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* [svn-r17493] Bring changes from trunk to tools lib, h5dump and error handling.Allen Byrne2009-09-176-28/+176
| | | | Tested: h5committest, local linux
* [svn-r17290] Added test targeted for bug 1520, which was fixed last week. ↵Allen Byrne2009-07-312-0/+14
| | | | | | The test generates an array datatype of ints larger than the display buffer. The bug was exposed when the buffer was reallocated. Tested: linux
* [svn-r17176] In H5Odtype.c, the decoding function used to mark the datatype ↵Raymond Lu2009-07-132-4/+4
| | | | | | | | | | as on disk. I changed it to undefined and let the caller functions decide the location of the datatype. For H5Tdecode, it should mark the datatype as in memory. For other callers like H5Dopen or H5Aopen, they should makr it as on disk. Tested it on jam, smirom, linew.
* [svn-r17078] Implemented nowrap option (Bug 811) equivalent to h5ls tool. ↵Allen Byrne2009-06-171-1/+3
| | | | | | Also updated usage output. Tested: linux
* [svn-r16668] Corrected the urls for h5dump xml dtd and schemaAllen Byrne2009-04-0360-60/+60
| | | | Tested: Fedora 10 gcc
* [svn-r16520] one file escape deletion from previous check inPedro Vicente Nunes2009-02-261-22/+0
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* [svn-r16519] merge 16518 from trunkPedro Vicente Nunes2009-02-264-0/+58
| | | | | | have 2 expected outputs for 2 h5ls runs depending if run on a big or little endian machine. Configure.in was modified to export a variable carrying endianess information to testh5ls.sh. This script then compares the current run with 2 expected outputs, one for a big-endian machine (linew was used to generate the output), other for little endian (jam was used to generate the output) the way h5ls prints types, it starts searching for NATIVE types first. One solution would be h5ls not to detect these native types, using for example the same print datatype function that h5dump does, that would make the output look the same on all platforms ("32-bit little-endian integer" would be printed instead). Drawback, this "native" information would not be available. Other solution is to have not one but 2 expected outputs and make the shell script detect the endianess and compare with one output or other tested: jam, linew
* [svn-r16310] merge 16299Pedro Vicente Nunes2009-01-142-0/+36
| | | | | | | | | | | Print a message of Storage: information not available When displaying storage information for VL and dataset region types Added 2 shell runs that display this information #818 Tested: windows, linux
* [svn-r15969] Pedro Vicente Nunes2008-10-271-2/+2
| | | | | | | | | | | | | | | Introduced a new feature in the tools library regarding command line parsing In the definition of arguments, an "*" means that the switch can or can not have an optional argument. This "*" is put in the code regarding the letter definition, and it is transparent to the user (e.g b* instead of the previous b: ), where ":" notes a required argument after the letter (and no ":" or "*" notes no argument, mandatory) Used for the h5dump binary option -b It can be now 1) -b (defaults to NATIVE) 2) - b NATIVE 3) - b FILE 4) -b LE 5) -b BE Note: the keyword NATIVE replaces MEMORY This feature (-b with no argument) was tested with the sequence of h5dump to binary (NATIVE) then h5import to generate an HDF5 file from the binary file and h5diff to compare the 2 HDF5 files Tested: windows, linux
* [svn-r15887] Purpose: Close bug 1332Neil Fortner2008-10-1616-20/+158
| | | | | | | | | Description: Improved external link traversal of h5dump. h5dump will now properly avoid all cycles, even those spanning multiple files. Improvement to the output of committed datatypes. Committed datatypes are now checked for uniqueness (like other objects). Tests added for these cases. Tested: kagiso, linew, smirom (h5committest)
* [svn-r15817] move h5jam testfiles to its own testfiles folderPedro Vicente Nunes2008-10-086-4/+0
| | | | tested: linux
* [svn-r15805] Purpose: Add option to h5ls to enable external link traversal.Neil Fortner2008-10-0713-6/+35
| | | | | | | | Description: Added -E option to h5ls. When set, this alows h5ls to enter external files (currently only through an external link). The -r option by itself will no longer allow h5ls to traverse external links. Tested: kagiso, linew, smirom (h5committest)
* [svn-r15759] move h5copy testfiles to /tools/h5copy/testfilesPedro Vicente Nunes2008-10-022-432/+0
| | | | tested: linux
* [svn-r15750] move h5repack test files to /tools/h5repack/testfilesPedro Vicente Nunes2008-10-0117-2/+0
| | | | tested: linux
* [svn-r15745] Move h5diff testfiles to /tools/h5diff/testfiles Pedro Vicente Nunes2008-10-0176-5539/+0
| | | | Tested: linux
* [svn-r15720] Added a file with user block data to be used by the h5repack ↵Pedro Vicente Nunes2008-09-291-0/+1
| | | | windows shell script only Note: for the unix shell script this file is not used
* [svn-r15672] Add missing test file, re-add it to the manifest (sorry).Neil Fortner2008-09-221-0/+12
| | | | Tested: kagiso
* [svn-r15669] Purpose: Add feature requested in bug #1282Neil Fortner2008-09-218-9/+34
| | | | | | | | | | Description: Adds capability to h5ls to traverse external links when the -r (recursive) option is given. Changes to the way absolute path names are patched in h5trav.c. Changes to the way recursive traversal starting from a non-root group is handled (which also fixes some preexisting issues). Tests added for these cases. Tested: kagiso, smirom, linew (h5committest)
* [svn-r15459] Purpose: Modify the library to take the proper action when ↵Neil Fortner2008-08-1159-0/+0
| | | | | | | | | | | | | | | files with incorrect datatype versions are encountered. Description: The library now recognizes some problems with datatype versions in H5O_decode_helper(), and, if not performing strict format checks, automatically corrects them. Framework added for other message decode routines to automatically correct file errors. Datatype version information added to h5debug. Resolves bz#1236, 1266. Test files with incorrect datatype versions corrected. Tested: kagiso, smirom, linew (h5committest)
* [svn-r15447] Pedro Vicente Nunes2008-08-071-3/+2
| | | | | | | | | | | bug fix http://bugzilla.hdfgroup.uiuc.edu/show_bug.cgi?id=788 don't print array indices for regions tested: windows, linux
* [svn-r15433] http://bugzilla.hdfgroup.uiuc.edu/show_bug.cgi?id=1170Pedro Vicente Nunes2008-08-0518-85/+265
| | | | | | | | | | | | | Summary: when using h5diff to compare the results of h5repack (or other tools that copy one HDF5 file to another), a new option is needed to allow h5diff to make an "absolute" comparison of the 2 files. This is the "contents" mode explained in the usage below. If this mode is present, objects in both files must match (must be exactly the same). If this does not happen, the tool returns an error code of 1 (instead of the success code of 0) Changes to the h5repack test script: the call to h5diff was changed to include -c (maintaining the previous -q). tested: windows, linux
* [svn-r15151] Pedro Vicente Nunes2008-06-051-0/+0
| | | | | | | | | | Fix for #1169 http://bugzilla.hdfgroup.uiuc.edu/show_bug.cgi?id=1169 don't print attributes to stdout when doing binary output added an attribute to the file run on the binary output test tested: windows, linux
* [svn-r15136] Purpose:Albert Cheng2008-06-041-0/+0
| | | | | | | | | | | | | | bug fixes. Description: Added code to create an empty hdf5 (named h5diff_empty.h5) in order to test if h5diff compares correctly an empty hdf5 vs. a non-empty one. Tested: Tested in kagiso of h5diffgentest itself. Verified by h5dump that h5diff_empty.h5 was indeed empty. Then "h5diff h5diff_empty.h5 h5diff_basic1.h5" returned 0 (should have returned non-zero).
* [svn-r15134] Description:Quincey Koziol2008-06-041-0/+5
| | | | | | | | | | Brought revision 15133 back from trunk: Fixed bug in h5ls that prevented relative group listings (like "h5ls foo.h5/bar") from working correctly. Tested on: Mac OS X/32 10.5.3 (amazon)
* [svn-r14978] Support for external links follow up. The format is to print ↵Pedro Vicente Nunes2008-05-123-3/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | the target object as part of TARGETPATH, noted with some extra indentation The previous printing of LINKCLASS 64 was removed HDF5 "textlinksrc.h5" { GROUP "/" { EXTERNAL_LINK "ext_link1" { TARGETFILE "textlinktar.h5" TARGETPATH "dset" DATASET "dset" { DATATYPE H5T_STD_I32LE DATASPACE SIMPLE { ( 6 ) / ( 6 ) } DATA { (0): 1, 2, 3, 4, 5, 6 } } } } } There is no script test for this behavior so far, because test script uses complete paths that vary from test to test, making not possible to define a valid TARGETFILE in the file tested: windows, linux, solaris
* [svn-r14948] Add a test for the floating point user defined printf formatPedro Vicente Nunes2008-05-063-0/+23
| | | | | | | | | | | | | | | | Usage is -m T, --format=T Where T - is a string containing the floating point format, e.g '%.3f' The test consists of writing a number with 7 fractional digits (default precision display of %f is 6 digits) and have the 7 digits displayed with -m %.7f fpformat.h5 Tested: windows, linux, solaris Note: the output file was generated in linux, it may be possible that platforms other than the ones tested have a different representation of the number
* [svn-r14906] Introduced a ratio formula compression ratio = uncompressed ↵Pedro Vicente Nunes2008-05-015-5/+5
| | | | | | | | size / compressed size in the printing of the compression with 3 digits of precision per hdf-forum NASA developers suggestion tested: windows, linux, solaris
* [svn-r14895] RFC display compression ratio in h5dumpPedro Vicente Nunes2008-04-295-5/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Here's the current behavior of h5dump regarding the printing of the dataset creation property list For example ./h5dump -H -p -d filters HDF5 "tfilters.h5" { DATASET "deflate" { DATATYPE H5T_STD_I32LE DATASPACE SIMPLE { ( 20, 10 ) / ( 20, 10 ) } STORAGE_LAYOUT { CHUNKED ( 10, 5 ) SIZE 385 } FILTERS { COMPRESSION DEFLATE { LEVEL 9 } } FILLVALUE { FILL_TIME H5D_FILL_TIME_IFSET VALUE 0 } ALLOCATION_TIME { H5D_ALLOC_TIME_INCR } } } The proposed behavior is to add this information after SIZE SIZE 385 (51.9%COMPRESSION) That percentage is obtained trough Per = (b-a) / a Where a = theoretical size obtained by multiplying datum size times number of elements b = size obtained with H5Dget_storage_size The final print would look like HDF5 "tfilters.h5" { DATASET "deflate" { DATATYPE H5T_STD_I32LE DATASPACE SIMPLE { ( 20, 10 ) / ( 20, 10 ) } STORAGE_LAYOUT { CHUNKED ( 10, 5 ) SIZE 385 (51.9%COMPRESSION) } FILTERS { COMPRESSION DEFLATE { LEVEL 9 } } FILLVALUE { FILL_TIME H5D_FILL_TIME_IFSET VALUE 0 } ALLOCATION_TIME { H5D_ALLOC_TIME_INCR } } } tested: windows, linux, solaris
* [svn-r14802] bug fix: #1106 h5dump -b will dump ASCII values for ↵Pedro Vicente Nunes2008-04-072-1/+1
| | | | | | datasets after the first one. One variable that controls the binary output was incorrectly reset to zero after a binary output was done a first time. The effect was that on cases of several datasets, the ones after the first were not binary written. Eliminated the resetting of that variable and tested a file with several datasets. Modified the test file so that it is easier to test with the tool binread, that reads the binary output of h5dump. tested: windows, linux
* [svn-r14691] Description:Quincey Koziol2008-02-288-3/+318
| | | | | | | Handle comparing datasets & attributes w/variable-length strings properly. Tested on: Linux/64 2.6.9 (chicago)
* [svn-r14437] bug fix for h5dump subsetting (deal with blocks)and new test runsPedro Vicente Nunes2008-01-164-42/+52
| | | | | | | | | | | | | | | | | | | | | | | | | add a check for block overlap after the command line parsing * Algorithm * * In a inner loop, the parameters from SSET are translated into temporary * variables so that 1 row is printed at a time (getting the coordinate indices * at each row). * We define the stride, count and block to be 1 in the row dimension to achieve * this and advance until all points are printed. * An outer loop for cases where dimensionality is greater than 2D is made. * In each iteration, the 2D block is displayed in the inner loop. The remaining * slower dimensions above the first 2 are incremented one at a time in the outer loop * * The element position is obtained from the matrix according to: * Given an index I(z,y,x) its position from the beginning of an array * of sizes A(size_z, size_y,size_x) is given by * Position of I(z,y,x) = index_z * size_y * size_x * + index_y * size_x * + index_x * tested: windows, linux
* [svn-r14414] revert the subsetting calls of h5dump to 1 size block, still a ↵Pedro Vicente Nunes2008-01-152-11/+7
| | | | | | bug with size > 1 tested: linux
* [svn-r14412] more progress on the block hyperslab bug, clean code Pedro Vicente Nunes2008-01-141-17/+9
| | | | | | modified the 3D test case for subsetting with block and stride factors tested: windows, linux
* [svn-r14411] more progress on the block hyperslab bug, clean code Pedro Vicente Nunes2008-01-141-11/+9
| | | | | | | modified the 2D test case for subsetting with block and stride factors tested: windows, linux
* [svn-r14409] more progress on the block hyperslab bug, clean code Pedro Vicente Nunes2008-01-141-8/+6
| | | | | | modified the 1D test case for subsetting with block and stride factors tested: windows, linux
* [svn-r14384] new file with output regarding the new binary filePedro Vicente Nunes2008-01-081-0/+2
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* [svn-r14383] new binary file: with double dataset with NaN valuesPedro Vicente Nunes2008-01-081-0/+0
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* [svn-r14353] Description:Quincey Koziol2007-12-201-80/+80
| | | | | | | | | | | | | | | | | | | | | | | | | - Add hash value for skip list string types, to reduce # of string comparisons. - Fixed bug with metadata/small data block aggregator adding size == 0 block into file free space list. - Refactored metadata/small data block aggregator code into single set of common routines. - Changed block aggregator code to be smarter about releasing space in the 'other' block when the 'other' block has aggregated enough data. Tested on: FreeBSD/32 6.2 (duty) in debug mode FreeBSD/64 6.2 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/default API=1.6.x, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Mac OS X/32 10.4.10 (amazon) in debug mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode
* [svn-r14339] bug fix: aligned a line in usage that was not alignedPedro Vicente Nunes2007-12-121-1/+1
| | | | tested: linux
* [svn-r14324] bug fix: #786 (E3) h5dump refers to the user block as "boot block"Pedro Vicente Nunes2007-12-061-1/+1
| | | | | | replaced usage message with "super block" tested: linux
* [svn-r14284] Description:Quincey Koziol2007-11-2424-157/+73
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Add H5Lvisit_by_name() API routine to library. Eliminated all (five!) other group traversal routines and changed them all to use the new API routine. Cleaned up output of h5ls & h5stat: - Issue error when requesting recursive traversal of a file with the "group info" flag, but no group given - Print info about root group in all(?) appropriate situations - Don't print "verbose" information about root group until the root group is in the list of objects to display (mostly because h5ls & h5stat had a different twist on traversing the groups in a file that the other utilities) Tested on: FreeBSD/32 6.2 (duty) in debug mode FreeBSD/64 6.2 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/default API=1.6.x, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Mac OS X/32 10.4.10 (amazon) in debug mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode
* [svn-r14273] new feature: added some long options to the testsPedro Vicente Nunes2007-11-203-3/+3
| | | | tested: linux
* [svn-r14267] enhancement: formatted h5diff usage Pedro Vicente Nunes2007-11-1917-272/+425
| | | | tested: linux
* [svn-r14266] enhancement: format usage messagePedro Vicente Nunes2007-11-191-1/+2
| | | | tested: linux
* [svn-r14264] new features: 1) new usage for h5diff " A la" h5dump formatPedro Vicente Nunes2007-11-1617-357/+289
| | | | | | 2) new usage for h5repack and new command line parsing using the tools library parsing code tested: windows, linux, solaris
* [svn-r14259] New feature: removed one test and file from the h5diff shell ↵Pedro Vicente Nunes2007-11-131-54/+0
| | | | | | script that prints an error message that has an absolute path (invalid option), thus not suitable for the multi platform test
* [svn-r14258] new feature: make h5diff use the same command line parsing code ↵Pedro Vicente Nunes2007-11-1361-82/+105
| | | | | | | | | and syntax than h5dump usage is now h5diff [OPTIONS] file1 file2 [obj1[obj2]] tested: windows, linux, solaris
* [svn-r14216] add a -V version information for h5diffPedro Vicente Nunes2007-10-2218-0/+18
| | | | tested: windows, linux
* [svn-r14201] attribute ordering: added objects that do not have creation ↵Pedro Vicente Nunes2007-10-119-18/+626
| | | | | | | | | | order tracked current behavior is if DCPL has creation order tracked for attributes then sort the attributes by creation order otherwise by name regarding sort order (ascending or descending) it is done in whatever is requested tested: linux
* [svn-r14200] added tests for XML output of attribute iteration orders (same ↵Pedro Vicente Nunes2007-10-114-0/+620
| | | | | | calls as DDL ) tested: linux
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