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* [svn-r12902] Checkin of Shared Object Header Message work.James Laird2006-11-131-1/+1
| | | | | | | | | | | | This feature is still in progress; Shared Object Header Messages are not complete as a feature and are not thoroughly tested. There are still "TODO" comments in the code (comments with the word "JAMES" in them, so as not to be confused with other TODO comments). Hopefully this checkin will reduce the liklihood of conflicts as I finish implementing this feature. All current tests pass on juniper, copper (parallel), heping, kagiso, and mir.
* [svn-r12895] Description:Quincey Koziol2006-11-133-10/+10
| | | | | | | | | | | | | Add new H5Lget_val_by_idx() routine & tests. Also includes most of changes for H5Ldelete_by_idx() routine. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 4.11 (sleipnir) Linux/32 2.4 (heping) Linux/64 2.4 (mir) AIX/32 5.? (copper)
* [svn-r12888] Pedro Vicente Nunes2006-11-104-104/+768
| | | | | Introduced the second sweep of the file for a case a reference is present and H5Ocopy was not used. Moved the code from file h5repack_refs.c to h5repack_copy.c and removed the first file
* [svn-r12887] A fix for linking issues.James Laird2006-11-1010-0/+10
| | | | | | | | | | | | Should disable linking against shared libraries in Fortran for compilers that don't support shared libraries. Should also fix problem when the wrong Fortran file extension was specified. If these changes don't solve the Daily Test issues, I'll look at backing out the autotool version change until I have time to fix them. Tested on heping, kagiso, juniper.
* [svn-r12884] Pedro Vicente Nunes2006-11-084-967/+369
| | | | | | | | | | | | h5repack support for H5Ocopy in the copy of objects. The old method for recreating references was dropped (references recreated in a second traversal of the file) The logic for using H5Ocopy or not is if the input DCPL has filters or non default layout OR these are requested by the user THEN use the old h5repack read / write ELSE use H5Ocopy
* [svn-r12883] Pedro Vicente Nunes2006-11-086-10/+40
| | | | | | h5dump bug 701. Symptom: The creation of a hardlink pointing to the root group "/" causes h5dump to display it as a link pointing to itself. Cure: the root group was not being inserted in the table that keeps track of object names and links. Added a test for this in the test generation program, the creation of a hardlink to the root
* [svn-r12882] Changed bin/reconfigure to work on kagiso as well as on AFS ↵James Laird2006-11-0810-68/+90
| | | | | | | | Linux machines. Updated to the latest versions of autotools. Tested on kagiso, heping, and juniper. Let me know if you have any problems.
* [svn-r12871] Description:Quincey Koziol2006-11-071-0/+4
| | | | | | | Clean up a couple of warnings... Tested on: Linux/64 2.6 (chicago2)
* [svn-r12869] Description:Quincey Koziol2006-11-061-18/+18
| | | | | | | | Rename new H5Gcopy() routine to H5Ocopy() as discussed in last Friday's design discussion. Tested on: Linux/32 2.6 (chicago)
* [svn-r12864] Description:Quincey Koziol2006-11-063-29/+32
| | | | | | | | Changed H5Lget_linkval() to H5Lget_val(), per our design discussion last Friday afternoon. Tested on: Linux/32 2.6 (chicago)
* [svn-r12838] Description:Elena Pourmal2006-11-011-24/+110
| | | | | | | | | Added a framework to display information about a particular object. This option (-O object_name) is not available to the users yet. Currently only name of an object (or objects) is displayed. Platforms tested: sol, kagiso and copper.
* [svn-r12835] Description:Quincey Koziol2006-10-314-19/+18
| | | | | | | | | Change H5Lget_linkinfo() to H5Lget_info() to better align with coming API changes. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12831] Changed the API for "unpacking" an external link value to take ↵James Laird2006-10-303-4/+4
| | | | | | | | | | the size of the linkval buffer, per Elena and Frank's suggestions while revising the documentation. Added error checking using this size, as well as a couple of tests. Tested on juniper, kagiso, and sol.
* [svn-r12826] Pedro Vicente Nunes2006-10-306-271/+165
| | | | | added a new test for h5diff relative error for the file generator program
* [svn-r12821] Description:Quincey Koziol2006-10-281-14/+14
| | | | | | | | | Clean up compiler warnings, esp. on 64-bit Linux boxes. Tested on: FreeBSD/32 4.11 (sleipnir) w/threadsafe Linux/32 2.4 (heping) w/C++ & FORTRAN Linux/64 2.4 (mir) w/build-all & 1.6 compat
* [svn-r12819] Pedro Vicente Nunes2006-10-268-36/+812
| | | | | | | h5diff: print a message of "not comparable" in a case where the relative error compare is not possible, due to the denominator being zero. Modified the test file generator program to include a example for this and a new test on the shell script
* [svn-r12815] Pedro Vicente Nunes2006-10-2584-1455/+2637
| | | | | | | | | | | | | | 1) added a new parameter to the h5diff function diff_array that contains the beginning position of the hyperslab, so that the total position in the array is printed correctly when reading by hyperslabs. 2) added a new test to h5diff that reads and diffs by hyperslabs. The test reads a 1GB dataset, from which a 1KB hyperslab was written with differences . 3) added the generation of 2 files to the generator program to test the h5diff hyperslab read. 4) changed the h5diff binary pre-generated file names to be more descriptive (e.g, instead of file1.h5, made it h5diff_basic1.h5) 5) changed the name of the h5repack options text file to info.h5repack
* [svn-r12794] Pedro Vicente Nunes2006-10-201-16/+4
| | | | | 1. bug fix. the h5_cleanup file names were not build properly on the h5repacktest call 2. added only a call to test_bigout.h5 to be clean, because the other files are generated anyway by the shell script. test_bigout.h5 is only made on the C program part (h5repacktst)
* [svn-r12793] 1. fix a compiling error in atlantiaPedro Vicente Nunes2006-10-206-38/+65
| | | | | 2. added the test library delete framework to delete output .h5 files 3. cleaned warnings
* [svn-r12786] Pedro Vicente Nunes2006-10-191-85/+89
| | | | | a more improved usage message, specially on the filter and layout information
* [svn-r12785] Pedro Vicente Nunes2006-10-191-14/+20
| | | | added a new much more readable usage message
* [svn-r12784] Pedro Vicente Nunes2006-10-1912-291/+709
| | | | | | | | | | | | | | | | | Fixes for bugs 676, 228 676: both h5repack and h5diff use H5Dread. In the case of a "big" dataset, use read/write by hyperslabs the same way h5dump uses. An arbitrary value of 1GB was defined for "big", i.e, if the dataset is greater than 1GB, then read/write by hyperslabs 228: use the file type in read/write by default. A new switch -n was introduced if the user wants to use a native type, which was the previous use by default. Added a new test for h5repack that repacks a 1GB dataset Tested: heping (serial, parallel), sol, copper
* [svn-r12772] Pedro Vicente Nunes2006-10-173-24/+173
| | | | added more tests for h5copy (compressed datasets, vl named datatypes )
* [svn-r12770] Description:Quincey Koziol2006-10-161-1/+8
| | | | | | | | | | | | | | | Overhaul usage of object header chunks to reduce I/O operations and memory allocations. The object header prefix is now stored in the first object header chunk's "image" in memory. Also, lots of formatting cleanups. Taught h5debug tool about new object header format (which isn't enabled just yet). Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12762] Pedro Vicente Nunes2006-10-162-10/+8
| | | | rewrote the -b option to make it more clear
* [svn-r12761] Description:Quincey Koziol2006-10-161-1/+1
| | | | | | | | | | Refactor object header macros, in preparation for updating the format. Tested on: Mac OS/PPC 10.4.8 (amazon) FreeBSD/32 4.11 (sleipnir) w/thread-safe Linux/32 2.4 (heping) w/C++ & FORTRAN Linux/64 2.4 (mir) w/1.6 compat & build-all
* [svn-r12747] Added a condition check to see if Direct I/o is enabled.Raymond Lu2006-10-111-0/+2
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* [svn-r12743] Took out printout for driver information because the driver ↵Raymond Lu2006-10-113-5/+5
| | | | | | used can be different from the driver used for standard output.
* [svn-r12742] Updated this output for a new driver "direct" has been added.Raymond Lu2006-10-111-1/+1
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* [svn-r12741] Added support for direct I/O to check-vfd. The direct VFD is ↵James Laird2006-10-1010-20/+20
| | | | | | | | | | only tested if it is enabled. Added Direct VFD status to the configure summary. Removed a line left over from pablo support. Oops!
* [svn-r12739] Added Direct I/O driver to VFD. It's only supported by SGI ↵Raymond Lu2006-10-101-3/+11
| | | | | | | | | | Altix (cobalt). There's a configure option --enable-direct-vfd/--disable-direct-vfd to enable/disable Direct I/O support. The default is enabled. There's a small test in test/vfd.c. Another way to test it is to set environment variable HDF5_DRIVER to "direct" and run "make check" in the test/ directory. There'll be some further improvement in the following checkin including allowing user to provide memory boundary value, file block size, and copying buffer size.
* [svn-r12736] Description:Quincey Koziol2006-10-0940-426/+387
| | | | | | | | | | | | | | | | | | | Add "use the latest format" support for dataspace object header encode/ decode routines and clean up format a bit for the latest format (new to 1.8.x releases) Remove storing 'perm' parameter for array datatypes in memory and the file, and add test to make certain that if any user applications are attempting to store them, we get some reports back. (Should be unlikely, since the RefMan says that the parameter is not implemented and is unsupported). Carry those changes into the tests, etc. Clean up a bunch more compiler warnings. Tested on: FreeBSD/32 4.11 (sleipnir) w/threadsafe Linux/32 2.4 (heping) w/FORTRAN & C++ Linux/64 2.4 (mir) w/enable-1.6-compat
* [svn-r12726] Pedro Vicente Nunes2006-10-062-10/+5
| | | | added calls for the scale offset filter to the h5repack test script
* [svn-r12722] Pedro Vicente Nunes2006-10-053-5/+91
| | | | added new tests for h5copy script, generated in the test file generator program
* [svn-r12721] Pedro Vicente Nunes2006-10-051-1/+1
| | | | corrected commnet
* [svn-r12720] Pedro Vicente Nunes2006-10-058-66/+88
| | | | | | added output of error messages using the tools library function error_msg, that prints the program name and error on the message tested: kagiso
* [svn-r12715] Incorporated a user-submitted patch to better detect the 'tr' ↵James Laird2006-10-0310-0/+10
| | | | | | | | | | | | utility and quote its arguments. Also checks for the 'socket' library on Solaris. If this patch passes the Daily Tests and makes the user happy, I'll port it back to the 1.6 branch. Tested on mir and sol.
* [svn-r12713] Pedro Vicente Nunes2006-10-037-28/+68
| | | | | | added new tests with different datatypes for h5dump binary output tested: kagiso
* [svn-r12707] Description:Quincey Koziol2006-10-0211-3/+3
| | | | | | | | | Further minor modifications to the file format for tracking links in groups. This is tentatively the "final" file format for groups. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12700] Alert:Quincey Koziol2006-10-0225-186/+194
| | | | | | | | | | | | | | | | | | | | | | | | | | | | File format is not stable, don't keep files produced! Description: First stage of checkins modifying the format of groups to support creation order. Implement "dense" storage for links in groups. Try to clarify some of the symbols for the H5L API. Add the H5Pset_latest_format() flag for FAPLs, to choose to use the newest file format options (including "dense" link storage in groups) Add the H5Pset_track_creation_order() flag for GCPLs, to enable creation order tracking in groups (although no index on creation order yet). Remove --enable-group-revision configure flag, as file format issues are now handled in a backwardly/forwardly compatible way. Clean up lots of compiler warnings and other minor formatting issues. Tested on: FreeBSD/32 4.11 (sleipnir) w/threadsafe Linux/32 2.4 (heping) w/FORTRAN & C++ Linux/64 2.4 (mir) w/enable-v1.6 compa Mac OSX/32 10.4.8 (amazon) AIX 5.3 (copper) w/parallel & FORTRAN
* [svn-r12687] reverted back some changes that inadvertedely added some ↵Pedro Vicente Nunes2006-09-2650-236/+182
| | | | | | | | output to the parallel part of h5diff tested : heping parallel
* [svn-r12684] Pedro Vicente Nunes2006-09-262-2/+2
| | | | corrected usage message to have an example of the new binary parameters
* [svn-r12683] Pedro Vicente Nunes2006-09-2610-62/+116
| | | | | | | | | | | | | | | | | | revised binary flags, added a new file to the test generator program to be used in the binary tests usage is now -o F, --output=F Output raw data into file F -b F, --binary=F Binary output, of form F (into file -o F). Recommended usage is with --dataset=P Form F of binary output is: MEMORY for memory type, FILE for the disk file type, LE or BE for pre-existing little or big endian types example ./h5dump -d integer -b MEMORY -o out.bin tbinary.h5
* [svn-r12680] Description:Quincey Koziol2006-09-251-2/+2
| | | | | | | | | Review, revise & checkin in Peter's latest round of object copy changes, which add basic support for datasets & attributes with reference datatypes. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12678] bug fixPedro Vicente Nunes2006-09-2550-182/+236
| | | | | the number of atribute differences was not added to the total sum of differences
* [svn-r12675] Pedro Vicente Nunes2006-09-201-8/+13
| | | | | added a new output file for the case of missing file name, conforming to the new usage message
* [svn-r12673] Pedro Vicente Nunes2006-09-191-8/+18
| | | | | | | added long names for parameter switches that did not have them, reformated usage message tested: heping
* [svn-r12671] Pedro Vicente Nunes2006-09-185-17/+154
| | | | | | | added a test file generator program for h5copy, modified test script to use that file, added binary file to repo tested on heping, shanti
* [svn-r12668] Description:Quincey Koziol2006-09-151-1/+1
| | | | | | | Re-run 'bin/reconfigure' script after recent checkins Tested on: none - shouldn't have any affect on compilation
* [svn-r12665] Pedro Vicente Nunes2006-09-131-3/+5
| | | | added comments
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