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* [svn-r12399] Purpose:Quincey Koziol2006-06-021-0/+4
| | | | | | | | | | Bug fix Description: Disable this file generator unless the group revision flag is enabled. Platforms tested: None, just eyeballed - very minor change
* [svn-r12395] Purpose:Albert Cheng2006-06-012-0/+33
| | | | | | | | | | | | | | Feature Description: Sometimes the parallel prefix is given in the form of nfs:/mnt/pfs which if given to a non-MPIO VFD like the default H5Fcreate, it would fail. Added a new routine h5_rmprefix which would return the non-prefix component part of the file name which would be okay for the default H5Fcreate and such. Platforms tested: Tested in heping parallel.
* [svn-r12386] Purpose:Albert Cheng2006-05-311-27/+42
| | | | | | | | | | | | | | | | | | Added Exress Test mode. Description: The test takes a long time to run. It tempted developers to skip the h5committest. Solution: Added Express Test mode to allow tester an option to run it in express mode (shorter time.) There are already encoded QAK macro which skips many tests. Follow that pattern to skip tests when HDF5TestExpress is set. Platforms tested: Tested in heping, both serial and parallel.
* [svn-r12374] Purpose:John Mainzer2006-05-243-1257/+517
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 1) Check in potential fix to unreproduceable bug in t_cache observed on Cobalt 2) Check in code supporting added pinned entry features in the metadata cache. Description: 1) Elena encountered a bug in t_cache when running on Cobalt. On investigation I found a potential race condition in t_cache that could explain her observation. 2) Quincey requested additions to the metadata cache allowing renaming of pinned entryies, and marking of pinned or protected entries as dirty. Solution: 1) Modified t_cache.c to prevent the potential race condition. Elena was unable to reproduce the bug on Cobalt, so we don't know if my fix actually addressed the problem. 2) Added code supporting the requested functions. The changes were relatively trivial, but required substantial new test code. Platforms tested: h5committest, serial test on heping, parallel test on phoenix. Misc. update:
* [svn-r12362] Purpose:Quincey Koziol2006-05-221-11/+1046
| | | | | | | | | | | | | | | | | | | | | Code checkpoint Description: Update fractal heap code to allow objects to be deleted Fix bugs in fractal heap object insertion Improve free space manager code to allow sections to be merged and shrink the container Another try at making the Windows compilers happy... Platforms tested: FreeBSD 4.11 (sleipnir) Mac OS X.4/PPC (amazon) Linux 2.4 (chicago & heping) Solaris 2.9 (shanti) AIX 5.? (copper) w/parallel
* [svn-r12358] Purpose:Albert Cheng2006-05-191-1/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bug fix. Description: The ${TR}, though avoid the error, is inconvenient. It is needed because configure.in use the char range in the style of 'a-z'. The other style of '[a-z]' is more commonly accepted by all tr but autoconf tends to strip away [], making the syntax rather clumsy. Solution: Learned from autoconf that it avoids the use of character range by just spell all the letters out. Changed our tr commands to use those variables defined by autoconf. Also removed the definition of ${TR} since it will cause inconsistancy when autoconf also use plain 'tr' in its generated code. The Makefile.in are changed because the elimination of ${TR} from configure triggered its removal from all Makefil.in. That is okay because ${TR} is not used at all in Makefile. Platforms tested: h5committested. (sol failed to connected). also tested in shanti using both /usr/ucb/tr and /bin/tr (the bad one before.) Misc. update: Updated both INSTALL and RELEASE files.
* [svn-r12349] Purpose:Quincey Koziol2006-05-151-393/+1847
| | | | | | | | | | | | | | | Code checkpoint Description: Checkpoint fractal heap improvements, as well as move the free space manager code that it's using into a separate package. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4/64 (mir) w/C++ & FORTRAN Linux 2.4/32 (heping) Solaris 2.9 (shanti) AIX 5.? (copper) w/FORTRAN & parallel
* [svn-r12345] Purpose: Codes for backward compatibility.Raymond Lu2006-05-123-4/+5
| | | | | | | | | | Description: Function prototype H5E_walk_t and structure H5E_error_t wasn't backward compatible. Solution: Make them compatible with v1.6 and provide new definitions of H5E_walk_stack_t and H5E_error_stack_t. Platforms tested: fuss and h5committest.
* [svn-r12341] Elena Pourmal2006-05-081-0/+1
| | | | | | | | | | | | | | | | | Purpose: Maintenance Description: dtypes.c compilation failed with gcc 4.1 due to the missing prototype of the opaque_funcs function. Failure was reported by a user who tried to build hdf5-1.8.0-alpha2. I reproduced the failure on sleipnir with gcc41 compiler. Solution: Added prototype definition. Platforms tested: sleipnir with gcc41, heping and copper Misc. update:
* [svn-r12327] Purpose:James Laird2006-05-031-0/+4
| | | | | | | | | | | | | | Bug fix Description: A datatype wasn't being closed in th5s.c Solution: This minor oversight caused an error with my Object Header code. The datatype is now closed in the test. Platforms tested: windows, mir, copper
* [svn-r12322] Purpose: Test some functionsRaymond Lu2006-05-024-5/+733
| | | | | | | | Description: Test some data type functions that are and aren't supposed to work with some data types. Platforms tested: h5committest and fuss.
* [svn-r12321] Purpose:John Mainzer2006-05-021-197/+201
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bug fix Description: Fix two test bugs: 1) Unitialized variable bug in test of H5C_get_entry_status() (in test/cache.c) 2) Incorrect initialization of constant in t_cache when running with MPE. (in testpar/t_cache.c) Solution: 1) Don't test uninitialize variable. 2) Correct initialzation of constant in MPE case. Platforms tested: Tested on Heping and Copper. Misc. update:
* [svn-r12317] Purpose:Quincey Koziol2006-04-301-553/+3601
| | | | | | | | | | | | | | | | Code checkpoint Description: More progress on fractal heap, can now re-open an existing heap, although the free space algorithm still needs work. Also, use the new "pinned entry" metadata cache code. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 (heping) Solaris 9 (shanti) Linux 2.4/64 (mir)
* [svn-r12316] Purpose:Quincey Koziol2006-04-293-26/+33
| | | | | | | | | | | | | | | Code cleanup/feature twist Description: Adjust recent H5AC routines to take H5F_t pointers instead of H5C_t pointers, to match the rest of the H5AC routines. This change propagated into a few of the tests, which also had some compiler warnings cleaned up... Platforms tested: FreeBSD 4.11 (sleipnir) w/parallel Linux 2.4/64 (mir) w/C++ & FORTRAN
* [svn-r12311] Purpose:John Mainzer2006-04-283-24/+3986
| | | | | | | | | | | | | | | | | | | | | | | | | Add pinned entry capability to cache. Description: For frequently accessed cache entries, the protect/unprotect overhead is sometimes a bottleneck. Solution: Allow entries to be pinned in the cache. Pinned entries can't be evicted, but can be flushed or modified. Platforms tested: h5committested -- minus one small typo in test/cache.c whose fix was tested on copper and heping only. Misc. update:
* [svn-r12295] Purpose:James Laird2006-04-212-4/+6
| | | | | | | | | | | | | | | | | | | Several bug fixes Description: Added config file for Cray X1 (previous file was misnamed) Simplified some code in hyperslab.c test that seemed to have been confusing compiler on Cray X1. Fixed typo in config/commence.am Cleaned up hl/src/Makefile.am Solution: All four fixes should be straightforward. The failure on Cray was very difficult to debug, but involved arithmetic errors. This change seems to fix it. Platforms tested: heping, copper, sol, some Cray X1 (more testing when system comes back up)
* [svn-r12292] Purpose:Quincey Koziol2006-04-201-1/+1
| | | | | | | | | | | | | Code maintenance Description: Remove flexible parallel code Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 (heping) Solaris 2.9 (shanti) Linux 2.4/64 (mir)
* [svn-r12286] Purpose: Fix bugBinh-Minh Ribler2006-04-202-3/+3
| | | | | | | | | | | | | | | | | Description: The file size test in C++ library failed on Copper because the value returned by h5_get_file_size was intepreted incorrectly due to different interger sizes. Solution: H5private.h: Added check to use stat64 and off64_t where appropriate. h5test.c and h5test.h: used h5_stat_size_t in place of off_t. tattr.cpp: used h5_stat_size_t in place of off_t. Platforms tested: Linux 2.4 (heping) AIX 5.1 (copper) SunOS 5.8 64-bit (sol) - still on going
* [svn-r12280] Purpose:HDF Admin2006-04-191-1/+4
| | | | | | | | | | | | | | Bug fix. Description: It did not handle the case when version sub-release string is not empty. Solution: Fixed the sed substitution to remove the sub-release string too. Platforms tested: Heping.
* [svn-r12259] Purpose:Quincey Koziol2006-04-151-3/+288
| | | | | | | | | | | | | Code checkpoint Description: Add more regression tests for odd insertion patterns Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 (heping) Linux 2.4/64 (mir) Solaris 2.9 (shanti)
* [svn-r12258] Purpose:Quincey Koziol2006-04-151-2649/+2056
| | | | | | | | | | | | | | | | | | | Code checkpoint Description: Add in more fractal heap support for odd allocation patterns (entries that are too large for various block sizes, etc.) Broke out fractal heap code into more source code modules. Refactored fractal heap test to make it more understandable and maintainable for the long term. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 (heping) Linux 2.4/64 (mir) Solaris 2.9 (shanti)
* [svn-r12254] Purpose:Quincey Koziol2006-04-148-67/+69
| | | | | | | | | | | | | | Anti-feature Description: Revert changes to H5G_stat_t struct, to make it compatible with the 1.6.x branch again. The information that was added to the H5G_stat_t struct will be reported through other API routines. Platforms tested: FreeBSD 4.11 (sleipnir) w/C++ Linux 2.4/64 (mir) w/C++ & Fortran Solaris 2.9 (shanti)
* [svn-r12229] Purpose:Pedro Vicente Nunes2006-04-122-2/+5
| | | | | | | | | | | | | | | | | | | | | new feature Description: 1) separated the HL library into "public" and "private" header files, with the same caracteristics as the basic library 2) added the public headers to hdf5.h (with a conditional include macro, defined in configure.in) 3) added the path to HL in all Makefile.am 's , because of the inclusion in hdf5.h Solution: Platforms tested: linux 32, 64 AIX solaris with fortran and c++ (one packet table example fails) Misc. update:
* [svn-r12221] Purpose:Quincey Koziol2006-04-108-0/+18
| | | | | | | | | | | | | | | "Hide" file format changes (for now) Description: Add ifdef's (controlled by the --enable-group-revision configure flag) to disable group revision changes to the file format, in order to allow alpha release to go ahead without releasing an unsupported version into the wild. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 32-bit (heping) Linux 2.4 64-bit (mir) Solaris 2.9 (shanti)
* [svn-r12210] Purpose:Albert Cheng2006-04-072-0/+49
| | | | | | | | | | | | feature Description: Added the GetTestExpress and SetTestExpress to support the TestExpress mode according to $HDF5TextExpress. For now, it is just defined or not, the actual value does not matter. Platforms tested: heping(serial), mir (PP).
* [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:
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