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* Removes staff email addresses from the repositoryDana Robinson2020-08-0723-555/+449
| | | | Removes redundant C library headers from hl library
* Fixes -Wnull-dereference warning in hl/src/H5DS.cDana Robinson2020-08-061-4/+3
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* Adds -Wnull-dereference to the warnings we ignore in flex/bisonDana Robinson2020-08-064-1301/+1392
| | | | generated code (that we have no control over).
* Tools refactorAllen Byrne2020-07-152-65/+72
| | | | | | Move error_stack setup to tools library Add structure for h5dump properties Eliminate duplicated h5diff functions Use properties structure in place of argument lists.
* HDFFV-11116 Add option for install location of Fortran MOD filesAllen Byrne2020-07-091-1/+20
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* Fix HDFFV-10591Binh-Minh Ribler2020-06-192-12/+24
| | | | | | | | | | | | Description: h52gif produced a segfault when a buffer overflow occurred because the data size was corrupted and became very large. This commit added a check on the data size against the buffer size to prevent the segfault. It also added error reporting to h52gif to display an error message instead of silently exiting when the failure occurred. Platforms tested: Linux/64 (jelly) SunOS 5.11 (emu)
* Merge pull request #2610 in HDFFV/hdf5 from ↵David Young2020-06-163-6/+6
|\ | | | | | | | | | | | | ~DYOUNG/werror:hdffv-11060-examples-destdir to develop * commit '4cebd8aa6c965fe2e5dde6dbff36b2be3ca58bf1': Make examples installation respect DESTDIR. Fixes HDFFV-11060.
| * Make examples installation respect DESTDIR. FixesDavid Young2020-05-263-6/+6
| | | | | | | | HDFFV-11060.
* | Eliminate unneccesary creation of DXPLQuincey Koziol2020-06-021-14/+3
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* | Removed trailing space from Fortran files.Dana Robinson2020-05-268-252/+252
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* Fix NoFilter buildAllen Byrne2020-04-241-1/+1
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* Trim trailing whitespaceQuincey Koziol2020-04-2027-448/+448
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* Fix shadowed typeAllen Byrne2020-04-131-3/+3
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* TRILAB-192 update LTparse filesAllen Byrne2020-04-073-1206/+1129
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* Minor updates and fix settings for fortran flagsAllen Byrne2020-04-061-1/+1
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* Remove overzealous additionsAllen Byrne2020-04-052-3/+1
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* Flag construction must be after compiler detectionAllen Byrne2020-04-053-59/+27
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* TRILAB-192 add c++ and fortran warnings build systems one fileAllen Byrne2020-04-059-61/+44
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* Merge pull request #2469 in HDFFV/hdf5 from tools_vol_update to developJordan Henderson2020-03-271-1/+9
|\ | | | | | | | | | | | | * commit 'ea952b25ba0fd5c4b5f60a94e75a1b5b78e66172': A few small tweaks to the tools from review Replace usage of some standard library functions with HD- versions Update Tools library to be better compatible with VOL connectors
| * Update Tools library to be better compatible with VOL connectorsJordan Henderson2020-03-171-1/+9
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Modify h5repack to integrate with VOL connectors Update tools library to accomodate VOL connectors Update logic in h5tools_fopen for VOL connectors Add command-line options to h5repack for specifying in/out VOL connectors Implement h5tools_set_vol_fapl Fix library shutdown issue Integrate ROS3 and HDFS VFDs into new h5tools_get_fapl() scheme Avoid H5Ocopy in h5repack when using different VOL connectors Update h5tools_test_utils.c for ROS3 and HDFS integration
* | TRILAB-192 restrict extensive warnings to librariesAllen Byrne2020-03-242-0/+12
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* So that I can use PASSED(); anywhere a statement can go, #define PASSED() withDavid Young2020-02-281-1/+1
| | | | a do-while wrapper.
* TRILAB-142 Change minimum CMake version to 3.12Allen Byrne2020-02-2115-15/+15
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* HDFFV-11012 - add correct fortran include path propertiesAllen Byrne2020-02-041-2/+2
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* Merge pull request #2328 in HDFFV/hdf5 from ~DEROBINS/hdf5_der:develop_minor ↵Dana Robinson2020-01-307-718/+988
|\ | | | | | | | | | | | | to develop * commit 'a67c238feef1487814b02132bfd7961f22d9d6eb': Cleaned up remaining warnings in high-level library.
| * Cleaned up remaining warnings in high-level library.Dana Robinson2020-01-307-718/+988
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* | HDFFV-11011 correct issues with target file extensionAllen Byrne2020-01-282-20/+8
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* Squashed commit of the token_refactoring branch:Dana Robinson2020-01-162-64/+111
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* HDFFV-11001 fix if blockAllen Byrne2020-01-151-3/+2
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* HDFFV-11001 need to qualify all by parallel or serial typesAllen Byrne2020-01-157-9/+8
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* HDFFV-11001 Add fine control over testingAllen Byrne2020-01-1511-17/+27
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* Merge pull request #2071 in HDFFV/hdf5 from ~KMU/hdf5:bugfix/intel_warnings ↵Kimmy Mu2020-01-061-1/+1
|\ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | to develop * commit '0a2bb11b248df6841daabca3970df5d8504adfc7': address problems from comments fix and address comments change according to previous comments add missing piece remove unnecessary check macro fix intel compile warnings Revert "fix warnings from Intel compiler" Revert "fix warnings and some text alignment" Revert "let hdf5 pick up the right compiler in Intel environment" Revert "fix issues from previous PR comments" Revert "using a different MACRO" using a different MACRO fix issues from previous PR comments let hdf5 pick up the right compiler in Intel environment fix warnings and some text alignment fix warnings from Intel compiler
| * Merge branch 'develop' into bugfix/intel_warningskmu2019-12-092-5/+1
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| * | remove unnecessary check macrokmu2019-12-061-2/+1
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| * | fix intel compile warningskmu2019-12-041-1/+2
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* | | Small changes from the token_refactoring branch, to reduce the delta to developQuincey Koziol2020-01-041-18/+18
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* | | In portable shell scripts (using #!/bin/sh) we have to use single squareDavid Young2019-12-191-1/+1
| | | | | | | | | | | | brackets, [ ], instead of the bash-ism double square brackets, [[ ]].
* | | Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)Allen Byrne2019-12-111-10/+11
|\ \ \ | | | | | | | | | | | | | | | | | | | | | | | | * commit '6b670e353c1ea7f13ef72cc4297d9973102078bb': Correct assignment Fix java include, h5watch and remove clang tool. Add missing filenames
| * | | Correct assignmentAllen Byrne2019-12-101-1/+1
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| * | | Fix java include, h5watch and remove clang tool.Allen Byrne2019-12-101-10/+11
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* | | | HDFFV-10974 Change defines to eliminate Windows conflictAllen Byrne2019-12-108-180/+175
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* | | Fix windows 10 compile errorAllen Byrne2019-12-071-6/+18
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* | | Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)Allen Byrne2019-12-022-5/+1
|\ \ \ | | |/ | |/| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * 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 Young2019-11-272-2/+2
| | | | | | | | | | | | level and fixing some code.' (commit 5c911d8baf3)"
| * | Revert "Oops, remove more C99 designated initializers for VS 2010 ↵David Young2019-11-271-5/+1
| |/ | | | | | | | | | | compatibility." This reverts commit f907b511d06612dafc7814a7c30f2f3d2b76d52b.
* | Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)Allen Byrne2019-11-262-1/+5
|\ \ | |/ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * 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 *. ...
| * Oops, remove more C99 designated initializers for VS 2010 compatibility.David Young2019-11-251-1/+5
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| * Avoid unused-variable warnings: change static const strings in a coupleDavid Young2019-11-131-1/+1
| | | | | | | | of header-file templates to #defines.
| * Initialize a variable before its first use.David Young2019-11-131-1/+1
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* | Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)Allen Byrne2019-11-132-2/+2
|\ \ | |/ | | | | | | | | | | | | | | * commit 'e08b69d3d2e572de4707b1fbf908111d29f40a1b': Use HD prefix. Fix issue where H5R__reopen_file did not make the file "post open" callback. Apparently, + has no special meaning, and neither does \+, in so-called "obsolete" / POSIX "basic" regular expressions. Also, not every version of `sed` out there supports the `-E` option. So delete the -E flag and use the regex `[^/][^/]*` instead of `[^/]+`. Implement H5VLget_file_type() to return a copy of a datatype with the location set to be in a file. Only meant to be used by VOL connectors. Implement H5VLpeek_connector_id() to support connectors querying their own IDs. Fix app_ref with connector IDs in a couple places (external VOLs registered as default through ENV should be visible to the application). Modify vlen and reference interfaces to work with arbitrary VOL connectors. Implement file "post open" specific callback, to enable connectors to update their file structs after a wrap context has been set. Fix HDFFV-10937: use a more reliable (and probably faster) scheme for visiting all elements of a matrix in an arbitrary order.
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