current behavior: if there is a request to do H5_INDEX_CRT_ORDER and tracking order is set
in the dataset's creation property list for attributes, then, sort by creation order, otherwise by name
Make H5Dopen versioned and change all internal usage to use H5Dopen2
Add simple regression test for H5Dopen1
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
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
Put H5Acreate() under API versioning, with all internal usage shifted
to H5Acreate2().
Add regression tests for H5Acreate1().
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
Move H5Aopen_name() routine to deprecated symbol section and replace
internal usage with H5Aopen().
Add simple regression test for H5Aopen_name() to deprecated routine
test.
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
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
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
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
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
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
groups and creation order:
if there is a request to do H5_INDEX_CRT_ORDER and this flag is set
in the group, then, sort by creation order, otherwise by name
tested: windows, linux
Added 2 new switch flags for sort parameters of groups.
-q sort_by [creation_order | name]
-z sort_order [ascending | descending ]
Added extra parameter to dump_group of type H5_iter_order_t to control the iteration order, to be passed to H5Literate.
Note : code under development, tests not added yet and flags NOT added to usage
Tested : windows, linux
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
Make H5Topen versioned, and add regression test for H5Topen1.
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
AIX/32 5.3 (copper) w/FORTRAN, w/parallel, in production mode
Mac OS X/32 10.4.10 (amazon) in debug mode
Add regression test for h5repack with userblock
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
AIX/32 5.3 (copper) w/FORTRAN, w/parallel, in production mode
Mac OS X/32 10.4.10 (amazon) in debug mode
Add API versioning to H5Tcommit()
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
AIX/32 5.3 (copper) w/FORTRAN, w/parallel, in production mode
Mac OS X/32 10.4.10 (amazon) in debug mode
Finish deprecating last H5G symbol (H5G_obj_t) - yay!
Lots of misc. library fixes to remove confusion between links and
objects. The tools could still use another pass, to remove h5trav_type_t type
and make the correct distinction between links & objects.
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
AIX/32 5.3 (copper) w/FORTRAN, w/parallel, in production mode
Mac OS X/32 10.4.10 (amazon) in debug mode
Add H5Rget_obj_type() to the API versioning and switch internal
routines to use H5Rget_obj_type2()
Misc. other code cleanups, etc.
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)
Correct name used for checking objects to operate on for h5repack,
exposed by recent traversal routine changes.
Tested on:
Solaris/32 5.10 (linew) w/szip
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)
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)
Move H5Giterate() and H5G_iterate_t to deprecated symbols section,
replacing them with H5Literate and H5L_iterate_t respectively.
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)
Move H5Gget_linkval to deprecated symbol section and replace with
H5Lget_val for internal calls.
Tested on:
FreeBSD/32 6.2 (duty)
FreeBSD/64 6.2 (liberty)
Linux/32 2.6 (kagiso)
Linux/64 2.6 (smirom)
Solaris/32 5.10 (linew)
Mac OS X/32 10.4.10 (amazon)
Remove all plain calls to H5Gopen() from source, replacing them with
either H5Gopen2().
Add test for H5Gopen1().
Reformatted several pieces of code, to clean them up.
Tested on:
FreeBSD/32 6.2 (duty)
FreeBSD/64 6.2 (liberty)
Linux/32 2.6 (kagiso)
Linux/64 2.6 (smirom)
Solaris/32 5.10 (linew)
Mac OS X/32 10.4.10 (amazon)
Description:
In h5unjam.c, there was a call to "open", rather than "HDopen". This isn't a problem on most platforms, as the are equivalent. However, on Windows, we use the HDopen macro to unconditionally set the O_BINARY flag. This is needed to safely seek within a file.
Tested:
VS2005 on WinXP
h5committest (kagiso linew smirom)
Pursue calls to H5Gcreate() relentlessly and ruthlessly exterminate
them, leaving only a few tame specimens in text files and comments. ;-)
Tested on:
Mac OS X/32 10.4.10 (amazon)
FreeBSD/32 6.2 (duty)
FreeBSD/64 6.2 (liberty)
Linux/32 2.6 (kagiso)
Linux/64 2.6 (smirom)
Solaris/32 5.10 (linew)
First real use of API versioning code, H5E routines switched to use
new API versioning scheme.
Tested on:
Mac OS X/32 10.4.10 (amazon)
FreeBSD/32 6.2 (duty)
FreeBSD/64 6.2 (liberty)
Linux/32 2.6 (kagiso)
Linux/64 2.6 (smirom)
Solaris/32 5.10 (linew)
New feature: implementation of h5import conversion of an ASCII plain-text file containing text data
The string type H5T_C_S1 is used to define the data (the datum is defined here as one line of text in the text file). The size is set to variable length (H5T_VARIABLE)
The space used is a 1D array with as many elements as there are lines in the ASCII file (a line is defined by the inclusion of an end of line character, ASCII number 10). A first traversal of the input text file must be made to determine the number of lines in the file and thus the dimensionality of the dataset.
New test to the test script added
text input files and teststr.h5 for h5dump to compare added
Tested: windows, linux, solaris
