TO DO: szip, nbit and scale offset
NOTE: the symbol H5Z_SHUFFLE_TOTAL_NPARMS was made public
Tested: windows, teragrid with icc 8.1, linux (kagiso), solaris (linew)
Tweak the constants for the shared message flags to be equal to the
other flags useds for the underlying messages.
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
changed the logic of the filter compare function to first compare filter type, then filter client data values (separate here in each individual case, since some filters return private filter values. Todo: handle the nbit and scale-offest cases)
tested: windows, linux
- 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
Following the new feature of h5repack to allow multiple filters for all datasets and the new function has_filters that checks if the repacked file has all the filters requested, I added a new function
has_filters_obj
that does the same for each dataset. The previous function that checked this only ckecked if the user input filters were in the output dataset. This new function does this but checks if the filters are exactly the same. Currently the behavior of h5repack is to delete all filters that are present in the input file (dataset) and replace them with the requested ones, so they must match exactly.
We might consider adding other logical operations, like keep the existing ones.
Additionally , the function also checks if the filter parameters match.
While doing this I noticed that for the shuffle filter , the values returned do not match and also the same for the N-bit and scale-offset
The new function that checks for the filter values fails then, and so I commented the h5repack tests that do this for the N-bit and scale-offset filter (previously for the same bug on the shuffle filter I added special code on the compare filter function but this is temporary until I find the issue)
tested: windows, linux, solaris
now the minus sign shows there was a DECREASE in compression
percentage is calculated from
per = (b-a)/a;
where a= size of dataset before
b = size after
tested: windows, linux
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
instead print a warning message on verbose mode saying that the comparison is not possible
note: partial fix, the next step is to compare strings that have different type sizes
tested: windows
Change H5O[gs]et_comment to H5O[gs]et_comment_by_name and re-add simpler
forms of H5O[gs]et_comment.
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
Change H5Oget_info -> H5Oget_info_by_name and re-add H5Oget_info in a
simpler form for querying a particular object, to align with other new API
routines.
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
Change H5Literate -> H5Literate_by_name and add simpler form of
H5Literate, to bring this routine into alignment with the other new API
routines.
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
Change existing H5Gget_info -> H5Gget_info_by_name and add new version
of H5Gget_info, with simpler parameters, to better match new API routines.
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
Change H5Aiterate2 -> H5Aiterate_by_name to be more consistent with
other new API routine names
Re-add H5Aiterate2, to operate on a particular object
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
Changed H5Acreate2 -> H5Acreate_by_name, to be more consistent with
other new API routines.
Re-added simpler form of H5Acreate2, which creates attributes directly
on an object.
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
Change H5Aopen -> H5Aopen_by_name, in order to be more consistent with
other new API routines.
Re-add H5Aopen as a simpler routine, to open attributes on a particular
object. (Much like the old H5Aopen_name routine).
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
Make H5Tarray_create() and H5Tget_array_dims() versioned, and drop the
"perm" parameter from the '2' versions.
Shift internal library usage to '2' versions.
Add simple regression tests for '1' versions.
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
Remove --enable-hdfv1_6 configure flag, now that all dependencies on it
have been removed and new --with-default-api-version=[v16|v18] and
--disable-deprecated-symbols flags have taken its place.
Update types in bin/trace so that bin/reconfigure runs cleanly.
Run bin/reconfigure to regenerate configure script, along with
other associated files, etc.
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
Make H5Pget_filter_by_id() API versioned and switch internal usage
to H5Pget_filter_by_id2().
Add simple regression test for H5Pget_filter_by_id1().
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
Make H5Pget_filter API versioned and switch internal usage to
H5Pget_filter2.
Add regression test for H5Pget_filter1.
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
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
added attribute iteration orders for named datatypes
current behavior: if there is a request to do H5_INDEX_CRT_ORDER and tracking order is set
in the named datatype's creation property list for attributes, then, sort by creation order, otherwise by name
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
Various code cleanups and refactor recent changes for h5stat to fit
into the existing library data structures better.
Tested on:
Mac OS X/32 10.4.10 (amazon)
FreeBSD/32 6.2 (duty)
Linux/32 2.6 (chicago)
Linux/64 2.6 (chicago2)
New feature.
Description:
Added routines to report on the amount of storage for:
1) 1.6 btree and heap storage info for groups
2) 1.8 btree, fractal heap storage info for groups, attributes and SOHM table
3) btree storage for chunked datasets
4) 1.8 superblock extension size.
Platform tested:
h5committested.
New feature.
Description:
Added routines to report on the amount of storage for:
1) 1.6 btree and heap storage info for groups
2) 1.8 btree, fractal heap storage info for groups, attributes and SOHM table
3) btree storage for chunked datasets
4) 1.8 superblock extension size.
Platform tested:
h5committested.
Add --enable-deprecated-symbols configure option, to allow users to
remove deprecated public API symbols at configure time.
Add bin/make_vers script to bin/reconfigure actions.
Run bin/reconfigure to regenerate autotool components.
Tested on:
Mac OS X/32 10.4.10 (amazon)
FreeBSD/32 6.2 (duty)
Linux/32 2.6 (kagiso)
Make h5dump more gracious and informative about objects it doesn't
understand.
Tested on:
Mac OS X/32 10.4.10 (amazon)
No need for h5committest - very minor
2) Removing configuration of c++/src/H5cxx_pubconf.h file.
Reasoning: the additional pubconf file caused compilation complications, this is cleaner.
Tested: kagiso, smirom
Add small interface to "wrap" a static buffer (usually on the stack), but
still allow for buffers larger than the static buffer to be allocated. This
can eliminate _many_ short-lived buffer allocations in situations where the
buffer is a predictable size (or at least a "very likely" size).
Also, some minor code cleanups, particularly in the SOHM caching code.
Tested on:
Mac OS X/32 10.4.10 (amazon)
Description: added new configuration to generate a pubconf file
in the c++/src directory, H5cxx_pubconf.h. When C++
compiler recognizes 'offsetof', the macro
H5_CXX_HAVE_OFFSETOF is defined in the new
pubconf file.
tested: kagiso, smirom
Bug fix.
Description:
The "h5dump -o ..." test generates temporay files in the testfiles of the
source code and later on remove them. This could cuase a racing condition
if more than one --srcdir build is using the same copy of the source code.
Since they use the same file name in the testfiles, they may conflict with
each other.
Solution:
Changed to generate the temporary files in the build-dir's own testfiles
directory. Since the build-dir can have different names, the CMP of expected
output now skip the first three lines which are label lines that contains
the location of the temporary.
Also removed the CREATE code since actual files created now cannot be
blindly copied to the expect files. Also, expected files should be
create by explicit action and careful inspection of files generated.
Tested platform:
Done in kagiso, both by --src-dir and in-place build.
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
Changed macro names, conflict with new compiler
-- changed DATASET to H5_TOOLS_DATASET
-- changed DATATYPE to H5_TOOLS _DATATYPE
-- changed GROUP to H5_TOOLS_GROUP
In mingw's version of winsock2.h they define:
typedef unsigned int GROUP;
remove STORAGELAYOUT macro, it was not used
tested: linux
Hook "default VFD" configure macros into library.
Also, make "default VFD" default to sec2 instead of nothing.
Tested on:
FreeBSD/32 6.2 (duty)
FreeBSD/64 6.2 (liberty)
Mac OS X/32 10.4.9 (amazon)
Description: a new configure flag has been created that will now set a macro
in the test/Makefile. The flag is with-default-vfd=. When set to
a virtual file driver (e.g. "--with-default-vfd=sec2"), the macro
DEFAULT_VFD will hold this value.
Tested: kagiso, smirom, linew
file size from MPI_File_get_size. Bypass this problem by replacing it with
stat. Add an option --disable-mpi-size in configure to indicate this function
doesn't work properly. Add a test in testpar/t_mpi.c, too. If it returns wrong
file size, print out a warning.
Tested on kagiso (parallel) because already tested the same change to v1.6 on
several platforms (kagiso, cobalt, copper, and sol).
Minor tunings to output verbose messages:
1)when there is not a filter request do not print a message saying the filter was not apllied when the dataset was too small
2) avoid printing the message that has a list of objects to modify when there is none
Tested:linux
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
change _int64 to __int64 within windows macro.
Windows can tolerant _int64 but mingw cannot. So we need to use __int64 to make HDF work on Mingw.
Compiled at linux and Mingw.
