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* [svn-r22215] Description:Quincey Koziol2012-03-311-26/+0
| | | | | | | | | | | Bring r22171 from trunk to 1.8 branch: Bring "merge committed datatypes during H5Ocopy" feature from branch to trunk. (Also has some minor bugfixes with it) Tested on: Mac OSX/64 10.7.3 (amazon) w/debug (h5committest coming up)
* [svn-r21557] Port r21556 to 1.8 branchNeil Fortner2011-10-141-2/+0
| | | | | | | | | | | | | | | Purpose: Fix bug in H5Ocopy Description: H5Ocopy could get confused when copying a named datatype containing an attribute which used that named datatype as its datatype. This happened because H5Ocopy would recurse into the attribute's datatype before the object the attribute was in was fully copied (i.e. before the "post-copy" pass). Modified H5Ocopy to avoid recursing before the post-copy step in this case. Required many changes, including to how non-committed shared messages are copied. Tested: jam, koala, heiwa (h5committest); durandal
* [svn-r18198] Description:Quincey Koziol2010-01-301-1/+1
| | | | | | | | | Trim trailing whitespace from source code files, with following command: find . \( -name "*.[ch]" -or -name "*.cpp" -or -name "*.f90" \) -print |xargs -n 1 sed -i "" 's/[[:blank:]]*$//' Tested on: None - eyeballed only
* [svn-r17314] Description:Quincey Koziol2009-08-101-1/+1
| | | | | | | | | | | | | | | | | | | | | | Bring r17313 from trunk to 1.8 branch: Bring back various minor code cleanups from the file free space 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 (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-r17124] Bug fix #1513. Reading an empty attribute caused seg fault. ↵Raymond Lu2009-06-261-1/+0
| | | | | | | | | | | | The flag "initialized" in the attribute structure wan't set correctly. It caused some confusion in H5A_read. This flag was actually redundant because the library can alwasy check if the data buffer is present. To fix it, I removed the "initialized" flag in the attribute structure and let H5A_read check the data buffer. I tested it on jam only but have tested the same change for the trunk on jam, smirom, and linew.
* [svn-r16920] Description:Quincey Koziol2009-05-051-7/+9
| | | | | | | | | | | | | | | | | | | | | | | | | | | | Merge these trunk revisions which occurred during the 1.8.3 release code freeze back to the 1.8 branch: From Quincey: 16845 16847 16849 16851 16858 16869 16897 From Ray: 16859 16880 From Allen: 16863 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 10.5.6 (amazon) in debug mode Mac OS X/32 10.5.6 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r16494] Description:Quincey Koziol2009-02-191-2/+1
| | | | | | | | | | | Bring r16483 back from trunk: 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-r16478] Purpose: Fix problem with opening an attribute multiple times ↵Neil Fortner2009-02-121-1/+1
| | | | | | | | | | | | | | | 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-r16387] Fix various warnings (errors in pgcc) associated with ↵Neil Fortner2009-01-301-3/+3
| | | | | | | | yesterday's dense attribute object copy commit. Tested: jam (gcc and pgcc)
* [svn-r16381] Purpose: Enable copying of dense attributesNeil Fortner2009-01-291-0/+9
| | | | | | | | | Description: Attribute object copy routines have been moved from H5Oattr.c to H5Aint.c. These routines are now shared between compact and densely stored attributes. New routines written to support the copying of dense attributes. This patch wasmostly written by Peter Cao. Tested: jam, smirom (h5committest)
* [svn-r15330] When an attribute was opened twice and data was written with ↵Raymond Lu2008-07-071-8/+16
| | | | | | | | | | | 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-r14183] Description:Quincey Koziol2007-10-041-1/+3
| | | | | | | | | | | | | | | | | | 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-r14180] Description:Quincey Koziol2007-10-041-1/+5
| | | | | | | | | | | | | | | | | | | Make H5Aiterate() versioned and change all internal use to H5Aiterate2() Leave some regression tests that exercise H5Aiterate1() Fix attribute display in h5dump & h5ls to be "by name" by default 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 2.6 (smirom) 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 Mac OS X/32 10.4.10 (amazon) in debug mode
* [svn-r13989] Description:Quincey Koziol2007-07-191-1/+1
| | | | | | | | | | | 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 Koziol2007-07-181-0/+23
| | | | | | | | | 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-r13753] Description:Quincey Koziol2007-05-141-2/+2
| | | | | | | | | | | | | 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 Koziol2007-03-121-0/+2
| | | | | | | | 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 Koziol2007-03-101-13/+15
| | | | | | | | | 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 Koziol2007-03-081-1/+4
| | | | | | | | | | | | | | | | | | | | 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-r13390] Description:Quincey Koziol2007-02-261-2/+1
| | | | | | | | 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-r13361] Description:Quincey Koziol2007-02-211-0/+4
| | | | | | | Add H5Aopen(), H5Aopen_by_idx() and H5Acreate2() routines. Tested on: Mac OS X/32 10.4.8 (amazon)
* [svn-r13360] Description:Quincey Koziol2007-02-211-0/+2
| | | | | | | | | | | | 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 Koziol2007-02-201-4/+7
| | | | | | | | | | | | Checkpoint progress on H5Aiterate2(). Mark H5Aiterate() as deprecated. Various code cleanups. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13341] Description:Quincey Koziol2007-02-201-15/+20
| | | | | | | Checkpoint "delete by index" code, which is partially finished. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13287] Description:Quincey Koziol2007-02-131-5/+5
| | | | | | | | | | | | | 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-r13267] Description:Quincey Koziol2007-02-081-0/+10
| | | | | | | | | Add more support for creation order index operations to attributes: get deletions & compact<->dense storage transitions working. Tested on: FreeBSD/32 6.2 (duty) Mac OS X/32 10.4.8 (amazon)
* [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-r13250] Description:Quincey Koziol2007-02-071-2/+14
| | | | | | | | | | Add support for inserting attributes into creation order index. Also, update support for dense link & attribute storage in h5debug. Tested on: FreeBSD/32 6.2 (duty) Mac OS X/32 10.4.8 (amazon)
* [svn-r13248] Description:Quincey Koziol2007-02-061-1/+1
| | | | | | | | | 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-r13240] Description:Quincey Koziol2007-02-051-1/+1
| | | | | | | | | | 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 Koziol2007-02-041-2/+0
| | | | | | | | | 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 Koziol2007-01-311-1/+4
| | | | | | | | | | 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-r13156] Description:Quincey Koziol2007-01-191-1/+2
| | | | | | | | | Begin refactoring code to straighten out the contorted code that handles shared messages. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13155] Description:Quincey Koziol2007-01-191-5/+3
| | | | | | | | | | | | | | 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 Koziol2007-01-101-1/+1
| | | | | | | | | 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-r13104] Description:Quincey Koziol2007-01-031-0/+2
| | | | | | | | | Add support for renaming compact & dense/shared & non-shared attributes in all cases. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13096] Description:Quincey Koziol2007-01-021-2/+7
| | | | | | | | Fix updating values of shared attributes in dense storage & add test. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13079] Description:Quincey Koziol2006-12-191-0/+7
| | | | | | | | | | | | | | | | | | Add more tests for checking that writing to shared attributes works correctly. (Looks like it still has a bug when dense storage is used, which I'll correct shortly). Add testing routine to shared message code, to retrieve reference count for a shared message. Add fractal heap 'op' callback for efficiently computing the hash value of an existing encoded message in the shared message fractal heap. Various minor cleanups and warning placations. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13074] Description:Quincey Koziol2006-12-191-9/+15
| | | | | | | | | | | | | | | | | Add support for opening attributes in dense and/or shared storage by index. Move routines for building and operating on tables of attributes into separate source module. Fix bug where reverting from "dense" to "compact" storage would 'unshare' attributes. Minor code cleanups, etc. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13065] Added support for copying shared messages (including turning ↵James Laird2006-12-151-1/+1
| | | | | | | | | | | | unshared messages to shared messages and vice versa). Extended objcopy test to test all "permutations" of shared/unshared and new/old group format. If this proves to take a long time to test, I'll go back and have it run fewer tests when HDF5_TEST_EXPRESS is enabled. Tested on smirom, kagiso, copper, and Windows.
* [svn-r13056] Description:Quincey Koziol2006-12-121-1/+2
| | | | | | | | | | | | | | Add H5SM_type_shared() internal routine to determine if a particular type of header message is sharable in a file. Correct off-by-one error in computing B-tree record size for densely stored attributes' name index. Further progress toward supporting shared attributes in dense storage. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13047] Description:Quincey Koziol2006-12-121-1/+3
| | | | | | | | | | | | | | Add "attribute exists" internal routine to make verifying that an attribute with the same name doesn't already exist easier. Tweak "trace" script to produce more whitespace in H5TRACE macros, in order to make them easier to read. Minor other whitespace cleanups Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13045] Description:Quincey Koziol2006-12-121-1/+32
| | | | | | | | | | | | | | Switch from using H5L_index_t/H5L_INDEX_<foo> to H5_index_t/H5_INDEX_<foo> in order to accommodate indices on aspects of attributes as well as links. Add basic support for deleting attributes in dense storage (needs more support/tests for shared attributes in dense storage still). Misc. cleanups, etc. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13041] Description:Quincey Koziol2006-12-111-0/+6
| | | | | | | | | | | Migrate "internalish" attribute operations into new source code file. Add test & basic support for opening attributes in dense storage (shared attributes not tested or supported yet). Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13028] Description:Quincey Koziol2006-12-061-4/+80
| | | | | | | | | | | | | | | | | Add first pass of "dense" attribute storage to objects. Lots of parts of this are stubbed out, but all the tests are passing and I'll work on the corner cases soon. Eliminated several unused parameters from object header message callback routines. Other, miscellaneous code cleanups, etc. (and probably some things I've forgotten about... :-) Tested on: FreeBSD/32 4.11 (sleipnir) Linux/32 2.4 (heping) AIX/32 5.? (copper)
* [svn-r12976] Description:Quincey Koziol2006-11-271-3/+4
| | | | | | | | | | | Add # of attributes to the object info struct and deprecate H5Aget_num_attrs(). Tested on: FreeBSd/32 4.11 (sleipnir) Linux/32 2.4 (heping) Linux/64 2.4 (mir) AIX/32 5.? (copper)
* [svn-r12902] Checkin of Shared Object Header Message work.James Laird2006-11-131-0/+1
| | | | | | | | | | | | 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-r11850] Purpose:James Laird2006-01-021-0/+1
| | | | | | | | | | | | | | Feature Description: Added character encoding and attribute creation property lists. Solution: Attributes' character encoding is set via the ACPL. The default is ASCII, with UTF-8 being the other option currently. Platforms tested: heping, mir, sleipnir, copper
* [svn-r11712] Purpose:Quincey Koziol2005-11-151-3/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | New feature Description: Check in baseline for compact group revisions, which radically revises the source code for managing groups and object headers. WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! This initiates the "unstable" phase of the 1.7.x branch, leading up to the 1.8.0 release. Please test this code, but do _NOT_ keep files created with it - the format will change again before the release and you will not be able to read your old files!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! Solution: There's too many changes to really describe them all, but some of them include: - Stop abusing the H5G_entry_t structure and split it into two separate structures for non-symbol table node use within the library: H5O_loc_t for object locations in a file and H5G_name_t to store the path to an opened object. H5G_entry_t is now only used for storing symbol table entries on disk. - Retire H5G_namei() in favor of a more general mechanism for traversing group paths and issuing callbacks on objects located. This gets us out of the business of hacking H5G_namei() for new features, generally. - Revised H5O* routines to take a H5O_loc_t instead of H5G_entry_t - Lots more... Platforms tested: h5committested and maybe another dozen configurations.... :-)
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