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* Merge with develop (#2790)Dana Robinson2023-04-221-3/+0
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* Update copyright headers (#2184)Larry Knox2022-11-011-1/+0
| | | | | * Updated source file copyright headers to remove "Copyright by the Board of Trustees of the University of Illinois", which is kept in the top-level COPYING file.
* Develop clang 13 format (#1933)Allen Byrne2022-07-261-15/+15
| | | | | * Update format source to clang 13 * More format changes
* Adds the malloc attribute to appropriate functions (gcc only) (#1866)Dana Robinson2022-07-111-10/+10
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* Add missing H5FL_TRACK debug parameters to free list array routines (#1555)jhendersonHDF2022-03-301-6/+12
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* Fixed Spelling Errors (#1166)Scot Breitenfeld2021-12-071-4/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * fixed missed closing of a dataset * fixed missed closing of a dataset * fixed typo in error return * Committing clang-format changes * minor edits * code format * Committing clang-format changes * code format * minor edit * switched from using MPI_count, to actual bytes written for H5FD_mpio_debug rw debugging * Committing clang-format changes * changed size_i in printf to reflect the I/O. * Committing clang-format changes * Fixed seg fault with xlf on BE with -qintsize=8 * fixed error function string * spelling corrections via codespell, added new spell check github actions * Committing clang-format changes * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * Committing clang-format changes * misc * misc * misc * misc * misc * misc * Committing clang-format changes * misc * work around for https://github.com/codespell-project/codespell/issues/2137 * misc * added missing file * misc * misc. * misc * switch to using Codespell with GitHub Actions * misc. * misc. * fixed more sp errors * Fix new typos found by codespell. * fixed proceed with precede * fixed variable in fortran test * fixed minnum * updated spelling list Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Larry Knox <lrknox@hdfgroup.org>
* Fixes parallel issues from recent C99 changes (#809)Dana Robinson2021-06-301-1/+1
| | | | | | | * Fixes parallel issues from recent C99 changes * Adds MPE FUNC --> __func__ changes missed in earlier PRs * Even more missed FUNC --> __func__ macros
* Fixed many -Wreserved-id-macro warnings by fixing header guard spelling (#361)Sean McBride2021-02-231-2/+2
| | | | | | | | | | | | | | | | * Fixed many -Wreserved-id-macro warnings by fixing header guard spelling Removed leading underscore(s) from header guard spelling. Used 2 regexes: ` _H5(.*)_H` ` __H5(.*)_H` Applied case-insensitively to only .h files. * Modified scripts that generate header files to not use underscore prefix Interestingly, there was already no leading underscore in the trailing comment at the end of the file * Fixed remaining -Wreserved-id-macro warning not caught by regex
* Update license url (#332)Larry Knox2021-02-171-1/+1
| | | | | | * Modify temporary rpath for testing in java example scripts. * Update URL in source file Copyright headers for web copy of COPYING file - src and test directories.
* Clang-format of source filesAllen Byrne2020-09-301-149/+152
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* Clean up private / package / static namespace issues (function naming, whichQuincey Koziol2020-08-061-3/+1
| | | | | | header file, FUNC_ENTER / LEAVE, etc). Removed remaining personal email addresses from library source code (still needs cleaned from other directories). Misc. warning, style, and whitespace cleanup.
* Add routines to query the library's free list sizes and allocation stats.Quincey Koziol2020-03-101-5/+11
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* Updated configure & CMake compiler flags for GCC 8.x, along with correspondingQuincey Koziol2019-06-281-2/+2
| | | | | changes to warnhist script (and some extra improvements for condensing C++ and Java warnings), and fixed a bunch of warnings.
* Merge pull request #426 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10 to ↵Larry Knox2017-04-251-6/+4
| | | | | | | | | | hdf5_1_10 * commit '54957d37f5aa73912763dbb6e308555e863c43f4': Commit copyright header change for src/H5PLpkg.c which was added after running script to make changes. Add new files in release_docs to MANIFEST. Cimmit changes to Makefile.in(s) and H5PL.c that resulted from running autogen.sh. Merge pull request #407 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10_1 to hdf5_1_10_1 Change copyright headers to replace url referring to file to be removed and replace it with new url for COPYING file.
* [svn-r30189] Description:Quincey Koziol2016-07-181-6/+6
| | | | | | | | | Clean up more warnings: drop the warning count from ~1310 down to ~940, with only 31 types of warnings in 148 files (down from 38 types in 167 files). Tested on: MacOSX/64 10.11.5 (amazon) w/serial & parallel (h5committest forthcoming)
* [svn-r27133] - Add a new attribute function characterstic for format:Mohamad Chaarawi2015-06-011-3/+3
| | | | | | | | * H5_ATTR_FORMAT(X,Y,Z) __attribute__((format(X, Y, Z))) - Rename UNUSED attribute characterstic to H5_ATTR_UNUSED. - Rename NORETURN attribute characterstic to H5_ATTR_NORETURN tested with h5committest.
* [svn-r18702] Description:Quincey Koziol2010-05-051-2/+2
| | | | | | | | | | | | | | | | | | | | | | | Bring r18672 from metadata journaling "merging" branch to trunk: Mostly changes to move to only using one 'user data' parameter for calls to H5AC_protect(), along with some minor reformatting code cleanups. 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-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode Mac OS X/32 10.6.3 (amazon) in debug mode Mac OS X/32 10.6.3 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r18616] Description:Quincey Koziol2010-04-221-7/+7
| | | | | | | | Clean up compiler warnings. Tested on: Mac OS X/32 10.6.3 (amazon) w/debug (too minor to require h5committest)
* [svn-r18612] Description:Quincey Koziol2010-04-221-2/+2
| | | | | | | | Clean up compiler warnings & code formatting Tested on: Mac OS X/32 10.6.3 (amazon) w/debug (too minor to require h5committest)
* [svn-r16847] Description:Quincey Koziol2009-04-231-2/+14
| | | | | | | | | | | | | Bring r16846 from revise_chunks branch back to trunk: Fix broken (for how long?) H5_ASSIGN_OVERFLOW macro to actually detect overflows during assignments, along with several errors it [now] detected. Cleaned up a fix minor warnings and/or pieces of code also. Tested on: FreeBSD/32 6.3 (duty) in debug mode (h5committest not needed - multi-platform test performed on branch)
* [svn-r16702] Purpose: Improve performance of factory free lists.Neil Fortner2009-04-081-8/+16
| | | | | | | | | | | Description: Factory free lists were formerly implemented as block free lists. This was inefficient as factories can only be one size, and implementing them as blocks (which can be variable size) wastedd computation and space. They have been rewritten with a separate implementation, which is simlar to regular free lists except they can be dynamically created and destroyed. Tested: jam, linew, smirom (h5committest)
* [svn-r16560] Description:Quincey Koziol2009-03-101-8/+8
| | | | | | | | | | Remove another call to H5E_clear_stack() from within the library. Clean up lots of compiler warnings. Tested on: Mac OS X/32 10.5.6 (amazon) (followup on other platforms forthcoming)
* [svn-r16137] Description:Quincey Koziol2008-11-281-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | Add support for paging large data blocks to extensible arrays Clean up allocation/destroy code for extensible array index, super and data blocks Add a couple of routines to set/get bit values in memory buffers Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode 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 production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15510] Description:Quincey Koziol2008-08-211-1/+1
| | | | | | | | Clean up warnings & formatting Tested on: Mac OS X/32 10.5.4 (amazon) More tests forthcoming
* [svn-r13814] Description:Quincey Koziol2007-05-291-1/+1
| | | | | | | | | | | | | | Change back to clearing memory buffers by default, but give users option to disable this, for performance reasons (--disable-clear-file-buffers). Also, add configure option (--enable-using-memchecker) to conveniently control making the library "play nice" with memory checking tools like valgrind and purify. Tested on: Mac OS X/32 10.4.9 (amazon) FreeBSD/32 6.2 (duty) Linux/32 2.6 (kagiso)
* [svn-r13772] Description:Quincey Koziol2007-05-201-5/+5
| | | | | | | Reduce compiler warnings when free list manager is disabled. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13770] Description:Quincey Koziol2007-05-191-1/+4
| | | | | | | Clean up various memory leaks, etc. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13751] Description:Quincey Koziol2007-05-141-2/+2
| | | | | | | | | Reduce the number of warnings when free lists are disabled. Tested on: Mac OS X /32 10.4.9 (amazon) Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [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-r12739] Added Direct I/O driver to VFD. It's only supported by SGI ↵Raymond Lu2006-10-101-1/+1
| | | | | | | | | | Altix (cobalt). There's a configure option --enable-direct-vfd/--disable-direct-vfd to enable/disable Direct I/O support. The default is enabled. There's a small test in test/vfd.c. Another way to test it is to set environment variable HDF5_DRIVER to "direct" and run "make check" in the test/ directory. There'll be some further improvement in the following checkin including allowing user to provide memory boundary value, file block size, and copying buffer size.
* [svn-r12560] Description:Quincey Koziol2006-08-101-3/+3
| | | | | | | Correct some typos in comments Testing: None needed
* [svn-r12320] Purpose:Quincey Koziol2006-05-021-1/+1
| | | | | | | | | | code cleanup Description: Finish H5FS->H5CS internal API name changes... Platforms tested: FreeBSD 4.11 (sleipnir) w/ & w/o --enable-codestack
* [svn-r11852] Purpose:Quincey Koziol2006-01-021-18/+18
| | | | | | | | | | | Code cleanup/update Description: Update compiler flags for gcc 4.1.x & start cleaning up some of the C++ compatibility Platforms tested: FreeBSD 4.11 (sleipnir) w/gcc 4.1 and/or g++
* [svn-r11282] Purpose:Quincey Koziol2005-08-201-23/+61
| | | | | | | | | | | | | | | | | New debugging feature Description: Add some code to track where memory from the internal free list allocator is allocated within the library. It's not quite ready for "prime time" yet, but it's close enough to be useful. This is disabled by default and requires the H5FL_TRACK macro in src/H5FLprivate.h to be uncommented to activate during debugging. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 Too minor to require full h5committest
* [svn-r11245] Purpose:Quincey Koziol2005-08-131-1/+1
| | | | | | | | | | | | | | | | | | | | 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-r10857] Purpose:Quincey Koziol2005-06-031-1/+1
| | | | | | | | | | Code cleanup Description: Re-enable free-list management in the library Platforms tested: None - eyeballed - too minor to require h5committest
* [svn-r10847] Purpose: Bug fixRaymond Lu2005-06-021-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Description: See details from Bug #213. Family member file size wasn't saved anywhere in file. When family file is opened, the first member size determine the member size. Solution: This is the fourth step of checkin. A test suit is added for h5repart, including a program to generate the test files, a script file to run h5repart, and a program to verify repartitioned files can be opened by the library. There's a change from the first step of checkin. Family name template is no longer saved in the superblock because different pathname can make the name different. In the third step of checkin, h5repart has been modified. If h5repart is used to change the size of family member file, the new size(actual member size) is saved in the superblock. In the second step of checkin, multi driver is checked against the driver name saved in superblock. Wrong driver will result in a failure with an error message indicating multi driver should be used. This change includes split driver because it's a special case for multi driver. In the first step of checkin. Family member size and name template(unused at this stage) are saved in file superblock. When file is reopened,the size passed in thrin superblock. A different size will trigger a failure with an error message indicating the right size. Wrong driver to open family file will cause a failure, too. Platforms tested: h5committest and fuss. Misc. update: MANIFEST
* [svn-r10618] Purpose:Quincey Koziol2005-04-161-1/+1
| | | | | | | | | | | | | Bug fix Description: Correct typo in "base array" free list macro when free list macros are disabled. Platforms tested: FreeBSD 4.11 (sleipnir) Solaris 2.9 (shanti) Too minor to require h5committest
* [svn-r10580] Purpose:Quincey Koziol2005-04-081-12/+21
| | | | | | | | | | | Code optimization Description: Add "base" size to array free list code, to accomodate skip list nodes. Platforms tested: FreeBSD 4.11 (sleipnir) Solaris 2.9 (shanti)
* [svn-r10547] Purpose:Quincey Koziol2005-04-051-1/+1
| | | | | | | | | | | Bug fix (sorta) Description: Re-enable free-lists in library. Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
* [svn-r10535] Purpose: Spliting TestRaymond Lu2005-04-041-1/+1
| | | | | | | | | | | | Description: Split test/dtypes.c because it's so big. Moved all integer-integer, floating-floating, integer-floating, floating-integer, derived integer, derived floating conversion tests to a new test program, dt_atomic.c. The test remains the same basically. Platforms tested: fuss and h5committest Misc. update: MANIFEST
* [svn-r9978] Purpose:Xuan Bai2005-02-101-16/+16
| | | | | | | | | | | | | | | | | | | Bug fix. Description: Quincey changed "entern H5_DLL" to "H5_DLLVAR" in hdf5/src/H5FLprivate.h which caused some symbols can not be exported correctly by HDF5 DLL. Solution: Change "H5_DLLVAR" back to "extern H5_DLL". Platforms tested: Visual C++ 6.0 on Windows XP. .NET 2003 on Windows XP. Heping (Linux 2.4). (Note: I talked with Elena and Quincey about this failure. Quincey asked me to check in this fix.) Misc. update:
* [svn-r9939] Purpose:Quincey Koziol2005-02-041-16/+16
| | | | | | | | | | | | | New feature Description: Expand v2 B-tree code to support splitting the root node when enough records are inserted and move metadata cache callbacks into their own source file. Platforms tested: FreeBSD 4.11 (sleipnir) w/parallel Too minor for h5committest
* [svn-r9928] Purpose:Quincey Koziol2005-02-031-0/+35
| | | | | | | | | | | | | New feature Description: Add basic code for new B-tree implementation. They don't do much yet, aren't hooked up to anything yet and the format may change, but I'd like to start getting them into the daily tests. Platforms tested: FreeBSD 4.11 (sleipnir) w/parallel Too minor to require h5committest
* [svn-r8946] Purpose:Quincey Koziol2004-07-261-2/+2
| | | | | | | | | | | | | | | | | | Code cleanup, sorta Description: Added ifdef sections for "H5_USING_PURIFY" in various places in the code, which are designed to reduce the spurious "uninitialized memory read" warnings from purify which are actually OK. Note that this macro will have to be turned on by adding it to the CFLAGS for the build - I didn't think it was important enough to add a configure flag for. Also, the changes in H5HG.c optimize the walks through the objects in a heap to only look at the 'used' entries instead of all the 'allocated' entries. Platforms tested: Solaris 2.7 (arabica) w/purify Not tested by h5committest
* [svn-r8922] Purpose: Restore the original codeRaymond Lu2004-07-211-1/+1
| | | | | | | | Description: Line 38, "#define H5_NO_FREE_LISTS" were commented out during debugging Solution: put back in. Platforms tested: No test needed
* [svn-r8921] Purpose: new featureRaymond Lu2004-07-211-1/+1
| | | | | | | | | | | | | | Description: This is the second step of checkin for encoding and decoding objects. H5Tencode and H5Tdecode have been committed in the previous step. H5Sencode and H5Sdecode are checked in this time. Solution: Given object ID, these functions encode and decode object information into and from binary buffer and return new object ID. They take advantage of the existing codes of object header message and encode in the same format. Platforms tested: fuss and h5committest. Misc. update: RELEASE.txt
* [svn-r8301] Purpose:Quincey Koziol2004-04-061-14/+73
| | | | | | | | | | | | | Code optimization Description: Move handling for free list arrays that have no maximum size to separate set of routines and optimize computations for free list arrays with maximum size to avoid re-computing sizes all the time. Platforms tested: h5committest Solaris 2.7 (arabica)
* [svn-r7988] Purpose:Quincey Koziol2003-12-291-1/+1
| | | | | | | | | | | Bug fixes & code cleanup Description: Back out some of the debugging that was inadvertently checked in recently. Platforms tested: FreeBSD 4.9 (sleipnir) too minor to require h5committest
* [svn-r7984] Purpose: bug fixRaymond Lu2003-12-291-1/+1
| | | | | | | Description: VL datatype fails in certain way(hard to describe) Platforms tested: h5committest
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