Bug fixes
Description:
Updated dependencies
Fixed error with C++ compiler builds of main library
Added H5Pset_data_transform to MPE info
Platforms tested:
FreeBSD 4.9 (sleipnir)
Code cleanup
Description:
Clean up lots of warnings based on those reported from the SGI compilers
as well as gcc.
Platforms tested:
SGI O3900, IRIX64 6.5 (Cheryl's SGI machine)
FreeBSD 4.9 (sleipnir) w/ & w/o parallel
h5committest
Code cleanup
Description:
Regenerated with older version of dataspace information, since these files
don't contain null dataspaces.
Platforms tested:
FreeBSD 4.9 (sleipnir)
h5committest
bug fix
Description:
the routine for reading the options from a file had the "old" parse syntax
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
Bug fix.
Description:
Temporary output files were created in the source directory.
If multiple build/tests using the same source directory occur
at the same time, they would conflict because of the same file
names.
Solution:
Changed it to create temporary output file in the current build
directory.
Platforms tested:
sol.
Misc. update:
new test
Description:
add a test that generates a file with "holes" and then uses h5repack to clean
the empty space. it works
Solution:
Platforms tested:
linux
Misc. update:
Description: Mainly are header message changes for dataspace. In last round
of check-in, a new header message for dataspace to created, which is not a good
way. Now, there will be no new message for dataspace, but just add the type of
dataspace in the message while increment its version number. Backward compatibility
is addressed. The attribute design is modified accordingly. Took out Null
dataspace test from tmisc.c and put it in th5s.c. These files are re-generated
since the header message has been changed.
Platforms tested: h5committest
bug fix, new tests
Description:
added a couple of #ifdefs to check if a specific filter is available for read
added more tests
the h5tools check filters had a mismatched filter variable
Solution:
Platforms tested:
linux, with several filter configurations (all, some , none )
Misc. update:
new tests for h5repack
Description:
added more tests both to the test program and shell script that test
a variation of different filter converssions
Solution:
Platforms tested:
linux
Misc. update:
new tests for h5repack
Description:
added tests that do layout type to layout type conversion in a matrix of 9 between compact, contiguous and chunking
Solution:
Platforms tested:
linux
afs has problems; I could not telnet to sol and copper, arabica is really slow (meaning
waiting 1 minute for a typed character) and the writing of a file gave an error
arabica 181% afs: failed to store file (145)
afs: failed to store file (145)
Misc. update:
bug fix
Description:
the synntax of the input of h5repack conatined double quotes and spaces, which
were causing problems on the parsing in AIX paralell
Solution:
replaced the spaces by =
that is, instead of -f "GZIP 6"
we have now
-f GZIP=6
Platforms tested:
linux
solaris
AIX paralell
Misc. update:
Bug fix.
Description:
nerror was not updated when errors were detected.
Added the nerror update and print a message at
the end if all is well.
Platforms tested:
Tested in copper, both parallel and serial.
bug fix continuation
Description:
the atof return value on a hexadecimal input is different
on some systems; before checking for the atof return value
do a character check for the first 2 characters of the string input
Solution:
Platforms tested:
linux
solaris
Misc. update:
bug fix (sort of)
Description:
apparently linux and other systems (solaris) return a different value from atof if the
argument is in hexadecimal .
this return value was used to test if the argument to -p and -d was a valid floating point
number
for now , commented the calls in the script with -p <hexa> until we find a portable solution
Solution:
Platforms tested:
linux
solaris
windows
Misc. update:
bug fix
Description:
the -p option was not parsing correctly if the input was in the exponential format
Solution:
add a new parse test for floating point numbers
Platforms tested:
linux
Misc. update:
code clean, change test script
Description:
removed soem debugging messages
changed the chunking command line call to a non square dimensionality
Solution:
Platforms tested:
linux
Misc. update:
bug fix
new test
Description:
the fletcher filter used a temporary 2 byte word buffer to compute the checksum.
this is non portable between big-endian/little endian.
added a test that reads 2 pre-saved files (one LE, other BE) with that filter enabled
Solution:
replaced with a buffer of 1 byte type
Platforms tested:
linux
solaris
solaris 64 bit
AIX
windows
Misc. update:
new feature
Description:
added a check for the return value of the tools h5repack and h5diff
in the run script.
the return value is used to print PASSED (tool returns 0) or FAILED
Solution:
Platforms tested:
linux
Misc. update:
1) new function for tools library
2) new test script for h5repack
Description:
1) currently all the tools (h5dump, h5diff, etc) do not check if a filter is available
for reading some dataset that might have a filter not available on the current configuration (the behaviour
of the tools until now was to trigger a library error, saying that the dataset cannot be read
due to the lack of the filter)
Solution:
1) added a new function h5tools_canreadf that checks if a dataset can be read
depending on the availability of filters.
this function was added in calls for h5diff and h5repack.
instead of triggering the library error, a message is printed, saying that the dataset
cannot be read (the print is optional, it is on on verbose mode)
2) added a shell script that tests the commannd line tool behaviour of h5repack
the script does a series of runs of h5repack with several options on the same file (this file test4.h5
was added to the testfiles dir).
then, it runs the h5diff tool, with the input and output files , in each run.
the goal of the test is also to check item 1) . the binary file was saved with filters
that might not be available on other configurations
Platforms tested:
linux (all filters enabled)
linux (some filters disabled)
solaris (some filters disabled)
AIX (some filters disabled)
windows (all filters on and off )
Misc. update:
bug fix
Description:
I introduced some #ifdef <have_filter> on the check in yesterday on the places
that generated datasets, that had no corresponding on the read part.
this caused failures in the configurations where a filter was not defined
Solution:
just removed the #ifdefs
Platforms tested:
linux
Misc. update:
bug fix
Description:
generating a dataset in linux 2.4 (verbena) with the pgcc compiler gave an error with the following
sequence
1) make a space id1 and a dcpl
2) make a space id2, create and write a dataset with space id2, close
3) attempt to create a dataset with space id1 fails and calling a set_filter function with the dcpl in 1) fails
Solution:
just changed the order 2) to 1)
Platforms tested:
linux 2.4 (verbena) with pgcc compiler
Misc. update:
bug fix in H5Zshuffle.c
add more tests to h5repack that exposed the bug
Description:
when creating a dataset with the shuffle filter and duplicating it in a new dataset (file)
the call to H5Z_set_local_shuffle failed. this is because the value of cd_nelmts of the filter
structure is set to 1 (H5Z_SHUFFLE_TOTAL_NPARMS) when the original dataset is created, but when
the new dataset is created there is a checking instruction that fails if the value of
cd_nelmts is not 0 (its original value, H5Z_SHUFFLE_USER_NPARMS)
Solution:
just remove that check condition, since the value of cd_nelmts is not used anyway.
if we decide that the value of cd_nelmts is necessary, then the H5O_pline_copy function
must be changed to update this value (a different update for each filter)
Platforms tested:
linux
solaris
AIX
Misc. update:
small bug fix
Description:
a dataset creation property list was not closed
Solution:
closed it, calling H5Pclose(dcpl);
Platforms tested:
linux (small fix)
Misc. update:
new feature, bug fix, changed function
Description:
1) implemented the option that says if the dataset is too small , do not compress it
2) bug fix in the SZIP checking . only apply szip to atomic datatypes
3) made the apply_filters function more compact
Solution:
Platforms tested:
linux
AIX
solaris
Misc. update:
Bug fix
Description:
Add ifdef around most of this file, to protect it from the Intel 7.1 C
compiler which seems to have bugs in its -MG flag for creating dependency
information.
Platforms tested:
Linux IA64 (titan)
too obscure to require testing on other platforms
Bug fix
Description:
Fix h5tools routines to not try to call MPI_Init() unless an MPI-based
VFD is actually used.
Platforms tested:
FreeBSD 4.9 (sleipnir) w/parallel
Linux 2.4 (verbena) w/parallel
Purpose:
replaced name of delete filter with remove filter for the new function H5Premove_filter
Description:
Solution:
Platforms tested:
linux
Misc. update:
New Feature. (Contributed by Robb)
Description:
Allow h5ls to specify a VFL with the '--vfl=' command line flag.
Add MPI-I/O & MPI-POSIX VFL drivers to list of drivers available for
h5ls and h5dump.
Platforms tested:
FreeBSD 4.9 (sleipnir) w/parallel
h5committested
h5repack new feature
Description:
in the SZIP settings, when the requested pixels per block parameter does not conform
to the SZIP specifications, instead of returning without applying the filter,
do an attempt to set this parameter to a valid value, issuing a warning in the process
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
bug fix
Description:
avoid reading and writing data when one of the dimensions is 0 (attributes case )
Solution:
linux
solaris
AIX
Platforms tested:
Misc. update:
new library function H5Pdelete_filter
deletes one or all filters from a dataset creation property list
this was done for the NONE option of h5repack, added tests for this feature
added a test for the new function in /test/dsets.c
Description:
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
added h5repack and h5diff support for copying and differences of references to dataset regions
modified the behaviour in the diff of attributes, when a difference in name is detected
in the attribute cycle (number of attributes of object), instead of exiting the
cycle, rather continue
Description:
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
changed the text of a error message related to the fail of H5Fopen to " unable to open file "
Description:
Solution:
Platforms tested:
linux (small change )
Misc. update:
Description: h5dump and h5ls failed an assertion check when a dataset's
datatype is enumerate type and there are special characters in the names
of these values.
Platforms tested: h5committest
bug fix
Description:
cases of rank 0 were not handled, now a warning is made that the dataset cannot be compressed
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
h5repack change
Description:
changed the default size of chunks when defining a new dataset to apply a filter
this size is now equal to the current dimensions. previously , it was set to half this
value, and it was causing write calls to fail on some files (probably a bug)
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
Feature
Description:
Added option -showconfig which Shows the HDF5 library configuration summary
Platforms tested:
No h5committest test which does not test these tools.
Tested in eirene by hand.
Misc. update:
bug fix, code improvment
Description:
fixed a bug in the parse of chunking function
added some auxiliary functions to avoid repeated parts of the code in several places
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
Bug fix
Description:
When two property lists are compared, the H5Pequal routine was just
comparing the raw information for the property values. This causes problems
when the raw information contains pointers to other information.
Solution:
Allow a 'compare' callback to be registered for properties, so that a user
application get perform the comparison itself, allowing for "deep" compares of
the property value.
This was exported to the H5Pregister & H5Pinsert routines in the development
branch, but not the release branch.
Platforms tested:
FreeBSD 4.9 (sleipnir)
h5committest
Code cleanup
Description:
Tweaked down the size of the szip 'pixels per block' for a test, now that
the library is range-checking this value more strictly.
Platforms tested:
FreeBSD 4.9 (sleipnir)
too minor for h5committest
Code cleanup
Description:
Removed redundant testing script from being executed, since it's just
running the program in the "TEST_PROGS" macro.
Platforms tested:
FreeBSD 4.9 (sleipnir)
too minor for h5committest
h5repack new features
Description:
added support/ tests for contiguous and compact layout processing
Solution:
Platforms tested:
linux
solaris
AIX
Misc. update:
h5repack new features
Description:
added checking routines for the filters that were applied to the output file
added tests for szip filter
Solution:
Platforms tested:
linux
solaris
(IRIX is not available)
:
Misc. update:
h5repack new features
Description:
addded the copy routines for hard links
changed the traversal structure to store information about the hard links
added tests
Solution:
Platforms tested:
linux
solaris
IRIX
Misc. update:
h5repack new features
Description:
added debugging functions and a hard link generated dataset for the test suite
Solution:
Platforms tested:
linux
solaris 2.7
IRIX
Misc. update:
code clean, bug fix
Description:
the attributes of the root group were not being compared
removed compiler warnings on IRIX and solaris
Solution:
added a special function to compare the attributes of the root group
Platforms tested:
linux
IRIX 6.5
solaris 2.7
Misc. update:
bug fix
Description:
sleipnir was complaining about a missing header declaration
Solution:
added the include
Platforms tested:
linux (small)
Misc. update:
h5diff new features
Description:
added comparison for attributes
adeded comparison for all dataset datatypes
added tests for the new features
changed the output format
Solution:
Platforms tested:
linux
solaris 5.7
IRIX 6.5 (64)
Misc. update:
Bug fix
Description:
Variable length strings and sequences with NULL pointers were not handled
by library, causing problems access the data. This also affected fill values
for variable-length datatypes.
Solution:
Address the issues in the library by detecting NULL sequences/strings
and avoid trying to convert them.
Patched up dumper to display NULL sequences/strings.
Platforms tested:
FreeBSD 4.9 (sleipnir)
h5committest
bug fix, clean code
Description:
a malloced buffer was not release
cleaned some compiler warnings
Platforms tested:
linux
solaris 2.7
IRIX
Misc. update:
Bug fix & code cleanup
Description:
Propagate error value out of function, so that failures can be detected by
testing scripts.
Clean up a few compiler warnings while I'm here.
Platforms tested:
FreeBSD 4.9 (sleipnir)
too minor to require h5committest
Improvement
Description:
If the library is built in parallel mode, then name the "h5cc" and
"h5fc" programs "h5pcc" and "h5pfc" resp. This saves the user from
worrying about mixing serial and parallel builds of the library and
having to specify the pathnames and so-forth.
Platforms tested:
Linux (w/ parallel & Fortran)
Modi4 (w/ parallel & Fortran)
Sol (Serial & Fortran & C++)
Misc. update:
Updated release/docs/RELEASE
h5diff new feature
Description:
added compare for attributes
a new options flag (-a) was added to the options structure. it is 0 by default (no compare )
the output of the compare is the same that for datasets, and all the other flags also apply for attributes
(the memory compare is done in the same function diff_array)
all the other requirements for compare of datasets (type, space) are identical too
Platforms tested:
linux
solaris 2.7
IRIX
Misc. update:
bug fix.
Description:
It sometimes complained of wrong number of argument to test.
This happened when more than 1 tool are redeployed.
The problem is due to an unquoted variable expanded into
multiple strings, confusing the test command.
Fixed by putting quotes around it.
Platforms tested:
only tested in eirene since it is trivial.
Misc. update:
h5diff improvment
Description:
changed a call to exit(1) for return -1 for user friendiness in the h5diff function
in the case that H5Fopen fails
Solution:
Platforms tested:
linux (small change )
Misc. update:
h5diff new features
Description:
added the diff for variable lenght, opaque, enum, and bitfield datasets
Solution:
Platforms tested:
linux
solaris 2.7
IRIX
Misc. update:
h5diff new features
bug fix
Description:
implemented the diff for STRING and ARRAY types
fixed a bug. when the datasets are empty, do not try to compare them .
the check empty is made with H5Dgetstorage_size
Solution:
Platforms tested:
linux
solaris 5.7
IRIX
Misc. update:
h5diff new features
Description:
implemented diff for compound types. so far it only compares the integer and float classes
of these compound types. this is done with a new recursive function
that compares datum by datum
Platforms tested:
linux
solaris 2.7
IRIX
Misc. update:
h5repack new features
Description:
added a copy routine for all types
added a copy routine for attributes
commnented some debug messages in h5trav
added the verbose option to some h5diff messages
Platforms tested:
linux
solaris 2.5
IRIX
Misc. update:
Regenerated
Description:
Regenerated Dependencies files because of changes to the h5diff and
tools library.
Platforms tested:
Linux (small change and just needed to be checked once).
h5repack new features
Description:
implemented some features of h5repack , mostly borrowed from hrepack
like
1) the parsing of options
2) building a list of options
3) printing formats
added a test program that generates files and calls h5diff to compare
the input and output files
Platforms tested:
Misc. update:
h5diff maitainance
Description:
separated the h5diff source between several modules
there is a public module with a new function "h5diff" that can be called by an application
program (h5repack will use it )
added a new verbose option that can turn off all printf
Platforms tested:
linux
solaris
IRIX
Misc. update:
