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* [svn-r21925] Description:Quincey Koziol2012-02-101-1/+1
| | | | | | | | | | | | | | Bring r21919-21924 from trunk to 1.8 branch: cleanup FUNC_ENTER macros, etc. Also removed Subversion mergeinfo tags from a few directories and files. These are artifacts from non-root merges using pre-1.6 Subversion clients. (This should fix the problem of unchanged directories looking "changed" during checkins.) Tested on: Mac OSX/64 10.7.3 (amazon) w/debug & production (daily tested on trunk)
* [svn-r19274] Description:Quincey Koziol2010-08-201-12/+13
| | | | | | | | | | | | | | | | | | | | Bring r19272 & 19273 from trunk to 1.8 branch: Close out various resource leaks and usages of uninitialized memory that were flagged by valgrind. [There's still some more valgrind warnings, but it's better now... :-/ ] Also clean up warnings and code formatting. Tested on: FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Mac OS X/32 10.6.4 (amazon) in debug mode Mac OS X/32 10.6.4 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode Mac OS X/32 10.6.4 (amazon) w/parallel, in debug mode
* [svn-r19257] Change Cmake to allow a local zlib header to be used in ↵Allen Byrne2010-08-201-2/+5
| | | | | | | | | | | H5Zdelate module. Corrected use of "SKIP" message in cmake. Corrections to cmake configuration files (for cmake external projects). Community suggested changes. Tested: local linux
* [svn-r17954] Description:Quincey Koziol2009-12-031-0/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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-r16920] Description:Quincey Koziol2009-05-051-2/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | Merge these trunk revisions which occurred during the 1.8.3 release code freeze back to the 1.8 branch: From Quincey: 16845 16847 16849 16851 16858 16869 16897 From Ray: 16859 16880 From Allen: 16863 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/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) 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 10.5.6 (amazon) in debug mode Mac OS X/32 10.5.6 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r16808] Purpose: Fix bug 1533Neil Fortner2009-04-201-1/+1
| | | | | | | | | | | 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-r14170] Description:Quincey Koziol2007-10-021-4/+7
| | | | | | | | | Avoid memory leak when realloc() fails during attempt to get larger buffer as we are decompressing deflated data. Tested on: FreeBSD/32 6.2 (duty) Linux/32 2.6 (kagiso)
* [svn-r13253] Updated all C and C++ style source code files with the THG ↵Albert Cheng2007-02-071-2/+3
| | | | | | | | | copyright notice. Tested platform: Kagiso only since it is only a comment block change. If it works in one machine, it should work in all, I hope. Still need to check the parallel build on copper.
* [svn-r11245] Purpose:Quincey Koziol2005-08-131-4/+4
| | | | | | | | | | | | | | | | | | | | Code cleanup Description: Trim trailing whitespace, which is making 'diff'ing the two branches difficult. Solution: Ran this script in each directory: foreach f (*.[ch] *.cpp) sed 's/[[:blank:]]*$//' $f > sed.out && mv sed.out $f end Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
* [svn-r9857] Purpose: MaintenanceElena Pourmal2005-01-221-3/+0
| | | | | | | | | | | | | | Description: Removed PABLO from the source Solution: Platforms tested: arabica with 64-bit, copper with parallel, heping with GNU C and C++ and PGI fortran (but I disabled hl, there is some weird problem only on heping: F9XMODFLAG is not propagated to the Makefile files Misc. update:
* [svn-r8781] James Laird2004-07-011-0/+3
| | | | | | | | | | | | | | | | Purpose: HDF5 now supports SZIP with no encoder. Description: SZIP can be configured to have both encoder and decoder or just to have the decoder. HDF5 can now query the configuration of any filter, and will throw errors if users try to write using a filter with encoding disabled. Solution: Added H5Zget_filter_info function, changed API for H5Pget_filter and H5P_get_filter_by_id. See SZIP RFC. Platforms tested: Copper (fortran, C++, parallel), Sleipnir (C++), Arabica (fortran, C++), Verbena (fortran, C++) Misc. update:
* [svn-r8731] Purpose:Quincey Koziol2004-06-231-4/+0
| | | | | | | | | | | | | | | Code cleanup & minor optimization Description: Re-work the way interface initialization routines are specified in the library to avoid the overhead of checking for them in routines where there is no interface initialization routine. This cleans up warnings with gcc 3.4, reduces the library binary size a bit (about 2-3%) and should speedup the library's execution slightly. Platforms tested: FreeBSD 4.10 (sleipnir) w/gcc34 h5committest
* [svn-r8383] Purpose:Quincey Koziol2004-04-181-1/+1
| | | | | | | | | | | | | Code cleanup Description: Clean up lots of warnings based on those reported from the SGI compilers as well as gcc. Platforms tested: SGI O3900, IRIX64 6.5 (Cheryl's SGI machine) FreeBSD 4.9 (sleipnir) w/ & w/o parallel h5committest
* [svn-r7237] Purpose:Quincey Koziol2003-07-171-1/+4
| | | | | | | | | | | Code cleanup Description: Move PABLO_MASK above including headers. Platforms tested: FreeBSD 4.8 (sleipnir) too minor for h5committest
* [svn-r7236] Purpose:Quincey Koziol2003-07-161-33/+33
| | | | | | | | | | | Code cleanup Description: Clean up more warnings from lint. Platforms tested: FreeBSD 4.8 (sleipnir) too minor for h5committest
* [svn-r6611] Purpose:Quincey Koziol2003-04-091-2/+17
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Code cleanup/new features Description: Switch over to a new style for registering filters with the library - instead passing in an ID, a string and a callback function to H5Zregister, the client should pass in a single pointer to a H5Z_claass_t struct which contains the ID, the description string and all the function callbacks as fields. Added support for a new "can apply" callback for each filter, which is called when a dataset is created to check whether the parameters for that filter apply correctly to the combination of the datatype and the chunk size (i.e. dataspace) for the dataset. Added support for a new "set local" callback for each filter, which is called when a dataset is created (after the "can apply" filter callback) and sets filter parameters that are specific to that particular dataset. Switched the filters we ship over to use the new H5Z_class_t struct for their internal registrations and also added "set local" callbacks to the szip and shuffle filters and a "can apply" callback to the szip filter. Lots of other code cleanups, etc. also Solution: Platforms tested: FreeBSD 4.8 (sleipnir) w/szip Linux 2.4 (sleipnir) w/szip Solaris 2.7 (arabica) w/FORTRAN IRIX64 6.5 (modi4) w/szip, FORTRAN & parallel Misc. update:
* [svn-r6578] Purpose:Quincey Koziol2003-04-031-21/+56
| | | | | | | | | | | | | | | | Code cleanup Description: Added lots of comments to existing filters, so they are easier to understand and use as examples for future filters. Cleaned up various bits of code, etc. Solution: Platforms tested: FreeBSD 4.8 (sleipnir) IRIX64 6.5 (modi4) w/parallel Misc. update:
* [svn-r6546] Purpose:Bill Wendling2003-03-311-3/+14
| | | | | | | | | | | | Update Description: Updated copyright statement in files which hadn't been updated yet. Platforms tested: Linux (Only comment change) Misc. update:
* [svn-r6375] Raymond Lu2003-02-041-4/+6
| | | | | | | | | | | Purpose: New feature Description: Added Adler32 checksum as a filter in pipeline Platforms tested: arabica (fortran), eirene (, C++), modi4 (parallel, fortran) Misc. update: Update release_docs/RELEASE.
* [svn-r6266] Purpose:Quincey Koziol2003-01-101-1/+1
| | | | | | | | | | | | Code cleanup/new feature. Description: Split FUNC_LEAVE into API and non-API specific versions. This allows a solution to compiling this branch with C++, as well as reducing the size of the binaries produced. Platforms tested: FreeBSD 4.7 (sleipnir) w/serial, parallel (including MPE) & thread-safe
* [svn-r6114] Purpose:Quincey Koziol2002-11-201-40/+15
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Code Cleanup & New Feature Description: H5config.h.in: Removed H5_HAVE_COMPRESSION & H5_HAVE_FILTER_GZIP flags. Added H5_HAVE_FILTER_DEFLATE flag. H5Z.c: H5Zprivate.h: H5Zpublic.h: Switched from using H5_HAVE_COMPRESSION flag in favor of H5_HAVE_FILTER_DEFLATE. Added H5Zunregister & H5Zfilter_avail API functions. Changed a numeric constant (256) to a symbolic constant (H5Z_FILTER_RESERVED). Automatically add the shuffling filter to the list of available filters (when it is enabled). Moved prototypes for H5Z_filter_deflate & H5Z_filter_shuffle from the public header into the private header. H5Zdeflate.c: Switched from using H5_HAVE_COMPRESSION & H5_HAVE_FILTER_GZIP flags in favor of H5_HAVE_FILTER_DEFLATE. Cleaned up formatting & error reporting a bit. H5Zshuffle.c: Rewrote shuffling algorithm to be more efficient. Added error checking & reporting. Added standard Pablo information. Added standard function header comment. Added FUNC_ENTER & FUNC_LEAVE macros. Platforms tested: Tested h5committest {arabica (fortran), eirene (fortran, C++) modi4 (parallel, fortran)} FreeBSD 4.7 (sleipnir)
* [svn-r6071] Purpose:Quincey Koziol2002-11-111-0/+4
| | | | | | | | | | | | Code cleanup Description: Start using the H5_HAVE_FILTER_GZIP macro to enable the gzip filter. Platforms tested: Tested h5committest {arabica (fortran), eirene (fortran, C++) modi4 (parallel, fortran)}? Tested FreeBSD 4.7 (sleipnir) also
* [svn-r5807] Purpose:Bill Wendling2002-07-171-4/+4
| | | | | | | | | | | | | | | | | | | | | | | | | Update, Bug Fix, and Feature Add Description: - Updated how AC_{ENABLE,WITH} help messages were being generated. Autoconf now gives you an AC_HELP_STRING macro to use to create them. - Fixed the problem with Linux LFS on RedHat 7.3 machines. It wasn't finding getdents64(), so we can't rely on that being present anymore... - Added GPFS detection and setting. - Updated how compression is specified. It's no longer necessary to test for HAVE_ZLIB_H, HAVE_LIBZ, and HAVE_COMPRESS2. The one macro {H5_}HAVE_COMPRESSION takes care of all of these. Solution: Changed the check for Linux LFS from looking for getdents() to looking at the version number of the kernel (using the uname -r command). You can still override with the --enable-linux-lfs switch if you really believe that your <2.4 kernel has LFS support. Platforms tested: Linux (2.2 and 2.4)
* [svn-r5667] Purpose:Quincey Koziol2002-06-191-3/+3
| | | | | | | | | | Code cleanup Description: Turn on more warnings in the IRIX builds and clean them up. Platforms tested: IRIX64 6.5 (modi4) w/parallel
* [svn-r5662] Purpose:Quincey Koziol2002-06-181-6/+6
| | | | | | | | | | | | | | | | | Bug fix. Description: The chunking code was using internal allocation routines to put blocks on a free list for reuse, instead of using the system allocation routines (ie. malloc, free, etc.). This causes problems when user filters attempt to allocate/free chunks for their algorithm's use. Solution: Switched the chunking code back to using the system allocation routines, we can address performance issues with them if it becomes a real problem. Platforms tested: Linux 2.2.x (eirene) && IRIX64 6.5 (modi4)
* [svn-r5471] Purpose:Quincey Koziol2002-05-291-1/+1
| | | | | | | | | | | | | | | | Code cleanup Description: Broke the FUNC_ENTER macro into several macros, with more specialized uses (which followup mail will describe). This was designed to move most/all of the checks which could be done at compile time to that point, instead of needlessly performing them (over & over :-) at run-time. This reduces the library's size (and thus staticly linked binaries) and has a minor speedup effect also. Platforms tested: IRIX64 6.5 (modi4) with parallel & FORTRAN enabled, and additional testing on FreeBSD and Solaris immediately after the checkin.
* [svn-r4355] Purpose:Quincey Koziol2001-08-141-1/+1
| | | | | | | | | | | | | | | | | | | | | | Code cleanup (sorta) Description: When the first versions of the HDF5 library were designed, I remembered vividly the difficulties of porting code from a 32-bit platform to a 16-bit platform and asked that people use intn & uintn instead of int & unsigned int, respectively. However, in hindsight, this was overkill and unnecessary since we weren't going to be porting the HDF5 library to 16-bit architectures. Currently, the extra uintn & intn typedefs are causing problems for users who'd like to include both the HDF5 and HDF4 header files in one source module (like Kent's h4toh5 library). Solution: Changed the uintn & intn's to unsigned and int's respectively. Platforms tested: FreeBSD 4.4 (hawkwind)
* [svn-r4018] Purpose:Quincey Koziol2001-06-191-3/+3
| | | | | | | | Code cleanup Description: Removed some more warnings during compilation on SGI machines.. Platforms tested: Irix64-6.5 (modi4)
* [svn-r3781] Purpose:Bill Wendling2001-04-051-6/+6
| | | | | | | | | | | | | | | | | | Update Description: Changed #include <hdf_file.h> construct to #include "hdf_file.h" so that the GNU compiler can more easily pick up the dependencies which it places in the .depend and Dependencies files. Also regenerated the Dependencies to go along with this. Platforms tested: Linux
* [svn-r3252] Purpose:Quincey Koziol2001-01-091-1/+1
| | | | | | | | | | | | | Code cleanup. Description: Fixed _lots_ (I mean _tons_) of warnings spit out by the gcc with the extra warnings. Including a few show-stoppers for compression on IRIX machines. Solution: Changed lots of variables' types to more sensible and consistent types, more range-checking, more variable typecasts, etc. Platforms tested: FreeBSD 4.2 (hawkwind), IRIX64-64 (modi4)
* [svn-r2890] Purpose:Bill Wendling2000-11-131-0/+6
| | | | | | | | | | | Redo of a patch Description: As Quincey pointed out, the parameters are only ``UNUSED'' if we can't find libz.a. Solution: I changed it to conditionally put the UNUSED in there... Platforms tested: Linux
* [svn-r2884] Purpose:Bill Wendling2000-11-131-3/+3
| | | | | | | | | | Removed warnings Description: Unused parameters Solution: Put UNUSED macro before unused params. Platforms tested: Linux
* [svn-r2866] Purpose:Quincey Koziol2000-11-111-4/+4
| | | | | | | | Code cleanup Description: Found more "Have_foo" usage and converted them to "H5_HAVE_foo" Platforms tested: FreeBSD 4.1.1 (hawkwind)
* [svn-r2073] Added free-list code to the library and took out the older ↵Quincey Koziol2000-04-041-7/+8
| | | | | | | "temporary buffer" code, since the functionality was superceded. See the followup document for details on the free-list code.
* [svn-r1708] Turned off compression feature if zlib.h is off.Albert Cheng1999-10-011-0/+3
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* [svn-r1619] ./src/H5O.c [1.2, 1.3]Robb Matzke1999-08-301-0/+144
Fixed a read-uninitialized-memory error that resulted in the file containing small amounts (<8 bytes each) of uninitialized data. These padding areas (which are never read by hdf5) are initialized to zero now. ./MANIFEST ./src/H5Z.c ./src/H5Zdeflate.c [NEW] ./src/H5Zprivate.h ./src/H5Zpublic.h ./src/Makefile.in The zlib filter was moved to a separate file but is still automatically defined.
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