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* Make wrappers, tests and tools use H5Treclaim() instead of H5Dvlen_reclaim()Jerome Soumagne2019-10-081-2/+2
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* Added an H5MM_memcpy call that checks for buffer overlap.Dana Robinson2019-03-161-1/+1
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* HDFFV-10625 -- Implemented a process-0 read and then broadcast for ↵Quincey Koziol2019-01-071-2/+1
| | | | collective read of full (HS_ALL), contiguous, atomic datasets by all the processes in the file communicator.
* Normalization with vol_integration (property lists, file drivers,Dana Robinson2018-09-211-23/+23
| | | | other misc).
* 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 ↵hdftest2018-06-241-14/+14
| | | | | | | ~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 Breitenfeld2018-06-041-65/+0
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| * Finished move of H5DOread/write_chunk calls to H5D.Dana Robinson2018-04-301-65/+0
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* | Merge branch 'develop' into hdf5_1_10.syncM. Scot Breitenfeld2018-05-081-73/+0
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| * Add API context interface and use it throughout the library.Quincey Koziol2018-03-151-73/+0
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| * Incorporate patch from GE Healthcare (HDFFV-9934)Vailin Choi2017-04-251-0/+28
| | | | | | | | | | This is the same patch that had already been integrated to 1.8 branch (pull request #387). Tested on moohan, ostrich, platypus, emu, osx1010test, quail, kituo, mayll.
| * 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.
* | Fix for HDFFV-9947 H5SencodeVailin Choi2017-11-281-14/+14
| | | | | | | | Modifications to fix H5Sencode bug when num points selected is > 2^32.
* | Incorporate patch from GE Healthcare (HDFFV-9934)Vailin Choi2017-04-261-0/+28
| | | | | | | | | | This is the same patch that had already been integrated to 1.8 branch (pull request #387). Tested on moohan, ostrich, platypus, emu, osx1010test, quail, kituo, mayll.
* | 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.
* Align with name change of "user" ring in incoming cache image changes.Quincey Koziol2016-12-301-1/+1
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* Switch to new, more scalable, metadata cache entry tagging.Quincey Koziol2016-11-071-2/+2
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* [svn-r29850] Description:Quincey Koziol2016-05-011-4/+3
| | | | | | | | | | Bring H5DOappend(), H5P[s|g]et_object_flush_cb, and H5P[s|g]et_append_flush from revise_chunks branch to trunk. Brings along updated metadata cache entry tagging, and the internal object flush routine. Tested on: MacOSX/64 10.11.4 (amazon) w/serial, parallel & production (h5committest forthcoming)
* [svn-r29077] Description:Quincey Koziol2016-02-101-2/+3
| | | | | | | | Normalize against the trunk, in preparation for final merge. Tested on: MacOSX/64 10.11.3 (amazon) w/serial & parallel (h5committest not required on this branch)
* [svn-r29059] merge from trunk.Mohamad Chaarawi2016-02-071-10/+26
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| * [svn-r29057] added dxpl type checking when debug mode is enabled ↵Mohamad Chaarawi2016-02-071-1/+16
| | | | | | | | | | | | (H5_DEBUG_BUILD) tested on bb-8 with Serial and Parallel, debug and production builds.
* | [svn-r28851] merge from trunk.Mohamad Chaarawi2016-01-111-3/+0
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| * [svn-r28646] Minor normalization with revise_chunks.Dana Robinson2015-12-141-3/+0
| | | | | | | | | | | | | | | | | | Also purged obsolete /*ARGSUSED*/ from the library. Tested on: Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1 serial only (these changes have been in revise_chunks for a long time)
* | [svn-r27929] merge from trunk.Mohamad Chaarawi2015-10-011-15/+95
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| * [svn-r27811] Description:Quincey Koziol2015-09-161-13/+80
| | | | | | | | | | | | | | | | | | | | | | Refactor property list code to "deep copy" properties in the correct way, retraining the rest of the library to copy & release things correctly. This cleans up another batch of memory leaks, etc. within the library. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel Linux/32 2.6.x (jam) w/serial & parallel (h5committest forthcoming)
| * [svn-r27768] Description:Quincey Koziol2015-09-141-1/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Complete revamp of package initialization/shutdown mechanism in the library. Each package now has a single init/term routine. This new way should avoid packages being re-initialized during library shutdown and is also be _much_ more proactive about giving feedback for resource leaks internal to the library. Introduces a new "module" header file for packages in the library (e.g src/H5Fmodule.h) which sets up some necessary package configuration macros for the FUNC_ENTER/LEAVE macros. (The VFL drivers have their own slightly modified version of this header, src/H5FDdrvr_module.h) Also cleaned up a bunch of resources leaks all across the library and tests, along with addressing many warnings, as I encountered them. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel Linux/64 3.10.x (kituo) w/serial & parallel Linux/64 2.6.x (ostrich) w/serial
| * [svn-r27710] Description:Quincey Koziol2015-09-091-0/+12
| | | | | | | | | | | | | | | | | | Bring the "metadata rings" code from its branch (mdc_rings_v2) to the trunk. (This change will support the page buffering feature) Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest forthcoming)
| * [svn-r27707] Description:Quincey Koziol2015-09-091-1/+1
| | | | | | | | | | | | | | | | | | Misc. minor cleanups in preparation for merging "metadata rings" branch to trunk. Tested on: MacOSX/64 10.10.5 (amazon) w/serial (Too minor to require h5committest)
* | [svn-r27261] apply metadata enhancement patch that was based on the mdc 3 ↵Mohamad Chaarawi2015-06-211-0/+14
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* [svn-r27133] - Add a new attribute function characterstic for format:Mohamad Chaarawi2015-06-011-4/+4
| | | | | | | | * H5_ATTR_FORMAT(X,Y,Z) __attribute__((format(X, Y, Z))) - Rename UNUSED attribute characterstic to H5_ATTR_UNUSED. - Rename NORETURN attribute characterstic to H5_ATTR_NORETURN tested with h5committest.
* [svn-r25084] Description:Quincey Koziol2014-04-231-3/+6
| | | | | | | | | Begin process of migrating from using property list IDs internally to the library to using the internal generic property list data structure. Tested on: Mac OSX/64 10.9.2 (amazon) w/C++, FORTRAN & parallel (h5committest forthcoming)
* [svn-r24769] Description:Quincey Koziol2014-03-071-4/+5
| | | | | | | | | Check in Mohamad's changes to support collective I/O on point selections, along with some other minor cleanups. Tested on: Mac OSX/64 10.9.2 (amazon) w/parallel & serial (h5committest forthcoming)
* [svn-r24709] rename H5V to H5VM since H5V is needed in the fastforward ↵Mohamad Chaarawi2014-02-131-2/+2
| | | | | | | | | | | | project for view objects. The addition of view objects in the fastforward project is expected to be brough into the trunk sometimes in the future, which is why we need to make this change. Tested Manually on Jam and Ostrich. Tested with h5commitest - Koala with intel compilers failed, but nothing had to do with those changes. error on Koala: error while loading shared libraries: libirng.so
* [svn-r23075] I revised the code and test according to Quincey's review. I ↵Raymond Lu2012-12-041-2/+6
| | | | | | also added more test cases. Tested on koala.
* [svn-r23017] I added a prototype function H5DOwrite_chunk in HL library for ↵Raymond Lu2012-11-071-1/+33
| | | | | | | | | Dectris people to test performance. The library's API function H5PSIdirect_write is still in. I reorganized the internal library by adding H5D__pre_write function. Tested on koala.
* [svn-r22987] ported revisions from 22742 to 22986 from the trunkRaymond Lu2012-10-291-62/+744
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* [svn-r22735] Purpose:Jonathan Kim2012-09-041-0/+51
| | | | | | | | | | | | | | | | | | | HDFFV-8143 Provide a routine(s) for telling the user why the library broke collective data access Description: Added H5Pget_mpio_no_collective_cause() function that retrive reasons why the collective I/O was broken during Read/Write IO access. Reasons to break collective I/O: - SET_INDEPENDENT - DATATYPE_CONVERSION - DATA_TRANSFORMS - MPIPOSIX - NOT_SIMPLE_OR_SCALAR_DATASPACES (NULL Space) - POINT_SELECTIONS - NOT_CONTIGUOUS_OR_CHUNKED_DATASET (Compact or External-Storage) - FILTERS Tested: jam (linux32-LE), koala (linux64-LE), ostrich (linuxppc64-BE), tejeda (mac32-LE), linew (solaris-BE)
* [svn-r22707] Description:Quincey Koziol2012-08-221-7/+66
| | | | | | | | | | Bring back some more cleanups from the plist_encode_decode branch, clean up some formatting and compiler errors, and add a few more property comparison routines that we've skipped implementing in the past. Tested on: Mac OSX/64 10.7.4 (amazon) w/debug (Too minor to require h5committest)
* [svn-r22697] Snapshot version 1.9 release 126HDF Tester2012-08-191-1/+2
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* [svn-r22681] Description:Quincey Koziol2012-08-151-338/+136
| | | | | | | | Clean up file driver property handling, along with some misc. warnings. Tested on: Mac OSX/64 10.7.4 (amazon) w/debug, gcc 4.7.1, C++, FORTRAN & threadsafe (h5committest upcoming)
* [svn-r22627] Description:Quincey Koziol2012-08-031-17/+18
| | | | | | | | | Merge some of the changes on the plist_encode_decode branch back to the trunk. Tested on: Mac OSX/64 10.7.4 (amazon) w/debug (Too minor to require h5committest)
* [svn-r22377] make the file and memory MPI datatypes as default properties in theMohamad Chaarawi2012-05-181-1/+19
| | | | | | | DXPL so that we don't have to insert and remove them everytime we perform collective I/O. Test with h5committest
* [svn-r21919] Description:Quincey Koziol2012-02-091-27/+27
| | | | | | | | Refactor function name macros and simplify the FUNC_ENTER macros, to clear away the cruft and prepare for further cleanups. Tested on: Mac OSX/64 10.7.3 (amazon) w/debug, production & parallel
* [svn-r21529] Description:Quincey Koziol2011-10-121-3/+3
| | | | | | | | Update tracing information with new types introduced in "actual I/O mode" query routines. Tested on: bin/reconfigure on jam
* [svn-r21508] Revoked svn check-ins 20913 and 20921 (fix for HDFFV-7579) ↵Dana Robinson2011-10-101-85/+0
| | | | pending a careful evaluation of enum conversion behavior.
* [svn-r21442] Description:Quincey Koziol2011-10-011-6/+93
| | | | | | | | | | | | | | | | | | | | | | Check in "actual I/O mode" feature to trunk. Will merge back to 1.8 branch after it bakes over the weekend. Tested on: FreeBSD/32 8.2 (loyalty) w/gcc4.6, w/C++ & FORTRAN, in debug mode FreeBSD/64 8.2 (freedom) w/gcc4.6, w/C++ & FORTRAN, in debug mode Linux/32 2.6 (jam) w/PGI compilers, w/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (koala) w/Intel compilers, w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, w/threadsafe, in production mode Linux/PPC 2.6 (heiwa) w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-ia64 2.6 (ember) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in debug mode Mac OS X/32 10.6.8 (amazon) in debug mode Mac OS X/32 10.6.8 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r20922] Snapshot version 1.9 release 82HDF Tester2011-05-291-0/+2
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* [svn-r20913] Issue 7579 - The overflowing ENUM values are inconsistent. ↵Raymond Lu2011-05-271-0/+83
| | | | | | | | | | When no conversion is involved in reading or writing the data, overflowing values are retained. When conversion happens, the values become -1. The conversion function puts -1 when overflow happens. I added two new dataset transfer property to control whether to fill 0xff in the destination data or convert to the destination data when overflow happens. The two new functions are H5Pset(get)_enum_conv_overflow. I also added test cases in enum.c and dtypes.c. Tested on jam, koala, and heiwa.
* [svn-r19005] Purpose:Mike McGreevy2010-06-151-0/+6
| | | | | | | | | | | | | | | | | | | | | | | Commit metadata tagging framework. Description: This check-in contains a new framework whose goal is to apply a tag value to each new entry in the metadata cache as it is created. This tag value is such that it relates each piece of metadata to the HDF5 object that it belongs to (dataset, group, et cetera). This changeset includes the framework that applies the tags as well as a suite of tests to verify correct tag application, though does not yet make use of the tag values to flush/evict individual objects. Please refer to the "flush/evict individual objects" RFC for further discussion of these changes. Tested: jam, amani, linew (h5committest) liberty, abe, blue print
* [svn-r18346] Description:Quincey Koziol2010-02-271-21/+21
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring Coverity fixes back from branch to trunk: r18336: Fix coverity issues 275, 276, 277, 323, 432, 433, and 434 r18337: Fix Coverity issue #106: release free space section node on error r18338: Fixed Coverity #94 - In H5P_register, new_class wasn't closed when there's an error after it's created. r18339: Fix Coverity #185 - In test_conv_str_1, BUF wasn't freed when there's an error in this function. r18340: Correct error in r18337 that wasn't releasing indirect fractal heap block early enough. r18341: Close nodes if any failed in the middle of allocating new nodes. Coverity 140 and 141 r18342: Correct [another] problem w/r18337. r18343: Fix coverity items 185, 20, and 21. r18344: Fix Coverity 213 - In H5FD_family_close, the double pointer file->memb was dereferenced without NULL checking (We believe). r18345: Fix Coverity issue # 210; removed NULL check after pointer dereferenced in H5HFdblock.c. Also assigned NULL to pointer in H5Pint.c to fix segmentation fault. Tested on: FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (jam) w/PGI compilers, w/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (amani) w/Intel compilers, w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in debug mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode Mac OS X/32 10.6.2 (amazon) in debug mode Mac OS X/32 10.6.2 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
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