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* [svn-r8134] Purpose:Quincey Koziol2004-01-311-0/+26
| | | | | | | | | | | | | | | | Code cleanup Description: Add destructor to match constructor fr VFLs when they are shut down by the library. Solution: Added H5FD_*_term() routines to "undo" changes made in H5FD_*_init() routines. Platforms tested: IBM p690 (copper) too minor to require h5committest
* [svn-r8126] Purpose:Quincey Koziol2004-01-311-131/+118
| | | | | | | | | | | | | | | | | Bug fix/optimization Description: Address slowdown in MPI-I/O file metadata operations that was introduced mid-stream. We now _require_ a POSIX compliant parallel file system for the MPI-I/O file driver (as well as for the MPI-POSIX file driver). Also optimized file open operation when the file is being created by reducing the number of collective & syncronizing calls. Additionally, refactor the MPI routines into a common place, eliminating duplicated code. Platforms tested: FreeBSD 4.9 (sleipnir) w/parallel h5committest
* [svn-r7993] Purpose:Quincey Koziol2003-12-291-1/+1
| | | | | | | | | | | | Code cleanup, bug fixes Description: Wrap up rest of changes necessary for fixing the "short" MPI-I/O read problem that Robb reported. Platforms tested: FreeBSD 4.9 (sleipnir) too minor to require h5committest
* [svn-r7860] Purpose:Quincey Koziol2003-11-201-0/+11
| | | | | | | | | | | | | | | | | Bug fix Description: Our previous "optimization" of metadata writing which only wrote metadata from one process was abusing MPI-I/O and after some consultation with Rob Ross and Rajeev Thakur, Albert & I have come up with a solution... Solution: Instead of only writing from one process, issue a collective write operation with all processes, for metadata writes. Platforms tested: FreeBSD 4.9 (sleipnir) h5committest
* [svn-r7765] Purpose:Quincey Koziol2003-10-281-1/+6
| | | | | | | | | | | | | Code cleanup Description: More collective/independent cleanups to straighten out code contortions. Platforms tested: FreeBSD 4.9 (sleipnir) FreeBSD 4.9 (sleipnir) w/parallel Linux 2.4 (verbena) w/fortran & C++ Solaris 2.7 (arabica) w/64-bit extensions enabled
* [svn-r7393] Purpose:Quincey Koziol2003-08-231-102/+106
| | | | | | | | | | | Code cleanup Description: De-linted more code Platforms tested: FreeBSD 4.8 (sleipnir) w/parallel too minor to require h5committest
* [svn-r7181] Purpose:Quincey Koziol2003-07-071-119/+0
| | | | | | | | | | | Version update Description: Removed 1.4 compatibility code in the library. Platforms tested: FreeBSD 4.8 (sleipnir) h5committest
* [svn-r7122] Purpose:Quincey Koziol2003-06-301-8/+3
| | | | | | | | | | | | | Code cleanup/Feature removal Description: Remove "round robin" writing of metadata in MPI VFDs (and a couple of other places). This never really worked the way I hoped it would and it causes problems on certain machines. Platforms tested: FreeBSD 4.8 (sleipnir) w/parallel Too small for triple check.
* [svn-r7019] Purpose:Quincey Koziol2003-06-101-0/+119
| | | | | | | | | | | | | | Compatibility fix Description: The H5P[set|get]_fapl_mpiposix calls changed between v1.4.x and v1.5.x. Solution: Wrap them in the v1.4 backward compatibility #ifdefs and update tests, etc. Platforms tested: FreeBSD 4.8 (sleipnir) w/paralle & v1.4 compatibility h5committest pointless
* [svn-r6810] Purpose:Bill Wendling2003-05-061-2/+2
| | | | | | | | | | | | | | Update Description: Some of the TRACE macros were updated to reflect a new parameter. Platforms tested: Linux Solaris w/ zlib Irix w/ zlib Misc. update:
* [svn-r6807] Purpose:Bill Wendling2003-05-061-7/+6
| | | | | | | | | | | | | | | Change Description: Instead of using the "USE_GPFS" macro, use the "H5_HAVE_GPFS" macro which is defined during configuration and then use the new parameter to the H5P{get,set}_fapl_mpiposix functions to control if GPFS is enabled or not. Platforms tested: Modi4 (only affects the parallel stuff, so no need for full testing). Misc. update:
* [svn-r6803] Purpose:Quincey Koziol2003-05-061-7/+4
| | | | | | | | | | | Code cleanup. Description: Cleaned up a few debugging printfs. Platforms tested: FreeBSD 4.8 (sleipnir) Triple check not needed.
* [svn-r6795] Purpose:Bill Wendling2003-05-051-25/+52
| | | | | | | | | | | | | | | | Feature Add Description: Added knob so that the programmer can enable or disable GPFS hints during runtime instead of having it only enabled at configure/compile time. Some of the public APIs were changed to add an extra parameter for this option... Platforms tested: Blue (LLNL). It only affects the MPI/POSIX driver, so no need to test it on non-GPFS platforms. Misc. update:
* [svn-r6767] Albert Cheng2003-04-281-16/+0
| | | | | | | | | | | | | | | Purpose: Code cleanup Description: Removed debug statement bracketed by H5FDmpiposix_DEBUG or alike. They were added in by mistakes. Platforms tested: Did not h5committested but tested in Copper since there changes are limited in parallel codes. Misc. update:
* [svn-r6754] Purpose:Albert Cheng2003-04-251-29/+160
| | | | | | | | | | | | | | | | | Feature Description: Added the feature to store and return a duplicate of Communicator in the access of property list and file operations. (no duplicate for INFO object because MPIPOSIX driver does not process INFO object. Platforms tested: Did not h5committested because these are all MPI code and well protected by HAVE_PARALLEL. Tested in eirene and modi4, both parallel mode. Misc. update:
* [svn-r6501] Purpose:Bill Wendling2003-03-191-1/+3
| | | | | | | | | | | | | | New Feature Description: Added support for the lock and unlock function calls for file drivers. Only FPHDF5 uses this feature. All of these drivers don't define lock or unlock methods. Platforms tested: Linux, Modi4, Sol Misc. update:
* [svn-r6468] Purpose:Quincey Koziol2003-03-061-1/+1
| | | | | | | | | | | | | | Potential bug fix. Description: The code to rotate the metadata writing process may not be compiled correctly in all cases. Solution: Change from using "++mpi_round" to "mpi_round+1" Platforms tested: Eyeballed...
* [svn-r6398] Purpose:Quincey Koziol2003-02-121-1/+1
| | | | | | | | | | Code cleanup Description: Clean up some compiler warnings Platforms tested: FreeBSD 4.7 (sleipnir)
* [svn-r6387] Purpose:Quincey Koziol2003-02-101-2/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | Bug Fix Description: Metadata cache in parallel I/O can cause hangs in applications which perform independent I/O on chunked datasets, because the metadata cache can attempt to flush out dirty metadata from only a single process, instead of collectively from all processes. Solution: Pass a dataset transfer property list down from every API function which could possibly trigger metadata I/O. Then, split the metadata cache into two sets of entries to allow dirty metadata to be set aside when a hash table collision occurs during independent I/O. Platforms tested: Tested h5committest {arabica (fortran), eirene (fortran, C++) modi4 (parallel, fortran)} FreeBSD 4.7 (sleipnir) serial & parallel Misc. update: Updated release_docs/RELEASE
* [svn-r6266] Purpose:Quincey Koziol2003-01-101-18/+18
| | | | | | | | | | | | Code cleanup/new feature. Description: Split FUNC_LEAVE into API and non-API specific versions. This allows a solution to compiling this branch with C++, as well as reducing the size of the binaries produced. Platforms tested: FreeBSD 4.7 (sleipnir) w/serial, parallel (including MPE) & thread-safe
* [svn-r6252] Purpose:Quincey Koziol2003-01-091-3/+3
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Lots of performance improvements & a couple new internal API interfaces. Description: Performance Improvements: - Cached file offset & length sizes in shared file struct, to avoid constantly looking them up in the FCPL. - Generic property improvements: - Added "revision" number to generic property classes to speed up comparisons. - Changed method of storing properties from using a hash-table to the TBBT routines in the library. - Share the propery names between classes and the lists derived from them. - Removed redundant 'def_value' buffer from each property. - Switching code to use a "copy on write" strategy for properties in each list, where the properties in each list are shared with the properties in the class, until a property's value is changed in a list. - Fixed error in layout code which was allocating too many buffers. - Redefined public macros of the form (H5open()/H5check, <variable>) internally to only be (<variable>), avoiding innumerable useless calls to H5open() and H5check_version(). - Reuse already zeroed buffers in H5F_contig_fill instead of constantly re-zeroing them. - Don't write fill values if writing entire dataset. - Use gettimeofday() system call instead of time() system when checking the modification time of a dataset. - Added reference counted string API and use it for tracking the names of objects opening in a file (for the ID->name code). - Removed redundant H5P_get() calls in B-tree routines. - Redefine H5T datatype macros internally to the library, to avoid calling H5check redundantly. - Keep dataspace information for dataset locally instead of reading from disk each time. Added new module to track open objects in a file, to allow this (which will be useful eventually for some FPH5 metadata caching issues). - Remove H5AC_find macro which was inlining metadata cache lookups, and call function instead. - Remove redundant memset() calls from H5G_namei() routine. - Remove redundant checking of object type when locating objects in metadata cache and rely on the address only. - Create default dataset object to use when default dataset creation property list is used to create datasets, bypassing querying for all the property list values. - Use default I/O vector size when performing raw data with the default dataset transfer property list, instead of querying for I/O vector size. - Remove H5P_DEFAULT internally to the library, replacing it with more specific default property list based on the type of property list needed. - Remove redundant memset() calls in object header message (H5O*) routines. - Remove redunant memset() calls in data I/O routines. - Split free-list allocation routines into malloc() and calloc()- like routines, instead of one combined routine. - Remove lots of indirection in H5O*() routines. - Simplify metadata cache entry comparison routine (used when flushing entire cache out). - Only enable metadata cache statistics when H5AC_DEBUG is turned on, instead of always tracking them. - Simplify address comparison macro (H5F_addr_eq). - Remove redundant metadata cache entry protections during dataset creation by protecting the object header once and making all the modifications necessary for the dataset creation before unprotecting it. - Reduce # of "number of element in extent" computations performed by computing and storing the value during dataspace creation. - Simplify checking for group location's file information, when file has not been involving in file-mounting operations. - Use binary encoding for modification time, instead of ASCII. - Hoist H5HL_peek calls (to get information in a local heap) out of loops in many group routine. - Use static variable for iterators of selections, instead of dynamically allocation them each time. - Lookup & insert new entries in one step, avoiding traversing group's B-tree twice. - Fixed memory leak in H5Gget_objname_idx() routine (tangential to performance improvements, but fixed along the way). - Use free-list for reference counted strings. - Don't bother copying object names into cached group entries, since they are re-created when an object is opened. The benchmark I used to measure these results created several thousand small (2K) datasets in a file and wrote out the data for them. This is Elena's "regular.c" benchmark. These changes resulted in approximately ~4.3x speedup of the development branch when compared to the previous code in the development branch and ~1.4x speedup compared to the release branch. Additionally, these changes reduce the total memory used (code and data) by the development branch by ~800KB, bringing the development branch back into the same ballpark as the release branch. I'll send out a more detailed description of the benchmark results as a followup note. New internal API routines: Added "reference counted strings" API for tracking strings that get used by multiple owners without duplicating the strings. Added "ternary search tree" API for text->object mappings. Platforms tested: Tested h5committest {arabica (fortran), eirene (fortran, C++) modi4 (parallel, fortran)} Other platforms/configurations tested? FreeBSD 4.7 (sleipnir) serial & parallel Solaris 2.6 (baldric) serial
* [svn-r6172] Purpose:Quincey Koziol2002-12-041-1/+3
| | | | | | | Bug fix Description: Correct another missing field I overlooked earlier.
* [svn-r6170] Purpose:Quincey Koziol2002-12-041-0/+1
| | | | | | | | | | Bug fix Description: Add missing 'naccess' field required for GPFS token management code. Platforms tested: FreeBSD 4.7 (sleipnir)
* [svn-r6148] ./hdf5-devel/src/H5FDmpiposix.cRobb Matzke2002-12-041-10/+58
| | | | | | | | | | | | | | | | | | | | | | | | | Purpose: Feature; Optimization Description: Clients pass `-1' or make their own #define for HDF5 functions that take an optional object ID. Blue's GPFS is slow for typical SAF restart dumps. Solution: Added a #define for H5I_INVALID_HID Added GPFS-specific code to H5FDmpiposix.c that tells mmfsd to forego byte range token prefetching. This code can be compiled into the library by defining USE_GPFS_HINTS. The plan is to either generalize this so it's detected during configure and turned on/off at runtime, or to move it up into DSL/SAF with the new HDF5 functions to that return the low-level file handle. Platforms tested: SuSE Linux (arborea), gcc and mpich-1.2.4 SunOS (baldric), gcc
* [svn-r5951] Raymond Lu2002-09-301-0/+34
| | | | | | | | | | | Purpose: New API functions Description: Added API functions to return pointer to low-level file handle (H5Fget_vfd_handle and H5FDget_vfd_handle) and related property list setting functions(H5Pset_family_offset and H5Pset_multi_type). Platforms tested: Linux 2.2(eirene), Solaris 2.7(arabica), IRIX64 6.5(modi4)
* [svn-r5871] Purpose:Quincey Koziol2002-08-121-3/+3
| | | | | | | | | | | | | | | | Code cleanup Description: Combined H5P_isa_class and H5I_object functionality into a new internal H5P API function: H5P_object_verify, which checks that a property list is the appropriate class and then returns the property list object associated with the property list ID. This reduces the source code by about 200 LOC and trims the library binary some more. Platforms tested: FreeBSD 4.6 (sleipnir)
* [svn-r5867] Purpose:Quincey Koziol2002-08-091-7/+41
| | | | | | | | | | | | | Code cleanup Description: Changed the last HRETURN* statements in the FUNC_ENTER macros into HGOTO* macros, which reduces the size of the library binary in certain configurations by another 10% Platforms tested: FreeBSD 4.6 (sleipnir) serial & parallel, IRIX64 6.5 (modi4) serial & parallel
* [svn-r5861] ./hdf5-devel/src/H5FDmpiposix.cRobb Matzke2002-08-091-0/+35
| | | | | | | | | | | | | | | | | Purpose: Merged from 1.4 branch Description: API tracing improvements Platforms tested: Linux (--disable-hsizet didn't work before my changes and still doesn't work, but --enable-hsizet is fine). Note: This checkin includes temporary code in H5FDmpiposix.c to turn off GPFS byte range token prefetches on ASCI/Blue. Once the HDF5 API supports the necessary prerequisite functionality this temporary code can be migraged up above HDF5.
* [svn-r5842] Purpose:Quincey Koziol2002-08-081-20/+40
| | | | | | | | | | | | | | | | Code cleanup Description: Change most (all?) HRETURN_ERROR macros to HGOTO_ERROR macros, along with HRETURN macros to HGOTO_DONE macros. This unifies the error return path from functions and reduces the size of the library by up to 10% on some platforms. Additionally, I improved a lot of the error cleanup code in many routines. Platforms tested: FreeBSD 4.6 (sleipnir) serial & parallel and IRIX64 6.5 (modi4) serial & parallel.
* [svn-r5814] Purpose:Quincey Koziol2002-07-191-19/+37
| | | | | | | | | | | | | | | | | | Bug Fix Description: It was possible to create corrupted metadata information (either in memory or in the file or both) with a parallel I/O program because of the way metadata writes were being handled for writes out of the metadata cache. Solution: Added a dataset transfer property called "block before metadata write" which is used by the MPI-I/O and MPI-posix drivers to sync up all the processes before attempting a metadata write. This property is currently only for metadata writes from the metadata cache. Platforms tested: IRIX64 6.5 (modi4) w/parallel
* [svn-r5799] Purpose:Quincey Koziol2002-07-151-0/+1135
New feature. Description: Added MPI-posix VFL driver. This driver uses MPI to coordinate actions, but performs I/O directly with posix sec(2) I/O functions. This driver should _NOT_ be used if the file accessed is not on a parallel filesystem. Platforms tested: FreeBSD 4.6 (sleipnir) w/parallel & IRIX64 6.5 (modi4) w/parallel
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