Description: H5T_register() replaces any existing data conversion path
with a new path.
Solution: Added a parameter to H5T_register() and H5T_path_find() to
signal the library whether the new conversion path is from API function
H5Tregister() or from private function like H5T_init_interface(). If it
is from H5Tregister(), replace existing path. If it's from H5T_init_interface()
and the library is trying to register default hard conversion functions,
don't replace existing path because the path is registered by the library.
For example, the library registered H5T_conv_int_float() and is trying to
register H5T_conv_long_float(). The size of long is equal to int. There's
no need to replace the path H5T_conv_int_float().
Platforms tested: h5committest and fuss.
Description: The API function H5Tis_hard() which was recently checked
in has been renamed to H5Tcompiler_conv() to be more descriptive. No
other changes.
Platforms tested: fuss - simple change.
Misc. update: config/lt_vers.am to update libtool version.
Description: Put in a new API funciton, H5Tis_hard. It checks whether
the conversion function from a native type to another native type is a
compiler (hard) conversion. Also checked a test in test/dt_arith.c.
Platforms tested: h5committest and fuss.
Optimization
Description:
Speed up I/O on enumerated datatypes (including those nested in compound
datatypes, arrays, etc.) if the destination datatype is a proper superset of
the source datatype.
Solution:
Detect the situation and treat as no-op datatype conversion.
Platforms tested:
FreeBSD 4.11 (sleipnir)
Too minor to require h5committest
Description: For variable-length string, H5Tget_class returned H5T_STRING as
its class. But H5Tdetect_class and H5Tget_member_class considered it as
H5T_VLEN. This is fixed to let all these 3 functions treat it as H5T_STRING.
Some test cases have been added to dtypes.c
Platforms tested: heping - already tested for v1.6 with h5committest
Misc. update: RELEASE.txt
Bug Fix/Code Cleanup/Doc Cleanup/Optimization/Branch Sync :-)
Description:
Generally speaking, this is the "signed->unsigned" change to selections.
However, in the process of merging code back, things got stickier and stickier
until I ended up doing a big "sync the two branches up" operation. So... I
brought back all the "infrastructure" fixes from the development branch to the
release branch (which I think were actually making some improvement in
performance) as well as fixed several bugs which had been fixed in one branch,
but not the other.
I've also tagged the repository before making this checkin with the label
"before_signed_unsigned_changes".
Platforms tested:
FreeBSD 4.10 (sleipnir) w/parallel & fphdf5
FreeBSD 4.10 (sleipnir) w/threadsafe
FreeBSD 4.10 (sleipnir) w/backward compatibility
Solaris 2.7 (arabica) w/"purify options"
Solaris 2.8 (sol) w/FORTRAN & C++
AIX 5.x (copper) w/parallel & FORTRAN
IRIX64 6.5 (modi4) w/FORTRAN
Linux 2.4 (heping) w/FORTRAN & C++
Misc. update:
Purpose:
Feature
Description:
Datatypes and groups now use H5FO "file object" code that was previously
only used by datasets. These objects will hold a file open if the file
is closed but they have not yet been closed. If these objects are unlinked
then relinked, they will not be destroyed. If they are opened twice (even
by two different names), both IDs will "see" changes made to the object
using the other ID.
When an object is opened using two different names (e.g., if a dataset was
opened under one name, then mounted and opened under its new name), calling
H5Iget_name() on a given hid_t will return the name used to open that hid_t,
not the current name of the object (this is a feature, and a change from the
previous behavior of datasets).
Solution:
Used H5FO code that was already in place for datasets. Broke H5D_t's, H5T_t's,
and H5G_t's into a "shared" struct and a private struct. The shared structs
(H5D_shared_t, etc.) hold the object's information and are used by all IDs
that point to a given object in the file. The private structs are pointed
to by the hid_t and contain the object's group entry information (including its
name) and a pointer to the shared struct for that object.
This changed the naming of structs throughout the library (e.g., datatype->size
is now datatype->shared->size). I added an updated H5Tinit.c to windows.zip.
Platforms tested:
Visual Studio 7, sleipnir, arabica, verbena
Misc. update:
Code cleanup
Description:
Various minor tweaks to clean code up and bring it into closer
syncronization with the release branch.
Platforms tested:
FreeBSD 4.10 (sleipnir) w/parallel
h5committested
IRIX64 6.5 (modi4)
Purpose: New feature
Description: New API H5Tencode and H5Tdecode. Given object ID, H5Tencode encodes object information into a binary form. H5Tdecode decode an object information in a binary form, reconstructs the object and return a new object ID.
Solution: Use object header functions H5O_dtype_decode and H5O_dtype_encode to
facilitate them. The encoded binary is exactly like object header information.
This is the first step checkin. Will check in H5Sencode and H5Sdecode later.
Platforms tested: h5committed and fuss.
Misc. update: will update release.txt after 2nd step checkin.
Code optimization
Description:
Set up datatype ID for dataset's datatype on disk. This allows us to avoid
repeatedly copying the datatype when an ID is needed.
Also, clean up a few warnings in various other places.
Platforms tested:
Solaris 2.7 (arabica)
FreeBSD 4.10 (sleipnir) w/parallel
Too minor to require h5committest
Code optimization
Description:
Avoid making copy of default vlen allocation info when default DXPL is
used. Just retarget pointer to point to default info directly.
Platforms tested:
Solaris 2.7 (arabica)
FreeBSD 4.10 (sleipnir) w/parallel
Too minor to require h5committest
Code optimization
Description:
Use 'size_t' instead of 'hsize_t' to track the number of elements in
memory buffers, especially for type conversion.
Platforms tested:
Solaris 2.7 (arabica)
FreeBSD 4.10 (sleipnir) w/parallel
Too minor to require h5committest
Code optimization
Description:
Restructure conversion loop of variable-length objects to avoid walking
through memory backwards and allocating as many temporary buffers. (This uses
the optimized method used in the atomic type conversions)
Platforms tested:
Solaris 2.7 (arabica)
FreeBSD 4.10 (sleipnir) w/parallel
Too minor to require h5committest
Description: H5T_reverse_order was declared as private function.
Solution: Change it to static local function in H5Tconv.c since it's not
used by any function in other file.
Platforms tested: RH 8(fuss)
Description: H5Pset_type_conv_cb and H5Pget_type_conv_cb weren't put into
H5MPprivate.h. Another thing is the func type doesn't match the func field
in the struct in these functions.
Platforms tested: RH 8(fuss) and sleipnir
Code cleanup/optimization
Description:
Hoist property list queries up out of inner loops to cache the values at
a higher level and pass them into the lower-level routines.
Platforms tested:
IBM p690 (copper) w/parallel & fphdf5
h5committest
Bug fixes and code cleanup
Description:
Lots of changes here:
- Fixed bug #691 - when shared datatypes are used in attributes they
are incorrectly copied into the attribute instead of referring
the the named datatype in the file. This required bumping the
version of the attribute message. The new version of the attribute
message is only written out when a shared datatype is used in
the attribute. [Also, this format change made the size of the
attribute smaller.]
- Added information to attribute debugging routine so that shared
datatypes are displayed correctly with the h5debug tool.
- Refactored the H5O* routines to extract code that was common to
several routines into subroutines to call.
- Added 'link' method for H5O message sub-classes, which increments
the link count on shared objects when a message is created which
shares them.
- Corrected [unreported] bug where the link count was not being
decremented on the shared object when a object header message
with a reference to that object was deleted from the file.
- Reduced size of shared message from 49 bytes (which was incorrect
anyway and should have been 48 bytes) to 10 bytes, which required
bumping the version of "shared" messages.
- Refactored some of the shared datatype routines to allow for easier
queries of "committedness" internally to the library and also
added routine to easily increment/decrement the reference count of
a shared datatype.
Platforms tested:
FreeBSD 4.9 (sleipnir)
h5committest
Bug fix
Description:
Object references were not getting written out correctly to the file, with
recent changes to their memory structure.
Solution:
Convert the object references correctly.
Platforms tested:
h5committested
Code cleanup.
Description:
Move many package or internal function prototypes and macro definitions
into tighter scope according to their current use.
Added more comments where appropriate.
Eliminate ancient, unused functions.
Added a couple "accessor" functions to get parts of data structures which
were moved out of scope.
Platforms tested:
h5committested
Code cleanup.
Description:
Break up the ~9350 line H5T.c module into smaller pieces, which contain
code for a particular feature or support for a datatype class.
This should make the "main" H5T code (still in H5T.c) easier to support,
as well as removing some of the "minor" routines from the user applications
which don't use them (my rough estimates show about 4% reduction (~30K on
a FreeBSD machine) in optimized, staticly-linked binaries for very simple
programs)
Platforms tested:
Tested h5committest {arabica (fortran), eirene (fortran, C++)
modi4 (parallel, fortran)}
FreeBSD 4.7 (sleipnir)
Misc. update:
Update MANIFEST
Bug Fix
Description:
Metadata cache in parallel I/O can cause hangs in applications which
perform independent I/O on chunked datasets, because the metadata cache
can attempt to flush out dirty metadata from only a single process, instead
of collectively from all processes.
Solution:
Pass a dataset transfer property list down from every API function which
could possibly trigger metadata I/O.
Then, split the metadata cache into two sets of entries to allow dirty
metadata to be set aside when a hash table collision occurs during
independent I/O.
Platforms tested:
Tested h5committest {arabica (fortran), eirene (fortran, C++)
modi4 (parallel, fortran)}
FreeBSD 4.7 (sleipnir) serial & parallel
Misc. update:
Updated release_docs/RELEASE
Lots of performance improvements & a couple new internal API interfaces.
Description:
Performance Improvements:
- Cached file offset & length sizes in shared file struct, to avoid
constantly looking them up in the FCPL.
- Generic property improvements:
- Added "revision" number to generic property classes to speed
up comparisons.
- Changed method of storing properties from using a hash-table
to the TBBT routines in the library.
- Share the propery names between classes and the lists derived
from them.
- Removed redundant 'def_value' buffer from each property.
- Switching code to use a "copy on write" strategy for
properties in each list, where the properties in each list
are shared with the properties in the class, until a
property's value is changed in a list.
- Fixed error in layout code which was allocating too many buffers.
- Redefined public macros of the form (H5open()/H5check, <variable>)
internally to only be (<variable>), avoiding innumerable useless
calls to H5open() and H5check_version().
- Reuse already zeroed buffers in H5F_contig_fill instead of
constantly re-zeroing them.
- Don't write fill values if writing entire dataset.
- Use gettimeofday() system call instead of time() system when
checking the modification time of a dataset.
- Added reference counted string API and use it for tracking the
names of objects opening in a file (for the ID->name code).
- Removed redundant H5P_get() calls in B-tree routines.
- Redefine H5T datatype macros internally to the library, to avoid
calling H5check redundantly.
- Keep dataspace information for dataset locally instead of reading
from disk each time. Added new module to track open objects
in a file, to allow this (which will be useful eventually for
some FPH5 metadata caching issues).
- Remove H5AC_find macro which was inlining metadata cache lookups,
and call function instead.
- Remove redundant memset() calls from H5G_namei() routine.
- Remove redundant checking of object type when locating objects
in metadata cache and rely on the address only.
- Create default dataset object to use when default dataset creation
property list is used to create datasets, bypassing querying
for all the property list values.
- Use default I/O vector size when performing raw data with the
default dataset transfer property list, instead of querying for
I/O vector size.
- Remove H5P_DEFAULT internally to the library, replacing it with
more specific default property list based on the type of
property list needed.
- Remove redundant memset() calls in object header message (H5O*)
routines.
- Remove redunant memset() calls in data I/O routines.
- Split free-list allocation routines into malloc() and calloc()-
like routines, instead of one combined routine.
- Remove lots of indirection in H5O*() routines.
- Simplify metadata cache entry comparison routine (used when
flushing entire cache out).
- Only enable metadata cache statistics when H5AC_DEBUG is turned
on, instead of always tracking them.
- Simplify address comparison macro (H5F_addr_eq).
- Remove redundant metadata cache entry protections during dataset
creation by protecting the object header once and making all
the modifications necessary for the dataset creation before
unprotecting it.
- Reduce # of "number of element in extent" computations performed
by computing and storing the value during dataspace creation.
- Simplify checking for group location's file information, when file
has not been involving in file-mounting operations.
- Use binary encoding for modification time, instead of ASCII.
- Hoist H5HL_peek calls (to get information in a local heap)
out of loops in many group routine.
- Use static variable for iterators of selections, instead of
dynamically allocation them each time.
- Lookup & insert new entries in one step, avoiding traversing
group's B-tree twice.
- Fixed memory leak in H5Gget_objname_idx() routine (tangential to
performance improvements, but fixed along the way).
- Use free-list for reference counted strings.
- Don't bother copying object names into cached group entries,
since they are re-created when an object is opened.
The benchmark I used to measure these results created several thousand
small (2K) datasets in a file and wrote out the data for them. This is
Elena's "regular.c" benchmark.
These changes resulted in approximately ~4.3x speedup of the
development branch when compared to the previous code in the
development branch and ~1.4x speedup compared to the release
branch.
Additionally, these changes reduce the total memory used (code and
data) by the development branch by ~800KB, bringing the development
branch back into the same ballpark as the release branch.
I'll send out a more detailed description of the benchmark results
as a followup note.
New internal API routines:
Added "reference counted strings" API for tracking strings that get
used by multiple owners without duplicating the strings.
Added "ternary search tree" API for text->object mappings.
Platforms tested:
Tested h5committest {arabica (fortran), eirene (fortran, C++)
modi4 (parallel, fortran)}
Other platforms/configurations tested?
FreeBSD 4.7 (sleipnir) serial & parallel
Solaris 2.6 (baldric) serial
Purpose:
__DLL__ is a keyword in some platforms and __DLL__ is also defined as a macro for windows DLL applications.
That causes problems.
Description:
Solution:
Use H5_DLL*** to replace __DLL***__ at all header files.
Change the macro defination at H5api_adpt.h.
Platforms tested:
linux2.2.18smp, irix64, solaris 2.7 and windows 2000
Purpose:
bug fix in 'ID to name' function
Description:
the function replace_name was only checking for immutable datatypes
Solution:
added a new function H5T_is_named, that checks for named datatypes
Platforms tested:
windows 2000, linux, solaris with Fortran
Bug Fix
Description:
H5Dcreate and H5Tcommit allow "empty" compound and enumerated types (i.e.
ones with no members) to be stored in the file, but this causes an assertion
failure and is somewhat vapid.
Solution:
Check the datatype "makes sense" before using it for H5Dcreate and
H5Tcommit.
Platforms tested:
FreeBSD 4.5 (sleipnir)
Purpose:
Modify H5Fclose behavior
Description:
The HDF5 actual file close behaves in several ways in terms of if there
are still objects(dataset, group, datatype) opened in file.
Solution:
Added a new file access property, file close degree. It has four values,
H5F_CLOSE_DEFAULT
H5F_CLOSE_WEAK
H5F_CLOSE_SEMI
H5F_CLOSE_STRONG
The way a file is closed is decided by these values.
Platforms tested:
IRIX64 6.5, SunOS 5.6, FreeBSD 4.4
Code cleanup (sorta)
Description:
When the first versions of the HDF5 library were designed, I remembered
vividly the difficulties of porting code from a 32-bit platform to a 16-bit
platform and asked that people use intn & uintn instead of int & unsigned
int, respectively. However, in hindsight, this was overkill and
unnecessary since we weren't going to be porting the HDF5 library to
16-bit architectures.
Currently, the extra uintn & intn typedefs are causing problems for users
who'd like to include both the HDF5 and HDF4 header files in one source
module (like Kent's h4toh5 library).
Solution:
Changed the uintn & intn's to unsigned and int's respectively.
Platforms tested:
FreeBSD 4.4 (hawkwind)
Bug Fix, Code Cleanup, Code Optimization, etc.
Description:
Fold in the hyperslab speedups, clean up compile warnings and change a
few things from using 'unsigned' or 'hsize_t' to use 'size_t' instead.
Platforms tested:
FreeBSD 4.3 (hawkwind), Solaris 2.7 (arabica), Irix64 6.5 (modi4)
Update
Description:
Changed
#include <hdf_file.h>
construct to
#include "hdf_file.h"
so that the GNU compiler can more easily pick up the dependencies
which it places in the .depend and Dependencies files. Also
regenerated the Dependencies to go along with this.
Platforms tested:
Linux
Code cleanup.
Description:
Fixed _lots_ (I mean _tons_) of warnings spit out by the gcc with the
extra warnings. Including a few show-stoppers for compression on IRIX
machines.
Solution:
Changed lots of variables' types to more sensible and consistent types,
more range-checking, more variable typecasts, etc.
Platforms tested:
FreeBSD 4.2 (hawkwind), IRIX64-64 (modi4)
Code addition
Description:
The dumper needs to know when a datatype needs to be reclaimed, so I
added a small helper function to detect if a particular datatype is or
contains a particular class of datatypes.
Platforms tested:
Linux 2.2.16-3smp (eirene)
New Feature
Description:
Added array datatype to library. See documentation at:
http://hdf.ncsa.uiuc.edu/HDF5/planning/DP/ArrayType.html
for complete details on the impact to the library.
Solution:
Changes to the base library include removing the ability of compound
datatype fields to be an array (they can use an array type for the field,
to duplicate the functionality) and adding in the new array datatype
everywhere appropriate. (I hope :-)
Platforms tested:
FreeBSD 4.1.1 (hawkwind)
** src/H5Tconv.c
** src/H5Tpkg.h
** src/H5Tpublic.h
The H5T_conv_struct_opt() function had a design flaw -- it
didn't keep information about the stride to use to step
through the temporary/background-value buffer and thus nested
invocations would clobber each other's temp buffers. This was
fixed by splitting the `stride' argument into `buf_stride' and
`bkg_stride' arguments for all the conversion functions. THIS
IS AN API CHANGE, but users will get a compiler warning when
they pass their conversion function pointer to H5Tregister().
** src/H5T.c
** src/H5Tprivate.h
Added a bkg_stride argument to the H5T_convert() definition in
order to fix a bug related to the optimized compound datatype
conversion function.
** src/H5T.c
** src/H5A.c
** src/H5D.c
** src/H5Ofill.c
** src/H5P.c
Added bkg_stride=0 argument to the H5T_convert() calls.
** test/dtypes.c
Added a test for the H5T_conv_struct_opt() bug fixed above.
** src/H5FL.c
The H5FL_term() function should return non-zero even when it
couldn't free all the free lists do to their being used by
some other package. When that other package terminates it
will return non-zero, causing H5FL_term() to be called
again. This fixes some of the `infinite loop closing library'
messages.
** tools/pdb2hdf
Uses print_version() instead of doing that itself.
** src/H5Ppublic.h
Renamed H5Pget_gc_reference() declaration to make it match the
definition.
** src/H5FDlog.c
Added API tracing macros.
Removed `const' qualifier from a `char*' member of a struct
which was allocated on the heap.
** src/H5TB.c
Added curly braces to a couple deeply-nested `if' statements
to make them clearer and to shut up the increadibly stupid and
just plain incorrect gcc warning about ambiguous `else'.
** test/titerate.c
Removed incomplete initialization in favor of memset() for one
auto variable to stop compiler warnings.
** tools/Depencencies
Regenerated to remove references to h5dumputil.c
but I fixed lots of misc. compiler warnings in other code and also tracked down
the memory overwrite bug that was causing the development branch to core dump
on most machines.
----------------------
This extensive change is the virtual file layer implementation. I've
ported and tested the sec2, family, and core drivers and only ported
the mpio driver (Albert will test it). So if you need MPIO I would
recommend sticking with the previous version for a while.
You will get a few compile warnings about split and stdio drivers not
being implemented and possibly tracing information not inserted in
some of the drivers. You can safely ignore them but I plan to fix
them.
I'm still working on the split driver because I just realized that it
needs a part of the VFL that isn't written yet.
Documentation is being updated also because there were some minor
changes (mostly just name changes). It should be available on my web
site later this week.
./MANIFEST
./src/Makefile.in
./src/hdf5.h
./src/H5Flow.c [REMOVED]
./src/H5Fstdio.c [REMOVED]
./src/H5Fsec2.c [REMOVED]
./src/H5Fsplit.c [REMOVED]
./src/H5Fmpio.c [REMOVED]
./src/H5Ffamily.c [REMOVED]
./src/H5Fcore.c [REMOVED]
./src/H5MFpublic.h [REMOVED]
./src/H5FD.c [NEW]
./src/H5FDcore.c [NEW]
./src/H5FDcore.h [NEW]
./src/H5FDfamily.c [NEW]
./src/H5FDfamily.h [NEW]
./src/H5FDmpio.c [NEW]
./src/H5FDmpio.h [NEW]
./src/H5FDprivate.h [NEW]
./src/H5FDpublic.h [NEW]
./src/H5FDsec2.c [NEW]
./src/H5FDsec2.h [NEW]
Removed/added files for virtual file layer.
./bin/trace
./src/H5.c
Removed unused public datatypes and added new VFL public
datatypes.
Changed an error message.
./config/BlankForm
./config/dec-flags
./config/gnu-flags
./config/hpux10.20
./config/hpux9.03
./config/irix5.x
./config/irix6.x
./config/solaris2.x
./config/unicosmk
Removed the H5F_OPT_SEEK and H5F_LOW_DFLT constants from the
configuration since they're no longer applicable. The default
file driver is always the sec2 driver and it always optimizes
calls to lseek() or lseek64().
./config/depend.in
C preprocessor errors generated during automatic dependency
building are sent to /dev/null to prevent them from appearing
twice in the make output.
./src/H5AC.c
./src/H5B.c
./src/H5D.c
./src/H5F.c
./src/H5G.c
./src/H5Gent.c
./src/H5Gnode.c
./src/H5HG.c
./src/H5HL.c
./src/H5O.c
./src/H5Oattr.c
./src/H5Odtype.c
./src/H5Oefl.c
./src/H5Oshared.c
./src/H5T.c
./src/H5detect.c
./test/ohdr.c
Changed H5F_ADDR_UNDEF to HADDR_UNDEF to be more consistent
with the `haddr_t' datatype which is now a public type.
./src/H5D.c
./src/H5P.c
./src/H5Ppublic.h
./src/H5Tconv.c
./test/cmpd_dset.c
./test/dsets.c
./test/overhead.c
./test/tselect.c
./test/tvltypes.c
The H5P_DATASET_XFER constant was changed to H5P_DATA_XFER
because the properties apply to all types of I/O operations,
not just datasets.
./src/H5B.c
./src/H5Bprivate.h
./src/H5D.c
./src/H5Dpublic.h
./src/H5F.c
./src/H5Farray.c
./src/H5Fistore.c
./src/H5Fprivate.h
./src/H5Fpublic.h
./src/H5Gnode.c
./src/H5Gpkg.h
./src/H5HG.c
./src/H5HL.c
./src/H5O.c
./src/H5R.c
./src/H5Sall.c
./src/H5Shyper.c
./src/H5Smpio.c
./src/H5Spoint.c
./src/H5Sprivate.h
./test/big.c
./test/h5test.c
./test/istore.c
./testpar/t_dset.c
./testpar/t_file.c
./tools/h5debug.c
./tools/h5ls.c
Modified to work with the virtual file layer by calling H5FD_*
functions instead of H5F_low_* functions and by passing file
access and data transfer properties by object ID instead of
pointer.
Changed H5D_transfer_t to H5FD_mpio_xfer_t since the
COLLECTIVE vs. INDEPENDENT transfer mode is specific to the
MPIO file driver.
Moved MPIO-specific stuff into the MPIO driver.
./src/H5B.c
./src/H5D.c
./src/H5Fprivate.h
The H5F_mpio_* private functions were renamed and placed in
the H5FDmpio driver except those which appeared in H5Smpio.c.
./src/H5E.c
./src/H5Epublic.h
Added major error number H5E_VFL for virtual file layer
related errors.
./src/H5F.c
./src/H5Fprivate.h
Changed the logic that controls whether the boot block is
written. Instead of assuming that the first call to write the
boot block is only to allocate space, I've added a function
argument which makes this explicit.
Changed the way files are compared so that a driver-defined
comparison function can be called. Files which belong to
different drivers are always considered different.
Removed H5F_driver_t since file drivers are now identified by
object ID instead of a special non-user-extendible datatype.
Removed all the hard-coded low-level file properties which
have been replaced by the various file drivers.
./src/H5I.c
./src/H5Iprivate.h
Added the H5I_inc_ref() which was removed a few months ago
since we finally have a use for it.
./src/H5Ipublic.h
Added the H5I_VFL object ID type to identify file drivers in
the virtual file layer.
./src/H5MF.c
./src/H5MFprivate.h
Moved all the allocation/deallocation code into the virtual
file layer which allows file drivers to override much of it.
./src/H5P.c
./src/H5Ppublic.h
Moved file driver-specific code into the various file driver
files.
The H5Pcopy() and H5Pclose() functions make calls into the
virtual file driver to manage the memory for driver-specific
file access and data transfer properties.
./src/H5private.h
./src/H5public.h
The `haddr_t' type is now public.
./test/tfile.c
Added a few more comments.
final parameter (so that VL datatypes have a way to pass in the custom memory
allocation routines).
Fixed a conversion bug when VL fields were part of a compound datatype that
was causing the no-op conversion routine to be used instead of the vlen routine.
Added the H5Pset_vlen_mem_manager and H5Pget_vlen_mem_manager routines to
allow users to provide their own custom memory allocation routines for VL data
read in from the file and reclaimed with H5Dvlen_reclaim.
Finished coding on H5Dvlen_reclaim so it works now.
Changes since 19990616
----------------------
./src/H5T.c
./src/H5Tconv.c
All conversion functions take an extra argument called
`stride' which is the number of bytes to advance the source
and destination pointers after each element is converted. If
the value is zero then the old behavior is preserved (source
and destination values are packed). This feature was necessary
to implement the compound datatype conversion optimizations
and it causes a minor change to the API (application-defined
type conversion functions take an extra size_t stride
argument).
./src/H5Tconv.c
An additional compound data type conversion function was added
which is applied unless the destination type is larger than
the source type. I'm measuring significant performance
increases for certain operations:
Test Name Struct-Conv Noop-Conv
New(Old) MB/s New(Old) MB/s
---------- ------------- -------------
Reordering 2.062(0.3936) 54087(0.9047)
Subsetting 2.901(0.6581) 40192(1.1100)
Shrinking 1.976(0.3925) 33628(1.1500)
---------- ------------- -------------
./test/dtypes.c
Added various compound datatype conversion tests.
Fixed return values from functions.
./src/H5T.c
Conversion timers are updated only if H5T debugging is turned
on a runtime (in addition to compile time). This allows the
data type layer to be compiled with debugging support without
having to pay a big runtime penalty if the debugging isn't
actually used.
./src/H5A.c
./src/H5D.c
./src/H5Ofill.c
./src/H5P.c
./src/H5T.c
./src/H5Tconv.c
./src/H5Tpkg.h
./src/H5Tprivate.h
./src/H5Tpublic.h
Added the stride argument to the H5T_convert() calls. The
stride is always zero, which means that the source and
destination data values are packed.
./configure.in
./configure [REGENERATED]
If API tracing is turned off then libhdf5.settings will say
`no' instead of nothing.
./test/flush1.c
./test/flush2.c
Added better error messages in a couple places.
accessed with H5Tvlen_create, but I need to start writing tests now. Also the
more esoteric API calls (such as H5Tget_vlen_buf_size and the memory management
calls) aren't implemented yet.
./configure [REGENERATED]
./src/H5D.c
./src/H5O.c
Removed H5AC, H5B, and H5T from the default list of packages
to debug (because they're pretty expensive debugging), and
added H5O. Also fixed a bug for undefined variable in H5D when
H5S debugging is turned on but H5T debugging is turned off.
./config/conclude.in
Fixed installation of header files for building in a directory
other than the source directory. This fixes a bug where
H5config.h wasn't being installed.
./src/H5.c
./src/H5A.c
./src/H5D.c
./src/H5F.c
./src/H5G.c
./src/H5I.c
./src/H5Iprivate.h
./src/H5P.c
./src/H5R.c
./src/H5RA.c
./src/H5S.c
./src/H5T.c
./src/H5TB.c
./src/H5Tprivate.h
./src/H5Z.c
./src/H5detect.c
./src/H5private.h
Changed the way the library shuts down again. Now it handles
cycles between packages and isn't so sensitive to dependencies
between packages. A package might shut down only to be
restarted to process a request from some other package being
shut down. Loops are detected after 100 iteractions and the
shutdown is aborted with a message on standard error. This
also makes it a lot easier to debug.
./src/H5A.c
Fixed H5A_write() and H5A_read() so they pass a non-null
background buffer to the conversion functions. This is
necessary when an attribute has a compound data type.
./src/H5Flow.c
./src/H5Fprivate.h
./src/H5Fsec2.c
Reindented new Win32 stuff.
./src/H5Odtype.c
Fixed a bug when enumeration types are used in a compound data
type. The byte pointer wasn't incremented after the type
information was written.
./tools/h5ls.c
Compound data types display their total size because it's not
always obvious from looking at the members.
Scalar attributes show their space as `scalar' instead of
`{}'.
The index value is not printed for attributes that have only a
few values. Instead the word `Data:' is printed on the first
line of attribute data.
Named types display their data type only if verbose output was
requested.
