| Commit message (Collapse) | Author | Age | Files | Lines |
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stats calls.
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H5T_NATIVE_INT, etc.
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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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routine.
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This reverts commit 0bd3634dc5747d88582a966050896bad57acb892.
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merge_func_enter_vol
Plus initial steps toward merging API context push into FUNC_ENTER_API* macros
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Modifications to fix the assertion/abort failure when the application does not close the file.
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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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rather than HDF5 library version numbers.
Svn revisions reverted: 29341, 29326
Branch features/h5check_version was created for further development.
Files changed
test/tcheck_version.c
test/testcheck_version.sh.in
src/H5public.h
src/H5.c
config/lt_vers.am
bin/h5vers
Tested with h5committest.new
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library version numbers instead of the library version numbers.
bin/h5vers:
Changed to copy the shared lib version from lt_vers.am to H5public.h
(Thanks to Larry who made the changes.)
config/lt_vers.am:
cosmetic change, nothing material.
src/H5public.h:
Changed by bin/h5vers.
src/H5.c:
Changed H5check_version() to use shared library version for compatibility
checking.
test/tcheck_version.c:
test/testcheck_version.sh.in:
Changed to use shared library version numbers instead of the HDF5 library
version numbers for testing.
Tested: tested in Jam (C only), platypus and osx1010dev (enable fortran and C++).
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external dataset storage path behavior.
This check-in fixes a bug in the original check-in where the
external path stored in the file struct was not copied on reopen
causing subsequent dataset operations to fail.
Tested on: 64-bit Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1
autotools serial w/ fortran and C++
autotools parallel (MPICH 3.1.4) w/ fortran
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r29069 and 72 (gheap cleanup)
r29041 and 43 (HDFFV-8740 external storage)
These cause problems in the daily tests. They will be
re-introduced when their respective problems have been
addressed.
Tested on: 64-bit Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1
autotools serial (check-vfd) w/ Fortran and C++
autotools parallel w/ Fortran
CMake serial
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specified
for external dataset files set via H5Pset_external().
Resolves HDFFV-8740
Tested on: 64-bit Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1
autotools serial
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debug
symbols, asserts, profiling, and optimization.
Also much refactoring, improved help, and --enable-<foo> options will
now emit errors on nonsense (e.g.: --enable-foo="asdfasdf").
The libhdf5.settings.in file was also reformatted.
Tested on: 64-bit Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1
serial and parallel autotools w/ various options
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Add --enable-memory-alloc-sanity-check option to configure, to track and
sanity check memory allocations within the library. This is orthogonal to the
--enable-using-memchecker option and can be used with/without it.
Tested on:
MacOSX/64 10.11.2 (amazon) w/serial & parallel
(h5committest forthcoming)
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Clean up many mismatches between malloc/free and H5MM_malloc/H5MM_xfree
in the library and tests (and use of H5free_memory and H5Dvlen_reclaim). Also
make H5Ocopy use a private version of H5Lexists, which doesn't internally
throw (and suppress) errors when an object (or the path to it) isn't found in
the destination.
Tested on:
MacOSX/64 10.11.2 (amazon) w/serial & parallel
(h5committest forthcoming)
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with VDS layout it
needs to call into the H5D package.
Tested: ummon
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Close FAPL for external link test, to fix infinite loop closing the library.
Tested on:
MacOSX/64 10.10.5 (amazon) w/serial
(too minor to require h5committest)
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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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and causes
problems on Windows.
Tested on: jam, with and without --enable-threadsafe
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This call can
be used to determine at runtime if the library was built with thread-safety.
Fixes HDFFV-9496
Tested on: h5committest
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- free allocated buffer in t_file_image test
tested on jam with parallel.
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- Check for mpi is_initialized and is_finalized before making MPI calls in init/terminate of HDF5.
- Add a test to make sure we can make serial HDF5 calls from rank 0 after MPI_Finalize is called.
tested with h5committest
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* H5_ATTR_FORMAT(X,Y,Z) __attribute__((format(X, Y, Z)))
- Rename UNUSED attribute characterstic to H5_ATTR_UNUSED.
- Rename NORETURN attribute characterstic to H5_ATTR_NORETURN
tested with h5committest.
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Solaris and OS X.
Added public API functions that expose the C library's memory allocator
for use in filter functions that need to allocate or resize buffers.
Intended for use with filter plugins, particularly on Windows, where C
runtime (CRT) issues can cause problems.
Fixes: HDFFV-9100
Tested on: h5committest + OS X (quail) + Solaris (emu)
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fails on solaris and macs.
Tested h5committest + emu and quail.
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allocator
for use in filter functions that need to allocate or resize buffers.
Intended for use with filter plugins, particularly on Windows, where
C runtime (CRT) issues can cause problems.
Fixes: HDFFV-9100
tested on: jam (minor, localized change)
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functions to work with v16 default API.
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Tested on: jam w/ parallel and fortran
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MPI_COMM_SELF is destroyed.
- add tests for above.
- this is a fix for HDFFV-883.
tested h5committest
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when the thread-safe shared library is built on Windows.
Fixes HDFFV-8837.
Tested on 64-bit Windows 7 with VS2012.
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thread-safe library is built on Windows. Previously, thread-local storage was not cleaned up, causing resource leaks.
Fixes HDFFV-8518, HDFFV-8699
As a part of these changes, the thread-safe + static library options are declared unsupported since the solution relies on DllMain. A solution for the static library is probably doable, but requires much more complicated surgery and has been deferred to HDF5 1.8.14.
Tested on:
64-bit Windows 7 using VS 2012 (changes only affect Windows)
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functions that return library-allocated memory. The test and tool
code were modified to use this new function where it's appropriate.
Fixes HDFFV-7710, HDFFV-8519, and HDFFV-8551
Tested on:
64-bit Windows 7 w/ VS2012
32-bit LE linux w/ parallel and fortran (jam)
32-bit LE linux w/ fortran and C++ (jam)
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due to prototype" warnings by casting constants to size_t where expected by string functions.
Tested on jam, koala,ostrich and platypus with h5committest.
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Clean up warnings, switch library code to use Standard C/POSIX wrapper
macros, remove internal calls to API routines, update checkapi and checkposix
scripts.
Tested on:
Mac OSX/64 10.8.3 (amazon) w/C++ & FORTRAN
Big-Endian Linux/64 (ostrich)
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of loading dynamically filter libraries and a simple test for it.
Tested on koala.
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Bring reviewed changes from Coverity branch back to trunk (QK & JK):
r20457:
Coverity issue 691: return of H5duo could be negative. Fixed by using
STDOUT_FILENO and redesign parse_command_line and main to cleanup file
allocations. The output_file var is null when using stdout. In cleanup do not
close output_file if NULL.
r20510:
Initialize ufid = -1 and predicate HDclose call on ufid != -1
r20511:
Purpose: Fix coverity issue 1715
Description: Free "file" and nested data on failure in H5FD_core_open.
r20512:
Initialize ifid = -1 and predicate HDclose call on ifid != -1
r20514:
Initialize h5fid = -1 and predicate HDclose call on h5fid != -1
r20516:
Added else branch to the if (ret_value < 0) check.
r20522:
Addressed coverity issues 930-933, 850, 836, 835, 1307. All minor
potential buffer overwrite bugs, or coverity errors. Fixed by replacing
strcpy and sprintf with strncpy and snprintf.
r20523:
fixed coverity issues 68, 1120, 1116i
r20524:
Check H5Z_SZIP->encoder_present < 1 assuming 0 represents absence.
r20601:
Purpose: Fix coverity issues 1703-1705
Description: Modified the cleanup code in test_free in accum.c to reset
allocated buffers to NULL after they are freed, and modified the error cleanup
code to check if these buffers are NULL before freeing them. Also fixed some
unrelated warnings in accum.c.
r20602:
Use HDsnprintf and HDstrncat
r20603:
Purpose: Fix coverity issues 808-809
Description: Modified test_core in vfd.c to check the returns from malloc, and
keep track of whether points and check are allocated by setting them to NULL
when they are not. Added code to free points and check on error if they are
not NULL. Also fixed unrelated warnings in vfd.c.
r20604:
Use HDstrncpy.
r20605:
Use HDstrncpy and HDstrncat.
r20606:
Purpose: Fix coverity issue 807
Description: Modified long_compact in stab.c to keep track of whether objname is
allocated by setting it to NULL when it is not. Added code to free objname on
error if it is not NULL.
r20607:
Changed string function calls to use versions that specify the string length
to fix coverity issues 832 and 839.
Tested on:
Mac OSX/64 10.8.2 (amazon)
(Too minor to require h5committest)
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Change name of MPE log file produced from "cpilog" (which was the name
used in the example code we were referencing) to "h5log".
Tested on:
None, too trivial, eyeballed only...
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Refactor function name macros and simplify the FUNC_ENTER macros, to clear
away the cruft and prepare for further cleanups.
Tested on:
Mac OSX/64 10.7.3 (amazon) w/debug, production & parallel
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