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* [svn-r21555] The first part fix for bug HDFFV-7640: does not need to do ↵Vailin Choi2011-10-136-25/+85
| | | | | | H5O_move_msgs_forward() when writing attributes. h5committested. Tests are checked into the performance suite.
* [svn-r21545] Reverts 21521 (deep string copy of log file name). This string ↵Dana Robinson2011-10-131-2/+4
| | | | is copied correctly deep in the H5P code. Tested on local linux (trivial change).
* [svn-r21533] Description:Quincey Koziol2011-10-127-14/+299
| | | | | | | | | Bring r21442 and r21529 from trunk to 1.8 branch: Add new API routines for querying if collective raw data I/O was actually performed collectively. Tested: Linux/32 2.6 (jam) (h5committested on trunk)
* [svn-r21532] Removed dead code.Dana Robinson2011-10-121-59/+0
| | | | Tested on Windows.
* [svn-r21531] Merge of 21501 and 21502 from trunk:Dana Robinson2011-10-124-1563/+733
| | | | | | | | | | | | | | | | | | | | | Note that this differs slightly from the trunk code since the VFL API won't be changed until 1.10. In the 1.8 branch, the term() function is public and this required some #defines for the Windows VFD. 21501: - Propagated Windows VFD tweaks to SEC2 and log VFDs. - Created typedefs and #defines to make POSIX I/O type-safe on Windows and true POSIX platforms. - Added pre-checks and removed post-checks for POSIX I/O sizes. When the number of bytes to be sent exceeds the maximum return value, the operation is split into smaller subsets. - General code tidying and cleanup. 21502: - Removed Windows VFD code. H5Pset_fapl_windows() actually sets the SEC2 driver, though it will still report H5FD_WINDOWS.
* [svn-r21528] Merge of 21517 and 21520 from trunk:Dana Robinson2011-10-121-0/+3
| | | | | | | | | | - Added checks for clock_gettime() to configure.in. Tested on Linux, FreeBSD, Solaris, MacOSX to ensure they are found correctly and everything builds. No code currently reliess on clock_gettime(). - Brought Windows and VMS H5pubconf.h files into sync with the Linux file. Some data sizes were corrected in both VMS and Windows. Tested on Windows. Ray will test on VMS when this is pushed to the 1.8.x branch.
* [svn-r21524] Reverts 20920 (HDFFV-7579 fix) (this is 20913/21 from the trunk)Dana Robinson2011-10-114-178/+2
| | | | | | This change reverts the HDFFV-7579 fix while we more carefully consider enum conversions as a part of the h5compare work. Tested on jam, Windows 7 and linew.
* [svn-r21522] - H5MM_strdup() and H5MM_xstrdup() comments changed to ↵Dana Robinson2011-10-111-25/+22
| | | | | | | | correctly reflect how they respond to an input NULL string. - H5MM_xstrdup() now reports memory allocation errors via the HDF5 error stack (was previously an assert). Tested on jam (simple change).
* [svn-r21521] Merge of trunk 21497Dana Robinson2011-10-111-1/+4
| | | | | | Changed H5Pset_fapl_log() to deep copy the log file name instead of copying the pointer. Tested on jam (simple change).
* [svn-r21519] Merge of 21518 from trunkDana Robinson2011-10-111-1/+5
| | | | | | | | - Added definition for HDfseek() to be used later. - Added comment about requiring _O_BINARY being set on Windows to avoid CR-LF issues. Tested on Windows (minor changes).
* [svn-r21500] Snapshot version 1.8 release 8 (snap17)HDF Tester2011-10-101-2/+2
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* [svn-r21479] Merge revision 21101 from trunk to 1.8 branch:Mike McGreevy2011-10-052-349/+135
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | HDFFV-7639 Purpose: Remove H5_MPI_SPECIAL_COLLECTIVE_IO_WORKS and H5_MPI_COMPLEX_DERIVED_DATATYPE_WORKS #defines from source. Description: Two advanced parallel functionalities, special collective IO and complex derived datatypes, are not supported by older implementations of mpi, and thus our code limits the use of these features with #ifdefs and has checks in configure to set them (or not). Unfortunately, configure can't actually run a parallel check to see if these features are working (nor not) so it resorts to looking in the config files where they are explicity enabled or disabled based on versions of mpi, sytems being built on, or for no documented reason at all (i.e. just set to on or off as some 'default'). Overriding these settings is easy if need be, provided it is known that it needs to be done to get improved performance, and oftentimes it is not. Most new MPI implementations successfully handle the functionality requested when these #defines are set, and many of the "turn these features off" cases in the config files are for old (> 5 years) versions of MPI and retired systems (such as NCSA's tungsten). Therefore, the decision has been made to remove the support for these old versions of MPI and systems that cannot handle these behaviors. The #ifdefs and supporting setup in the config/ files and configure script has been removed, and the code executed when these options were not set removed from the source. In passing, this commit also cleans up some whitespace issues in both t_mpi.c and H5Dmpio.c. Furthermore, in t_mpi.c, the special collective IO test was not getting regularly run due to it being written to work only with four processes (we regularly test with six, previously with three), and thus it failed when actually run due to an out of bounds data buffer assignment. It has been modified to run at any number of processes greater than four, and the memory problem has been fixed so the test passes. Tested: Jam, h5committest, Ember
* [svn-r21444] Snapshot version 1.8 release 8 (snap16)HDF Tester2011-10-031-2/+2
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* [svn-r21421] Merged the Fortran 2003 changes from the trunk into the 1.8 ↵Scot Breitenfeld2011-09-272-0/+4
| | | | | | | | | | | branch, used: svn merge -r 20506:21414 https://svn.hdfgroup.uiuc.edu/hdf5/trunk/fortran Tested: jam (gnu, intel, pgi compilers) Also merged effected non-Fortran files: svn merge -r21247:r21248 https://svn.hdfgroup.uiuc.edu/hdf5/trunk/src/libhdf5.settings.in
* [svn-r21416] Snapshot version 1.8 release 8 (snap15)HDF Tester2011-09-261-2/+2
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* [svn-r21399] Snapshot version 1.8 release 8 (snap14)HDF Tester2011-09-191-2/+2
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* [svn-r21376] JIRA-HDFFV-2748: Relplace WIN32 macros in source. New ↵Allen Byrne2011-09-1212-2659/+2688
| | | | | | | | H5_HAVE_WIN32_API and H5_HAVE_VISUAL_STUDIO defines only need to be set on windows. Autotools configure is not affected. Trunk passed for a week and cmake branch has been in place > 3 weeks. Tested: local linux
* [svn-r21375] Snapshot version 1.8 release 8 (snap13)HDF Tester2011-09-121-2/+2
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* [svn-r21363] files from HDF5-33 review - all changes ran correctly in trunk. ↵Allen Byrne2011-09-061-504/+504
| | | | | | Changes have been tested in cmake branch. Tested: local linux
* [svn-r21361] Snapshot version 1.8 release 8 (snap12)HDF Tester2011-09-051-2/+2
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* [svn-r21330] Snapshot version 1.8 release 8 (snap11)HDF Tester2011-08-291-2/+2
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* [svn-r21314] Merge of 21302 (bin/trace bugfix) from trunk. Tested on jam ↵Dana Robinson2011-08-251-1/+2
| | | | (minor change).
* [svn-r21311] add variables and commands to create libhdf5.settings. Add ↵Allen Byrne2011-08-251-0/+1
| | | | | | option to enable embedded strings. Add test to grep for string. Trunk cycle passed and verified on windows.
* [svn-r21276] Snapshot version 1.8 release 8 (snap10)HDF Tester2011-08-221-2/+2
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* [svn-r21226] Snapshot version 1.8 release 8 (snap9)HDF Tester2011-08-151-2/+2
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* [svn-r21217] Change CTEST_NAME to HDF5 - the project nameAllen Byrne2011-08-101-18/+3
| | | | | | | Implement InitOnceExecuteOnce - HDFFV-5929 Change command to generate output source files Tested: local linux, windows
* [svn-r21213] Merged comment commit from trunk: 21209Dana Robinson2011-08-101-0/+6
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* [svn-r21186] Snapshot version 1.8 release 8 (snap8)HDF Tester2011-08-081-2/+2
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* [svn-r21159] Snapshot version 1.8 release 8 (snap7)HDF Tester2011-08-011-2/+2
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* [svn-r21153] Description:Quincey Koziol2011-07-284-0/+45
| | | | | | | | | | | | | | Bring r21152 from trunk to 1.8 branch: Further patches for Jira 7638, to ensure that H5D/Aget_type will be attached to the correct top file. (This change to the library should reverted when Jira 7638 is finally finished) Tested on: FreeBSD/32 8.2 (loyalty) w/gcc4.6, 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 (h5committested on trunk)
* [svn-r21150] Snapshot version 1.8 release 8 (snap6)HDF Tester2011-07-251-2/+2
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* [svn-r21138] Description:Quincey Koziol2011-07-211-2/+2
| | | | | | | | | | Bring r21137 from trunk to 1.8 branch: Tiny change to reduce code coupling w/H5F package. Tested on: FreeBSD/32 8.2 (loyalty) w/debug (too minor to require h5committest)
* [svn-r21136] Description:Quincey Koziol2011-07-218-120/+438
| | | | | | | | | | Bring r21135 from trunk to 1.8 branch: More code cleanups to reduce coupling with the H5F package. Tested on: FreeBSD/32 8.2 (loyalty) w/gcc4.6, w/C++ & FORTRAN, in debug mode (h5committested on trunk)
* [svn-r21134] Description:Quincey Koziol2011-07-2017-224/+665
| | | | | | | | | | | | | | | | | | Bring r21133 from trunk to 1.8 branch: More code cleanups to reduce coupling between packages that use the H5F internal routines, but really aren't part of the H5F "package". Tested on: FreeBSD/32 8.2 (loyalty) w/gcc4.6, w/C++ & FORTRAN, in debug mode FreeBSD/64 8.2 (freedom) w/gcc4.6, 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 (koala) 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
* [svn-r21130] Description:Quincey Koziol2011-07-2015-160/+501
| | | | | | | | | | | | | | | | Bring r21126 from trunk to 1.8 branch: Clean up some compiler warnings, but mainly an interim checkin on the path of reducing code coupling in the library by removing most of the places which were accessing H5F package definitions. Tested on: Mac OS X/32 10.6.8 (amazon) w/debug FreeBSD/32 8.2 (loyalty) w/debug FreeBSD/64 8.2 (freedom) w/debug Linux/32 2.6 (jam) w/debug Linux/64 2.6 (koala) w/debug Linux/64 2.6 (heiwa) w/debug
* [svn-r21122] Description:Quincey Koziol2011-07-181-4/+13
| | | | | | | | | | | | | Bring r21120 from trunk to 1.8 branch: Check in ugly version of fix for Jira #7638. I'm going to leave the issue open in Jira and when the library has been refactored to use shared file pointers (instead of top file pointers) for file operations, I'll uncomment the check in src/H5Oshared.c Tested on: Mac OS X/32 10.6.8 (amazon) w/debug (too small for h5committest)
* [svn-r21081] Remove redundant EXPORTS symbol since CMake automatically ↵Allen Byrne2011-07-081-1/+0
| | | | creates it.
* [svn-r21065] Snapshot version 1.8 release 8 (snap5)HDF Tester2011-07-041-2/+2
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* [svn-r21044] Purpose:Mike McGreevy2011-06-283-5/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Fix HDFFV-7592 "Remove PACKEDBITS option from autotools files" Description: The code for h5dump's packed bits feature was conditionally compiled in via this option during its 'beta' release in 1.8.5. Now that the feature is fully supported, h5dump has since been changed to always compile the packed bits code (having removed the #ifdef H5_HAVE_H5DUMP_PACKED_BITS checks), so this option in configure is no longer needed. This commit removes the --enable-h5dump-packed-bits configure option, including the help summary from './configure --help' and the libhdf5.settings output summary, the PACKED_BITS Makefile variable, and the definition of H5_HAVE_H5DUMP_PACKED_BITS define in appropriate pubconf header files (which has already been removed from use in source code as of r20722). Note that this option was never added to the trunk, thus this commit only need occur on the 1.8 branch. Tested: - Configure output, help, & summary verified on jam - h5committested
* [svn-r21035] Snapshot version 1.8 release 8 (snap4)HDF Tester2011-06-271-2/+2
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* [svn-r21032] This is a follow-up checkin for r21015 (bug fix for Issue ↵Raymond Lu2011-06-241-10/+10
| | | | | | 2594). According to Quincey's suggestion, I moved the EOAs for individual files from H5FD_multi_fapl_t to H5FD_multi_t struct. It's a more proper place. Tested on jam, koala, and heiwa.
* [svn-r21024] Bug fix for Issue 2598 - In v1.6 library, there was EOA for the ↵Raymond Lu2011-06-232-1/+24
| | | | | | | | | | | | | whole MULTI file saved in the super block. We took it out in v1.8 library because it's meaningless for the MULTI file. v1.8 library saves the EOA for the metadata file, instead. But this caused some backward compatibility problem. v1.8 library couldn't open the file created with v1.6 library. I fixed the problem by checking the EOA value to detect the file created with v1.6 library. Tested on jam, koala, and linew.
* [svn-r21001] Snapshot version 1.8 release 8 (snap3)HDF Tester2011-06-201-2/+2
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* [svn-r20947] Issue 4278 - When reading data fails, the error message should ↵Raymond Lu2011-06-071-0/+1
| | | | | | | | say which filter isn't registered. This is the follow-up commit. In my first checkin, I took out the line "H5Z_SZIP->encoder_present = SZ_encoder_enabled()" by mistake. It caused SZIP test to fail. I'm puting it back now. Tested on jam - simple change.
* [svn-r20936] Issue 4278 - When reading data fails, the error message should ↵Raymond Lu2011-06-061-4/+8
| | | | | | say which filter isn't registered. The fix is simple. Most of the effort is on the test. The file with filter enabled is created in gen_filter.c. The verification of the error message is in test_error.c. The output is compared against the standard output. Tested on jam, koala, and heiwa.
* [svn-r20932] Snapshot version 1.8 release 8 (snap2)HDF Tester2011-06-061-2/+2
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* [svn-r20924] Snapshot version 1.8 release 8 (snap1)HDF Tester2011-05-302-2/+4
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* [svn-r20920] Issue 7579 - The overflowing ENUM values are inconsistent. ↵Raymond Lu2011-05-274-2/+171
| | | | | | | | | | When no conversion is involved in reading or writing the data, overflowing values are retained. When conversion happens, the values become -1. The conversion function puts -1 when overflow happens. I added two new dataset transfer property to control whether to fill 0xff in the destination data or convert to the destination data when overflow happens. The two new functions are H5Pset(get)_enum_conv_overflow. I also added test cases in enum.c and dtypes.c. Tested on jam, koala, and heiwa.
* [svn-r20898] Merge of configure changes 20891-2,4 from the trunk.Dana Robinson2011-05-241-0/+3
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* [svn-r20897] I added some comments.Raymond Lu2011-05-241-0/+15
| | | | Tested on jam - very simple change.
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