| Commit message (Collapse) | Author | Age | Files | Lines |
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----------------------
./src/H5D.c
./src/H5T.c
./src/H5Tprivate.h
Fixed a bug found by Kevin Powell regarding preservation of
existing data during a read or write when the source and
destination data types are the same. Thanks Kevin!
Fixed a couple warnings on Irix64.
./src/H5D.c
./src/H5Dprivate.h
./src/H5P.c
./src/H5Ppublic.c
./src/H5Tconv.c
./src/H5Tpublic.h
./test/cmpd_dset.c
The application can now turn on/off the part of the I/O
pipeline that deals with preservation of initialized data.
The default is off since this will be the usual case and
turning it on slows down the pipe. Use H5Pset_preserve() and
H5Pget_preserve().
./src/H5Fistore.c
Added an optimization for reading/writing a single chunk of
chunked storage.
./src/H5Odtype.c
./src/H5Oefl.c
./src/H5Olayout.c
./src/H5Oname.c
./src/H5Osdspace.c
./src/H5Ostab.c
Fixed warnings reported by marek@iiasa.ac.at. Thanks Marek.
./src/H5Odtype.c
Fixed a failing assert() wrt reading compound types (not
present in hdf5-1.0.0a).
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----------------------
./configure.in
./configure
./test/iopipe.c
Added check for system(3)
./config/freebsd2.2.1
./config/linux
Added -DH5D_DEBUG to the debug flags.
./src/H5D.c
./src/H5Dprivate.h
./src/H5P.c
./src/H5Ppublic.h
./src/H5Sprivate.h
./src/H5Ssimp.c
./html/Datasets.html
Finally implemented strip mining in the I/O pipeline, placing
a user-defined upper bound on the amount of temporary memory
used by the pipeline. The default is 1MB type conversion and
background buffers allocated/freed on demand. However, the
size can be changed and/or application-allocated buffers
supplied with H5Pset_buffers() called on the data transfer
property list passed to H5Dread() and H5Dwrite().
Minor optimizations to H5Dread() and H5Dwrite(). More coming
later...
./test/dsets.c
Added calls to H5Pset_buffer() to test application-defined
temporary buffers in the I/O pipeline.
./test/Makefile.in
Removed `iopipe' from the list of confidence tests. Saying
`make timings' in the test directory runs timing tests. I did
this because (1) they don't really test anything new, and (2)
they can take a long time to run.
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----------------------
./html/Dataspaces.html
./html/Errors.html
./html/Files.html
./html/H5.api.html
./html/review1.html
./src/H5private.h
./src/H5public.h
./test/dsets.c
./test/dtypes.c
Removed all the types like `int32' and `intn' into private
headers since they violate the naming scheme and pollute
application name space. Besides, our test files only use them
in a handful of places and it's probably useless to export
them to the app. The app is always written in terms of
standard numeric types or its own numeric types and probably
never in terms of HDF5 numeric types. If it were, then the
user would have to copy from their type to hdf5 type for
almost every hdf5 API function call! Same goes for return
values. I also removed SUCCEED/FAIL from the API since apps
should be checking against zero anyway.
if (FAIL==(space=H5Screate_simple(...))) /*wrong*/
if ((space=H5Fcreate_simple(...)<0)) /*right*/
./src/H5.c
Changed arguments of H5version() from `uintn' to `unsigned'.
./src/H5Tpublic.h
./src/H5T.c
Changed return type of H5Tget_nmembers() from `intn' to `int'
./src/H5A.c
./src/H5Aprivate.h
./src/H5Apublic.h
Changed `H5Asearch_func_t' to `H5A_search_func_t' and moved
its definition from the public to the private header file.
./html/H5.format.html
Documented changes made to the external file list (H5O_EFL)
message.
./src/H5D.c
./src/H5Dprivate.h
./src/H5E.c
./src/H5Epublic.h
./src/H5O.c
./src/H5Oefl.c
./src/H5Oprivate.h
./src/H5P.c
./src/H5Ppublic.h
Added partial support for external raw data files. HDF5 can
now describe external raw data files by listing the file
names, offsets, and size for a dataset. However, we will
restrict a dataset to be stored "contiguously" when the
external file list is viewed as a single address space. The
current implementation is unable to read/write to external
files--that will come later this week as will documentation.
For now, take a look at ./test/external.c, particularly the
calls to H5Pset_external().
./test/Makefile.in
./test/external.c [NEW]
./MANIFEST
Added tests for external storage. Note: the read test is
supposed to fail at this point since reading external datasets
is not implemented yet. There is no write test.
./src/H5S.c
./src/H5Sprivate.h
./src/H5Ssimp.c
Added H5S_get_npoints_max() to return the maximum possible
number of data points in a data space.
Added an extra argument to H5S_get_dims() which returns the
maximum dims.
./src/H5F.c
./src/H5Fprivate.h
./src/H5Fpublic.h
./src/H5M.c [DEPRICATED]
./src/H5Mpublic.h [DEPRICATED]
Changed `template' to `property list' in lots of places.
./src/H5Osdspace.c
Removed an extra `\n' from a print statement.
./src/H5S_public.h
Changed H5S_UNLIMITED to the maximum size_t value.
./test/extend.c
"Extendable" is spelled "extendible".
./src/H5Farray.c
./src/H5V.c
./src/H5Vprivate.h
./test/hyperslab.c
Strides are now type ssize_t instead of int. These have
nothing to do with the sample granularity arguments for
hyperslabs, which are also called "strides" in the code.
./test/tstab.c
Changed assumptions about default address and length sizes.
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----------------------
./html/Files.html
Added a few details for some of the new H5Pset/get functions.
./src/H5F.c
./src/H5Fpublic.h
Fixed automatic closing of files on exit().
Added public H5F_ACC_DEBUG. Using it to create or open a file
turns on debugging for that file, which currently just prints
cache statistics when the file is closed.
./src/H5G.c
An error is returned if one tries to set the current working
group to something other than a group.
./src/H5Gnode.c
Fixed a symbol table bug. Under certain circumstances it was
possible to enter a symbol in such a way that lookup of that
symbol failed. A bug report was sent to hdf5dev.
./src/H5P.c
./src/H5Ppublic.h
Added the H5Pget_...() functions for file drivers. The
H5Pget_mpi() is a no-op that always fails.
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from H5C to H5P
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----------------------
./INSTALL
Added instructions for which C flags to set for debugging.
./src/H5C.c
./src/H5Cpublic.h
H5Cset_chunk() takes const pointer.
./src/H5D.c
./src/H5Dprivate.h
./src/H5Dpublic.h
Added H5Dextend() to extend the dimensions of a dataset.
./src/H5Osdspace.c
./src/H5P.c
./src/H5Pprivate.h
./src/H5Ppublic.h
./test/cmpd_dset.c
./test/dsets.c
./test/th5p.c
Added the optional `maxdims' argument to H5Pcreate_simple()
and defined constant H5P_UNLIMITED which can appear in the
maxdims. Added `const' to arguments.
Implemented H5Pcopy()
Removed the unused file argument from H5P_modify.
Added H5P_extend().
Removed the `flags' field from simple data types and we
determine if the `max' or `perm' arrays are valid by looking
at the pointer. Cleaned up the H5O_sdspace_debug output.
./src/H5T.c
Fixed a printf format.
./MANIFEST
./test/Makefile.in
./test/extend.c [NEW]
Added a test for multi-dimensional unlimited dimensions.
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offset and
size_t for count & stride.
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----------------------
./src/H5P.c
Removed H5Pcreate()
./src/H5Psimp.c
Copy int[] return value from H5P_get_hyperslab() to size_t[]
argument to pass to other hyperslab functions.
./test/dsets.c
Added a call to H5Eprint() to help track down Alberts O2k bug.
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BTRUE/BFALSE/BFAIL from code.
Changed interface to the H5P..hyperslab functions to 'int' instead of 'size_t'.
Cleaned up lots of warnings on IRIX 6.2 platform. Minor other tweaks to get
to a mostly clean build on the SGI. It still whines about 'long long' being
non-standard and some "pointless comparison of unsigned with 0" but those
aren't big problems.
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----------------------
./src/H5D.c
./src/H5Dpublic.c
Added H5Dget_space().
./src/H5Gstab.c
./src/H5H.c
Fixed a comparison with size_t against <0.
./src/H5P.c
./src/H5Pprivate.h
./src/H5Ppublic.h
Changed `intn' to `int' for public function args and
returns. H5Pget_hyperslab() returns the dimensionality.
./test/testhdf5.h
Clears error stack more frequently.
./src/H5Psimp.c
./test/cmpd_dset.c
Impelementing data space conversion.
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----------------------
./Makefile.in
./config/commence.in
With GNU make you can now use `-j' and `-l' options and things
get built correctly. I can do a `make -j -l6 test' from a
clean hdf5 source tree (after configure) in 45 seconds (8 to
build dependencies, 26 to compile everything, and 11 to run
the tests).
./src/H5Gnode.c
Removed a comment that no longer applies.
./src/H5P.c
./src/H5Pprivate.h
./src/H5Ppublic.h
Changed H5Pselect_hyperslab() to H5Pset_hyperslab() and added
H5Pget_hyperslab() and H5P_get_hyperslab().
Replaced a couple short memset() calls with a for loop.
Removed `if (foo!=NULL)' from around H5MM_xfree() calls.
Clear hslab_def when the hyperslab disappears.
./src/H5Tpublic.h
Removed trailing enum comma.
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routine are similar
to the HDF4 SDwritedata routine: start, count & stride. The start indicates
the base location of the hyperslab, count indicates the number of elements in
the hyperslab and stride indicates the packing of the hyperslab. The hyperslab
is assumed to be the same rank as the dataspace it is located within. The
hyperslab is stored for future use, no I/O occurs in this routine.
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----------------------
./src/*.h
Fixed indentation where indent(1) screwed up. This isn't by
any means the final say, but it's better than it was.
./src/H5A.c
./src/H5Aprivate.h
./src/H5Apublic.h
./src/H5C.c
./src/H5D.c
./src/H5E.c
./src/H5F.c
./src/H5G.c
./src/H5M.c
./src/H5P.c
./src/H5T.c
./src/H5Tconv.c
./src/debug.c
./test/dtypes.c
./test/istore.c
./test/theap.c
./test/tohdr.c
./test/tstab.c
Removed some atom functions from the API and made them
library-scope. Also changed some names by removing the
redundant `atom' from the name and by adding a `_' after the
`H5A'.
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Changes to error handling.
./src/H5B.c
Increased size of internal static buffers.
./src/H5C.c
Fixed syntax error when NDEBUG is defined.
./src/H5E.c
./src/H5Eprivate.h
./src/H5Epublic.h
Errors can now be printed with H5Eprint(). Other minor
changes to names and arg types.
./src/H5F.c
The base address is now stored in the boot block. The user
block size and the base address are synonyms.
./src/H5Fstdio.c
Fixed a bug with a return value from fseek().
./src/H5H.c
Added alignment constraints to get rid of unaligned access
errors on the DEC alpha having to do with the heap free list.
./src/H5P.c
./src/H5Ppublic.h
Changed some size arguments from int to size_t and fixed
memory allocation calls.
./src/H5T.c
./src/H5Tpublic.h
Changed the order of functions so all the public ones are at
the top of the file. Other minor changes.
./src/H5detect.c
Added a newline to a string constant.
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./src/H5Cprivate.h
Changed H5Csetparm() to H5Cset_prop() and changed it to pass
property values by value instead of reference. Changed
H5Cgetparm() to H5Cget_prop(). Changed data types of file
creation properties so the application can use `int' or
`size_t' for most properties. Properties and their types are
documented in H5Cget_prop().
Changed H5C_class() to H5Cget_class() to make the naming more
uniform across packages.
./src/H5Cpublic.h
Changed names of properties to make them more uniform across
packages: H5F_USERBLOCK_SIZE became H5F_SIZEOF_USERBLOCK,
H5F_OFFSET_SIZE became H5F_SIZEOF_ADDR, H5F_LENGTH_SIZE became
H5F_SIZEOF_SIZE.
./src/H5D.c
./src/H5Dprivate.h
Added support for chunked data storage. There still isn't any
support for data type conversion or data space conversion, so
chunked storage doesn't do much at this time.
./src/H5E.c
./src/H5Epublic.h
Added the H5E_TEMPLATE major error number. I'm about the
change the HGOTO_ERROR() and HRETURN_ERROR() macros to take an
error string as an additional argument instead of specifying
it as a comment.
./src/H5Fistore.c
Added `const' to the `buf' argument of H5F_istore_write()
although this temporarily causes a compiler warning.
./src/H5Fprivate.h
Changed data types of certain file-related variables from
types like `uint8' to `uintn' since the library data types
should not depend on the file data types.
./src/H5P.c
./src/H5Pprivate.h
./src/H5Ppublic.h
Moved H5Pget_lrank() to H5Pget_ndims(), and H5Pget_ldims() to
H5Pget_dims() to make naming more uniform. Dimensions should
always be of type `size_t'. Similarly for H5P_get_lrank() and
H5P_get_ldims().
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Removed the interface initialization argument from
FUNC_ENTER() and made it a locally-defined preprocessor
symbol, INTERFACE_INIT.
Changed `offset' to `address' and `length' to `size' in
documentation so it's more consistent. `Offset' still appears
occassionally when it refers to a byte offset within some
other data structure.
Moved interface termination function prototypes from public
header files to .c files and made them static.
./src/H5.c
./src/H5public.h
Added H5init() because it's possible that the predefined data
types are not initialized. This happens only if the first
call to the hdf5 library passes a predefined data type symbol
as an argument. There should be some way to fix this...
./src/H5A.c
./src/H5Aprivate.h
./src/H5Apublic.h
The free_func returns SUCCEED or FAIL, although the return
value is ignored by H5A. This is so we can use the various
H5*_close() functions to free things.
H5Ainc_ref() and H5Adec_ref() are no longer public. Many of
the other atom functions should also be made private, but I'll
save that for later...
Added additional template groups called H5_TEMPLATE_0 through
H5_TEMPLATE_7 that are used by the various template
subclasses.
Increased the number of bits used for atom groups to prevent
negative atoms.
./src/H5AC.c
./src/H5ACprivate.h
Changed H5AC_new() to H5AC_create() to make names more consistent.
./src/H5B.c
./src/H5Bprivate.h
Changed H5B_new() to H5B_create() to make names more consistent.
./src/H5C.c
./src/H5Cprivate.h
./src/H5Cpublic.h
Now supports multiple subclasses of templates, although it's
done with big switch statements. The default values for
templates are defined in the source file to which that
template belongs. This got rid of lots of needless
preprocessor constants.
Added H5Ccreate() to create a new template. Changed
H5C_release() to H5Cclose() to make the naming more
consistent.
./src/H5D.c
./src/H5Dprivate.h
./src/H5Dpublic.h
Enhanced to use the new dataset interface, and uses the enhanced
data type and data space interfaces, which haven't been
completely implemented. The dataset interface doesn't handle
non-contiguous storage, compression, or data type and space
conversions yet.
./src/H5F.c
./src/H5Fprivate.h
./src/H5Fpublic.h
Removed H5Fflush() since just calls H5F_flush(), which doesn't
do what the user would probably think it does, namely, flush
everything. It only flushes those things sitting in the H5AC
cache and the boot block.
Changed the `file_create_parms' field of H5F_low_t to just
`create_parms' since the `file' part is obvious.
./src/H5Fistore.c
Added some support for external files. Mostly just in the
file format and not supported much by the library yet. I need
to finish some dataset functions first.
Changed H5F_istore_new() to H5F_istore_create() to make names
more uniform across packages.
./src/H5Flow.c
Flushing a file causes the file to be physically extended to
the logical eof. This prevents H5F_open() from thinking a
file has been truncated. Most of the time the file will
already be that large, and when it isn't Unix will often just
allocate the final block anyway.
./src/H5G.c
./src/H5Gent.c
./src/H5Gnode.c
./src/H5Gpkg.h
./src/H5Gprivate.h
./src/H5Gstab.c
Removed H5G_basename()
Removed (temporarily) data type information from symbol table
entries and renamed H5G_CACHED_SDATA to H5G_CACHED_SDSPACE to
reflect that it's a simple data space and has nothing to do
with raw data.
Changed H5G_node_new() to H5G_node_create() and H5G_stab_new()
to H5G_stab_create() to make names more uniform across
packages.
Fixed an undefined address bug that happens when H5G_node_debug()
program doesn't pass enough info to H5G_node_load().
./src/H5H.c
./src/H5Hprivate.h
Changed H5H_new() to H5H_create() to make the names more
uniform across packages.
./src/H5M.c
./src/H5Mprivate.h
./src/H5Mpublic.h
Nulled all the create functions. Most of the other callbacks
are to public functions. Removed H5Mcreate().
Changed hobjtype_t to group_t since it has to be the same
thing anyway.
./src/H5O.c
./src/H5Oprivate.h
./src/H5Osdim.c
./src/H5Osdtyp.c
Changed H5O_SIM_DIM to H5O_SDSPACE (simple data space) since
`simple data space' is its official name, not `simple
dimensions'. Will eventually add H5O_CDSPACE for comples data
spaces. Changed _sim_dim_ to _dspace_.
Replaced H5O_SIM_DTYPE and the compound data type messages
with a single H5O_DTYPE message. Changed _sim_dtype_ to _dtype_.
Changed H5O_STD_STORE to H5O_CSTORE (contiguous storage) since
contiguous storage is not necessarily standard. Changed
_std_store_ to _cstore_ in H5Ocstore.c
Added the H5O_EFL (external file list) message.
Changed H5O_new() to H5O_create() to make names more uniform
across packages.
./src/H5Oefl.c NEW
External file list message for specifying which non-hdf5 files
contain raw data for a dataset.
./src/H5P.c
./src/H5Pprivate.h
./src/H5Ppublic.h
Renamed and moved data structures to make the names conform to
our naming scheme.
./src/H5T.c
./src/H5Tprivate.h
./src/H5Tpublic.h
./src/H5Tpkg.h NEW
Data structures redesigned to be more flexible. The interface
was redesigned to make it more regular and to make some names
more uniform across packages.
./src/H5detect.c
Output was changed to produce a file that conforms to the hdf5
coding standard.
./src/Makefile.in
Generates H5Tinit.c by running H5detect.
./src/debug.c
Moved command argument processing.
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The H5D, H5P
& H5T interfaces now share datatypes & dataspaces properly also.
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allocated during
runtime. Isolated but can't figure out how to fix bug reported with purify.
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to the disk
correctly, but only in "native" format. I'm adding the data-type conversions
and checking the reading later today.
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dataspace.
Also tweaked the data structures, and fixed a few bugs.
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./src/H5Aproto.h
./src/H5Bproto.h
./src/H5Cproto.h
./src/H5Dproto.h
./src/H5Eproto.h
./src/H5Fproto.h
./src/H5Gproto.h
./src/H5Hproto.h
./src/H5MFproto.h
./src/H5MMproto.h
./src/H5Mproto.h
./src/H5Oproto.h
./src/H5Pproto.h
./src/H5Tproto.h
./src/H5proto.h
These files were removed from the library and renamed by
changing `proto' to `public'.
./src/H5ACpublic.h NEW
./src/H5Apublic.h NEW
./src/H5Bpublic.h NEW
./src/H5Cpublic.h NEW
./src/H5Dpublic.h NEW
./src/H5Epublic.h NEW
./src/H5Fpublic.h NEW
./src/H5Gpublic.h NEW
./src/H5Hpublic.h NEW
./src/H5MFpublic.h NEW
./src/H5MMpublic.h NEW
./src/H5Mpublic.h NEW
./src/H5Opublic.h NEW
./src/H5Ppublic.h NEW
./src/H5Tpublic.h NEW
./src/H5public.h NEW
These files came from the old H5*proto.h files.
./src/Makefile
./src/Makefile.in NEW
Removed. Now generated automatically from Makefile.in by
running configure.
./src/h5oplat.h
./src/hdf5fort.h
./src/hdf5gen.h
./src/hdf5glob.h
./src/hdf5lims.h
./src/hdf5meta.h
./src/hdf5pabl.h
./src/hdf5plat.h
./src/hdf5port.h
./src/hdf5type.h
Removed. The contents of these files has moved to other
header files or source files depending on it's nature.
./src/H5.c
./src/H5A.c
./src/H5B.c
./src/H5C.c
./src/H5D.c
./src/H5E.c
./src/H5F.c
./src/H5G.c
./src/H5H.c
./src/H5M.c
./src/H5MF.c
./src/H5MM.c
./src/H5O.c
./src/H5Ocont.c
./src/H5Oname.c
./src/H5Onull.c
./src/H5Ostab.c
./src/H5P.c
./src/H5T.c
Fixed include files. Moved some things from old headers into
these files.
./src/H5ACprivate.h
./src/H5Aprivate.h
./src/H5Bprivate.h
./src/H5Cprivate.h
./src/H5Dprivate.h
./src/H5Eprivate.h
./src/H5Fprivate.h
./src/H5Gprivate.h
./src/H5Hprivate.h
./src/H5MFprivate.h
./src/H5MMprivate.h
./src/H5Mprivate.h
./src/H5Oprivate.h
./src/H5Pprivate.h
./src/H5Tprivate.h
./src/H5private.h
./src/debug.c
Fixed include files.
./src/hdf5.h
This is now the top-level *PUBLIC* include file. It should
never appear in the library *.c files.
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