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* [svn-r18943] Purpose:Jonathan Kim2010-06-0226-218/+842
| | | | | | | | | | | | Support follow symbolic links. Description: 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, amani and linew
* [svn-r18942] Allen Byrne2010-06-011-1/+0
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* [svn-r18940] Update Cygwin and Windows referencesAllen Byrne2010-06-012-277/+16
| | | | Removed support for MinGW
* [svn-r18933] Update Cygwin install instructionsAllen Byrne2010-06-011-23/+14
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* [svn-r18930] Enabled mf test since it is fixed.Allen Byrne2010-06-011-2/+1
| | | | Tested: windows
* [svn-r18929] New feature:Albert Cheng2010-06-013-12/+79
| | | | | | | | | | Added ibm-flags to display the IBM XL compilers version information so that configure can report them in the configure summary and the libhdf5.settings file. For now, only the C compiler (xlc) versions are displayed. Also moved the C compiler options setting from ibm-aix to ibm-flags. Tested: NCSA Blue-print, both 32 and 64 bit modes.
* [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-r18925] Updated install of fortran mod filesAllen Byrne2010-05-282-8/+30
| | | | Tested: local linux
* [svn-r18922] Fix for failures for test/mf.c on windows:Vailin Choi2010-05-282-1/+8
| | | | | 1. H5FD_stdio_truncate() windows code: need to do a rewind 2. Make sure fsinfo.fs_addr is initialized before creating the message.
* [svn-r18917] Description:Quincey Koziol2010-05-2732-1404/+1126
| | | | | | | | | | | | | | | | | | | | | | | | 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-r18915] Description:Quincey Koziol2010-05-272-24/+28
| | | | | | | | Clean up a couple of compiler warnings (in Windows). Tested on: Mac OS X/32 10.6.3 (amazon) w/debug (too minor to require h5committest)
* [svn-r18914] Added fortran library to list of library links.Allen Byrne2010-05-271-9/+9
| | | | Tested: Windows, local linux
* [svn-r18908] Corrected name of cstub libraries (needed to be lowercase)Allen Byrne2010-05-261-5/+5
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* [svn-r18906] Updated with new name of CMake.txtAllen Byrne2010-05-261-1/+1
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* [svn-r18903] Renamed Cmake specific document, making more general for all ↵Allen Byrne2010-05-264-97/+113
| | | | platforms. Updated references in other files.
* [svn-r18898] Added fortran /dbglibs option to fortran compile flags for ↵Allen Byrne2010-05-252-1/+11
| | | | | | windows intel fortran case. Duplicated windows intel fortran flag block for hl/fortran
* [svn-r18894] Purpose: Improve allocation performance of filtered datasets ↵Neil Fortner2010-05-258-74/+95
| | | | | | | | | | | | | 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-r18890] Update CMake fortran configure/build with changes from community.Allen Byrne2010-05-255-14/+32
| | | | | | | | - Add an install rule to copy compiled fortran module files - Only build the xlatefile utility if testing and tools are enabled - Don't do MPI HAVE_XXX checks until MPI_FOUND is true - Install needs H5version.h & H5overflow.h to be copied - Add debug information flags to debug compile and link lines for win32 Intel compiler
* [svn-r18885] Add -C {Debug | Release} to ctest command lineAllen Byrne2010-05-241-1/+1
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* [svn-r18882] Maintenance: fixed a typo in email addressElena Pourmal2010-05-221-1/+1
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* [svn-r18881] Maintenance: Fixed a typo in the bug number (should be 1851 ↵Elena Pourmal2010-05-221-1/+1
| | | | instead of 1855)
* [svn-r18880] Bug fix: Elena Pourmal2010-05-223-44/+61
| | | | | | | | Fixed a bug (1855) in H5DSattach_scale, H5DSis_attached and H5DSdetach_scale caused by using H5Tget_native_type function to determine the native type for reading REFERENCE_LIST attribute. The bug was exposed on Mac PPC. Platforms tested: juniper (Mac PPC), jam, amani, linew
* [svn-r18877] Update testh5diff.bat for --follow-symlinks changeAllen Byrne2010-05-211-76/+76
| | | | Tested: windows
* [svn-r18873] Purpose:Jonathan Kim2010-05-2116-143/+143
| | | | | | | | | | | Rename '--follow-links' to '--follow-symlinks' Description: The '--follow-links' option is to follow symbolic links (soft and external). Make the name more intuitive and specific to the feature. Tested: jam, amani and linew
* [svn-r18871] Description:Quincey Koziol2010-05-211-8/+8
| | | | | | | | | Clean up compiler warnings (on Windows, I hope) by marking some routines as taking 'volatile' parameters. Tested on: Mac OS X/32 10.6.3 (amazon) w/debug (too minor for h5committest)
* [svn-r18868] Purpose: Fix bug in dataset shrinking algorithmNeil Fortner2010-05-204-262/+384
| | | | | | | | | | | | | | | | 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 Koziol2010-05-2020-1279/+254
| | | | | | | | | | | | | | | | | | | | 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-r18859] pull r18858 from 185;Allen Byrne2010-05-191-10/+5
| | | | Cange allocation of buffer to use the specified dimensions to calculate the size of a data buffer. Also removed any initialized values.
* [svn-r18856] Added CPack commands for installtion programAllen Byrne2010-05-1918-21/+161
| | | | Tested: local linux and Windows
* [svn-r18837] Description:Quincey Koziol2010-05-1817-1895/+1229
| | | | | | | | | | | | | | | | | | | | | | 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-r18834] Description:Quincey Koziol2010-05-171-1/+2
| | | | | | | | | Correct function enter macro and add 'done' label, for routine that is only invoked when configured with --enable-debug=all. Tested on: Mac OS X/32 10.6.3 (amazon) w/debug & production (too minor to require h5committest)
* [svn-r18832] Description:Quincey Koziol2010-05-171-1/+1
| | | | | | | | Correct error where variable didn't always get initialized correctly. Tested on: Mac OS X/32 10.6.3 (amazon) w/debug & prod Windows w/debug & prod
* [svn-r18831] Purpose:Jonathan Kim2010-05-171-5/+4
| | | | | | | Resolve build issue on Windows due to the location of variable definition. Tested: jam
* [svn-r18827] Description:Quincey Koziol2010-05-171-1/+1
| | | | | | | | Correct error where variable didn't always get initialized correctly. Tested on: Mac OS X/32 10.6.3 (amazon) w/debug & prod Windows w/debug & prod
* [svn-r18823] Snapshot version 1.9 release 69HDF Tester2010-05-1614-28/+28
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* [svn-r18819] Maintenance: fixed typo in a comment line and formatting.Elena Pourmal2010-05-151-5/+5
| | | | Platforms tested: jam (minor fix)
* [svn-r18818] Bug fix: Elena Pourmal2010-05-155-114/+251
| | | | | | | | | | | Fixed a bug in the H5DSdetach_scale function when 0 bytes were allocated after the last reference to a dim. scale was removed from the list of references in a VL element of the DIMENSION_LIST attribute; modified the function to comply with the Spec: DIMENSION_LIST attribute is deleted now when no dimension scales left attached. Platforms tested: jam with electric fence, amani amd linew
* [svn-r18816] Move progname and d_status functions from h5tools to h5tools_utilAllen Byrne2010-05-144-34/+34
| | | | | Tested: linux and windows
* [svn-r18813] Purpose:Jonathan Kim2010-05-141-0/+8
| | | | | | | | | | | | | | | Add bug fixes for Tools. Description: Added list: 1726 - NPOESS: h5repack loses attributes for datasets of type H5T_REFERENCE 1814 - NPOESS: h5repack doesn't handle references to the groups as an element of a dataset 1817 - h5copy fail to copy dangling link by specifying link path directly 1793 - h5ls on a non-existent file gives 0 return code Tested: no, just text update.
* [svn-r18811] Removed references to packedbits filesAllen Byrne2010-05-141-3/+0
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* [svn-r18808] Purpose:Mike McGreevy2010-05-143-3/+3
| | | | | | | | | | | | | | | | | | | Fixed file cleanup during make distclean / make check. Description: The h5jam Makefile and the h5importtestutil.sh script both included cleanup steps that removed "*.txt" from the directory. This resulted in the new CMake specific configuration file, CMakeLists.txt, getting blown away by make distclean (for h5jam) and make check (for h5import). I've removed the *.txt from the h5jam Makefile as the directory looks to be getting cleaned appropriately without it, and I've modified the h5import script h5importtestutil.sh to point to the specific .txt files to clean. Tested: jam
* [svn-r18804] Purpose:Mike McGreevy2010-05-145-0/+67
| | | | | | | | | | | | | Fix memory leaks Description Added a routine to free memory which addresses a memory leak when variable length strings are used as fill values. Tested: h5committest and valgrind (on jam/amani) to confirm freed memory.
* [svn-r18803] Description:Binh-Minh Ribler2010-05-141-4/+16
| | | | | | | | | Added notes about + PropList::PropList(id) pclass id/plist id + new DataSet::getInMemDataSize + CommonFG::getLinkval and CommonFG::getComment take default values + bugzilla 1061 + read/write methods of DataSet and Attribute
* [svn-r18799] Description:Quincey Koziol2010-05-131-0/+3
| | | | | | | Added note about use of volatile for variables. Tested on: None - trivial change to comment.
* [svn-r18793] Add files to support building library with CMakeAllen Byrne2010-05-1361-57/+9190
| | | | Tested: Local linux
* [svn-r18791] Description:Quincey Koziol2010-05-131-4/+3
| | | | | | | | | | | | | | | | | | | | | Correct error in H5C_resize_entry() where protected entry sizes were not updated if the entry being resized was both pinned and protected. 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-r18788] Added h5tools.h include to h5diff_common.h to fix warnings ↵Allen Byrne2010-05-131-2/+16
| | | | | | about the new progname and status functions Tested: local linux
* [svn-r18785] Description:Quincey Koziol2010-05-131-1/+1
| | | | | | | Fix unterminated comment. Tested on: None - just eyeballed.
* [svn-r18768] Description:Quincey Koziol2010-05-111-2/+2
| | | | | | | | | | | | | | | | | Correct a mis-merged patch when marking an entry dirty. 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
* [svn-r18765] Corrected typo in Fortran CStub DLL sectionAllen Byrne2010-05-111-1/+1
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