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* [svn-r18855] Added CPack commands for installtion programAllen Byrne2010-05-191-3/+5
| | | | Tested: local linux and Windows
* [svn-r18841] Changed version number to 1.8.4-snap0Mike McGreevy2010-05-181-1/+1
| | | | Updated RELEASE.txt file accordingly.
* [svn-r18836] Added code to config files, libhdf5.settings.in and ↵Larry Knox2010-05-174-0/+8
| | | | | | configure.in to add compiler version information for fortran and C++ in the settings file and the configure output for our common compilers on linux, solaris, and mac(gnu only). Tested: amani, jam, linew (h5committest) and with configure on these machines and tejeda.
* [svn-r18817] Added scripts to compile and run installed examples. The ↵Larry Knox2010-05-143-6/+114
| | | | | | scripts are installed with the examples, and there is one script to run the scripts for all hl examples and another to run the scripts for all the examples. Tested: amani, jam, linew (h5committest).
* [svn-r18780] Corrected typo of variable used by H5srcdir_str.h.in.Allen Byrne2010-05-121-1/+1
| | | | No test as it is actually not used in branch
* [svn-r18779] Add ${DESTDIR} to scripts and Makefiles so that make ↵Larry Knox2010-05-126-23/+23
| | | | | | DESTDIR=<install directory> install, installcheck and uninstall is supported for installing examples, since they are now installed as part of make install. This was necessary for rpmbuilds, but should also be supported otherwise. Tested: amani, jam, linew with committest, rpmbuild on jam and amani.
* [svn-r18773] Add files to support building library with CMakeAllen Byrne2010-05-124-0/+233
| | | | Tested: Local linux
* [svn-r18749] Purpose: Fixed bugs 1852 & 1599Binh-Minh Ribler2010-05-102-28/+34
| | | | | | | | | | | Description: - When a property class id is given to PropList(id), create new prop list, but when a property list id is given, make a copy of it. - Fixed operator= to use setId() properly. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r18728] Purpose: Fixed bug# 1719Binh-Minh Ribler2010-05-061-3/+14
| | | | | | | | | | Description: Closed a temporarily opened datatype to clean up memory leak, in getTypeClass. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r18710] Purpose:Mike McGreevy2010-05-054-4/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | Improve configure's large-file support control. Description: Modified configure to now attempt to add defines necessary for supporting largefiles on all systems, instead of solely on linux. This is in response to user requests to enable largefile support on Solaris by default, as well as to give extra control on AIX (instead of just jamming the necessary flag into the config files). The old --enable-linux-lfs flag is being deprecated in favor of the --enable-largefile flag (enabled by default), which can be used on all platforms. --disable-linux-lfs can still be used to disable largefile support (on linux) when the --enable-largefile flag is not specified. On systems where large files cannot be supported in this manner, configure will report as such. Tested: h5committest AIX (NCSA's blue_print machine) duty, liberty, and linew.
* [svn-r18703] Purpose: Fixed bug# 1783Binh-Minh Ribler2010-05-051-1/+3
| | | | | | | Description: Corrected typo in documentation. Platforms tested: Linux/32 2.6 (jam) - very minor
* [svn-r18701] ID 1853:Albert Cheng2010-05-044-0/+4
| | | | | | | | Added the configure option --enable-h5dump-packed-bits for the h5dump optional feature. Tested: Jam (default and --disable-h5dump-packed-bits).
* [svn-r18694] Correct missing line (fi) in revision 18680 and remove ↵Larry Knox2010-05-031-4/+1
| | | | | | incorrect code to install scripts to run examples. Correct code to install the scripts will be checked in later. Tested on amani and talwit using daily test shell.
* [svn-r18693] Description:Binh-Minh Ribler2010-05-031-4/+5
| | | | | | | Using header file H5private.h for HDstrcpy in H5CommonFG.cpp. Platforms tested: Linux/32 2.6 (jam) FreeBSD/32 6.3 (duty)
* [svn-r18691] Description:Binh-Minh Ribler2010-05-031-0/+3
| | | | | | Added #ifndef H5_NO_DEPRECATED_SYMBOLS to getObjTypeByIdx tests. Platforms tested: amani - with --disable-deprecated-symbols
* [svn-r18689] Description:Binh-Minh Ribler2010-05-035-1/+90
| | | | | | | | | Added missing overloaded function getObjTypeByIdx to return type name as a char*. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r18688] Snapshot version 1.8 release 4 (snap20)HDF Tester2010-05-031-1/+3
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* [svn-r18683] Purpose: Fix bugzilla 1857Binh-Minh Ribler2010-05-023-6/+42
| | | | | | | | | Description: Added missing overloaded function getObjnameByIdx to take char* for name. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r18680] Added running make install-examples to make install. Make ↵Larry Knox2010-04-302-3/+4
| | | | install-examples will still install example files and make install will also install them.
* [svn-r18641] Description:Binh-Minh Ribler2010-04-272-10/+16
| | | | | | | | Added a null character to terminate a fixed-length string returned by H5Aread. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty)
* [svn-r18580] Purpose:Mike McGreevy2010-04-154-6/+6
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Autotool Upgrade / Libtool Bug Fix Description: Updated autotools referenced in bin/reconfigure as follows: Autoconf 2.64 --> Autoconf 2.65 Automake 1.11 --> Automake 1.11.1 Libtool 2.2.6a --> Libtool 2.2.6b-mcg The referenced libtool version is a custom version of 2.2.6b. It has been tweaked to fix a bug in libtool that occurs when using PGI 10.0 compilers. A check incorrectly categorizes the C++ compiler as version 1.0 instead of 10.0, and the link line is subsequently set up incorrectly and fails to compile. A patch has been made available and will be included in the next release of libtool, but in the meantime I've applied the patch to a custom installation as indicated above. This bin/reconfigure now references the custom installation, and the resulting configure script will correctly categorize the PGI 10.0 C++ compiler. Ran bin/reconfigure to regenerate configure and makefiles. Tested: jam and amani with PGI 10.0 compilers. h5committest
* [svn-r18422] Description:Quincey Koziol2010-03-183-3/+28
| | | | | | | | | | | | | | | | | | | | | | | Bring r18413:18420 from trunk to 1.8 branch: - unify srcdir query, etc. - Move libhdf5.settings string out of H5Tinit.c 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, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in debug mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode Mac OS X/32 10.6.2 (amazon) in debug mode Mac OS X/32 10.6.2 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r18409] Description:Binh-Minh Ribler2010-03-1714-101/+95
| | | | | | | | | | | | | | Removed header file testhdf5.h from C++ tests to eliminate a non-standard problem on OpenVMS. It wasn't essential. Also, moved dsets.cpp from a standalone program into testhdf5.cpp to be consistent with the rest of the tests. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew) Will ask Ray to test on OpenVMS.
* [svn-r18198] Description:Quincey Koziol2010-01-306-13/+13
| | | | | | | | | Trim trailing whitespace from source code files, with following command: find . \( -name "*.[ch]" -or -name "*.cpp" -or -name "*.f90" \) -print |xargs -n 1 sed -i "" 's/[[:blank:]]*$//' Tested on: None - eyeballed only
* [svn-r18160] Description:Quincey Koziol2010-01-231-3/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r18159 from trunk to 1.8 branch: Bring Coverity fixes from 1/22/10 session to trunk: r18137: 219: Initialized hid_t to -1 and added close to error block. 189-191: Initialized line to NULL and added free line, and close fp to error block. r18138: 19: Moved code block for printing that the number of enums is empty to the error block. (Would never have been executed otherwise) r18139: Fix coverity item 58. Moved code related to displaying the parent of a repeated group to the else(isRoot) section, as the root group has no parent. r18140: 218: Initialized ret_value variable to -1. Because of throw Exception in default case of switch, the coverity problem would not have executed anyway. Good pratice is to initialize variables. r18141: Fix coverity item 92. Added code to H5E_register_class to free cls in case of an error. r18142: Fix coverity item 91. Added code to H5E_create_msg to free msg in case of an error. r18143: fixed issue 14, took away "if" and used #ifndef_xxx. r18144: Fix coverity item 110. Added code to H5Eget_minor to free msg_str in case of an error. r18145: fixed coverity #18 removed "aligned", it is always NULL. r18146: Fix coverity item 109. Added code to H5Eget_major to free msg_str in case of an error. r18147: Fixed coverity #81 and #82, Check for bad pointer(s), but can't issue error, just leave r18148: Fix coverity item 97. Added code to H5FD_fapl_open to free copied_driver_info in case of an error. r18149: Fix coverity item 96. Added code to H5FD_dxpl_open to free copied_driver_info in case of an error. r18150: Fix Coverity issue #29: Protected cache_ptr dereferences with "if(pass)" block r18151: Fix coverity item 93. Added code to H5FL_fac_init to free factory and new_node in case of an error. r18152: Fix coverity items 98 and 99. Added code free allocated space in case of error. r18155: 124: Freed head pointer before jumping to done. There was no error handling block and normal exit used same path out. 120-123: Freed list of lists in error handling block. r18156: Fix coverity issues 179, 180, 181, 182, 183, 184, 186, 320, 407. These were resource leak issues where allocated memory was not freed, generally in the case of tests that failed. Tested on: Mac OS X/32 10.6.2 (amazon) debug & production
* [svn-r18106] bug 1673:Albert Cheng2010-01-124-16/+16
| | | | | | | | | | | | | | The mixed use of RUNTEST (original) and RUNTESTS (new) caused confusion. E.g., the timings in test/ was still using the old $RUNTEST. It made more sense to use $RUNTEST which is used by the dejagnu feature of automake. So, I changed all $RUNTEST or $RUNTESTS to $RUNEXEC. config/commence.am & config/conclude.am are the two files that got changes. Also fixed an error in test/Makefile.am. The rest are changed by bin/reconfigure. Tested: h5committested.
* [svn-r18056] Bug fix: 1192Albert Cheng2009-12-262-6/+16
| | | | | | | | Description: Fixed exit code (sometimes return code in Main) to follow the HDF5 standards. Tested: Jam, both serial and parallel.
* [svn-r18032] Description:Quincey Koziol2009-12-171-0/+1
| | | | | | | | | | | | | | | | | Bring r18031 from trunk to 1.8 branch: Bring r18030 from merge_metadata_journaling branch to trunk: Bring "brush clearing" changes (whitespace & style issues, mostly) from metadata_journaling branch to the "merging" branch, to converge the trunk and the metadata_journaling branch. Also, some other minor cleanups along the way. Tested on: FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode (h5committested on trunk)
* [svn-r17954] Description:Quincey Koziol2009-12-032-2/+10
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring r17953 from trunk to 1.8 branch: Bring Coverity changes into the trunk: r17877: Error 266: Uninitialized memspace set to -1. Changed malloc and free to HDmalloc and HDfree. Removed unused dtype var. r17878: Error 265: Uninitialized mem_space set to -1. Changed malloc and free to HDmalloc and HDfree. Error 267: Uninitialized smspace set to -1. Changed malloc and free to HDmalloc and HDfree. r17879: Error 242: Uninitialized aid set to -1. Error 243: Uninitialized sid set to -1. Uninitialized tid set to -1 for consistency r17880: Error 242: reinitialized aid to -1 after close to be ready for reuse. Error 243: reinitialized sid to -1 after close to be ready for reuse. reinitialized tid to -1 for consistency after close to be ready for reuse. r17881: use valgrind to check there is a memory leak. The fix is to free ptrstr in line 5838 at xml_dump_group() of h5dump.c after it is used. run the valgrind after the fix, no memory leak for that part of the code. r17882: Fix Coverity items 256 and 269. r17883: Error 222-230: initialized hid_t vars to -1 after close to be ready for reuse. Also added H5Tclose for tid in gent_bigdims r17884: Bug fix (Coverity run2, view 23, dead code) (this is pair-program done by Albert, Elena and Larry). Confirmed and fixed the deadcode in hyperslab read branch of function diff_datasetid. (Discovered other bad code that diff_datasetid() should be recoded. Bug 1693 is entered for this.) r17906: Fix Coverity item 260. r17907: 262: Initialized hid_t's dtype, dtype_tmp and file to -1. Initialized H5T_t * dt to NULL. r17908: Fix Coverity item 261. r17909: Fix Coverity item 248. r17910: Revise fix for Coverity item 248. r17911: Resolved coverity issues #s 263, 162, 163, 164. All issues in dsets.c. Initialized fid and did hid_t's. filter_corrupt function was returning in the middle of an if statement, bypassing free calls. Updated error handling to free buffers and hid_t's appropriately. r17912: (done by Larry and Albert) Cleanup Coverity view warnings (#231-241) about using uninitialized variables. Initialized all of them. r17913: Resolved issue 251 and 264. Initialized tid2 to -1 and initialized buffers that were freed in case of an error. r17914: Resolved coverity issues 66, 220, and 221: 66: Negative Return assignment ignored 220,221: Initialized hid_t's. r17915: Fix Coverity item 247. r17916: Fix Coverity item 246. r17917: Fix Coverity item 245. r17918: Fix Coverity item 244. r17919: Coverity Issue #84: Moved asserts in H5T_cmp to the top of the function, and converted them to HDassert. Coverity complaining about using potentially NULL pointer without checking it. Want to see if Coverity will accept Assertions as acceptable checking before using the value. Tested on: FreeBSD/32 6.3 (duty) w/debug (h5committested on trunk)
* [svn-r17773] Purpose:Mike McGreevy2009-10-281-1/+1
| | | | | | | | | | | | | | | | | | h5cc link-line reordering Description: Re-ordered flags in h5cc such that LDFLAGS appears after hdf5 library include path. This is to ensure third party library locations don't interfere with locating the correct version of hdf5 library. I have Elena's permission to bring into 1.8 before anything else (so it can be tested via daily tests ASAP), though the hope is to propagate everywhere. Tested: quickly by hand on jam, daily tests should catch elsewhere.
* [svn-r17709] Maintenance: Changed version number to 1.8.4-snap0Elena Pourmal2009-10-211-1/+1
| | | | Updated RELEASE.txt and HISTORY.txt file accordingly.
* [svn-r17695] Purpose: Code improvementBinh-Minh Ribler2009-10-207-80/+800
| | | | | | | | | | | | | Description: Fixed CommonFG::getComment and CommonFG::getLinkval to provide default values for buffer size to improve usability. Added test file tlinks.cpp, which only contains test for getLinkval and will expand when C++ wrappers for H5L functions are implemented. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty)
* [svn-r17645] Purpose:Mike McGreevy2009-10-157-41/+69
| | | | | | | | | | | | | | | Merge from Trunk Description: Merging all of my CFLAGS-related changes from trunk to 1.8 This includes revision #s: 17616, 17625, 17627, 17639, and 17643. Tested: h5committest and some additional checks on our FreeBSD as well as NCSA's machines.
* [svn-r17588] Purpose:Binh-Minh Ribler2009-10-042-3/+3
| | | | | | | | | | | Fixed bugzilla #1061 Description: Added a check for NULL before accessing a pointer Also, removed a few warnings about returning values Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r17439] Purpose:Mike McGreevy2009-08-314-128/+324
| | | | | | | | | | | | | | | | | | | | | | Updating autotools Description: Bring revisions 17345 and 17357 from trunk to 1.8, specifically: - Automake upgraded to 1.11 - Autoconf upgraded to 2.64 - bin/reconfigure script edited to use new versions (on jam), and run to generate new configure script and Makefile.in's. - configure.in script edited to add "_cv_" to all AC_CACHE_VAL strings (in order to comply with new autoconf standard). - bin/install-sh script replaced with new version as provided by automake. Tested: - All issues on trunk were resolved, so only tested on jam and linew. Any other outliers should be caught by daily tests.
* [svn-r17253] Description:Binh-Minh Ribler2009-07-281-26/+23
| | | | | | | Fixed typos only. Platforms tested: Linux/32 2.6 (jam)
* [svn-r17239] Purpose: Fix bug and improve readabilityBinh-Minh Ribler2009-07-277-177/+432
| | | | | | | | | | | | | | | Description: - Revised DataSet::write to pass in correct string buffer - Added member function DataSet::getInMemDataSize() to simplify getting the dataset's data size in memory. - Added private functions for reading fixed- and variable-len string data: p_read_fixed_len and p_read_variable_len. - Added tests to write/read array of strings to datasets. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r17219] Purpose: Improve readabilityBinh-Minh Ribler2009-07-221-0/+74
| | | | | | | | | | | | | Description: Divided Attribute::read into specific private functions for fixed- and variable-len string data: p_read_fixed_len and p_read_variable_len. Added test to write/read array of strings to attributes. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r17218] Purpose: Improve readabilityBinh-Minh Ribler2009-07-222-107/+136
| | | | | | | | | | | | | Description: Divided Attribute::read into specific private functions for fixed- and variable-len string data: p_read_fixed_len and p_read_variable_len. Added test to write/read array of strings to attributes. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r16853] Maintenance: Changed version number to 1.8.3-pre1 and created a ↵Elena Pourmal2009-04-241-1/+1
| | | | | | tar ball for remote testing.
* [svn-r16838] Bug fix:Albert Cheng2009-04-221-2/+2
| | | | | | | | | | | | | If the AR command has embedded shell separators such as the case of "AR = ar -X 64", $AR ends up as a blank. Solution: Put quotes around the command substitution string to protect against embedded separators. Applied the same to both AR and RANLIB assignments. Tested: At Up (AIX 5.3) only because that was where I discovered the error when AR is ar -X 64
* [svn-r16822] Description:Binh-Minh Ribler2009-04-213-13/+84
| | | | | | | | | | | | | Added member function Attribute::getInMemDataSize() to simplify getting the attribute's data size in memory. Used this new function in Attribute::read to get the fixed-len string attribute data. Added tests to tattr.cpp. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r16808] Purpose: Fix bug 1533Neil Fortner2009-04-202-2/+2
| | | | | | | | | | | Description: Previously, there was no versioning for H5Z_class_t. This prevented applications written for 1.6 using custom filters from being able to use the 1.8 library. There is now an H5Z_class1_t and H5Z_class2_t to enable compatibility. H5Zregister is *not* versioned, it determines which version of the struct has been passed in by the value of the first field (id or version, both are ints). Tested: jam, linew, smirom (h5committest), jam (--with-default-api-version=v16)
* [svn-r16793] Description:Mike McGreevy2009-04-205-18/+48
| | | | | | | | | | | | - Updated bin/reconfigure to use latest version of automake (1.10.2). Regenerated Makefile.in's by running bin/reconfigure. - Added libtool version numbers to c++, fortran, hl, hl c++, and hl fortran libraries. Tested: jam, liberty, smirom
* [svn-r16788] Description:Binh-Minh Ribler2009-04-192-33/+123
| | | | | | | | | | | | Fixed to pass parameters to H5Awrite/H5Aread correctly so that all Attribute::write and Attribute::read methods work correctly for both fixed-length and variable-length string attributes. Added more test cases. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty)
* [svn-r16562] Purpose:Mike McGreevy2009-03-104-12/+12
| | | | | | | | | | | | | | | | | | Bug Fix Description: Fixing BZ #1381. The --includedir=DIR configure option, which is used to spceify installation location of C header files, did not work correctly as the path was hard-coded into config/commence.am. I'm presuming this is because an older version of automake didn't know where to put C header files. In any case, removing this line now defaults the includedir to the same directory that it is currently hard-coded to, and also fixes the configure flag which allows for customization of this value. Tested: jam, liberty
* [svn-r16519] merge 16518 from trunkPedro Vicente Nunes2009-02-264-0/+4
| | | | | | have 2 expected outputs for 2 h5ls runs depending if run on a big or little endian machine. Configure.in was modified to export a variable carrying endianess information to testh5ls.sh. This script then compares the current run with 2 expected outputs, one for a big-endian machine (linew was used to generate the output), other for little endian (jam was used to generate the output) the way h5ls prints types, it starts searching for NATIVE types first. One solution would be h5ls not to detect these native types, using for example the same print datatype function that h5dump does, that would make the output look the same on all platforms ("32-bit little-endian integer" would be printed instead). Drawback, this "native" information would not be available. Other solution is to have not one but 2 expected outputs and make the shell script detect the endianess and compare with one output or other tested: jam, linew
* [svn-r16341] Description:Frank Baker2009-01-221-1/+1
| | | | | | Changed 'THG' to 'The HDF Group' in various HDF5 source files, most of which are <subdirectory>/COPYING. -- Closes Bugzilla entry 1403.
* [svn-r15998] Description:Binh-Minh Ribler2008-10-3039-152/+155
| | | | | | | Fixed various comments/headers to update the C++ reference manual. Platforms tested: Linux 2.6 (kagiso) - to make certain no typo introduced
* [svn-r15962] Description:Binh-Minh Ribler2008-10-271-19/+11
| | | | | | | Fixed some typos and replaced free/HDfree and malloc/HDmalloc. Platforms tested: Linux 2.6 (kagiso) - very minor
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