| Commit message (Collapse) | Author | Age | Files | Lines |
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comments,
fixed a few tests that used incorrect names for H5L APIs (formerly hidden behind
H5_GROUP_REVISION ifdefs
Mostly cosmetic changes, tested on mir.
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Feature
Description:
Revised Link APIs.
Solution:
New link APIs use H5L*
H5*create_expand do not create links to the objects created; this must
be done manually with H5Llink.
Added APIs to link an object given its ID (H5Llink), to copy links (H5Lcopy),
and changed creation APIs (H5Lcreate_hard and H5Lcreate_soft) and query
API (H5Lget_linkinfo instead of H5Gget_objinfo).
All old APIs are still supported in H5Gdeprec.c .
Platforms tested:
sol, mir, copper
Misc. update:
Forgot to update MANIFEST and release docs. Will do after checkin.
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Code checkpoint
Description:
Revise fractal heap code to support deletions in up to 2nd level deep
indirect blocks. Needs some revisions to support deeper indirect blocks...
Platforms tested:
FreeBSD 4.11 (sleipnir)
Linux 2.4 (chicago)
h5committest
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Bug #281
Description:
The previous fix for bug #281 was not safe. Files got corrupted in
some cases. Needs a more comprehensive fix for it. Undo the unsafe
fix for now.
Platforms tested:
h5committested.
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Code cleanup
Description:
Trim trailing whitespace in Makefile.am and C/C++ source files to make
diffing changes easier.
Platforms tested:
None necessary, whitespace only change
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New feature
Description:
Check in Peter's code to add support for "shallow copy", "create
intermediate groups", "no attributes" and "expand soft links" support.
Platforms tested:
FreeBSD 4.11 (sleipnir)
Linux 2.4 (chicago) w/ & w/o group-revision enabled
h5committest
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Description: Mac OS 10.4 on PowerPC chip has some errors to convert (unsigned)
long long to long double. When the bit sequences are 0x003ff..., 0x007fff...,
0x00ffff..., 0x01ffff..., 0x7fffff..., the converted values are twice as big
as they should be.
Solution: Detect the error in configure and disable the compiler conversion
and test case.
Platforms tested: h5committest, Mac OS 10.4, and fuss.
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Configuration feature
Description:
'make install' now tests both static and shared libraries if both are installed.
Solution:
Previously, shared libraries were only tested when static libraries were not installed.
Also cleaned up line in commence.am that was including HL library in all Makefiles.
Platforms tested:
mir (Makefile change only)
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Description: Data conversion from long double to (unsigned) long long
returns some incorrect values on Mac OS 10.4 and SGI IRIX64 6.5. The
conversions start to go wrong when the long double is
20041683600089727.779961 (0x4351ccf385ebc8a0bfcc2a...). If adjusting
the values higher by assigning 0x...c8a0cf... or 0x...c8a0df..., the
converted values go wild.
Solution: Detect this error in configure.in and disable compiler
conversions from long double to (unsigned) long long for Mac OS 10.4
and IRIX64 6.5.
Platforms tested: h5committest, Mac OS 10.4, and IRIX64 6.5.
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Code checkpoint
Description:
Add in more new features for the fractal heap code, mostly bringing in
more ability for deleting objects (which isn't completely working yet).
Also, checkpoint free space manager code, which is essentially complete
(although it needs some more work after the metadata cache has some additional
features)
Platforms tested:
FreeBSD 4.11 (sleipnir)
Linux 2.4 (chicago)
h5committest
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New feature
Description:
Add '%t' format for HDfprintf() to print htri_t (and hbool_t) values.
Platforms tested:
FreeBSD 4.11 (sleipnir)
Linux 2.4 (chicago)
h5committest
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Bug fix
Description:
Don't attempt to merge object header messages when a file is opened
read-only.
Mark the object header dirty when messages are merged, as well as the
particular message affected.
Platforms tested:
FreeBSD 4.11 (sleipnir)
Too minor to require h5committest
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Bug fix
Description:
Fix bug which could lead to files with incorrect count of messages in the
header for an object. The exact sequence of operations is complicated and
is described in the release notes.
Solution:
Mark merged null header messages as dirty.
Platforms tested:
FreeBSD 4.11 (sleipnir)
Linux 2.4 (chicago)
Mac OS/X (amazon)
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Bug fix - bugzilla #552
Description:
On Cray X1, trying to use : as an argument confused the system.
Solution:
Added a test in configure to see if : as an argument is bad.
If so, skipped the test.
Platforms tested:
mir, Cray X1 (change to configure only)
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Some collective chunk IO macro names are confusing, change them to more meaningful
names.
Description:
H5Pset_dxpl_mpio_chunk_opt will set a flag so that the library can do one linked IO or multi-chunk IO with collective in chunking storage directly. That is, the library won't do analyses to determine this.
The flags for the enum type we used before are:
H5FD_MPIO_OPT_ONE_IO
H5FD_MPIO_OPT_MULTI_IO
They are not good names because of the following two reasons:
1. It doesn't reflect chunking storage
2. OPT is kind of redundant and misleading,
Solution:
We change the names to
H5FD_MPIO_CHUNK_ONE_IO
H5FD_MPIO_CHUNK_MULTI_IO
Platforms tested:
Since only macro names are changed, no need to test with h5committest.
heping(mpich 1.2.6)
Misc. update:
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Description: Ran /bin/h5vers to change suffix to alpha4 after creating hdf5-1.8.0-alpha3
tar ball and tagging the release with hdf5_1_8_0_alpha3 tag
Solution:
Platforms tested:
Misc. update:
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1) Check in potential fix to unreproduceable bug in t_cache observed on
Cobalt
2) Check in code supporting added pinned entry features in the metadata
cache.
Description:
1) Elena encountered a bug in t_cache when running on Cobalt. On
investigation I found a potential race condition in t_cache that
could explain her observation.
2) Quincey requested additions to the metadata cache allowing renaming
of pinned entryies, and marking of pinned or protected entries as
dirty.
Solution:
1) Modified t_cache.c to prevent the potential race condition. Elena
was unable to reproduce the bug on Cobalt, so we don't know if my
fix actually addressed the problem.
2) Added code supporting the requested functions. The changes were
relatively trivial, but required substantial new test code.
Platforms tested:
h5committest, serial test on heping, parallel test on phoenix.
Misc. update:
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Makefile cleanup
Description:
Cleaned up where files were distcleaned
Platforms tested:
mir (change only affects distclean)
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Code checkpoint
Description:
Add a few minor tweaks & corrections to the fractal heap code.
Platforms tested:
Linux 2.4 (chicago)
Too minor to require h5committest
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Portability fix
Description:
Try again to placate the VS 6.0 compiler
Platforms tested:
Linux 2.4 (chicago)
Too minor to require h5committest
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Bug fix
Description:
When destroying the cache for a file, don't disconnect the cache from the
file structure until after the cache is shut dow, to allow pinned entries to
be unpinned.
Platforms tested:
Linux 2.4 (chicago)
Too minor to require h5committest
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Code checkpoint
Description:
Update fractal heap code to allow objects to be deleted
Fix bugs in fractal heap object insertion
Improve free space manager code to allow sections to be merged and
shrink the container
Another try at making the Windows compilers happy...
Platforms tested:
FreeBSD 4.11 (sleipnir)
Mac OS X.4/PPC (amazon)
Linux 2.4 (chicago & heping)
Solaris 2.9 (shanti)
AIX 5.? (copper) w/parallel
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Bug fix.
Description:
The ${TR}, though avoid the error, is inconvenient. It is needed
because configure.in use the char range in the style of 'a-z'.
The other style of '[a-z]' is more commonly accepted by all tr
but autoconf tends to strip away [], making the syntax rather
clumsy.
Solution:
Learned from autoconf that it avoids the use of character range
by just spell all the letters out. Changed our tr commands to
use those variables defined by autoconf. Also removed the
definition of ${TR} since it will cause inconsistancy when
autoconf also use plain 'tr' in its generated code.
The Makefile.in are changed because the elimination of ${TR} from
configure triggered its removal from all Makefil.in. That is okay
because ${TR} is not used at all in Makefile.
Platforms tested:
h5committested. (sol failed to connected). also tested in shanti
using both /usr/ucb/tr and /bin/tr (the bad one before.)
Misc. update:
Updated both INSTALL and RELEASE files.
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Bug fix
Description:
Avoid using double -> hsize_t conversion, to placate VS 6.0
Platforms tested:
None, just eyeballed...
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Code checkpoint
Description:
Checkpoint fractal heap improvements, as well as move the free space
manager code that it's using into a separate package.
Platforms tested:
FreeBSD 4.11 (sleipnir)
Linux 2.4/64 (mir) w/C++ & FORTRAN
Linux 2.4/32 (heping)
Solaris 2.9 (shanti)
AIX 5.? (copper) w/FORTRAN & parallel
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Bug fix.
Description:
Some machines (e.g., HPUX) will have off64_t defined but no support
for stat64 unless certain LargeFile macro is turned on. This caused
the last fix on H5private not quite right which caused compiling failures.
Solution:
Added stat64 and fstat64 tests and then will use them only if they
are supported.
Platforms tested:
Tested on kelgia, copper and heping (pll).
(Compiling alright but tests for kelgia and heping are not done.
expect no problems.)
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Description: Function prototype H5E_walk_t and structure H5E_error_t wasn't backward
compatible.
Solution: Make them compatible with v1.6 and provide new definitions of H5E_walk_stack_t
and H5E_error_stack_t.
Platforms tested: fuss and h5committest.
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Bug fix for collective chunk IO
Description:
Several options have been provided inside HDF5 library for
obtaining chunk addresses when doing collective chunk IO.
One option is to obtain chunk addresses for one process and broadcast
to other processes. This option needs all processes to participate.
If using link-chunked IO without any optimizations,
sometimes this is not true due to the random initialization for one variable at mpich 1.2.7.
This is a bug inside the collective chunk IO code.
Solution:
1.Initalize all the variables to some safe numbers,
2. Avoid using MPI broadcast to obtain the chunk address if possible
until more performance studies have been done.
3. Seems okay to obtain chunk addresses individually for each processor.
This option may cover most cases.
Platforms tested:
h5committest(copper is not usable)
NCSA teragrid (mpich 1.2.5)
mir 64-bit linux (mpich 1.2.6)
Misc. update:
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bug fix.
Description:
Previous H5private.h would attempt to use the off64_t/stat64/etc
by checking just sizeof __INT64 being 8. This caused errors in
some machines like alpha cluster which is a 64bit machine. Its
compiler supports the type __int64 but it does not support
off64_t since its off_t is already 64bits big. The above code
casued the compiler to complain about the unknown off64_t and
such.
Solution:
H5private.h:
Changed the code to use the pseudo standard of off64_t/stat64/etc
only if sizeof(off_t) is not 64 bits AND sizeof(off64_t) exists
and is 64 bits. This assumes if off64_t is defined, all those
stat64, fstat64, etc are supported too.
configure.in:
configure:
Added the testing of sizeof(off64_t) to support the above solution.
Platforms tested:
h5committested. Also tested at LANL QSC.
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Description: Changed version suffix to alpha3
Solution: ran bin/h5vers script
Platforms tested:
Misc. update:
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code cleanup
Description:
Finish H5FS->H5CS internal API name changes...
Platforms tested:
FreeBSD 4.11 (sleipnir) w/ & w/o --enable-codestack
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Purpose:
Rename feature
Description:
Rename the "function stack" debugging feature to "call stack", so the H5FS*
prefix can be used for free space management code.
Platforms tested:
Not yet, but soon..
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Code checkpoint
Description:
More progress on fractal heap, can now re-open an existing heap, although
the free space algorithm still needs work.
Also, use the new "pinned entry" metadata cache code.
Platforms tested:
FreeBSD 4.11 (sleipnir)
Linux 2.4 (heping)
Solaris 9 (shanti)
Linux 2.4/64 (mir)
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Code cleanup/feature twist
Description:
Adjust recent H5AC routines to take H5F_t pointers instead of H5C_t
pointers, to match the rest of the H5AC routines.
This change propagated into a few of the tests, which also had some
compiler warnings cleaned up...
Platforms tested:
FreeBSD 4.11 (sleipnir) w/parallel
Linux 2.4/64 (mir) w/C++ & FORTRAN
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Code cleanup
Description:
Clean up a few minor compiler warnings
Platforms tested:
FreeBSD 4.11 (sleipnir)
Linux 2.4/64 (mir)
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Add pinned entry capability to cache.
Description:
For frequently accessed cache entries, the protect/unprotect overhead
is sometimes a bottleneck.
Solution:
Allow entries to be pinned in the cache. Pinned entries can't be
evicted, but can be flushed or modified.
Platforms tested:
h5committested -- minus one small typo in test/cache.c whose fix was
tested on copper and heping only.
Misc. update:
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Several bug fixes
Description:
Added config file for Cray X1 (previous file was misnamed)
Simplified some code in hyperslab.c test that seemed to have been
confusing compiler on Cray X1.
Fixed typo in config/commence.am
Cleaned up hl/src/Makefile.am
Solution:
All four fixes should be straightforward. The failure on Cray was
very difficult to debug, but involved arithmetic errors.
This change seems to fix it.
Platforms tested:
heping, copper, sol, some Cray X1 (more testing when system comes back up)
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Bug fix
Description:
Fix missing error code from flexible parallel removal
Platforms tested:
IBM AIX (copper) w/parallel
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Code maintenance
Description:
Remove flexible parallel code
Platforms tested:
FreeBSD 4.11 (sleipnir)
Linux 2.4 (heping)
Solaris 2.9 (shanti)
Linux 2.4/64 (mir)
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Description:
The file size test in C++ library failed on Copper because the
value returned by h5_get_file_size was intepreted incorrectly
due to different interger sizes.
Solution:
H5private.h: Added check to use stat64 and off64_t where appropriate.
h5test.c and h5test.h: used h5_stat_size_t in place of off_t.
tattr.cpp: used h5_stat_size_t in place of off_t.
Platforms tested:
Linux 2.4 (heping)
AIX 5.1 (copper)
SunOS 5.8 64-bit (sol) - still on going
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Rearragement.
Description:
Created general HL library header file and moved HL public headers to it.
Platforms tested:
h5committested.
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Description: Ran bin/h5vers script to change version number to 1.8.0-alpha1
Solution:
Platforms tested: heping
Misc. update:
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Description: Here is what I did:
modified MANIFEST according Quincey's instructions to fix
the problem exposed by bin/release (compilation fails
because some header files were not included in the distribution)
fixed small typo and modified include_HEADERS line in
src/Makefile.am to address the problem exposed by bin/release
ran bin/h5vers to change version number to 1.8.0-alpha0
ran bin/release to release tar ball to the ftp server
Solution:
Platforms tested: mir MANY,MANY,MANY times
Misc. update:
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Improvement
Description:
Modified the warning messages from the Version mismatch checking to suggest
the users to try recompiling or checking the shared lib setting.
Platforms tested:
Tested in heping only since it was just a simple text string changes.
(I did moved the strings around a bit.)
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Code checkpoint
Description:
Add more regression tests for odd insertion patterns
Platforms tested:
FreeBSD 4.11 (sleipnir)
Linux 2.4 (heping)
Linux 2.4/64 (mir)
Solaris 2.9 (shanti)
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Code checkpoint
Description:
Add in more fractal heap support for odd allocation patterns (entries that
are too large for various block sizes, etc.)
Broke out fractal heap code into more source code modules.
Refactored fractal heap test to make it more understandable and
maintainable for the long term.
Platforms tested:
FreeBSD 4.11 (sleipnir)
Linux 2.4 (heping)
Linux 2.4/64 (mir)
Solaris 2.9 (shanti)
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Anti-feature
Description:
Revert changes to H5G_stat_t struct, to make it compatible with the 1.6.x
branch again. The information that was added to the H5G_stat_t struct will
be reported through other API routines.
Platforms tested:
FreeBSD 4.11 (sleipnir) w/C++
Linux 2.4/64 (mir) w/C++ & Fortran
Solaris 2.9 (shanti)
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new feature
Description:
1) separated the HL library into "public" and "private" header files, with the same caracteristics as the basic library
2) added the public headers to hdf5.h (with a conditional include macro, defined in configure.in)
3) added the path to HL in all Makefile.am 's , because of the inclusion in hdf5.h
Solution:
Platforms tested:
linux 32, 64
AIX
solaris
with fortran and c++
(one packet table example fails)
Misc. update:
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"Hide" file format changes (for now)
Description:
Add ifdef's (controlled by the --enable-group-revision configure flag)
to disable group revision changes to the file format, in order to allow alpha
release to go ahead without releasing an unsupported version into the wild.
Platforms tested:
FreeBSD 4.11 (sleipnir)
Linux 2.4 32-bit (heping)
Linux 2.4 64-bit (mir)
Solaris 2.9 (shanti)
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