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* spelling corrections (#1382)inactive/selection_io_with_subfiling_vfdScot Breitenfeld2022-01-1925-85/+85
| | | * spelling correction
* Updated subfiling_VFD with Selection_io (#1352)Scot Breitenfeld2022-01-18490-2221/+3677
| | | Merged selection_io branch into the subfiling branch.
* Added script to join subfiles into a single HDF5 file (#1350)Scot Breitenfeld2022-01-112-0/+92
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* Merge branch 'selection_io' into selection_io_with_subfiling_vfd (#1265)Scot Breitenfeld2021-12-0672-1102/+6614
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* Subfile name fixes (#1250)Scot Breitenfeld2021-12-051-9/+37
| | | | * fixed subfiling naming convention, and added leading zero to rank names.
* subfiling with selection IO (#1219)Scot Breitenfeld2021-11-23214-4976/+4009
| | | Merged branch 'selection_io' into subfiling branch.
* Merge pull request #1217 from jrmainzer/selection_io_with_subfiling_vfdjrmainzer2021-11-231039-35168/+115278
|\ | | | | Selection io with subfiling vfd
| * Merge remote-tracking branch 'origin/selection_io' into ↵mainzer2021-11-221039-35168/+115278
| |\ |/ / | | | | | | | | | | | | | | | | | | | | selection_io_with_subfiling_vfd and resolved conflicts. Note that H5S_get_validated_dataspace() in H5S.c was removed. Re-inserted this function for now. Update testpar/t_subfiling_vfd.c to set HD_enable_selection_io_g. Uses MPI flag on the sub-filing VFD is still not set, as the VFD seg faults if it is. Tested parallel / debug on Charis and Jelly.
| * Run formatterNeil Fortner2021-10-182-11/+13
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| * Merge branch 'selection_io' of github.com:HDFGroup/hdf5 into selection_ioNeil Fortner2021-10-182-41/+42
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| | * Committing clang-format changesgithub-actions2021-10-182-40/+41
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| * | Merge branch 'hdf5_canon-develop' into selection_ioNeil Fortner2021-10-18206-2942/+6656
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| | * OESS-168: Remove clang warnings. (#1072)H. Joe Lee2021-10-151-13/+13
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * OESS-168: Remove clang warnings. * Committing clang-format changes * Address review by @jehndersonHDF. * Address review by @jehndersonHDF. * OESS-168: Fix CI failure. Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
| | * OESS-168: Remove clang warnings. (#1077)H. Joe Lee2021-10-081-1/+1
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| | * OESS-168: Remove clang warnings. (#1076)H. Joe Lee2021-10-082-10/+10
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| | * Add missing dataset reference text (#1081)Allen Byrne2021-10-071-4/+4
| | | | | | | | | | | | | | | * Add missing dataset reference text * Only print name if not printing data
| | * OESS-168: Remove clang warnings. (#1074)H. Joe Lee2021-10-061-2/+2
| | | | | | | | | | | | | | | | | | | | | * OESS-168: Remove clang warnings. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
| | * OESS-168: Remove clang warnings. (#1071)H. Joe Lee2021-10-061-3/+3
| | | | | | | | | | | | | | | * OESS-168: Remove clang warnings. * Address review by @jehndersonHDF.
| | * To reduce maintenance effort, delete the `noerror-` variants of the compiler ↵David Young2021-10-0616-356/+75
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | flags files (#1033) * Avoid maintenance headaches: delete the `noerror-` variants of the compiler flags files, since they essentially duplicate the `error-` files modulo the replacement of `-Werror=` with `-W` and any changes in comments. (I verified the duplication with a script.) For autoconf, reinstate the use of the `demote_errors` shell function to derive the `noerror-` content from the `error-` content. `demote_errors` replaces `-Werror=` with `-W` when `WARNINGS_AS_ERRORS` is `no`. Slightly reorder `configure.ac` so that the setting of `WARNINGS_AS_ERRORS` takes effect before the `error-` files are sourced. * Take a stab at updating the CMake files to match the changes I made to the autoconf files to remove `noerror-` files. I'm not much of a CMake user so these changes are quite rough. Looks like the duplication can be reduced with the introduction of a new macro. * Delete `noerror-` files from the MANIFEST. * Reduce duplication in the CMake files: perform the HDF5_ENABLE_WARNINGS_AS_ERRORS test once in the ADD_H5_FLAGS macro. * Add a release note.
| | * Add tools/src/h5perf/Makefile.in (#1066)Larry Knox2021-10-041-0/+1
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| | * Fix ASAN issue in h5dump error path (#1051)Allen Byrne2021-10-032-3/+1
| | | | | | | | | | | | | | | * Fix ASAN issue in h5dump error path * Rework error allocation free.
| | * ASAN fix for test_ld - free sub-allocation of fields (#1052)Allen Byrne2021-10-011-34/+36
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| | * Fix bug with cross platform compatibility of references within vlens. (#1064)Neil Fortner2021-10-012-2/+11
| | | | | | | | | No testing yet.
| | * OESS-168: Remove clang warnings. (#1057)H. Joe Lee2021-09-301-56/+56
| | | | | | | | | | | | | | | | | | | | | * OESS-168: Remove clang warnings. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
| | * OESS-168: Remove clang warnings. (#1056)H. Joe Lee2021-09-301-20/+20
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| | * Move HDstrcmp operations inside casting block for PGI compilers (#1063)jhendersonHDF2021-09-301-6/+6
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| | * Fix Mirror, HDFS and ROS3 case statements for VFD value in H5trace (#1062)jhendersonHDF2021-09-301-6/+6
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| | * Update compact dataset I/O routines to handle driver-level memory copy (#1054)jhendersonHDF2021-09-305-13/+187
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Update compact dataset I/O routines to handle driver-level memory copy * Combine compact I/O read/write struct into single I/O struct Rename CTL memory copy flag and H5Fquery routine to get file driver structure * Add RELEASE.txt entry for new "ctl" memory copy operation
| | * VFD plugins (#602)jhendersonHDF2021-09-29169-2283/+6120
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Implement support for loading of Virtual File Drivers as plugins Fix plugin caching for VOL connector and VFD plugins Fix plugin iteration to skip paths that can't be opened * Enable dynamic loading of VFDs with HDF5_DRIVER environment variable * Temporarily disable error reporting during H5F_open double file open * Default to using HDstat in h5_get_file_size for unknown VFDs * Use macros for some environment variables that HDF5 interprets * Update "null" and "ctl testing" VFDs
| | * OESS-168: Remove clang warnings. (#1050)H. Joe Lee2021-09-291-1/+1
| | | | | | | | | This patch will remove clang double-promotion warning.
| | * OESS-168: Remove clang warnings (#1049)H. Joe Lee2021-09-291-1/+1
| | | | | | | | | This patch will remove clang double-promotion warning.
| | * OESS-168: Remove clang warnings. (#1047)H. Joe Lee2021-09-291-1/+1
| | | | | | | | | | | | | | | This patch will remove clang warnings on Mac: 'float' to 'double' [-Wdouble-promotion]
| | * OESS-168: Remove clang warnings. (#1046)H. Joe Lee2021-09-291-9/+9
| | | | | | | | | | | | | | | | | | | | | This patch will remove clang warnings on Mac: ``` warning: implicit conversion increases floating-point precision: 'float' to 'double' [-Wdouble-promotion] ```
| | * Update version to 1.13.0-7 after snapshot release 1.13.0-6. (#1048)Larry Knox2021-09-296-7/+7
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| | * Update Platforms Tested in RELEASE.txt. (#1045)hdf5-1_13_0-rc6Larry Knox2021-09-286-149/+103
| | | | | | | | | | | | | | | | | | * Update Platforms Tested in RELEASE.txt. Remove Tested Configuration Features Summary for updated replacement. * Set version to 1.13.0-6 for rc6 snapshot.
| | * Develop cmake install dir (#1041)Allen Byrne2021-09-284-9/+18
| | | | | | | | | | | | | | | | | | | | | * Corrected path searched by CMake find_package command * Correct path for depend libs * Adjust examples script for install path
| | * Develop libaec up (#1037)Allen Byrne2021-09-281-1/+7
| | | | | | | | | | | | | | | * Upgrade libaec to 1.0.6 * correct include file name
| * | Merge branch 'develop' into selection_ioNeil Fortner2021-10-18967-32463/+108707
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| | * MS clang needs EHsc flag (#1035)Allen Byrne2021-09-241-2/+2
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| | * VFD ctl feature (#981)jhendersonHDF2021-09-2320-160/+1082
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Added "ctl" callback to the VFD interface, and the associated H5FDctl() and H5FD_ctl() calls. Modified the MPIO VFD accordingly -- specifically: Added ctl() call with op-code support to expose rank, size, and communicator. Modified H5FD_mpi_get_rank(), H5FD_mpi_get_size(), and H5FD_mpi_get_comm() to use the new ctl() callback. In passing removed the const qualifier from the file parameter of these functions, as the file parameter of the ctl callback is not const. Deleted the old H5FD__mpio_mpi_rank(), H5FD__mpio_mpi_size(), and H5FD__mpio_communicator() calls from the MPIO VFD. Deleted H5FD_class_mpi_t from H5FDprivate.h, and modified the MPIO VFD accordingly. Note that all VFDs now use H5FD_class_t, with no special class for VFDs that that support MPI. Some minor touch ups to the Neil's selection I/O mods in passing. Tested serial and parallel, debug and production on charis and jelly. * Reserve a range of VFD "ctl" opcodes for library and experimental usage * Add "ctl" callbacks to passthrough VFDs * Add RELEASE.txt entry for "ctl" callback * Use H5FDopen with H5F_ACC_RDWR flag instead of H5F_ACC_TRUNC in vfd test * Remove handling of passthrough "ctl" flag from multi VFD * Move logic for testing H5FD_CTL__TEST_OPCODE into a testing VFD Revise description of "ctl" callback in RELEASE.txt Remove unused H5FD_CTL__NUM_OPCODES definition Fix some warnings in multi VFD Co-authored-by: mainzer <mainzer#hdfgroup.org>
| | * Need to match clang and versions not just "Clang" (#1029)Allen Byrne2021-09-224-20/+12
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| | * HDFFV-11266 - add option to build HL tools (#1018)Allen Byrne2021-09-167-5/+47
| | | | | | | | | | | | | | | | | | | | | * HDFFV-11266 - add option to build HL tools * Correct if syntax * Correct name of conditional
| | * Disable fortran warning (#1014)Allen Byrne2021-09-162-7/+8
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| | * Modified gcc/clang warning suppression macros to account for some warnings ↵Sean McBride2021-09-1619-134/+162
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | flags being supported by one compiler but not the other (#379) * Committing clang-format changes * Fixed GCC warning suppression pragmas to also work with clang H5_GCC_DIAG_ON remains gcc-only. Added a new H5_CLANG_DIAG_ON that's clang-only, but it's not used anywhere currently. Added a new H5_GCC_CLANG_DIAG_ON that works with both compilers, which afterall support mostly the same warnings. Changed almost all uses of H5_GCC_DIAG_ON to use H5_GCC_CLANG_DIAG_ON, with the exception of a couple, where they really were suppressing gcc-only warnings. * Committing clang-format changes Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
| | * Fix java warnings (#1005)Allen Byrne2021-09-153-47/+37
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| | * Fix several warnings (#720)jhendersonHDF2021-09-1419-60/+73
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| | * H5Ztrans: (feature) Improved H5Z_xform_noop() and H5Z_xform_create() … (#933)Jan-Willem Blokland2021-09-135-6/+473
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * H5Ztrans: (feature) Improved H5Z_xform_noop() and H5Z_xform_create() function - Made a small improvement for H5Z_xform_noop() function. Now, the function will also return TRUE if the data transform function expression = "x". For this case, the HDF5 library behaves in a similar fashion as the case when no data transform function has been specified. - Improved the inline documentation of the function H5Z_xform_create() such it is more inline with the rest of the code. * Committing clang-format changes * H5Ztrans: (feature) Added 3 tests for improved H5Z_xform_noop() function - Added serial test with data transform expression = "x" to verify the improved H5Z_xform_noop() function behaves as expected. - Added 2 parallel tests with data transform expression = "x" in combination with a filter. Before, these tests will fail but with the improved H5Z_xform_noop() function they work and result in the expected behavior. - Small bug fix for one of parallel filter tests. * Committing clang-format changes * H5Ztrans: (feature) Added release note about detection of the simple data transform function "x". - Added a brief explanation about the implemented improvement of the detection of the simple data transform function "x" to the RELEASE.txt file. Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
| | * Update examples version because of HDFFV-11269 (#998)Allen Byrne2021-09-104-6/+6
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| | * Fix various warnings and issues in doxygen doc generation (#994)Allen Byrne2021-09-1011-70/+110
| | | | | | | | | | | | | | | * Fix various warnings and issues in doxygen doc generation * Add new file to list
| | * Add high-level set/get for `unsigned long long` attributes. (#973)Alessandro Felder2021-09-084-33/+143
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * add ULL attr set/get signatures to LT public API * add LT implementation of ULL set/get attribute * fix copy-paste typo in test comment * add ULL test data * define ullong attr name global variable * add LT tests for ULL attr set/get * Committing clang-format changes * correct type passed to lt get attr test for ULL * update RELEASE.txt with added ULL set/get functionality Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
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