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too. Also used mpi function calls to test mpi libraries.
Tested on O2K platform.
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----------------------
./src/H5D.c
Fill values are working for contiguous datasets now except
there are two things that need more support from the data
space layer, specifically the ability to form a selection from
the difference of two selections. They are (1) extending an
external contiguous dataset, (2) optimization by delaying the
fill until after the first H5Dwrite().
Renamed H5D_allocate() to H5D_init_storage() since allocation
is only part of the story. Added a data space argument so it
doesn't have to query the space from the object header -- the
space is always available in the caller anyway.
Removed `#ifdef HAVE_PARALLEL' from a few places where it
wasn't necessary. We don't need it around code that doesn't
compile anything from mpi.h or mpio.h.
./src/H5Fistore.c
Uncommented H5F_istore_alloc() for non-parallel and moved the
`#ifdef HAVE_PARALLEL' just around Kim's barrier.
./src/H5Fmpio.c
Wrapped a couple long lines.
Got rid of two signed vs. unsigned comparison warnings.
./MANIFEST
./test/Makefile.in
./test/fillval.c [NEW]
Added tests for fill values. The contiguous dataset extend
test is disabled until H5S_SELECT_DIFF is implemented.
./tools/Makefile.in
Fixed a bug where `make test' didn't build the executables
first. This should cause the snapshots to start up again.
./Makefile.in
Changed to build in `test' directory before `tools'
directory. We want the library tests to pass before we even
start considering the tools. You can still build and/or test
the tools independent of the library tests passing.
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----------------------
./Makefile.in
Running `make distclean' will not fail if one of the
subdirectories has already been cleaned.
./config/BlankForm
./config/irix5.3
Cleaned it up more. Added better support/documentation for
systems that have more than one compiler.
./config/alpha-dec-osf4.0 [NEW]
Added a new config file as a result of testing on Jim Reus's
machine.
./test/chunk.c
Scaled down the testing range so we can actually run it
interactively.
./tools/h5import.c
Included <unistd.h> to get rid of warning for close().
./src/H5detect.c
Seg-faults on Linux for some reason when NDEBUG is defined, so
I just undef it at the top of the source.
./test/big.c
Added a fflush().
./tools/h5ls.c
The `-d' flag now works even when `-v' isn't specified.
./examples/h5_chunk_read.c
./examples/h5_compound.c
./examples/h5_extend_write.c
./examples/h5_group.c
./examples/h5_read.c
./examples/h5_write.c
Indented according to hdf5 standards.
Fixed compiler warnings
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----------------------
./Makefile.in
./config/commence.in
./config/conclude.in
./config/depend.in
./src/Makefile.in
./test/Makefile.in
Tests are no longer installed for `make install'. Added a new
target `make tests' that builds the tests but doesn't run them.
./configure.in
./configure [REGENERATED]
./src/H5config.h.in [REGENERATED]
Added detection of fork() and waitpid(). If present the
contants HAVE_FORK and HAVE_WAITPID will be defined in
H5config.h.
./test/dtypes.c
Minor tweaks for systems that don't have fork() or waitpid().
./MANIFEST
./tools [NEW]
./tools/Makefile.in [NEW]
./tools/h5debug.c [NEW]
./tools/h5import.c [NEW]
./tools/h5ls.c [NEW]
./tools/h5repart.c [NEW]
Added a tools directory and moved tools from the src directory
to here.
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Documentation (mostly)
Solution:
Parallel HDF5 support on Intel TFLOPS machine using PFS file system
and MPIO.
Platform tested:
Intel TFLOPS (ASCI Red)
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----------------------
This checkin completes the compression stuff almost two weeks ahead of
schedule. It should now all be working and documented.
./Makefile.in
./config/commence.in
A distclean causes the distribution makefile to be copied to
Makefile again.
./src/H5D.c
Opening a compressed dataset now works properly.
./src/H5P.c
./src/H5Ppublic.h
The H5Pset_compression() and H5Pget_compression() now work as
documented.
./src/H5T.c
Fixed a bug that causes the library to crash sometimes if
debugging is turned on for the `t' package.
./src/H5Z.c
Fixed a bug where the number of bytes attributed to
compression overruns was too low in the debugging output.
./test/dsets.c
More compression tests: reading of uninitialized data, opening
an existing dataset and reading it, partial I/O which isn't
aligned on chunk boundaries, and use of application-defined
compression methods.
./MANIFEST
Removed ./test/dspace.c.
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----------------------
./MANIFEST
./configure.in
./configure
./Makefile.in
./bin/distdep [NEW]
./config/conclude.in
./config/depend.in
./src/.distdep [NEW]
./test/.distdep [NEW]
Added some code so non-GNU systems have a list of dependencies
between the .c files and the .h files. Hopefully this works
and y'all don't have to keep saying `make clean' each time you
change a header.
On systems with GNU make, GCC, and Perl, the dependency
information is generated automatically from rules in
config/depend.in as has always been done. But now extra files
called `.distdep' (for `distributable dependencies) are left
in each directory and these are part of CVS and thus
releases. (A `make dep' will create dependencies on demand
without doing anything else.)
On systems lacking one or more of the tools above, the various
`.distdep' files are inserted into the end of the Makefiles.
If you do developement on one of these systems you'll have to
update the `.distdep' and/or Makefile by hand, or wait until
you have access to a GNU system and do a `make dep'.
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New feature
Problem:
"make H5Tinit.c" from toplevel not supported.
Solution:
added in the lines
H5Tinit.c:
(cd src && $(MAKE) $@)
This and other changes already committed allow the sequential HDF5
library to be compiled and tested for the ASCI Red machine in the
following steps:
sasn100: configure -v tflop
janus: make H5Tinit.c #made possible by this check-in
sasn100: make >&! comp.out
janus: make _test >&! test.out
The name: indicates which machine the command line must be run from.
Platform tested:
ASCI Red machine: janus
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No harm, just looked strange. Removed 'all' from the second
appearance. Tested in a O2K.
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----------------------
./INSTALL
./Makefile.dist
./Makefile.in
./config/conclude.in
Some stupid make's don't know what PHONY means. I added
changed config to _config in the default makefile and added
_test to the other makefiles.
./src/H5Psim.c
A `file_offset' argument got changed to `int' accidently that
causes tests to fail on 64-bit machines. I changed it back to
size_t.
./src/H5T.c
Changed a couple printf formats.
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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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----------------------
./Makefile.in
Added more dependencies to .PHONY.
./src/H5D.c
The write side of the I/O pipeline is implemented now too.
Things are looking good for the prototype and it's just a
matter of populating the library with the data type and data
space conversion functions.
./src/H5Farray.c
./src/H5Fprivate.h
./test/istore.c
Changed the order of the arguments for H5F_arr_read() and
H5F_arr_write().
./src/H5P.c
./src/H5Pprivate.h
Changed the names of the arguments of H5P_find(). Fleshed out
the mgath and fscat callback types.
./src/H5Psimp.c
Added stubs for H5P_simp_mgath() and H5P_simp_fscat() that
operate on the entire data space. Quincey, once you have the
data space hyperslab stuff in place let me know and I'll
finish the H5P_simp_*() functions to do partial I/O. Or you
can take a look at it too if you like; there's some comments
in there for you.
./src/H5V.c
./src/H5Vprivate.h
Changed dimensionality arguments from `size_t' to `intn' to be
consistent with the rest of the library and to get rid of
warnings on 64-bit Irix.
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----------------------
./config/depend.in
Fixed backslashes in sed script because the H5Gnode.c
dependency info was disappearing. You'll have to rerun
config.status to rebuild the Makefiles unless you use gnu
make.
./config/conclude.in
Also removes emacs backup files, TAGS, and svf backup files.
./config/linux
Grouped gcc flags and added provisions for debugging vs. production.
./html/H5.format.html
Updated messages 0x0008, 0x0009, and 0x000A.
./html/storage.html
Documentation describing storage schemes.
./src/Makefile.in
./test/Makefile.in
New source files.
./src/H5A.c
./src/H5Apublic.h
./src/H5C.c
Changed VOIDP to void* in a couple places.
./src/H5AC.c
./src/H5ACprivate.h
./src/H5B.c
./src/H5Bprivate.h
./src/H5G.c
./src/H5Gnode.c
./src/H5Gprivate.h
./src/H5H.c
./src/H5O.c
Removed `const' from some variables because H5G_node_found() wanted
to modify it's udata argument. Removing const there caused it
to cascade to these other locations.
./src/H5AC.c
./src/H5ACprivate.h
./src/H5B.c
./src/H5Gnode.c
./src/H5Gstab.c
./src/H5H.c
./src/H5O.c
Added an extra argument to H5AC_find_f() and H5AC_protect(). This
arg gets passed to the load() method. Also added an extra
argument to the H5AC_find() macro.
./src/H5B.c
./src/H5Bprivate.h
./src/H5Gnode.c
Extra argument passed to the sizeof_rkey() method.
./src/H5Fprivate.c
./src/H5Fistore.c (new)
Added indexed I/O operations.
./src/H5G.c
./src/H5Gnode.c
./src/H5Gprivate.h
Beginning to add H5G_open/close and related bug fixes.
./src/H5Oprivate.h
./src/H5Oistore.c (new)
Added the H5O_ISTORE messsage (0x0008) for indexed storage of
objects.
./src/H5private.h
Added extra braces around both sides of the FUNC_ENTER() and
FUNC_LEAVE() macros so FUNC_ENTER() can appear before
declarations or after executable statements the second case is
used by H5G_namei() to initialize output arguments to sane
values before FUNC_ENTER() might return failure.
int f ()
{
int decl1;
printf ("This happens before FUNC_ENTER()\n");
FUNC_ENTER (...);
int another_declaration;
./src/H5B.c
./src/H5Bprivate.h
./src/H5Gnode.c
Extra arguments for key encoding and decoding.
./src/H5E.c
./src/H5Epublic.h
./src/H5Fistore.c
./src/H5Oistore.c
./src/H5Oprivate.h
Indexed, chunked, sparse storage (not ready for general consumption
yet).
./src/H5V.c (new)
./src/H5Vprivate.h (new)
./test/hyperslab.c (new)
Vector, array, and hyperslab functions.
./src/H5B.c
./src/H5Bprivate.h
./src/H5Fistore.c
./src/H5Gnode.c
./src/H5V.c
./src/H5Vprivate.h
./test/hyperslab.c
Added functionality for indexed storage.
./src/H5F.c
Fixed problems with seek optimizing. Recommend we disable it
until we can implement it in the file/address class since all
of HDF5 must be aware of it.
./src/H5O.c
Fixed comeent speling erorr :-)
./MANIFEST
Added new files.
./config/conclude.in
Added the word `Testing' to the test cases. So if a test
program is called hyperslab then the make output will contain
the line `Testing hyperslab'.
./config/linux
The default file I/O library is Posix section 2 on my linux
machine so I can do some I/O performance testing.
./src/H5C.c
./src/H5Cprivate.h
./src/H5Cpublic.h
Added ability to set size of indexed-storage B-tree.
./src/H5D.c
./src/H5E.c
./src/H5Epublic.h
./src/H5F.c
./src/H5Fprivate.h
./src/H5G.c
./src/H5Gnode.c
./src/H5Gpkg.h
./src/H5Gprivate.h
./src/H5Gpublic.h
./src/H5Gshad.c
./src/H5Gstab.c
./test/stab.c
Changed `directory' to `group' in numerous places.
./src/H5private.h
The FILELIB constant can be set on the compile command-line.
./src/istore.c NEW
Tests for indexed storage.
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Instructions for end users.
./INSTALL_MAINT NEW
Instructions and hints for maintainers.
./MANIFEST NEW
A list of names of files that are part of the HDF5
distribution.
./Makefile.in NEW
Top-level makefile template. See INSTALL and/or INSTALL_MAINT
for instructions on how to generate the Makefile from this
file.
./configure NEW
./configure.in NEW
Configuration shell script generated from configure.in.
./Makefile
Removed from CVS. This file is now generated by running
configure.
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