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* [svn-r25454] Description:Quincey Koziol2014-07-211-1/+0
| | | | | | | | | | | Bring change from trunk to 1.8 branch: r25450: Initial tweaks to align with VOL branch. Tested on: Mac OSX/64 10.9.3 (amazon) w/gcc 4.9 (h5committest not required, too small)
* [svn-r25404] add serial and parallel regression tests for zero dset ↵Mohamad Chaarawi2014-07-101-0/+76
| | | | | | read/write bug. (merged from trunk)
* [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-r25344] Add more vfd tests to smaller timeout limitsAllen Byrne2014-06-231-0/+3
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* [svn-r25311] Add max time for VFD objcopy testAllen Byrne2014-06-181-0/+1
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* [svn-r25263] limit vfd flush1 test timeAllen Byrne2014-06-111-0/+1
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* [svn-r25222] Merge cmake_ext_mod into 1.8Allen Byrne2014-05-272-8/+8
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* [svn-r25140] Commit Joel's fix to this branch.Albert Cheng2014-05-011-0/+262
| | | | | | | | | | | | | | | | | | | | | | | | | | Bug Fix: HDFFV-8247 Description: Failure to write fill values to the user's buffer when reading unallocated chunks from datasets that have a fill value set to H5D_FILL_VALUE_DEFAULT. A consequence of this was the reporting of spurious data values in h5dump and h5diff output. Solution: Added check for fill value of H5D_FILL_VALUE_DEFAULT whenever fill value setting was checked to decide whether or not to fill. This effectively treats H5D_FILL_VALUE_DEFAULT the same as H5D_FILL_VALUE_USER rather than H5D_FILL_VALUE_UNDEFINED. Tested: h5committest (platypus, ostrich, jam-pp, koala) ran successfully (fillval test was modified to reveal and check for this error) H5Dchunk.c: fix in library code. fillval.c: Added test_partalloc to expose potential fill value issues.
* [svn-r25111] Changed Subeversion EOL and executable properties. No code changes.Dana Robinson2014-04-251-1/+1
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* [svn-r25109] Description:Quincey Koziol2014-04-251-97/+102
| | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r25084, 25088, 25092, 25097 from trunk to 1.8 branch: r25084: Begin process of migrating from using property list IDs internally to the library to using the internal generic property list data structure. r25088: Introduce "file I/O info" struct, to hold file & dxpl pointers, and start propagating up through library. r25092: More migration to using H5F_io_info_t pointers and away from using property list IDs internally. Also, clean up some compiler warnings in the cache code. r25097: Make progress toward moving from DXPL IDs to property list structures within the library. Also move the signature location code from the H5F package to the H5FD package, where it's a better fit. Also, clean up some more compiler warnings along the way. Tested: Mac OSX/64 10.9.2 (amazon) w/C++, FORTRAN & parallel (h5committested on trunk)
* [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-r25050] Description:Quincey Koziol2014-04-163-3/+130
| | | | | | | | | | | | | | | Bring r24995 and r24998 from the trunk to the 1.8 branch: r24995: Improve checks for NULL buffer from user during H5Dread/H5Dwrite calls. r24998: Check in Neil's changes for correctly handling case where library is reinitialized through a deprecated routine. Tested on: Mac OSX/64 10.9.2 (amazon) w/serial & paralle (change has baked on trunk for >7 days)
* [svn-r25033] Purpose:Dana Robinson2014-04-124-50/+72
| | | | | | | | | | | | | | | | | | Merged r24993 from the trunk. Adds core VFD write tracking functionality. When enabled, the core VFD will track dirty regions of the file and only write out the changed regions. The new H5Pget/set_core_write_tracking() API call controls this feature. A new "core_paged" VFD target was added to the check-vfd target in test/Makefile.am that runs all tests with the new write tracking functionality. Tested on: 32-bit LE linux (jam) 64-bit LE linux (koala) 64-bit BE linux (ostrich) Each platform was tested with HDF5_DRIVER set to "core" and "core_paged". Jam was also tested with the standard sec2 driver.
* [svn-r25014] Purpose:Dana Robinson2014-04-116-34/+33
| | | | | | | | | | | | | | | | | Merge of r24937 from the trunk Adds H5free_memory to the API. This function should be used to free memory allocated by the library (e.g., returned values from H5Tget_tag, H5Pget_class_name, etc.). This is mainly to help Windows applications deal with multiple CRT instances, but can also be helpful when a debug memory manager is being used or when the HDF5 API is being wrapped for managed languages like Python and Java. Tested on: 32-bit LE linux (jam) with fortran and C++ 64-bit BE linux (ostrich) 64-bit LE linux (koala)
* [svn-r25013] Purpose:Dana Robinson2014-04-111-17/+19
| | | | | | | | Merge of r24416 from the trunk Fixes a number of compiler warnings in the dsets test. Tested on: 32-bit LE linux (jam) - very minor changes, mostly casts
* [svn-r24980] HDFFV-8290: Merge automake 1.14.1 changes from trunkAllen Byrne2014-04-073-116/+864
| | | | Tested: h5committest
* [svn-r24906] Merge latest CMake changes from trunk.Allen Byrne2014-03-262-193/+198
| | | | Tested: local linux
* [svn-r24894] Description:Quincey Koziol2014-03-256-30/+21
| | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r24869 & r24875 from trunk to 1.8 branch: Clean up more compiler warnings, plus merge a few Coverity bug fixes from the hdf5_1_8_coverity branch back to the trunk: r20877: Purpose: Fix coverity issue 1723 Description: Modified test_generate in hl/test_image to close file "f" before exit, even if an error occurs. r20879: Issue 63: change check of return of H5Tget_nmembers to <=0. No need to go futher if call fails as well as empty. r20881: Coverity #659 in Run 46: I changed the Line 442 where it tries to check whether FLAG_PRINTED is TRUE. But it had just been set to FALSE. I took out the condition check in the print statement. Tested on: Mac OSX/64 10.9.2 (amazon) w/C++, FORTRAN & Parallel (daily tested on trunk)
* [svn-r24878] Description:Quincey Koziol2014-03-243-7/+5
| | | | | | | | | | | | | | | | | | | | | 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 Koziol2014-03-1712-193/+166
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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 Koziol2014-02-211-3/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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-r24720] bring r24709 from trunk:Mohamad Chaarawi2014-02-185-29/+29
| | | | | | | rename H5V to H5VM since H5V is needed in the fastforward project for view objects. The addition of view objects in the fastforward project is expected to be brough into the trunk sometimes in the future, which is why we need to make this change.
* [svn-r24654] HDFFV-8640: Remove XLATE_UTILITYAllen Byrne2014-01-287-21/+2
| | | | Update tools testfiles
* [svn-r24653] HDFFV-8572: test/testhdf5.c main() should not return number of ↵Albert Cheng2014-01-271-1/+6
| | | | | | | | | errors Solution: testhdf5 now exits EXIT_SUCCESS(0) if no errors, else EXIT_FAILURE(1). Tested: Jam only since it is a trivial fix.
* [svn-r24506] Merge of r24358 from trunk. Makes the big test aware of the ↵Dana Robinson2013-12-061-149/+171
| | | | | | | | | | | | | | | HDF5_DRIVER environment variable. Fixes HDFFV-8554. Tested on: 32-bit LE linux (jam) 64-bit LE linux (koala) 64-bit BE linux (ostrich) 64-bit Windows 7 with VS 2010 On all platforms, the big test was run with the environment variable set to all supported VFDs.
* [svn-r24477] Description:Quincey Koziol2013-11-301-2/+4
| | | | | | | | | | | Bring r24476 from trunk to 1.8 branch: Remove duplicate "intent" flags from top & shared file structures, leaving them only in the shared file structure. Tested on: Mac OSX/64 10.9.0 (amazon) w/gcc 4.8, both parallel & serial (too minor to require h5committest)
* [svn-r24402] Issue 8528 - H5F_get_objects overfilled the list for object ↵Raymond Lu2013-11-041-1/+1
| | | | | | IDs. I fixed a typo. It caused the PGI compiler on jam to fail tfile.c test. Tested with h5committest.
* [svn-r24393] Cleanup testfiles from scripts. Update lists of files to be ↵Allen Byrne2013-11-015-5/+10
| | | | | | cleaned. CMake update to clean testfiles. Tested: local cmake, autotools
* [svn-r24391] Issue 8528 - H5F_get_objects overfilled the list for object ↵Raymond Lu2013-11-011-0/+130
| | | | | | IDs. I merged the fix the trunk. I put the safeguard in both H5F_get_objects and H5F_get_objects_cb to prevent overfill the list. I also added test cases in tfile.c. Tested with h5committest on jam, koala, ostrich, and platypus.
* [svn-r24329] Remove quotes in list addAllen Byrne2013-10-181-1/+1
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* [svn-r24315] Do not run big test on cygwinAllen Byrne2013-10-172-3/+9
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* [svn-r24231] Issue 1264: CYGWIN had long double rounding problem from ↵Raymond Lu2013-09-301-3/+3
| | | | | | | | unsigned long long. Allen confirmed the problem is gone. So I took out the macro CYGWIN_ULLONG_TO_LDOUBLE_ROUND_PROBLEM. It skipped the test related to this issue. Tested with h5committest.
* [svn-r24215] Bug fix: HDFFV-8271 Big.c error in address generated by random ↵Albert Cheng2013-09-281-2/+7
| | | | | | | | | | | | | | | | | | | | number. Description: There is a bug in the current big.c tests. In a nut-shell, the writing part randomly picks 50 locations and write 4KB from that location. Random location range is from byte 0 to end of dataset. There is the problem--if the random location is greater than (end of dataset - 4KB), then error. Solution: Adjust the random number to be at least 4KB less than the end of the dataset. That allows it write 4KB more from the generated starting position. Also put in a proper error message if unexpected switch values happened. Tested: h5comittest plus jam serial build and test.
* [svn-r24205] Merge HDFFV-8513/8522 from trunk (via cmake branch), h5repack ↵Allen Byrne2013-09-263-66/+70
| | | | | | | | UD plugins. Also warning session fixes. Tested: CMake local linux
* [svn-r24121] OpenVMS converted the value of zero in char or short to ↵Raymond Lu2013-09-101-0/+23
| | | | | | | | negative zero in long double. I made it warning instead of failure. Tested on jam and Boeing OpenVMS - simple change.
* [svn-r24112] Description:Quincey Koziol2013-09-062-35/+37
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r24101 & 24111 from trunk to 1.8 branch: r24101: ======= Description: Clean up warnings, enable new compiler warning flag(s) and bring back changes from Coverity branch: r20813: Remove the dead code as listed for coverity bug #1722. h5committested. r20814: Issue 69: Check return value and throw error if negative return. Also free datatype id on error r20815: Use HDstrncpy. --gh r20816: Replaced one last HDstrcat call with HDstrncat to resolve coverity issue 832. r20817: Use HDstrncpy and HDstrncat. --gh r20818: Purpose: Fix valgrind issues with h5jam Description: Modified h5jam to free strings strdup'd in parse_command_line before exit. Note that they may still not be freed in case of error, due to the widespread use of exit(). r20819: Issue 80: change loop to use int as loop index. r20820: Maintenance: Fixed the bug found by coverity CID 788 There were two problems with this function: 1) it tried to unnecessary free NULL pointer 2) it tried to allocate c_name buffer that is done by H5Pget_class_name r24111: ======= Description: Restrict GCC diagnostic pragmas to only gcc 4.6+ Tested on: Mac OSX 10.8.4 (amazon) w/gcc 4.8.1, C++ & FORTRAN (too minor to require h5committest)
* [svn-r24080] Since dtransform.c uses H5T_conv_i_f and H5T_conv_f_i, I added ↵Raymond Lu2013-08-281-0/+5
| | | | | | them back for OpenVMS. But I took out the test case in dtransform.c which has problem. See Jira issue VMS-8. Tested on jam.
* [svn-r24074] I took out the soft conversion functions H5T__conv_i_f and ↵Raymond Lu2013-08-261-0/+16
| | | | | | | | | H5T__conv_f_i for OpenVMS because they have problem to convert between integers and floating numbers. I also commented out the test case in dt_arith.c for OpenVMS. Tested on jam - simple change.
* [svn-r24072] Merge trunk cmake changes to 1.8 branch. Allen Byrne2013-08-262-528/+557
| | | | | | | Also add default switch blocks to h5import. Merge h5dump any_path option from trunk. Tested: local linux
* [svn-r24032] Description:Quincey Koziol2013-08-204-426/+426
| | | | | | | | | | Bring r24030 from trunk to 1.8 branch: Clean up more compiler warnings. Tested on: Mac OSX/64 10.8.4 (amazon) w/gcc, C++ & FORTRAN (too minor to require h5committest)
* [svn-r24021] Description:Quincey Koziol2013-08-187-587/+560
| | | | | | | | | | 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-r24012] Description:Quincey Koziol2013-08-151-0/+4
| | | | | | | | | | Bring r24011 from trunk to 1.8 branch: Clean up a few warnings Tested on: Mac OSX 10.8.4 (amazon) w/C++ & FORTRAN (too minor to require h5committest)
* [svn-r23771] HDFFV-8434,-8437,-8445,-8447,-8461: Merge changes from Trunk.Allen Byrne2013-06-141-0/+13
| | | | Tested: local linux
* [svn-r23719] Description:Quincey Koziol2013-05-291-1/+0
| | | | | | | | | | | | Bring r23713 and r23717 from trunk to 1.8 branch: 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-r23706] Merge Valgrind fix from trunk.Allen Byrne2013-05-151-0/+3
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* [svn-r23703] Issue 8380 - followup for previous checkin. I forgot to add ↵Raymond Lu2013-05-141-0/+256
| | | | | | test/unregister.c as a new test. No test is needed.
* [svn-r23702] Issue 8380 - H5Zunregister caused seg fault. This is a porting ↵Raymond Lu2013-05-143-7/+20
| | | | | | | | | of code from the trunk. It fixes the problem by first iterating through all opened datasets and groups to see if any of them uses the filter. If it finds one, the function fails with a message. Then the function flushes all opened files. Tested with h5committest.
* [svn-r23696] Description:Quincey Koziol2013-05-112-23/+8
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r23695 from trunk to 1.8 branch: Clean up warnings in H5Tconv.c (down to _only_ 9000 lines of output now!) Merge changes from Coverity branch back to trunk: r20684: Fix for coverity bug #1721 which was due to the fix for coverity bug #943. r20685: Use HDstrncpy. --gh r20761: Purpose: Fix valgrind issues Description: Free image_data and data as appropriate in test_image. r20762: Purpose: Fix coverity issue 600 Description: Add check for return value of H5O_close in H5Ocopy. Also cleaned up various warnings. r20763: Purpose: Fix valgrind issues with h5stat Description: Modified h5stat to free "iter" before exit, and free "hand" before exit if parse_command_line exits directly. r20764: fixed coverity issues: 69, 327, 614, 684, 685, 696, 697, 1681, 967, 826, 660, 80 r20765: Fixed coverity bug 668 Pulled x * y * z multiply out of malloc operand into a separate n_elements variable to quiet integer overflow warning. No actual integer overflow tests are performed since it's just a test program but I did add a check that n_elements is >= 1. I also changed an error condition from doing its own close and returning -1 to "goto out;" like the rest of the program. r20766: Fixed coverity bug 667 Pulled x * y * z multiply out of malloc operand into a separate n_elements variable to quiet integer overflow warning. No actual integer overflow tests are performed since it's just a test program. Tested on: Mac OSX/64 10.8.3 (amazon) w/C++ & FORTRAN (h5committest upcoming)
* [svn-r23551] I updated this branch from the 1.8 branch (not related to DESY ↵Raymond Lu2013-04-042-4/+4
|\ | | | | | | | | | | project) and a few changes for CMake and Windows from the trunk (related to DESY). Tested with desycommittest (emu, koala, jam, ostrich, and ostrich-no-shared-lib), but can't wait for duck to finish. It takes too long.
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