| Commit message (Collapse) | Author | Age | Files | Lines |
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list ID as the
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.
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O2K and it passed all tests.
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to accept a
location ID (i.e. a file or group ID) as well as the dataset ID. This should
allow Dave to get the palettes stored in the file correctly and also enable
Bob and/or Bruce's indexing stuff. This change should be folded into the
documentation for these three functions for the release.
Also, I fixed a number of bugs in the hyperslab and point selection
iterators for H5Diterate and they are working correctly now.
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to add tests
for now. Also, I revised some of the code for hyperslab I/O, which should
provide a modest speedup in situations with lots of hyperslabs.
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Changes since 19990618
----------------------
./configure.in
./configure [REGENERATED]
Now that compound struct conversions don't make so many calls
to convert their members I turned the H5T debugging back on by
default (it will still be disabled in a production version).
./src/H5AC.c
./src/H5B.c
Made it possible to turn off messages about debugging these
two packages using the same method as for all other
packages. Just supply an invalid file descriptor number or use
the shell to redirect said descriptor to /dev/null like this:
$ HDF5_DEBUG=99,ac,b 99>/dev/null a.out
./src/H5T.c
Changed the name of the old compound conversion function from
`struct' to `struct(no-opt)' to be more consistent with the
new version named `struct(opt)'.
Fixed a bug in H5T_cmp() that caused any two VL types to
compare as being equal.
Removed duplicate code for bitfield comparisons in H5T_cmp().
./src/H5Tconv.c
Relaxed some constraints in the new compound conversion
function so it applies to more cases. Also eliminated a
memcpy in a tight loop.
./test/cmpd_dset.c
Added a `--noopt' command line switch which unregisters the
optimized compound conversion so we can test the non-optimized
version.
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Changes since 19990618
----------------------
./Makefile.in
Running `make' in the top directory recurses into the examples
directory also except if the make target is one of: lib,
progs, check, test, _test, install, uninstall.
./examples/Makefile.in
Changed programs into tests, which just means that `make
tests' does what `make progs' used to do and that `make check'
runs the executables.
./src/H5Tconv.c
Fixed a typo in the unsigned-to-signed native converter for
large types to small types. This fixes a bug on baldric and
possibly other machines for the `dtypes' test.
Also fixed a signed vs. unsigned warning.
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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.
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the Parallel version.
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Changes since 19990614
----------------------
./src/H5D.c
Changed the way the plist_id argument of H5Dvlen_reclaim() is
checked so that it's more specific and works when debugging is
turned off.
./src/H5TB.c
Removed an unused local variable.
./test/fillval.c
./test/h5test.c
./test/h5test.h
Changed `basename' variables to `base_name' to prevent a
warning about a global with the same name.
./tools/h5ls.c
Changed `indent' variables to `ind' to prevent a warning about
a global with the same name.
./tools/h5toh4.c
Commented out declarations for things that normally appear in
system header files since our definitions might be
incompatible with the system and prevent h5toh4 from
compiling. If all looks good on other systems then we can
permanently remove these declarations...
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----------------------
./src/H5D.c
Changed the way the plist_id argument of H5Dvlen_reclaim() is
checked so that it's more specific and works when debugging is
turned off.
./src/H5TB.c
Removed an unused local variable.
./test/fillval.c
./test/h5test.c
./test/h5test.h
Changed `basename' variables to `base_name' to prevent a
warning about a global with the same name.
./tools/h5ls.c
Changed `indent' variables to `ind' to prevent a warning about
a global with the same name.
./tools/h5toh4.c
Commented out declarations for things that normally appear in
system header files since our definitions might be
incompatible with the system and prevent h5toh4 from
compiling. If all looks good on other systems then we can
permanently remove these declarations...
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Changes since 19990611
----------------------
./doc/html/H5.format.html
Added documentation for opaque data types (bitfield types were
already documented but they were out of order).
./src/H5E.c
Fixed a bug with glibc2 on linux systems where `stdout' is an
extern and can't be used to initialize static data.
./src/H5T.c
./src/H5Tpkg.h
./src/H5Tpublic.h
./src/H5detect.c
Removed the `_T' from the new C9x types I just added so the
names are consistent with existing types. Besides, the fact
that something is a datatype is obvious because it starts with
H5T_NATIVE_.
./tools/h5ls.c
Added the new C9x data types. H5ls prints one of these types
only if it doesn't match one of the builtin C types.
Prints the OID for shared data types.
Fixed a formatting bug with symbolic links which was
introduced a few changes ago.
The commandline has been changed so that objects from multiple
files can be listed with a single command. Instead of
specifying a file name and an optional list of objects, each
thing to print is a file name and object concatenated. H5ls
figures out how to devide the name into a file name and object
name even when the file name part doesn't correspond to an
actual Unix file.
Old syntax: h5ls [OPTIONS] FILE [OBJECTS]
New syntax: h5ls [OPTIONS] FILE[/OBJECT] [FILE[/OBJECT]]...
Example ({X,Y} is expanded by the shell)
Old command: h5ls -d ../test/x.data dir1 dir2
New command: h5ls -d ../test/x.data/{dir1,dir2}
The filename is printed as part of the object name when full
names are requested (--full or --recursive). If people really
don't like this they can undefine a constant at the top of
h5ls.
Errors from the hdf5 library are turned off.
Commandline switches of the form `--width 80' are accepted in
addition to `--width=80'. This is more symmetric with
single-letter switches that take two forms: `-w 80' and
`-w80'.
./src/H5D.c
Added tracing instrumentation for H5Dvlen_reclaim().
./src/H5private.h
Added casts to int for the isalpha() et al macros to shut up
solaris warnings about char subscripts.
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----------------------
./doc/html/H5.format.html
Added documentation for opaque data types (bitfield types were
already documented but they were out of order).
./src/H5E.c
Fixed a bug with glibc2 on linux systems where `stdout' is an
extern and can't be used to initialize static data.
./src/H5T.c
./src/H5Tpkg.h
./src/H5Tpublic.h
./src/H5detect.c
Removed the `_T' from the new C9x types I just added so the
names are consistent with existing types. Besides, the fact
that something is a datatype is obvious because it starts with
H5T_NATIVE_.
./tools/h5ls.c
Added the new C9x data types. H5ls prints one of these types
only if it doesn't match one of the builtin C types.
Prints the OID for shared data types.
Fixed a formatting bug with symbolic links which was
introduced a few changes ago.
The commandline has been changed so that objects from multiple
files can be listed with a single command. Instead of
specifying a file name and an optional list of objects, each
thing to print is a file name and object concatenated. H5ls
figures out how to devide the name into a file name and object
name even when the file name part doesn't correspond to an
actual Unix file.
Old syntax: h5ls [OPTIONS] FILE [OBJECTS]
New syntax: h5ls [OPTIONS] FILE[/OBJECT] [FILE[/OBJECT]]...
Example ({X,Y} is expanded by the shell)
Old command: h5ls -d ../test/x.data dir1 dir2
New command: h5ls -d ../test/x.data/{dir1,dir2}
The filename is printed as part of the object name when full
names are requested (--full or --recursive). If people really
don't like this they can undefine a constant at the top of
h5ls.
Errors from the hdf5 library are turned off.
Commandline switches of the form `--width 80' are accepted in
addition to `--width=80'. This is more symmetric with
single-letter switches that take two forms: `-w 80' and
`-w80'.
./src/H5D.c
Added tracing instrumentation for H5Dvlen_reclaim().
./src/H5private.h
Added casts to int for the isalpha() et al macros to shut up
solaris warnings about char subscripts.
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currently working
is H5Tvlen_create().
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----------------------
./configure.in
./configure [REGENERATED]
./src/H5T.c
./src/H5Tpkg.h
./src/H5Tpublic.h
./src/H5config.h.in [REGENERATED]
./src/H5detect.c
./src/H5private.h
Added checks for the C9x integer types like int32_t,
int_least32_t, and int_fast32_t and the unsigned
versions. HDF5 defines H5T_NATIVE_* versions (all caps) to be
the same as the type provided by the C library, otherwise it
defines them as integers exactly the specified size. Hardware
type conversion functions are used when the types
match some C-language type (like `int').
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----------------------
./configure.in
./configure [REGENERATED]
./src/libhdf5.settings.in [NEW]
./config/conclude.in
./INSTALL
./MANIFEST
A file called `libhdf5.settings' is installed along with the
libraries and it contains a list of various things that might
be of interest to someone using the library (such as what
compiler/options were used and what other libraries might need
to be linked to satisfy external references). We can add more
things as it becomes necessary. Here's a sample...
SUMMARY OF THE HDF5 CONFIGURATION
=================================
HDF5 Version: hdf5-1.1.106
Configured on: Tue Jun 8 11:38:52 EDT 1999
Configured by: matzke@llnl.gov at Spizella Software
Configure mode: development
Host system: i686-pc-linux-gnulibc1
Byte sex: little-endian
Libraries: static, shared
Parallel support: mpicc
Installation point: /usr/local
Compiler: mpicc (egcs-2.91.66)
Compiler switches: -Wall -g
Extra libraries: -lmfhdf -ldf -lz -ljpeg -lm
Archiver: ar
Ranlib: ranlib
Debugged Packages: d,e,f,g,hg,i,mm,o,p,s,v,z
API Tracing: yes
File addresses: large
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----------------------
./tools/h5ls.c
./tools/h5tools.c
Added support for printing bitfields and opaque data.
./test/dsets.c
Added bitfield and opaque datasets to the output file so h5ls
has something interesting to print.
./test/trefer.c
Resync'd
./src/H5Tconv.c
Fixed bitfield conversion which resulted in possible garbage
in high-order bits of destination when the destination type is
larger than the source type. Thanks for spotting it, Quincey.
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----------------------
./doc/html/Datatypes.html
./test/dtypes.c
Added documentation and tests for opaque types.
./tools/h5ls.c
Added a `-x' or `--hexdump' argument which is not fully
implemented (because I want to synchronize h5tools.c first)
but which will eventually print raw data in hexadecimal format
without any translation from disk. This would be useful for
debugging references and VL types.
./tools/h5tools.c
Added support for references (not quite finished yet, but
compiles -- I wanted to sync up this file before Patrick and I
got too far apart...)
./src/H5R.c
Checked for error return value from H5R_get_object_type()
./src/H5A.c
./src/H5D.c
Changed error return values from NULL to FAIL
./test/Makefile.in
./test/trefer.c
Creates trefer1.h5 and trefer2.h5 so that the second test
doesn't clobber the first file since the files might be useful
for debugging.
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functionality is here,
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.
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being in the TFLOPS machine but it is not recognized by the system.
TFLOPS uses __PUMAGON__ to identify itself.
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----------------------
Remove changes from CVS
./bin/release
Added a `--nocheck' switch which causes the script to not
check the contents of the MANIFEST file against CVS. This is
sometimes useful when you need to make a quick snapshot but
the MANIFEST file is not quite up to date.
./src/H5D.c
Removed warnings for unused variables
./src/H5Fprivate.h
Removed the WIN32 definition for `uint' and changed the data
type for `eof_written' from `uint' to `uintn'. Shouldn't this
really be `hbool_t'?
./src/H5Odtype.c
./src/H5T.c
./src/H5Tconv.c
./src/H5Tpkg.h
./src/H5Tpublic.h
./test/dtypes.c
./doc/html/H5.format.html
Added support for bitfields and opaque data types.
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added a typedef for windows. uint is UINT on windows.
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correct bug.
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the hyperslabs
being written out are contiguous in memory and on disk and write/read them as
one I/O operation (if the datatypes don't require conversion). This should be
a good performance boost for those situations. It's especially needed on the
ASCI Red (TFlops) machine. - QAK (from Albert's account on modi4 :-)
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H5F.c:
H5Flow.c:
H5Fprivate.h:
Joined work by Quincey, Robb and me to eliminate the initial writes
of BOOTBLOCK when the file is first created. Also, eliminate the
repeatedly encoding of BOOTBLOCK in the flushing code. Introduced
the eof_written flag to indicate when it is not necessary to go
do a dumb write at eof.
(But something is not right if the userblock is not zero.)
H5Fmpio.c:
Added code to allow setting the MPIO debug output mask via
the environment variable H5F_mpio_Debug.
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for noticing it, Nancy.
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----------------------
./tools/h5ls.c
Added a `--address' (`-a') switch which causes h5ls to display
file addresses for raw data. For contiguous datasets it's just
a nice simple number, but for chunked datasets it's a list of
logical dataset coordinates, file addresses, filter masks, and
storage sizes.
Changed `--dump' switch to `--data'.
./src/H5D.c
./src/H5F.c
./src/H5Fprivate.h
Enhanced the indexed-storage B-tree iterator so it can dump
raw data addresses (and other info) to the standard error
stream.
Added H5Ddebug() so h5ls has a way to dump addresses for
datasets. I'm not sure what else this API function should do,
so I think we should discuss it before we document it. So far,
h5ls is the only thing that uses it, and we can easily change
that.
./src/H5Tconv.c
./test/dtypes.c
Finally had a chance to verify Paul's H5T_conv_s_s (general
string to string conversions) bug fixes and incorporate them
into H5T_conv_f_f (general floating-point to floating-point
conversions) and H5T_conv_i_i (general integer to integer
conversons). Thanks Paul.
./src/H5D.c
./src/H5S.c
./src/H5Sprivate.h
Added performance timers around data space read and write
callbacks. They were already there for the gather/scatter
callbacks.
The timings for read/write callbacks are displayed along with
gather/scatter when data space debugging is turned on.
./bin/iostats
Updated to print totals. Added a `--fast' option that doesn't
do any output except the totals and is much faster.
./bin/trace
Changed __unused__ to UNUSED to match source code.
./config/gnu-flags
Updated error message for pgcc. I've sent bug reports to the
pgcc people but the new version still has the same bug.
./configure.in
./config/conclude.in
./config/depend.in
Fixed dependencies for non-GNU makes when run in a directory
other than the hdf5 source tree.
Updated GNU `make dep' rules to copy the distributed
dependencies for non-GNU makes into the source tree when run
in some other directory.
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a fileindex
hi and lo. this number and the dev id will allow us to determine if the
file is currently open on NT
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