Commit Graph

315 Commits

Author SHA1 Message Date
Binh-Minh Ribler
22d0d32716 [svn-r25644] Purpose: Fixed HDFFV-8928
Description:
    Followed hints on the JIRA issue to remove several potential memory
    leaks.
Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu)
2014-09-30 23:05:57 -05:00
Binh-Minh Ribler
0befe65753 [svn-r25632] Purpose: Fixed HDFFV-8852
Description:
    H5F_ACC_CREAT was included in the C++ API while the C library doesn't
    allow it yet.  Possibly, in the future, but not now.  In addition, the
    two flags H5F_ACC_RDONLY and H5F_ACC_RDWR were missing from the
    documentation, causing confusion that appending is not supported.
Solution:
    - Removed H5F_ACC_CREAT from the function until the C library support it
    - Added H5F_ACC_RDONLY and H5F_ACC_RDWR to the comments to update the
      documentation
Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu)
2014-09-29 15:52:08 -05:00
Mohamad Chaarawi
06ef71a37f [svn-r25397] - remove configure checks for MPI_File_get_size and Big
MPI_File_set_size as they are supported by most MPI implementations.
- fix bug in t_mpi.c (HDFFV-8856)
2014-07-07 13:22:48 -05:00
Allen Byrne
d9c1c23c38 [svn-r25350] Add more vfd tests to smaller timeout limits 2014-06-24 10:14:32 -05:00
Allen Byrne
21474f8eee [svn-r25188] Implement change to cmake_ext_mod config folder
Tested: local linux
2014-05-14 14:50:28 -05:00
Larry Knox
c6e3e68297 [svn-r25117] Removed LT_ADD_LIBHDF5_DEPENDENCY configure conditional to roll 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.
2014-04-25 16:59:53 -05:00
Binh-Minh Ribler
97525f97f2 [svn-r25108] Description:
- Put back Exception::printError for backward compatibility
    - Added static member function Exception::printErrorStack to print
      error stack without an instance of Exception.
Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu)
2014-04-25 14:47:57 -05:00
Binh-Minh Ribler
a75e8dd654 [svn-r25061] Description:
Put back overloaded functions for backward compatibility:
    - were replaced by better prototyped versions, such as Attribute::getName.
    - were modified to add const to constant arguments.
    Added notes for future removal in documentation.
Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu)
2014-04-17 18:25:01 -05:00
Binh-Minh Ribler
0dc4ce3704 [svn-r24994] Purpose: Removed some warnings
Description:
    Turned on warnings and removed some of those.
Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu)
2014-04-08 23:03:03 -05:00
Binh-Minh Ribler
67a61ed22f [svn-r24983] Purpose: Fix HDFFV-8367
Description:
    - Added wrappers to CommomFG for H5Oget_info_by_name() to get a child
      object's type (requested by user)
        H5O_type_t childObjType(const H5std_string& objname) const;
        H5O_type_t childObjType(const char* objname) const;
        H5O_type_t childObjType(hsize_t index, H5_index_t index_type=H5_INDEX_NAME, H5_iter_order_t order=H5_ITER_INC, const char* objname=".") const;
    - Added tests to tobject.cpp
Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu)
2014-04-07 15:08:59 -05:00
Binh-Minh Ribler
25b1330915 [svn-r24975] Description:
Added c++/test/tobject.cpp
2014-04-07 09:11:13 -05:00
Binh-Minh Ribler
a08f75b073 [svn-r24969] Description:
- Added wrappers to H5Object for H5Iget_name() to get object's name
        ssize_t getObjName(char *obj_name, size_t buf_size = 0) const;
        ssize_t getObjName(H5std_string& obj_name, size_t len = 0) const;
        H5std_string getObjName() const;
    - Added tests tobject.cpp
    - Added to various cleanup_* functions in tests to remove generated files
    - Added an overload H5I_type_t getHDFObjType() to get object's type
Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu) with gmake
2014-04-06 17:36:15 -05:00
Allen Byrne
98bbf4a36a [svn-r24948] Group tests by Common name
Remove WIN32 AND NOT CYGWIN if blocks - should be just WIN32

Tested: local linux CMake
2014-04-02 13:35:01 -05:00
Binh-Minh Ribler
0fcac56705 [svn-r24938] Description:
- Overloaded Atribute::getName to take a char* for the attribute name:
        ssize_t Attribute::getName(char* attr_name, size_t buf_size)
    - Switched the arguments in this function:
        ssize_t getName(size_t buf_size, H5std_string& attr_name)
        so it became:
        ssize_t getName(H5std_string& attr_name, size_t buf_size)
        The second argument is default to 0, and can be skipped.
    - Removed this function:
        H5std_string getName(size_t buf_size); it'll collide with the
        first function when that function takes a NULL for the first
        argument, and uses default value for the second argument.
    - Added more tests
Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu)
2014-04-01 00:59:37 -05:00
Allen Byrne
c6fe8c70b2 [svn-r24932] HDFFV-8290: Remove unnecessary $(srcdir) and use AM_CPPFLAGS instead of INCLUDES. Update automake to 1.14.1
h5committest
2014-03-31 12:07:05 -05:00
Binh-Minh Ribler
5f17eea9cd [svn-r24929] Description:
Added proper deallocation/allocation to test.
    Revised incorrect comments.
Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu)
2014-03-31 00:27:17 -05:00
Binh-Minh Ribler
be38074a2f [svn-r24925] Purpose: Fix HDFFV-7907
Description:
    Added transform property list functions
        // Constructor creates a dataset transform property list.
        DSetMemXferPropList(const char* expression);

        // Sets data transform expression.
        void setDataTransform(const char* expression) const;
        void setDataTransform(const H5std_string& expression) const;

        // Gets data transform expression.
        ssize_t getDataTransform(char* exp, size_t buf_size=0) const;
        H5std_string getDataTransform() const;

    Added test file tdspl.cpp.

Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu)
2014-03-30 11:15:11 -05:00
Binh-Minh Ribler
e79b0dece5 [svn-r24912] Purpose: Fix HDFFV-8642
Description:
    Added CompType::setSize(size_t size) to set size for compound data type
    as H5Tset_size had been changed.
Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu)
2014-03-26 23:36:53 -05:00
Binh-Minh Ribler
67be45610f [svn-r24867] Description:
- Added a null terminator to the comment returned from the C call, in
        getComment methods
    - Some minor cleanup
Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    Linux/64 2.6 (platypus)/PGI compilers
2014-03-22 15:39:44 -05:00
Binh-Minh Ribler
60df159d33 [svn-r24865] Description:
- Added another overload for char* argument:
        ssize_t getComment(const char* name, const size_t buf_size, char* comment)
    - Changed default value to 0 for the other two getComment methods
    - Added HDmemset to after every char string allocation to clear the buffer
Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    Linux/64 2.6 (platypus)/PGI compilers
2014-03-21 18:23:05 -05:00
Quincey Koziol
2e4302818a [svn-r24864] Description:
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
2014-03-21 18:02:24 -05:00
Binh-Minh Ribler
ff565cd175 [svn-r24830] Purpose: HDFFV-8623
Description:
    Applied patch from user Jason Newton.  JIRA issue HDFFV-8623, patch
    9, improve c++ compatibility with exceptions.  All additions of "throw()"
    are included.  Exception::what() is not added because it is not necessary.
    It was suggested for the name, which follows stdlib.
Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    Linux/64 2.6 (koala)/PGI compilers
2014-03-18 14:31:18 -05:00
Allen Byrne
f5689224b5 [svn-r24789] Bump up the minimum cmake version 2014-03-13 10:05:09 -05:00
Allen Byrne
6c5e74942d [svn-r24782] HDFFV-8700 -
KitWare recommendations: Change CMake commands to lower case.
2014-03-11 17:07:13 -05:00
Allen Byrne
a3292a77ce [svn-r24781] HDFFV-8700 -
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
2014-03-11 16:14:57 -05:00
Elena Pourmal
7aa4a180e4 [svn-r24400] Maintenance: When the libraries are built and tested in place, several files are left
behind by "make distclean" (see below); modified appropriate Makefile.am files and ran
             bin/reconfigure to create Makefile.in to fix the problem.

Here is the list of the files "make disclean" doesn't remove:

       tools/h5dump/testfiles
       tools/h5repack/testfiles/h5diff_attr1.h5
       tools/h5repack/testfiles/tfamily00000.h5
       tools/h5repack/testfiles/tfamily00010.h5
       tools/h5repack/testfiles/tfamily00002.h5
       tools/h5repack/testfiles/tfamily00004.h5
       tools/h5repack/testfiles/tfamily00006.h5
       tools/h5repack/testfiles/tfamily00008.h5
       tools/h5repack/testfiles/tfamily00001.h5
       tools/h5repack/testfiles/tfamily00003.h5
       tools/h5repack/testfiles/tfamily00005.h5
       tools/h5repack/testfiles/tfamily00007.h5
       tools/h5repack/testfiles/tfamily00009.h5
       tools/h5jam/testfiles/h5jam-ub-nohdf5.txt.err-sav
       tools/h5jam/testfiles/h5jam-help.txt.err-sav
       tools/h5jam/testfiles/h5unjam-help.txt.err-sav
       tools/h5jam/testfiles/h5jam-ub-nohdf5.txt.out-sav
       tools/h5jam/testfiles/h5jam-help.txt.out-sav
       tools/h5jam/testfiles/h5unjam-help.txt.out-sav
       hl/fortran/test/dsetf5.h5
       c++/test/tattr_multi.h5
       c++/test/tattr_scalar.h5
       c++/test/tfattrs.h5
       c++/test/tattr_basic.h5
       c++/test/tattr_compound.h5
       c++/test/tattr_dtype.h5

Tested on jam and emu in place and using srcdir with the svn stat command.

This fix doesn't address two problems:

tool/h5dump/testfiles directory is not removed by "make distclean" and it should be
tools/misc/testfiles directory is removed by "make distclean" and it shouldn't be
2013-11-02 20:21:23 -05:00
Allen Byrne
819b8099e2 [svn-r24392] Cleanup testfiles from scripts. Update lists of files to be cleaned. CMake update to clean testfiles.
Tested: local cmake, autools, and h5committest
2013-11-01 16:15:37 -05:00
Dana Robinson
e6cace9ee4 [svn-r24376] Updated all code to use HDmalloc, HDcalloc, and HDfree.
Prep work for adding a memory free function, part of HDFFV-8551.

Tested on:
    32-bit LE linux (jam) 
        * with C++, Fortran
        * with thread safety on

    These are minor changes (almost entirely renaming foo functions
    to HDfoo) that don't change functionality.  This should not
    require a full commit test.
2013-10-30 23:20:36 -05:00
Binh-Minh Ribler
370e6f3f56 [svn-r24291] Description:
- Added a lot of documentation to classes for Reference Manual.
    - Fixed some format inconsistencies
Platforms tested:
    Linux/ppc64 (ostrich)
    Linux/32 2.6 (jam)
    Linux/64 2.6 (koala)/PGI compilers
2013-10-15 00:31:20 -05:00
Larry Knox
ab239810e1 [svn-r24194] Don't add hdf5 library dependencies to lib files when --disable-sharedlib-rpath configure option is invoked. Fix for HDFFV-8276.
Tested with h5committest and on hdf-duck.
2013-09-23 20:14:24 -05:00
Binh-Minh Ribler
f8fb310610 [svn-r24188] Purpose: Fixed bug introduced in r24163
Description:
    - The failure in daily test was caused by missing initialization of member
    "id" in a few constructors.  This is now fixed.
    - Added two overloaded H5Location::setComment
    - Improved some error reporting in H5Location
    - Improved error reporting in tests
Platforms tested:
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu)
    Linux/64 2.6 (koala)/PGI compilers
2013-09-22 19:39:44 -05:00
Binh-Minh Ribler
1b22cc435e [svn-r24178] Back out the changes that cause daily test to fail r24163 2013-09-20 13:53:21 -05:00
Binh-Minh Ribler
4182c81add [svn-r24163] Purpose: More on HDFFV-7520 and HDFFV-533
Description:
    - Improved the changes in revisions r22836 and r23438, mainly on the
      wrappers of reference, dereference, get region, and set/getcomment.
    - Added more tests.

Platforms tested:
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu)
    Linux/ppc64 (ostrich)
2013-09-18 22:08:28 -05:00
Binh-Minh Ribler
d95f5e293a [svn-r24162] backing out a commit that includes wrong files 2013-09-18 21:41:00 -05:00
Binh-Minh Ribler
18b896112c [svn-r24161] Purpose: More on HDFFV-7520 and HDFFV-533
Description:
    - Completed the changes in revisions r22836 and r23438 with improvement
    on wrappers such as reference, dereference, get region, and set/getcomment.
    - Added more tests.
Platforms tested:
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu)
    Linux/ppc64 (ostrich)
2013-09-18 20:54:54 -05:00
Binh-Minh Ribler
27ed849cad [svn-r24142] Purpose: Fix bug in tests
Description:
    - Passing the c_str() of an std string into a C function caused failure
      on OpenVMS.  Added a work around using temporary string. (th5s.cpp)
    - Passing incorrect file access property list caused test_datasize() to
      fail.  Fixed.
    - Close a group in test_dset, before the file can be properly closed.
      This should fix the problem on OpenVMS.
Platforms tested:
    Linux/32 2.6 (jam)
    SunOS 5.11 (emu)
    Linux/ppc64 (ostrich)
2013-09-14 22:53:59 -05:00
Allen Byrne
c502d81a8c [svn-r24029] Move TESTS to seperate file to allow easier editing by all developers.
Tested: local linux
2013-08-19 16:49:44 -05:00
Allen Byrne
6da129cef0 [svn-r23861] HDFFV-8322: Mismatched free() / delete / delete [] for cpp_testhdf5
Tested:" local linux
2013-07-03 09:58:09 -05:00
Allen Byrne
feb14ea872 [svn-r23745] HDFFV-8461: Add Windows /MT support
This adds the UserMacros.cmake support needed.
2013-06-10 12:46:48 -05:00
Binh-Minh Ribler
1f6cd26a93 [svn-r23438] Purpose: Fix bug HDFFV-7520
Description:
    Added wrappers for H5Aexists.
Platforms Tested:
    Linux/32 2.6 (jam)
    Linux/64 2.6 (koala)
    Linux/ppc64 (ostrich)
2013-03-23 12:37:49 -05:00
Binh-Minh Ribler
c8018386da [svn-r23427] Purpose: Fix bug HDFFV-8067
Description:
  + The C++ test failed with the new PGI compilers versions 12.4 and 12.5
  + An exception thrown by an internal function, which was called by
    a constructor, was not propagating to the test program during the stack
    unwinding, so it couldn't be caught by the test and the program terminated.
  + Various trials and errors indicated that the problem is where an STD string
    converted to a char* being passed to the internal function, but confirmation
    has not been found yet.  It could be a compiler bug.
Solution:
  + Added a try/catch in the constructor around the internal function and
    re-throw the exception when it is caught.  This is a workaround.
  + Unrelated minor fixes: removed unused variables and MESSAGE's; commented
    out tvlstr.cpp/test_read_vl_string_attribute because it may be redundant,
    and commented out H5Tpkg.h inclusion because TEST_ALIGNMENT is not added
    yet and probably not necessary in the C++ API.
Platforms tested:
    Linux/32 2.6 (jam) with PGI compilers
    Linux/32 2.6 (jam) with GNU compilers
    Linux/64 2.6 (koala)
2013-03-22 12:56:05 -05:00
Allen Byrne
aff5c20a6a [svn-r23305] HDFFV-8257: szip still used even if headers are not found. Change configure to test the result of the CHECK HEADERS call before checking for the library.
Tested: local linux, h5committest
2013-02-18 15:56:21 -05:00
Allen Byrne
2fba171a67 [svn-r23160] HDFFV-8227: Mac DARWIN requires CMake 2.8.10 2013-01-14 13:35:30 -05:00
Larry Knox
33504deb83 [svn-r22908] Reverted changes in revision 22819
Tested with h5committest on jam, koala and ostrich.
2012-10-16 16:38:58 -05:00
Binh-Minh Ribler
f7e1da0cfb [svn-r22877] Description:
Changed uint to unsigned so that no hdf5-specific header file is needed.
Platform tested:
    Linux/32 2.6 (jam) - very minor
2012-10-09 22:32:21 -05:00
Binh-Minh Ribler
9c3f82fbd7 [svn-r22845] Purpose: Misc fixes
Description:
    Fixed miscellaneous inconsistencies and typos, which also took
    care of the failure in Packet Table test on daily test today.
Platforms tested:
    Linux/32 2.6 (jam)
    Linux/64 2.6 (koala)
    Mac Lion (duck)
2012-09-28 17:18:33 -05:00
Binh-Minh Ribler
5fcec401bd [svn-r22836] Purpose: Fix bug HDFFV-533 and add other missing functions
Description:
    In this bug, H5File doesn't have the ability to create attribute.  The
    following changes will provide that functionality and several others that
    were also missing:
    - Added an abstract class H5Location in between IdComponent and H5Object.
    - New class structure of IdComponent, H5Location, H5Object, H5File
                                IdComponent
                                     |
                                H5Location
                                /        \
                        H5Object        H5File
    - Wrappers in H5Object were moved to H5Location because the related C
      functions take either file, group, dataset, or named datatype ID.
    - Added wrapper for H5Rget_obj_type2
    - Added tests for file attributes and H5Rget_obj_type2 wrapper
Platforms tested:
    Linux/32 2.6 (jam)
    Linux/64 2.6 (koala)
    SunOS 5.10 (linew)
2012-09-27 18:26:16 -05:00
Larry Knox
c5371d7618 [svn-r22819] Added H5BLD_STATIC and HDF5_USE_SHLIB to configure.ac so that if configured with --disable-static the default for HDF5_USE_SHLIB in the compile scripts will be changed to yes. This is a fix for HDFFV-8141, where the compile scripts try to link to non-existant static hdf5 libraries.
Tested on jam,koala,ostrich(h5committest) and other THG machines.
2012-09-26 23:49:19 -05:00
Allen Byrne
1f8fb63581 [svn-r22709] HDFFV-8129: reconfigured on jam, Remove overloading of autotools TESTS var, rename configure.in to configure.ac, convert test scripts from hard *.sh to configure managed *sh.in files.
Tested: h5committest
2012-08-23 11:07:43 -05:00
Larry Knox
edf83e5d1f [svn-r22706] Updated autotools: autoconf 2.69, automake 1.12.3, m4 1.4.16, libtool 2.4.2
Tested THG machines.
2012-08-22 00:00:32 -05:00