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* Consolidate shadow-file allocation code in H5MV.c.David Young2020-01-301-24/+0
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* Merge all of my changes from merge-back-to-feature-vfd_swmr-attempt-1,David Young2019-12-091-28/+155
| | | | | | | | including the merge of `hdffv/hdf5/develop`, back to the branch that Vailin and I share. Now I need to put this branch on a fork with a less confusing name than vchoi_fork!
* Third batch of checkin:Vailin Choi2018-09-281-0/+24
| | | | | | | | | | 1) Free space manager for the metadata file 2) Delayed free space release linked list 3) H5F_update_vfd_swmr_metadata_file() 3) VFD SWMR driver: read callback 4) Flushing for VFD SWMR 5) Port one concurrent test from swmr test set 6) Bug fixes and refactoring
* Merge branch 'develop' of ↵Vailin Choi2018-09-261-3/+3
|\ | | | | | | | | | | | | | | | | | | 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 (misc internal and datatype)Dana Robinson2018-09-201-3/+3
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* | Preliminary checkins for implementation done so far:Vailin Choi2018-08-141-0/+23
|/ | | | | | | | | | | | 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
* Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into ↵Quincey Koziol2018-03-181-30/+62
|\ | | | | | | | | | | merge_func_enter_vol Plus initial steps toward merging API context push into FUNC_ENTER_API* macros
| * Modifications made based on comments from pull request.Vailin Choi2018-02-071-2/+2
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| * Merge branch develop into bugfix/version_boundsVailin Choi2018-01-121-1/+1
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| | * HDFFV-9724 Corrected files and verified testsAllen Byrne2017-12-281-1/+1
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| | * Revert "Merge pull request #826 in HDFFV/hdf5 from ~BYRN/hdf5_adb:develop to ↵lrknox2017-12-221-1/+1
| | | | | | | | | | | | | | | | | | | | | develop" This reverts commit b1223dd653e65e076af92b2dfe236f3704da81c8, reversing changes made to b25f123f5f5e25c1447a6a02861cb7c7265c12f2.
| | * HDFFV-9724 combine efc and vds into one functionAllen Byrne2017-12-131-1/+1
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| * | Changes made based on code reviews.Vailin Choi2018-01-121-3/+8
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| * | Merge branch 'develop' into bugfix/version_boundsVailin Choi2017-12-081-4/+4
| |\ \ | | |/ | | | | | | Merge from develop.
| | * Normalization with VOL integration branch.Dana Robinson2017-12-051-4/+4
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| * | (1) Merge branch 'develop' into bugfix/version_boundsVailin Choi2017-11-251-410/+218
| |\ \ | | |/ | | | | | | | | | | | | (2) Add two new options to h5repack for low and high bounds as in H5Pset_libver_bounds. (3) Modify message pre_copy callbacks so that H5Ocopy can handle version bounds check. (4) Add version bounds check for cache image feature.
| * | Initial checkin for library version boundsVailin Choi2017-10-031-28/+50
| | | | | | | | | | | | Code changes to provide versioning support when adding to the enumerated defines for H5F_libver_t.
* | | Add API context interface and use it throughout the library.Quincey Koziol2018-03-151-1/+1
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* | Remove tabsAllen Byrne2017-11-081-411/+214
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* 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.
* Final merge of page buffering branch to developQuincey Koziol2017-03-141-0/+147
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* Merge branch 'develop' into eoc_valgrind_bugfixDana Robinson2016-11-261-0/+23
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| * Merge pull request #166 in HDFFV/hdf5 from ↵Dana Robinson2016-11-211-1/+27
| |\ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ~DEROBINS/hdf5_der:eoc_valgrind_bugfix to develop Two minor evict-on-close changes: * Fix for a valgrind-reported issue where invoking EoC behavior when the file is closing leads to garbage file data being passed to downstream calls. The solution is to ignore EoC when the file is closing anyway. * Added brackets so an infinite loop that arises when evicting tagged entries (due to pinned entries preventing progress) raises an error instead. * commit '4e7b19f8260a7adb0e3b3df30e2d8289fccdcca6': Two minor cache changes:
| * | Bring over support for retrying metadata cache entry loads, along with all theQuincey Koziol2016-11-201-0/+23
| | | | | | | | | | | | supporting metadata cache callback changes, etc.
* | | Tentative fix for valgrind issues related to EoC.Dana Robinson2016-11-261-25/+0
| |/ |/| | | | | | | | | | | | | | | Adds /*out*/ parameters to H5O_close() and H5F_try_close() so that H5D/G_close() will know when H5O_close() has triggered a file close and thus the file struct is not reliable. Also removes the H5F_CLOSING() macro and related which were formerly used to check if the file was closing.
* | Two minor cache changes:Dana Robinson2016-11-201-1/+27
|/ | | | | | | | | | | | * Evict-on-close behavior is now skipped when the file is closing. This fixes a potential issue discovered by Valgind on Windows where potentially garbage data would be availble for manipulation. * Added brackets to some code in the tagged entry evict iterators so that the flag that determines if progress was made only gets set if things are actually evicted. This prevents an infinite loop (and emits an error) when pinned entries prevent eviction and thus progress.
* Add cache logging property and file pieces.Quincey Koziol2016-11-041-0/+84
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* [svn-r30084] First pass at the evict-on-close feature.Dana Robinson2016-06-151-0/+27
| | | | | | | | | | The features is controlled via H5Pset/get_evict_on_close() and is currently enabled by default (it will be disabled by default in the final implementation). There is a bug in the code where the eviction of tagged metadata fails due to some of the metadata being dirty, resulting in error return values and test failures.
* [svn-r29612] Description:Quincey Koziol2016-04-031-9/+8
| | | | | | | | | Bring updated layout and EFL property comparisons and new "latest format" flags from revise_chunks branch. Tested on: MacOSX/64 10.11.4 (amazon) w/serial, parallel & production (h5committest forthcoming)
* [svn-r29182] Re-commit of HDFFV-8740 fix, which adds the ability to configureDana Robinson2016-02-221-1/+1
| | | | | | | | | | | | external dataset storage path behavior. This check-in fixes a bug in the original check-in where the external path stored in the file struct was not copied on reopen causing subsequent dataset operations to fail. Tested on: 64-bit Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1 autotools serial w/ fortran and C++ autotools parallel (MPICH 3.1.4) w/ fortran
* [svn-r29084] Revert of:Dana Robinson2016-02-111-1/+1
| | | | | | | | | | | | | | | r29069 and 72 (gheap cleanup) r29041 and 43 (HDFFV-8740 external storage) These cause problems in the daily tests. They will be re-introduced when their respective problems have been addressed. Tested on: 64-bit Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1 autotools serial (check-vfd) w/ Fortran and C++ autotools parallel w/ Fortran CMake serial
* [svn-r29077] Description:Quincey Koziol2016-02-101-0/+28
| | | | | | | | Normalize against the trunk, in preparation for final merge. Tested on: MacOSX/64 10.11.3 (amazon) w/serial & parallel (h5committest not required on this branch)
* [svn-r29041] Patch from Steffen Kiess that allows a relative path to be ↵Dana Robinson2016-02-041-1/+1
| | | | | | | | | | | specified for external dataset files set via H5Pset_external(). Resolves HDFFV-8740 Tested on: 64-bit Ubuntu 15.10 (Linux 4.2.0 x86_64) gcc 5.2.1 autotools serial
* [svn-r27768] Description:Quincey Koziol2015-09-141-2/+2
| | | | | | | | | | | | | | | | | | | | | | 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-r24476] Description:Quincey Koziol2013-11-301-1/+1
| | | | | | | | | Remove duplicate "intent" flags from top & shared file structures, leaving them only in the shared file structure. Tested on: Mac OSX/64 10.9.0 (amazon) w/gcc 4.8, both parallel & serial (too minor to require h5committest)
* [svn-r24087] Rename the private H5RC (reference count) module to H5UC (Use ↵Mohamad Chaarawi2013-08-301-1/+1
| | | | | | | | | | | | Count). This is needed to avoid a conflict with the Read Context object to be introduced in another Project. No impact on users, since this is a private module, and low for developers as the RC module use is very sparse in the library. Tested with h5committest.
* [svn-r21919] Description:Quincey Koziol2012-02-091-69/+69
| | | | | | | | 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-r21135] Description:Quincey Koziol2011-07-211-13/+178
| | | | | | | | | | | | | | | | More code cleanups to reduce coupling with the H5F package. Tested on: FreeBSD/32 8.2 (loyalty) w/gcc4.6, w/C++ & FORTRAN, in debug mode FreeBSD/64 8.2 (freedom) w/gcc4.6, 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 (koala) 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, w/threadsafe, in production mode Linux/PPC 2.6 (heiwa) w/C++ & FORTRAN, w/threadsafe, in debug mode Mac OS X/32 10.6.8 (amazon) in debug mode
* [svn-r21133] Description:Quincey Koziol2011-07-201-0/+23
| | | | | | | | | | | | | | | | | More code cleanups to reduce coupling between packages that use the H5F internal routines, but really aren't part of the H5F "package". Tested on: FreeBSD/32 8.2 (loyalty) w/gcc4.6, w/C++ & FORTRAN, in debug mode FreeBSD/64 8.2 (freedom) w/gcc4.6, 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 (koala) 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, w/threadsafe, in production mode Linux/PPC 2.6 (heiwa) w/C++ & FORTRAN, w/threadsafe, in debug mode Mac OS X/32 10.6.8 (amazon) in debug mode
* [svn-r21126] Description:Quincey Koziol2011-07-191-0/+49
| | | | | | | | | | | | | Clean up some compiler warnings, but mainly an interim checkin on the path of reducing code coupling in the library by removing most of the places which were accessing H5F package definitions. Tested on: Mac OS X/32 10.6.8 (amazon) w/debug FreeBSD/32 8.2 (loyalty) w/debug FreeBSD/64 8.2 (freedom) w/debug Linux/64 2.6 (heiwa) w/debug Linux/64 2.6 (ember) w/parallel
* [svn-r17939] Description:Quincey Koziol2009-12-011-19/+111
| | | | | | | | | | | | | | | | | | | | | | | Handle external links from symlinked files by adding another check to look for "child" files for links from the actual location of the "parent" file, instead of from the location of the symlink. 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 (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 10.6.2 (amazon) in debug mode Mac OS X/32 10.6.2 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r17885] Decription:Quincey Koziol2009-11-131-2/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | | | Convert 'huge' fractal heap object management code to use refactored v2 B-tree routines. Also, switch internal representation of 'sizeof_addr' and 'sizeof_size' in files to be uint8_t's instead of size_t's, since they are stored in single bytes in the file format. Various other minor compiler warning cleanups and error call tweaks. 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 (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 10.6.2 (amazon) in debug mode Mac OS X/32 10.6.2 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r17365] Description:Quincey Koziol2009-08-151-3/+6
| | | | | | | | | | | | | | | | | | | | Final merge of changes from sblock_mdc branch back to trunk. The superblock is now managed by the metadata cache. 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 (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 Mac OS X/32 10.5.8 (amazon) in debug mode Mac OS X/32 10.5.8 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r17341] Description:Quincey Koziol2009-08-121-2/+0
| | | | | | | Tweaks to comments, to better align with changes on sblock_mdc branch Tested on: Just eyeballed, only tweaks to comments
* [svn-r17138] Description:Quincey Koziol2009-07-011-1/+28
| | | | | | | | | | | | | | | | | | | | | | | Disable use of temporary file space allocation when using a parallel VFD, until we've made changes to broadcast the new address of the metadata when it is relocated down into 'normal' file space. 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 10.5.8 (amazon) in debug mode Mac OS X/32 10.5.8 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r17035] Description:Quincey Koziol2009-06-111-0/+29
| | | | | | | | | Add private macro for testing if an address is in the 'temporary' file space for a file. Tested on: FreeBSD/32 6.3 (duty) Too minor to require h5committest
* [svn-r17017] Description:Quincey Koziol2009-06-081-29/+0
| | | | | | | | | | | | | | | | | | | | | | | Rework the "proxy address" code to be more general and implement a better "temporary address" feature, that will allow for metadata allocations to be deferred to when the metadata is actually flushed to the file. 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 10.5.7 (amazon) in debug mode Mac OS X/32 10.5.7 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r17010] Description:Quincey Koziol2009-06-041-0/+29
| | | | | | | | | | Bring file addres proxy additions from r16985 on the revise_chunks branch back into the trunk, for use in allowing fractal heap direct blocks to defer their allocation in the file. Tested on: Mac OS X/32 10.5.7 (amazon) debug & production too minor to require h5committest
* [svn-r16281] Purpose: Add functions to allow more flexible traversal of ↵Neil Fortner2009-01-081-0/+26
| | | | | | | | | | | external links. Description: Added H5Pset/get_elink_cb to allow the user to specify a callback function to be called whenever an external link is traversed. Added H5Pset/get_elink_acc_flags to allow the user to specify the file access flags to use to open the target file of an external link. All these properties are set on a LAPL. Tested: jam, linew, smirom (h5committest)
* [svn-r16062] Purpose: Allow per-dataset rdcc configurationNeil Fortner2008-11-121-6/+6
| | | | | | | | Description: Adds 3 new public functions: H5Pset_chunk_cache, H5Pget_chunk_cache, and H5Dget_access_list. First implementation of dataset access properties. See RFC_chunk_cache_functions for details. Tested: kagiso, linew, smirom (h5committest)
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