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* [svn-r19634] Purpose:Jonathan Kim2010-10-181-1/+2
| | | | | | | | | | | | Fix for bug# 2040 - h5copy should fail gracefully for expected failure copying to non-exist nested group without -p option. Description: Fixed h5copy to fail gracefully when copying object to non-exist group without -p option. This is expected to be failed. Merged from hdf5 trunk r19633. Tested: jam, amani
* [svn-r19603] Purpose:Jonathan Kim2010-10-141-2/+1
| | | | | | | | | | | Backout the previous change: (Fix for bug# 2040 - h5copy should fail gracefully for expected failure copying to non-exist nested group without -p option.) Description: Some failure occurred on talwit, so backout the changes and will put it back after the fix. (Fixed h5copy to fail gracefully when copying object to non-exist group without -p option. This is expected to be failed. Merged from hdf5 trunk r19598.)
* [svn-r19601] Add ExternalProject noteAllen Byrne2010-10-141-3/+12
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* [svn-r19599] Purpose:Jonathan Kim2010-10-141-1/+2
| | | | | | | | | | | Fix for bug# 2040 - h5copy should fail gracefully for expected failure copying to non-exist nested group without -p option. Description: Fixed h5copy to fail gracefully when copying object to non-exist group without -p option. This is expected to be failed. Merged from hdf5 trunk r19598. Tested: jam, amani
* [svn-r19567] Maintenance: Added -O3 to be used with the C Intel v 11 ↵Elena Pourmal2010-10-081-1/+2
| | | | | | | | | compilers; set default to -O for all unknown versions of the C Intel compilers. Modified apple config file to display Intel compiler information. Updated RELEASE.txt notes accordingly. Platfroms tested: jam, amani and dubna (Mac 64-bit) with Intel C, Fortran and C++ compilers.
* [svn-r19526] Updated tested Windows platformsAllen Byrne2010-10-061-3/+14
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* [svn-r19511] Snapshot version 1.8 release 7 (snap0)HDF Tester2010-10-051-1/+1
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* [svn-r19456] Purpose:Mike McGreevy2010-09-212-85/+23
| | | | | - Clear out RELEASE.txt in preparation for 1.8.7 development work. - Create placeholder in HISTORY-1_8.txt for RELEASE.txt from 1.8.6
* [svn-r19451] Update version of 1.8 branch to HDF5 1.8.7-snap0Mike McGreevy2010-09-211-1/+1
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* [svn-r19436] remove source package command - not neededAllen Byrne2010-09-201-2/+1
| | | | add missing -C options
* [svn-r19432] Updated configuration section with optional command line usage. ↵Allen Byrne2010-09-201-24/+100
| | | | Also added section on CPack.
* [svn-r19407] Purpose:Jonathan Kim2010-09-161-0/+4
| | | | | | | | | | | | Add --exclude-path option Description: Merged from hdf5 trunk (r19406). Specified path to an object will be excluded from comparing the two files or two groups. If group is specified all the member objects will be excluded. Related to "1890: h5diff excluding object for file comparison via command line" Tested: jam, amani
* [svn-r19405] Description:Quincey Koziol2010-09-161-0/+4
| | | | | | | | | | | | | | | | | | | | | | Bring r19402 from trunk to 1.8 branch: Correct Bz#1968 (Problem when opening new format file with H5F_LIBVER_EARLIEST) by initializing symbol table leaf information in a more universal way. Also cleaned up other superblock initialization a little bit while I'm here. Tested on: FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, w/threadsafe, 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 10.6.4 (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-r19401] Purpose:Jonathan Kim2010-09-161-0/+3
| | | | | | | | | | | Fix for Bug1975 h5diff - support recursive comparison on group when specified as an object Description: Merged from hdf5 trunk (r19400). Compare member objects and groups recursively when two files or groups are specified to be compared. Support parallel diff and handling symbolic links accordingly. Tested: jam, amani
* [svn-r19391] Purpose:Jonathan Kim2010-09-151-0/+2
| | | | | | | | | | | Fix for Bug1896 h5repack - changing layout to COMPACT does not work Description: Merged from hdf5 trunk (r19389) Make h5repack be able to convert a layout to COMPACT for small size dataset as default. Also add verifying layout changes in our test script. Tested: jam, amani
* [svn-r19387] Purpose: Fix assertion failure caused by fractal heap header ↵Neil Fortner2010-09-151-0/+3
| | | | | | | | | | | | | | 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-r19376] Added bug 1938 resolutionAllen Byrne2010-09-131-8/+11
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* [svn-r19368] Purpose:Mike McGreevy2010-09-101-0/+4
| | | | | | | | | | | | | | | | | | | 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-r19359] When mandatory filter failed to write data chunks, the datasetRaymond Lu2010-09-081-0/+3
| | | | | | | 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-r19355] Quincey and I made H5Eset_current_stack also close the stack to ↵Raymond Lu2010-09-071-0/+3
| | | | | | | | | | | be set. This is to avoid H5Eclose_stack clearing the default stack. Please see bug 1799. Tested on jam - simple change. The changes to configure.in, tools/lib, config, c++/test, Makefile.am, and fortran are only property changes from the merge.
* [svn-r19345] Description:Quincey Koziol2010-09-031-0/+3
| | | | | Add note about bugfix that requires H5Pset_chunk for all chunked datasets now.
* [svn-r19335] Update CMake referenceAllen Byrne2010-09-011-9/+9
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* [svn-r19284] Description:Quincey Koziol2010-08-241-0/+1
| | | | Add note about correcting valgrind issues.
* [svn-r19279] Bug 1934 - I added support of all data types for H5Tget_order. ↵Raymond Lu2010-08-231-2/+3
| | | | | | | | | 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. Tested on heiwa, jam, and amani.
* [svn-r19250] New feature(bug #1934): I made H5Tset_order support all data ↵Raymond Lu2010-08-181-0/+2
| | | | | | | | | | | | | | | 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. Tested on jam, heiwa, and amani.
* [svn-r19172] Bug fix for #1239 - The filter's public function CAN_APPLY ↵Raymond Lu2010-08-051-0/+2
| | | | | | | | | | | | 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 on jam, linew, and amani. Tested on jam with szip.
* [svn-r19149] Maintenance: Removed misleading information about the ↵Elena Pourmal2010-07-291-16/+6
| | | | | | | HDF4-to-HDF5 tools. The tools became a part of the h4h5tools distribution long time ago, but the INSTALL file was not updated in the development branch and slipped into 1.8 releases and current trunk.
* [svn-r19147] Purpose: Fix bug in direct IO driverNeil Fortner2010-07-281-0/+2
| | | | | | | | | | | Description: In certain circumstances, the direct I/O driver did not perform correctly when data was unaligned. The driver has been patched to fix this. Also added some potential performance improvements for the unaligned case, and strengthened the test for whether the data needs to be aligned. Tested: cobalt
* [svn-r19143] Update for the bug fix of #1956.Raymond Lu2010-07-281-0/+3
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* [svn-r19098] Description:Quincey Koziol2010-07-191-6/+14
| | | | | Add notes for recent performance improvements & bug fixes (r19092 & r19097).
* [svn-r19091] Snapshot version 1.8 release 5 (snap4)HDF Tester2010-07-191-1/+1
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* [svn-r19082] Made ';' after H5_PUSH_FUNC consistent throughout H5private.h ↵Larry Knox2010-07-161-1/+1
| | | | | | | | | to fix compile failure with Sun 5.10 C compiler. Added Sun 5.10 compilers to RELEASE.txt. Tested on linew. Tested on amani, heiwa, and jam with h5committest.
* [svn-r19077] Purpose: Fix bug 1951Neil Fortner2010-07-161-1/+4
| | | | | | | | | | | | 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-r19069] Document update: ID 1921 change mpirun to mpiexecAlbert Cheng2010-07-142-6/+9
| | | | Changed the use of mpirun to mpiexec which is the MPI-2 official standard.
* [svn-r19065] Snapshot version 1.8 release 5 (snap3)HDF Tester2010-07-121-1/+1
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* [svn-r19053] Purpose:Jonathan Kim2010-07-071-0/+2
| | | | | | | | | | | | Add --no-dangling-links option to h5ls. Description: Related to "Bug 1830 - Following an dangling external link in h5ls should set non-zero return code." If --no-dangling-links option is specified and any dangling link is found, return exit code 1 (error). Merged from hdf5 trunk r19051 Tested: jam, amani, heiwa
* [svn-r19048] Snapshot version 1.8 release 5 (snap2)HDF Tester2010-07-051-1/+1
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* [svn-r19035] Purpose:Jonathan Kim2010-06-281-1/+2
| | | | | | | | | | | Change h5ls not to manipulate special characters in object name or attribute name for smart display. Description: Merged from hdf5 trunk r19034. Related to "But1784 h5ls has input and output issues with links that have '\' characters in them." Tested: jam, amani
* [svn-r19033] Snapshot version 1.8 release 5 (snap1)HDF Tester2010-06-281-1/+1
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* [svn-r19023] Snapshot version 1.8 release 5 (snap0)HDF Tester2010-06-211-1/+1
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* [svn-r19014] Copy the final RELEASE.txt from hdf5_1_8_5 release branch into Mike McGreevy2010-06-171-1/+545
| | | | the HISTORY-1_8.txt file of the 1.8 branch.
* [svn-r19007] Purpose: Improve performance of the the chunk cacheNeil Fortner2010-06-151-1/+2
| | | | | | | | | | Description: Previously, the chunk cache would, when looking for a chunk, alwaylook for the chunk in the b-tree before checking the cache. Reworked the functions that look up chunks to always check the cache first and avoid the b-tree lookup if the chunk is in cache. Tested: jam, linew, amani (h5committest)
* [svn-r18991] Bug Fix: (ID 1921)Albert Cheng2010-06-111-1/+3
| | | | | | | | | | | | PHDF5 changed to use "mpiexec", instead of mpirun, as the default MPI applications startup command as defined in the MPI-2 definition, section 4.1. Note that only mpich related (using mpicc command) definitions are changed to mpiexec. Other favors like hcc, AIX, champion, are not changed since I don't have a way to verify them yet. Tested: jam and amani, using both current and new mpich. Did not h5committested since this affects PHDF5 configure only.
* [svn-r18971] Updated with SNL Glory information.Albert Cheng2010-06-041-11/+1
| | | | Removed the retired thunderbird and NCSA Teragrid.
* [svn-r18969] Updated with Red Storm information.Albert Cheng2010-06-041-5/+5
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* [svn-r18967] updated with AIX support information.Albert Cheng2010-06-031-8/+10
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* [svn-r18957] Corrected name of external librariesAllen Byrne2010-06-031-3/+3
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* [svn-r18951] Recorded the change of configure default setting to ↵Albert Cheng2010-06-021-1/+4
| | | | --disable-production.
* [svn-r18946] Purpose:Jonathan Kim2010-06-021-1/+2
| | | | | | | | | | | | | Support follow symbolic links. Description: Merged from hdf5 trunk r18943. Add '--follow-symlinks' option to follow symbolic links (soft and external). Update help page according to RM. Remove some warning messages from compiler. Tested: jam
* [svn-r18945] Added gcc version to cygwin lineAllen Byrne2010-06-021-1/+1
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