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* [svn-r14190] Pedro Vicente Nunes2007-10-065-4/+52
| | | | | | | Bug fixes Avoid passing iteration flags on the dump_group function parameters but instead inspect the groups's property list just before calling H5Literate and H5Aiterate, in this later case checking the creation order flags with H5Pget_attr_creation_order Tested: windows, linux
* [svn-r14188] added a named datatype with attributes to the h5 file that ↵Pedro Vicente Nunes2007-10-055-2/+58
| | | | | | shows attributes with several iteration orders tested: windows, linux
* [svn-r14186] Added support for displaying several iteration orders on group ↵Pedro Vicente Nunes2007-10-045-0/+56
| | | | | | and named datatype attributes tested: windows, linux
* [svn-r14182] Pedro Vicente Nunes2007-10-045-0/+92
| | | | | | | Added support for displaying several iteration orders on dataset attributes, 4 new tests in test script (name ascending, name descending, creation_order ascending, creation_order descending) New h5 file is made on the generator program Tested: windows, linux
* [svn-r14180] Description:Quincey Koziol2007-10-043-985/+985
| | | | | | | | | | | | | | | | | | | Make H5Aiterate() versioned and change all internal use to H5Aiterate2() Leave some regression tests that exercise H5Aiterate1() Fix attribute display in h5dump & h5ls to be "by name" by default 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 2.6 (smirom) 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 Mac OS X/32 10.4.10 (amazon) in debug mode
* [svn-r14174] new h5dump usage to include -q and -zPedro Vicente Nunes2007-10-021-6/+10
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | tested: windows, linux, solaris 5.10 usage: h5dump [OPTIONS] file OPTIONS -h, --help Print a usage message and exit -n, --contents Print a list of the file contents and exit -B, --bootblock Print the content of the boot block -H, --header Print the header only; no data is displayed -A, --onlyattr Print the header and value of attributes -i, --object-ids Print the object ids -r, --string Print 1-byte integer datasets as ASCII -e, --escape Escape non printing characters -V, --version Print version number and exit -a P, --attribute=P Print the specified attribute -d P, --dataset=P Print the specified dataset -y, --noindex Do not print array indices with the data -p, --properties Print dataset filters, storage layout and fill value -f D, --filedriver=D Specify which driver to open the file with -g P, --group=P Print the specified group and all members -l P, --soft-link=P Print the value(s) of the specified soft link -o F, --output=F Output raw data into file F -b B, --binary=B Binary file output, of form B -t P, --datatype=P Print the specified named datatype -w N, --width=N Set the number of columns of output -q Q, --sort_by=Q Sort groups and attributes by index Q -z Z, --sort_order=Z Sort groups and attributes by order Z -x, --xml Output in XML using Schema -u, --use-dtd Output in XML using DTD -D U, --xml-dtd=U Use the DTD or schema at U -X S, --xml-ns=S (XML Schema) Use qualified names n the XML ":": no namespace, default: "hdf5:" E.g., to dump a file called `-f', use h5dump -- -f Subsetting is available by using the following options with a dataset attribute. Subsetting is done by selecting a hyperslab from the data. Thus, the options mirror those for performing a hyperslab selection. The START and COUNT parameters are mandatory if you do subsetting. The STRIDE and BLOCK parameters are optional and will default to 1 in each dimension. -s L, --start=L Offset of start of subsetting selection -S L, --stride=L Hyperslab stride -c L, --count=L Number of blocks to include in selection -k L, --block=L Size of block in hyperslab D - is the file driver to use in opening the file. Acceptable values are "sec2", "family", "split", "multi", "direct", and "stream". Without the file driver flag, the file will be opened with each driver in turn and in the order specified above until one driver succeeds in opening the file. F - is a filename. P - is the full path from the root group to the object. N - is an integer greater than 1. L - is a list of integers the number of which are equal to the number of dimensions in the dataspace being queried U - is a URI reference (as defined in [IETF RFC 2396], updated by [IETF RFC 2732]) B - is the form of binary output: MEMORY for a memory type, FILE for the file type, LE or BE for pre-existing little or big endian types. Must be used with -o (output file) and it is recommended that -d (dataset) is used Q - is the sort index type. It can be "creation_order" or "name" (default) Z - is the sort order type. It can be "descending" or "ascending" (default) Examples: 1) Attribute foo of the group /bar_none in file quux.h5 h5dump -a /bar_none/foo quux.h5 2) Selecting a subset from dataset /foo in file quux.h5 h5dump -d /foo -s "0,1" -S "1,1" -c "2,3" -k "2,2" quux.h5 3) Saving dataset 'dset' in file quux.h5 to binary file 'out.bin' using a litt le-endian type h5dump -d /dset -b LE -o out.bin quux.h5
* [svn-r14173] Pedro Vicente Nunes2007-10-024-12/+0
| | | | | | | | | | | | | | | | | | | bug fix the binary option expects a full path in -o TOOLTEST tbin1.ddl -d integer -o $TESTDIR/out1.bin -b LE tbinary.h5 and it prints it in the expected output , making it absolutely not portable Solution: made a special macro function TOOLTEST1 identical to TOOLTEST except that it does not print the Expected output header ############################# Expected output for 'h5dump -d integer -o /home/pvn/kagiso/build_hdf5/tools/h5dump/../testfiles/out1.bin -b LE tbinary.h5' ############################# Tested : linux
* [svn-r14172] Pedro Vicente Nunes2007-10-0217-191/+159
| | | | | | | | | 1) added 5 new tests for the group creation order 2) modified the h5dump test script to automatically generated non existing (new) output files 3) cleaning of unused DDL files 4) new modified DDL files include tcomp-3.ddl ( new form of named datatype) and the binary output files tested : linux
* [svn-r14164] Pedro Vicente Nunes2007-10-011-0/+0
| | | | | | | | | | | | | | | first batch for displaying groups in creation order 1) Added extra parameter to dump_group of type H5_index_t , to be passed to H5Literate. When a group is tried to be displayed, an inquiry of its creation properties is made. If H5P_CRT_ORDER_TRACKED is present on the group property list then the display is made by creation order, otherwise it is made by name 2) Added a new file to h5dumpgentest that generates a file with a hierarchy of groups with creation order on and off in alternately Note : XML code was not modified Tested : windows, linux
* [svn-r14144] Description:Quincey Koziol2007-09-1315-565/+509
| | | | | | | | | | | | | | | | Move H5Gget_objinfo() to deprecated symbols section and retarget internal usage to H5Lget_info()/H5Oget_info(). Misc. other code cleanups... Tested on: FreeBSD/32 6.2 (duty) FreeBSD/64 6.2 (liberty) Linux/32 2.6 (kagiso) Linux/64 2.6 (smirom) AIX/32 5.3 (copper) Solaris/32 2.10 (linew) Mac OS X/32 10.4.10 (amazon)
* [svn-r14136] Description:Quincey Koziol2007-09-065-181/+186
| | | | | | | | | | | | | | Move H5Gget_num_objs() and several minor macros, etc. to deprecated symbols section, replacing it with H5Gget_info(). Tested on: FreeBSD/32 6.2 (duty) FreeBSD/64 6.2 (liberty) Linux/32 2.6 (kagiso) Linux/64 2.6 (smirom) AIX/32 5.3 (copper) Solaris/32 5.10 (linew) Mac OS X/32 10.4.10 (amazon)
* [svn-r14132] Description:Quincey Koziol2007-08-301-0/+0
| | | | | | | | | | Regenerate the h5diff_types.h5 file, which had somehow gotten mangled in some earlier checkin (prior to ~2-3 days ago, at least). Clean up formatting a bit also.. Tested on: Mac OS X/32 10.4.10 (amazon)
* [svn-r14051] Pedro Vicente Nunes2007-08-071-5/+1
| | | | | | Make the compare to itself file test be another due to the recently introduced file with Nans Tested: linux, solaris
* [svn-r14048] Pedro Vicente Nunes2007-08-073-0/+6
| | | | | | Added a dataset with NaN values to the h5diff file generator program and new binary file Tested: linux
* [svn-r13894] Description:Scott Wegner2007-06-202-2/+2
| | | | | | | | | | | On Windows, Mingw interprets all parameters starting with '/' as paths, and replaces the '/' with its home directory, "C:\Windows\msys\". This was a problem in h5diff tests such as: h5diff h5diff_101.txt $FILE1 $FILE1 /g1/d1 g1/d2 -v I've removed the leading '/', as h5diff will interpret it the same either way. Tested: kagiso, linew, and smirom, via h5committest mingw on Windows XP
* [svn-r13805] Pedro Vicente Nunes2007-05-242-2/+0
| | | | | | Early detection of no arguments, print usage and exit Tested: linux
* [svn-r13775] Pedro Vicente Nunes2007-05-213-9/+17
| | | | | | | Modified the current h5dump test script to use h5import/h5diff calls to validate the binary output. At this moment it can only be used with the native test, since h5import does not deal with input endianess. tested: linux, sunos 5.10
* [svn-r13636] Description:Quincey Koziol2007-04-114-12/+12
| | | | | | | | | | | | | | Change H5[D|G|T]<foo>_expand() "temporary" API routines to H5[D|G|T]<foo>2() "versioned" routines. Also added H5[D|G|T](create|commit)_anon() routines to continue to allow "anonymous" objects to be created in a file. Tested on: Mac OS X/32 10.4.9 (amazon) FreeBSD/32 6.2 (duty) FreeBSD/64 6.2 (liberty) Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13582] Pedro Vicente Nunes2007-04-031-0/+0
| | | | | | | | Bug fix Substitute a malloc call for a calloc call while allocating a reference buffer Add a test for an empty reference case Tested linux
* [svn-r13580] Description:Quincey Koziol2007-04-038-1/+1
| | | | | | | | | | | | Add version # and flags to external link format (as fields in a single byte), in order to accomodate future changes/expansions. Tested on: Mac OS X/32 10.4.9 (amazon) Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2) FreeBSD/32 6.2 (duty) FreeBSD/64 6.2 (liberty)
* [svn-r13573] Pedro Vicente Nunes2007-04-024-3/+3
| | | | | | | | | | | | Bug fixes Reset external file list slots name_offset to a state when created (0) in H5P_dcrt_copy so that it conforms to an assertion in H5D_update_entry_info that assumes the name_offset is 0 at this point this fixes the problem of h5repack and external files, add a new test and files for an external file h5diff, check for an error return in H5D_get_storage_size tested linux 32, 64
* [svn-r13498] Description:Quincey Koziol2007-03-1217-55/+55
| | | | | | | | | Eliminate storing # of links in "link info" message, regenerate it when the object is opened instead. Tested on: FreeBSD/32 6.2 (duty) Mac OS X/32 10.4.8 (amazon)
* [svn-r13497] Description:Quincey Koziol2007-03-119-52/+52
| | | | | | | | | | | | | | | | | | Move ref. count of # of links to an object out of the object header's prefix and make it a header message instead (since it's a "rare" occurence), eliminating some more space for each object in the file. Inserting this "ref. count" message exposed a flaw in the library's mechanism for locating a message to promote to another chunk and replace with a continuation message, which required some additional work to fix. It's still not completely robust, but it's working for more cases now and detects failures robustly. Reduced the minimum size of an object header chunk to just enough to contain a header message prefix and continuation message. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13496] Description:Quincey Koziol2007-03-1116-14/+14
| | | | | | | Reduce size of "default" link message storage. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13493] Description:Quincey Koziol2007-03-114-9/+9
| | | | | | | Eliminate storing default values for "group info" fields. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13491] Description:Quincey Koziol2007-03-104-9/+9
| | | | | | | | Reduce the size of the value used to store the # of bytes in the "payload" for chunk 0 of an object header. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13490] Description:Quincey Koziol2007-03-104-9/+9
| | | | | | | | | | | | Move "creation order tracked" flag from "group info" to "link info" object header message and make the "max. creation order value" optional in the "link info", if the creation order for links is not tracked. Also, get rid of unused "index names" flag - names are always indexed currently. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13488] Description:Quincey Koziol2007-03-1016-14/+14
| | | | | | | | | Remove unused "min. creation order" field from link info object header message. Tested on: FreeBSD/32 6.2 (duty) Mac OS X/32 10.4.8 (amazon)
* [svn-r13487] Description:Quincey Koziol2007-03-104-9/+9
| | | | | | | | | Eliminate message count from new version of object header prefix - it can be computed when the header is loaded and the table of messages is built. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13486] Description:Quincey Koziol2007-03-104-9/+9
| | | | | | | | | Move attribute tracking information out of object header prefix and make it into a message that is inserted only when attributes are present on the object. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13477] Description:Quincey Koziol2007-03-084-9/+9
| | | | | | | | | | | | | | | | | | | | The main purpose of this checkin was to eliminate the space used for tracking creation time indices when there is no way they can be used (i.e. attributes can't be shared in the file and the user hasn't turned on attribute creation tracking), however there were some other minor changes which crept in: - Fix a cache locking deadlock when a shared attribute and one of its components end up in the same fractal heap direct block. (This is fixed the "slow" way for right now, until John has time to add support for readers/writer locking to the cache. - Optimize attribute copying when a copy will be kept during a v2 B-tree search. - When freeing a block on disk, attempt to merge it with the metadata and "small data" aggregators. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 6.2 (duty)
* [svn-r13470] Description:Quincey Koziol2007-03-064-9/+9
| | | | | | | | Avoid storing the phase change values for attribute storage, unless they are non-default values. Tested on: Mac OS X/32 10.4.8 (amazon)
* [svn-r13451] Pedro Vicente Nunes2007-03-053-2/+599
| | | | | | | h5diff bug fix, attributes differences were not being count for total differences Revision of H5Ocopy call in h5repack
* [svn-r13440] Description:Quincey Koziol2007-03-0118-34/+34
| | | | | | | | | | | | | | | | | | | Revise latest form of superblock format pretty drastically, to eliminate unused fields and move rarely used fields into superblock extension. Finished removing last vestiges of references to (never used) i"shared" object header message ID. Added object header messages for non-default v1 B-tree 'K' values and for driver info. Updated testfiles to reflect size changes, etc. Various minor cleanups, etc. Tested on: FreeBSD/32 6.2 (duty) Mac OS X/32 10.4.8 (amazon)
* [svn-r13431] Pedro Vicente Nunes2007-02-281-0/+16
| | | | | | Bug fix: the macro used for percentage in the unsigned types needed a cast to signed (the difference can be negative) Unlike the 1.6 branch the unsigned long long conversion to float is supported by H5Tconvert , so the test commented for 1.6 is run (tools/testfiles/h5diff_16_2.txt)
* [svn-r13420] Description:Quincey Koziol2007-02-274-9/+9
| | | | | | | | | Update the file offsets for files created with "latest version" flag of h5mkgrp to reflect changes to superblock size. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13417] Pedro Vicente Nunes2007-02-2765-16/+0
| | | | commented a test that fails cross platforms and renamed files
* [svn-r13404] Pedro Vicente Nunes2007-02-2665-0/+0
| | | | renamed files for more easy browsing
* [svn-r13400] Pedro Vicente Nunes2007-02-2615-25/+33
| | | | Revision of the percent tests to have all the same data
* [svn-r13391] code cleaning and formated usage messagePedro Vicente Nunes2007-02-2618-36/+36
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* [svn-r13368] Pedro Vicente Nunes2007-02-2139-264/+328
| | | | Added a little format alignment to the printing of dimensions
* [svn-r13334] Added a new function to print the dimensions sizesPedro Vicente Nunes2007-02-1939-330/+266
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* [svn-r13321] revised attribute ordering done for the library makes h5diff to ↵Pedro Vicente Nunes2007-02-161-681/+681
| | | | | | output attributes in another order
* [svn-r13306] Description:Quincey Koziol2007-02-141-55/+55
| | | | | | | | | | | Mask off the storage utilization for the h5ls output, so that the h5ls output is more portable (VL datatype size is reported as the memory size instead of the file size, making the storage utilization incorrect - entered in bugzilla) Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13303] Description:Quincey Koziol2007-02-141-55/+55
| | | | | | | | | Blank out the modification time, to eliminate another portability issue. Tested on: Linux/32 2.6 (chicago) FreeBSD/32 6.2 (duty) Mac OS X/32 10.4.8 (amazon)
* [svn-r13302] Description:Quincey Koziol2007-02-141-108/+108
| | | | | | | | Use the '-S' command line flag for h5ls, to make the output portable. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13301] Description:Quincey Koziol2007-02-144-370/+484
| | | | | | | | | | | Add '-p' flag to h5copy tool, to create intermediate "parent" groups that don't exist in destination file yet. Add more tests to h5copy script. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13297] Description:Quincey Koziol2007-02-1410-0/+103
| | | | | | | | | | | | | | | | Add small 'h5mkgrp' tool to create groups in an HDF5 file from the command line, allowing the group structure for a file to be created in a script. This tool closely follows the 'mkdir' command line tool in UNIX/Linux. Allow tool library applications to pass a FAPL to the h5tool_fopen() call, giving some additional flexibility to tools which are adding objects to an existing HDF5 file (like h5copy & h5mkgrp). Fix missing files in MANIFEST from previous checkin(s). Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13296] Pedro Vicente Nunes2007-02-142-1/+1
| | | | temporary fix for a daily test failure
* [svn-r13294] Description:Quincey Koziol2007-02-133-7/+322
| | | | | | | | | | | | Add empty & "full" groups to source HDF5 file and test copying them. Test renaming objects during copy Test specifying root group path for source & destination objects Tested on: Linux/32 2.6 (chicago) Too minor to require more tests
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