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* [svn-r27185] fix more instances where both mpi is_initialized and ↵Mohamad Chaarawi2015-06-101-7/+7
| | | | | | is_finalized need to be checked before making any MPI calls. tested with h5committest.
* [svn-r27133] - Add a new attribute function characterstic for format:Mohamad Chaarawi2015-06-012-6/+6
| | | | | | | | * 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-r27111] move undef of __attribute__ back to private and remove its ↵Mohamad Chaarawi2015-05-261-3/+3
| | | | usage from public routines.
* [svn-r26711] Recommitting revisions 26669 and 26670, removing VPATH and ↵Larry Knox2015-04-021-1/+0
| | | | | | | | redundant /usr/include and lib in fcompile and link flags checks, now that I have run reconfigure. Also changed paths to h5cc, etc. in scripts to run installed examples from relative paths to absolute paths. Tested with h5committest.
* [svn-r26660] HDFFV-9131: autotols reworkAllen Byrne2015-03-301-2/+0
| | | | | | | Remove CXX_CONDITIONAL remove unneeded/obsolete sections. h5commtitest
* [svn-r26649] squish warnings.Mohamad Chaarawi2015-03-301-3/+3
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* [svn-r26635] Description:Quincey Koziol2015-03-282-23/+2
| | | | | | | | | | | Bring r26651 from autotools_rework branch to trunk: Remove the VSNPRINTF_WORKS macro, it's working around bugs in old SGI & HP compilers. Tested on: Linux/32 2.6.18 (jam) w/serial & parallel (Daily tested on branch for 2+ days)
* [svn-r26594] Merge macros and fortran changes from dual_binary feature.Allen Byrne2015-03-251-2/+2
| | | | Tested: local linux
* [svn-r26509] Run reconfigure after merges from autotools_rework branch.Jerome Soumagne2015-03-201-2/+0
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* [svn-r26438] Fixed some double promotion warnings from gcc 4.9.2. Most were inDana Robinson2015-03-111-1/+1
| | | | | | format strings. Tested on: h5committest
* [svn-r26387] warning fixes from Feb27.Mohamad Chaarawi2015-03-061-4/+12
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* [svn-r26333] Eliminates gcc warnings due to -Wunsuffixed-float-constants.Dana Robinson2015-03-011-1/+1
| | | | | | | | | | | | - Adds 'F' suffixes for most float constants. - A few constants MUST be of type double. These now receive the long double L suffix and are then cast to double. I do this via a new H5_DOUBLE() macro which was added to H5private.h. Fixes: HDFFV-9148 Tested on: h5committest
* [svn-r26329] Merge of r26069, r26070, and r26072 from the ↵Dana Robinson2015-02-272-37/+0
| | | | | | | | | | | | | | | | | | features/autotools_rework branch. Removed the configure option that allows selective disabling of individual internal filters (fletcher32, shuffle, etc.). This feature mucked up the code with a lot of #ifdefs, saved very little space, and was not scalable to a general scheme for library size reduction. We've decided to remove the feature while we investigate a more general scheme for decreasing the library size. Part of: HDFFV-9086 Tested on: h5committest
* [svn-r26305] convert dump_dcpl to use switch statementAllen Byrne2015-02-251-241/+189
| | | | | | Add default case refactor out start ctx and end ctx Tested: local linux
* [svn-r26303] remove files with .clog2 extension generated by MPE when doing ↵Mohamad Chaarawi2015-02-251-2/+2
| | | | make clean.
* [svn-r26208] Update cmake minimumsAllen Byrne2015-02-181-1/+1
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* [svn-r26188] Merged autotools fixes into the trunk:Scot Breitenfeld2015-02-161-1/+2
| | | | HDFFV-9089, HDFFV-9091, HDFFV-9092, HDFFV-9094, HDFFV-9095
* [svn-r26180] merge configure fixes for HDFFV-9068,9069,9096,9097,9135 from ↵Mohamad Chaarawi2015-02-161-1/+0
| | | | | | | | | | | | autotools_rework branch: - Remove Infering parallel compilers (C and Fortran) from configure.ac - Remove restriction to build shared with parallel - Cleanup parallel sections in configure.ac - remove large file support checks - MPE fixes. tested with h5committest.
* [svn-r26040] HDFFV-9018: Install pdb files to bin folder with dlls.Allen Byrne2015-01-261-1/+1
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* [svn-r25955] Added Perform and io_timer back into build.Allen Byrne2015-01-051-1/+1
| | | | Tested: local linux cmake
* [svn-r25954] HDFFV-9046: reorganize hdf5/perform, step 2Albert Cheng2015-01-052-7/+13
| | | | | | | | | | | | | Last changes had caused problems with Windows platform: 1. H5private.h in io_timer.h is not accessible in the distributed shared library of tools. Need to move it to io_timer.c. 2. debug_start_stop_time() would not be available outside of h5perf. Some favor of compiler does not like it. Screened it out for now. 3. mere "extern" is not good enough for Windows shared library. Must mark them as DLL. Need to mark them as "H5TOOLS_DLL". 4. STANDALONE mode is broken. Screened out the code for now. Tested; h5committest.
* [svn-r25951] HDFFV-9054: disable io_timer in tools lib and perform ↵Allen Byrne2015-01-051-1/+1
| | | | sub-folder due to SHARED compile issues and other issues.
* [svn-r25946] Removed debug statments that use //.Albert Cheng2015-01-041-10/+0
| | | | Tested: env CFLAGS=-ansi buildhdf5 in jam and parallel platypus.
* [svn-r25940] HDFFV-9046: reorganize hdf5/perform, step 2Albert Cheng2015-01-015-3/+324
| | | | | | | | | | | | | | | | | | | | | | Move timing measurement routines used by h5perf and h5perf_serial to tools/lib so that they can be used by other tools too. tools/lib/io_timer.c tools/lib/io_timer.h tools/perform/io_timer.c tools/perform/io_timer.h renamed perform/io_timer.[ch] to lib/io_timer.[ch] tools/lib/Makefile.am tools/lib/Makefile.in tools/lib/CMakeLists.txt tools/perform/Makefile.in tools/perform/Makefile.am tools/perform/CMakeLists.txt MANIFEST updated due to the move. Tested; h5committest and jam (serial)
* [svn-r25755] Removed spurious casts in a few HDfree() statements.Dana Robinson2014-10-312-8/+8
| | | | | | | Discovered when I temporarily #defined HDfree() to a more complicated function while investigating something. Tested on a local linux VM. This is a very minor change.
* [svn-r25570] UNDO:Added option to build tools static when building shared ↵Allen Byrne2014-09-031-12/+1
| | | | | | | | libraries. This will prevent 'dll' being appended to the tool name on windows. See HDFFV-8292. Windows DLL linkage problem because of defines needed. Tested: local linux
* [svn-r25569] Added option to build tools static when building shared ↵Allen Byrne2014-09-031-1/+12
| | | | | | libraries. This will prevent 'dll' being appended to the tool name on windows. See HDFFV-8292. Tested: local linux
* [svn-r25531] remove use of C99 PRI that failed on windows in dtypes.cMohamad Chaarawi2014-08-111-4/+4
| | | | fix bugs where hid_t were assumed to be 32 bit ints or herr_t.
* [svn-r25496] Description:Quincey Koziol2014-07-303-26/+28
| | | | | | | | | Merge 64-bit ID changes from branch to trunk. (Plus a few minor cleanups that aren't on the branch) Tested on: Mac OSX/64 10.9.4 (amazon) w/C++ & FORTRAN (h5committested on branch already for a week)
* [svn-r25397] - remove configure checks for MPI_File_get_size and BigMohamad Chaarawi2014-07-071-1/+0
| | | | | MPI_File_set_size as they are supported by most MPI implementations. - fix bug in t_mpi.c (HDFFV-8856)
* [svn-r25215] Description:Quincey Koziol2014-05-251-130/+163
| | | | | | | | | | | | | | Bring changes from Coverity branch back to trunk: r20914: Use HDstrncpy and HDstrncat! --gh 20915: Use HDstrncpy and HDstrncat! --gh Tested on: Mac OSX/64 10.9.3 (amazon) w/gcc 4.9.0, C++, FORTRAN & parallel (too minor to require h5committest)
* [svn-r25197] Description:Quincey Koziol2014-05-171-3/+3
| | | | | | | | | | | | | | | | | | | | | | | | | | Bring changes from hdf5_1_8_coverity branch back to trunk: r20878: Issue 76: Check if H5Tget_nmembers(type) fails and simply return(FALSE). Also move printf to after check. r20880: Issue 192: Create ret_val var set to -1. Add out label for failures to jump to, return ret_val at bottom. r20882: Fixes for coverity: 1) bug #1679: remove dead code in test/mf.c 2) bug #1680: remove dead code in tools/lib/h5diff_dset.c r20883: Fix coverity issue 585 Description: Changed variable "c" in processStrData in h5import.c to an int, to match fgetc return value, and removed call to feof, instead checking if c == EOF. Tested on: MacOSX/64 10.9.3 (amazon) w/C++, FORTRAN & parallel (too minor to require h5committest)
* [svn-r25188] Implement change to cmake_ext_mod config folderAllen Byrne2014-05-141-1/+1
| | | | Tested: local linux
* [svn-r25185] update cmake command name caseAllen Byrne2014-05-121-15/+0
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* [svn-r25117] Removed LT_ADD_LIBHDF5_DEPENDENCY configure conditional to roll ↵Larry Knox2014-04-251-1/+0
| | | | | | | | | | | back fix for removing rpaths from l ib files. The fix also removed dependencies on libhdf5, etc. when the --disable-sharedlib-rpath co nfigure 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 with configure option --disable-sharedlib-rpath on emu, platypus and quail.
* [svn-r25081] Bug HDFFV-8625, HDFFV-8639, HDFFV-8745:Albert Cheng2014-04-221-7/+24
| | | | | | | | | | | | h5diff issues "unable to read attribute" error message when comparing two files Description: h5diff did not handle attributes of variable length strings correctly. It created the wrong memory type if one but not both compared attributes are of the variable strings type. It ended in H5Aread() failure. Solution: We decided to treat the case when one type is variable length string and the other is not as incomparable. That bypassed the above error. We still need to figure out the proper way, if possible, to compare variable string with non-variable string types. Tested: h5committested plus tested in Swallow (OS X 10.8).
* [svn-r24999] Bugfix: HDFFV-8639 Albert Cheng2014-04-091-3/+7
| | | | | | | | | | | h5diff segfaults with user's files Solution: Added a variable to indicate if real data are in the buffer and will call H5Dvlen_reclaim() only when real data are in the buffer. Tested: with the user provided data files and no more segmentaion fault. Also h5committ tested.
* [svn-r24937] Adds an H5free_memory() function to the library for use withDana Robinson2014-03-312-4/+4
| | | | | | | | | | | | 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-r24932] HDFFV-8290: Remove unnecessary $(srcdir) and use AM_CPPFLAGS ↵Allen Byrne2014-03-312-63/+438
| | | | | | instead of INCLUDES. Update automake to 1.14.1 h5committest
* [svn-r24895] Add INTERFACE properties to libsAllen Byrne2014-03-251-1/+4
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* [svn-r24864] Description:Quincey Koziol2014-03-212-53/+12
| | | | | | | | | | | | | | | | | | 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
* [svn-r24804] Description:Quincey Koziol2014-03-163-69/+47
| | | | | | | | | | | | | | | | | | | | | | | | 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. Tested on: Mac OSX/64 10.9.2 (amazon) w/C++, FORTRAN & parallel (too minor to require h5committest)
* [svn-r24789] Bump up the minimum cmake versionAllen Byrne2014-03-131-1/+1
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* [svn-r24781] HDFFV-8700 -Allen Byrne2014-03-111-19/+19
| | | | | | | KitWare recommendations: Change CMake commands to lower case. Remove INCLUDE_DIRECTORIES in src for target level includes. Change ADD_DEFINITIONS package debug defines into CMake option. Remove -DNDEBUG
* [svn-r24726] Description:Quincey Koziol2014-02-201-12/+24
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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-r24725] HDFFV-8629: h5repack will not attempt to remove UD filters. ↵Allen Byrne2014-02-201-144/+145
| | | | | | h5repack requires a check for UD filters that also must check if the filter can be dynamically loaded. This require a change in the library that checks for this. Tested: locally and reviewed
* [svn-r24682] Add IF SHARED block around Windows PDB file generation command.Allen Byrne2014-02-041-2/+3
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* [svn-r24480] Description:Quincey Koziol2013-11-302-49/+8
| | | | | | | | | | | Bring r24479 from 1.8 branch to trunk: Fix ph5diff worker command handling so it can correctly respond to situations where there's no work to perform. Also, a few minor code cleanups. Tested on: Mac OSX/64 10.9.0 (amazon) w/parallel (too minor to require h5committest)
* [svn-r24285] Eliminate several "passing argument ... with different width ↵Larry Knox2013-10-102-14/+14
| | | | | | 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-r24224] HDFFV-8529: Space separate define stringsAllen Byrne2013-09-303-8/+8
| | | | Tested: h5committest
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