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* Merge pull request #2063 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:vol_file_cmp ↵Neil Fortner2019-12-015-34/+163
|\ | | | | | | | | | | | | | | | | to develop * commit '40b2658b4b266b4dc65ec3db2897e0aaf54f8e42': 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.
| * Fix missing free in H5T__ref_mem_read()Neil Fortner2019-11-291-0/+2
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| * Fix bugs in H5VL file comparison code. Add short circuit success toNeil Fortner2019-11-283-10/+16
| | | | | | | | H5VL_cmp_connector_cls().
| * Implement file comparison VOL callback. Other changes to allowNeil Fortner2019-11-274-31/+152
| | | | | | | | | | references to work with non-native connectors. There is a bug somewhere.
* | Merge pull request #2059 in HDFFV/hdf5 from ~JSOUMAGNE/hdf5:topic_nullref to ↵Jerome Soumagne2019-11-284-42/+300
|\ \ | |/ |/| | | | | | | | | develop * commit '6b68cc352ffabb5fe997db1eb52216b3ee80e669': H5R: fix H5Tconv to check for null references
| * H5R: fix H5Tconv to check for null referencesJerome Soumagne2019-11-264-42/+300
| | | | | | | | | | | | Valid for both deprecated and non-deprecated references Update test
* | Merge pull request #2050 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:point_spi to ↵Neil Fortner2019-11-271-17/+113
|\ \ | | | | | | | | | | | | | | | | | | develop * commit 'ad2fbb022e096233444489e69b93343a4b7e9631': Add support for point selections to H5S_select_project_intersection.
| * | Add support for point selections to H5S_select_project_intersection.Neil Fortner2019-11-271-17/+113
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* | | Merge pull request #2057 in HDFFV/hdf5 from ↵Jerome Soumagne2019-11-2716-103/+88
|\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | ~JSOUMAGNE/hdf5:topic_get_file_id_native to develop * commit 'f46494ffd8449fc610798c8af312362608029d3d': Remove H5VL_NATIVE_FILE_GET_FILE_ID and add H5VL_OBJECT_GET_FILE
| * | | Remove H5VL_NATIVE_FILE_GET_FILE_ID and add H5VL_OBJECT_GET_FILEJerome Soumagne2019-11-2716-103/+88
| | |/ | |/| | | | | | | Remove H5F__get_file_id() and use only private routine instead
* | | Revert "Make a squash commit of 'Quiet some warnings by adjusting warnings ↵David Young2019-11-2720-79/+53
| | | | | | | | | | | | level and fixing some code.' (commit 5c911d8baf3)"
* | | Revert "Oops, remove more C99 designated initializers for VS 2010 ↵David Young2019-11-272-3/+2
| | | | | | | | | | | | | | | | | | compatibility." This reverts commit f907b511d06612dafc7814a7c30f2f3d2b76d52b.
* | | Merge pull request #2045 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:select_adjust ↵Neil Fortner2019-11-269-113/+276
|\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | to develop * commit '4e12984b77cdd7615843d94f8de8d54db27476ac': 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().
| * | | Move checking for zero offset in selection adjust calls to the selection ↵Neil Fortner2019-11-183-87/+100
| | | | | | | | | | | | | | | | | | | | | | | | | | | | 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() withNeil Fortner2019-11-189-60/+210
| | | | | | | | | | | | | | | | | | | | H5Sselect_adjust. Implement "adjust_s" callback for all selection types. Add range checking to H5Sselect_adjust().
* | | | Merge pull request #2054 in HDFFV/hdf5 from ~DEROBINS/hdf5_der:vol_trivial ↵Dana Robinson2019-11-264-23/+23
|\ \ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | to develop * commit '9a93ecac522d9032efd9cdc39ff0550412e54565': Trivial parameter renaming in VOL API calls.
| * | | | Trivial parameter renaming in VOL API calls.Dana Robinson2019-11-254-23/+23
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* | | | Oops, remove more C99 designated initializers for VS 2010 compatibility.David Young2019-11-252-2/+3
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* | | | Add an #include to get a function declaration.David Young2019-11-251-0/+1
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* | | | Merge remote-tracking branch 'hdf5/develop' into add-werror-and-squash-someDavid Young2019-11-2520-141/+595
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| * | | Merge pull request #2029 in HDFFV/hdf5 from ~CHOGAN/hdf5:feature/cx_lcpl to ↵Chris Hogan2019-11-2511-17/+285
| |\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | develop * commit '4ce9c10c568ff81ebd4eb7585039cbe3c40d1718': Add documentation for H5CX_get_ohdr_flags Add object header flags to API context Use major error code of calling package Handle H5CX_state_t for lcpl Add character encoding to lcpl context Change LC property name from 'create_intermediate_group' to 'intermediate_group' Use API context to store/retrieve LCPL when creating intermediate groups
| | * | | Add documentation for H5CX_get_ohdr_flagsChris Hogan2019-11-151-0/+13
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| | * | | Add object header flags to API contextChris Hogan2019-11-144-5/+72
| | | | | | | | | | | | | | | | | | | | | | | | | Add missing DCPL to API context state Replace a couple LCPL H5P_get calls with H5CX_get_*
| | * | | Use major error code of calling packageChris Hogan2019-11-081-2/+2
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| | * | | Handle H5CX_state_t for lcplChris Hogan2019-11-041-0/+21
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| | * | | Add character encoding to lcpl contextChris Hogan2019-11-043-43/+54
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| | * | | Change LC property name from 'create_intermediate_group' to 'intermediate_group'Chris Hogan2019-10-301-9/+9
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| | * | | Use API context to store/retrieve LCPL when creating intermediate groupsChris Hogan2019-10-2910-11/+167
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| * | | | Merge pull request #2043 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:seq_list_fix ↵Neil Fortner2019-11-201-1/+1
| |\ \ \ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | to develop * commit 'c104f4cb87a1558ab6a772967887738dc9800f0d': Modify H5Ssel_iter_get_seq_list() to accept iterators that have reached the end of iteration (returning zero sequences). Previously it could cause an assertion failure.
| | * | | | Modify H5Ssel_iter_get_seq_list() to accept iterators that have reachedNeil Fortner2019-11-151-1/+1
| | | |_|/ | | |/| | | | | | | | | | | | | | | | | the end of iteration (returning zero sequences). Previously it could cause an assertion failure.
| * | | | Fixed the H5_mpi_get_bigio_count function prototypeRichard Warren2019-11-181-1/+1
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| * | | Correct file extensionAllen Byrne2019-11-141-1/+1
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| * | Merge pull request #2033 in HDFFV/hdf5 from ~NFORTNE2/hdf5_naf:public_spi to ↵Neil Fortner2019-11-137-122/+308
| |\ \ | | | | | | | | | | | | | | | | | | | | | | | | develop * commit 'db6eab893e5f027f0b535316e0e7a9abe9ff8619': Implement public H5Sselect_project_intersection(). Updated internal 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.
| | * | Implement public H5Sselect_project_intersection(). Updated internalNeil Fortner2019-11-137-122/+308
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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.
* | | | Don't use C99 designated initializers, they're not compatible withDavid Young2019-11-253-16/+24
| | | | | | | | | | | | | | | | Visual Studio 2010.
* | | | Quiet some more maybe-uninitialized warnings---each is a false positive,David Young2019-11-223-3/+16
| | | | | | | | | | | | | | | | | | | | *sigh*. This is more code that may not compile with VS2010, *sigh sigh*.
* | | | Mention the -Werror= flags in libhdf5.settings.in.David Young2019-11-201-1/+1
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* | | | Quiet decleration-after-statement warnings.David Young2019-11-131-1/+1
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* | | | Move a statement under some declarations since some vintages of VisualDavid Young2019-11-131-1/+2
| | | | | | | | | | | | | | | | Studio don't like declarations after statements.
* | | | Document H5D__chunk_mem_xfree_wrapper().David Young2019-11-131-0/+5
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* | | | Undo my changes to the HD macros, hadn't really intended those to be onDavid Young2019-11-131-7/+7
| | | | | | | | | | | | | | | | this branch....
* | | | Cast to the parameter type, H5VL_token_t *, instead of to unsigned char *.David Young2019-11-131-1/+1
| | | | | | | | | | | | | | | | | | | | (H5VL_token_t, too, probably should turn from a typedef for a constant-length array to an array encapsulated in a struct.)
* | | | Change hdset_reg_ref_t and H5R_ref_t from arrays of unsigned char toDavid Young2019-11-131-2/+6
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | structs containing those arrays. Encapsulating the arrays in this way makes it easier to write and think about pointers to these types, casts to/from these types, etc. An interesting side-effect that we probably should *not* rely on is that the struct-encapsulation changes the alignment so that some GCC warnings about casts that increase the alignment requirement of the operand go away. Warnings like that have to be taken seriously: I will add -Werror=cast-align to the default compiler flags so that they stop the build quickly. GCC warnings led me to some surprising casts in test/trefer.c. I found that it was possible to make many simplifications after introducing the struct-encapsulation that I described, above.
* | | | Make many warnings about H5T_copy() calls that discard const qualifiersDavid Young2019-11-132-2/+2
| | | | | | | | | | | | | | | | into a few warnings in H5T_copy() itself.
* | | | Use FUNC_ENTER_STATIC_NOERR instead of FUNC_ENTER_STATIC for a functionDavid Young2019-11-131-1/+1
| | | | | | | | | | | | | | | | | | | | that does not generate its own error, so GCC does not warn that err_occurred (or whatever it is called) is unused or set and unused.
* | | | Explicitly initialize `type_flags`; the compiler does not realize thatDavid Young2019-11-131-2/+2
| | | | | | | | | | | | | | | | it is set before use by passing it as a reference to another function.
* | | | Initialize a couple of return values to avoid used-before-set warnings.David Young2019-11-131-2/+2
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* | | | Initialize a couple of variables that the compiler does not realize areDavid Young2019-11-132-2/+2
| | | | | | | | | | | | | | | | initialized when they're passed by reference to functions.
* | | | To quiet a warning, initialize some `struct timeval`s that the compilerDavid Young2019-11-131-2/+2
| | | | | | | | | | | | | | | | does not realize are always set before use by `gettimeofday`.
* | | | Delete unused variable.David Young2019-11-131-1/+0
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