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* [svn-r29903] merge from trunk.Mohamad Chaarawi2016-05-091-10/+16
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| * [svn-r29081] - merge in the phdf5_metadata_opt/ branch with the collective ↵Mohamad Chaarawi2016-02-101-3/+3
| |\ | | | | | | | | | | | | | | | | | | | | | 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-r29077] Description:Quincey Koziol2016-02-101-2/+1
| | | | | | | | | | | | | | | | | | | | | | | | 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-r29066] - fixing some of the internal usage of dxpls.Mohamad Chaarawi2016-02-081-3/+1
| | |\ | | | | | | | | | | | | - merge from trunk.
| | * \ [svn-r29059] merge from trunk.Mohamad Chaarawi2016-02-071-3/+9
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| | * | [svn-r28959] merge from trunk.Mohamad Chaarawi2016-01-221-1/+1
| | |\ \ | | | | | | | | | | | | | | | renaming metadata dxpl properties.
| | * \ \ [svn-r27929] merge from trunk.Mohamad Chaarawi2015-10-011-86/+10
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| | * | | | [svn-r27261] apply metadata enhancement patch that was based on the mdc 3 ↵Mohamad Chaarawi2015-06-211-1/+2
| | | | | | | | | | | | | | | | | | | | | | | | branch.
| * | | | | [svn-r29076] Description:Quincey Koziol2016-02-101-3/+1
| | |_|_|/ | |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Normalize against the phdf5_metadata_opt branch, in preparation for merging it to trunk. Tested on: MacOSX/64 10.11.3 (amazon) w/serial, parallel, and production builds h5committest forthcoming
| * | | | [svn-r29057] added dxpl type checking when debug mode is enabled ↵Mohamad Chaarawi2016-02-071-3/+9
| | |_|/ | |/| | | | | | | | | | | | | | | | | | (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 Chaarawi2016-01-211-1/+1
| | |/ | |/| | | | | | | | | | | | | | | | | | | | | | | | | 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-r27777] merge from trunk.Mohamad Chaarawi2015-09-141-51/+3
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| * | [svn-r27768] Description:Quincey Koziol2015-09-141-49/+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-r27612] Description:Quincey Koziol2015-08-291-37/+9
| |/ | | | | | | | | | | | | | | | | 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-r27090] merge from trunk.Mohamad Chaarawi2015-05-151-3/+47
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| * [svn-r27058] Description:Quincey Koziol2015-05-131-3/+47
| | | | | | | | | | | | | | | | | | | | 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-r27050] merge from trunk.Mohamad Chaarawi2015-05-111-12/+20
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| * [svn-r26842] Description:Quincey Koziol2015-04-181-10/+17
| | | | | | | | | | | | | | | | | | | | 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-r26777] - Fix usage of the internal AC global dxplsMohamad Chaarawi2015-04-101-1/+1
| | | | | | | | | | | | - allocate sieve buffer with calloc instead of malloc tested with h5committest
* | [svn-r25778] merge from trunk.Mohamad Chaarawi2014-11-041-3/+3
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| * [svn-r25766] Description:Quincey Koziol2014-11-031-3/+3
| | | | | | | | | | | | | | | | | | | | 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-r25575] cleanup H5I usage in VOL by removing the use of the aux pointer andMohamad Chaarawi2014-09-051-30/+20
| | | | | | | | | | make a higher level wrapper object around all VOL objects that includes the VOL information.
* | [svn-r25555] - rework the public H5VL wrappers to not use H5VL_t* and use a ↵Mohamad Chaarawi2014-08-261-8/+8
| | | | | | | | | | | | | | plugin hid_t instead - rework the private VL layer to use the class structure directly - some bug fixes
* | [svn-r25537] VOL framework changes.Mohamad Chaarawi2014-08-191-4/+4
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* | [svn-r25482] - update is_accessible implementation to use fapl and pass it ↵Mohamad Chaarawi2014-07-241-3/+3
| | | | | | | | | | | | | | | | | | | | down to H5Fint.c - move is_HDF5 inside deprecated macros in H5Fpublic.h - move H5ES_status_t outside of H5VLpublic.h to H5ESpublic.h - rename public properties in H5VLpublic.h to H5VL_PROP_* to add more scoping - no need to include private if pkg is included in H5VLnative.c - rename plist_id to lapl_id in loc_params structs
* | [svn-r25275] merge from trunk.Mohamad Chaarawi2014-06-131-3/+3
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| * [svn-r25273] Description:Quincey Koziol2014-06-131-3/+3
| | | | | | | | | | | | | | | | | | | | | | 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-r25254] merge from trunk.Mohamad Chaarawi2014-06-111-0/+24
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| * [svn-r24998] Description:Quincey Koziol2014-04-091-0/+24
| | | | | | | | | | | | | | | | 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-r24311] change event queue to event stack (just variable names)Mohamad Chaarawi2013-10-171-4/+4
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* | [svn-r23473] Update the VOL plugin callbacks with better async I/O support:Mohamad Chaarawi2013-03-281-4/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | | | - change hid_t req in callbacks to void **req - change all callbacks to accept dxpl_ids (except dataset write and read which already do) - update all the private and public VL routines to accept a dxpl_id and event queue id - Add an async class for the VOL plugin with cancel, test, and wait request operations - add the external VOL log plugin test to the examples directory NOTE that async operations are still not provided by the HDF5 API, so all event queue IDs and requests passed to all plugins are NULL for now. Tested on jam.
* | [svn-r22549] Mohamad Chaarawi2012-07-101-2/+0
| | | | | | | | | | | | | | | | | | | | move ref count management on the VOL struct inside the VLint code - H5Freopen still needs to be handled create the public interface for VOL callbacks: - unresolved issue with var_args update and create new API fapl calls to support stacking drivers: - need to add fapl copy callback fix a memory leak with registration of external plugins
* | [svn-r22523] - rework how IDs for VOL objects are createdMohamad Chaarawi2012-07-061-14/+4
| | | | | | | | | | - change how the vlose routine is registered with VOL IDs - some bug fixes
* | [svn-r22511] - remove the internal file type and use the file ID created at ↵Mohamad Chaarawi2012-07-031-2/+2
| | | | | | | | | | | | | | the API level for the native implementation - work on fixing the named datatype issue.. still not resolved - branch still not stable and tests do not pass at this point
* | [svn-r22501] change the interface callbacks for the VOL to use objects ↵Mohamad Chaarawi2012-06-281-6/+61
| | | | | | | | | | | | pointers and public VL structure instead of IDs. tests will fail now because of named datatypes.
* | [svn-r22417] rename the properties used for the VOL callbacks.Mohamad Chaarawi2012-05-291-3/+3
| | | | | | | | move them to the VOL public header.
* | [svn-r22306] add a request id to each of the VOL callbacks and update the nativeMohamad Chaarawi2012-04-201-2/+2
| | | | | | | | plugin to pass a NULL request
* | [svn-r22297] merge from trunkMohamad Chaarawi2012-04-181-17/+17
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| * [svn-r22287] Description:Quincey Koziol2012-04-161-17/+17
| | | | | | | | | | | | | | | | 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-r22258] links and attributes VOL routinesMohamad Chaarawi2012-04-081-1/+4
| | | | | | | | | | change native location token to be of type H5O_loc_t several bug fixes and issues resolved
* | [svn-r22250] - fix most of issues from code reviewMohamad Chaarawi2012-04-041-2/+12
| | | | | | | | | | | | | | - object open routines fall back to the generic VL object open in case the specific call back is not impemented - H5L VOL create/copy/move routines - make VOL create routines have similar interface and stuff parameters in creation plist - some bug fixes
* | [svn-r22119] Changes:Mohamad Chaarawi2012-03-221-64/+6
|/ | | | | | | | | | | - add VOL implementation for H5O, H5D, and H5T functions - update the VOL interface with H5VLget routines - make upper level IDs of Type H5I_XXX_PUBLIC - bug fixes Comments: - some routines still don't go through VOL but have a workaround so they don't have to at the moment.
* [svn-r21923] Description:Quincey Koziol2012-02-101-1/+1
| | | | | | | | | 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
* [svn-r21919] Description:Quincey Koziol2012-02-091-5/+5
| | | | | | | | 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-r20135] Description:Quincey Koziol2011-02-221-1/+2
| | | | | | | | | | | | | | | | | | | | Bring r20134 from metadata journaling merging branch to trunk: Bring changes from metadata journaling branch to "merging" branch: Unify routine to mark a dataset's metadata as changed. 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, w/threadsafe, in production mode Linux/PPC 2.6 (heiwa) w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in debug mode
* [svn-r18650] Description:Quincey Koziol2010-04-271-1/+0
| | | | | | | | | | | | | | | | | | | Bring back various minor tweaks & cleanups from the revise_chunks 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 (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
* [svn-r18618] Description:Quincey Koziol2010-04-221-3/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | Add new internal object header routines to query the header chunk that a message is in, and to lock/unlock a message into a chunk (so it doesn't get moved into another chunk during allocation/free events). Also, move dataspace message to beginning of object header messages added to a dataset's object header, so it can be locked into chunk #0 (when performing SWMR operations). 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 10.6.3 (amazon) in debug mode Mac OS X/32 10.6.3 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r18445] Purpose: Fix bug 1637Neil Fortner2010-03-241-2/+9
| | | | | | | | | | Description: Modified algorithm for extending a dataset with early allocation so it only deals with the new chunks. Formerly, it would loop over all chunks, checking to see if each existed in cache and on disk, causing major performance issues with large numbers of chunks. Tested: jam, linew, amani (h5committest)
* [svn-r18357] Description:Quincey Koziol2010-03-021-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | Bring r18356 from metadata journaling merge branch to trunk: Converge metadata journaling branch with trunk with a bunch of v1 B-tree changes: - Remove H5ACprivate.h header from H5Bprivate.h header - Revise v1 B-tree client callbacks - Get rid of H5B_serialize() by bringing it into H5B_flush() 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
* [svn-r17148] Description:Quincey Koziol2009-07-021-1/+4
| | | | | | | | | | | | | | | | | | | | | | Refactor how chunked dataset information is computed, moving it earlier and avoiding more recomputation. 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/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 10.5.7 (amazon) in debug mode Mac OS X/32 10.5.7 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
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