| Commit message (Collapse) | Author | Age | Files | Lines |
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* OESS-98 fix tools test for plugins
* sync fork
* Merge of changes from dev
* Move problem option to bottom of the list until fixed
* HDFFV-11106 - fix parsing optional args
* HDFFV-11106 add note
* grammer fix
* Whitespace after clang formatting
* Undo format version 11 changes
* Update check to working version
* Merge workflow and minor changes from develop
* Update supported platforms
* PR#3 merge from develop
* Merge gcc 10 diagnostics option from develop
* Merge #318 OSX changes from develop
* Merge serval small changes from dev
* fix typo
* Minor non-space formatting changes
* GH #386 copyright corrections for java folder
* revert because logic requires false return
* Merges from develop
#358 patches from vtk
#361 fix header guard spelling
* Remove case statement for H5I_EVENTSET
* Correct call with versioning
* Remove tabs
* Double underscore change
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file - src and test directories.
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header file, FUNC_ENTER / LEAVE, etc). Removed remaining personal email
addresses from library source code (still needs cleaned from other directories).
Misc. warning, style, and whitespace cleanup.
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attr->shared to not be NULL.
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public headers and renamed to include native/NATIVE in the
name.
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orginally intended to support the full SWMR feature.
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Description:
Applied the typo fixes from user's report.
The previous pull request couldn't be merged because it was too old,
and it was too complicated for me to resolve conflicts.
Platform tested:
Linux/64 (jelly) - very minor
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hdf5_1_10
* commit '54957d37f5aa73912763dbb6e308555e863c43f4':
Commit copyright header change for src/H5PLpkg.c which was added after running script to make changes.
Add new files in release_docs to MANIFEST. Cimmit changes to Makefile.in(s) and H5PL.c that resulted from running autogen.sh.
Merge pull request #407 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10_1 to hdf5_1_10_1
Change copyright headers to replace url referring to file to be removed and replace it with new url for COPYING file.
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Tested on: 64-bit Ubuntu 15.10 w/ gcc 5.2.1
autotools serial
autotools parallel (MPICH 3.1.4)
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Complete revamp of package initialization/shutdown mechanism in the library.
Each package now has a single init/term routine.
This new way should avoid packages being re-initialized during library
shutdown and is also be _much_ more proactive about giving feedback for
resource leaks internal to the library.
Introduces a new "module" header file for packages in the library
(e.g src/H5Fmodule.h) which sets up some necessary package configuration macros
for the FUNC_ENTER/LEAVE macros. (The VFL drivers have their own slightly
modified version of this header, src/H5FDdrvr_module.h)
Also cleaned up a bunch of resources leaks all across the library and tests,
along with addressing many warnings, as I encountered them.
Tested on:
MacOSX/64 10.10.5 (amazon) w/serial & parallel
Linux/64 3.10.x (kituo) w/serial & parallel
Linux/64 2.6.x (ostrich) w/serial
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Clean up the H5A interface code, to better align with v3 metadata cache
changes.
Tested on:
MacOSX/64 10.10.3 (amazon) w/serial & parallel
Linux/32 2.6.x (jam) w/serial & parallel
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- allocate sieve buffer with calloc instead of malloc
tested with h5committest
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tested with h5committest.
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Check in Neil's changes for correctly handling case where library is
reinitialized through a deprecated routine.
Tested on:
Linux 2.4.x/32 (jam)
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Bring "merge committed datatypes during H5Ocopy" feature from branch to
trunk. (Also has some minor bugfixes with it)
Tested on:
Mac OSX/64 10.7.3 (amazon) w/debug
(h5committest coming up)
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Description:
H5Ocopy could get confused when copying a named datatype containing an
attribute which used that named datatype as its datatype. This happened
because H5Ocopy would recurse into the attribute's datatype before the object
the attribute was in was fully copied (i.e. before the "post-copy" pass).
Modified H5Ocopy to avoid recursing before the post-copy step in this case.
Required many changes, including to how non-committed shared messages are
copied.
Tested: jam, koala, heiwa (h5committest); durandal
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Trim trailing whitespace from source code files with this command:
find . \( -name "*.[ch]" -or -name "*.cpp" -or -name "*.f90" \) -print |xargs -n 1 sed -i "" 's/[[:blank:]]*$//'
Tested on:
None - eyeballed only
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Bring back various minor code cleanups from the file free space branch
Tested on:
FreeBSD/32 6.3 (duty) in debug mode
FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode
Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe,
in debug mode
Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x,
w/C++ & FORTRAN, in production mode
Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN,
w/szip filter, in production mode
Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN,
in production mode
Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode
Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
Mac OS X/32 10.5.8 (amazon) in debug mode
Mac OS X/32 10.5.8 (amazon) w/C++ & FORTRAN, w/threadsafe,
in production mode
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The flag "initialized" in
the attribute structure wan't set correctly. It caused some confusion in H5A_read. This
flag was actually redundant because the library can alwasy check if the data buffer is
present. To fix it, I removed the "initialized" flag in the attribute structure and let
H5A_read check the data buffer.
Tested on jam, smirom, and linex.
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Clean up compiler warnings
Tested on:
Mac OS X/32 10.5.6 (amazon)
(too minor to require h5committest)
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Clean up (i.e. remove) more internal calls to H5E_clear_stack(), along with
some other minor code cleanups.
Tested on:
Mac OS X/32 10.5.6 (amazon)
(too minor to require h5committest)
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through multiple
file handles.
Description:
An attribute's "oloc" field which specifies the file it resides in was located
in the attribute's "shared" structure. So when an attribute was opened multiple
times all of the handles for that attribute pointed to the same file id, even if
different file id's were used to open the different handles for the attribute.
The "oloc" has been moved to the top level H5A_t struct.
Tested: jam, smirom (h5committest)
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yesterday's dense
attribute object copy commit.
Tested: jam (gcc and pgcc)
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Description:
Attribute object copy routines have been moved from H5Oattr.c to H5Aint.c.
These routines are now shared between compact and densely stored attributes.
New routines written to support the copying of dense attributes. This patch wasmostly written by Peter Cao.
Tested: jam, smirom (h5committest)
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one of the handles,
the file didn't have the data. It happened because each handle had its own
object structure, and the empty one overwrote the data with fill value. This is
fixed by making some attribute information like the data be shared in the
attribute structure.
Tested on smirom, kagiso, and linew.
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Move H5Aget_num_attrs() into deprecated routines section, replacing all
internal usage with H5Oget_info().
Tested on:
FreeBSD/32 6.2 (duty) in debug mode
FreeBSD/64 6.2 (liberty) w/C++ & FORTRAN, in debug mode
Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe,
in debug mode
Linux/64-amd64 2.6 (smirom) w/default API=1.6.x, w/C++ & FORTRAN,
in production mode
Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN,
in production mode
Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN,
w/szip filter, in production mode
Mac OS X/32 10.4.10 (amazon) in debug mode
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Make H5Aiterate() versioned and change all internal use to H5Aiterate2()
Leave some regression tests that exercise H5Aiterate1()
Fix attribute display in h5dump & h5ls to be "by name" by default
Tested on:
FreeBSD/32 6.2 (duty) in debug mode
FreeBSD/64 6.2 (liberty) w/C++ & FORTRAN, in debug mode
Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe,
in debug mode
Linux/64 2.6 (smirom) w/default API=1.6.x, w/C++ & FORTRAN,
in production mode
Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN,
w/szip filter, in production mode
Mac OS X/32 10.4.10 (amazon) in debug mode
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Rename H5A_get_version() to H5A_set_version() and actually set the
attributes version in the routine.
Tested on:
Mac OS X/32 10.4.10 (amazon)
FreeBSD/32 6.2 (duty)
Linux/32 2.6 (chicago)
Linux/64 2.6 (chicago2)
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Fix bug where the version of an attribute would change after it was
created, causing the amount of space used to encode it to change.
Tested on:
Mac OS X/32 10.4.10 (amazon)
FreeBSD/32 6.2 (duty)
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Check in "unique, but sharable" optimization to ISOHM code, which
allows object header messages that are only used in one object to remain in
the sole user's header, but migrates messages that are used in more than one
header into the ISOHM heap.
Tested on:
Mac OS X/32 10.4.9 (amazon)
FreeBSD/32 6.2 (duty)
Linux/32 2.6 (chicago)
Linux/64 2.6 (chicago2)
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Avoid storing the # of attributes in the "attribute info" message
and regenerate it when the object is opened.
Tested on:
FreeBSD/32 6.2 (duty)
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Move attribute tracking information out of object header prefix and
make it into a message that is inserted only when attributes are present on
the object.
Tested on:
FreeBSD/32 6.2 (duty)
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The main purpose of this checkin was to eliminate the
space used for tracking creation time indices when there is no way they
can be used (i.e. attributes can't be shared in the file and the user hasn't
turned on attribute creation tracking), however there were some other minor
changes which crept in:
- Fix a cache locking deadlock when a shared attribute and one of its
components end up in the same fractal heap direct block.
(This is fixed the "slow" way for right now, until John has time
to add support for readers/writer locking to the cache.
- Optimize attribute copying when a copy will be kept during a v2 B-tree
search.
- When freeing a block on disk, attempt to merge it with the metadata
and "small data" aggregators.
Tested on:
Mac OS X/32 10.4.8 (amazon)
FreeBSD/32 6.2 (duty)
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Make H5O_protect/H5O_unprotect use pinned cache entries instead of
protected entries (allowing the object header routines to be semi-reentrant).
Tested on:
FreeBSD 6.2 (duty)
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Add H5Aopen(), H5Aopen_by_idx() and H5Acreate2() routines.
Tested on:
Mac OS X/32 10.4.8 (amazon)
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Finish H5Aiterate2()
Add H5Arename2() and mark H5Arename as deprecated.
Started on H5Oopen_by_idx().
Tested on:
Mac OS X/32 10.4.8 (amazon)
FreeBSD/32 6.2 (duty)
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Checkpoint progress on H5Aiterate2().
Mark H5Aiterate() as deprecated.
Various code cleanups.
Tested on:
Linux/32 2.6 (chicago)
Linux/64 2.6 (chicago2)
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Checkpoint "delete by index" code, which is partially finished.
Tested on:
FreeBSD/32 6.2 (duty)
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Add H5Aget_info_by_idx & H5Aget_name_by_idx routines, along with
refactoring underlying indices code to handle those sort of queries.
Simplify the link callback routines a bit.
Minor other cleanups.
Tested on:
Mac OS X/32 10.4.8 (amazon)
FreeBSD/32 6.2 (duty)
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Add more support for creation order index operations to attributes:
get deletions & compact<->dense storage transitions working.
Tested on:
FreeBSD/32 6.2 (duty)
Mac OS X/32 10.4.8 (amazon)
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copyright notice.
Tested platform:
Kagiso only since it is only a comment block change. If it works in one
machine, it should work in all, I hope. Still need to check the parallel
build on copper.
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Add support for inserting attributes into creation order index.
Also, update support for dense link & attribute storage in h5debug.
Tested on:
FreeBSD/32 6.2 (duty)
Mac OS X/32 10.4.8 (amazon)
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