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* Address daily test failure for hdf5_1_10:Vailin Choi2019-05-161-1/+1
| | | | Fix the testhdf5 failing test in the selection code which segfaults.
* Make corresponding changes for H5Sencode based on PR #1645 to develop branch.Vailin Choi2019-04-231-7/+7
| | | | The core changes are to revert previous modifications now that we use API context for fapl.
* Merge branch 'develop' into hdf5_1_10.syncM. Scot Breitenfeld2018-06-041-0/+1
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| * * Fixed the error testsDana Robinson2018-05-021-0/+1
| | | | | | | | * Moved common functionality into helper functions
* | Merge branch 'develop' into hdf5_1_10.syncM. Scot Breitenfeld2018-05-081-14/+10
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| * Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into ↵Quincey Koziol2018-04-291-17/+14
| |\ | | | | | | | | | merge_hyperslab_updates
| | * Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into ↵Quincey Koziol2018-03-181-1/+1
| | |\ | | | | | | | | | | | | | | | | | | | | merge_func_enter_vol Plus initial steps toward merging API context push into FUNC_ENTER_API* macros
| | | * (1) Merge branch 'develop' into bugfix/version_boundsVailin Choi2017-11-251-1/+4
| | | |\ | | | | | | | | | | | | | | | | | | | | | | | | | (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 Choi2017-10-031-1/+1
| | | | | | | | | | | | | | | | | | | | 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 Koziol2018-03-151-9/+5
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| * | | Checkpoint normalization against incoming hyperslab / selection / dataspaceQuincey Koziol2017-03-281-7/+6
| | | | | | | | | | | | | | | | improvements.
* | | | Needs to sync with lib version and Sencode.M. Scot Breitenfeld2018-03-071-1/+1
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* | | | Fix for daily test failures.Vailin Choi2017-12-071-2/+2
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* | | | Merge branch changes from hdf5_1_10.Vailin Choi2017-12-051-1/+3
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| * | | Split internal H5R functionality into H5Rint.c.Dana Robinson2017-11-081-1/+3
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| * | | Add a missing declaration for testingRichard Warren2017-10-271-0/+1
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| * | 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 Choi2017-11-281-7/+7
| | | | | | | | Modifications to fix H5Sencode bug when num points selected is > 2^32.
* | Merge candidate for the 1_10 branchRichard Warren2017-09-201-0/+1
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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.
* Fixed wayward parentheses in H5Sprivate.h.Dana Robinson2016-11-021-2/+2
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* [svn-r27946] Brought VDS branch in sync with trunk (up to r27945).Dana Robinson2015-10-041-2/+26
|\ | | | | | | | | | | | | | | Tested on Ubuntu 15.04 (Linux 3.19 x86_64), gcc 4.9.2, MPICH 3.1.4 and CMake 3.3.2. - Autotools serial w/ Fortran, C++ - Autotools parallel w/ Fortran - CMake serial w/ Fortran, C++
| * [svn-r27939] Remove H5D__iterate and use H5S_select_iterate directlyJerome Soumagne2015-10-021-2/+26
| | | | | | | | | | Add internal library callback to H5S_select_iterate to avoid having to pass hid_t objects internally
| * [svn-r27884] Description:Quincey Koziol2015-09-261-0/+1
| | | | | | | | | | | | | | | | | | Update dataspace selection encode/decode routines to avoid type aliasing errors. Tested on: Linux/64 2.6.x (platypus) w/production (h5committest forthcoming)
| * [svn-r27851] Description:Quincey Koziol2015-09-221-0/+2
| | | | | | | | | | | | | | | | | | Normalization changes that wouldn't otherwise be necessary if the VDS branch wasn't coming in shortly. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest forthcoming)
* | [svn-r27835] Description:Quincey Koziol2015-09-211-3/+3
|\ \ | |/ | | | | | | | | | | | | Sync w/trunk. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest not required on this branch)
| * [svn-r27768] Description:Quincey Koziol2015-09-141-3/+3
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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-r26302] Description:Quincey Koziol2015-02-251-2/+2
| | | | | | | | | | | | | | | | | | 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-r27632] Description:Quincey Koziol2015-08-311-10/+8
| | | | | | | | | | | | | | | | | | | | 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/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | 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-r27424] Implement support for h5debug for VDS.Neil Fortner2015-07-221-0/+2
| | | | | | | | | | | | | | | | | | | | Implement support for H5Pencode/decode with VDS properties. Testing for H5Pencode/decode with VDS. Relax assertion check for number of elements written to buffer as we do not check for overlaps in mappings. Other minor fixes/cleanup. Tested: ummon
* | [svn-r27246] Remove "clipped" status from unlimited selections, decoupling ↵Neil Fortner2015-06-181-3/+4
| | | | | | | | | | | | | | | | | | | | | | them from the extent. Improve algorithm for calculation of VDS extent by removing the need for a temporary copy of a dataspace. Other minor fixes/cleanup. Tested: ummon
* | [svn-r27192] Improve support for printf selections (support partial blocks withNeil Fortner2015-06-121-0/+2
| | | | | | | | | | | | | | | | | | | | H5_VDS_FIRST_MISSING) Add test for this Rework VDS code to not depend on unlimited selections having a "clipped" state in preparation for removing the clipped state from unlimited selections. Other bug fixes/cleanup Tested: Kubuntu 64 (home computer)
* | [svn-r27153] Implement fill value support for VDS.Neil Fortner2015-06-051-0/+1
| | | | | | | | | | | | | | | | | | Add testing for this. Fix bug in printf string parsing. Add test for this. Other minor fixes/cleanup. Tested: ummon
* | [svn-r27104] Add support for printf-style source dataset name resolution.Neil Fortner2015-05-221-0/+2
| | | | | | | | | | | | | | | | Passes use case test, no regression tests yet. Add functions H5Pset/get_virtual_printf_gap (not tested yet). Other minor fixes/cleanup. Tested: ummon
* | [svn-r27049] Rename H5Pset/get_virtual_dataspace_bounds to ↵Neil Fortner2015-05-111-2/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | H5Pset/get_virtual_view and rename enum argument. Add support for AND and NOTA/NOTB operations with unlimited selections. Add some tests for unlimited selections. Other minor fixes/cleanup. Note: "clipped" status of unlimited selections is not properly updated with H5Sselect_copy. This is a deliberate omission since fixing it would take work and we are planning to eliminate the clipped status anyways. Tested: ummon
* | [svn-r26967] Refactor VDS unlimited dimension code to correctly handle case ↵Neil Fortner2015-04-291-1/+2
| | | | | | | | | | | | | | | | | | where selections have discrete blocks and the extent is set by the minimum (untested, and there is still no way to set that preference). Tested: ummon
* | [svn-r26962] Add support for unlimited selections to VDS code.Neil Fortner2015-04-291-0/+5
| | | | | | | | | | | | | | | | 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 Fortner2015-04-211-3/+3
| | | | | | | | | | | | Other minor fixes Tested: jam
* | [svn-r26828] Implement support for unlimited selections (not supported by ↵Neil Fortner2015-04-161-5/+7
| | | | | | | | | | | | | | | | | | VDS code yet). Add tests for unlimited selections. Various other minor changes. Tested: ummon
* | [svn-r26411] Add support for I/O in very simple cases (virtual mapping and ↵Neil Fortner2015-03-091-0/+3
| | | | | | | | | | | | | | | | | | file space are both H5S_ALL). Note make check fails in h5dump test (unrelated to this checkin). Tested: ummon
* | [svn-r26293] Implement patching of virtual dataspace extent in mapping ↵Neil Fortner2015-02-241-0/+1
| | | | | | | | | | | | | | | | dataspaces when opening virtual dataset. Add tests for this. Tested: ummon
* | [svn-r26198] INCOMPLETE, UNWORKING CODENeil Fortner2015-02-171-2/+2
|/ | | | Commit progress through 1610 CST 2/17/15
* [svn-r25766] Description:Quincey Koziol2014-11-031-4/+8
| | | | | | | | | | 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 Koziol2014-06-131-8/+4
| | | | | | | | | | | 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-r24864] Description:Quincey Koziol2014-03-211-4/+0
| | | | | | | | | | | | | | | | | | Remove all traces of MPI-POSIX VFD and GPFS detection/code. Remove remaining traces of stream VFD. Remove testpar/t_posix_compliant test (it's not actually verifying anything). Clean up H5D__mpio_opt_possible() further. Moved environment variable that disables MPI collective operations into MPI-IO VFD (instead of it being in src/H5S.c). A few other small code cleanups. Tested on: Mac OSX/64 10.9.2 (amazon) w/parallel & serial
* [svn-r24769] Description:Quincey Koziol2014-03-071-6/+7
| | | | | | | | | 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-r19153] Description:Quincey Koziol2010-07-291-1/+0
| | | | | | | | | | | | | | | | | | | | | | | | Bring changes on Coverity branch back to trunk: r19040: Fixed coverity #440 - NULL check after dereference. We moved the NULL check up into the IF block and changed it to assertion. r19041: Maintenance: Addressed Coverity issues 441 and 449 by initializing proper variables r19042: In function H5O_chunk_protect (H5Ochunk.c): - Initialize H5O_chunk_proxy_t pointers chk_proxy and ret_value. - Free chk_proxy on error. r19043: Addressed coverity issues 442 - 448 by initializing pointers to NULL. Tested on: Mac OS X/32 10.6.4 (amazon) w/debug & production (Too minor to require h5committest)
* [svn-r19099] Description:Quincey Koziol2010-07-191-1/+1
| | | | | | | | | | Fix const pointer issues for projection construction routine and also bump time before alarm kicks in to terminate a test from 20 minutes to 30 minutes, to give the PGI compiler tests w/debugging enabled a chance to finish. Tested on: Mac OS X/32 10.6.4 (amazon) w/debug Linux/32 2.6.18 (jam) w/PGI & debug
* [svn-r19092] Description:Quincey Koziol2010-07-191-11/+10
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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
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