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* [svn-r22277] Purpose:Jonathan Kim2012-04-111-0/+1
| | | | | | | | | | | | Fix for HDFFV-7993 - h5repack fails with error "chunk size must be <= maximum dimension size for fixed-sized dimensions" Description: Fixed a failure when change the chunk size of a specified chunked dataset with unlimited max dims. Also took care of converting to contiguous and compact from the dataset. Test cases were added and tagged with jira#. Tested: jam (linux32-LE), koala (linux64-LE), ostrich (linuxppc64-BE), tejeda (mac32-LE), linew (solaris-BE), Windows (32-LE cmake), Cmake (jam)
* [svn-r22219] Description:Quincey Koziol2012-03-311-21/+26
| | | | | | | | Merge "file image" changes from feature branch back to trunk. Tested on: Mac OSX/64 10.7.3 (amazon) w/debug (h5committest upcoming)
* [svn-r22176] Purpose:Jonathan Kim2012-03-281-0/+2
| | | | | | | | | | | | Fix for HDFFV-7644 GMQS: h5diff - incorrect behaviors when comparing HDF5 files with different type of objects (dataset, group, type) as common objects Description: Fixed failure for comparing same named object with different object types in comparing groups. (common object comparison) Prior to the fix, h5diff resulted in error. After the fix, h5diff detects such case as non-comparable and display messages accordingly. Test cases were added and tagged with jira#. Tested: jam (linux32-LE), koala (linux64-LE), ostrich (linuxppc64-BE), tejeda (mac32-LE), linew (solaris-BE), Windows (32-LE cmake), Cmake (jam)
* [svn-r22114] Purpose:Jonathan Kim2012-03-211-0/+5
| | | | | | | | | | | | | | | Fix for HDFFV-7837 - h5diff: incorrect behavior with exclude-path option when unique object exist only in one file Description: If unique objects exists only in one file and try to exclude the unique objects with --exclude-path option, h5diff missed excluding some objects. Fixed to exclude objects correctly in such case. Test cases were added and tagged with jira#. Tested: jam (linux32-LE), koala (linux64-LE), ostrich (linuxppc64-BE), tejeda (mac32-LE), linew (solaris-BE), Windows (32-LE cmake), Cmake (jam)
* [svn-r22090] Reorder tools/h5jam/testfiles orderingAllen Byrne2012-03-191-3/+3
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* [svn-r22075] Add test for multiple files with h5ls and h5dump.Allen Byrne2012-03-151-0/+1
| | | | Tested: local linux
* [svn-r22068] HDFFV-7876: wildcard filenamesAllen Byrne2012-03-141-0/+3
| | | | | | The test scripts for cmake, on windows, and the h5ls shell script do not work properly. Tested: h5committest
* [svn-r22038] Purpose:Jonathan Kim2012-03-091-0/+4
| | | | | | | | | | | | | | Fix for HDFFV-7835 h5diff: incorrect result for comparing the two same type symlinks as dangling links. Description: When two symbolic dangling links are compared with --follow-symlinks option, the result should be same. It works for comparing two files, but didn't work for comparing two objects. Test cases were added and tagged with jira#. Tested: jam (linux32-LE), koala (linux64-LE), ostrich (linuxppc64-BE), tejeda (mac32-LE), linew (solaris-BE), Windows (32-LE cmake), Cmake (jam)
* [svn-r22028] add new test fileAllen Byrne2012-03-051-0/+1
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* [svn-r21992] Remove old testfileAllen Byrne2012-02-271-1/+0
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* [svn-r21953] HDDFV-7560: h5dump refactoringAllen Byrne2012-02-171-0/+8
| | | | Tested: local linux
* [svn-r21931] HDFFV-7689 - could not not use a "[" character in a dataset name.Allen Byrne2012-02-131-0/+2
| | | | | | A second problem also discovered was an if statement that should have comapered lengths of a string actually was comapring addreeses. Once thatt was fixed, The "[" character could be used but broke other functionality. Consultation with tools team resulted in the creation of a "--no-subset" option to disable interpretation of "[" character as a subsetting compact-form. This also eliminated and cleaned up the code containing the plomatic if statement. Tested: local linux and added test, CMake updated autotools test to be added next.
* [svn-r21890] Purpose:Jonathan Kim2012-01-241-0/+1
| | | | | | | | | | | | | | | | | Fix for HDFFV-7836 h5diff: displays error stack message for comparing the two dangling symlink with follow-symlinks option Description: While ago, to improve performance, skipping same object checking (h5tools_is_obj_same()) was added. However the checking function doesn't understand about the dangling link and caused the issue. Since handling dangling link code section already implemented, move the checking function after handling dangling-links to address the problem. Test was added and tagged with jira#. Tested: jam (linux32-LE), koala (linux64-LE), ostrich (linuxppc64-BE), tejeda (mac32-LE), linew (solaris-BE), Windows (32-LE cmake), Cmake (jam)
* [svn-r21865] Purpose:Jonathan Kim2012-01-051-0/+2
| | | | | | | | | | | | | Fix for HDFFV-7838 h5ls: segfault for handling region reference in attribute with -v option Description: Segfault occurred when h5ls access region reference data in an attribute. This didn't occurred when -v option was used. The cause was "h5tool_format_t info;" struct variable members were accessed without proper values were assigned (was NULL), so printf failed later in the code. Tested: jam (linux32-LE), koala (linux64-LE), heiwa (linuxppc64-BE), tejeda (mac32-LE), linew (solaris-BE), cmake-Windows (32-LE)
* [svn-r21856] Remove cdash variables for use with CTestScript.cmake processing.Allen Byrne2011-12-301-1/+0
| | | | Tested: windows
* [svn-r21847] CTestScript generalized and not needed inside project.Allen Byrne2011-12-221-1/+0
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* [svn-r21840] Created CTestScript.cmake to better control the cmake ↵Allen Byrne2011-12-211-0/+1
| | | | | | processing of configuration, compile, test, and packing. Tested: local linux
* [svn-r21814] HDFFV-2567 - added test for be generated files with at least 9 ↵Allen Byrne2011-12-051-0/+2
| | | | | | attributes at root Tested: local linux
* [svn-r21787] Unify CMake config macros, split base macros from ext lib macrosAllen Byrne2011-12-011-0/+1
| | | | Tested: local linux
* [svn-r21710] CMake FindMPI module changed to look for fortran libs. Cmake ↵Allen Byrne2011-11-031-0/+1
| | | | | | | | files updated to link with fortran mpi libs. Updated cacheinit.cmake to set num of procs to 3 for hdf testing. Tested: local linux and on windows 7
* [svn-r21702] remove obsolete cmake config module - exists in cmake 2.8.6Allen Byrne2011-11-021-1/+0
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* [svn-r21397] Fix mis-spell non_comparables#.h5. It's from previous checkin ↵Jonathan Kim2011-09-161-2/+2
| | | | for HDFFV-7693. (r21396)
* [svn-r21396] Purpose:Jonathan Kim2011-09-161-0/+5
| | | | | | | | | | | | | | | | | | | | HDFFV-7693 - h5diff produces different behavior between versions: 1.8.3 and 1.8.6 Description: There were two issues on this. One was not displaying all the comparable objects if non-comparable object/attribute exist and compared before comparables ones. This issue occurred after 1.8.4 release. This is the issue from user. The other issue was not displaying all the comparable attributes, if non-comparable object/attribute exist and compared ahead. This issue were exist even before 1.8.4 release. So it's possible some attribute comparison may have not displayed correctly in the past, if non-comparable data were exist in common object. Fixed h5diff to display all the comparable object and attribute regardless of non-comparables. Tested: jam (linux32-LE), koala (linux64-LE), heiwa (linuxppc64-BE), tejeda (mac32-LE), linew (solaris-BE), Cmake (jam, Windows)
* [svn-r21358] Purpose:Jonathan Kim2011-09-021-0/+3
| | | | | | | | | | | HDFFV-7712 - h5diff: segfault over combinations of complex container types (compound, array, vlen) Description: - Fixed segfault over dataset with container types (array,lven) with multiple nested compound types. (ex: compound->array->compound, compound->vlen->compound) Tested: jam (linux32-LE), koala (linux64-LE), heiwa (linuxppc64-BE), tejeda (mac32-LE), linew (solaris-BE), Cmake (jam)
* [svn-r21248] Mereged the F2003 branch into the trunk.Scot Breitenfeld2011-08-181-0/+112
| | | | | | | | | Items merged: fortran directory, src/libhdf5.settings.in configure.in configure MANIFEST Tested: (all platforms used by daily tests, both with --enable-fortran and --enable-fortran2003)
* [svn-r21237] Description:Jonathan Kim2011-08-161-0/+2
| | | | | | | | Add test cases for HDFFV-7656 - "--delta=something" considers two NaN of the same type are different. The fix was added (r21105) before but test cases were incorrectly added and missing for cmake script. Tested: jam (linux32-LE), koala (linux64-LE), heiwa (linuxppc64-BE), tejeda (mac32-LE), linew (solaris-BE), cmake
* [svn-r21236] Purpose:Jonathan Kim2011-08-161-0/+1
| | | | | | | | | | | | | | | | | | | | Work for: HDFFV-7515 - GMQS: h5unjam - incorrect help page and should display when no file is given. and HDFFV-5941 - h5jam: specifying a user block file with a proper HDF5 magic number will result in a corrupted HDF5 file. Description: - Revised command help pages of h5jam and h5unjam. The descriptions were not up to date and some were missing. (HDFFV-7515) - Fixed h5jam not to allow specifying an HDF5 formatted file as input file for -u (user block file) option, because the original HDF5 file will not be accessible if allows. (HDFFV-5941) Tested: jam (linux32-LE), koala (linux64-LE), heiwa (linuxppc64-BE), tejeda (mac32-LE), linew (solaris-BE), Cmake (jam, Wondows)
* [svn-r21208] Add fortran COMPILE_FLAGSAllen Byrne2011-08-101-0/+1
| | | | | remove benchpar and mpi-perf tests add new prunTest.cmake that will be modified for parallel tests
* [svn-r21194] Add parallel version of windows def file for fortran exportsAllen Byrne2011-08-081-0/+1
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* [svn-r21133] Description:Quincey Koziol2011-07-201-0/+2
| | | | | | | | | | | | | | | | | More code cleanups to reduce coupling between packages that use the H5F internal routines, but really aren't part of the H5F "package". Tested on: FreeBSD/32 8.2 (loyalty) w/gcc4.6, w/C++ & FORTRAN, in debug mode FreeBSD/64 8.2 (freedom) w/gcc4.6, w/C++ & FORTRAN, in debug mode Linux/32 2.6 (jam) w/PGI compilers, w/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (koala) w/Intel compilers, w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, w/threadsafe, in production mode Linux/PPC 2.6 (heiwa) w/C++ & FORTRAN, w/threadsafe, in debug mode Mac OS X/32 10.6.8 (amazon) in debug mode
* [svn-r21110] Renamed test file to more descriptive nameAllen Byrne2011-07-181-2/+2
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* [svn-r21101] HDFFV-7639Mike McGreevy2011-07-141-1/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Purpose: Remove H5_MPI_SPECIAL_COLLECTIVE_IO_WORKS and H5_MPI_COMPLEX_DERIVED_DATATYPE_WORKS #defines from source. Description: Two advanced parallel functionalities, special collective IO and complex derived datatypes, are not supported by older implementations of mpi, and thus our code limits the use of these features with #ifdefs and has checks in configure to set them (or not). Unfortunately, configure can't actually run a parallel check to see if these features are working (nor not) so it resorts to looking in the config files where they are explicity enabled or disabled based on versions of mpi, sytems being built on, or for no documented reason at all (i.e. just set to on or off as some 'default'). Overriding these settings is easy if need be, provided it is known that it needs to be done to get improved performance, and oftentimes it is not. Most new MPI implementations successfully handle the functionality requested when these #defines are set, and many of the "turn these features off" cases in the config files are for old (> 5 years) versions of MPI and retired systems (such as NCSA's tungsten). Therefore, the decision has been made to remove the support for these old versions of MPI and systems that cannot handle these behaviors. The #ifdefs and supporting setup in the config/ files and configure script has been removed, and the code executed when these options were not set removed from the source. In passing, this commit also cleans up some whitespace issues in both t_mpi.c and H5Dmpio.c. Furthermore, in t_mpi.c, the special collective IO test was not getting regularly run due to it being written to work only with four processes (we regularly test with six, previously with three), and thus it failed when actually run due to an out of bounds data buffer assignment. It has been modified to run at any number of processes greater than four, and the memory problem has been fixed so the test passes. Tested: jam, h5committest, ember
* [svn-r21072] Purpose:Jonathan Kim2011-07-071-0/+7
| | | | | | | | | | | | Work for HDFFV-7600 - GMQS: h5diff - argument options -d, -p and --use-system-epsilon should be mutually exclusive. Description: Fixed h5diff to display instructive error message and exit with 1 when mutually exclusive options (-d, -p and --use-system-epsilon) are used together. Tested: jam (linux32-LE), koala (linux64-LE), heiwa (linuxppc64-BE), tejeda (mac32-LE), linew (solaris-BE), Cmake (jam)
* [svn-r21015] Bug fix for Issue 2598 - In v1.6 library, there was EOA for the ↵Raymond Lu2011-06-221-0/+2
| | | | | | | | | | | | | whole MULTI file saved in the super block. We took it out in v1.8 library because it's meaningless for the MULTI file. v1.8 library saves the EOA for the metadata file, instead. But this caused some backward compatibility problem. v1.8 library couldn't open the file created with v1.6 library. I fixed the problem by checking the EOA value to detect the file created with v1.6 library. Tested on jam, koala, and heiwa.
* [svn-r21006] Description:Scot Breitenfeld2011-06-211-0/+1
| | | | | | Added Fortran example for HL DS APIs. Tested: jam (intel)
* [svn-r20959] Description: Added fortran wrappers and test for the HL DS API.Scot Breitenfeld2011-06-101-0/+3
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* [svn-r20929] Issue 4278 - When reading data fails, the error message should ↵Raymond Lu2011-06-031-0/+1
| | | | | | say which filter isn't registered. The fix is simple. Most of the effort is on the test. The file with filter enabled is created in gen_filter.c. The verification of the error message is in test_error.c. The output is compared against the standard output. Tested on jam, koala, and heiwa.
* [svn-r20856] Remove vms_data.hr reference from CMakeLists.txt and update ↵Allen Byrne2011-05-181-1/+0
| | | | MANIFEST
* [svn-r20808] Add Using_CMake.txt file to docs and installAllen Byrne2011-05-131-0/+1
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* [svn-r20796] Refactor print_data_region_blocks/ponts to remove context ↵Allen Byrne2011-05-111-1/+4
| | | | | | | | passed in by value. The print functions needed an independent context with only the current indent level passed in by argument. Also synched the two routines logical flows and corrected a mem_space error. h5dump (and h5stat, h5jam/h5unjam) help option not tested. Added h5dump parse_command_line technique for h5stat and h5jam/unjam and created testfiles. Tested: local linux
* [svn-r20771] Problem:Albert Cheng2011-05-071-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | Test scripts sometimes need to filter some system-specific messages from the actual output so that it can match the correct expected output. These filtering functions, ususally called "STDOUT_FILTER()" and "STDERR_FILTER()" were being repeated in individual test scripts. This becomes a maintenance problem and is error prone. Solution: Extract the two filter functions code to bin/output_filter.sh and then each test script sources it in. This allows reuse of coding and is much easier to maintain and to add new filtering. Tested: LLNL Zeus (linux64 cluster) and Dawndev (Blue-Gene cluster), both for serial mode only. --This line, and those below, will be ignored-- M tools/misc/testh5mkgrp.sh M tools/h5dump/testh5dump.sh.in M tools/h5diff/testh5diff.sh M tools/h5copy/testh5copy.sh M tools/h5ls/testh5ls.sh.in M MANIFEST A bin/output_filter.sh
* [svn-r20724] Purpose: Fix a bug in h5diff when enum values are compared that doDana Robinson2011-05-041-0/+2
| | | | | | | | | | | | | | | | | not represent a valid enum value. Description: The h5diff code compares enum values by converting them to strings and then comparing them. When the enum value is out of range and can't be converted to an enum string representation, the comparison was skipped. The code now flags differences when one of the two enum values is out of range (two out of range values are compared in memory). A test has been added to the tools test script. This fixes JIRA HDFFV-7527 Tested on: jam, koala, heiwa (h5committest)
* [svn-r20713] Packed Bits Merge:Allen Byrne2011-05-031-0/+1
| | | | | | | | | removed option defines and #ifdef/#endif refactored all printf to HDfprintf in h5dump.c formatted and indention improvements synched with 1.8 branch Tested: local linux
* [svn-r20677] Merge packed bits option from 1.8 branch to trunk. CMake only. ↵Allen Byrne2011-04-291-1/+55
| | | | | | Autotools merge to come. Tested: local Linux
* [svn-r20641] Add CPack overrides for NSIS install paths. Install for ↵Allen Byrne2011-04-261-38/+40
| | | | | | products are: HDF Group/Product/Version Tested: windows , local linux
* [svn-r20584] I updated it for 2 new data files in h5diff/testfiles.Raymond Lu2011-04-201-1/+2
| | | | Tested with h5committest.
* [svn-r20577] Bug 1386 - allowing dimension size to be zero. I added test ↵Raymond Lu2011-04-201-1/+3
| | | | | | | | cases in the tests for h5dump and h5diff. I also added the test cases in the CMAKE script. Tested on jam, linew, and amani. Tested CMAKE on jam.
* [svn-r20520] Removed ibm-aix6.x file which just sourced ibm-aix file. ↵Albert Cheng2011-04-151-1/+0
| | | | | | | | | | Removed code in configure.in that tried to distinguish different versions of AIX. This is no longer needed. Tested: NCSA Blue-print. No h5committest since this affected AIX system only.
* [svn-r20513] Description:Quincey Koziol2011-04-151-0/+2
| | | | | | | | | | | | | | | | | | | | | | Correct several problems with compound datatypes that don't have any fields added: - Change assertion to error report when a file is encountered which has this situation. - Added check to attribute creation to avoid creating attributes with a datatype like this (datasets and named datatypes already have the check) Tested on: FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (jam) w/PGI compilers, w/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (amani) w/Intel compilers, w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, w/threadsafe, in production mode Linux/PPC 2.6 (heiwa) w/C++ & FORTRAN, w/threadsafe, in debug mode
* [svn-r20429] CMake: correct h5copy test macros, add userblock script test to ↵Allen Byrne2011-04-071-0/+1
| | | | | | h5jam tests, and correct h5jam tests Tested: local linux
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