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* [svn-r18837] Description:Quincey Koziol2010-05-181-1/+0
| | | | | | | | | | | | | | | | | | | | | | Remove the size parameter from H5[A]C_unprotect() and the H5[A]C__SIZE_CHANGED_FLAG, switching all clients & tests over to using H5[A]C_resize_entry appropriately. 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 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-r18740] Description:Quincey Koziol2010-05-071-1/+1
| | | | | | | | | | | | | | | | | | | | | | | Bring r18738 from metadata journaling 'merging' branch to trunk: Switch H5AC_resize_pinned_entry() to work on protected entries as well, and rename to H5AC_resize_entry() 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 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-r18725] Description:Quincey Koziol2010-05-061-2/+2
| | | | | | | | | | | | | | | | | | | | | | Bring r18724 from metadata journaling 'merging' branch to trunk: Rename H5[A]C_rename to H5[A]C_move_entry. 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 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-r18721] Description:Quincey Koziol2010-05-061-3/+1
| | | | | | | | | | | | | | | | | | | | | | | | | Bring r18720 from metadata journaling merging branch to trunk: Bring changes from metadata journaling branch to 'merging' branch: Rename H5[A]C_mark_pinned_or_protected_entry_dirty() to H5[A]C_mark_entry_dirty() and get rid of H5[A]C_mark_pinned_entry_dirty(). 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 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-r18702] Description:Quincey Koziol2010-05-051-1/+1
| | | | | | | | | | | | | | | | | | | | | | | Bring r18672 from metadata journaling "merging" branch to trunk: Mostly changes to move to only using one 'user data' parameter for calls to H5AC_protect(), along with some minor reformatting code cleanups. 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 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-r18571] Description:Quincey Koziol2010-04-151-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r18542 from metadata journaling "merging" branch to trunk: Bring new object header pin/unpin & protect/unprotect routines and split-out object header chunk proxy changes from metadata_journaling branch to "merging" branch, along with some other minor tweaks to clean up compiler warnings, etc. Also: clean up chunk protect/unprotect calls when allocating or freeing space in a chunk, optimize metadata accumulator code to avoid some re-reading of information from the file, refactor H5O_pin/H5O_unpin from way they are done on the merging branch back to way they were previously done on trunk, other minor code cleanups, etc. Tested on FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, 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-r18460] Description:Quincey Koziol2010-03-261-11/+7
| | | | | | | | | | | | | | | | | | | Fold metadata journaling changes into the trunk: mostly tweaky small stuff, also removed the H5F_t* field from the H5G_entry_t struct. 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-r18171] Description:Quincey Koziol2010-01-271-19/+11
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r18169 from 'merge_metadata_journaling' branch back to trunk: Converge changes on metadata_journaling branch and trunk: - Remove H5F_t* parameter from H5HL_unprotect() - Remove H5F_t* parameter from H5HL_dirty() - Remove H5F_t* parameter from H5O_unprotect() - Bring changes to metadata caching routines back: - H5AC_pin_protected_entry() - H5AC_resize_pinned_entry() - H5AC_unpin_entry() - H5AC_mark_pinned_entry_dirty() - H5AC_mark_pinned_or_protected_entry_dirty() - Revise internal H5C routines to drop H5F_t* and/or H5C_t* as parameter where possible - Revise tests to follow internal routine changes Also, drop file/cache pointer parameter from create/destroy flush dependency internal cache calls. Also, other minor changes to speedup the 'cache' test. 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 10.6.2 (amazon) in debug mode Mac OS X/32 10.6.2 (amazon) w/C++ & FORTRAN, w/threadsafe,
* [svn-r18072] Description:Quincey Koziol2010-01-071-1/+2
| | | | | | | | | | | | | | | | | | | | | | | | | Bring r18071 from metadata journaling merge branch: Refactor local heap routines with changes from metadata journaling branch, along with other misc. changes as the changes on the metadata journaling branch are being converged with the current state of 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 (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 10.6.2 (amazon) in debug mode Mac OS X/32 10.6.2 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r17411] Description:Quincey Koziol2009-08-241-1/+1
| | | | | | | | | | | | | | | | | | | | | | | Make H5AC_flush just flush the cache and make H5AC_dest perform the proper parallel synchronization before destroying the cache. Also, further discriminate between 'closing' and 'non-closing' actions in H5F_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 (kagiso) 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 production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode Mac OS X/32 10.5.8 (amazon) in debug mode Mac OS X/32 10.5.8 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r17365] Description:Quincey Koziol2009-08-151-0/+1
| | | | | | | | | | | | | | | | | | | | Final merge of changes from sblock_mdc branch back to trunk. The superblock is now managed by the metadata cache. 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 (kagiso) 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 production mode Mac OS X/32 10.5.8 (amazon) in debug mode Mac OS X/32 10.5.8 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r17155] Description:Quincey Koziol2009-07-031-0/+3
| | | | | | | | | | | | | | | | | | | | | | | Bring r17154 from 'revise_chunks' branch to trunk: Add fixed array data structure. (For initial use as a chunk index) 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
* [svn-r16938] Purpose:Mike McGreevy2009-05-121-1/+37
| | | | | | | | | | | | | | | | | | Modifying default cache configuration, and adding an #ifdef to allow for a separate default configuration when parallel is enabled. This is being modified in order to address an observed performance problem with the current default configuration. Description of Changes: - increasing maximum cache size from 16MB to 32MB - increasing maximum entry size from 10MB to 32MB - decreasing min_clean_fraction from 0.3 to 0.01 in serial case - increasing flash_multiple from 1.0 to 1.4 in serial case Tested: jam
* [svn-r16632] Description:Quincey Koziol2009-03-311-1/+1
| | | | | | | | | | | | | | | | | | | | | | Remove unnecessary 'udata' parameter from H5AC_set() and 'notify' callback (introduced with checkin that added the 'notify' callback) 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 production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode Mac OS X/32 10.5.6 (amazon) in debug mode Mac OS X/32 10.5.6 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r16630] Description:Quincey Koziol2009-03-311-1/+10
| | | | | | | | | | | | | | | | | | | | | | | | | Add 'notify' callback to metadata cache clients, so that they can be aware when the cache has taken/will take certain actions. Notifications are urrently limited to when an entry has successfully entered the cache (via an insertion or a load from the file) and when an entry is about to be evicted from the cache. 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 production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode Mac OS X/32 10.5.6 (amazon) in debug mode Mac OS X/32 10.5.6 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r16625] Description:Quincey Koziol2009-03-301-0/+2
| | | | | | | | | | | | | | | | | | | | | | Add mechanism for querying if an entry in the metadata cache is the parent or child in a flush dependency relationship. 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 production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode Mac OS X/32 10.5.6 (amazon) in debug mode Mac OS X/32 10.5.6 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r16606] Description:Quincey Koziol2009-03-241-0/+4
| | | | | | | | | Add H5AC_create_flush_dependency() and H5AC_destroy_flush_dependency() wrappers for similarly named routines in H5C layer. Tested on: FreeBSD/32 6.3 (duty) Too minor to require h5committest
* [svn-r16290] Purpose: Mike McGreevy2009-01-091-2/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | Adding code to maintain a min_clean_fraction in the cache in serial mode. Description: The metadata cache now has the ability to maintain a min_clean_fraction when in serial mode. The default initial cache size has been changed from 1MB to 2MB, and the default min_clean_fraction has been set at 30%. This check-in includes modifications to H5C.c to support maintaining a min_clean_size, including the addition of clean_index_size and dirty_index_size trackers, modifications to the H5C_make_space_in_cache algorithm, as well as associated test code and additional statistics tracking variables. Maintaining the min_clean_fraction addresses the possibility of experiencing a "metadata blizzard" when the cache gets completely full with dirty entries. Upon having to make space, the cache would previously need to flush every single entry in the cache before coming across a clean entry which could be evicted. This resulted in unnecessary flushing of oftentimes hot entries in the cache. Maintaining the min_clean_fraction ensures that, when space is needed, clean entries are more readily available to evict. Tested: jam, smirom, linew (h5committest)
* [svn-r16137] Description:Quincey Koziol2008-11-281-1/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | Add support for paging large data blocks to extensible arrays Clean up allocation/destroy code for extensible array index, super and data blocks Add a couple of routines to set/get bit values in memory buffers Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode 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 production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15800] Description:Quincey Koziol2008-10-071-1/+4
| | | | | | | | | | | | | | | | | | | | | | | Bring file free space branch changes through r15795 into trunk, which includes a fair bit of code cleanup & rearrangement along with a couple of bug fixes also. Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (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/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 production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15746] Description:Quincey Koziol2008-10-011-0/+1
| | | | | | | | | | | | | | | | | | | | | Add support for extensible array "super block". Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (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/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 production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15674] Description:Quincey Koziol2008-09-221-0/+1
| | | | | | | | | | | | | | | | | | | | | | Add base support for extensible array "data blocks" to code, tests and h5debug. Tested on: Mac OS X/32 10.5.4 (amazon) in debug mode Mac OS X/32 10.5.4 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (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/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 production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15614] Description:Quincey Koziol2008-09-111-0/+1
| | | | | | | | | | | | | | | | | | | | | | More extensible array features: add support for setting/getting elements in the array's index block. Tested on: Mac OS X/32 10.5.4 (amazon) in debug mode Mac OS X/32 10.5.4 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (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/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 production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15549] Description:Quincey Koziol2008-08-281-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | Initial checkin of extensible array data structure prototype code and regression tests. Initial definitions for revised FUNC_ENTER/LEAVE and error reporting macros, which are being vetted in the extensible array code. Minor warning and formatting cleanups in other sections of code. Tested on: Mac OS X/32 10.5.4 (amazon) in debug mode Mac OS X/32 10.5.4 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (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/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 production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r14442] Modified metadata cache to adapt more quickly to the insertion of aJohn Mainzer2008-01-181-0/+4
| | | | | | | | | | | | | | | | | large entry, or to a large increases in the size of an existing entry. This required some additions to the cache configuration structure, and thus will require changes in the metadata cache documentation. The basic idea is to monitor the size of entries as they are loaded, inserted, or increased in size. If the size of the entry (or increase) exceeds some user selected fraction of the size of the cache, increase the size of the cache. Note that this fix was designed quickly -- while it deals with the use case that exposed the problem, we may have to revisit the issue later. Tested serial and parallel on Phoenix, and h5committest.
* [svn-r14065] Second try at checking in the "cork the cache" modification.John Mainzer2007-08-101-1/+0
| | | | | | | | First attempt contained slightly dated versions of the files listed below. Must also note that the mods were tested with h5committest, and two other linux builds.
* [svn-r14064] Implemented function allowing the user to cork the metadata cache.John Mainzer2007-08-101-0/+2
| | | | Also implemented associated test code.
* [svn-r13253] Updated all C and C++ style source code files with the THG ↵Albert Cheng2007-02-071-2/+3
| | | | | | | | | copyright notice. Tested platform: Kagiso only since it is only a comment block change. If it works in one machine, it should work in all, I hope. Still need to check the parallel build on copper.
* [svn-r12902] Checkin of Shared Object Header Message work.James Laird2006-11-131-0/+2
| | | | | | | | | | | | This feature is still in progress; Shared Object Header Messages are not complete as a feature and are not thoroughly tested. There are still "TODO" comments in the code (comments with the word "JAMES" in them, so as not to be confused with other TODO comments). Hopefully this checkin will reduce the liklihood of conflicts as I finish implementing this feature. All current tests pass on juniper, copper (parallel), heping, kagiso, and mir.
* [svn-r12774] Modified flush code in the metadata cache to allow it toJohn Mainzer2006-10-181-0/+4
| | | | | | | | | | | | | | | | | handle flush callbacks which can dirty other entries, and resize and/or rename the target entry. This feature is needed by the fractal heap code. Also added associated test code. H5Commit tested. Test failed on heping, but the error appears to be a syntax error in an un-related file. Tests on copper & sol passed, along with tests on phoenix.
* [svn-r12595] Modified H5C_insert_entry() to accept the H5C__PIN_ENTRY_FLAG entryJohn Mainzer2006-08-171-10/+11
| | | | | | | | | | | flag, and pin an entry as it is inserted. The objective is to avoid some function call overhead in fheap. Also added matching test code in test/cache.c & test/cache_common.c (also testpar/t_cache.c checked in separately by accident) h5commit tested
* [svn-r12525] Description:Quincey Koziol2006-08-021-0/+1
| | | | | | | | | | | Refactored free space manager to use metadata cache for serialized free space sections. This speeds up the fractal heap test considerably... Tested: FreeBSD 4.11 (sleipnir) Linux 2.4/32 (chicago) Linux 2.4/64 (mir) Mac OS X (amazon)
* [svn-r12462] Committed a variety of metadata cache related changes:John Mainzer2006-07-131-0/+20
| | | | | | | | | | | | | | | | | | | | | | 1) Added trace file support to the metadata cache. This allows capture of all metadata cache calls in trace files for purposes of optimization and debuging. 2) Added an expunge entry function. This allows an entry to be deleteded from the cache without writing it to disk even if it is dirty. 3) Added a function call to resize pinned entries. 4) Added code to deal with entries that are dirty on load. This is needed in support of a bug fix which can alter object headers on load to repair files. 5) Added progress reporting code to the "MDC API smoke check" test in cache_api.c. To enable the progress reporting, set report_progress to TRUE in mdc_api_call_smoke_check(). Tested with h5committest, and a parallel test on phoenix (dual athelon linux box).
* [svn-r12440] Purpose:Quincey Koziol2006-06-271-2/+2
| | | | | | | | | | | Code cleanup Description: Trim trailing whitespace in Makefile.am and C/C++ source files to make diffing changes easier. Platforms tested: None necessary, whitespace only change
* [svn-r12374] Purpose:John Mainzer2006-05-241-0/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 1) Check in potential fix to unreproduceable bug in t_cache observed on Cobalt 2) Check in code supporting added pinned entry features in the metadata cache. Description: 1) Elena encountered a bug in t_cache when running on Cobalt. On investigation I found a potential race condition in t_cache that could explain her observation. 2) Quincey requested additions to the metadata cache allowing renaming of pinned entryies, and marking of pinned or protected entries as dirty. Solution: 1) Modified t_cache.c to prevent the potential race condition. Elena was unable to reproduce the bug on Cobalt, so we don't know if my fix actually addressed the problem. 2) Added code supporting the requested functions. The changes were relatively trivial, but required substantial new test code. Platforms tested: h5committest, serial test on heping, parallel test on phoenix. Misc. update:
* [svn-r12349] Purpose:Quincey Koziol2006-05-151-1/+2
| | | | | | | | | | | | | | | Code checkpoint Description: Checkpoint fractal heap improvements, as well as move the free space manager code that it's using into a separate package. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4/64 (mir) w/C++ & FORTRAN Linux 2.4/32 (heping) Solaris 2.9 (shanti) AIX 5.? (copper) w/FORTRAN & parallel
* [svn-r12316] Purpose:Quincey Koziol2006-04-291-4/+4
| | | | | | | | | | | | | | | Code cleanup/feature twist Description: Adjust recent H5AC routines to take H5F_t pointers instead of H5C_t pointers, to match the rest of the H5AC routines. This change propagated into a few of the tests, which also had some compiler warnings cleaned up... Platforms tested: FreeBSD 4.11 (sleipnir) w/parallel Linux 2.4/64 (mir) w/C++ & FORTRAN
* [svn-r12311] Purpose:John Mainzer2006-04-281-3/+25
| | | | | | | | | | | | | | | | | | | | | | | | | Add pinned entry capability to cache. Description: For frequently accessed cache entries, the protect/unprotect overhead is sometimes a bottleneck. Solution: Allow entries to be pinned in the cache. Pinned entries can't be evicted, but can be flushed or modified. Platforms tested: h5committested -- minus one small typo in test/cache.c whose fix was tested on copper and heping only. Misc. update:
* [svn-r12084] Purpose:Quincey Koziol2006-03-131-0/+1
| | | | | | | | | | | | | | | | Code checkpoint Description: The fractal heap code is reasonably stable and is passing all its current tests, so checkpoint everything with CVS. Also, add "statistics" module for v2 B-trees code, which is only a stub right now. Platforms tested: FreeBSD 4.11 (sleipnir) Mac OSX (amazon) Linux 2.4 (chicago)
* [svn-r12004] Purpose:Quincey Koziol2006-03-041-0/+1
| | | | | | | | | | | | | | | | | New feature & code cleanup Description: Update fractal heap to be able to insert objects into a direct block hanging off the header. Extract "octal dump" code into separate routine so that both the local heaps & fractal heaps can use it. Other code cleanups & support to get this far. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4
* [svn-r11967] Purpose:Quincey Koziol2006-02-271-0/+1
| | | | | | | | | | | | | | | New feature Description: Check in initial "fractal heap" code, for supporting the group redesign. Also, remove some remnants of the segmented heap/block tracker/B+tree code which I didn't find during the last pass. Platforms tested: FreeBSD 4.11 (sleipnir) Mac OSX (amazon) Linux 2.4
* [svn-r11965] Purpose:Quincey Koziol2006-02-241-14/+13
| | | | | | | | | | | | Maintenance Description: Remove half-built (half-baked? :-) implementation of B+tree, block tracker and segmented heaps. (In preparation for starting the new heap coding) Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 (heping)
* [svn-r11897] Purpose:John Mainzer2006-01-271-3/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | 1) Add parallel test for metadata cache 2) Split serial test for metadata cache into two parts 3) Fix bug in which cache was flushed needlessly when the cache wasn't full. 4) Performance improvements 5) Update API for parallel cache coherency bug fix. Description: See above. Solution: See above. Platforms tested: h5committest Misc. update:
* [svn-r11470] Purpose:John Mainzer2005-09-271-1/+3
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Repair synchronization bug in the metadata cache in PHDF5 Also repair numerous other bugs that surfaced in testing the bug fix. Description: While operations modifying metadata must be collective, we allow independant reads. This allows metadata caches on different processes to adjust to different sizes, and to place the entries on their dirty lists in different orders. Since only process 0 actually writes metadata to disk (all other processes thought they did, but the writes were discarded on the theory that they had to be collective), this made it possible for another process to modify metadata, flush it, and then read it back in in its original form (pre-modification) form. The possibilities for file corruption should be obvious. Solution: Make the policy that only process 0 can write to file explicit, and visible to the metadata caches. Thus only process 0 may flush dirty entries -- all other caches must retain dirty entries until they are informed by process 0 that the entries are clean. Synchronization is handled by counting the bytes of dirty cache entries created, and then synching up between the caches whenever the sum exceeds an (eventually user specified) limit. Dirty metadata creation is consistent across all processes because all operations modifying metadata must be collective. This change uncovered may bugs which are repaired in this checkin. It also required modification of H5HL and H5O to allocate file space on insertion rather than on flush from cache. Platforms tested: H5committest, heping(parallel & serial) Misc. update:
* [svn-r11245] Purpose:Quincey Koziol2005-08-131-5/+5
| | | | | | | | | | | | | | | | | | | | Code cleanup Description: Trim trailing whitespace, which is making 'diff'ing the two branches difficult. Solution: Ran this script in each directory: foreach f (*.[ch] *.cpp) sed 's/[[:blank:]]*$//' $f > sed.out && mv sed.out $f end Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
* [svn-r11031] Purpose:Quincey Koziol2005-07-061-1/+3
| | | | | | | | | | | | | New feature Description: Initial checkin of B+ Tree code. Platforms tested: FreeBSD 4.11 (sleipnir) h5committest Misc. update:
* [svn-r11014] Purpose:Quincey Koziol2005-07-021-1/+2
| | | | | | | | | | | | Code cleanup Description: Refactor metadata cache to merge "dirtied" flag in with other flags for H5AC_unprotect and H5C_unprotect. Platforms tested: FreeBSD 4.11 (sleipnir) h5committest
* [svn-r10978] Purpose:John Mainzer2005-06-241-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | Interim checkin of code changes moving management of the is_dirty flag into the cache code. Description: Prior to this checkin, management of the is_dirty flag was handled above the level of the metadata cache. This can no longer be allowed, as it introduces a race condition in the proposed fix for a cache coherency bug in PHDF5. Solution: Move management fo the is_dirty flag to the cache code proper. Entries are now marked as dirty via a flag on the unprotect call. Platforms tested: h5committested Misc. update:
* [svn-r10715] Purpose:John Mainzer2005-05-021-3/+3
| | | | | | | | | | | | | | | | | | | | | | | | | | | Remove C99 types from new metadata cache related API calls Description: Windows (and perhaps others) don't like int32_t and int64_t. While we have dealt with the issue internally, it is more of a problem in API calls. Solution: Convert int32_t to int and int64_t to long int in the H5AC_cache_config_t structure used by the new metadata cache related API calls. Added explicit type casts to convert between internal and external representations. Platforms tested: h5committested Misc. update:
* [svn-r10688] Purpose:John Mainzer2005-04-281-2/+58
| | | | | | | | | | | | | | | | | | | | | | | | | | Add API calls allowing user control of the metadata cache. Description: Prior to this update, the metadata cache was not configurable from outside the library. Solution: Add API calls allowing the user to configure the metadata cache either at file open time, or for any open file. Also added calls permitting the user to monitor cache size and hit rate. These latter facilities are needed for "manual" cache size control Platforms tested: h5committested Misc. update:
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