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* Includes hdf5dev.h in hdf5.h (#728)Dana Robinson2021-06-071-1/+0
| | | | | | | | | * Includes hdf5dev.h in hdf5.h * Removes hdf5dev.h * Restores H5PLextern.h as an independent header * H5PLextern.h missed in the null VOL connector
* Combo set of async and other changes (#161)Quincey Koziol2021-06-021-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Update API tracing for new H5VL_request_status_t typedef * Finish converting internal event set operations to use list iterator callbacks, instead of directly accessing the list structure * Add H5VL_REQUEST_GET_ERR_STACK operation to request subclass, for retrieving a copy of the error stack for a failed asynchronous operation * Remove 'canceled' event status from Java constants * Be safer about releasing resources when inserting a newly opened/created object or file into an event set * Remove H5EStest, add H5ES_WAIT_NONE for 0 timeout, and revise parameters to H5ESwait, to make it more "aggregate". * Remove H5ES_STATUS_CANCELED from Java wrappers also * Apply patch for dynamically registering optional VOL operations * (a) Add async APIs for H5O module as listed in jira issue ID-283. (b) Remove verification of name parameter in async related routines for H55A and H5L modules because it is checked in H5VL_setup* routine. (c) Modify h5dump expected output due to the async changes. * Corrections based on PR feedback. * Further changes to make based on PR feedback. * Remove H5Dwait & H5Fwait (moved to the async connector). Added H5atclose routine. Updated 'optional op' operations. * Fix missed merge marker, and reformatted line * Update API tracing infrastructure for H5atclose callback * Clean up some warnings * Normalize against develop branch * Correct level of indirection * Add doxygen info for H5is_library_terminating and regression tests for it and H5atclose * Relocate prototype (and doxygen info) for H5Aclose * Align w/changes on develop * Move group package initialization code to H5Gint.c, and update tracing macros * Change non-static function declarations to be static * Correct GCC diagnostic macro * Ensure that H5TSpublic.h header gets installed (#129) * Finish moving API routines that invoke VOL framework to main source files. * Fix position of H5Fmount and H5Funmount * Add 'wrapper' versions of async calls, to allow language wrappers and layers on top of HDF5 to pass in their application information. * Add wrappers for dynamically registered optional operations * Fix typo * Update doxygen comment for H5atclose with additional detail. * Add H5VL\*_vararg versions of H5VL routines that use va_list parameters * Implement and test H5S_BLOCK * Switch H5Aexists\*_async and H5Lexists\*_async to use flag to return status, instead of return value. Make the corresponding changes through most of the v1 and v2 B-tree code. Clean up warnings in H5public.h and cmpd_dtransform.c. * Add H5Iregister_future routine and tests. * Correct return value for H5Lexists_async * Add H5_DLL macro to public H5ES API routines * Update supported -> flags parameter for introspect_query callback * Remove my email address. Update passthrough VOL connector ID. * Fix comment for post_open_api_common * Remove unused non-blocking VOL connector * Minor cleanup in async branch in preparation for merge to develop * Update CMake and the Autotools to use the new pass-through VOL ID * Finish another iteration on public H5ES routines, along with running the code reformatter * Another round of reformatting * Fix for SWMR daily test failures (#160) The H5I_register_using_existing_id() call did not initialize the future ID callbacks, causing the library to segfault when it tried to resolve those function pointers. * Added selective async APIs (#150) * Added selective async APIs Description: Added the following APIs: H5Ropen_attr_async H5Ropen_object_async H5Ropen_region_async H5Mcreate_async H5Mopen_async H5Mput_async H5Mget_async H5Mclose_async H5Tcommit_async H5Topen_async H5Tcopy_async H5Tclose_async - Updated an expected output file to include a new internal function in the error stack for the failure case. * Updated async APIs per reviews, including removing async version of H5Tcopy. * Removed statements that were added by mistake in the previous commit. * Fix compile issues in H5M and warnings elsewhere * Reformat code * Brings VOL_LIST changes from develop. (#163) * Remove H5Dwait and H5Fwait calls, which were incorrectly brought back in * Tiny cleanup of H5Lcreate_hard_async * Run source formatter * Allow for canceled operation in wait_cb * Attempt to fix switch on string value * Re-run source formatter * Add H5S_BLOCK testfile to CMake clean target * Add H5Pset_vol_async API routine and 'get_cap_flags' VOL introspection callback * Clean up warnings * Add H5P(set\|get)_vol_implicit_async API routines to allow \/ disallow implicit asynchronous operations (default is disallowed) * Run formatting script * Remove H5VL_REQUEST_WAIT\* * Warning cleanup * Eliminate strdup()s on statically allocated strings * Warning cleanup * Split H5VLrestore_lib_state into H5VLstart_lib_state and H5VLrestore_lib_state, and rename H5VLreset_lib_state to H5VLfinish_lib_state. * Duplicate strings when building err_info to return to applicatin * Move connector author routines into seperate header files, all included in the new hdf5dev.h header * Run bin/trace to add TRACE macros * Allow H5ES_NONE as a valid, but no-op, parameter to all H5ES API routines that accept an event set ID * Clean up formatting * Remove H5Pset/get_vol_implicit_async * Clean up warning * Remove H5Pget_vol_async and replace with more generic H5Pget_vol_cap_flags * Clean up warnings * Add H5ESfree_err_info convenience routine * Fix typo * Correct matching for cached VOL plugins * Add developer header file * Update for C99 compatibility * Add missing trace macro * Stop clang-format from messing with the trace macros. Don't set up VOL wrappers for 'infrastructure' objects like requests and blobs * Fix warning about formatting a directory * Clean up formatting for H5E_BEGIN_TRY / H5E_END_TRY * Reduce scope of H5ES__close * Enable CMake checks for various types on MacOS * Clean up properly when H5CX_retrieve_state() fails. Also clean up many compiler warnings. * Committing clang-format changes * Merge from develop * Fix mis-placed assert * Remove commented-out code * Re-add macro for unsetenv on Windows (I think it accidentally was merged out) * Strengthen sanity check from error report to assertion * Committing clang-format changes * Add units to the comments for a few fields * Switch 'get execution time' operation for async request tokens to be an optional operation and query if connector supports operation before retrieving it. * Committing clang-format changes * Remove H5ESget_time_estimate * Committing clang-format changes * Create developer header for datatype routines and move type conversion register/unregister routines there. * Simplify internal H5VL_setup_name_args and H5VL_setup_idx_args routines * Add H5VLlink_optional_op, allowing dynamicly registered optional operations for the link VOL subclass, also added H5VL_loc_params argument to the link 'optional' callback to allow them to work correctly. * Run bin/format_source on current code * Add H5VLobject_optional_op, allowing dynamicly registered optional operations for the object VOL subclass, also added H5VL_loc_params argument to the object 'optional' callback to allow them to work correctly. * Run bin/format_source on current code * Committing clang-format changes * Revert "Switch 'get execution time' operation for async request tokens to be an optional operation and query if connector supports operation before retrieving it." This reverts commit 5ac92014da2682bdba62d7a2524b8d90e38f6b19. * Committing clang-format changes * Convert attribute 'get' operation to use struct-of-tagged-union pattern for VOL callback arguments, instead of using varargs. * Update tracing macros * Convert attribute 'specific' operation to use struct-of-tagged-union pattern for VOL callback arguments, instead of using varargs. * Convert dataset 'get' and 'specific' operations to use struct-of-tagged-union pattern for VOL callback arguments, instead of using varargs. Also, minor tweaks to attribute 'get' and 'specific' operation parameters. * Convert datatype 'get' and 'specific' operations to use struct-of-tagged-union pattern for VOL callback arguments, instead of using varargs. Also, minor tweaks to H5O_refresh_metadata arguments. * Reduce warnings * Reduce warnings * Track change to datatype 'get' callback * Fix bug with file pointer getting invalidated when object closed * Reformat source * Convert file and group VOL classes 'get' and 'specific' operations to use struct-of-tagged-union pattern for VOL callback arguments, instead of using varargs. Also small cleanup to the attribute get name operation. Also moved 'mount' and 'unmount' operations to be group specific operations, instead of file specific, to better align with their behavior (mounted files are on groups, so a group is what is operated on). * Remove remainder of merge conflict marking * Convert link VOL class 'create' operations to use struct-of-tagged-union pattern for VOL callback arguments, instead of using varargs. * Remove some unused local variables * Convert link VOL class 'get' operations to use struct-of-tagged-union pattern for VOL callback arguments, instead of using varargs. Also refactor 'get name by idx' routines to return actual length of name with a parameter instead of the return value, and move some callback context structs for the link interface from the private header file into the source code module, to reduce their visibility scope. * Update tracing macros * Convert link VOL class 'specific' operations to use struct-of-tagged-union pattern for VOL callback arguments, instead of using varargs. * Convert object VOL class 'get' operations to use struct-of-tagged-union pattern for VOL callback arguments, instead of using varargs. * Convert object VOL class 'specific' operations to use struct-of-tagged-union pattern for VOL callback arguments, instead of using varargs. Also refactor H5G_loc_exists, et al, to return 'exists' flag in a parameter and errors with the function return value, instead of overloading both into the return value. And, corrected logic error in test/links.c around non-existant objects in a file. * Convert request VOL class 'specific' operations to use struct-of-tagged-union pattern for VOL callback arguments, instead of using varargs. * Convert blob VOL class 'specific' operations to use struct-of-tagged-union pattern for VOL callback arguments, instead of using varargs. Also removes the H5VL_BLOB_GETSIZE operation, as it's unused in the library and the blob ID size for a container is now returned with H5VL_FILE_GET_CONT_INFO. * Add 'const' to several parameters that are only queried. * Convert all VOL classes' 'optional' operations to use struct-of-tagged-union pattern for VOL callback arguments, instead of using varargs. Convert several 'get' routines to return the length of an array in a parameter instead of combining it into the return value. Move several routines to be in less public namespace. Correct direct_chunk test to verify that parameters aren't modified on error. * Switch get/specific/optional VOL callback argument structures to be 'async-friendly'. Also other minor cleanups and bug-fixes. * Add H5Pset_dataset_io_hyperslab_selection / H5S_PLIST feature, to allow skipping H5Dget_space + H5Sselect_hyperslab for async operation * Add dynamic optional operations for request objects * Update dynamic operation test for optional request operations * Update a comment for an operation argument * Run trace and format_source scripts * Committing clang-format changes * Committing clang-format changes Co-authored-by: vchoi <vchoi@jelly.ad.hdfgroup.org> Co-authored-by: vchoi-hdfgroup <55293060+vchoi-hdfgroup@users.noreply.github.com> Co-authored-by: jhendersonHDF <jhenderson@hdfgroup.org> Co-authored-by: Dana Robinson <derobins@hdfgroup.org> Co-authored-by: Dana Robinson <43805+derobins@users.noreply.github.com> Co-authored-by: bmribler <39579120+bmribler@users.noreply.github.com> Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
* Update license url part2 (#333)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 - files not in src or test.
* Clang-format of source filesAllen Byrne2020-09-301-327/+402
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* Trim trailing whitespaceQuincey Koziol2020-04-201-5/+5
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* HDFFV-11018 Add Fortran H5F_LIBVER_V*_F definitionsM. Scot Breitenfeld2020-02-101-1/+7
| | | | | | | | | | | | | | | | | | | Added ------ New Definitions: INTEGER :: H5F_LIBVER_ERROR_F INTEGER :: H5F_LIBVER_NBOUNDS_F INTEGER :: H5F_LIBVER_V18_F INTEGER :: H5F_LIBVER_V110_F INTEGER :: H5F_LIBVER_V112_F INTEGER :: H5F_LIBVER_V114_F New API: h5pget_libver_bounds_f(fapl_id, low, high, hdferr) Removed: call to C wrapper h5pset_libver_bounds_c in h5pset_libver_bounds_f
* Squashed commit of the token_refactoring branch:Dana Robinson2020-01-161-149/+152
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* removed H5VL constantsM. Scot Breitenfeld2019-05-161-72/+1
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* added more testsM. Scot Breitenfeld2019-03-111-32/+31
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* Merge branch 'develop' into H10621M. Scot Breitenfeld2019-03-071-0/+11
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| * HDFFV-10443: Add "field" parameter to H5Oinfo* and H5Ovisit* APIs.Scot Breitenfeld2019-01-081-0/+11
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* | Implemented VOL APIs and C constants, no testsScot Breitenfeld2018-12-071-6/+82
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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:HDFFV-9987M. Scot Breitenfeld2016-10-101-19/+26
| | | | | | | With HDF5-1.10 you cannot specify default dataspace for Fortran (H5S_ALL_F) Resolution: Made H5S_ALL_F INTEGER(HID_T) to match C.
* Added number of integer KINDs found to the header files.M. Scot Breitenfeld2016-09-261-8/+13
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* Misc. cleaning up of the program.M. Scot Breitenfeld2016-09-231-36/+13
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* HDFFV-9973 Fortran library fails to compile and fails tests with NAG compilerM. Scot Breitenfeld2016-09-221-147/+89
| | | | Fixes issues with KIND = BYTE assumptions.
* [svn-r29062] HDFFV-9564: Implement VDS Fortran wrappers.Scot Breitenfeld2016-02-081-0/+4
| | | | Tested: h5committest.new
* [svn-r27580] Fix for: Scot Breitenfeld2015-08-251-6/+9
| | | | | | | HDFFV-9283 Add H5Dget_offset fortran wrapper tested: h5committest
* [svn-r27493] Trying again to merge the F2003_v1.10 branch to the trunk.Scot Breitenfeld2015-08-111-104/+171
| | | | Tested: h5committest --PASSED--
* [svn-r27489] reverted merge of branchScot Breitenfeld2015-08-111-171/+104
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* [svn-r27399] code clean-upScot Breitenfeld2015-07-161-3/+1
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* [svn-r27377] Cleaned-up comment formatting:Scot Breitenfeld2015-07-141-63/+63
| | | | sed -e 's/^ \*[ ]*\([A-Z]\)\([a-z]\)/ * \1\2/g' H5Zf.c | sed -e 's/^ \*[ ]*\([a-z]\)/ * \1/g' | sed -e 's/^ \*[ ]*\([0-9]\)/ * \1/g'
* [svn-r27221] Reworked Fortran autools REAL KIND detection.Scot Breitenfeld2015-06-161-11/+13
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* [svn-r27186] added fix for jam with promoted reals and integersScot Breitenfeld2015-06-101-1/+7
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* [svn-r27167] more DT fixesScot Breitenfeld2015-06-091-2/+8
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* [svn-r27154] fixed issue with mis-matching long double between Fortran and CScot Breitenfeld2015-06-051-2/+7
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* [svn-r27140] fixed interger*16 supportScot Breitenfeld2015-06-031-7/+11
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* [svn-r27134] Switched to uses a verify for each kind for the tests. Testing ↵Scot Breitenfeld2015-06-011-2/+48
| | | | quad precision.
* [svn-r27116] svn merge -r26937:27115 https://svn.hdfgroup.uiuc.edu/hdf5/trunkScot Breitenfeld2015-05-271-0/+5
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| * [svn-r26986] Removed H5F_ACC_DEBUG and H5FD_DEBUG functionality.Dana Robinson2015-04-301-0/+5
| | | | | | | | | | | | | | | | | | | | | | | | The H5F_ACC_DEBUG symbol remains but has been defined to zero and has been listed as deprecated. Fixes: HDFFV-1074 Tested on: h5committest 32-bit Linux w/ C++ and Fortran and multi VFD 32-bit Linux w/ C++ and Fortran and multi VFD (no deprec symbols)
* | [svn-r27115] Moved testing KINDs and SIZEOFs to configure.Scot Breitenfeld2015-05-271-13/+13
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* | [svn-r26846] BIND(C) added to H5 general functionsScot Breitenfeld2015-04-201-10/+10
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* | [svn-r26809] Changed Fortran file endings from ".f90" to ".F90"Scot Breitenfeld2015-04-141-9/+9
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* [svn-r26211] revert ci 26204Scot Breitenfeld2015-02-181-0/+1
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* [svn-r26205] Fix for HDFFV-8908:Scot Breitenfeld2015-02-181-1/+0
| | | | | h5tenum_insert_f does not work with default 8 byte integers (xlf compiler)
* [svn-r26124] Fixed issue with deprecated symbols for H5G constantsScot Breitenfeld2015-02-041-15/+13
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* [svn-r26122] Fix for HDFFV-9040 h5rget_object_type_f returns different types ↵Scot Breitenfeld2015-02-031-18/+21
| | | | | | | | than indicated by API Slight change of global variable definitions from C. Tested: jam.
* [svn-r25133] Rudimentary changes; changed the casting of hid_t_f variables ↵Scot Breitenfeld2014-04-281-7/+7
| | | | | | that used a casting of int_f to use a casting of hid_t_f. Tested: jam (gnu)
* [svn-r24846] Bug fix for HDFFV-8689 : Mix-match of type in ↵Scot Breitenfeld2014-03-201-13/+20
| | | | | | H5D_CHUNK_CACHE_NBYTES_DEFAULT, Review HDF5-184 Tested with -i8 flag with intel compilers and --enable-production
* [svn-r22827] HDFFV-8007: Add missing H5O Fortran functions.Scot Breitenfeld2012-09-271-1/+5
| | | | | Tested: jam(gnu,intel)
* [svn-r22737] Fix for HDF5 HDFFV-8109 H5S_UNLIMITED_F has a wrong typeScot Breitenfeld2012-09-051-35/+34
| | | | Tested: jam (gnu)
* [svn-r21248] Mereged the F2003 branch into the trunk.Scot Breitenfeld2011-08-181-155/+275
| | | | | | | | | Items merged: fortran directory, src/libhdf5.settings.in configure.in configure MANIFEST Tested: (all platforms used by daily tests, both with --enable-fortran and --enable-fortran2003)
* [svn-r19654] Description:Quincey Koziol2010-10-211-28/+13
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bring Coverity revisions from branch back to trunk, and clean up some other misc. compiler warnings also. r19500: Fix coverity items 1446 and 1447. Moved up calls to memset in test_cont in ohdr.c so the test never tries to close uninitialized locations. r19501: Fix coverity items 1398-1445. Various uninitialized variable errors in fheap.c. r19502: Fixed coverity issue 579 and some additional warnings in the file as well. r19503: Bug fix: This fix addressed the "RESOURCE_LEAK" problems #789 and 790, run 26 r19504: minor mods to try to keep coverity from flagging false positives. r19505: Fixed coverity issues 566 - 571. Declared variables that are passed to functions that use them as arrays to be arrays of size 1. Tested on: Mac OS X/32 10.6.4 (amazon) w/debug, production & parallel (h5committested on trunk)
* [svn-r17498] Bug 1471 - H5Tset_order_f missing constant option H5T_ORDER_NONEScot Breitenfeld2009-09-181-20/+22
| | | | | | | - Fixed, added H5T_ORDER_NONE_F Tested: smirom (g95, gfortran, ifort, pgf90) linew
* [svn-r16768] Added definitionsScot Breitenfeld2009-04-161-0/+3
| | | | | | | | H5D_CHUNK_CACHE_NSLOTS_DEFAULT_F H5D_CHUNK_CACHE_NBYTES_DEFAULT_F H5D_CHUNK_CACHE_W0_DEFAULT_F used in cache/chunk functions.
* [svn-r16489] Fixed bug #1459 by eliminating the macro long_long and ↵Allen Byrne2009-02-181-5/+5
| | | | | | | | | | | replacing all instances with long long. Tested: h5comittest fedora 10 x64 Vista 32, VS2005, IVF101 XP32, Cygwin
* [svn-r15850] Description:Scot Breitenfeld2008-10-131-0/+88
| | | | Removed refences to "double" so that we don't distinguish between writeDoubleToFiles and writeFloatToFiles such that we match the definitions of c_float_4, c_float_8, and c_float_16 in H5f90i_gen.h
* [svn-r15628] Description:Quincey Koziol2008-09-161-7/+7
| | | | | | | | | | | | | Remove trailing whitespace from C/C++ source files, with the following script: foreach f (*.[ch] *.cpp) sed 's/[[:blank:]]*$//' $f > sed.out && mv sed.out $f end Tested on: Mac OS X/32 10.5.5 (amazon) No need for h5committest, just whitespace changes...
* [svn-r15233] Description:Scot Breitenfeld2008-06-181-0/+2
| | | | | Added the function h5tget_native_type and associated requirements.
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