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* Merge remote-tracking branch 'origin/develop' into merge_hyperslab_update_01Quincey Koziol2019-04-291-1/+1
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| * HDFFV-10365: Changes as described in the RFC: H5Sencode/H5Sdecode Format Change.Vailin Choi2019-04-061-1/+1
| | | | | | | | This also addresses HDFFV-10255: H5Sencode/decode performance issue.
* | Merge remote-tracking branch 'origin/develop' into merge_hyperslab_update_01Quincey Koziol2019-04-061-9/+35
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| * Move dataspace selection-specific coding to the callbacks as preparation for ↵Vailin Choi2019-04-051-9/+35
| | | | | | | | the H5Sencode changes.
* | Core changes to selection code from the hyperslab_updates branch.Quincey Koziol2019-03-161-18/+76
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* More changes to align with incoming selection improvements.Quincey Koziol2019-02-141-74/+74
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* Align develop with incoming hyperslab_updates branch changes.Quincey Koziol2019-02-131-31/+69
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* H5S adjust callbacks now return an herr_t instead of void.Dana Robinson2018-09-241-5/+5
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* 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 ↵hdftest2018-06-241-13/+11
| | | | | | | ~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 Breitenfeld2018-05-081-202/+194
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| * Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into ↵Quincey Koziol2018-04-291-6/+4
| |\ | | | | | | | | | merge_hyperslab_updates
| | * 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.
| * | Checkpoint normalization against incoming hyperslab / selection / dataspaceQuincey Koziol2017-03-281-202/+194
| |/ | | | | | | improvements.
* | Fix for HDFFV-9947 H5SencodeVailin Choi2017-11-281-11/+13
| | | | | | | | Modifications to fix H5Sencode bug when num points selected is > 2^32.
* | 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.
* [svn-r27916] Re-merge of r27884-27891 from the trunk + bugfix for a fewDana Robinson2015-09-301-6/+12
|\ | | | | | | | | | | | | | | H5S recursive functions where an aliased pointer was incorrectly set too early. Tested on: Ubuntu 15.04 (Linux 3.19 x86_64) w/ gcc 4.9.2 serial and parallel (w/ MPICH 3.1.4)
| * [svn-r27891] Description:Quincey Koziol2015-09-271-4/+1
| | | | | | | | | | | | | | | | | | Revert changes to 'all' and 'none' selections: the serialized header info is handled in the general H5S_select_deserialize() routine. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest forthcoming)
| * [svn-r27889] Description:Quincey Koziol2015-09-271-1/+4
| | | | | | | | | | | | | | | | Advance the decoding pointer for 'all' and 'none' selections properly. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest forthcoming)
* | [svn-r27912] Revert of r27887, which caused failures in the vds test. TheseDana Robinson2015-09-291-12/+6
| | | | | | | | | | | | | | | | changes will be merged more carefully so we can more easily identify any errors that arise. Tested on: Ubuntu 15.04 (Linux 3.19 x86_64) w/ gcc 4.9.2 serial and parallel (w/ MPICH 3.1.4)
* | [svn-r27887] Description:Quincey Koziol2015-09-271-6/+12
|\ \ | |/ | | | | | | | | | | | | Merge changes from trunk to the branch. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest not required on this branch)
| * [svn-r27884] Description:Quincey Koziol2015-09-261-6/+12
| | | | | | | | | | | | | | | | | | Update dataspace selection encode/decode routines to avoid type aliasing errors. Tested on: Linux/64 2.6.x (platypus) w/production (h5committest forthcoming)
* | [svn-r27835] Description:Quincey Koziol2015-09-211-8/+8
|\ \ | |/ | | | | | | | | | | | | Sync w/trunk. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest not required on this branch)
| * [svn-r27768] Description:Quincey Koziol2015-09-141-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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-r27632] Description:Quincey Koziol2015-08-311-17/+10
| | | | | | | | | | | | | | | | | | | | Revert changes to pass file pointer to selection serialize/deserialize routines. Also patch back in some changes that were merged out in the previous merge w/trunk. Tested on: MacOSX/64 10.10.5 (amazon) w/serial (h5committest not required on this branch)
* | [svn-r27479] Add checking for invalid inputs to H5Dset_virtual: point ↵Neil Fortner2015-08-071-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | selections, incorrect numbers of elements selected, incorrect "slice" through limited dimensions, incorrect number of printf substitutions. Patch source selection space extent with bounds of selection if extent is unknown before returning via H5Pget_virtual_srcspace. Write updated VDS dataspace to file when it changes due to unlimited selections. Other minor fixes/cleanup. Tested: ummon
* | [svn-r27450] Add descriptions for all non-public functions.Neil Fortner2015-07-311-2/+7
| | | | | | | | | | | | | | Other comments. Add some input checking. Tested: ummon
* | [svn-r27191] Merged r26781 to r27185 from trunkDana Robinson2015-06-111-21/+29
|\ \ | |/ | | | | | | Tested on: 64-bit Ubuntu Linux VM w/ gcc 4.8.2 (C++ and Fortran 2003 also tested)
| * [svn-r27133] - Add a new attribute function characterstic for format:Mohamad Chaarawi2015-06-011-15/+15
| | | | | | | | | | | | | | | | * 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-r26962] Add support for unlimited selections to VDS code.Neil Fortner2015-04-291-0/+27
| | | | | | | | | | | | | | | | Not tested (except for percival-unlim example) Fix percival-unlim example Other bug fixes/cleanup Tested: Fedora 64
* | [svn-r26878] Fix errors in unlimited selection serialize/deserializeNeil Fortner2015-04-211-2/+2
| | | | | | | | | | | | Other minor fixes Tested: jam
* | [svn-r26828] Implement support for unlimited selections (not supported by ↵Neil Fortner2015-04-161-4/+7
| | | | | | | | | | | | | | | | | | VDS code yet). Add tests for unlimited selections. Various other minor changes. Tested: ummon
* | [svn-r26476] Add support for I/O in all cases with fixed size datasets and ↵Neil Fortner2015-03-181-0/+1
|/ | | | | | | | | | | | | no point selections. Add source dataspace extent patching (should allow closing the source file). Note fill values and various other features are not yet supported. Note there are still some code coverage assertions in the selection matching algorithm - if you hit these try taking them out. Note make check still fails in h5dump test (unrelated to this checkin). Tested: ummon
* [svn-r26302] Description:Quincey Koziol2015-02-251-16/+25
| | | | | | | | | Revise dataspace encode/decode routines to make them work better with future virtual dataset feature. Tested on: Mac OSX/64 10.10.2 (amazon) w/serial (h5committest forthcoming)
* [svn-r25766] Description:Quincey Koziol2014-11-031-17/+2
| | | | | | | | | | Revert r25273, 25283 & 25439 (the hyperslab improvement changes). They are buggy and it's taking me a long time to correct the problem. I'll check in a revised form of the changes when I've got them straightened out. Tested on: Mac OSX 10.10.0 (amazon) w/gcc 4.9.x, C++, FORTRAN Linux 2.6.x (jam) w/parallel
* [svn-r25273] Description:Quincey Koziol2014-06-131-2/+17
| | | | | | | | | | | Bring in Chao/Neil/my changes to optimize hyperslab selection operations further, along with 3 new public API routines: H5Scombine_hyperslab(), H5Sselect_select() and H5Scombine_select(), along with many minor cleanups to the code and fixing a few compiler warnings. Tested on: Mac OSX/64 10.9.3 w/gcc 4.9.x and parallel w/OpenMPI (h5commttest 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-r23713] Description:Quincey Koziol2013-05-211-27/+27
| | | | | | | | | | Clean up warnings, switch library code to use Standard C/POSIX wrapper macros, remove internal calls to API routines, update checkapi and checkposix scripts. Tested on: Mac OSX/64 10.8.3 (amazon) w/C++ & FORTRAN Big-Endian Linux/64 (ostrich)
* [svn-r22608] Description:Quincey Koziol2012-07-261-12/+12
| | | | | | | | | | | | | | | Switch propert list/class iteration from internal to external form of iteration, cleaning up and simplifying the code a bit. Bring other general improvements from plist_encode_decode branch back to trunk. Clean up many warnings. Tested on: Mac OSX/64 10.7.4 (amazon) w/gcc 4.7, debug and C++ & FORTRAN (too minor to require h5committest)
* [svn-r21919] Description:Quincey Koziol2012-02-091-40/+40
| | | | | | | | 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-r19092] Description:Quincey Koziol2010-07-191-16/+83
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring "shape same" changes from LBL branch to trunk. These changes allow shapes that are the same, but projected into dataspaces with different ranks to be detected correctly, and also contains code to project a dataspace into greater/lesser number of dimensions, so the I/O can proceed in a faster way. These changes also contain several bug fixes and _lots_ of code cleanups to the MPI datatype creation code. Many other misc. code cleanup are included as well... 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-amd64 2.6 (abe) w/parallel, w/FORTRAN, in debug mode Mac OS X/32 10.6.3 (amazon) in debug mode Mac OS X/32 10.6.3 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r18037] Description:Quincey Koziol2009-12-191-2/+2
|\ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r18035 from merge_metadata_journaling branch to trunk: More "brush clearing" convergence between metadata_journaling branch and the trunk. 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 (smirom) 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
| * [svn-r18035] Description:Quincey Koziol2009-12-191-2/+2
| | | | | | | | | | | | | | | | | | More "brush clearing" convergence between metadata_journaling branch and the trunk. Tested on: Mac OS X/32 10.6.2 (amazon) debug & prod (h5committest not required on this branch)
* | [svn-r18031] Description:Quincey Koziol2009-12-171-1/+1
|\ \ | |/ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r18030 from merge_metadata_journaling branch to trunk: Bring "brush clearing" changes (whitespace & style issues, mostly) from metadata_journaling branch to the "merging" branch, to converge the trunk and the metadata_journaling branch. Also, some other minor cleanups along the way. 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 (smirom) 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
| * [svn-r18030] Description:Quincey Koziol2009-12-171-7/+8
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring "brush clearing" changes (whitespace & style issues, mostly) from metadata_journaling branch to the "merging" branch, to converge the trunk and the metadata_journaling branch. 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 (smirom) 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
* | [svn-r15565] Snapshot version 1.9 release 15HDF Tester2008-08-311-0/+1
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* | [svn-r15510] Description:Quincey Koziol2008-08-211-7/+8
|/ | | | | | | | Clean up warnings & formatting Tested on: Mac OS X/32 10.5.4 (amazon) More tests forthcoming
* [svn-r14307] Description:Quincey Koziol2007-11-291-12/+49
| | | | | | | | | | | | | | | | | | | | | | | | - Extracted common code from H5D_select_read/H5D_select_write into single routine (H5D_select_io) and made H5D_select_read/H5D_select_write "gateway" routines, passing I/O buffer to operate on in "op" struct. - Create optimized pathway in H5D_select_io for I/O operations on single elements. - Make "get linear offset of first element" callback for each type of selection (used in "optimized pathway", above) Tested on: FreeBSD/32 6.2 (duty) in debug mode FreeBSD/64 6.2 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/default API=1.6.x, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Mac OS X/32 10.4.10 (amazon) in debug mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode
* [svn-r14278] Description:Quincey Koziol2007-11-201-0/+33
| | | | | | | | | | | | | | | | | | | | - Remember # of elements in file selection, instead of querying more than once - Handle building chunk map for single element as special case Tested on: FreeBSD/32 6.2 (duty) in debug mode FreeBSD/64 6.2 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/default API=1.6.x, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Mac OS X/32 10.4.10 (amazon) in debug mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode
* [svn-r13825] Description:Quincey Koziol2007-05-311-14/+14
| | | | | | | | | Incremental step forward in fixing problems with fill values that have a variable-length daattype. This set of changes fixes problems with the copying the property list values. tested Tn: Mac OS X/32 10.4.9 (amazon)
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