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* [svn-r12209] Purpose:Albert Cheng2006-04-071-32/+49
| | | | | | | | | | | | | | | | Bug fix. Description: getenv_all would fail if one calls it without calling MPI_initialized first. This may happen if one uses PHDF5 library to build a serial nature code and does not make any MPI calls. Solution: Added code to detect if MPI has been initialized. If not, use the original getenv. Platforms tested: heping (serial) and mir (parallel).
* [svn-r12191] Purpose:Quincey Koziol2006-04-021-7/+7
| | | | | | | | | | | | | Bug fix Description: Correct the handling of the group creation property list when copying objects with the "create intermediate groups" flag. Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest (once I pay attention to the compiler warnings... :-)
* [svn-r12190] Purpose:Quincey Koziol2006-04-011-13/+135
| | | | | | | | | | | | Code checkpoint Description: Update fractal heap code to allow skipping direct blocks (that are too small to hold object) when the root indirect block is created. Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
* [svn-r12189] Purpose:Quincey Koziol2006-04-011-114/+1487
| | | | | | | | | | | | | | 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-r12184] Purpose:Quincey Koziol2006-03-311-95/+428
| | | | | | | | | | | | | | | Code checkpoint Description: Checkpoint recent additions to fractal heap code, which allow for better support of objects that don't fit into current direct block, requiring skipped direct blocks to be tracked in free section list. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 (chicago & heping) Linux 2.4 (mir) w/64-bit & FORTRAN & C++ Mac OSX (amazon)
* [svn-r12182] Purpose: Change comment.Raymond Lu2006-03-301-3/+4
| | | | | | | Description: Changed comment to better describe the code. Platforms tested: No test is needed.
* [svn-r12175] Purpose: Changed Dataset NameRaymond Lu2006-03-305-2/+2
| | | | | | | | Description: As requested by Pedro, changed the data set name from "IntArray" to "Array". Platforms tested: fuss and shanti - simple change.
* [svn-r12162] Purpose:Quincey Koziol2006-03-281-769/+315
| | | | | | | | | | | | Code checkpoint Description: Check in fractal heap code to add basic support for skipping direct blocks when an object is too large to fit in one. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 (chicago)
* [svn-r12161] Purpose:Quincey Koziol2006-03-271-165/+4064
| | | | | | | | | | | | | | | | Code checkpoint Description: Checkpoint fractal heap code at a stable point in development. It appears that adding objects to heaps and reading them back out is now working properly (as long as there are no gaps in the heap and no standalone objects are created). Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 (chicago) Linux 2.4 (mir) w/64-bit & FORTRAN & C++ Solaris 9 (shanti) w/64-bit
* [svn-r12151] Purpose: New testRaymond Lu2006-03-247-27/+309
| | | | | | | | | | | | | Description: cross_read.c is a new program to test reading data created on an OpenVMS, a little-endian, and a big-endian machine. The three data files are vms_data.h5, be_data.h5, and le_data.h5. To generate these data files, run gen_cross.c on these machines and change the file names. Platforms tested: fuss and h5committest Misc. update: MANIFEST
* [svn-r12149] Purpose:James Laird2006-03-231-7/+1
| | | | | | | | | | | | | | | | Bug fix Description: Previous checkin did a bad thing; 'make clean' failed in example directories. Solution: Fixed commence.am so that examples no longer break, and fixed a mistake in conclude.am. Platforms tested: heping (minor makefile change) Misc. update:
* [svn-r12143] Purpose:James Laird2006-03-231-0/+4
| | | | | | | | | | | | | | Bug fix Description: make check-clean didn't clean results of example tests Solution: Fixed Makefiles so that check-clean recurses into example directories. Also a little Makefile cleanup. Platforms tested: mir, modi4, heping, copper
* [svn-r12137] Purpose: UpdateRaymond Lu2006-03-221-0/+2
| | | | | | | | | | | Description: OpenVMS doesn't support denormalized floating-point values. Disable the denormalized and special values for floating to floating-point tests. Platforms tested: OpenVMS - the only concerned machine. Misc. update:
* [svn-r12128] Purpose:Quincey Koziol2006-03-221-3/+3
| | | | | | | | | | | Code cleanup Description: Clean up some compiler warnings (esp. those flagged on Windows builds) Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
* [svn-r12125] Purpose:Quincey Koziol2006-03-211-52/+594
| | | | | | | | | | | | | | | Code checkpoint Description: Update fractal heap code to insert & read heaps up to 64MB in size (with my current configuration paramaters) and add initial support for iteratively walking down nested indirect blocks. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 (chicago) Solaris 9 (shanti) Linux 2.4 (mir) w/64-bit
* [svn-r12122] Purpose:Quincey Koziol2006-03-181-2/+100
| | | | | | | | | | | Code update Description: Add basics of routine for reading information back out of a fractal heap. Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
* [svn-r12118] Purpose:Quincey Koziol2006-03-181-4/+4
| | | | | | | | | | | | | Checkpoint code Description: Rework code to support increasing size of root indirect block, in order to add [at least] a second row of direct blocks. Platforms tested: FreeBSD 4.11 (sleipnir) Solaris 9 (shanti) w/64-bit Linux 2.4 (mir)
* [svn-r12116] Purpose: Bug fix.Raymond Lu2006-03-171-2/+2
| | | | | | | | | | Description: Two semicolons were missing in the code change for VAX support. Solution: Fixed. Platforms tested: fuss - too simple. Misc. update:
* [svn-r12106] Purpose: Minor changeRaymond Lu2006-03-161-23/+23
| | | | | | | Description: changed macro VMS to H5_VMS Platforms tested: no test needed
* [svn-r12093] Purpose:Quincey Koziol2006-03-151-14/+188
| | | | | | | | | | | | | Code checkpoint Description: Checkpoint fractal heap changes - mostly internal changes to better handle more direct blocks from root indirect block. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 (chicago) Mac OS X (amazon)
* [svn-r12091] Purpose: Support for VAX floating-point types.Raymond Lu2006-03-141-56/+211
| | | | | | | | | | | | Solution: Support VAX float and double types with new byte order. There're some details not yet included, 1. the alignment detection for VAX order in H5detect.c. 2. support for special values in library conversion functions. 3. the infinity for VAX in H5T_init_inf. 4. support for VAX types in printing hexadecimal format. Platforms tested: h5committest and fuss.
* [svn-r12084] Purpose:Quincey Koziol2006-03-131-7/+596
| | | | | | | | | | | | | | | | 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-r12078] Purpose:Quincey Koziol2006-03-111-0/+112
| | | | | | | | | | | | New features Description: Add "find node greater than or equal to key" and "remove first" operations to skip lists. Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
* [svn-r12055] Purpose: VMS portElena Pourmal2006-03-091-5/+18
| | | | | | | | | | | | | | Description: By default on VMS system file cannot be opened twice; also VMS has file versioning. This brakes some of our tests. Solution: Tests are commented out with H5_CANNOT_OPEN_TWICE and H5_HAVE_FILE_VERSIONS that are defined in the vms/h5pubconf.h file only. This change cannot affect any other platform. Platforms tested: heping, VMS server Misc. update:
* [svn-r12019] Purpose:Leon Arber2006-03-071-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bug fix/Feature Description: Modify the library to use rand_r, when available, instead of srand. If rand_r is not available, it will try to use srandom/random, and then finally fall back to srand/rand. Solution: A couple places in the library use the srand() function to seed the random number generator. This can cause problems on certain platforms and could theoretically cause problems for users who expect a certain sequence of random numbers following their own call to srand(). Most platforms have an implementation of rand_r, which is identical to rand, except that it allows for explicit storage of the seed value. The configure script will now check for the existence of rand_r to facilitate its use in the library. Two new functions are added, to replace the macros HDsrand/HDrand. These functions are HDrand and HDsrand. HDrand will call rand_r, if available, or random(), if available, and fall back to rand() if neither of those is available. HDsrand will store the seed value locally, if rand_r is available. Otherwise, it will call srandom if available, and fall back to srand otherwise. Platforms tested: heping, mir. Really need to test on Red Storm, since that platform motivated this fix, but the machine is currently not available. Misc. update:
* [svn-r12018] Purpose:Quincey Koziol2006-03-071-2/+0
| | | | | | | | | | Bug fix Description: Uncomment tests Platforms tested: Linux 2.4 (mir) - 64-bit
* [svn-r12008] Purpose:Quincey Koziol2006-03-061-1/+3
| | | | | | | | | | | Bug fix (sorta) Description: Disable the fractal heap tests until I can look into them more thoroughly. (they are failing on 64-bit machines currently) Platforms tested: None - trivial change.
* [svn-r12004] Purpose:Quincey Koziol2006-03-041-14/+58
| | | | | | | | | | | | | | | | | 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-r11968] Purpose:Quincey Koziol2006-02-271-12/+20
| | | | | | | | | | | | | | Incrementtal checkin Description: Revise & update v2 B-tree code to separate the internal package-specific routines from the library-callable "private" routines. Similar updates for the fractal heap code. Platforms tested: FreeBSD 4.11 (sleipnir) Mac OSX (amazon)
* [svn-r11967] Purpose:Quincey Koziol2006-02-273-31/+290
| | | | | | | | | | | | | | | 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-r11966] Purpose:Quincey Koziol2006-02-272-512/+430
| | | | | | | | | | | | Code cleanup Description: Style fixes for consistency & other minor cleanups Platforms tested: FreeBSD 4.11 (sleipnir) Mac OSX (amazon) Linux 2.4
* [svn-r11965] Purpose:Quincey Koziol2006-02-245-2490/+30
| | | | | | | | | | | | 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-r11903] Purpose:John Mainzer2006-01-293-0/+6564
| | | | | | | | | | | | | | | | | | | | | | Add files that I forgot in my last checkin. Description: cache_api.c cache_common.c cache_common.h are new files that result from breaking the old cache test into two tests. Solution: See above. Platforms tested: h5committested before the last checkin. Will run another h5committest shortly, but it shouldn't be necessary as there are no new changes. Misc. update:
* [svn-r11901] Purpose:Quincey Koziol2006-01-281-0/+82
| | | | | | | | | | | | | | Bug fix/additional tests Description: Add additional tests for holding open an object of a given type (dataset, group, etc) while incorrectly trying to open that object with a different type of API routine (i.e. using the group open call on a dataset, etc.) Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
* [svn-r11899] Purpose:Quincey Koziol2006-01-281-98/+630
| | | | | | | | | | | | | | | | Bug fix & new feature Description: Support variable-length datatypes in compact data storage and chunked data storage, along with attributes. Bug fix on the H5T_vlen_set_loc to allow for changing the file on a variable-length datatype on disk. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 Can't h5committest right now, due to missing cache files.
* [svn-r11897] Purpose:John Mainzer2006-01-273-6316/+30
| | | | | | | | | | | | | | | | | | | | | | | | | | | | 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-r11886] Purpose:Quincey Koziol2006-01-238-43/+45
| | | | | | | | | | | | | 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-r11875] Purpose:Albert Cheng2006-01-091-13/+29
| | | | | | | | | | | | | | | | | | | | Bug fix. Description: getenv_all, like some implementations of getenv, keeps an internal buffer for the getenv values. Application must make a copy of the content of the returned pointer before calling getenv_all again IF it wants to use the first content later. The previous code violated this rule and caused error. Solution: Did a small revamp of the h5_fixname to fix the above problem by moving the getenv_all for HDF5_NOCLEANUP eariler to avoid it clashing the call of getenv_all for HDF5_PARAPREFIX. No a good permenant fix. Need to really recode this routine. Platforms tested: h5committested.
* [svn-r11871] Purpose:Albert Cheng2006-01-093-8/+26
| | | | | | | | | | | | | | Bug fix. Description: getenv_all will be called even when it is NOT an MPI application. Solution: Moved the use of getenv_all("HDF5_NOCLEANUP") to fix_name so that it will be invoked only if a parallel driver is used. Platforms tested: hand tested in copper.
* [svn-r11866] Purpose:Albert Cheng2006-01-061-1/+7
| | | | | | | | | | | | | | | | | | | | bug fix 504 Description: testpar/t_mpi would hang if $HDF5_NOCLEANUP is set. E.g., % env HDF5_NOCLEANUP=yes mpirun -np 3 ./t_mpi This happened because the environment variables are not exported to all mpi processes by the mpirun command. So, some attempted to do cleanup while others don't and some hang waiting for others to act. Solution: Instead individual program checking getenv, they all just called h5_cleanup no matter. h5_cleanup now uses getenv_all to check the $HDF5_NOCLEANUP if it is in parallel mode. Platforms tested: h5committested, tested pp in heping too.
* [svn-r11850] Purpose:James Laird2006-01-021-1/+117
| | | | | | | | | | | | | | 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-r11838] Purpose:Quincey Koziol2005-12-263-925/+310
| | | | | | | | | | | | | | | | Bug fix Description: Retrieving an object's name could fail (in various ways) under certain circumstances (mostly having to do with mounted files). Solution: Re-write & simplify "get object name" code to fix error in a better way than adding yet another hack to the previous pile of hacks... :-) Platforms tested: FreeBSD 4.11 (sleipnir) h5committest
* [svn-r11774] Purpose:Quincey Koziol2005-12-081-2/+7
| | | | | | | | | | | | Extra test Description: Add test to make certain that trying to call H5Fopen() on a non-existant file fails. Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
* [svn-r11771] Purpose:Quincey Koziol2005-12-084-48/+47
| | | | | | | | | | | | Code cleanup Description: Fix a bunch of warnings flagged by Windows compilers. Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
* [svn-r11758] Purpose:Quincey Koziol2005-12-041-71/+1058
| | | | | | | | | | | | | 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-r11741] Purpose:James Laird2005-11-181-6/+16
| | | | | | | | | | | | | | | | | Bug fix Description: Fortran type generation was broken in two ways. Fixed both. Solution: Firstly, there were a couple of path problems. Fixed a typo and specified the full path of a file. Secondly, the dependencies weren't right when building with HDF5-specific commands (make lib, make check-s, etc.). Tweaked dependencies to fix the problem. Platforms tested: mir, modi4, sleipnir
* [svn-r11738] Purpose:James Laird2005-11-181-0/+4
| | | | | | | | | | | | | | | | | | | Configure feature Description: Added 'make trace' target. Solution: Added tracing to 1.7. This was done automatically in 1.6, but left out of 1.7 until now (oops!). Tracing in 1.7 only happens manually, when the user types 'make trace.' Tracing automatically requires more framework than it's worth. I also fixed a couple of tracing bugs and ran trace. Platforms tested: mir, sleipnir, modi4 Misc. update:
* [svn-r11737] Purpose:James Laird2005-11-171-0/+8
| | | | | | | | | | | | | | | | | | | | | | | | Bug fix Description: Before this checkin, 'gmake check-s' would fail if there was a file in the current directory named 'check-s'. This is fixed under gmake (not sure how to fix for other makes). Solution: check, progs, install, etc. are what gmake calls "phony" targets, which means that no file should be created. These targets can be specified by a line of the form .PHONY: check progs install ... Automake adds this line for targets it knows about, but HDF5 has a lot of custom rules. This checkin adds a .PHONY line for those rules. I believe that only gmake recognizes the .PHONY line (at least, pmake doesn't seem to), but a partial solution is better than none. This error should occur very rarely anyway (the user has to manually create files with names like 'build-check-s' or '_test'). Platforms tested: mir, sleipnir, modi4
* [svn-r11732] Purpose:Quincey Koziol2005-11-161-3/+48
| | | | | | | | | | | | | More tests Description: Add more tests for proper behavior of groups with different group creation property settings. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 Solaris 2.8
* [svn-r11726] Purpose:James Laird2005-11-151-9/+10
| | | | | | | | | | | | | | | | | | Bug fix Description: Fixed bug in hl/src Makefile that was deleting y.tab.c. Running bin/reconfigure changed a few other files as well (somebody probably updated Makefiles.am but forgot to bin/reconfigure). Solution: Automake in its wisdom adds the line "rm *.tab.c" to every distclean in every directory. I assume that it assumes that such files are generated during the build. Supplied an empty distclean-compile target to remove this line from the Makefiles.in. Platforms tested: mir, sleipnir, shanti
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