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* [svn-r28950] - remove META_FLUSH_COLLECTIVELY property for delayed sanity ↵Mohamad Chaarawi2016-01-211-4/+4
| | | | | | | | | | 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-r28723] Description:Quincey Koziol2015-12-221-0/+5
| | | | | | | | | Bring over rest of performance improvements for extending chunked datasets and normalize against revise_chunks branch. Tested on: MacOSX/64 10.11.2 (amazon) w/serial & parallel) (h5committest forthcoming)
* [svn-r28646] Minor normalization with revise_chunks.Dana Robinson2015-12-141-7/+5
| | | | | | | | | 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-r28606] Description:Quincey Koziol2015-12-131-43/+36
| | | | | | | | | | 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)
* [svn-r28452] Description:Quincey Koziol2015-11-231-2/+2
| | | | | | | | Normalization changes against revise_chunks branch. Tested on: MacOSX/64 10.11.1 (amazon) w/serial & parallel (h5committest forthcoming)
* [svn-r27946] Brought VDS branch in sync with trunk (up to r27945).Dana Robinson2015-10-041-37/+11
|\ | | | | | | | | | | | | | | 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 Soumagne2015-10-021-37/+11
| | | | | | | | | | Add internal library callback to H5S_select_iterate to avoid having to pass hid_t objects internally
* | [svn-r27835] Description:Quincey Koziol2015-09-211-82/+206
|\ \ | |/ | | | | | | | | | | | | Sync w/trunk. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest not required on this branch)
| * [svn-r27811] Description:Quincey Koziol2015-09-161-42/+128
| | | | | | | | | | | | | | | | | | | | | | 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 Koziol2015-09-141-40/+73
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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-r27630] Description:Quincey Koziol2015-08-311-47/+56
|\ \ | |/ | | | | | | | | | | | | Bring in changes from the trunk, through r27628. Tested on: MacOSX/64 10.10.5 (amazon) w/serial (h5committest not required on this branch)
| * [svn-r27618] Description:Quincey Koziol2015-08-291-2/+4
| | | | | | | | | | | | | | | | | | | | Align w/vds branch: Remove extraneous sieve buffer flush in chunk flush callback, and move error check out of the middle of retrieving properties for dataset. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest forthcoming)
| * [svn-r27615] Description:Quincey Koziol2015-08-291-40/+47
| | | | | | | | | | | | | | | | | | Protect dataset that's closing from being flushed again, if it's the last one holding a file open. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest forthcoming)
| * [svn-r27612] Description:Quincey Koziol2015-08-291-3/+67
| | | | | | | | | | | | | | | | | | Align w/vds branch: Whitespace cleanup, move common code for opening a dataset into a new routine, misc. style cleanups. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest upcoming)
* | [svn-r27538] Add tests to cover remaining code coverage assertions in src ↵Neil Fortner2015-08-201-1/+0
| | | | | | | | | | | | | | | | directory except for those in H5Doh.c and H5Shyper.c. Tested: ummon
* | [svn-r27505] Add support for H5Dset_extent for VDS.Neil Fortner2015-08-141-4/+26
| | | | | | | | | | | | | | Add tests for this. Other bug fixes/cleanup Tested: Kubuntu 64 (home computer)
* | [svn-r27504] Change comments/code around to reflect decision to have virtual ↵Neil Fortner2015-08-131-3/+9
| | | | | | | | | | | | | | | | datasets always return TRUE when their is_alloc function is called. Tested: ummon
* | [svn-r27323] Implement support for H5Dflush for VDS.Neil Fortner2015-07-021-7/+7
| | | | | | | | | | | | | | | | | | | | Implement support for H5Ocopy on VDS. Testing for H5Ocopy on VDS. Fix check-vfd failure. Other minor fixes/cleanup. Note there is a preexisting failure in h5repack testing. Tested: ummon
* | [svn-r27191] Merged r26781 to r27185 from trunkDana Robinson2015-06-111-3/+3
|\ \ | |/ | | | | | | 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 Chaarawi2015-06-011-3/+3
| | | | | | | | | | | | | | | | * 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-r27145] Add some testing for printf-style source dataset name resolution.Neil Fortner2015-06-031-1/+0
| | | | | | | | | | | | | | Various bug fixes, including a temporary fix for printf with FIRST_MISSING view. Other cleanup. Tested: ummon
* | [svn-r27104] Add support for printf-style source dataset name resolution.Neil Fortner2015-05-221-6/+19
| | | | | | | | | | | | | | | | 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-r27103] Merge revisions 26780 through 27102 from trunk to vds branch.Neil Fortner2015-05-211-19/+99
|\ \ | |/ | | | | Tested: ummon
| * [svn-r27058] Description:Quincey Koziol2015-05-131-2/+40
| | | | | | | | | | | | | | | | | | | | Convert internal chunk structures to use 'scaled' coordinates instead of absolute coordinates. Tested on: Mac OSX/64 10.10.3 (amazon) w/parallel & serial Linux 2.6.x/32 (jam) w/parallel & serial Linux 2.6.x/64 (koala) w/serial
| * [svn-r26993] Description:Quincey Koziol2015-05-021-2/+1
| | | | | | | | | | | | | | | | | | Align w/incoming chunk performance changes, including some small performance improvements here, as well as a few minor general code cleanups. Tested on: Mac OSX/64 10.10.3 (amazon) w/serial & parallel (Too minor to require h5committest)
| * [svn-r26842] Description:Quincey Koziol2015-04-181-16/+59
| | | | | | | | | | | | | | | | | | | | Cache the dataset's rank & dimension sizes, instead of querying them frequently, to speed up various checks & algorithms. Also, a few minor cleanups. Tested on: MacOSX/64 10.10.2 (amazon) w/serial & parallel Linux/32 2.6.18 (jam) w/serial & parallel
* | [svn-r27022] Add new functions H5Pset_virtual_dataspace_bounds andNeil Fortner2015-05-051-1/+1
| | | | | | | | | | | | | | | | | | H5Pget_virtual_dataspace_bounds. Minor refactor of dataset initialization code to make this cleaner. Update h5_vds-percival-unlim-maxmin.c Other minor fixes/cleanup. Tested: ummon
* | [svn-r26962] Add support for unlimited selections to VDS code.Neil Fortner2015-04-291-0/+7
| | | | | | | | | | | | | | | | Not tested (except for percival-unlim example) Fix percival-unlim example Other bug fixes/cleanup Tested: Fedora 64
* | [svn-r26862] Fix bug in H5D__get_storage_size where it would issue an error ↵Neil Fortner2015-04-211-0/+1
| | | | | | | | | | | | | | | | unnecessarily for virtual datasets. Tested: ummon
* | [svn-r26411] Add support for I/O in very simple cases (virtual mapping and ↵Neil Fortner2015-03-091-2/+78
| | | | | | | | | | | | | | | | | | file space are both H5S_ALL). Note make check fails in h5dump test (unrelated to this checkin). Tested: ummon
* | [svn-r26296] Merge r26050 through 26295 from trunk to vds branch.Neil Fortner2015-02-241-12/+16
|\ \ | |/ | | | | Tested: ummon
| * [svn-r26213] Description:Quincey Koziol2015-02-181-12/+16
| | | | | | | | | | | | | | | | Minor code cleanups, to align with revise_chunks branch. Tested on: Mac OSX/64 10.10.2 (amazon) w/serial & parallel Linux/32 2.6.x (jam) w/serial
* | [svn-r26261] Commit working but incomplete prototype. Does not perform I/O.Neil Fortner2015-02-201-1/+2
| | | | | | | | Tested: ummon
* | [svn-r26198] INCOMPLETE, UNWORKING CODENeil Fortner2015-02-171-1/+22
|/ | | | Commit progress through 1610 CST 2/17/15
* [svn-r25766] Description:Quincey Koziol2014-11-031-4/+4
| | | | | | | | | | 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-r25496] Description:Quincey Koziol2014-07-301-8/+14
| | | | | | | | | Merge 64-bit ID changes from branch to trunk. (Plus a few minor cleanups that aren't on the branch) Tested on: Mac OSX/64 10.9.4 (amazon) w/C++ & FORTRAN (h5committested on branch already for a week)
* [svn-r25468] some code refactoring to align trunk with VOL branch.Mohamad Chaarawi2014-07-221-0/+269
| | | | tested with h5committest.
* [svn-r25273] Description:Quincey Koziol2014-06-131-4/+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-r25084] Description:Quincey Koziol2014-04-231-1/+1
| | | | | | | | | 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-r24998] Description:Quincey Koziol2014-04-091-0/+6
| | | | | | | | Check in Neil's changes for correctly handling case where library is reinitialized through a deprecated routine. Tested on: Linux 2.4.x/32 (jam)
* [svn-r24769] Description:Quincey Koziol2014-03-071-4/+4
| | | | | | | | | 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-r24255] Description:Quincey Koziol2013-10-041-1/+0
| | | | | | | | Switch H5I internal data structure from using hash table to skip lists. Tested on: Mac OSX 10.8.4 (amazon) w/C++ & FORTRAN FreeBSD, Linux, etc. forthcoming
* [svn-r23985] Merge commit 23937 from reduce_warning branchJerome Soumagne2013-08-091-1/+1
| | | | | | Remove unused param (src) and unused var (hl) warnings Tested on koala
* [svn-r23713] Description:Quincey Koziol2013-05-211-6/+6
| | | | | | | | | | 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-r22582] Description:Quincey Koziol2012-07-161-1/+10
| | | | | | | | | Refactor ID class registration to be more like how other "class"s in the library are registered, and clean up compiler warnings. Tested on: Mac OSX/64 10.7.4 (amazon) w/debug (Too minor to require h5comittest)
* [svn-r22287] Description:Quincey Koziol2012-04-161-156/+155
| | | | | | | | Clean up more FUNC_ENTER/FUNC_LEAVE macros and move H5D & H5T code toward the final design (as exemplified by the H5EA & H5FA code). Tested on: Mac OSX/64 10.7.3 (amazon) w/debug & parallel
* [svn-r22219] Description:Quincey Koziol2012-03-311-1/+2
| | | | | | | | Merge "file image" changes from feature branch back to trunk. Tested on: Mac OSX/64 10.7.3 (amazon) w/debug (h5committest upcoming)
* [svn-r22164] Fixed a bug in H5Ocopy(): When copying an opened object, call ↵Vailin Choi2012-03-281-1/+0
| | | | | | | the object's flush class action to ensure that cached data is flushed so that H5Ocopy will get the correct data. (HDFFV-7853)
* [svn-r22058] Description:Quincey Koziol2012-03-131-6/+11
| | | | | | | Better fix for zero-sized dataset error (r22053). Tested on: Mac OSX/64 10.7.3 (amazon) w/debug & parallel
* [svn-r21923] Description:Quincey Koziol2012-02-101-4/+4
| | | | | | | | | Add FUNC_ENTER macros for package-private routines and begin process of switching package routines to use them. All H5G routines are currently finished. Tested on: Mac OSX/64 10.7.3 (amazon) w/debug, production & parallel
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