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* [svn-r19396] Description:Quincey Koziol2010-09-162-111/+28
| | | | | | | | | | | | | | | | | | | | | | | | Bring back various modifications to the v2 B-trees that were introduced in the revise_chunks branch but aren't dependent on any file format or API changes. 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/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (amani) 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, w/threadsafe, in production mode Linux/PPC 2.6 (heiwa) w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in debug mode Mac OS X/32 10.6.4 (amazon) in debug mode Mac OS X/32 10.6.4 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode Mac OS X/32 10.6.4 (amazon) w/parallel, in debug mode
* [svn-r19386] Purpose: Fix assertion failure caused by fractal heap header ↵Neil Fortner2010-09-151-1/+141
| | | | | | | | | | | | | | file pointer Description: The fractal heap header structure keeps a pointer to the file associated with it. However, it is possible for that file pointer to be closed while the header is still in cache (through the shared file pointer). Previously, the header's file pointer was not updated and subsequently pointed to an invalid file structure. Modified fractal heap code to update the file pointer every time the header is accessed. Tested: jam, linew, amani (h5committest)
* [svn-r19367] Purpose:Mike McGreevy2010-09-106-44/+39
| | | | | | | | | | | | | | | | | | | Add windows threads support to HDF5. Description: Added calls to the windows threads library to the H5TS layer, and wrapped most calls to either pthreads or windows threads library with portable H5TS-style defines. Modified tests to use portable function definitions as well. This can be configured via CMake with the HDF5_ENABLE_THREADSAFE option, and should work on windows vista and later operating systems. Tested: h5committest, plus threadsafe with pthreads on jam and amani, and tested on a Windows Vista VM with threadsafe using windows threads.
* [svn-r19366] Updated autoconf to version 2.6.7, libtool to version 2.2.10, ↵Larry Knox2010-09-101-1/+1
| | | | | | and m4 to version 1.4.14. Also added m4 directory for m4 macros according to autoconf suggestion. Tested with h5committest on amani, jam, and heiwa, and on linew.
* [svn-r19363] When mandatory filter failed to write data chunks, the datasetRaymond Lu2010-09-094-23/+413
| | | | | | | couldn't close (bug 1260). The fix releases all resources and closes the dataset but returns a failure. Tested with h5committest - jam, heiwa, amani.
* [svn-r19361] Move Windows specific compile and link flags to macrosAllen Byrne2010-09-091-70/+7
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* [svn-r19354] Quincey and I made H5Eset_current_stack also close the stack to ↵Raymond Lu2010-09-071-0/+65
| | | | | | | | be set. This is to avoid H5Eclose_stack clearing the default stack. Please see bug 1799. Tested on jam - simple change.
* [svn-r19352] Description:Quincey Koziol2010-09-041-21/+10
| | | | | | | | Align w/changes on revise_chunks branch Tested on: Mac OS X/32 10.6.4 (amazon) w/debug & production (too minor to require h5committest)
* [svn-r19331] Correct list of h5 files needed for testsAllen Byrne2010-09-011-1/+3
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* [svn-r19328] Description:Quincey Koziol2010-08-311-11/+33
| | | | | | | | | | | | | Add some extra range checking for invalid chunk sizes. Tweak default chunk sizes to be zero, so that it's more likely that application developers will be forced to set them correctly. Add a few tests to verify these checks. Tested on: Mac OS X/32 10.6.4 (amazon) w/debug & production (too minor to require h5committest)
* [svn-r19325] Added parallel build commands.Allen Byrne2010-08-311-79/+142
| | | | | | | Corrected use/name of source folder aliases. Duplicated FindMPI.cmake so that non-c++ compiler is found first (recommemded commands did not work). Tested: local linux with mpich
* [svn-r19313] Description:Quincey Koziol2010-08-262-57/+49
| | | | | | | | Clean up a few compiler warnings and style issues in/near recent changes. Tested on: Mac OS X/32 10.6.4 (amazon) w/debug & production (too minor to require h5committest)
* [svn-r19309] Description:Quincey Koziol2010-08-261-0/+126
| | | | | | | | | | | | | | | | | | | Bring revisions from Coverity branch back to trunk: r19191: Fix coverity items 104 and 105. Added calls to H5HF_sect_indirect_free to H5HF_sect_indirect_reduce and H5HF_sect_indirect_reduce_row if there is an errorbefore "peer_sect" is linked into the main free space structure via its direct sections. Also delayed call to H5HF_sect_indirect_first to prevent peer_sect from being left in an inconsistent state. r19268: Added fix to disallow extendible compact dataset. This was the same check as in H5D_contig_construct() in H5Dcontig.c. Added test to verify the creation of extendible dataset with various layouts. Tested on: Mac OS X/32 10.6.4 (amazon) w/debug & production (h5committested on branch)
* [svn-r19297] Description:Quincey Koziol2010-08-254-6/+65
| | | | | | | | | | Whack a few more memory errors exposed by valgrind. Make the debugging dump output a little bit prettier. Tested on: Mac OS X/32 10.6.4 (amazon) w/debug (h5committest forthcoming)
* [svn-r19288] Bug 1934 - I added support of all data types for H5Tget_order. ↵Raymond Lu2010-08-241-19/+51
| | | | | | | | | | | | I added a new byte order H5T_ORDER_MIXED specifically for compound types and its derived types. They report mixed orders if they have members of different orders. There is no change to configure.in, config, and Makefile.am in the top directory. They have some property changes when I merged the code from 1.8. Tested on jam. I tested the same change for 1.8 with h5committest.
* [svn-r19278] Description:Quincey Koziol2010-08-233-149/+136
| | | | | | | | | | | | | | | | | | | | | | More fixes to memory allocation, etc. exposed by valgrind. 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/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (amani) 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, w/threadsafe, in production mode Linux/PPC 2.6 (heiwa) w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in debug mode Mac OS X/32 10.6.4 (amazon) in debug mode Mac OS X/32 10.6.4 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode Mac OS X/32 10.6.4 (amazon) w/parallel, in debug mode
* [svn-r19272] Description:Quincey Koziol2010-08-2013-330/+538
| | | | | | | | | | | | Close out various resource leaks and usages of uninitialized memory that were flagged by valgrind. [There's still some more valgrind warnings, but it's better now... :-/ ] Also clean up warnings and code formatting. Tested on: Mac OS X/32 10.6.4 (amazon) w/debug & valgrind (h5committest forthcoming)
* [svn-r19251] New feature(bug #1934): I made H5Tset_order support all data ↵Raymond Lu2010-08-192-27/+124
| | | | | | | | | | | | | | | | | | types with some restictions: 1. For enum type, members shouldn't be defined yet. 2. H5T_ORDER_NONE only works for reference and fixed-length string. 3. For opaque type, the order will be ignored. 4. For compound type, all restrictions above apply to the members. I'll change H5Tget_order and do another commit. There is no change to configure.in, config, and Makefile.am. There is some property change for these files when I did a merge from 1.8. Tested on jam. But I tested the 1.8 on heiwa, and amani.
* [svn-r19242] Description:Quincey Koziol2010-08-162-4/+22
| | | | | | | | | Add in override for testing timeout alarm to allow "HDF5_ALARM_SECONDS" environment variable to change the timeout value from the default value. Tested on: Mac OS X/32 10.6.4 (amazon) w/debug & production (Too minor to require h5committest)
* [svn-r19237] Description:Quincey Koziol2010-08-122-27/+22
| | | | | | | | | | Clean up misc. compiler warnings. Tested on: FreeBSD/32 6.3 (duty) in debug mode Mac OS X/32 10.6.4 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode Mac OS X/32 10.6.4 (amazon) w/parallel, in debug mode
* [svn-r19230] Reset alarm_seconds back to 20 minutes.Albert Cheng2010-08-111-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Description: honest3 v1.8 failed in parallel test. It got stuck in the same testpar/testphdf5 subtest (cbhsssdrpio). This is an old problem. Upon closer inspection, the testphdf5, when terminated, had clocked up 1hr 9min 46 sec wall clock time. Honest1 system also sent a message that an mpi process has used up 30+ CPU minutes which exceeded their login node cpu time limit and they killed the process. I also did a hand-run of testphdf5. All subtests before cbhsssdrpio completed in a few minutes. Therefore, it is safe to say the majority of the 70 minutes of wall clock time are spent in the sub-test cbhsssdrpio. It also used up lots of CPU time. cbhsssdrpio is likely infinite looping. Since MPI application is prone to infinite looping due to message deadlock, the testphdf5 has a built-in protection to give each subtest at most 20 minutes of wall-clock time to run. When the 20 minutes wall-clock time is exceeded, the testphdf5 will attempt to terminate itself. This prevents unnecessary CPU time consumption in infinite looping. But that clock limit was changed to 30 and then 60 minutes. I should have but failed to, noticed the change mentioned by Quincey. IMO, 20 wall clock time is more than sufficient for each subtest of testphdf5 to complete. If a subtest takes longer than 20 minutes, it is likely infinite looping. Giving it more time will not help. If a subtest of testphdf5 takes more than 20 minutes, it should be broken down to small tests that will finish way under 20 minutes so that it is much easier to see progress and identify any deadlock problems. In view of this, I am changing the testphdf5 time limit back to 20 minutes. This will at least stop the CPU TIME exceeding limits and annoying the system administrators. Maybe there could be a provision, such as environment variable like $HDF5_ALARM_SECOND to modify the alarm duration on individual execution. Even so, that should be used temporary to see if an execution just needs a little more time. Tested: just eyeballed as the change is trivia.
* [svn-r19207] Description:Quincey Koziol2010-08-101-1/+1
| | | | | | | Switch from using "UINT16_MAX" to "64 * 1024" for assert macro. Tested on: None, just eyeballed.
* [svn-r19175] Bug fix for #1239 - The filter's public function CAN_APPLY ↵Raymond Lu2010-08-052-7/+214
| | | | | | | | | | | | should return htri_t not herr_t. To minimize the change of the library's behavior, in the function H5Z_prelude_callback of H5Z.c, if the return value of can_apply is FALSE and the filter is MANDATE, this function returns a FAILURE. If the return value is FALSE but the filter is OPTIONAL, this function returns a SUCCEED. During the IO, the filter will fail and return a size of zero. But the pipeline will skip this filter. Tested the same change for 1.8 on jam, linew, and amani. Tested on jam with szip.
* [svn-r19167] Bug fix: 1917.Albert Cheng2010-08-031-5/+4
| | | | | | | | | | | | | | | | | | | Description: test/big incorrectly determined not able to write files larger than 2GB and skipped the SEC2 and STDIO driver tests. The reason was because it was using off_t while the SEC2 driver is using lseek64 which expects off64_t type. Solution: Created a new HDoff_t which is set to off_t or off64_t or other appropriate type depending on which of lseek or lseek64 is available. Changed SEC2 file driver and the big test to use this common definition. Tested: In BP (AIX), using --enable and --disable-largefile, for both 32 and 64 bits modes. Did not do h5committest because: 1. the error was exposed in the remote BP machine; 2. the change is trivial. Note that STDIO driver failed when --disable-largefile is used. That is an error in the STDIO driver code that is being fixed.
* [svn-r19156] Description:Quincey Koziol2010-07-301-74/+55
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring revisions from Coverity branch back to trunk: r19044: Coverity #449 - Line 1560 called function H5O_chunk_protect for 2 pointers to allocate. But when there's failure on the second one, the first wasn't freed (H5O_chunk_unprotect). We fixed it by freeing the pointers when an error happens. r19045: Fixed coverity issue # 319. Free sec_node in done if it is not NULL. r19046: Add intended but missing assignments to initialize pointers to NULL (coverity issue fixes). r19049: Hdf5_1_8_coverity branch was recreated from hdf5_1_8 branch in revision 18839 without fix for Coverity issue #84 having been propagated to the hdf5_1_8 branch. This revision adds the fix again. r19060: added parentheses to see if they will keep subversion from getting confused r19061: Fix coverity item 139. Fixed incorrect condition for freeing buffer on error. Fix coverity items 20 and 21. Removed unused NTESTS facility from dtypes.c. Cleanup in H5Shyper.c. r19062: Fix coverity item 450. Check to see if chk_proxy has been allocated before attempting to free it. Fix coverity item 454. Check to see if allocation of buf failed in H5D_fill_refill_vl. Fix coverity items 455-457. Initilize hid_t's to -1, check their value before attempting to close them, and check if the close failed. r19063: New fix to address coverity issue #84. Check that pointers in H5Z_xform_find_type are not NULL before passing them to H5T_cmp. Tested on: Mac OS X/32 10.6.4 (amazon) w/debug & production (Too minor to require h5committest)
* [svn-r19133] Description:Quincey Koziol2010-07-281-5/+104
| | | | | | | | | | | | | | | | | | | | | | | | | | | | Correct traversal of user-defined links (including external links) to retain path information of object, allowing H5Iget_name() queries to work quickly (without searching entire destination file). This required some refactoring and addition of a mechanism to detect if a "fast" query was performed (for the tests). Minor code cleanups, etc. 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/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (amani) 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, w/threadsafe, in production mode Linux/PPC 2.6 (heiwa) w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in debug mode Mac OS X/32 10.6.4 (amazon) in debug mode Mac OS X/32 10.6.4 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode Mac OS X/32 10.6.4 (amazon) w/parallel, in debug mode
* [svn-r19120] Description:Quincey Koziol2010-07-221-1/+1
| | | | | | | Bump the testing timer value from 30 to 60 minutes. Tested on: None, just eyeballed, too simple to require test
* [svn-r19114] Description:Quincey Koziol2010-07-203-7/+5
| | | | | | | | | Rename H5AC_set() to H5AC_insert_entry() Get rid of H5C_set_skip_flags() & related flags Tested on: Mac OS X/32 10.6.4 (amazon) w/debug, production & parallel (too simple to require h5committest)
* [svn-r19099] Description:Quincey Koziol2010-07-191-1/+1
| | | | | | | | | | Fix const pointer issues for projection construction routine and also bump time before alarm kicks in to terminate a test from 20 minutes to 30 minutes, to give the PGI compiler tests w/debugging enabled a chance to finish. Tested on: Mac OS X/32 10.6.4 (amazon) w/debug Linux/32 2.6.18 (jam) w/PGI & debug
* [svn-r19096] Description:Quincey Koziol2010-07-192-85/+216
| | | | | | | | | | | | | | | | | | | | | Bring "round robin" metadata write strategy code from 'round_robin' branch to the trunk. 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/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (amani) 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-amd64 2.6 (abe) w/parallel, w/FORTRAN, in debug mode Mac OS X/32 10.6.3 (amazon) in debug mode Mac OS X/32 10.6.3 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r19092] Description:Quincey Koziol2010-07-192-179/+5067
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring "shape same" changes from LBL branch to trunk. These changes allow shapes that are the same, but projected into dataspaces with different ranks to be detected correctly, and also contains code to project a dataspace into greater/lesser number of dimensions, so the I/O can proceed in a faster way. These changes also contain several bug fixes and _lots_ of code cleanups to the MPI datatype creation code. Many other misc. code cleanup are included as well... 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/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (amani) 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-amd64 2.6 (abe) w/parallel, w/FORTRAN, in debug mode Mac OS X/32 10.6.3 (amazon) in debug mode Mac OS X/32 10.6.3 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r19083] Add gen_sizes_lheap to CMakeLists.txt.Neil Fortner2010-07-161-0/+1
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* [svn-r19076] Purpose: Fix bug 1951Neil Fortner2010-07-165-15/+133
| | | | | | | | | | | | Description: A bug introduced in 1.8.5 causes local heap data blocks to be mis-aligned when sizeof_offsets + 2*sizeof_lengths is not a multiple of 8. In this case, the address of the data block as stored in the heap prefix is aligned but the actual data block is not. This causes files created with these sizes to be corrupted, and prevents uncorrupted files with these sizes to be unreadable. Modified local heap code to account for alignment. Tested: jam, amani, linew (h5committest)
* [svn-r19059] Brought changes from hdf5_1_8 to add version information for ↵Larry Knox2010-07-091-0/+2
| | | | | | fortran and c++ compilers in libhdf5.settings file and configure output (r18836), to install examples as part of make install (r18680), and to provide scripts to compile and run the examples after they are installed (r18817). Tested with new/h5committest on amani, heiwa, and jam.
* [svn-r19037] Added executable Linker Flag for MSVC static builds: ↵Allen Byrne2010-06-291-1/+51
| | | | | | | | /NODEFAULTLIB:MSVCRT Added VERSION vars for inclusion into auto snapshot version update script Tested windows
* [svn-r19022] Snapshot version 1.9 release 70HDF Tester2010-06-201-22/+8
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* [svn-r19017] Purpose:Mike McGreevy2010-06-171-4/+3
| | | | | | | | | | | | | | | | Minor code cleanup Description: Add missing declaration of H5AC_ignore_tags() to H5ACprivate.h Clean up some warnings in cache_tagging.c test file Tested: jam, gandalf
* [svn-r19008] Purpose:Mike McGreevy2010-06-161-14/+14
| | | | | | | | | | | | | | | | | Fix some tagging issues. Description: - changed H5Gcreate to H5Gcreate2 in the cache_tagging.c test file to work properly with 1.6 API default mapping turned on. - Added FUNC_ENTER/LEAVE_*TAG macros to the H5G_stab_valid function. Tested: gandalf, jam, amani (w/ production mode, 1.6 API mapping)
* [svn-r19005] Purpose:Mike McGreevy2010-06-1511-13/+4407
| | | | | | | | | | | | | | | | | | | | | | | Commit metadata tagging framework. Description: This check-in contains a new framework whose goal is to apply a tag value to each new entry in the metadata cache as it is created. This tag value is such that it relates each piece of metadata to the HDF5 object that it belongs to (dataset, group, et cetera). This changeset includes the framework that applies the tags as well as a suite of tests to verify correct tag application, though does not yet make use of the tag values to flush/evict individual objects. Please refer to the "flush/evict individual objects" RFC for further discussion of these changes. Tested: jam, amani, linew (h5committest) liberty, abe, blue print
* [svn-r18985] Test feature: (bugs 1919)Albert Cheng2010-06-081-1/+9
| | | | | | | | | | | | | | | | Problem: some launching command like yod (and sometimes mpirun), do not pass back the exit code of the executables back to the shell. It always returns 0 if it can launch the executable. This cause tests that expect non-zero exit code to fail incorrectly. Short term Solution: Added the feature that if $RUNSERIAL_NOEXITCODE is defined, do not test conditions that rely on non-zero exit code. Tests: dove-linux using RUNSERIAL=thgyod to see the failures and using $RUNSERIAL_NOEXITCODE=yes to bypass the errors. Also h5committested.
* [svn-r18965] Windows use of VC_EXTRALEAN no longer did anything. It has been ↵Allen Byrne2010-06-031-1/+1
| | | | | | | | replaced by WIN32_LEAN_AND_MEAN macro. This was the cause of a define conflict causing the use of grp1 and grp2 to be replaced with constants in the h5dumpgentest.c file. This also affected the use of the #include <winsock.h> needed by gethostname. The new include: winsock2.h has been added to h5private.h and either removed or updated in the other files. Tested: Windows
* [svn-r18926] Description:Quincey Koziol2010-05-314-93/+67
| | | | | | | | Get down to just one "resize_configs_are_equal" comparison routine. Tested on: Mac OS X/32 10.6.3 (amazon) (too minor to require h5committest)
* [svn-r18917] Description:Quincey Koziol2010-05-274-786/+704
| | | | | | | | | | | | | | | | | | | | | | | | Bring r18911 (plus some adaptions to match the code on the trunk) from the metadata journaling "merging" branch to the trunk: More general changes to align trunk with eventual changes from metadata journaling 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 (jam) w/PGI compilers, w/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (amani) 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-amd64 2.6 (abe) w/parallel, w/FORTRAN, in debug mode Mac OS X/32 10.6.3 (amazon) in debug mode Mac OS X/32 10.6.3 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r18894] Purpose: Improve allocation performance of filtered datasets ↵Neil Fortner2010-05-251-4/+3
| | | | | | | | | | | | | with non-default VL fill values. Description: Previously, H5D_chunk_allocate would, if a dataset were filtered and had a non-default VL fill value, allocate a new buffer for every chunk. Changed H5D_chunk_allocate to reuse the existing buffer if possible. Also other miscellaneous cleanup. Tested: jam, linew, amani (h5committest)
* [svn-r18868] Purpose: Fix bug in dataset shrinking algorithmNeil Fortner2010-05-201-48/+90
| | | | | | | | | | | | | | | | Description: Previously, it was possible for a chunk to be flushed due to chunk operations in the callback from H5B_iterate in H5D_chunk_prune_by_extent. Because flushing the chunk can force it to be reallocated if it is filtered, this can change the contents of the chunk b-tree in the middle of H5B_iterate. Because H5B_iterate uses a locally cached copy of the b-tree, this causes subsequent operations to be passed incorrect data. Rewrote H5D_chunk_prune_by_extent to avoid H5B_iterate entirely. Also fixed a bug in the dataset expand algorithm that could cause extra chunks to be created. Tested: jam, linew, smirom (h5committest)
* [svn-r18864] Description:Quincey Koziol2010-05-203-129/+126
| | | | | | | | | | | | | | | | | | | | General cleanups to align metadata journaling branch and trunk 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/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (amani) 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-amd64 2.6 (abe) w/parallel, w/FORTRAN, in debug mode Mac OS X/32 10.6.3 (amazon) in debug mode Mac OS X/32 10.6.3 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r18837] Description:Quincey Koziol2010-05-183-1640/+1016
| | | | | | | | | | | | | | | | | | | | | | Remove the size parameter from H5[A]C_unprotect() and the H5[A]C__SIZE_CHANGED_FLAG, switching all clients & tests over to using H5[A]C_resize_entry appropriately. 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/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (amani) 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-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode Mac OS X/32 10.6.3 (amazon) in debug mode Mac OS X/32 10.6.3 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r18793] Add files to support building library with CMakeAllen Byrne2010-05-131-0/+253
| | | | Tested: Local linux
* [svn-r18740] Description:Quincey Koziol2010-05-073-119/+46
| | | | | | | | | | | | | | | | | | | | | | | Bring r18738 from metadata journaling 'merging' branch to trunk: Switch H5AC_resize_pinned_entry() to work on protected entries as well, and rename to H5AC_resize_entry() 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/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (amani) 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-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode Mac OS X/32 10.6.3 (amazon) in debug mode Mac OS X/32 10.6.3 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r18725] Description:Quincey Koziol2010-05-063-199/+199
| | | | | | | | | | | | | | | | | | | | | | Bring r18724 from metadata journaling 'merging' branch to trunk: Rename H5[A]C_rename to H5[A]C_move_entry. 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/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (amani) 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-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode Mac OS X/32 10.6.3 (amazon) in debug mode Mac OS X/32 10.6.3 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
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