[svn-r19396] Description: Bring back various modifications to the v2 B-trees that were introduced in the revise_chunks branch but aren't dependent on any file format or API changes.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 (jam) w/PGI compilers, w/default API=1.8.x,
w/C++ & FORTRAN, w/threadsafe, in debug mode
Linux/64-amd64 2.6 (amani) w/Intel compilers, w/default API=1.6.x,
w/C++ & FORTRAN, in production mode
Solaris/32 2.10 (...
[svn-r19395] Purpose: Fixed bug 1903Description:
After a C++ API object is closed, its id should be reset regardless
of the reference count of the underlying HDF5 object. User reported
the bug for Group, but it's applicable to all other objects. Fixed.
Platforms tested:
Linux/32 2.6 (jam)
FreeBSD/64 6.3 (liberty)
SunOS 5.10 (linew)
[svn-r19392] Purpose: Additional fix for Bug 1821 - h5repack outputs compression information where it is not supposed toDescription:
Remove unnecessary lopping code, which only lowers performance.
Tested:
jam, amani, heiwa
[svn-r19389] Purpose: Fix for Bug1896 h5repack - changing layout to COMPACT does not workDescription:
Make h5repack be able to convert a layout to COMPACT for small size dataset as default. Also add verifying layout changes in our test script.
Tested:
jam, amani, heiwa
[svn-r19386] Purpose: Fix assertion failure caused by fractal heap header file pointerDescription:
The fractal heap header structure keeps a pointer to the file associated with
it. However, it is possible for that file pointer to be closed while the
header is still in cache (through the shared file pointer). Previously, the
header's file pointer was not updated and subsequently pointed to an invalid
file structure. Modified fractal heap code to update the file pointer every
t...
[svn-r19384] Description: Correct an error I convinced Mike to introduce with the phread_once() code, :-( along with another one that wasn't my fault. Also, clean up warnings and restructure code in the thread-safe code a bit.Tested on:
Mac OS X/32 10.6.4 (amazon) w/production + thread-safe
(not a configuration that h5committest tests)
[svn-r19374] [BZ1938] - VS2010 on windows requires stdint.h to compile C++ library. CMake will check if c++ compiler supports stdint.h and set the H5_HAVE_STDINT_H_CXX define.Tested: windows and local linux
[svn-r19369] Update MANIFEST for new m4 directory and macros. Directory and files are for reconfigure and therefore marked _DO_NOT_DISTRIBUTE_.Tested on jam.
[svn-r19367] Purpose: Add windows threads support to HDF5.
Description:
Added calls to the windows threads library to the H5TS layer, and wrapped
most calls to either pthreads or windows threads library with portable
H5TS-style defines. Modified tests to use portable function definitions
as well.
This can be configured via CMake with the HDF5_ENABLE_THREADSAFE
option, and should work o...
[svn-r19366] Updated autoconf to version 2.6.7, libtool to version 2.2.10, and m4 to version 1.4.14. Also added m4 directory for m4 macros according to autoconf suggestion.Tested with h5committest on amani, jam, and heiwa, and on linew.
[svn-r19364] Bug Fix: ID 2019Description:
The development (--disable-production) mode ran a long time, especially on the
testhdf5 (select) that exceeded the wall clock 10 minutes limits and was
terminated. It turned out the development had DEBUG_CFLAG set to "-g -xildoff".\
The -xildoff was added back when h5detect had errors when -g only was used. But
that bug does not exist any more since when only -g is used to build, h...
[svn-r19363] When mandatory filter failed to write data chunks, the dataset couldn't close (bug 1260). The fix releases all resources and closes the dataset but returns a failure.Tested with h5committest - jam, heiwa, amani.
[svn-r19360] Bug fix: ID 2026Description:
testhdf5/select runs very slow when in --disable-production mode using
pgcc compiler. This was caused by the -Mchkfpstk compiler switch added
to the DEBUG_FLAGS in config/pgi-flags file.
Solution:
Removed -Mchkfpstk from both pgi-flags and pgi-fflags.
See Bug 2026 for dettails.
Tested: (no h5committest test since they don't use PGI compilers.)
Jam (linux32): using pgcc/pgf90/pgC...
[svn-r19354] Quincey and I made H5Eset_current_stack also close the stack to be set. This is to avoid H5Eclose_stack clearing the default stack. Please see bug 1799.Tested on jam - simple change.
[svn-r19352] Description: Align w/changes on revise_chunks branchTested on:
Mac OS X/32 10.6.4 (amazon) w/debug & production
(too minor to require h5committest)
[svn-r19343] Corrected long long printf test. Added CMake commands to allow the install of the extlibs on windows. Updated ctest warning exception regex for VS2010Tested: windows
[svn-r19328] Description: Add some extra range checking for invalid chunk sizes. Tweak default chunk sizes to be zero, so that it's more likely that
application developers will be forced to set them correctly.
Add a few tests to verify these checks.
Tested on:
Mac OS X/32 10.6.4 (amazon) w/debug & production
(too minor to require h5committest)
[svn-r19325] Added parallel build commands. Corrected use/name of source folder aliases. Duplicated FindMPI.cmake so that non-c++ compiler is found first (recommemded commands did not work).Tested: local linux with mpich
[svn-r19313] Description: Clean up a few compiler warnings and style issues in/near recent changes.Tested on:
Mac OS X/32 10.6.4 (amazon) w/debug & production
(too minor to require h5committest)
[svn-r19312] Description: Bump optimization down for Intel 10.* compilers, due to apparent bad cod e generation.Tested on:
Linux/64 2.6 (cobalt) w/debug & production & Intel 11.1 compilers
(h5committest not appropriate)
[svn-r19309] Description: Bring revisions from Coverity branch back to trunk:r19191:
Fix coverity items 104 and 105. Added calls to H5HF_sect_indirect_free to
H5HF_sect_indirect_reduce and H5HF_sect_indirect_reduce_row if there is an errorbefore "peer_sect" is linked into the main free space structure via its direct
sections. Also delayed call to H5HF_sect_indirect_first to prevent peer_sect
from being left in an inconsistent state.
r19268:
Added fix to disallow exte...
[svn-r19304] bug 1678: temporary fix.Description: aix -q32 default to a memory limit that some HDF5 tests would
fail in malloc.
Solution:
Temporary hardset
RUNSERIAL=${RUNSERIAL="env LDR_CNTRL=MAXDATA=0x20000000@DSA"}
to bypass this problem until the test programs are fixed. Though -q64 binary
has a higher default memory limit and does not need this patch, it is applied
the same for the sake of simplicity since it is a temporary...
[svn-r19297] Description: Whack a few more memory errors exposed by valgrind. Make the debugging dump output a little bit prettier.
Tested on:
Mac OS X/32 10.6.4 (amazon) w/debug
(h5committest forthcoming)
[svn-r19293] bug 1678: temporary fix.Description: aix -q32 default to a memory limit that some HDF5 tests would
fail in malloc.
Solution:
Temporary hardset
RUNSERIAL=${RUNSERIAL="env LDR_CNTRL=MAXDATA=0x20000000@DSA"}
to bypass this problem until the test programs are fixed. Though -q64 binary
has a higher default memory limit and does not need this patch, it is applied
the same for the sake of simplicity since it is a temporary...
[svn-r19292] Description: Merge r19290 & r19291 from 1.8 branch to trunk:r19290:
Correct another error in metadata accumulator dirty region calculations
(this time with a corner case when freeing data in the file).
r19291:
Avoid getting object information for soft/external links if we aren't
going to traverse across the link itself.
Tested on:
FreeBSD/32 6.3 (duty) in debug mode
FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode
Linux/...
[svn-r19288] Bug 1934 - I added support of all data types for H5Tget_order. I added a new byte order H5T_ORDER_MIXED specifically for compound types and its derived types. They report mixed orders if they have members of different orders.There is no change to configure.in, config, and Makefile.am in the top directory. They have
some property changes when I merged the code from 1.8.
Tested on jam. I tested the same change for 1.8 with h5committest.
[svn-r19272] Description: Close out various resource leaks and usages of uninitialized memory that were flagged by valgrind. [There's still some more valgrind warnings, but it's better now... :-/ ] Also clean up warnings and code formatting.
Tested on:
Mac OS X/32 10.6.4 (amazon) w/debug & valgrind
(h5committest forthcoming)
Quincey Koziol
Binh-Minh Ribler
Jonathan Kim
Neil Fortner
Allen Byrne
Larry Knox
Mike McGreevy
Albert Cheng
Raymond Lu