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* | Merge pull request #2469 in HDFFV/hdf5 from tools_vol_update to developJordan Henderson2020-03-2723-777/+1167
|\ \ | |/ | | | | | | | | | | * 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
| * A few small tweaks to the tools from reviewJordan Henderson2020-03-274-131/+139
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| * Replace usage of some standard library functions with HD- versionsJordan Henderson2020-03-262-4/+4
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| * Update Tools library to be better compatible with VOL connectorsJordan Henderson2020-03-1723-759/+1141
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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
* | Add extensive warnings to tools executablesAllen Byrne2020-03-258-0/+22
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* | unused set-variable in macroAllen Byrne2020-03-251-0/+1
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* | Fix Werror issues in JNI and toolsAllen Byrne2020-03-241-1/+0
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* | TRILAB-192 restrict extensive warnings to librariesAllen Byrne2020-03-241-0/+6
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* WhitespaceAllen Byrne2020-02-291-14/+14
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* Fix standalone linkAllen Byrne2020-02-254-7/+8
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* HDFFV-11036 add file compare test processAllen Byrne2020-02-241-8/+52
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* TRILAB-142 Change minimum CMake version to 3.12Allen Byrne2020-02-2128-57/+51
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* H5_HAVE_PARALLEL, _DEBUG_API, etc. Add attributes to some variables andDavid Young2020-02-101-1/+1
| | | | parameters that are unused under some configurations.
* HDFFV-11014, fix the h5repack issue that misses a few attributes during the ↵Muqun Yang2020-02-071-1/+8
| | | | repacking. The flag that checks the object reference attribute is not updated properly. The fix is trivial. Just need to move the flag update line into the inner loop. Tested at Jelly. Also update the release.txt.
* Small fixes for tools and skip autotools tests for no filterAllen Byrne2020-01-293-9/+4
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* Merge pull request #2318 in HDFFV/hdf5 from ↵David Young2020-01-292-92/+93
|\ | | | | | | | | | | | | ~DYOUNG/werror:reduce-werror-diffs-1 to develop * commit 'fa1b2f6ef35c459c9f74ead885c119ae7f61c056': Reduce differences between my -Werror branch and `develop`:
| * Reduce differences between my -Werror branch and `develop`:David Young2020-01-292-92/+93
| | | | | | | | | | | | | | | | Rename index -> idx, fileno -> fnumber, fileno -> fno to avoid GCC shadowed declaration warnings about index(3). Convert #pragma GCC diagnostic push/pop/ignored to the HDF5 library's H5_GCC_DIAG_OFF()/H5_GCC_DIAG_ON() macros.
* | Merge pull request #2320 in HDFFV/hdf5 from ↵David Young2020-01-291-1/+1
|\ \ | | | | | | | | | | | | | | | | | | ~DYOUNG/werror:reduce-werror-diffs-2 to develop * commit 'a5f236e83bdd29e660a55c5577a69a3809605cda': Reduce casts of HDcalloc()/HDmalloc() that -Wc++-compat required.
| * | Reduce casts of HDcalloc()/HDmalloc() that -Wc++-compat required.David Young2020-01-291-1/+1
| |/ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Reduce gratuitous casts---e.g., (size_t)1. Use the right format string for a pointer. In the H5C sanity checks, change a "size increase" variable from ssize_t (too narrow) to int64_t (wide enough). Parenthesize every appearance of `storage` in the macro `H5D_CHUNK_STORAGE_INDEX_CHK(storage)` so that you can pass in an expression like &sc and it works properly. Disallow re-assignment of the `dset` parameter to H5D__chunk_init() because it helped assure me that it's safe to replace the repeating expression `&dset->shared->layout.storage.u.chunk` with `sc` throughout. Replace lengthy expressions such as `&dset->shared->layout.storage.u.chunk` with `sc` throughout several functions in H5Dchunk.c ISTR that the compiler warned that `sc` was declared but unused in a couple of functions, and then I found that `sc` could be used in many places. Maybe the disused `sc` appeared because a bunch of code was copied and pasted, I don't know. Anyway, it's a lot tighter code now that I use `sc`. In H5D__chunk_update_old_edge_chunks() and H5D__chunk_delete() I actually expand `sc` and another temporary variable, `pline`, because they're used only in !defined(NDEBUG) code. This squashes unused-variable warnings in the defined(NDEBUG) configuration. Don't drop the `volatile` qualification with a cast in tools/src/h5import/h5import.c.
* | Merge pull request #2321 in HDFFV/hdf5 from ↵David Young2020-01-292-8/+18
|\ \ | | | | | | | | | | | | | | | | | | ~DYOUNG/werror:reduce-werror-diffs-3 to develop * commit 'f19e06b59ee53f17465a7b5974c25c3245a40d9a': testpar/t_2Gio.c: Fix a typo that I think was introduced by a previous warnings PR. An array element was assigned to itself---shape[2]Â =Â shape[2];---instead of being assigned to chunk[2].
| * | testpar/t_2Gio.c: Fix a typo that I think was introduced by aDavid Young2020-01-292-8/+18
| |/ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | previous warnings PR. An array element was assigned to itself---shape[2]Â =Â shape[2];---instead of being assigned to chunk[2]. fortran/src/H5Pf.c: move conditional compilation controlled by H5_NO_DEPRECATED_SYMBOLS outside of a function for readability. fortran/src/H5match_types.c: put a variable's declaration under the same conditional compilation (H5_FORTRAN_HAVE_C_LONG_DOUBLE) as its use. For now, skip compilation of some unused debug dump routines in the JNI. While I'm in the JNI, delete a set-but-unused variable. src/H5Z.c: condition a variable declaration on H5_NO_DEPRECATED_SYMBOLS so that it's not declared but unused or vice versa. test/cache_common.h: add an #include in to get some symbols we need to avoid implicit declaration warnings. test/dsets.c: use a more conventional conditional-compilation syntax. test/dt_arith.c, test/fillval.c: initialize a bunch of uninitialized variables before use. test/vfd.c: pass the expected type of `void **` to posix_memalign(3) instead of `int **`. testpar/t_bigio.c: explicitly compare with 0 instead of using ! when "equal to 0?" is the question not "is false?" Repair some indentation while I'm here. testpar/testpar.h: repair misaligned line-continuation backslashes in a macro that probably should be a function so that we don't have to fiddle with the line continuation to begin with. tools/src/h5repack/h5repack_main.c: fix some compiler fussing about enums. tools/test/perform/pio_engine.c: the compiler fusses if you cast a function call returning double directly to off_t. It's ok if you cast a variable that's a double to off_t, however. Write and use a new function, sqrto(), to avoid the cast warnings.
* | Merge pull request #2319 in HDFFV/hdf5 from ↵Allen Byrne2020-01-2917-246/+144
|\ \ | | | | | | | | | | | | | | | | | | | | | ~BYRN/hdf5_adb:bugfix/HDFFV-11011 to develop * commit 'c8096118d5edd9f27ff0f6180a4dde4c10aafda7': HDFFV-11011 - merge include list HDFFV-11011 correct issues with target file extension
| * | HDFFV-11011 correct issues with target file extensionAllen Byrne2020-01-2817-246/+144
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* | | Introduce new H5VL _by_value routinesJordan Henderson2020-01-292-3/+3
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* | Merge pull request #2311 in HDFFV/hdf5 from ~KMU/hdf5:misc to developKimmy Mu2020-01-288-71/+105
|\ \ | |/ |/| | | | | | | | | | | | | * commit '406330addf45529ecdd088f4d22e9aab9a03661d': rename macro change condition pick up from Dave's fix leave Wswitch-default for later fix fix Wredundant-decls, Wswitch-default, Wdeclaration-after-statement, Wsign-compare, Wmisleading-indentation, Wshadow
| * change conditionkmu2020-01-271-1/+1
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| * fix Wredundant-decls, Wswitch-default, Wdeclaration-after-statement, ↵kmu2020-01-278-71/+105
| | | | | | | | Wsign-compare, Wmisleading-indentation, Wshadow
* | Merge pull request #2304 in HDFFV/hdf5 from ~DEROBINS/hdf5_der:isnan_fixes ↵Dana Robinson2020-01-281-116/+42
|\ \ | | | | | | | | | | | | | | | | | | to develop * commit '8b4d774eb9bb95cb3c59f033b43ed9fba340a54a': Replaced my_isnan with C99 isnan in h5diff.
| * | Replaced my_isnan with C99 isnan in h5diff.Dana Robinson2020-01-241-116/+42
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* | | Remove cmake macros from valgrind testsAllen Byrne2020-01-252-104/+109
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* | | Optimized the floating point comparisons a little bit.Dana Robinson2020-01-241-24/+24
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* | | Fix for failing h5diff tests involving floating-point compares.Dana Robinson2020-01-241-6/+18
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* | Revert "Revert "Moved -Wunsuffixed-float-constants to the developer warnings.""Dana Robinson2020-01-231-8/+6
|/ | | | This reverts commit 6486e06545bf637d46e18a787395542f4fca143a.
* squash cast warning fixkmu2020-01-2311-150/+160
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* Change tools debug macros to not use error stackAllen Byrne2020-01-2310-203/+142
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* merge and fix conflictkmu2020-01-23122-3313/+4782
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| * Merge pull request #2295 in HDFFV/hdf5 from ~KMU/hdf5:bugfix/float to developKimmy Mu2020-01-232-3/+7
| |\ | | | | | | | | | | | | | | | | | | * commit '9afaf94bef740f89958a1a8aae369d5f607845f4': not use hdf5 private header fix float type cmp warning fix float type cmp warning
| | * not use hdf5 private headerkmu2020-01-221-1/+3
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| | * fix float type cmp warningkmu2020-01-221-0/+2
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| | * fix float type cmp warningkmu2020-01-221-3/+3
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| * | Merge pull request #2292 in HDFFV/hdf5 from ~KMU/hdf5:bugfix/prototype to ↵Kimmy Mu2020-01-231-2/+0
| |\ \ | | | | | | | | | | | | | | | | | | | | | | | | develop * commit '9f80ffa1f1908975b3100814b2529bf779521e13': fix missing prototype warning
| | * | fix missing prototype warningkmu2020-01-211-2/+0
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| * | | merge and fixkmu2020-01-2132-420/+693
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| | * | Merge pull request #2269 in HDFFV/hdf5 from ↵Dana Robinson2020-01-183-54/+116
| | |\ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ~DEROBINS/hdf5_der:stack_size_warnings to develop * commit '44739ccd4715cc9e15595575700e945341fcdbcc': Tidying from code review. Fixed stack and frame size warnings. Not complete, but fixes most of the easier cases.
| | | * \ Merge branch 'develop' into stack_size_warningsDana Robinson2020-01-1775-1344/+1699
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| | | * | | Fixed stack and frame size warnings. Not complete, but fixes most ofDana Robinson2020-01-153-54/+116
| | | | | | | | | | | | | | | | | | | | | | | | the easier cases.
| | * | | | Correct standalone function attributesAllen Byrne2020-01-173-8/+13
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| | * | | | Standalone should not use import/export attributesAllen Byrne2020-01-171-0/+5
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| | * | | Squashed commit of the token_refactoring branch:Dana Robinson2020-01-1627-376/+570
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| * | | | merge and fix conflictkmu2020-01-1963-993/+1018
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