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* [svn-r13173] Description:Quincey Koziol2007-01-221-26/+337
| | | | | | | | | Checkpoint more progress toward implementing shared message "interface" methods for message classes that can have messages shared. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13159] Added h5debug support for shared message structures.James Laird2007-01-191-2/+2
| | | | | Tests run on juniper, kagiso, smirom. h5debug run manually on sample files on Windows, juniper, and kagiso.
* [svn-r13156] Description:Quincey Koziol2007-01-191-4/+11
| | | | | | | | | 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 Koziol2007-01-191-18/+15
| | | | | | | | | | | | | | 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-r13143] Refactoring.James Laird2007-01-161-2/+2
| | | | | | | | | | | | | | Added can_share callback for OH messages. This determines whether the message is allowed to be shared in the heap (committed and immutable datatypes can't be). Fixed a bug in the dense attribute storage that tried to open the shared message heap when it hadn't been created yet. Made the test to extend shared dataspace messages a bit more robust. Refactored the code the searches a shared message list index to be a little more efficient. A few other minor changes. Tested on smirom, kagiso, Windows, and juniper.
* [svn-r13135] Continuing code cleanup.James Laird2007-01-111-3/+5
| | | | | | | | | Moved SOHM table version out of table encoding and completely into superblock. This is a file format change. Added test that extends shared dataspaces. Dynamically allocate arrays in shared message cache code. Clean up comments. Tested on windows, kagiso, smirom.
* [svn-r13130] Description:Quincey Koziol2007-01-101-2/+2
| | | | | | | | | 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-r13129] More refactoring. Moved index versions to the index header, so ↵James Laird2007-01-091-3/+6
| | | | | | | | that an index can be read all at once. This changes the file format! Tested on Windows, kagiso, and smirom.
* [svn-r13121] Description:Quincey Koziol2007-01-081-1/+1
| | | | | | | | | | 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/+2
| | | | | | | | | | | | | | | | 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-r13119] More code cleanup. Made shared messages zero-indexed instead ofJames Laird2007-01-081-7/+0
| | | | | | one-indexed. Changed the names of some constants to be more consistent. Tested on juniper, smirom, and copper.
* [svn-r13086] Added deletion test for shared messages. I'm not sure that ↵James Laird2006-12-221-4/+0
| | | | | | | | | | | this test is as complete as it could be, so I may add to it later. Fixed a bug in reference counting messages that are referenced by shared messages (attribute datatypes and dataspaces). Tested on mir, smirom, and Windows.
* [svn-r13065] Added support for copying shared messages (including turning ↵James Laird2006-12-151-23/+25
| | | | | | | | | | | | 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-r13058] Description:Quincey Koziol2006-12-131-12/+23
| | | | | | | | | | | Clean up some shared message operations and other minor tweaks, in the process of trying to solve the messy way that shared object header messages are implemented in general (not James' work - which is fine :-) Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 4.11 (sleipnir) AIX/32 5.? (copper)
* [svn-r13051] Description:Quincey Koziol2006-12-121-42/+26
| | | | | | | | Minor code neatening, before making snapshot... Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13028] Description:Quincey Koziol2006-12-061-3/+3
| | | | | | | | | | | | | | | | | 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-r13019] Description:Quincey Koziol2006-12-041-22/+14
| | | | | | | | | | | Further simplifications and cleanups to object header message code. Also, some changes to the "iterate" routines, in order to not override the return value from the iterator callback routine. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13016] Description:Quincey Koziol2006-12-041-7/+7
| | | | | | | | | | | Finish moving object header message routines into their own source code module, along with renaming them to have "H5O_msg_" prefix... Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 4.11 (sleipnir) Linux/32 2.4 (heping) AIX/32 5.? (copper)
* [svn-r13015] Description:Quincey Koziol2006-12-041-7/+7
| | | | | | | | | | | Migrate more object header routines to use the H5O_msg_ prefix and put them into the src/H5Omessage.c code module. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 4.11 (sleipnir) Linux/32 2.4 (heping) AIX/32 5.? (copper)
* [svn-r13012] Description:Quincey Koziol2006-12-031-1/+1
| | | | | | | | | | | | | | Refactor object header code to separate process of creating an object header message from the process of writing to an existing one. Start renaming operations that deal with object header messages to have "H5O_msg_" prefix... Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 4.11 (sleipnir) Linux/32 2.4 (heping) AIX/32 5.? (copper)
* [svn-r13004] Much improved shared object header message test, along with ↵James Laird2006-12-011-9/+5
| | | | | | | | | | | some bug fixes to make the test pass. These changes involve changes to the file format of SOHMs, but that's okay because nobody should have been using SOHMs yet anyway. Tested on Windows, kagiso, copper, and heping
* [svn-r13002] Description:Quincey Koziol2006-11-301-4/+4
| | | | | | | | | | | | Fix problem with copying objects when the dataset to copy has an "older" version of the layout message and needs to compute the size of the dataset's storage after the dataspace information is available. Minor random cleanups also... Tested on: FreeBSD/32 4.11 (sleipnir) Too minor/weird to test w/h5committest...
* [svn-r12973] Description:Quincey Koziol2006-11-251-19/+24
| | | | | | | | | | | | | | | Finish removing library's internal code that uses H5G_get_objinfo() and retarget it at either getting the link information or the object information, as appropriate. (Still need to add user-level tests for H5Oget_info(), but since several internal components of the library depend on the internal version, it appears to be working correctly). Tested on: FreeBSD/32 4.11 (sleipnir) Linux/322.4 (heping) Linux/64 2.4 (mir) AIX/32 5.? (copper) Mac OS X/32 10.4.8 (amazon)
* [svn-r12907] Description:Quincey Koziol2006-11-141-48/+48
| | | | | | | | | Finish refactoring internal link deletion code, to make it possible to wrap up the H5Ldelete_by_idx() coding. Tested on: Linxu/32 2.6 (chicago) Linxu/64 2.6 (chicago2)
* [svn-r12906] Description:Quincey Koziol2006-11-131-8/+10
| | | | | | | | | | | | | | | | Straighten out some convoluted code when links were being deleted, which could cause the "delete" callback for user-defined links to not get called when the group they were in was deleted. Had to compromise on the "delete" callback though - only calls the callback with the ID for the file the link is in, instead of the group, since the group is being held open upstream in the calling sequence during a group deletion and this prevents a group and its ID from being created. (This could possibly be worked around, but would cause a fair bit of havoc in the code and I'm not entirely certain it's worth it...) Tested on: Linux/32 2.6 (chicago)
* [svn-r12902] Checkin of Shared Object Header Message work.James Laird2006-11-131-55/+279
| | | | | | | | | | | | 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-r12528] Added User-Defined links to the library.James Laird2006-08-021-4/+4
| | | | | | | | | | | | | | Users can create external links using H5L_create_external(). These links point to an object in another HDF5 file. Users can alter the behavior of external links or create new kinds of links by registering callbacks using the H5L interface. Added tests, tools support, etc. Also a number of other, minor changes have been made (some restructuring of the H5L interface, for instance). Additional documentation and examples are forthcoming.
* [svn-r12440] Purpose:Quincey Koziol2006-06-271-6/+6
| | | | | | | | | | | 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-r12439] Purpose:Quincey Koziol2006-06-261-13/+15
| | | | | | | | | | | | | New feature Description: Check in Peter's code to add support for "shallow copy", "create intermediate groups", "no attributes" and "expand soft links" support. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 (chicago) w/ & w/o group-revision enabled h5committest
* [svn-r12189] Purpose:Quincey Koziol2006-04-011-5/+53
| | | | | | | | | | | | | | New/expanded features Description: Check in Peter's changed for the object copy code: - Allow/fix copying datasets using named variable-length datatypes - Start adding framework for property list to control how object copying occurs. Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
* [svn-r11886] Purpose:Quincey Koziol2006-01-231-4/+2
| | | | | | | | | | | | | Code cleanup Description: Check in some of the code cleanups from working on the external link support. (This doesn't include any of the external link features) Platforms tested: FreeBSD 4.11 (sleipnir) Mac OSX.4 (amazon) Linux 2.4
* [svn-r11758] Purpose:Quincey Koziol2005-12-041-3/+4
| | | | | | | | | | | | | New feature Description: Add in a combination of Peter's & my code to support copying variable-length data from one file to another, although currently only supported with contiguous data storage. Platforms tested: FreeBSD 4.11 (sleipnir) h5committest
* [svn-r11712] Purpose:Quincey Koziol2005-11-151-151/+74
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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.... :-)
* [svn-r11686] Purpose:Quincey Koziol2005-11-071-1/+62
| | | | | | | | | | | | | | | | | | | New feature Description: Add in baseline "object copy" code from Peter [in the form of a new API routine: H5Gcopy()]. There's still some work to do (like handling variable- length datatypes and possibly support for references) and it hasn't been tested on mounted files yet, but the core functionality is there and working correctly. I've also got a set of patches to update the 1.6 branch with tweaks to keep the branches mostly in sync, but Elena will kill me if I import them before the 1.6.5 release is out... :-) Platforms tested: FreeBSD 4.11 (sleipnir) h5committested
* [svn-r11384] Purpose:Quincey Koziol2005-09-121-5/+6
| | | | | | | | | | | | | | | | | | | | | Code cleanup Description: Merge back changes from "compact group" work that improve the infrastructure of the library and may impact others. In this round of merging, that includes: - Move datatype allocation into single internal routine, instead of duplicated code that was spread out in a dozen or so places. - Clean up guts of object header routines (H5O_*) to allow for some of the fancieroperations that need to be performed on groups, along with some general improvements. - Added a new error code - Some minor cleanups in other code.... Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 Mac OS X
* [svn-r11245] Purpose:Quincey Koziol2005-08-131-6/+6
| | | | | | | | | | | | | | | | | | | | 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-r9857] Purpose: MaintenanceElena Pourmal2005-01-221-3/+0
| | | | | | | | | | | | | | Description: Removed PABLO from the source Solution: Platforms tested: arabica with 64-bit, copper with parallel, heping with GNU C and C++ and PGI fortran (but I disabled hl, there is some weird problem only on heping: F9XMODFLAG is not propagated to the Makefile files Misc. update:
* [svn-r9727] Purpose:Quincey Koziol2004-12-291-2/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bug Fix/Code Cleanup/Doc Cleanup/Optimization/Branch Sync :-) Description: Generally speaking, this is the "signed->unsigned" change to selections. However, in the process of merging code back, things got stickier and stickier until I ended up doing a big "sync the two branches up" operation. So... I brought back all the "infrastructure" fixes from the development branch to the release branch (which I think were actually making some improvement in performance) as well as fixed several bugs which had been fixed in one branch, but not the other. I've also tagged the repository before making this checkin with the label "before_signed_unsigned_changes". Platforms tested: FreeBSD 4.10 (sleipnir) w/parallel & fphdf5 FreeBSD 4.10 (sleipnir) w/threadsafe FreeBSD 4.10 (sleipnir) w/backward compatibility Solaris 2.7 (arabica) w/"purify options" Solaris 2.8 (sol) w/FORTRAN & C++ AIX 5.x (copper) w/parallel & FORTRAN IRIX64 6.5 (modi4) w/FORTRAN Linux 2.4 (heping) w/FORTRAN & C++ Misc. update:
* [svn-r9556] Purpose:Quincey Koziol2004-11-221-3/+3
| | | | | | | | | | | | | | | | | | | | | Code cleanup & optimization Description: Improve ADF/CGNS benchmark by reducing the number of internal attribute copies made during creations, opens and writes. Added new H5O_iterate() routine for iterating through messages of a certain type in the object header (attributes are the only message currently that can have multiple instances in the object header). Cross-pollinated various minor code cleanups to reduce diffs between branches. Platforms tested: FreeBSD 4.10 (sleipnir) w/parallel Solaris 2.7 (arabica) Too minor to require h5committest
* [svn-r8731] Purpose:Quincey Koziol2004-06-231-20/+14
| | | | | | | | | | | | | | | Code cleanup & minor optimization Description: Re-work the way interface initialization routines are specified in the library to avoid the overhead of checking for them in routines where there is no interface initialization routine. This cleans up warnings with gcc 3.4, reduces the library binary size a bit (about 2-3%) and should speedup the library's execution slightly. Platforms tested: FreeBSD 4.10 (sleipnir) w/gcc34 h5committest
* [svn-r7538] Purpose:Quincey Koziol2003-10-051-21/+281
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bug fixes and code cleanup Description: Lots of changes here: - Fixed bug #691 - when shared datatypes are used in attributes they are incorrectly copied into the attribute instead of referring the the named datatype in the file. This required bumping the version of the attribute message. The new version of the attribute message is only written out when a shared datatype is used in the attribute. [Also, this format change made the size of the attribute smaller.] - Added information to attribute debugging routine so that shared datatypes are displayed correctly with the h5debug tool. - Refactored the H5O* routines to extract code that was common to several routines into subroutines to call. - Added 'link' method for H5O message sub-classes, which increments the link count on shared objects when a message is created which shares them. - Corrected [unreported] bug where the link count was not being decremented on the shared object when a object header message with a reference to that object was deleted from the file. - Reduced size of shared message from 49 bytes (which was incorrect anyway and should have been 48 bytes) to 10 bytes, which required bumping the version of "shared" messages. - Refactored some of the shared datatype routines to allow for easier queries of "committedness" internally to the library and also added routine to easily increment/decrement the reference count of a shared datatype. Platforms tested: FreeBSD 4.9 (sleipnir) h5committest
* [svn-r6878] Purpose:Quincey Koziol2003-05-151-4/+5
| | | | | | | | | | | Code cleanup Description: Limit the scope on more function prototypes/macros/typedefs. Platforms tested: FreeBSD 4.8 (sleipnir) h5committest not necessary.
* [svn-r6659] Purpose:Quincey Koziol2003-04-141-0/+1
| | | | | | | | | | | | | | | | New feature, sorta Description: Track changes to various internal APIs Platforms tested: FreeBSD 4.8 (sleipnir) w/C++ Linux 2.4 (burrwhite) w/FORTRAN Solaris 2.7 (arabica) w/FORTRAN IRIX64 6.5 (modi4) w/parallel & FORTRAN (h5committest not run due to my ongoing difficulties with C++ on burrwhite).
* [svn-r6411] Purpose:Quincey Koziol2003-02-171-4/+17
| | | | | | | | | | | | | | | | | | | | | | Code cleanup Description: Clean up miscellaneous warnings which have crept into the code. Fix "_POSIX_C_SOURCE not defined" warning on FreeBSD. Adjust gcc compiler flags to be more concise for production mode. Refactor the H5O code so that there is a stronger boundary between code in the H5O package and code in the library which just calls H5O routines. Platforms tested: Tested h5committest {arabica (fortran), eirene (fortran, C++) modi4 (parallel, fortran)} FreeBSD 4.7 (sleipnir) serial & parallel and gcc 2.95.4 & gcc 3.2.2 Misc. update: Update MANIFEST if you add or remove any file.
* [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 Koziol2003-02-101-5/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | 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 Koziol2003-01-101-4/+4
| | | | | | | | | | | | 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-r5867] Purpose:Quincey Koziol2002-08-091-5/+10
| | | | | | | | | | | | | 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-r5842] Purpose:Quincey Koziol2002-08-081-10/+16
| | | | | | | | | | | | | | | | 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-r5471] Purpose:Quincey Koziol2002-05-291-4/+4
| | | | | | | | | | | | | | | | Code cleanup Description: Broke the FUNC_ENTER macro into several macros, with more specialized uses (which followup mail will describe). This was designed to move most/all of the checks which could be done at compile time to that point, instead of needlessly performing them (over & over :-) at run-time. This reduces the library's size (and thus staticly linked binaries) and has a minor speedup effect also. Platforms tested: IRIX64 6.5 (modi4) with parallel & FORTRAN enabled, and additional testing on FreeBSD and Solaris immediately after the checkin.
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