procedure for checking it consistent across selection types and between _s and _u, ensures it is always is performed even when called within the H5S package, and removes the redundant check that would occur when callins H5S_select_adjust_s() from outside the H5S package.
| * | Replace H5Sselect_adjust_u() and H5Shyper_adjust_s() withNeil Fortner2019-12-069-60/+210
|/ / | | | | | | | | H5Sselect_adjust. Implement "adjust_s" callback for all selection types. Add range checking to H5Sselect_adjust().
* | Merge branch 'hdf5_1_12' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 ↵Richard Warren2019-12-0625-294/+759
|\ \ | | | | | | | | | into hdf5_1_12
| * \ Merge pull request #2095 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:hdf5_1_12 to ↵Neil Fortner2019-12-068-122/+316
| |\ \ | | |/ | | | | | | | | | | | | | | | | | | hdf5_1_12 * commit 'aaf67f1d3eceb9c214f013bdf1b3dc06b29bb174': Add RELEASE.txt note for H5Sselect_project_interesection Implement public H5Sselect_project_intersection(). Updated internal algorithm to (optionally) avoid sharing selection data structures. Tested internal code (including with valgrind) by setting VDS code to avoid sharing selection, has since been changed to share selection for performance, so this code is not yet tested in regression tests. API has not been tested.
| | * Merge branch 'hdf5_1_12' of ↵Neil Fortner2019-12-060-0/+0
| | |\ | | |/ | |/| | | | ssh://bitbucket.hdfgroup.org:7999/~nfortne2/hdf5_naf into hdf5_1_12
| * | Merge pull request #2091 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:hdf5_1_12 to ↵Neil Fortner2019-12-0635-289/+665
| |\ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | hdf5_1_12 * commit '1b45a5c09f7f31dfc6920c3fe503b8e043e327a2': Add RELEASE.txt note for HVLget_file_type() Implement H5VLget_file_type() to return a copy of a datatype with the location set to be in a file. Only meant to be used by VOL connectors. Implement H5VLpeek_connector_id() to support connectors querying their own IDs. Fix app_ref with connector IDs in a couple places (external VOLs registered as default through ENV should be visible to the application). Modify vlen and reference interfaces to work with arbitrary VOL connectors. Implement file "post open" specific callback, to enable connectors to update their file structs after a wrap context has been set.
| | | * Add RELEASE.txt note for H5Sselect_project_interesectionNeil Fortner2019-12-061-0/+8
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| | | * Implement public H5Sselect_project_intersection(). Updated internalNeil Fortner2019-12-067-122/+308
| | |/ | | | | | | | | | | | | | | | | | | | | | algorithm to (optionally) avoid sharing selection data structures. Tested internal code (including with valgrind) by setting VDS code to avoid sharing selection, has since been changed to share selection for performance, so this code is not yet tested in regression tests. API has not been tested.
| | * Add RELEASE.txt note for HVLget_file_type()Neil Fortner2019-12-061-0/+9
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| | * Implement H5VLget_file_type() to return a copy of a datatype with theNeil Fortner2019-12-0634-289/+656
| |/ | | | | | | | | | | | | | | | | | | | | location set to be in a file. Only meant to be used by VOL connectors. Implement H5VLpeek_connector_id() to support connectors querying their own IDs. Fix app_ref with connector IDs in a couple places (external VOLs registered as default through ENV should be visible to the application). Modify vlen and reference interfaces to work with arbitrary VOL connectors. Implement file "post open" specific callback, to enable connectors to update their file structs after a wrap context has been set.
| * Merge pull request #2080 in HDFFV/hdf5 from ↵Vailin Choi2019-12-064-4/+9
| |\ | | | | | | | | | | | | | | | | | | | | | ~VCHOI/my_third_fork:bugfix/112_hyper_ver to hdf5_1_12 * commit '0f1be317c37ca04db263680e6f1fe4d97b937b39': More fixes for the PR: (1) Set the version for reference datatype message to H5O_DTYPE_VERSION_4. (2) The tests for the new reference types should work for V112 and beyond. Verify the decoded version for hyperslab selection.
| | * More fixes for the PR:Vailin Choi2019-12-062-1/+2
| | | | | | | | | | | | | | | (1) Set the version for reference datatype message to H5O_DTYPE_VERSION_4. (2) The tests for the new reference types should work for V112 and beyond.
| | * Verify the decoded version for hyperslab selection.Vailin Choi2019-12-052-3/+7
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| * | Merge pull request #2084 in HDFFV/hdf5 from ~JHENDERSON/hdf5:hdf5_1_12 to ↵Jordan Henderson2019-12-066-52/+83
| |\ \ | | |/ | |/| | | | | | | | | | | | | hdf5_1_12 * commit 'a7a70824e43e7ff722bbbd39866ac3eff9faa961': Add OAPL parameter to H5Rcreate_ APIs
| | * Add OAPL parameter to H5Rcreate_ APIsJordan Henderson2019-12-066-52/+83
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* | Merged HDFFV-10929_2GB_testing to hdf5_1_12Richard Warren2019-12-06128-819/+6517
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* Merge pull request #2069 in HDFFV/hdf5 from ↵Chris Hogan2019-12-032-15/+63
|\ | | | | | | | | | | | | ~CHOGAN/hdf5:feature/1.12/issue_10934 to hdf5_1_12 * commit '6084fbad00b27e12902a340d8a0fcf0d0b9ad2f7': Add changes from PR 2049 to hdf5_1_12 branch
| * Add changes from PR 2049 to hdf5_1_12 branchChris Hogan2019-12-032-15/+63
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