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* Implement H5VLget_file_type() to return a copy of a datatype with theNeil Fortner2019-11-081-15/+61
| | | | | | | | | | | 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.
* Fix encode and decode of tokens in H5VLnativeJerome Soumagne2019-10-111-1/+1
| | | | | | | | Fix encode and decode of deprecated object reference addresses Make H5Rdeprec.c use tokens instead of haddr_t Fix H5Oopen_by_addr() to serialize addr to token
* Add new H5R API that abstracts object, region and attribute reference typesJerome Soumagne2019-10-081-54/+115
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Also support references to external files Add new H5T_REF type and type conversion routines Support conversion from H5T_REF_OBJ/DSET_REG to H5T_REF Add H5Treclaim() API to reclaim memory of vlen/reference types Deprecate H5Dvlen_reclaim() Fix H5T_vlen_reclaim() and H5T_reclaim() to use private callback Add H5T_ref_reclaim() Move previous H5R APIs to H5Rdeprec.c Clean up H5Ocopy Separate H5O_copy_expand_ref() to H5Ocopy_ref() Add support for copying new reference types Clean up deprecated routines to go through VOL and same code path Fix return codes in existing trefer.c test Rename trefer.c to trefer_deprec.c trefer.c is for new references Add performance test for trefer Add additional obj_copy_ref test Make use of tokens and blobs to store references Skip blob encoding for object references Start adding new reference examples
* Update versioning to next major versionAllen Byrne2019-09-251-69/+70
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* Added the map (H5M) APIDana Robinson2019-08-131-0/+1
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* Add support for GCC9, update warnhist script, and clean up warnings.Quincey Koziol2019-07-031-2/+2
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* Updated configure & CMake compiler flags for GCC 8.x, along with correspondingQuincey Koziol2019-06-281-2/+2
| | | | | changes to warnhist script (and some extra improvements for condensing C++ and Java warnings), and fixed a bunch of warnings.
* Updated H5Tcopy() to get the dataset's datatype through the VOL whenDana Robinson2019-06-241-18/+34
| | | | that is passed in as the object ID.
* Add support for GCC 7.x warnings, update warnhist script to account for them,Quincey Koziol2019-06-211-0/+1
| | | | clean up warnings.
* Set V112 as the latest format and extend the arrays of version bounds.Vailin Choi2019-04-041-0/+1
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* Added an H5MM_memcpy call that checks for buffer overlap.Dana Robinson2019-03-161-2/+2
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* C and POSIX call cleanupDana Robinson2019-01-111-1/+1
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* HDFFV-10625 -- Implemented a process-0 read and then broadcast for ↵Quincey Koziol2019-01-071-0/+106
| | | | collective read of full (HS_ALL), contiguous, atomic datasets by all the processes in the file communicator.
* Removed H5I_REFERENCE from the library. It has always been unusedDana Robinson2018-12-081-1/+0
| | | | and has been marked 'deprecated' since 1.10.0. Fixes HDFFV-10252.
* Switch driver | plugin => connector.Quincey Koziol2018-11-041-3/+3
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* Refactor and standardize named datatype VOL callbacks.Quincey Koziol2018-11-011-49/+48
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* Updates after merging changes from develop.Quincey Koziol2018-10-261-1/+1
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* Squashed commit of private branch changes to support stackable VOL plugins.Quincey Koziol2018-10-251-5/+5
| | | | modified: test/dsets.c
* VOL FEATUREDana Robinson2018-10-101-5/+50
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* Normalization with vol_integration (misc internal and datatype)Dana Robinson2018-09-201-158/+104
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* Removed 'VOL' versions of FUNC_ENTER macros as well as empty functionsDana Robinson2018-09-181-2/+2
| | | | orginally intended to support the full SWMR feature.
* Fixed HDFFV-10404Binh-Minh Ribler2018-07-131-1/+1
| | | | | | | | | Description: Applied the typo fixes from user's report. The previous pull request couldn't be merged because it was too old, and it was too complicated for me to resolve conflicts. Platform tested: Linux/64 (jelly) - very minor
* Revert "Merge pull request #1116 in HDFFV/hdf5 from ↵hdftest2018-06-241-2/+2
| | | | | | | ~HDFTEST/hdf5_hft:hdf5_1_10 to develop" This reverts commit e9f476dad47ce593f13dacb77b1cc664d1f24e7b, reversing changes made to 2ff00b1b937ebe36ac6ddf590c16a4c27fc0b053.
* Merge branch 'develop' into hdf5_1_10.syncM. Scot Breitenfeld2018-05-081-533/+649
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| * Cleanup API context function usage.Quincey Koziol2018-03-191-30/+3
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| * Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into ↵Quincey Koziol2018-03-181-14/+41
| |\ | | | | | | | | | | | | | | | merge_func_enter_vol Plus initial steps toward merging API context push into FUNC_ENTER_API* macros
| | * Merge branch 'develop' into hdffv_10355Dana Robinson2018-03-061-0/+5
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| | | * Fix for HDFFV-10357 (CVE-2017-17508).Dana Robinson2018-02-271-0/+5
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| | * | Fix for HDFFV-10355 (CVE-2017-17506).Dana Robinson2018-02-271-4/+9
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| | * Changes made based on code reviews.Vailin Choi2018-01-121-3/+2
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| | * (1) Merge branch 'develop' into bugfix/version_boundsVailin Choi2017-11-251-6/+6
| | |\ | | | | | | | | | | | | | | | | | | | | (2) Add two new options to h5repack for low and high bounds as in H5Pset_libver_bounds. (3) Modify message pre_copy callbacks so that H5Ocopy can handle version bounds check. (4) Add version bounds check for cache image feature.
| | * | Initial checkin for library version boundsVailin Choi2017-10-031-8/+26
| | |/ | | | | | | | | | Code changes to provide versioning support when adding to the enumerated defines for H5F_libver_t.
| * | Add API context interface and use it throughout the library.Quincey Koziol2018-03-151-533/+676
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| * HDFFV-10186 Add endianess to bitfield and fix testsAllen Byrne2017-05-101-8/+21
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| * HDFFV-10186 Whitespace changesAllen Byrne2017-05-091-1441/+1389
| | | | | | | | Mostly replacing tabs with spaces Removed empty mod sections
| * Merge pull request #426 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10 to ↵Larry Knox2017-04-251-6/+4
| | | | | | | | | | | | | | | | | | | | hdf5_1_10 * commit '54957d37f5aa73912763dbb6e308555e863c43f4': Commit copyright header change for src/H5PLpkg.c which was added after running script to make changes. Add new files in release_docs to MANIFEST. Cimmit changes to Makefile.in(s) and H5PL.c that resulted from running autogen.sh. Merge pull request #407 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10_1 to hdf5_1_10_1 Change copyright headers to replace url referring to file to be removed and replace it with new url for COPYING file.
* | Needs to sync with lib version and Sencode.M. Scot Breitenfeld2018-03-071-14/+41
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* | Fix for HDFFV-9947 H5SencodeVailin Choi2017-11-281-2/+2
| | | | | | | | Modifications to fix H5Sencode bug when num points selected is > 2^32.
* | merge from develop and apply HDFFV-8611Allen Byrne2017-05-241-1449/+1410
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* | Change copyright headers to replace url referring to file to be removedlrknox2017-04-141-6/+4
|/ | | | | | | | and replace it with new url for COPYING file. Fix 2 lines in java error test expected output file where messages include line numbers changed by reducing the copyright header by 2 lines.
* Tentative fix for valgrind issues related to EoC.Dana Robinson2016-11-261-2/+2
| | | | | | | | | Adds /*out*/ parameters to H5O_close() and H5F_try_close() so that H5D/G_close() will know when H5O_close() has triggered a file close and thus the file struct is not reliable. Also removes the H5F_CLOSING() macro and related which were formerly used to check if the file was closing.
* [svn-r30143] Fix for HDFFV-9940.Vailin Choi2016-07-041-0/+43
| | | | Tested on jam, osx1010test, moohan, platypus, emu, kite, kituo, mayll, ostrich, quail.
* [svn-r30139] Description:Quincey Koziol2016-07-021-0/+72
| | | | | | | | Bring over missing flush+refresh routines, to address Java failures. Tested on: MacOSX/64 10.11.5 (amazon) w/serial, parallel & production Linux/64 2.6.18 (jam) w/Java
* [svn-r30113] Description:Quincey Koziol2016-06-281-0/+2
| | | | | | | | Clean up warnings (from 2774 -> 1560, with my standard debug build) Tested on: MacOSX/64 10.11.5 (amazon) w/serial, parallel & production (h5committest forthcoming)
* [svn-r30068] Description:Quincey Koziol2016-06-131-0/+11
| | | | | | | | Bring metadata cache corking to trunk. Tested on: MacOSX/64 10.11.5 (amazon) w/serial, parallel & production (h5committest forthcoming)
* [svn-r29776] Description:Quincey Koziol2016-04-241-0/+29
| | | | | | | | Bring "file pointer patching" code & test from revise_chunks to trunk. Tested on: MacOSX/64 10.11.4 (amazon) w/serial, parallel & production (h5committest forthcoming)
* [svn-r29081] - merge in the phdf5_metadata_opt/ branch with the collective ↵Mohamad Chaarawi2016-02-101-1/+1
| | | | | | | | metadata optimizations. - rename H5AC_dxpl_id to H5AC_ind_read_dxpl_id and update all usage in the library tested on bb-8 with parallel and serial.
* [svn-r29057] added dxpl type checking when debug mode is enabled ↵Mohamad Chaarawi2016-02-071-181/+181
| | | | | | (H5_DEBUG_BUILD) tested on bb-8 with Serial and Parallel, debug and production builds.
* [svn-r28950] - remove META_FLUSH_COLLECTIVELY property for delayed sanity ↵Mohamad Chaarawi2016-01-211-181/+181
| | | | | | | | | | checks from metadata dxpls - remove H5AC_ind_dxpl_id and use only H5AC_dxpl_id everywhere instead. - remove flush_me_collectively flag from cache entries - add a collective sanity check (MPI_Barrier) for every HDF5 API routine that could possibly touch the file. This is trigerred when the environment variable H5_COLL_API_SANITY_CHECK is set to a non 0 digit. tested on BB-8 with serial and parallel.
* [svn-r28606] Description:Quincey Koziol2015-12-131-15/+3
| | | | | | | | | | Revisions to normalize revise chunks vs. trunk, plus push dataset metadata changes into the cache immediately (instead of holding them within the dataset data structures). Tested on: MacOSX/64 10.11.2 (amazon) w/serial & parallel (h5committest not required on this branch)
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