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* [svn-r12866] Description:Quincey Koziol2006-11-0610-224/+101
| | | | | | | Clean up initialization of H5F & H5L APIs. Tested on: Linux/64 2.6 (chicago2)
* [svn-r12865] Description:Quincey Koziol2006-11-067-39/+47
| | | | | | | Change name of H5Lunlink to H5Ldelete, per our design meeting last Friday. Tested on: Linux/32 2.6 (chicago)
* [svn-r12864] Description:Quincey Koziol2006-11-065-34/+40
| | | | | | | | Changed H5Lget_linkval() to H5Lget_val(), per our design discussion last Friday afternoon. Tested on: Linux/32 2.6 (chicago)
* [svn-r12859] Description:Quincey Koziol2006-11-041-10/+14
| | | | | | | | Fix to handle finding the correct path to an object in a mounted file hierarchy. Tested on: FreeBSD/32 4.11 (sleipnir)
* [svn-r12858] Description:Quincey Koziol2006-11-044-275/+131
| | | | | | | | Clean up code to build name for ID with no name tracked - get rid of global variable, unused routines, etc. Tested on: FreeBSD/32 4.11 (sleipnir)
* [svn-r12855] Description:Quincey Koziol2006-11-031-67/+75
| | | | | | | Further code cleanups to bring into better alignement w/rest of library. Tested on: FreeBSD/32 4.11 (sleipnir)
* [svn-r12854] Description:Quincey Koziol2006-11-031-16/+19
| | | | | | | Clean up some more function name problems and other compiler warnings. Tested on: FreeBSD/32 4.11 (sleipnir)
* [svn-r12853] Description:Quincey Koziol2006-11-031-11/+12
| | | | | | | Correct name of routine in FUNC_ENTER... macro. Tested on: None - just eyeballed, very trivial..
* [svn-r12852] Add the declaration of H5I_get_file_id to avoid a bad windows ↵MuQun Yang2006-11-031-0/+1
| | | | warning.
* [svn-r12849] Purpose: FeatureLeon Arber2006-11-022-4/+359
| | | | | | | | Description: Add ability for H5Iget_name to figure out the path name given an object reference. Tested: kagiso, sol
* [svn-r12848] Description:Quincey Koziol2006-11-024-148/+256
| | | | | | | | | | | | | | Change H5Pset_elink_prefix to be more similar to rest of library and make a copy of the string passed in. Change H5Pget_elink_prefix to be link rest of library routines that query a string. Tested on: FreeBSD/32 4.11 (sleipnir) w/threadsafe & debugging turned on Linux/32 2.4 (heping) w/FORTRAN & C++ Linux/64 2.4 (mir) w/build-all & 1.6 compat enabled AIX/32 5.x (copper) w/FORTRAN & parallel
* [svn-r12847] Corrected the comment describing H5Odecr_refcount's return value.James Laird2006-11-021-1/+1
| | | | Change only in comment block; no testing necessary.
* [svn-r12846] Description:Quincey Koziol2006-11-026-15/+53
| | | | | | | | | | Further minor tweaking of property list class initialization macros, etc. Tested on: FreeBSD/32 4.11 (sleipnir) w/threadsafe & debugging turned on Linux/32 2.4 (heping) w/FORTRAN & C++ Linux/64 2.4 (mir) w/build-all & 1.6 compat enabled AIX/32 5.x (copper) w/FORTRAN & parallel
* [svn-r12845] Description:Quincey Koziol2006-11-025-258/+258
| | | | | | | | | | | | | Finish refactoring job on the library's property list class initialization code, so that the library determines the parent class dependencies at run-time, eliminating the need for developers to initialize the classes in a particular order. Also eliminates some more redundant code... Tested on: FreeBSD/32 4.11 (sleipnir) w/threadsafe & debugging turned on Linux/32 2.4 (heping) w/FORTRAN & C++ Linux/64 2.4 (mir) w/build-all & 1.6 compat enabled AIX/32 5.x (copper) w/FORTRAN & parallel
* [svn-r12844] Description:Quincey Koziol2006-11-023-27/+4
| | | | | | | Fix parallel build failure for property list class initialization refactor. Tested on: AIX (copper) w/parallel
* [svn-r12842] Description:Quincey Koziol2006-11-0248-2247/+2935
| | | | | | | | | | | | | | | | Refactor generic property list initialization code to put property list specific routines in property list modules, instead of scattered to the four winds. Also, introduce property list class initialization objects, to make adding new property list classes in the library easier. Fix daily test failure by using H5Pget_elink_prefix() API routine instead of looking at the "raw" generic property list information. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 4.11 (sleipnir) w/threadsafe Linux/32 2.4 (heping) w/C++ & FORTRAN Linux/64 2.4 (mir) w/build-all & 1.6 compat
* [svn-r12841] Bug fix. The mechanism to handle interupted system call or ↵Raymond Lu2006-11-012-89/+51
| | | | | | partial I/O for reading data may not work well for Direct I/O because of the requirement for data alignment. Took it out.
* [svn-r12835] Description:Quincey Koziol2006-10-314-72/+88
| | | | | | | | | Change H5Lget_linkinfo() to H5Lget_info() to better align with coming API changes. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12833] Description:Quincey Koziol2006-10-311-2/+2
| | | | | | | | Clean up more warnings... Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12832] Description:Quincey Koziol2006-10-308-92/+134
| | | | | | | | | | Clean up formatting and re-organize a bit... Tested on: Max OS X/32 10.4.8 (amazon) FreeBSD/32 4.11 (sleipnir) Linux/32 2.4 (heping) Linux/64 2.4 (mir)
* [svn-r12831] Changed the API for "unpacking" an external link value to take ↵James Laird2006-10-303-16/+38
| | | | | | | | | | the size of the linkval buffer, per Elena and Frank's suggestions while revising the documentation. Added error checking using this size, as well as a couple of tests. Tested on juniper, kagiso, and sol.
* [svn-r12830] Description:Quincey Koziol2006-10-305-90/+203
| | | | | | | | | Finish internal work necessary to track creation order in v2 B-tree when group is in "dense" storage form. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12828] Description:Quincey Koziol2006-10-303-52/+57
| | | | | | | | Clean up compiler warnings... Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12827] Description:Quincey Koziol2006-10-301-1/+1
| | | | | | | | Correct typo that was causing tests to fail. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12825] Description:Quincey Koziol2006-10-3010-20/+388
| | | | | | | | Rudimentary support for creating creation order index (but not inserting links in it yet). Testedon: Mac OS X/32 10.4.8 (amazon)
* [svn-r12824] O_DIRECT flag was accidentally commented out in previous ↵Raymond Lu2006-10-301-1/+1
| | | | checkin. Put it back in.
* [svn-r12823] Description:Quincey Koziol2006-10-299-112/+496
| | | | | | | | | | | | | Add support for compress heap blocks in "managed" heaps. Also, fix bug when the first direct block moves between having a parent and not having one (and vice versa), which occurs when the heap moves between having a direct root block and having an indirect root block. Tested on: FreeBSD 4.11 (sleipnir) w/threadsafe Linux/32 2.4 (heping) w/C++ & FORTRAN Linux/64 2.4 (mir) w/build-all & 1.6 compat
* [svn-r12822] H5Pset_alignment seems working. Added it in test/vfd.c and ↵Raymond Lu2006-10-281-5/+2
| | | | | | made the test more complete by writing two data sets. One is aligned, and the other isn't.
* [svn-r12821] Description:Quincey Koziol2006-10-283-38/+38
| | | | | | | | | Clean up compiler warnings, esp. on 64-bit Linux boxes. Tested on: FreeBSD/32 4.11 (sleipnir) w/threadsafe Linux/32 2.4 (heping) w/C++ & FORTRAN Linux/64 2.4 (mir) w/build-all & 1.6 compat
* [svn-r12820] Added fragmental copy buffer to H5FD_direct_write. This buffer ↵Raymond Lu2006-10-272-92/+136
| | | | | | | size is set through H5Pset_fapl_direct. It's been added to H5FD_direct_read in the previous checkin. Still, a test is needed at later checkin.
* [svn-r12809] Purpose:Albert Cheng2006-10-251-2/+4
| | | | | | | | | | | | | | Bug fix. Description: H5FD_get_vfd_handle() would return okay even if an VFD did not have the get_vfd_handle callback function defined. Solution: Return failure if get_vfd_handle function is not defined. Tested: in heping and copper.
* [svn-r12806] Description:Quincey Koziol2006-10-245-94/+189
| | | | | | | | | | Reduce memory usage for common cases of I/O pipeline filter memory usage. Also, clean up some more code... Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12805] Description:Quincey Koziol2006-10-231-2/+2
| | | | | | | | Fix off-by-one memory error when retrieving I/O pipeline filter's name. Tested on: Linux/64 2.4 (mir) FreeBSD/32 4.11 (sleipnir)
* [svn-r12803] Description:Quincey Koziol2006-10-2321-645/+790
| | | | | | | | | | | | | | Finish new version of the I/O pipeline message, which is much smaller than the previous version. This version is used with the "use the latest version of the format" flag. Closed several memory leaks/overruns (found with valgrind). Also, lots of compiler & formatting cleanups. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12802] Description:Quincey Koziol2006-10-232-23/+27
| | | | | | | | | | Clean up code in passing... Tested on: Linux/32 2.4 (heping) Linux/64 2.4 (mir) FreeBSD/32 4.11(sleipnir) Mac OS/32 10.4.8 (amazon)
* [svn-r12801] Description:Quincey Koziol2006-10-233-335/+478
| | | | | | | | | | | | Fix several errors in the "latest version" of the object header format changes and enable the new version when requested now. Clean up several confusing or duplicated sections of code. Tested on: Linux/32 2.4 (heping) Linux/64 2.4 (mir) FreeBSD/32 4.11 (sleipnir)
* [svn-r12792] Fixed a Makefile.am to clean up a test file generated by the ↵James Laird2006-10-205-889/+890
| | | | | | | | | | | Packet Table compression test. Tested that the file is removed on juniper and heping. Running reconfigure also regenerated the H5E* files (I think this means somebody updated these files but didn't run reconfigure).
* [svn-r12788] Enable the algorithm of Direct driver to read data in fragment ↵Raymond Lu2006-10-191-36/+76
| | | | | | | | from file. If the application requests large data from file, to avoid using too much of memory for copying data from library's own aligned buffer to application's (unaligned) buffer, this step is done in fragment. The next step checkin is to handle writing data in fragment.
* [svn-r12783] Took out the function H5FD_direct_alloc that was added ↵Raymond Lu2006-10-191-47/+1
| | | | | | | yesterday. This function would be redundant because the allocation function in H5FD.c H5FD_real_alloc actually has handled the aligned allocation.
* [svn-r12777] Added support to aligned file space allocation. The alignment ↵Raymond Lu2006-10-181-1/+47
| | | | | | should be set through H5Pset_alignment.
* [svn-r12776] The internal change is to make the 3 parameters of ↵Raymond Lu2006-10-182-24/+200
| | | | | | | | H5Pset_fapl_direct be a structure and passed through driver info functions in H5FD_direct_open, H5FD_direct_read, and H5FD_direct_write. The external change is to add a new API function H5Pget_fapl_direct to query 3 control values, the memory boundary, file system block size, and the maximal buffer size for copying data.
* [svn-r12774] Modified flush code in the metadata cache to allow it toJohn Mainzer2006-10-1812-178/+995
| | | | | | | | | | | | | | | | | 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-r12771] Description:Quincey Koziol2006-10-174-151/+453
| | | | | | | | | | | | | | | | | More fixes to make the I/O & memory operations more efficient when loading & flushing object header chunks. Add in concept of a chunk having a "gap" at the end - unused space that is not large enough to hold a full null message that describes it. Clean up formatting a bit. Latest version of object header format not enabled yet, still working on a few bugs... Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12770] Description:Quincey Koziol2006-10-163-374/+359
| | | | | | | | | | | | | | | Overhaul usage of object header chunks to reduce I/O operations and memory allocations. The object header prefix is now stored in the first object header chunk's "image" in memory. Also, lots of formatting cleanups. Taught h5debug tool about new object header format (which isn't enabled just yet). Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12769] Description:Quincey Koziol2006-10-161-53/+50
| | | | | | | | | | | Move object header creation past several internal possibilities for errors, making the routine more resistant to errors encountered. Also, various formatting/compiler warning cleanups. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12768] Description:Quincey Koziol2006-10-166-26/+26
| | | | | | | | | | Add 'initval' parameter to "lookup3" checksum routine (and implicitly to the metadata checksum routine), to allow chaining several checksums together easily (which isn't used by these modules, but will be used in my next checkin) Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12767] Description:Quincey Koziol2006-10-164-14/+16
| | | | | | | | Code cleanup to improve formatting & reduce compiler warnings. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12766] Made two changes to Direct I/O VFD: first added 3 parameters to ↵Raymond Lu2006-10-162-124/+170
| | | | | | | | H5Pset_fapl_direct to control memory boundary, file block size, and maximal copy buffer size; second in H5FD_direct_write and H5FD_direct_read, the library checks whether data buffer is aligned. If it is, then write and read the data directly instead of making a copy buffer.
* [svn-r12761] Description:Quincey Koziol2006-10-166-388/+444
| | | | | | | | | | Refactor object header macros, in preparation for updating the format. Tested on: Mac OS/PPC 10.4.8 (amazon) FreeBSD/32 4.11 (sleipnir) w/thread-safe Linux/32 2.4 (heping) w/C++ & FORTRAN Linux/64 2.4 (mir) w/1.6 compat & build-all
* [svn-r12760] Description:Quincey Koziol2006-10-161-3/+253
| | | | | | | | | | | | Speculatively attempt to read in the entire first chunk in object header with the object header prefix. If successful (which it is most of the time), this reduces by 1 the # of I/Os required to read in the object header. Since the object header typically was taking 2 I/Os, this should cut the number of I/O operations when opening an object's header in half. Tested on: FreeBSD/32 4.11 (sleipnir) w/threadsafe Linux/32 2.4 (heping) w/C++ & FORTRAN
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