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* VFD SWMR: Warning fixes and minor cleanup (#1847)feature/vfd_swmrDana Robinson2022-07-051-0/+18
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Normalization with develop * Moves remaining datatype code changes over from develop * Cleanup in examples files * Warning cleanup in VFD SWMR code * Committing clang-format changes * Warning cleanup * Warning reduction * More warning fixes * Committing clang-format changes * Even more warning reduction in the VFD SWMR tests * More warning fixes in the VFD SWMR tests * Even more VFD SWMR test warning fixes * Last warning fixes in VFD SWMR * Committing clang-format changes * Minor things missed from develop * Warning fixes from GitHub build failures * Committing clang-format changes * Fix for warning due to weird bit shift type promotion * Yet another attempt at fixing the integral promotion warning Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* VFD SWMR: sync with develop (#1825)Dana Robinson2022-06-241-1/+1979
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * bin directory sync * doxygen changes * C++ sync with develop * Fortran sync with develop * Sync various docs with develop * Java sync with develop * More doxygen sync with develop * tools sync with develop * h5test.h testing macros get enclosed in do..while loops (#1721) * Minor examples normalization with develop * hl sync with develop * sprintf to snprintf (#1815) * Misc sync w/ develop * Brings some selection I/O bits over from develop * Brings over some const fixes from develop * Brings over more const bits from develop * Minor bits missed in early syncs * Brings over rest of selection I/O * Sync of mirror VFD changes w/ develop * Committing clang-format changes * Adds missing testpar file Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* VFD SWMR: Merges from develop (#1670)Dana Robinson2022-04-211-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Cleans up SWMR test scripts (both legacy and VFD) * Brings over format source changes for Java * Normalization of HL, Fortran, C++, Java w/ develop * Removes the STATIC flavor of FUNC_ENTER macros (#1622) * Removes the STATIC flavor of FUNC_ENTER macros * Remove H5_NO_ALIGNMENT_RESTRICTIONS (#1426) * Do not conditionally compile code that uses a pointer dereference and assignment to copy a potentially unaligned variable to aligned automatic storage, or vice versa. Instead, always use naked `memcpy(3)`s. Disassembling the generated code reveals that the `memcpy(3)`s optimize (`-O3`) to a single `mov` instruction for x86_64, which is not strict about alignment. This change reduces the size of code and scripts by 143 lines, eases our way to cross-compilation, and avoids invoking undefined behavior. * Committing clang-format changes * Per discussion, use HD and add comments. Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Removes unused definitions from module headers (#1624) * Misc stuff from develop (includes some parallel things) * Brings over SWMR test quiet mode changes from develop Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* VFD SWMR: Normalization with develop (#1506)Dana Robinson2022-03-231-20/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Brought over plugin and test script changes * Removes remaining register keywords (#1481) * Fixed warnings in the aux process code * Minor fixes from develop * Minor changes from develop, fixed format warnings * Formatted source * Added HD prefix to timespec_get * Cleanup in new files * Removes the MANIFEST file and unused release files (#1497) * Removes the MANIFEST file and unused release files * Updated tar command * checkposix corrections * More checkposix fixes * Ripped out unused instrumentation functionality * Brought over cache tagging changes from develop * Changes to tagged metadata expulsion iteration * Fixed typo * Brought over H5O__free() changes from develop * Brings (unused) parallel page buffer test in line with develop * Moved the functionality in supervise.subr to test_vfd_swmr.sh * Tools VFD parameter updates * Committing clang-format changes * H5F VFD SWMR refactoring * Committing clang-format changes * Misc changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* VFD SWMR: normalization with develop (#1472)Dana Robinson2022-03-061-11/+383
| | | Much normalization with develop. Still needs tools changes wrt VFD plugins.
* Brings native H5Fdelete implementation from developDana Robinson2021-05-051-0/+44
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* Updates license url and history docsDana Robinson2021-03-251-1/+1
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* Formats the source and updates the gcc warning pragmasDana Robinson2021-03-251-81/+66
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* Trim trailing whitespaceQuincey Koziol2020-05-201-2/+2
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* Intermin commit to allow update from Vailin's recent changesmainzer2019-01-151-0/+2
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* Merge branch 'develop' of ↵Vailin Choi2018-09-261-95/+72
|\ | | | | | | | | | | | | | | | | | | https://bitbucket.hdfgroup.org/scm/~vchoi/my_hdf5_fork into feature/vfd_swmr Conflicts: src/H5AC.c src/H5F.c src/H5Pfapl.c Resolve conflicts for H5AC.c, H5F.c and H5Pfapl.c
| * Normalization with vol_integration (property lists, file drivers,Dana Robinson2018-09-211-95/+72
| | | | | | | | other misc).
* | Second batch of checkin:Vailin Choi2018-09-041-109/+0
| | | | | | | | | | | | | | | | 1) Define driver for the VFD SWMR reader 2) Implement VFD SWMR open callback 3) Implement H5FD_vfd_swmr_get_tick_and_idx() 4) Load and decode metadata file header and index 4) Closing for VFD SWMR
* | Preliminary checkins for implementation done so far:Vailin Choi2018-08-141-0/+108
|/ | | | | | | | | | | | 1) Public routines: H5Pget/set_vfd_swmr_config 2) Public routine: H5Fvfd_swmr_end_tick 3) Initialization when opening a file with VFD SWMR writer 4) Tests in test/vfd_swmr.c for VFD SWMR 5) Fix a bug in src/H5Fint.c: when error is encountered after the root group is created Note the following: --This is WORK IN PROGRESS and will subject to change as implementation goes. --There is test failure form enc_dec_plist.c: I will fix this when changes to the property list are settled. --The branch is updated with the latest from develop as of 8/14/2018
* Add API context interface and use it throughout the library.Quincey Koziol2018-03-151-80/+30
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* * Added new public H5FDdriver_query() API call.Dana Robinson2017-05-241-5/+3
| | | | | | * Changed return type of H5FD_driver_query() to herr_t. * Updated swmr.c to use H5FDdriver_query() instead of the private call. * Added some flags tests to vfd.c.
* * Made H5FD_driver_query() a private function instead of static.Dana Robinson2017-05-241-0/+37
| | | | | | | * Moved H5FD_driver_query() to H5FDint.c. * Minor typo fixes in H5I.c. * Updated swmr.c to check the VFD feature flags and skip the retries test when the VFD is not compatible with H5P_DEFAULT.
* 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.
* Bring changes to I/O parameters from page_buffering branch.Quincey Koziol2017-03-131-22/+37
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* Bring SWMR support in to the main development branch. (Finally!) More testsQuincey Koziol2016-12-021-3/+10
| | | | and the tool and API wrappers will be coming in over the weekend.
* Warning and whitespace cleanup.Quincey Koziol2016-11-031-3/+15
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* [svn-r29057] added dxpl type checking when debug mode is enabled ↵Mohamad Chaarawi2016-02-071-0/+38
| | | | | | (H5_DEBUG_BUILD) tested on bb-8 with Serial and Parallel, debug and production builds.
* [svn-r27768] Description:Quincey Koziol2015-09-141-28/+3
| | | | | | | | | | | | | | | | | | | | | | Complete revamp of package initialization/shutdown mechanism in the library. Each package now has a single init/term routine. This new way should avoid packages being re-initialized during library shutdown and is also be _much_ more proactive about giving feedback for resource leaks internal to the library. Introduces a new "module" header file for packages in the library (e.g src/H5Fmodule.h) which sets up some necessary package configuration macros for the FUNC_ENTER/LEAVE macros. (The VFL drivers have their own slightly modified version of this header, src/H5FDdrvr_module.h) Also cleaned up a bunch of resources leaks all across the library and tests, along with addressing many warnings, as I encountered them. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel Linux/64 3.10.x (kituo) w/serial & parallel Linux/64 2.6.x (ostrich) w/serial
* [svn-r26012] make the print format for address overflow error windows friendly.Mohamad Chaarawi2015-01-231-4/+4
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* [svn-r26005] fix error return value. minor change.Mohamad Chaarawi2015-01-221-2/+2
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* [svn-r26002] move checks on reading/writing beyond file eoa outside of the ↵Mohamad Chaarawi2015-01-221-0/+14
| | | | | | file drivers and into a centralized place in H5FD_read/write. tested h5committest.
* [svn-r25929] Description:Quincey Koziol2014-12-291-4/+7
| | | | | | | | | | Clean up EOF code within library and add 'mem_type' parameter to 'get_eof' VFD callback, to avoid various ambiguous situations, particularly with the multi VFD. (Supports changes for 'avoid_truncate' feature also) Tested on: MacOSX/64 10.10.1 (amazon) w/serial & parallel h5committest forthcoming
* [svn-r25097] Description:Quincey Koziol2014-04-251-0/+64
| | | | | | | | | | | Make progress toward moving from DXPL IDs to property list structures within the library. Also move the signature location code from the H5F package to the H5FD package, where it's a better fit. Also, clean up some more compiler warnings along the way. Tested on: Mac OSX/64 10.9.2 (amazon) w/C++, FORTRAN & parallel (h5committest forthcoming)
* [svn-r25084] Description:Quincey Koziol2014-04-231-9/+6
| | | | | | | | | Begin process of migrating from using property list IDs internally to the library to using the internal generic property list data structure. Tested on: Mac OSX/64 10.9.2 (amazon) w/C++, FORTRAN & parallel (h5committest forthcoming)
* [svn-r23713] Description:Quincey Koziol2013-05-211-1/+1
| | | | | | | | | | Clean up warnings, switch library code to use Standard C/POSIX wrapper macros, remove internal calls to API routines, update checkapi and checkposix scripts. Tested on: Mac OSX/64 10.8.3 (amazon) w/C++ & FORTRAN Big-Endian Linux/64 (ostrich)
* [svn-r21919] Description:Quincey Koziol2012-02-091-6/+6
| | | | | | | | Refactor function name macros and simplify the FUNC_ENTER macros, to clear away the cruft and prepare for further cleanups. Tested on: Mac OSX/64 10.7.3 (amazon) w/debug, production & parallel
* [svn-r16615] Purpose: Fix bug 1499Neil Fortner2009-03-261-3/+18
| | | | | | | | | | | Description: Due to a bug in H5F_super_read, every time a file with a user block was opened it would grow by the size of the user block. The bug has been fixed, and comments have been added to clarify when an eoa address should be relative and when it should be absolute. Tested: jam, linew (h5committest)
* [svn-r15800] Description:Quincey Koziol2008-10-071-0/+297
Bring file free space branch changes through r15795 into trunk, which includes a fair bit of code cleanup & rearrangement along with a couple of bug fixes also. 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 (kagiso) 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
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