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* [svn-r25901] HDFFV-9046: reorganize hdf5/perform/ directory Albert Cheng2014-12-1929-15536/+0
| | | | | | Moved perform/ to tools/perform. Updated all the configure related files for the new location. Tested: h5committested plus tested in jam and kite.
* [svn-r25682] bring 25651 and 25659 from trunk.Mohamad Chaarawi2014-10-071-4/+14
| | | | | Fix for: HDFFV-8715 HDF5_PARAPREFIX is ignored in parallel dense attribute and performance tests.
* [svn-r25402] Bring 25397/8 from trunk:Mohamad Chaarawi2014-07-101-1/+0
| | | | | | | - remove configure checks for MPI_File_get_size and Big MPI_File_set_size as they are supported by MPIO implementations today. - fix bug in t_mpi.c (HDFFV-8856) tested with h5committest.
* [svn-r25225] Description:Quincey Koziol2014-05-291-0/+1
| | | | | | | | | | | | | | | | Bring r25215 from trunk to 1.8 branch: Bring changes from Coverity branch back to trunk: r20914: Use HDstrncpy and HDstrncat! --gh r20915: Use HDstrncpy and HDstrncat! --gh Tested on: MacOSX/64 10.9.3 (amazon) w/gcc 4.9, FORTRAN, C++, multi-threads & parallel (h5committested on the trunk)
* [svn-r25222] Merge cmake_ext_mod into 1.8Allen Byrne2014-05-271-1/+1
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* [svn-r25111] Changed Subeversion EOL and executable properties. No code changes.Dana Robinson2014-04-251-197/+197
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* [svn-r25106] Removed LT_ADD_LIBHDF5_DEPENDENCY configure conditional to roll ↵Larry Knox2014-04-251-1/+0
| | | | | | | | back fix for removing rpaths from lib files. The fix also removed dependencies on libhdf5, etc. when the --disable-sharedlib-rpath configure option was invoked. Added instead configure variable hardcode_into_lib=no. This removes rpath from lib files on Linux and solaris machines. Tested with h5committest on jam, koala, ostrich and platypus (cmake), and on emu and kite.
* [svn-r25017] Merge r24997 changes from trunk.Larry Knox2014-04-112-2/+2
| | | | | | | | | | | | | Added compiler versions for mpich to settings file and configure summary. For make installcheck, compile and run installed examples using the installed scripts. They were being compiled but not run. Add Fortran2003 examples to the run-ex-fortran script when fortran2003 is enabled. Set flag to -O3 in production mode for Intel compilers other than those with specified other settings. Gentoo patches: Remove unnecessary setting of LD_LIBRARY_PATH from configure. Prevent potential array subscript out of bounds error in perform/pio_engine.c and sio_engine.c. Tested with h5committest on jam, koala, ostrich and platypus.
* [svn-r24980] HDFFV-8290: Merge automake 1.14.1 changes from trunkAllen Byrne2014-04-072-74/+506
| | | | Tested: h5committest
* [svn-r24906] Merge latest CMake changes from trunk.Allen Byrne2014-03-262-72/+72
| | | | Tested: local linux
* [svn-r24878] Description:Quincey Koziol2014-03-249-1209/+193
| | | | | | | | | | | | | | | | | | | | | Bring r24864 from trunk to 1.8 branch: Remove all traces of MPI-POSIX VFD and GPFS detection/code. Remove remaining traces of stream VFD. Remove testpar/t_posix_compliant test (it's not actually verifying anything). Clean up H5D__mpio_opt_possible() further. Moved environment variable that disables MPI collective operations into MPI-IO VFD (instead of it being in src/H5S.c). A few other small code cleanups. Tested on: Mac OSX/64 10.9.2 (amazon) w/parallel & serial (daily tested on trunk)
* [svn-r24810] Description:Quincey Koziol2014-03-172-18/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r24803 & r24804 from trunk to 1.8 branch: r24804: Brought changes from Coverity branch back to trunk, and cleaned up misc. other warnings & formatting issues: r20833: Fixed Coverity 667 and 668 with real integer overflow tests this time. r20834: Use HDstrncpy and HDstrncat. --gh r20835: Change to use strncpy - use base_len + 1 for line 156, use HDstrlen(path) + 1 for line 159 r20836: Fixed coverity 585 by casting output of fgetc() to a char. r20837: Changed sprintf calls to snprintf with size 1 less than the allocated buffer to address coverity issue #967. r24803: Rename GCC_DIAG_OFF/ON macros to H5_GCC_DIAG_OFF/ON and move from src/H5private.h to src/H5public.h. Wrap typedef of hsize_t and hssize_t in DIAG_OFF(long-long) macros. Clean up a bunch of "macro '-' is unused" warnings. Tested on: Mac OSX/64 10.9.2 (amazon) w/C++, FORTRAN & parallel (too minor to require h5committest)
* [svn-r24732] Fix for reconfigure, which fails because ↵Larry Knox2014-02-221-0/+1
| | | | | | LT_ADD_LIBHDF5_DEPENDENCY is used in Makefiles but the declaration in configure.ac is missing. Copied declaration from trunk. Tested with h5committest on jam ostrich koala and platypus(cmake).
* [svn-r24728] Description:Quincey Koziol2014-02-212-2/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r24726 & r24727 from trunk to 1.8 branch: Description: Revert some earlier usage of strncpy, which was incorrect. Bring Coverity changes from branch back to trunk: r20821: Use HDstrncpy. --gh (Fixed already, with strdup) r20822: (Not merged, incorrect use of HDstrncpy()) r20823: (Not merged, incorrect use of HDstrncpy()) r20824: Maintenance: Bug fix: addressed CID 666. Value stored at *expression_len should be used in the call to HD5packFstring to avoid overflow (and unnecessary arithmetic calculation and casting) r20825: Issue 642: Added check for error and handler with print to stderr and exit. r20826: Undo revision 20818, as that issue has already been fixed in the 1.8 branch and trunk (but not coverity branch) r20827: (Not merged, incorrect use of HDstrncpy()) r20828: Use HDstrncpy. --gh (Corrected use of strncpy()) r20829: Check return of H5Lget_val(print_udata->fid, path, targbuf, linfo->u.val_size + 1, H5P_DEFAULT) and if error set trgbuf[0] to 0. Check if H5Lunpack_elink_val(targbuf, linfo->u.val_size, NULL, &filename, &objname) was successful and allow print. Otherwise filename and objname are not created. (init those to NULL) r20830: resolved coverity issues 939, 940, 941, 944, and 947. all were complaints about use of sprintf, and in all cases, the buffers used were large enough for all eventualities. Resolved issue by replacing calls to sprintf with calls to snprintf. r20831: Maintenance: Addressed CID 852 Replaced sprintf with snprintf r20832: Purpose: Fix valgrind issues with hl/examples/ex_image2 Description: Modified hl/examples/ex_image2 to free global "gbuf" before exit. Tested on: Mac OSX/64 10.9.1 (amaon) w/C++, FORTRAN & Threadsafety (too minor to require h5committest)
* [svn-r24072] Merge trunk cmake changes to 1.8 branch. Allen Byrne2013-08-262-61/+62
| | | | | | | Also add default switch blocks to h5import. Merge h5dump any_path option from trunk. Tested: local linux
* [svn-r24039] Purpose:Jonathan Kim2013-08-203-7/+80
| | | | | | | | Warning fixes (Jonathan and Peter) from coverity fix. merge from r23986 trunk. Tested: jam-pp (linux32-LE), koala (linux64-LE), ostrich (linuxppc64-BE)
* [svn-r24021] Description:Quincey Koziol2013-08-181-10/+10
| | | | | | | | | | Bring r24020 from trunk to 1.8 branch: Clean up compiler warnings Tested on: Mac OSX/64 10.8.4 (amazon) w/C++ & FORTRAN (too minor to require h5committest)
* [svn-r23869] HDFFV-8302: replace (v)snprintf with _(v)snprintf for windows. ↵Allen Byrne2013-07-082-77/+96
| | | | | | | | Merge from trunk along with other windows functions and HD prefix corrections. HDFFV-8394: Add cmake code to package examples Tested: local linux
* [svn-r23868] bring r 23862 from trunk:Mohamad Chaarawi2013-07-084-49/+49
| | | | | Change printfs in perform output and h5dump to prevent overflow. This fixes: https://jira.hdfgroup.uiuc.edu/browse/HDFFV-8450
* [svn-r23809] revert printf format changes to do a better solution.Mohamad Chaarawi2013-06-244-32/+32
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* [svn-r23808] merge 23801 from trunk.Mohamad Chaarawi2013-06-244-32/+32
| | | | | | | Change printfs in perform output for long long to use %lld instead of %Hd. The later is for shorts. This fixes: https://jira.hdfgroup.uiuc.edu/browse/HDFFV-8450 Tested on Jam.
* [svn-r23771] HDFFV-8434,-8437,-8445,-8447,-8461: Merge changes from Trunk.Allen Byrne2013-06-141-0/+10
| | | | Tested: local linux
* [svn-r23324] Snapshot version 1.8 release 11 (snap11)HDF Tester2013-03-041-1/+1
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* [svn-r23211] Merge trunk CMake changes for minimum cmake version of 2.8.10. ↵Allen Byrne2013-01-311-1/+1
| | | | | | This was prompted by HDFFV-8227, OS X requires latest version of cmake for proper support. Tested: local linux
* [svn-r22850] Bug fix: HDFFV-8156Albert Cheng2012-10-022-21/+13
| | | | | | | | | benchpar.c is compiled when configure --enable-build-all --enable-paralllel. But it failed to compile. It is decided to retire or move it to example. I removed it from the PARA_BUILD_ALL list so that --enable-build-all will not fail. The program file still need to be moved. Tested: Koala using --enable-build-all --enable-parallel.
* [svn-r22801] Updated for the removal of mpi-perf.c.Albert Cheng2012-09-221-15/+0
| | | | | | | Copied from the trunk version. Tested: Don't know how to test. assume if it works for trunk, it will work for v18.
* [svn-r22796] HDFFV-8110: Removed mpi-perf.c which was given with permission ↵Albert Cheng2012-09-213-387/+5
| | | | | | | | | | | | | | | | | | | | | to freely distribute by the author. It was an example program showing how to measure parallel IO speed. Since then, we have created h5perf to do I/O performanace measurement. This example is not needed any more. mpi-perf.c: Removed. Makefile.am: Makefile.in: Removed the entry of mpi-perf.c so that "configure --enable-build-all ..." will not build it. MANIFEST: Updated. The change is trivial that I got permission to skip the code review step. Tested: h5committest plus "--enable-parallel --enable-build-all" in koala.
* [svn-r22788] HDFFV-8153: Pull POSIX_C_SOURCE define out to separate ↵Allen Byrne2012-09-191-0/+5
| | | | | | variable. Use ADD_DEFINITIONS (${HDF5_EXTRA_C_FLAGS}) in non-fortran CMakeLists.txt folders Tested: local
* [svn-r22724] Convert tests to *.sh.in.Allen Byrne2012-08-281-15/+19
| | | | | | | | Convert configure.in to configure.ac. Align TESTS usage with autotools convention. Update all references from configure.in to configure.ac Tested: h5committest
* [svn-r22711] Updated autotools: autoconf 2.69, automake 1.12.3, m4 1.4.16, ↵Larry Knox2012-08-231-45/+98
| | | | | | libtool 2.4.2 Tested THG machines.
* [svn-r22451] Brought cmake configuration / configure changes from Trunk.Allen Byrne2012-06-112-24/+28
| | | | Tested jam, local linux
* [svn-r22148] Removed incorrect executable svn properties from text, source, ↵Dana Robinson2012-03-261-0/+0
| | | | in, and HDF5 files.
* [svn-r22013] HDFFV-7560:Allen Byrne2012-03-0211-104/+120
| | | | | | | | | | Merge 1.8 and h5dump/tools and tests based on tools library from trunk. Reduced warnings. HDFFV-7949: Remove duplicated functions in h5ls Tested: local linux,h5committest
* [svn-r21805] Update CMake Required version in all folders to match current ↵Allen Byrne2011-12-051-1/+1
| | | | standard 2.8.6
* [svn-r21717] Update cmake configurationAllen Byrne2011-11-041-0/+11
| | | | | | | Update cmake to generate source folders in VS Brought parallel changes from trunk Tested: local linux
* [svn-r21513] Add HDprefix and change when pio_timer.h is includedAllen Byrne2011-10-112-6/+6
| | | | Tested
* [svn-r21421] Merged the Fortran 2003 changes from the trunk into the 1.8 ↵Scot Breitenfeld2011-09-271-0/+3
| | | | | | | | | | | branch, used: svn merge -r 20506:21414 https://svn.hdfgroup.uiuc.edu/hdf5/trunk/fortran Tested: jam (gnu, intel, pgi compilers) Also merged effected non-Fortran files: svn merge -r21247:r21248 https://svn.hdfgroup.uiuc.edu/hdf5/trunk/src/libhdf5.settings.in
* [svn-r21376] JIRA-HDFFV-2748: Relplace WIN32 macros in source. New ↵Allen Byrne2011-09-125-204/+213
| | | | | | | | H5_HAVE_WIN32_API and H5_HAVE_VISUAL_STUDIO defines only need to be set on windows. Autotools configure is not affected. Trunk passed for a week and cmake branch has been in place > 3 weeks. Tested: local linux
* [svn-r21365] Related files to files from HDF5-33 review - all changes ran ↵Allen Byrne2011-09-063-57/+77
| | | | | | | | correctly in trunk. Changes have been tested in cmake branch. #ifdef around include <unistd.h> and <time.h> Tested: local linux
* [svn-r21363] files from HDF5-33 review - all changes ran correctly in trunk. ↵Allen Byrne2011-09-062-49/+55
| | | | | | Changes have been tested in cmake branch. Tested: local linux
* [svn-r21336] Synchronize cmake files with tested commits from trunkAllen Byrne2011-08-301-19/+23
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* [svn-r21044] Purpose:Mike McGreevy2011-06-281-1/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Fix HDFFV-7592 "Remove PACKEDBITS option from autotools files" Description: The code for h5dump's packed bits feature was conditionally compiled in via this option during its 'beta' release in 1.8.5. Now that the feature is fully supported, h5dump has since been changed to always compile the packed bits code (having removed the #ifdef H5_HAVE_H5DUMP_PACKED_BITS checks), so this option in configure is no longer needed. This commit removes the --enable-h5dump-packed-bits configure option, including the help summary from './configure --help' and the libhdf5.settings output summary, the PACKED_BITS Makefile variable, and the definition of H5_HAVE_H5DUMP_PACKED_BITS define in appropriate pubconf header files (which has already been removed from use in source code as of r20722). Note that this option was never added to the trunk, thus this commit only need occur on the 1.8 branch. Tested: - Configure output, help, & summary verified on jam - h5committested
* [svn-r20893] Description:Quincey Koziol2011-05-231-2/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r20885 from trunk to 1.8 branch: r20340: Address coverity issue 248. Set freed pointer to NULL if realloc fails, then check for NULL before attempting to close array of handles stored in memory addressed by pointer. r20341: Added initialization udata.path = NULL; udata.visited = NULL; to prevent unintialized use after done: label. Do C-style initialization AFTER all variable definitions. r20342: Fix valgrind error in H5DUMP-XML-tall.h5 r20343: Addressed Coverity issue 591 - check the return value of H5S_SELECT_ITER_RELEASE. r20344: Added initialization udata.path = NULL; to prevent uninitialized used after done: label r20347: Purpose: Fix memory leak in overhead.c Description: Fixed leak in test() in overhead.c where array "had" was never freed. r20348: Addressed Coverity issue 705 - added prototype for resize_configs_are_equal to cache_common.h. r20392: Purpose: Fix coverity issues 1677 and 1678 Description: Added return value checking for 4 funciton calls in H5tools_get_symlink_info(). r20394: Purpose: Fix coverity issues 1674 and 1675 Description: Modified H5Epush2() and H5E_printf_stack() to keep track of whether va_start() has been called, and to call va_end() at the end if so. r20395: Should be H5MM_calloc(count * sizeof(void*)). Fixed --gh r20396: Should be H5MM_calloc(count * sizeof(void*)). Fixed. --gh Tested on: Mac OSX/32 10.6.7 (amazon) w/debug & production (h5committested on branch)
* [svn-r20674] Eliminate memory buffer errors, Allen Byrne2011-04-282-160/+164
| | | | | | | overhead - add free to successful path. zip_perf - filename handling needed inits to NULL and free Tested: local linux
* [svn-r20671] Fixed file name handling with char pointer incorrectly causing ↵Jonathan Kim2011-04-281-4/+5
| | | | | | crash. (Reviewed by ADB)
* [svn-r20525] Description:Mike McGreevy2011-04-151-27/+52
| | | | | | | | Merge revisions 20475, 20502, and 20504 from trunk to 1.8 branch. Tested: Tested on jam, fred, bangan (CYGWIN), and h5committested.
* [svn-r20336] Remove unused windows defines. Add _CONSOLE to windows definitions.Allen Byrne2011-03-251-8/+0
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* [svn-r20314] Changed winsock.h guard to sync with trunkAllen Byrne2011-03-241-2/+2
| | | | Tested: windows
* [svn-r20313] Change incorrect use of "struct stat" to use "h5_stat_t". Allen Byrne2011-03-242-54/+64
| | | | | | | Also removed includes from top of file - they are included with proper config checks in h5private.h. Changed name of Windows only gettimeofday function to avoid a define loop according to VS2008 Tested: local linux, windows
* [svn-r20157] Bring CMake changes to branch up to r20156 from trunkAllen Byrne2011-02-251-11/+11
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