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* VFD SWMR: sync with develop (#830)Dana Robinson2021-07-121-1/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Normalization with develop * Removes checks and work-arounds for strtoll and strtoull (#769) * Removes checks for (v)snprintf, which are C99 (#772) * Update missing release note info. (#776) * Replaces the H5_OVERRIDE macro with override (#773) The macro is no longer necessary now that we require C++11. * Cleans up some POSIX header bits in H5private.h (#783) * Removes outdated checks for ways inline might be defined (#781) These are obsolete now that we require C99. * Removes checks for system(), which is C89/90 (#782) * Removes C++ dependency on H5private.h (#774) * Removes C++ dependency on H5private.h Most C API calls have been removed, aside from a few uses of free, where we just dropped the 'HD'. A couple of H5_ATTR_UNUSED macros were also replaced with (void) statements. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Further simplifies Autotools type size checks (#789) Also fixes an issue where clock_gettime and difftime are not detected due to earlier simplifications of this code. * Release Note (#784) * Normalization of CMake H5pubconf.h with Autotools (#791) Mostly just moving things around and changing the comments to keep the delta small. The only symbol change is that for curl/curl.h which I changed to H5_HAVE_CURL_CURL_H to match the Autotools. This symbol is not used in the library and is just an artifact of the checks. * Fix tools test (#794) * Removes ancient Autotools cruft (#790) * Reorganization of C and POSIX headers in H5public.h & H5private.h (#793) * Reorganization of C and POSIX headers in H5public.h & H5private.h Consolidated and removed duplicates * It turns out Windows has sys/types.h Co-authored-by: Larry Knox <lrknox@hdfgroup.org> * Removes checks for signal and set/longjmp, which are C89 (#798) Also removes checks for setjmp.h and stddef.h * Assume frexpl/f and fabsl/f, which are C99 (#799) * Assume the library has C99 types in C++ type code (#806) * Assume the library has C99 types in C++ type code * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Removes obsolete equivalents of C99's __func__ (#800) * Cleans up POSIX/C bits in H5private.h (#804) * Cleans up POSIX/C bits in H5private.h * Assume difftime exists (C89) * Reorg AC_CHECK_HEADERS so headers are in alphabetical order * Split off networking-related AC_CHECK_HEADERS * Remove unused UNAME_CYGWIN from configure.ac * Remove checks for unused sys/timeb.h * Tidying pass over H5private.h HD prefix macros * Tidy H5win32defs.h * Add HD prefix to various scanf calls * Committing clang-format changes * Fixes to the alarm(2) code used in the tests to make Windows happy Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> * Brings the tools getopt(3) replacement into the main library (#803) * Moves get_option from the tools library to the C library * Adds H5 prefix to get_option call and variables * Renames the H5_get_option long options struct and enum * Removes type guesses when C99 types are missing (#807) * Assume C99 types exist in H5detect.c (#808) * Fixes parallel issues from recent C99 changes * Adds MPE FUNC --> __func__ changes missed in earlier PRs * Fix typo * Fixes parallel issues from recent C99 changes (#809) * Fixes parallel issues from recent C99 changes * Adds MPE FUNC --> __func__ changes missed in earlier PRs * Even more missed FUNC --> __func__ macros * Removes remaining H5_TIME_WITH_SYS_TIME cruft (#810) Mostly from CMake * Merges with develop * Committing clang-format changes * Normalization with develop * direct_chunk test and H5Dget_chunk_storage_size changes * Removes unused H5O call * Brings some dataspace changes from the combo branch merge Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Larry Knox <lrknox@hdfgroup.org>
* Normalization of dataspace code + reorg of public dataset callsDana Robinson2021-05-071-1/+2
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* Brings the rest of the header changes from developDana Robinson2021-04-061-3/+3
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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 Robinson2021-03-251-179/+165
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* Minor changes from normalization with 1.10Dana Robinson2020-07-091-0/+1
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* address problems from commentskmu2019-12-111-1/+1
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* Replace H5Sselect_adjust_u() and H5Shyper_adjust_s() withNeil Fortner2019-11-181-1/+3
| | | | | H5Sselect_adjust. Implement "adjust_s" callback for all selection types. Add range checking to H5Sselect_adjust().
* Implement public H5Sselect_project_intersection(). Updated internalNeil Fortner2019-11-131-1/+1
| | | | | | | | algorithm to (optionally) avoid sharing selection data structures. Tested internal code (including with valgrind) by setting VDS code to avoid sharing selection, has since been changed to share selection for performance, so this code is not yet tested in regression tests. API has not been tested.
* Fix some typos and remove an unused prototype from H5Sprivate.hRichard Warren2019-10-071-1/+0
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* At the suggestion of the PR reviewers, moved the mpio_create_large_type to ↵Richard Warren2019-10-071-6/+1
| | | | H5mpi.c and renamed the function appropriately. Also moved some support functions to set and get the vvalue where we transistion to using derived datatypes.
* Make the initial bug fixes to allow >2GB writes with Independent IORichard Warren2019-10-051-0/+5
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* Add H5Sselect_shape_same and H5Sselect_intersect_block API routines, alongQuincey Koziol2019-07-301-10/+4
| | | | with tests and minor cleanups and refactorings.
* Core changes to selection code from the hyperslab_updates branch.Quincey Koziol2019-03-161-12/+16
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* More changes to align with incoming selection improvements.Quincey Koziol2019-02-141-5/+3
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* Align develop with incoming hyperslab_updates branch changes.Quincey Koziol2019-02-131-11/+13
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* H5S adjust callbacks now return an herr_t instead of void.Dana Robinson2018-09-241-1/+1
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* Revert "Merge pull request #1116 in HDFFV/hdf5 from ↵hdftest2018-06-241-11/+10
| | | | | | | ~HDFTEST/hdf5_hft:hdf5_1_10 to develop" This reverts commit e9f476dad47ce593f13dacb77b1cc664d1f24e7b, reversing changes made to 2ff00b1b937ebe36ac6ddf590c16a4c27fc0b053.
* Merge branch 'develop' into hdf5_1_10.syncM. Scot Breitenfeld2018-06-041-0/+1
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| * * Fixed the error testsDana Robinson2018-05-021-0/+1
| | | | | | | | * Moved common functionality into helper functions
* | Merge branch 'develop' into hdf5_1_10.syncM. Scot Breitenfeld2018-05-081-14/+10
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| * Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into ↵Quincey Koziol2018-04-291-17/+14
| |\ | | | | | | | | | merge_hyperslab_updates
| | * Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into ↵Quincey Koziol2018-03-181-1/+1
| | |\ | | | | | | | | | | | | | | | | | | | | merge_func_enter_vol Plus initial steps toward merging API context push into FUNC_ENTER_API* macros
| | | * (1) Merge branch 'develop' into bugfix/version_boundsVailin Choi2017-11-251-1/+4
| | | |\ | | | | | | | | | | | | | | | | | | | | | | | | | (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 Choi2017-10-031-1/+1
| | | | | | | | | | | | | | | | | | | | 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 Koziol2018-03-151-9/+5
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| * | | Checkpoint normalization against incoming hyperslab / selection / dataspaceQuincey Koziol2017-03-281-7/+6
| | | | | | | | | | | | | | | | improvements.
* | | | Needs to sync with lib version and Sencode.M. Scot Breitenfeld2018-03-071-1/+1
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* | | | Fix for daily test failures.Vailin Choi2017-12-071-2/+2
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* | | | Merge branch changes from hdf5_1_10.Vailin Choi2017-12-051-1/+3
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| * | | Split internal H5R functionality into H5Rint.c.Dana Robinson2017-11-081-1/+3
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| * | | Add a missing declaration for testingRichard Warren2017-10-271-0/+1
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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.
* | Fix for HDFFV-9947 H5SencodeVailin Choi2017-11-281-7/+7
| | | | | | | | Modifications to fix H5Sencode bug when num points selected is > 2^32.
* | Merge candidate for the 1_10 branchRichard Warren2017-09-201-0/+1
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* | Change copyright headers to replace url referring to file to be removedlrknox2017-04-141-6/+4
|/ | | | | | | | and replace it with new url for COPYING file. Fix 2 lines in java error test expected output file where messages include line numbers changed by reducing the copyright header by 2 lines.
* Fixed wayward parentheses in H5Sprivate.h.Dana Robinson2016-11-021-2/+2
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* [svn-r27946] Brought VDS branch in sync with trunk (up to r27945).Dana Robinson2015-10-041-2/+26
|\ | | | | | | | | | | | | | | Tested on Ubuntu 15.04 (Linux 3.19 x86_64), gcc 4.9.2, MPICH 3.1.4 and CMake 3.3.2. - Autotools serial w/ Fortran, C++ - Autotools parallel w/ Fortran - CMake serial w/ Fortran, C++
| * [svn-r27939] Remove H5D__iterate and use H5S_select_iterate directlyJerome Soumagne2015-10-021-2/+26
| | | | | | | | | | Add internal library callback to H5S_select_iterate to avoid having to pass hid_t objects internally
| * [svn-r27884] Description:Quincey Koziol2015-09-261-0/+1
| | | | | | | | | | | | | | | | | | Update dataspace selection encode/decode routines to avoid type aliasing errors. Tested on: Linux/64 2.6.x (platypus) w/production (h5committest forthcoming)
| * [svn-r27851] Description:Quincey Koziol2015-09-221-0/+2
| | | | | | | | | | | | | | | | | | Normalization changes that wouldn't otherwise be necessary if the VDS branch wasn't coming in shortly. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest forthcoming)
* | [svn-r27835] Description:Quincey Koziol2015-09-211-3/+3
|\ \ | |/ | | | | | | | | | | | | Sync w/trunk. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel (h5committest not required on this branch)
| * [svn-r27768] Description:Quincey Koziol2015-09-141-3/+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-r26302] Description:Quincey Koziol2015-02-251-2/+2
| | | | | | | | | | | | | | | | | | Revise dataspace encode/decode routines to make them work better with future virtual dataset feature. Tested on: Mac OSX/64 10.10.2 (amazon) w/serial (h5committest forthcoming)
* | [svn-r27632] Description:Quincey Koziol2015-08-311-10/+8
| | | | | | | | | | | | | | | | | | | | Revert changes to pass file pointer to selection serialize/deserialize routines. Also patch back in some changes that were merged out in the previous merge w/trunk. Tested on: MacOSX/64 10.10.5 (amazon) w/serial (h5committest not required on this branch)
* | [svn-r27479] Add checking for invalid inputs to H5Dset_virtual: point ↵Neil Fortner2015-08-071-0/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | selections, incorrect numbers of elements selected, incorrect "slice" through limited dimensions, incorrect number of printf substitutions. Patch source selection space extent with bounds of selection if extent is unknown before returning via H5Pget_virtual_srcspace. Write updated VDS dataspace to file when it changes due to unlimited selections. Other minor fixes/cleanup. Tested: ummon
* | [svn-r27424] Implement support for h5debug for VDS.Neil Fortner2015-07-221-0/+2
| | | | | | | | | | | | | | | | | | | | Implement support for H5Pencode/decode with VDS properties. Testing for H5Pencode/decode with VDS. Relax assertion check for number of elements written to buffer as we do not check for overlaps in mappings. Other minor fixes/cleanup. Tested: ummon
* | [svn-r27246] Remove "clipped" status from unlimited selections, decoupling ↵Neil Fortner2015-06-181-3/+4
| | | | | | | | | | | | | | | | | | | | | | them from the extent. Improve algorithm for calculation of VDS extent by removing the need for a temporary copy of a dataspace. Other minor fixes/cleanup. Tested: ummon
* | [svn-r27192] Improve support for printf selections (support partial blocks withNeil Fortner2015-06-121-0/+2
| | | | | | | | | | | | | | | | | | | | H5_VDS_FIRST_MISSING) Add test for this Rework VDS code to not depend on unlimited selections having a "clipped" state in preparation for removing the clipped state from unlimited selections. Other bug fixes/cleanup Tested: Kubuntu 64 (home computer)
* | [svn-r27153] Implement fill value support for VDS.Neil Fortner2015-06-051-0/+1
| | | | | | | | | | | | | | | | | | Add testing for this. Fix bug in printf string parsing. Add test for this. Other minor fixes/cleanup. Tested: ummon
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