Purpose:
replaced name of delete filter with remove filter for the new function H5Premove_filter
Description:
Solution:
Platforms tested:
linux
Misc. update:
Bug fix.
Description:
Revert the optimization to the MPI-I/O VFD from earlier this week that
eliminated calling MPI_File_set_size() when a file was truncated. This doesn't
work because of the way we track the 'eoa' (end of allocated space) in the
file: we just advance the eoa value when space is allocated in the file and we
don't zero out the space in the file. This causes a problem where we assume
that all "newly allocated" space in the file contains zero bytes, but if we
don't call MPI_File_set_size(), the file can contain the previous data (if the
file previously existed) and not zeros.
Unfortunately, because we allow independent raw data parallel I/O, there
is no way to address this issue. :-(
Solution:
Revert to previous method of retrieving the file's size, etc. from before
the optimization.
Platforms tested:
FreeBSD 4.9 (sleipnir) w/parallel
too minor to require h5committest.
Fix build with C++ compiler
Description:
Add file driver header files for prototypes.
Platforms tested:
FreeBSD 4.9 (sleipnir) w/CC=g++
too obscure to require h5committest
Bug fix
Description:
Move assertion to allow closing non-HDF5 files with the MPI-I/O VFD to
work correctly again.
Platforms tested:
FreeBSD 4.9 (sleipnir)
h5committest
Bug fix.
Description:
Allow H5Tget_native_type() to handle opaque fields in compound datatypes.
Platforms tested:
FreeBSD 4.9 (sleipnir)
too minor to require h5committest
Optimization
Description:
Speed up various parts of the library by setting a global variable for the
endianness of the machine at library startup and use that variable instead of
repeatedly querying the endianness of the native int datatype.
Platforms tested:
IBM p690 (copper)
too minor to require h5committest
Optimization
Description:
Speed up core ID lookup routine (H5I_find_id) by re-structuring the logic
to reduce the number of 'if' statements.
Platforms tested:
IBM p690 (copper)
too minor to require h5committest
Code cleanup
Description:
Add destructor to match constructor fr VFLs when they are shut down by the
library.
Solution:
Added H5FD_*_term() routines to "undo" changes made in H5FD_*_init()
routines.
Platforms tested:
IBM p690 (copper)
too minor to require h5committest
Bug fix
Description:
Address the failure in the FORTRAN builds by making some more of the
MPI-related typedefs in the library available outside of parallel builds.
Platforms tested:
Linux 2.4 (verbena) w/FORTRAN & C++
Bug fix
Description:
Include the private H5FD header instead of the public one, to address a
failure in building the library with C++ compiler.
Platforms tested:
FreeBSD 4.9 (sleipnit) w/CC=g++
not appropriate for h5committest
Bug fix
Description:
Fix a couple of bugaboos in the serial build that crept in
Platforms tested:
FreeBSD 4.9 (sleipnir)
too minor to require h5committest
Bug fix/optimization
Description:
Address slowdown in MPI-I/O file metadata operations that was introduced
mid-stream. We now _require_ a POSIX compliant parallel file system for the
MPI-I/O file driver (as well as for the MPI-POSIX file driver).
Also optimized file open operation when the file is being created by
reducing the number of collective & syncronizing calls.
Additionally, refactor the MPI routines into a common place, eliminating
duplicated code.
Platforms tested:
FreeBSD 4.9 (sleipnir) w/parallel
h5committest
Code cleanup
Description:
Add C++ and FORTRAN wrappers for new H5Pdelete_filter routine, along with
documentation and a note in the release notes.
Platforms tested:
FreeBSD 4.9 (sleipnir)
Linux 2.4 (verbena) w/ C++ and FORTRAN
Too minor for full h5committest
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:
Bug fix
Description:
Tweak address comparison of external file list's heap address a bit to
pacify Windows.
Platforms tested:
FreeBSD 4.9 (sleipnir)
Asking Pedro to test on Windows
Too minor to require h5committest
Add tests & docs
Description:
Added tests for the recent B-tree bug fixes & document their fix in the
release notes.
Platforms tested:
FreeBSD 4.9 (sleipnir)
Too minor to require h5committest
Bug fix.
Description:
Fix problems in B-tree deletion routine that were corrupting the data
structure when the B-tree had several levels and the right-most item from a
leaf node that was the right-most child of an internal node was removed.
Also address similar problems when a complete internal or right-most node
was removed.
NOTE: The B-tree deletion routines are still _NOT_ maintaining the B-tree
properties correctly, that will be addressed in a future (hopefully soon) fix.
Platforms tested:
FreeBSD 4.9 (sleipnir)
too obscure to require h5committest
Bug fix
Description:
Correct two problems with variable-length datatypes in datasets:
- When overwriting an entire dataset, writing the fill value to the
file would be skipped, causing problems for VL datatypes when
objects in the file had been unlinked (and thus the space in the
file was not all zeros)
- When an application has set a fill-value for a dataset and the
dataset's datatype contained a VL datatype, the library was filling
space on disk with the memory form of the VL information, instead
of the disk form.
Platforms tested:
FreeBSD 4.9 (sleipnir)
h5committest
Code cleanup & reorganization
Description:
Move further in the testing framework cleanup, eliminating all the
global variables (moving them into testframe.c as static variables) from the
testing framework code and moving it into the libh5test.a.
Platforms tested:
FreeBSD 4.9 (sleipnir) w & w/o thread-safety, c++ & parallel
h5committested
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
Bug fix
Description:
Fix small memory leak of fill-value information inside the library.
Solution:
"reset" the fill-value object header message, so that the internal buffer
gets freed.
Platforms tested:
FreeBSD 4.9 (sleipnir)
too minor to require h5committest
Bug fix
Description:
Add special-case handling to floating-point conversion tests to avoid
problems with denormalized values on Cray T3E & T90 platforms. (Still not
working on Cray SV1, but at least it's closer).
Solution:
Detect denormalized values and don't try to operate on them on the Crays.
Platforms tested:
FreeBSD 4.9 (sleipnir)
Cray T3E (hubble.cray.com)
Cray T90 (gypsy.cray.com)
Bug fix
Description:
Range check the szip 'pixels per block' against the chunk size of the
dataset when attempting to create a new dataset, since the szip library
requires the PPB to be at least the size of the fastest changing dimension
in the chunk.
Platforms tested:
FreeBSD 4.9 (sleipnir)
too minor for h5committest
Bug fix
Description:
Fixed bug in hyperslab iteration where certain combinations of flattened
and non-flattened dimensions would cause incorrect locations to be iterated
over.
Platforms tested:
FreeBSD 4.9 (sleipnir)
too minor to require h5committest
Code cleanup, bug fixes
Description:
Wrap up rest of changes necessary for fixing the "short" MPI-I/O read
problem that Robb reported.
Platforms tested:
FreeBSD 4.9 (sleipnir)
too minor to require h5committest
Bug fixes & code cleanup
Description:
Back out some of the debugging that was inadvertently checked in recently.
Platforms tested:
FreeBSD 4.9 (sleipnir)
too minor to require h5committest
Bug fix
Description:
MPIO driver did not detect partial read or write. It assumed if read
completed, all bytes requested are read. Therefore, if a dataset was
not completely written yet, the unread part will not be filled with
default fill value.
Solution:
Added the MPI_Get_elements call to find exactly how many bytes
are read (or written). For read case, if not enough is read,
the rest is padded with zeros. For write case, it is an error
if not able to write them all in first attempt. (It is not
always possible to repeat write for MPIO since file-view may
be changed, collective would hang, etc. So, we do just one attempt.)
Platforms tested:
eirene (pp). Should work for other platforms since these
have been tested in v1.6.
Misc. update:
Code cleanup for VS.NET
Description:
Clean up several issues that VS.NET was having problems with.
Platforms tested:
Eyeballed against Kent's bug reports.
Bug fix
Description:
Attributes which were created with scalar dataspaces were reporting their
dataspace as a simple dataspace when queried later.
Solution:
Fix the dataspace handling code when reading in the attribute message from
the file to set the extent type correctly.
Platforms tested:
FreeBSD 4.9 (sleipnir)
too minor to require h5committest
Bug fix.
Description:
Using a selection offset with hyperslab selections in chunked datasets
was getting into an infinite loop and hanging the application.
Solution:
Apply the selection offset to the hyperslab selection properly.
Platforms tested:
FreeBSD 4.9 (sleipnir) w & w/o parallel
h5committest
Bug fix/code cleanup
Description:
Make H5Pclose_class() decrement the ID's reference count to close a generic
property class ID, which allows the new H5I routines to work correctly.
Platforms tested:
FreeBSD 4.9 (sleipnir)
h5committest
Code cleanup
Description:
Fix H5MM_malloc() and H5MM_calloc() routines to use new FUNC_ENTER macros.
Platforms tested:
FreeBSD 4.9 (sleipnir)
h5committest
Bug fix
Description:
Clean up a few allocations of zero-sized blocks that were detected with
the new free-list assertions.
Platforms tested:
FreeBSD 4.9 (sleipnir) w & w/o parallel
too minor to require h5committest
Code cleanup
Description:
Add more assertions to detect attempted allocations of zero-sized blocks.
Platforms tested:
FreeBSD 4.9 (sleipnir) w & w/o parallel
too minor to require h5committest
