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* [svn-r18031] Description:Quincey Koziol2009-12-171-26/+25
|\ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r18030 from merge_metadata_journaling branch to trunk: Bring "brush clearing" changes (whitespace & style issues, mostly) from metadata_journaling branch to the "merging" branch, to converge the trunk and the metadata_journaling branch. Also, some other minor cleanups along the way. 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 (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 10.6.2 (amazon) in debug mode Mac OS X/32 10.6.2 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
| * [svn-r18030] Description:Quincey Koziol2009-12-171-29/+27
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring "brush clearing" changes (whitespace & style issues, mostly) from metadata_journaling branch to the "merging" branch, to converge the trunk and the metadata_journaling 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 (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 10.6.2 (amazon) in debug mode Mac OS X/32 10.6.2 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* | [svn-r17943] Description:Quincey Koziol2009-12-011-2/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Finish refactoring v2 B-trees so that they can have client callback context provided to the encode/decode callbacks. 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 (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 10.6.2 (amazon) in debug mode Mac OS X/32 10.6.2 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* | [svn-r17893] Descrption:Quincey Koziol2009-11-151-2/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Remove old shim H5B2 routines from refactoring, rename new routines to old routine names and switch all users of the H5B2 interface back to the old routine names now that the switch to using the more current open -> <operation> -> pattern is used for all the H5B2 code. This is the final change before adding a context to the H5B2 client encode/decode callbacks. 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 (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 10.6.2 (amazon) in debug mode Mac OS X/32 10.6.2 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* | [svn-r17889] Description:Quincey Koziol2009-11-141-16/+29
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Switch a bunch of misc. places in interfaces that were already converted to use the refactored v2 B-tree routines to use the refactored v2 B-tree routines. 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 (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 10.6.2 (amazon) in debug mode Mac OS X/32 10.6.2 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* | [svn-r17187] The ret_value is a (H5A_t *) but FAIL was used. This typo ↵Albert Cheng2009-07-151-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | caused a warning from Linux gcc but resulted in error by AIX xlc compiler. Solution: Changed FAIL to NULL. Tested: Just compiling in the AIX system.
* | [svn-r17177] In H5Odtype.c, the decoding function used to mark the datatype ↵Raymond Lu2009-07-131-0/+9
| | | | | | | | | | | | | | | | | | | | as on disk (see bug #1585). I changed it to undefined and let the caller functions decide the location of the datatype. For H5Tdecode, it should mark the datatype as in memory. For other callers like H5Dopen or H5Aopen, they should makr it as on disk. Tested it on jam, smirom, linew.
* | [svn-r16483] Description:Quincey Koziol2009-02-121-106/+132
| | | | | | | | | | | | | | | | | | Clean up (i.e. remove) more internal calls to H5E_clear_stack(), along with some other minor code cleanups. Tested on: Mac OS X/32 10.5.6 (amazon) (too minor to require h5committest)
* | [svn-r16477] Purpose: Fix problem with opening an attribute multiple times ↵Neil Fortner2009-02-121-2/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | through multiple file handles. Description: An attribute's "oloc" field which specifies the file it resides in was located in the attribute's "shared" structure. So when an attribute was opened multiple times all of the handles for that attribute pointed to the same file id, even if different file id's were used to open the different handles for the attribute. The "oloc" has been moved to the top level H5A_t struct. Tested: jam, smirom (h5committest)
* | [svn-r16376] Purpose: Fix a bug encountered when copying shared messagesNeil Fortner2009-01-291-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | Description: When attempting to copy an object with a message shared in its own object header, the library attempts to protect the same object header twice. Previously, it was possible for the object header to be protected with write access in one or both of these protects, which would be illegal. The library should now always protect with read only access in this case. The conditions for fixing incorrect datatype versions have been made weaker to support this change. The version will only be corrected if the object header the datatype is in is modified. Tested: jam, smirom (h5committest)
* | [svn-r15796] Purpose: Close bug #1322Neil Fortner2008-10-071-2/+2
| | | | | | | | | | | | | | | | | | Description: Fixes a possible datatype id leak that could occur during compound datatype conversion, or more precisely, when unregistering those conversions. Datatype ids normally registered by the library are no longer visible to the application via H5Fget_obj_ids and H5Fget_obj_count. Tested: kagiso, linew, smirom (h5committest)
* | [svn-r15628] Description:Quincey Koziol2008-09-161-17/+17
| | | | | | | | | | | | | | | | | | | | | | | | | | Remove trailing whitespace from C/C++ source files, with the following script: foreach f (*.[ch] *.cpp) sed 's/[[:blank:]]*$//' $f > sed.out && mv sed.out $f end Tested on: Mac OS X/32 10.5.5 (amazon) No need for h5committest, just whitespace changes...
* | [svn-r15510] Description:Quincey Koziol2008-08-211-3/+3
| | | | | | | | | | | | | | | | Clean up warnings & formatting Tested on: Mac OS X/32 10.5.4 (amazon) More tests forthcoming
* | [svn-r15458] Purpose: Modify the library to take the proper action when ↵inactive/jpeg_converterNeil Fortner2008-08-111-1/+2
|/ | | | | | | | | | | | | | files with incorrect datatype versions are encountered. Description: The library now recognizes some problems with datatype versions in H5O_decode_helper(), and, if not performing strict format checks, automatically corrects them. Framework added for other message decode routines to automatically correct file errors. Datatype version information added to h5debug. Tested: kagiso, smirom, linew (h5committest)
* [svn-r15395] When an attribute was opened twice and data was written with ↵Raymond Lu2008-07-221-66/+215
| | | | | | | | | | | one of the handles, the file didn't have the data. It happened because each handle had its own object structure, and the empty one overwrote the data with fill value. This is fixed by making some attribute information like the data be shared in the attribute structure. Tested on smirom, kagiso, and linew.
* [svn-r14234] Description:Quincey Koziol2007-11-011-4/+9
| | | | | | | | | | | | | | | | | | Add H5Aexists and H5Aexists_by_name API routines, to match H5Lexists. Tested on: FreeBSD/32 6.2 (duty) in debug mode FreeBSD/64 6.2 (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/default API=1.6.x, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Mac OS X/32 10.4.10 (amazon) in debug mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode
* [svn-r14183] Description:Quincey Koziol2007-10-041-38/+40
| | | | | | | | | | | | | | | | | | Move H5Aget_num_attrs() into deprecated routines section, replacing all internal usage with H5Oget_info(). Tested on: FreeBSD/32 6.2 (duty) in debug mode FreeBSD/64 6.2 (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/default API=1.6.x, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Mac OS X/32 10.4.10 (amazon) in debug mode
* [svn-r14085] Description:Quincey Koziol2007-08-141-3/+19
| | | | | | | | | Refactor H5HF_size() size statistics code for fractal heap to conform to how the rest of the fractal heap routines work. Tested on: FreeBSD/32 6.2 (duty) Mac OS X/32 10.4.10 (amazon)
* [svn-r13989] Description:Quincey Koziol2007-07-191-1/+2
| | | | | | | | | | | Rename H5A_get_version() to H5A_set_version() and actually set the attributes version in the routine. Tested on: Mac OS X/32 10.4.10 (amazon) FreeBSD/32 6.2 (duty) Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13988] Description:Quincey Koziol2007-07-181-1/+7
| | | | | | | | | Fix bug where the version of an attribute would change after it was created, causing the amount of space used to encode it to change. Tested on: Mac OS X/32 10.4.10 (amazon) FreeBSD/32 6.2 (duty)
* [svn-r13984] Description:Quincey Koziol2007-07-171-34/+29
| | | | | | | | | | | Various code cleanups and refactor recent changes for h5stat to fit into the existing library data structures better. Tested on: Mac OS X/32 10.4.10 (amazon) FreeBSD/32 6.2 (duty) Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13978] purpose:Vailin Choi2007-07-131-0/+59
| | | | | | | | | | | | | | New feature. Description: Added routines to report on the amount of storage for: 1) 1.6 btree and heap storage info for groups 2) 1.8 btree, fractal heap storage info for groups, attributes and SOHM table 3) btree storage for chunked datasets 4) 1.8 superblock extension size. Platform tested: h5committested.
* [svn-r13753] Description:Quincey Koziol2007-05-141-19/+27
| | | | | | | | | | | | | Check in "unique, but sharable" optimization to ISOHM code, which allows object header messages that are only used in one object to remain in the sole user's header, but migrates messages that are used in more than one header into the ISOHM heap. Tested on: Mac OS X/32 10.4.9 (amazon) FreeBSD/32 6.2 (duty) Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13499] Description:Quincey Koziol2007-03-121-9/+9
| | | | | | | | Avoid storing the # of attributes in the "attribute info" message and regenerate it when the object is opened. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13486] Description:Quincey Koziol2007-03-101-175/+291
| | | | | | | | | Move attribute tracking information out of object header prefix and make it into a message that is inserted only when attributes are present on the object. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13477] Description:Quincey Koziol2007-03-081-3/+3
| | | | | | | | | | | | | | | | | | | | The main purpose of this checkin was to eliminate the space used for tracking creation time indices when there is no way they can be used (i.e. attributes can't be shared in the file and the user hasn't turned on attribute creation tracking), however there were some other minor changes which crept in: - Fix a cache locking deadlock when a shared attribute and one of its components end up in the same fractal heap direct block. (This is fixed the "slow" way for right now, until John has time to add support for readers/writer locking to the cache. - Optimize attribute copying when a copy will be kept during a v2 B-tree search. - When freeing a block on disk, attempt to merge it with the metadata and "small data" aggregators. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 6.2 (duty)
* [svn-r13469] Description:Quincey Koziol2007-03-061-1/+1
| | | | | | | | | Minor code rearrangements and comment cleanups, in preparation for moving attribute tracking information out of object header prefix. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13449] Description:Quincey Koziol2007-03-041-10/+26
| | | | | | | | | | | | | Add object creation property (H5P[s|g]et_obj_track_times) to disable storing timestamps on objects, which makes the object's header size smaller. Also, added object header status flags to H5O_info_t struct (for H5Oget_info/H5Oget_info_by_idx) and cleaned up other field names in the struct as well. Tested on: FreeBSD/32 6.2 (duty) Mac OS X/32 10.4.8 (amazon)
* [svn-r13390] Description:Quincey Koziol2007-02-261-56/+58
| | | | | | | | Make H5O_protect/H5O_unprotect use pinned cache entries instead of protected entries (allowing the object header routines to be semi-reentrant). Tested on: FreeBSD 6.2 (duty)
* [svn-r13367] Description:Quincey Koziol2007-02-211-15/+29
| | | | | | | | | | Allow "big" attributes to push attribute storage into "dense" form immediately, to accomodate storing the attribute. (This is only allowed in the "latest" version of the format). Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13360] Description:Quincey Koziol2007-02-211-2/+6
| | | | | | | | | | | | Finish H5Aiterate2() Add H5Arename2() and mark H5Arename as deprecated. Started on H5Oopen_by_idx(). Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 6.2 (duty)
* [svn-r13353] Description:Quincey Koziol2007-02-201-8/+51
| | | | | | | | | | | | Checkpoint progress on H5Aiterate2(). Mark H5Aiterate() as deprecated. Various code cleanups. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13344] Description:Quincey Koziol2007-02-201-0/+3
| | | | | | | | More progress on attribute deletion by index. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 6.2 (duty)
* [svn-r13341] Description:Quincey Koziol2007-02-201-61/+181
| | | | | | | Checkpoint "delete by index" code, which is partially finished. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13287] Description:Quincey Koziol2007-02-131-12/+16
| | | | | | | | | | | | | Add H5Aget_info_by_idx & H5Aget_name_by_idx routines, along with refactoring underlying indices code to handle those sort of queries. Simplify the link callback routines a bit. Minor other cleanups. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 6.2 (duty)
* [svn-r13272] Description:Quincey Koziol2007-02-081-1/+2
| | | | | | | | Checkpoint attribute creation order coding on "by index" routines. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [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-r13248] Description:Quincey Koziol2007-02-061-3/+5
| | | | | | | | | More progress on creation order for attribbutes - they are now basically working for "compact" attribute storage. Tested on: FreeBSD/32 6.2 (duty) Mac OS X/32 10.4.8 (amazon)
* [svn-r13243] Description:Quincey Koziol2007-02-061-1/+1
| | | | | | | | | Add API routines for tracking & indexing the creation order on attributes. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 6.2 (duty)
* [svn-r13240] Description:Quincey Koziol2007-02-051-4/+4
| | | | | | | | | | More cleanups on the object header message handling code, to make it easier to work with and move forward on the creation order coding. Various other minor cleanups & warning fixes. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13232] Description:Quincey Koziol2007-02-041-8/+8
| | | | | | | | | Remove the "scaffolding" for shared message method invocation and simplify the way shared messages are dealt with in general. Tested on: FreeBSD/32 6.2 (duty) Mac OS X/32 10.4.8 (amazon)
* [svn-r13226] Description:Quincey Koziol2007-01-311-304/+142
| | | | | | | | | | Add attributes to the message classes that use the shared message method calling interface, completing the transition. The other mechanism will be removed shortly. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 6.2 (duty)
* [svn-r13219] Description:Quincey Koziol2007-01-291-20/+0
| | | | | | | | | | | Move dataspace messages into new shared header message method calling scheme. Minor other cleanups, etc. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13155] Description:Quincey Koziol2007-01-191-0/+10
| | | | | | | | | | | | | | Add "set_crt_index" and "get_crt_index" methods for the object header message class. Unify fractal heap definitions for shared messages and attributes, under "object header" fractal heap definitions. Initial code for adding creation order index to object header messages. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13152] Description:Quincey Koziol2007-01-181-1/+1
| | | | | | | | | | | Add anotherdense/shared attribute test. Clean up minor attribute/object header codelets, in preparation for adding creation index to attributes. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 6.2 (duty)
* [svn-r13130] Description:Quincey Koziol2007-01-101-6/+8
| | | | | | | | | Further tests & bugfixes for shared/committed components of shared/un- shared attributes using dense/compact storage. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 6.1 (duty)
* [svn-r13128] Description:Quincey Koziol2007-01-091-10/+0
| | | | | | | | | | More progress on address bugs in combinations of shared/committed/unshared components of shared/unshared attributes in compact/dense storage. (Yes, there are a lot of combinations. :-) Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13121] Description:Quincey Koziol2007-01-081-8/+64
| | | | | | | | | | Add support & tests for using shared datatypes with shared & un-shared attributes. Involves some fairly icky code to make the "copy on write" paradigm for shared attributes work. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13120] Description:Quincey Koziol2007-01-081-2/+1
| | | | | | | | | | | | | | | | Add support for deleting deleting dense storage when no compact storage will be used. Change shared message's "get heap address" routine to return address in parameter instead of return value, to allow better error detection. Start writing tests for shared attributes which use shared components (datatypes or dataspaces) Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 6.1 (duty)
* [svn-r13116] Description:Quincey Koziol2007-01-061-13/+15
| | | | | | | | | | | | Add support for deleting all the attributes on an object, when they are dense and possibly shared. Also, add some testing routines, for better error detection. Should fix daily test failures also... Tested on: FreeBSD/32 6.1 (duty)
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