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* Update reference files to latest outputAllen Byrne2019-12-0210-1617/+1230
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* Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)Allen Byrne2019-12-026-17/+9
|\ | | | | | | | | | | | | | | | | | | | | | | | | | | | | * commit '0772b975d1d2bfa15aedeb4b6e2c2aac78c61a2f': Fix missing free in H5T__ref_mem_read() Fix bugs in H5VL file comparison code. Add short circuit success to H5VL_cmp_connector_cls(). Implement file comparison VOL callback. Other changes to allow references to work with non-native connectors. There is a bug somewhere. Add support for point selections to H5S_select_project_intersection. Remove H5VL_NATIVE_FILE_GET_FILE_ID and add H5VL_OBJECT_GET_FILE Revert "Make a squash commit of 'Quiet some warnings by adjusting warnings level and fixing some code.' (commit 5c911d8baf3)" Revert "Oops, remove more C99 designated initializers for VS 2010 compatibility." H5R: fix H5Tconv to check for null references Trivial parameter renaming in VOL API calls. Move checking for zero offset in selection adjust calls to the selection callbacks. This makes the procedure for checking it consistent across selection types and between _s and _u, ensures it is always is performed even when called within the H5S package, and removes the redundant check that would occur when callins H5S_select_adjust_s() from outside the H5S package. Replace H5Sselect_adjust_u() and H5Shyper_adjust_s() with H5Sselect_adjust. Implement "adjust_s" callback for all selection types. Add range checking to H5Sselect_adjust().
| * Revert "Make a squash commit of 'Quiet some warnings by adjusting warnings ↵David Young2019-11-276-17/+9
| | | | | | | | level and fixing some code.' (commit 5c911d8baf3)"
* | Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)Allen Byrne2019-11-266-9/+17
|\ \ | |/ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * commit 'a8892bb42d6f6e4fbc30fae0eb2b957f81c938b9': (45 commits) Oops, remove more C99 designated initializers for VS 2010 compatibility. Add an #include to get a function declaration. Don't use C99 designated initializers, they're not compatible with Visual Studio 2010. Quiet some more maybe-uninitialized warnings---each is a false positive, *sigh*. This is more code that may not compile with VS2010, *sigh sigh*. Always warn on maybe-uninitialized. -Wincompatible-pointer-types was not available until GCC 5, so enable it only if that's the GCC version we're using. Only promote maybe-uninitialized warnings to errors on GCC 8. Even on GCC 8, there may be false positives at low optimization levels? I need to check. Only use -Werror=cast-function-type with GCC 8 and later. Put all of the -W options back into the order I found them in so that it's easier to compare old and new config/gnu-flags. Add new source files to CMakeLists.txt. Mention the -Werror= flags in libhdf5.settings.in. free -> HDfree Promote decleration-after-statement warnings to errors. Quiet decleration-after-statement warnings. Move a statement under some declarations since some vintages of Visual Studio don't like declarations after statements. Document H5D__chunk_mem_xfree_wrapper(). Undo accidental test deletion. Oops, delete a debug printf that snuck in here. Undo my changes to the HD macros, hadn't really intended those to be on this branch.... Make errors of some more warnings. Move disabled warnings to DEVELOPER_WARNING_CFLAGS. Put just one warning option on a line, and sort some of the options. Cast to the parameter type, H5VL_token_t *, instead of to unsigned char *. ...
| * Demote errors to warnings for a couple of unused-but-set variables thatDavid Young2019-11-132-0/+7
| | | | | | | | I cannot untangle right now.
| * Delete an unused variable.David Young2019-11-131-1/+0
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| * Mark an unused parameter H5_ATTR_UNUSED.David Young2019-11-131-1/+1
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| * Merge remote-tracking branch 'hdf5/develop' into add-werror-and-squash-someDavid Young2019-11-081-2/+2
| |\ | | | | | | | | | to pick up the NetBSD-compatibility changes that I recently merged.
| * | Change some GCC warnings to errors. Fix code to quiet some warnings.David Young2019-11-052-7/+9
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* | | Comment correctionAllen Byrne2019-11-212-2/+2
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* | | HDFFV-10876 Update h5dump and h5ls for new ref api.Allen Byrne2019-11-0746-2868/+3823
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* | Merge pull request #1984 in HDFFV/hdf5 from ~DYOUNG/netbsd:develop to developDavid Young2019-11-051-2/+2
|\ \ | |/ |/| | | | | | | | | | | | | | | | | | | | | | | * commit '0b721858e46a317c370a24115032d5be41688f67': Make these scripts relocatable again: derive a relative path for the original installation prefix from the examples prefix. Use that relative path to locate the current installation prefix, always. Fall back to an absolute installation prefix if the relative path cannot be derived. Get the path to prefix right: needs a ../ to back out of subdirectory c/. Make this script relocatable again: derive a relative path for the original installation prefix from the examples prefix. Use that relative path to locate the current installation prefix, always. Fall back to an absolute installation prefix if the relative path cannot be derived. Let us override the examples directory using --with-examplesdir=DIR. This is handy for NetBSD where HDF5 examples are installed by convention in $prefix/share/examples/hdf5/ rather than in ${prefix}/share/hdf5_examples/, which is the HDF5 default. Follow longstanding execv convention for compatibility with NetBSD. Under the examples directories, always find the installed HDF5 executables and scripts using @prefix@ instead of a relative path, because the number of ../ in the relative path will be different on NetBSD than on other systems. Make the HDF5 configure script grok NetBSD. For portability, insulate the HDF5 library from some system macros. Not every system has perl installed in /usr/bin/, so change the shebang (#!) line to `/usr/bin/env perl` to locate perl on the PATH. For portability, use the POSIX sh(1) string-comparison operator `=` instead of `==`.
| * For portability, use the POSIX sh(1) string-comparison operator `=`David Young2019-10-031-2/+2
| | | | | | | | instead of `==`.
* | Fix MPI test dependsAllen Byrne2019-10-231-1/+1
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* | Update format and fix missing prefixAllen Byrne2019-10-211-185/+112
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* | Improvements in response to Allen's suggestions.Larry Knox2019-10-091-12/+12
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* | Corrections and improvements to testh5dump.sh.in changes.Larry Knox2019-10-091-34/+10
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* | Fix errors in testh5dump.sh tests that grep for reference error messages.Larry Knox2019-10-091-3/+33
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* | Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)Allen Byrne2019-10-0812-65/+71
|\ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * commit '4c558700ab33934e7358483c5d20fea4823baf9e': Update RELEASE.txt for reference changes Fix reference type comparison in h5dump Make wrappers, tests and tools use H5Treclaim() instead of H5Dvlen_reclaim() Add new H5R API that abstracts object, region and attribute reference types Remove ability to loc by ref from H5VL layer Add support for retrieving object name by token Add H5VL_OBJECT_GET_TYPE to get object type Add H5VL_MAX_TOKEN_SIZE and H5VL_token_t Adapt Jerome's "file info" H5VL 'get' query to retrieve container token info. Fix H5VL_blob_get to return size of blob Add 'blob' callbacks to VOL, along with a native implementation to store them in the global heap, and changed the VL datatype conversion code to use blobs. Remove debugging logic from the new t_bigio test Expanded t_bigio.c to include Jordan's test from HDFFV-10539 Another cleanup pass as suggested by the reviewers. Fix some typos and remove an unused prototype from H5Sprivate.h At the suggestion of the PR reviewers, moved the mpio_create_large_type to 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. Made code review edit suggested by Jerome, plus various code updates to files that I touched to eliminate compile warnings (on my Linux box). No functional changes, just removed some tab characters Make the initial bug fixes to allow >2GB writes with Independent IO
| * | Fix reference type comparison in h5dumpJerome Soumagne2019-10-081-1/+5
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| * | Make wrappers, tests and tools use H5Treclaim() instead of H5Dvlen_reclaim()Jerome Soumagne2019-10-0812-64/+66
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* | Change reference test to grep for specific errorAllen Byrne2019-10-071-3/+3
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* More whitespace changesAllen Byrne2019-10-032-211/+57
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* Whitespace cleanupAllen Byrne2019-10-031-159/+157
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* HDFFV-10919 merge synchingAllen Byrne2019-10-028-301/+189
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* HDFFV-10918 add tests for h5repack ext storageAllen Byrne2019-10-012-1/+121
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* fix for statement declare of typeAllen Byrne2019-09-301-1/+2
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* Update versioning to next major versionAllen Byrne2019-09-252-2/+4
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* Update develop branch version to 1.13.0 after creation of hdf5_1_12Larry Knox2019-09-251-7/+7
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* Merge branch 'develop' of ↵Jacob Smith2019-09-242-2/+6
|\ | | | | | | https://bitbucket.hdfgroup.org/scm/~jake.smith/hdf5 into bugfix/repack_external_storage
| * Fix missing option and incorrect closeAllen Byrne2019-09-241-2/+2
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* | Update to current external file population.Jacob Smith2019-09-241-13/+19
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* | Revert else-if to single line.Jacob Smith2019-09-241-22/+12
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* | Merge branch 'develop' of ↵Jacob Smith2019-09-2398-4847/+6047
|\ \ | |/ | | | | https://bitbucket.hdfgroup.org/scm/~jake.smith/hdf5 into bugfix/repack_external_storage
| * Merge pull request #1936 in HDFFV/hdf5 from ↵Dana Robinson2019-09-196-59/+62
| |\ | | | | | | | | | | | | | | | | | | ~DEROBINS/hdf5_der:develop_minor_pr to develop * commit 'a6930a2bcfd37ea3610baafb608faec883286315': Renamed get/set_time() calls in the tools library to avoid name clash when building static parallel HDF5 w/ static linking to OpenMPI.
| | * Renamed get/set_time() calls in the tools library to avoid nameDana Robinson2019-09-196-59/+62
| | | | | | | | | | | | clash when building static parallel HDF5 w/ static linking to OpenMPI.
| * | Add missing HD prefixAllen Byrne2019-09-181-1/+1
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| * | HDFFV-10905 fix test scripts for no zlibAllen Byrne2019-09-172-7/+11
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| * HDFFV-10901 add missing config optionsAllen Byrne2019-09-132-623/+435
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| * use h5test.hAllen Byrne2019-09-051-33/+4
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| * add test libraryAllen Byrne2019-09-051-2/+2
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| * Correct name and add mingw to 32bit toolchainAllen Byrne2019-09-051-1/+1
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| * Fix build for tools library testAllen Byrne2019-09-052-12/+9
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| * OESS-29 Fix HD prefix in perform and enable test compileAllen Byrne2019-08-279-369/+373
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| * HDFFV-10876 h5dump OPAQUE size should be optionalAllen Byrne2019-08-273-18/+17
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| * Add HD prefixAllen Byrne2019-08-271-8/+8
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| * OESS-29 Update HD prefix mostlyAllen Byrne2019-08-244-343/+343
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| * Untangle #ifdef mess in ROS3 code.Dana Robinson2019-08-203-30/+27
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| * Add HD prefix to testsAllen Byrne2019-08-1526-1371/+1395
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| * Whitespace cleanupAllen Byrne2019-08-153-13/+13
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