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* Update develop branch version to 1.13.0 after creation of hdf5_1_12Larry Knox2019-09-251-3/+3
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* Revert "Moved NDEBUG guards to H5EA_DEBUG in H5EA package."Dana Robinson2019-09-246-16/+36
| | | | This reverts commit 431123503d387bce30b1f6db7dc4ad3a33bc51bb.
* Revert "Fix for H5EA debug package when built in release mode."Dana Robinson2019-09-241-2/+0
| | | | This reverts commit 911b1ca67fdf7c2f3a32dd42c591e4e9b2fa1950.
* Fix for H5EA debug package when built in release mode.Dana Robinson2019-09-181-0/+2
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* Moved NDEBUG guards to H5EA_DEBUG in H5EA package.Dana Robinson2019-09-176-36/+16
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* Added MPICH_SKIP_MPICXX and OMPI_SKIP_CXX to H5public.h to avoid inadvertantDana Robinson2019-09-171-0/+3
| | | | linking to the deprecated MPI C++ wrappers. Fixes HDFFV-10893.
* Fix segfault after H5VL_loc_params_t fix mergeJordan Henderson2019-09-162-4/+4
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* Merge pull request #1922 in HDFFV/hdf5 from ~BYRN/hdf5_adb:develop to developAllen Byrne2019-09-162-7/+8
|\ | | | | | | | | * commit 'b477f9bcc7bb83d7c06e1d09f428030f51d71897': HDFFV-10901 add missing config options
| * HDFFV-10901 add missing config optionsAllen Byrne2019-09-132-7/+8
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* | Merge pull request #1887 in HDFFV/hdf5 from ~JHENDERSON/hdf5:develop to developJordan Henderson2019-09-163-6/+6
|\ \ | |/ |/| | | | | * commit '0de0965c61823186ac61c0d6876d4d77578e5bcc': Fix issue in H5Lcreate_hard and H5Olink where entire H5VL_loc_params_t structure was passed via varargs
| * Fix issue in H5Lcreate_hard and H5Olink where entire H5VL_loc_params_t ↵Jordan Henderson2019-08-213-6/+6
| | | | | | | | structure was passed via varargs
* | Fix get home dir for windowsAllen Byrne2019-09-121-23/+26
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* | revert windows changeAllen Byrne2019-09-061-4/+4
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* | Windows ssl headers are not in system loacationAllen Byrne2019-09-061-5/+5
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* | Add back missing java implementationAllen Byrne2019-09-051-10/+10
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* | Merge pull request #1908 in HDFFV/hdf5 from ~BMRIBLER/hdf5-bmr:develop to ↵Binh-Minh Ribler2019-09-039-64/+699
|\ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | develop - Added new chunk query functions: H5Dget_num_chunks(), H5Dget_chunk_info(), and H5Dget_chunk_info_by_coord() - Fixed iterator issue in H5EA_iterate(), H5FA_iterate(), and H5D__none_idx_iterate() * commit '96dab622e3bbe75d85b0cef3ca2bd5288cf4ac32': Fixed error code and error messages Tested on Jelly (very minor) Changed H5VL_NATIVE_DATASET_GET_CHUNK_INFO_BY_COOR to H5VL_NATIVE_DATASET_GET_CHUNK_INFO_BY_COORD per a review comment. Updated comments Updated based on reviews and refactored test code Code cleanup and refactor Re-ordered items w.r.t. date. Fixed typo Added notes about HDFFV-10677 and HDFFV-10661 HDFFV-10677 and HDFFV-10661
| * | Fixed error code and error messagesBinh-Minh Ribler2019-09-031-1/+1
| | | | | | | | | | | | Tested on Jelly (very minor)
| * | Changed H5VL_NATIVE_DATASET_GET_CHUNK_INFO_BY_COOR toBinh-Minh Ribler2019-09-033-3/+3
| | | | | | | | | | | | H5VL_NATIVE_DATASET_GET_CHUNK_INFO_BY_COORD per a review comment.
| * | Updated based on reviews and refactored test codeBinh-Minh Ribler2019-09-013-10/+6
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| * | Code cleanup and refactorBinh-Minh Ribler2019-08-291-4/+0
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| * | Merge branch 'develop' of ↵Binh-Minh Ribler2019-08-289-337/+838
| |\ \ | | | | | | | | | | | | https://bitbucket.hdfgroup.org/scm/~bmribler/hdf5-bmr into develop
| * | | HDFFV-10677 and HDFFV-10661Binh-Minh Ribler2019-08-289-64/+707
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Description: - Added functions to query chunk information: H5Dget_num_chunks(dset_id, fspace_id, *nchunks) Gets the number of written chunks that intersect with the given dataspace. However, in this version, the intersection is not yet completed. Thus, the number of all written chunks will be returned. H5Dget_chunk_info_by_coord(dset_id, *offset, *filter_mask, *addr, *size) Given a chunk's logical coordinates, returns the chunk's filter, address, and size. H5Dget_chunk_info(dset_id, fspace_id, index, *offset, *filter_mask, *addr, *size) Given a chunk's index, returns the chunk's logical coordinates, filter, address, and size. The chunk belongs to a set of chunks that have nonempty intersection with the specified dataspace. However, in this version, the intersection is not yet completed, and the index is of all the written chunks. These functions comply with VOL. - Fixed some oversights found in the library for the tests in chunk_info.c to work correctly. The returned value from a callback function was not checked in H5EA_iterate(), H5FA_iterate(), and H5D__none_idx_iterate(). This oversight caused a callback function to continue iterating even though it's supposed to stop. Platforms tested: Linux/64 (jelly) Linux/64 (platypus) Darwin (osx1011test)
* | | | Move ext_path field in H5F_t to H5F_shared_t.Vailin Choi2019-08-314-33/+12
| | | | | | | | | | | | | | | | Remove unused routine H5F_set_coll_md_read().
* | | | Move coll_md_read and coll_md_write fields in H5F_t to H5F_shared_t.Vailin Choi2019-08-315-14/+16
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* | | | Fix EXISTS test syntaxAllen Byrne2019-08-291-1/+1
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* | | Minor tweaks to new H5P MPI code based on code review feedback.Dana Robinson2019-08-272-23/+17
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* | | Merge branch 'develop_minor_pr' into H5Pset_fapl_mpiDana Robinson2019-08-271-1/+1
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| * | | Fixed a bug where we incorrectly pass a lock struct to fcntlDana Robinson2019-08-271-1/+1
| |/ / | | | | | | | | | for file locking instead of a pointer.
* | | Merge branch 'develop' into H5Pset_fapl_mpiDana Robinson2019-08-276-6/+10
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| * | Merge pull request #1897 in HDFFV/hdf5 from ~KOZIOL/hdf5:refactor_file to ↵Quincey Koziol2019-08-265-5/+9
| |\ \ | | | | | | | | | | | | | | | | | | | | | | | | develop * commit '3090ac81506094ee510ae89c31749b5c1632aa34': Add a 'closing' flag on the shared file struct, and switch several of the "internal" data structures to use it.
| | * | Add a 'closing' flag on the shared file struct, and switch several of theQuincey Koziol2019-08-265-5/+9
| | | | | | | | | | | | | | | | "internal" data structures to use it.
| * | | Fixed the assertion failure for HDFFV-10873.Vailin Choi2019-08-231-1/+1
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* | | Added H5Pset/get_mpi_params calls and unified them with the MPI-I/ODana Robinson2019-08-268-336/+843
|/ / | | | | | | VFD info in H5FDmpio.c.
* | Fix major error codesQuincey Koziol2019-08-221-4/+4
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* | Switch shared file struct name from 'H5F_file_t' to 'H5F_shared_t', to matchQuincey Koziol2019-08-2220-111/+111
| | | | | | | | naming convention for shared structs in rest of library data structures.
* | Merge branch 'develop' into shared_file_ptrQuincey Koziol2019-08-215-517/+65
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| * Untangle #ifdef mess in ROS3 code.Dana Robinson2019-08-205-517/+65
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* | Small tidy up.Quincey Koziol2019-08-211-10/+8
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* | Progress toward movig H5MF* API to use shared file pointers instead of topQuincey Koziol2019-08-211-37/+34
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* | Progress on moving the H5MF* interface to using shared file pointers instead ofQuincey Koziol2019-08-211-39/+38
| | | | | | | | top file pointers.
* | Begin converting the H5MF interface to use shared file pointers insteadQuincey Koziol2019-08-215-62/+64
| | | | | | | | of top file pointers.
* | Progress toward moving the dataset routines to using the 'shared' file pointerQuincey Koziol2019-08-213-15/+18
| | | | | | | | instead of the 'top' file pointer.
* | Begin converting dataset code to use shared file pointer instead of top fileQuincey Koziol2019-08-205-30/+126
| | | | | | | | pointer.
* | Finish converting H5PB_* routines to use shared file pointer, instead of topQuincey Koziol2019-08-206-51/+54
| | | | | | | | file pointer.
* | First pass of converting H5PB_* routines to use shared file pointers.Quincey Koziol2019-08-197-49/+150
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* | Rest of changes for 'top' file pointer to 'shared' file pointer for H5F__accumQuincey Koziol2019-08-194-16/+15
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* | Partial H5F__accum_* routines.Quincey Koziol2019-08-196-36/+34
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* Changes based on PR feedback.Vailin Choi2019-08-151-2/+4
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* Merge pull request #17 in ~VCHOI/my_third_fork from develop to ↵Vailin Choi2019-08-1521-1202/+1690
|\ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | bugfix/HDFFV-10813-swmr-test-fails-on-jelly-with * commit '3a504899eef1a66031c6f52623c24bb4e51ca51e': Correct name of folder Mostly whitespace in testpar, addl changes for tmp dir Whitespace cleanup Added public H5Sselect_adjust_u and H5Shyper_adjust_s calls. Some refactoring prior to implementing new H5P MPI functions. * Macro cleanup and obvious warning fixes in parallel code. * Moved H5FD comm and info dup/free wrapper code to a new H5mpi.c file and separated it to deal with each MPI type separately. Fix compiler warnings with diabled ROS3 and HDFS VFDs. Fix misuse of [HD]strncpy and [HD]snprintf. Minor formatting changes. Fix test cleanup issue with java groups example. Changed the directory name left out from the previous commit. Changed the name of the temporary directory from 'tmp' to a special name to avoid possible conflicts. Fix H5F_get_file_id and H5F__get_file_id to take app_ref parameter HDFFV-10879 fix test varname
| * Merge pull request #1873 in HDFFV/hdf5 from ↵Dana Robinson2019-08-159-484/+566
| |\ | | | | | | | | | | | | | | | | | | ~DEROBINS/hdf5_der:H5Pset_fapl_mpi to develop * commit 'bd8da502cf5b763433e3c628a4043a4264529cec': Some refactoring prior to implementing new H5P MPI functions. * Macro cleanup and obvious warning fixes in parallel code. * Moved H5FD comm and info dup/free wrapper code to a new H5mpi.c file and separated it to deal with each MPI type separately.
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