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* Add maps implementation (based on a patch supplied by MohamadNeil Fortner2017-05-111-0/+3
| | | | Chaarawi). Add h5dsm_map.c example. Other minor fixes/cleanup.
* Fix bug in dataset create/open, Transaction terminate.Neil Fortner2016-11-161-0/+5
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* [svn-r29903] merge from trunk.Mohamad Chaarawi2016-05-091-69/+77
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| * [svn-r29350] Revert h5check_version change to check LT_VERS_XXXX numbers ↵Larry Knox2016-03-081-130/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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
| * [svn-r29326] HDFFV-9536: Changed H5check_version() to use libtool shared ↵Albert Cheng2016-03-071-0/+130
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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++).
| * [svn-r29182] Re-commit of HDFFV-8740 fix, which adds the ability to configureDana Robinson2016-02-221-1/+2
| | | | | | | | | | | | | | | | | | | | | | | | 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
| * [svn-r29084] Revert of:Dana Robinson2016-02-111-2/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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
| * [svn-r29041] Patch from Steffen Kiess that allows a relative path to be ↵Dana Robinson2016-02-041-1/+2
| | | | | | | | | | | | | | | | | | | | | | 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
| * [svn-r28996] Autotools configure updates to allow separation of build type, ↵Dana Robinson2016-01-271-64/+69
| | | | | | | | | | | | | | | | | | | | | | | | | | | | 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
| * [svn-r28777] Description:Quincey Koziol2016-01-031-0/+5
| | | | | | | | | | | | | | | | | | | | 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)
| * [svn-r28761] Description:Quincey Koziol2016-01-011-4/+1
| | | | | | | | | | | | | | | | | | | | | | | | 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)
* | [svn-r27972] merge from trunk.Mohamad Chaarawi2015-10-061-4/+8
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| * [svn-r27879] Move property list shutdown earlier in H5_term_library, since ↵Neil Fortner2015-09-251-4/+8
| | | | | | | | | | | | | | | | with VDS layout it needs to call into the H5D package. Tested: ummon
* | [svn-r27959] - merge from trunk (pre-VDS)Mohamad Chaarawi2015-10-051-1/+1
|\ \ | |/ | | | | - fix VOL initialization and Native plugin registration with new FAPL changes
| * [svn-r27834] Description:Quincey Koziol2015-09-211-1/+1
| | | | | | | | | | | | | | | | 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)
* | [svn-r27777] merge from trunk.Mohamad Chaarawi2015-09-141-16/+81
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| * [svn-r27768] Description:Quincey Koziol2015-09-141-8/+43
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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
| * [svn-r27601] Removed the H5TSprivate.h include from H5.c. It's not needed ↵Dana Robinson2015-08-271-1/+0
| | | | | | | | | | | | | | | | and causes problems on Windows. Tested on: jam, with and without --enable-threadsafe
| * [svn-r27587] Added a new API call (H5is_library_threadsafe) to the library. ↵Dana Robinson2015-08-261-9/+39
| | | | | | | | | | | | | | | | | | | | This call can be used to determine at runtime if the library was built with thread-safety. Fixes HDFFV-9496 Tested on: h5committest
* | [svn-r27455] merge from trunk.Mohamad Chaarawi2015-08-031-0/+3
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| * [svn-r27427] - free comm keyval after setting atribute on comm_selfMohamad Chaarawi2015-07-231-0/+3
| | | | | | | | | | | | - free allocated buffer in t_file_image test tested on jam with parallel.
* | [svn-r27208] merge from trunk.Mohamad Chaarawi2015-06-161-11/+15
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| * [svn-r27162] fix for HDFFV-9412:Mohamad Chaarawi2015-06-081-11/+15
| | | | | | | | | | | | | | - 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
* | [svn-r27141] merge from trunk.Mohamad Chaarawi2015-06-031-1/+1
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| * [svn-r27133] - Add a new attribute function characterstic for format:Mohamad Chaarawi2015-06-011-1/+1
| | | | | | | | | | | | | | | | * 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.
* | [svn-r26724] - merge from trunk & fix conflicts.Mohamad Chaarawi2015-04-031-22/+147
|\ \ | |/ | | | | | | - fix bug in opending an already open named datatype. - fix dynamically loaded VOL plugin support with new changes coming in.
| * [svn-r26392] Reinstates r26327-8, which had been reverted due to failures onDana Robinson2015-03-091-3/+86
| | | | | | | | | | | | | | | | | | | | | | | | | | | | 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)
| * [svn-r26331] Revert checking r 26327&8, which added new code and test that ↵Larry Knox2015-02-281-86/+3
| | | | | | | | | | | | fails on solaris and macs. Tested h5committest + emu and quail.
| * [svn-r26327] Added public API functions that expose the C library's memory ↵Dana Robinson2015-02-271-3/+86
| | | | | | | | | | | | | | | | | | | | | | | | 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)
| * [svn-r26279] re-commit 26260 that Dana moved out fixing the versioning of ↵Mohamad Chaarawi2015-02-231-19/+61
| | | | | | | | functions to work with v16 default API.
| * [svn-r26271] Reverse merge of r26260 which was causing daily test failures.Dana Robinson2015-02-221-61/+19
| | | | | | | | Tested on: jam w/ parallel and fortran
| * [svn-r26260] - add an attribute callback to call H5_term_library when ↵Mohamad Chaarawi2015-02-201-19/+61
| | | | | | | | | | | | | | | | | | MPI_COMM_SELF is destroyed. - add tests for above. - this is a fix for HDFFV-883. tested h5committest
* | [svn-r25521] major rework of the internal setup of VOL plugins to make it moreMohamad Chaarawi2014-08-081-1/+3
| | | | | | | | | | | | | | symmetrical to VFDs and allow new functionality to be implemented later. + some Bug fixes
* | [svn-r25456] fixing a few things and more realignment with trunk.Mohamad Chaarawi2014-07-211-2/+1
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* | [svn-r25275] merge from trunk.Mohamad Chaarawi2014-06-131-2/+6
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| * [svn-r25274] Adds #defines that ensures that DllMain is only compiled in ↵Dana Robinson2014-06-131-2/+6
| | | | | | | | | | | | | | | | when the thread-safe shared library is built on Windows. Fixes HDFFV-8837. Tested on 64-bit Windows 7 with VS2012.
* | [svn-r25254] merge from trunk.Mohamad Chaarawi2014-06-111-3/+70
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| * [svn-r24961] Updates to Win32 thread-local storage cleanup when the ↵Dana Robinson2014-04-041-3/+70
| | | | | | | | | | | | | | | | | | | | | | 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)
* | [svn-r24940] merge from trunk.Mohamad Chaarawi2014-04-011-0/+25
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| * [svn-r24937] Adds an H5free_memory() function to the library for use withDana Robinson2014-03-311-0/+25
| | | | | | | | | | | | | | | | | | | | | | | | 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)
* | [svn-r24301] merge from trunk.Mohamad Chaarawi2013-10-161-1/+1
|\ \ | |/ | | | | resolve conflicts, etc...
| * [svn-r24285] Eliminate several "passing argument ... with different width ↵Larry Knox2013-10-101-1/+1
| | | | | | | | | | | | due to prototype" warnings by casting constants to size_t where expected by string functions. Tested on jam, koala,ostrich and platypus with h5committest.
* | [svn-r23834] merge from trunk up to r23833.Mohamad Chaarawi2013-06-271-2/+2
|\ \ | |/ | | | | Fixed several conflicts, mostly because calling API routines internally was removed from several places in the trunk.
| * [svn-r23713] Description:Quincey Koziol2013-05-211-2/+2
| | | | | | | | | | | | | | | | | | | | 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)
* | [svn-r23694] merge from trunkMohamad Chaarawi2013-05-101-0/+1
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| * [svn-r23346] First commit for DESY project. It has the basic functionality ↵Raymond Lu2013-03-131-0/+1
| | | | | | | | | | | | of loading dynamically filter libraries and a simple test for it. Tested on koala.
* | [svn-r23443] merged from trunkMohamad Chaarawi2013-03-251-5/+5
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| * [svn-r23219] Description:Quincey Koziol2013-02-021-5/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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)
* | [svn-r22344] merge from trunkMohamad Chaarawi2012-05-071-1/+1
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| * [svn-r22324] Description:Quincey Koziol2012-04-291-1/+1
| | | | | | | | | | | | | | | | 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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