Commit Graph

174 Commits

Author SHA1 Message Date
Larry Knox
11dfa25910 Update copyright headers (#2184)
* Updated source file copyright headers to remove "Copyright by the Board of Trustees
of the University of Illinois", which is kept in the top-level COPYING file.
2022-11-01 16:02:27 -05:00
Allen Byrne
ae414872f5 Develop clang 13 format (#1933)
* Update format source to clang 13

* More format changes
2022-07-26 14:45:46 -07:00
Dana Robinson
d433f0f7a6 Removes the STATIC flavor of FUNC_ENTER macros (#1622)
* Removes the STATIC flavor of FUNC_ENTER macros
2022-04-08 14:32:40 -05:00
Scot Breitenfeld
e8ea850004 spelling fixes (#1561) 2022-03-31 10:42:30 -05:00
Scot Breitenfeld
f859cb732b Fixed Spelling Errors (#1166)
* fixed missed closing of a dataset

* fixed missed closing of a dataset

* fixed typo in error return

* Committing clang-format changes

* minor edits

* code format

* Committing clang-format changes

* code format

* minor edit

* switched from using MPI_count, to actual bytes written for H5FD_mpio_debug rw debugging

* Committing clang-format changes

* changed size_i in printf to reflect the I/O.

* Committing clang-format changes

* Fixed seg fault with xlf on BE with -qintsize=8

* fixed error function string

* spelling corrections via codespell, added new spell check github actions

* Committing clang-format changes

* misc

* misc

* misc

* misc

* misc

* misc

* misc

* misc

* misc

* misc

* misc

* misc

* misc

* misc

* Committing clang-format changes

* misc

* misc

* misc

* misc

* misc

* misc

* Committing clang-format changes

* misc

* work around for https://github.com/codespell-project/codespell/issues/2137

* misc

* added missing file

* misc

* misc.

* misc

* switch to using Codespell with GitHub Actions

* misc.

* misc.

* fixed more sp errors

* Fix new typos found by codespell.

* fixed proceed with precede

* fixed variable in fortran test

* fixed minnum

* updated spelling list

Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com>
Co-authored-by: Larry Knox <lrknox@hdfgroup.org>
2021-12-07 08:27:29 -06:00
Dana Robinson
3a2b3bb035 Stop lying about H5S_t const-ness (#1209)
Hyperslabs can be reworked inside several H5S callbacks, making H5S_t
non-const in some places where it is marked const. This change switches
these incorrectly const H5S_t pointer parameters and variables to
non-const where appropriate.
2021-11-20 08:34:50 -06:00
Larry Knox
4819f89d3f Update license url (#332)
* Modify temporary rpath for testing in java example scripts.

* Update URL in source file Copyright headers for web copy of COPYING
file - src and test directories.
2021-02-17 08:52:04 -06:00
Allen Byrne
9524dc494f Jan ws changes (#282)
* OESS-98 convert plugin option to FetchContent, add tests

* Fixes for pkcfg files because of plugin option

* OESS-98 fix tools test for plugins

* Keep doxygen comments under 100 chars long - format hint

* Whitespace

* HDFFV-11144 - Reclassify CMake messages

* HDFFV-11099/11100 added help text

* Reworked switch statement to compare string instead

* Fix typo

* Whitespace fixes except for H5Tprivate.h typo fix
2021-01-27 08:15:34 -06:00
Neil Fortner
a5ffedb8c6 Improve performance of multiple calls to H5Sget_select_elem_pointlist (#270)
* Cache the pointer to the next point to process after the last call to
H5S__get_select_elem_pointlist.  This allows the normal process of
iterating over the points in batches to be much more efficient, as the
library does not need to traverse the entirety of the preceding points
every time the funciton is re-entered.

* Update RELEASE.txt for point selection iteration performance fix.
2021-01-19 18:42:14 -06:00
Quincey Koziol
1bb2bdbcf8 Enhance API tracing (#120)
Enhance API tracing to handle more types, and to put tracing info in a string, allowing it to be used when reporting errors.  Also refactor ref-counted strings (H5RS) module to add capabilities needed for the tracing.  Refactored H5Gname.c routines to use new H5RS routines also.  Added /*out*/ tags to API routines that are returning information to the application.  Updated H5TRACE macros from running updated trace script over library code.  Added tests for new H5RS routines.
2020-11-25 20:44:34 -06:00
Allen Byrne
ceaf5b264d Comment adjustments 2020-10-08 12:25:46 -05:00
Allen Byrne
b2d661b508 Clang-format of source files 2020-09-30 09:27:10 -05:00
Dana Robinson
b9de162eae Minor normalizations with 1.12 branch 2020-08-01 10:26:22 -07:00
Dana Robinson
6388a6750f Minor normalization with 1.10 2020-07-17 05:17:48 -07:00
Dana Robinson
127d1cfdf0 Minor changes from normalization with 1.10 2020-07-09 08:34:01 -07:00
Vailin Choi
81b1ed4e17 Fix issues when deserializing point/all/none selection with version beyond the library's supported version:
(1) Verify the decoded version before proceeding further with deserialization
(2) Close the dataspace if errors occurred after opening the dataspace
2020-03-13 11:22:22 -05:00
Neil Fortner
4e12984b77 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.
2019-11-18 13:33:36 -06:00
Neil Fortner
4064332a2d 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().
2019-11-18 11:53:50 -06:00
Vailin Choi
50ba969a61 Fix the errors when updating the versions in the new 1.13 develop branch. 2019-09-26 12:35:11 -05:00
Allen Byrne
b2f52d0b07 Update versioning to next major version 2019-09-25 17:28:17 -05:00
Quincey Koziol
605889fde8 Add H5Sselect_shape_same and H5Sselect_intersect_block API routines, along
with tests and minor cleanups and refactorings.
2019-07-30 15:34:53 -05:00
Quincey Koziol
49f14964c3 Add H5S_SEL_ITER_SHARE_WITH_DATASPACE selection iterator creation flag, to
share dataspace's selection with iterator (and with caution about not modifying
or closing the dataspace while the iterator is open).
2019-06-17 18:19:05 -05:00
Quincey Koziol
0525ee122f New hyperslab selection routines and new public selection iterator routines. 2019-06-15 21:25:28 -05:00
Quincey Koziol
08b009cc4a Merge remote-tracking branch 'origin/develop' into merge_hyperslab_update_01 2019-04-29 17:51:55 -05:00
Vailin Choi
c57ae99612 Modification for num_elem based on PR feedback. 2019-04-08 11:09:11 -05:00
Vailin Choi
2886cd9e45 HDFFV-10365: Changes as described in the RFC: H5Sencode/H5Sdecode Format Change.
This also addresses HDFFV-10255: H5Sencode/decode performance issue.
2019-04-06 16:55:14 -05:00
Quincey Koziol
92f30fd3d9 Merge remote-tracking branch 'origin/develop' into merge_hyperslab_update_01 2019-04-06 16:20:55 -05:00
Vailin Choi
4142d8b7d4 Move dataspace selection-specific coding to the callbacks as preparation for the H5Sencode changes. 2019-04-04 23:31:01 -05:00
Quincey Koziol
cda6273737 Merge remote-tracking branch 'origin/develop' into merge_hyperslab_update_01 2019-03-16 23:01:18 -05:00
Dana Robinson
a98747c0f9 Added an H5MM_memcpy call that checks for buffer overlap. 2019-03-16 08:06:52 -07:00
Quincey Koziol
9d86314f8b Core changes to selection code from the hyperslab_updates branch. 2019-03-15 20:14:41 -05:00
Quincey Koziol
320eaf91b9 More changes to align with incoming selection improvements. 2019-02-14 16:20:32 -06:00
Quincey Koziol
b5305b25a6 Align develop with incoming hyperslab_updates branch changes. 2019-02-12 21:51:15 -06:00
Quincey Koziol
4729d04d91 Delta reduction against hyperslab_updates branch. 2019-01-10 23:08:51 -06:00
Dana Robinson
30cd579a14 H5S adjust callbacks now return an herr_t instead of void. 2018-09-24 08:35:13 -07:00
Binh-Minh Ribler
ec31438afd Fixed HDFFV-10404
Description:
    Applied the typo fixes from user's report.
    The previous pull request couldn't be merged because it was too old,
    and it was too complicated for me to resolve conflicts.
Platform tested:
    Linux/64 (jelly) - very minor
2018-07-13 13:40:22 -05:00
hdftest
b193bc11c9 Revert "Merge pull request #1116 in HDFFV/hdf5 from ~HDFTEST/hdf5_hft:hdf5_1_10 to develop"
This reverts commit e9f476dad4, reversing
changes made to 2ff00b1b93.
2018-06-24 18:04:23 -05:00
M. Scot Breitenfeld
b69bd0771e Merge branch 'develop' into hdf5_1_10.sync 2018-05-08 17:17:45 -05:00
Quincey Koziol
01f196b31a Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into merge_hyperslab_updates 2018-04-29 03:04:21 -05:00
Vailin Choi
f3715a69d5 Fix for daily test failures. 2017-12-07 17:05:25 -06:00
Vailin Choi
3d84163ad3 Fix for HDFFV-9947 H5Sencode
Modifications to fix H5Sencode bug when num points selected is > 2^32.
2017-11-28 11:11:27 -06:00
Larry Knox
89fbe00dec Merge pull request #426 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10 to hdf5_1_10
* commit '54957d37f5aa73912763dbb6e308555e863c43f4':
  Commit copyright header change for src/H5PLpkg.c which was added after running script to make changes.
  Add new files in release_docs to MANIFEST. Cimmit changes to Makefile.in(s) and H5PL.c that resulted from running autogen.sh.
  Merge pull request #407 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10_1 to hdf5_1_10_1
  Change copyright headers to replace url referring to file to be removed and replace it with new url for COPYING file.
2017-04-25 16:05:36 -05:00
lrknox
25ec07450a Change copyright headers to replace url referring to file to be removed
and replace it with new url for COPYING file.

Fix 2 lines in java error test expected output file where messages
include line numbers changed by reducing the copyright header by 2
lines.
2017-04-14 11:54:16 -05:00
Quincey Koziol
8859a5a270 Checkpoint normalization against incoming hyperslab / selection / dataspace
improvements.
2017-03-27 20:25:06 -07:00
Quincey Koziol
4af66b09e0 [svn-r30219] Description:
More warning cleaups: down to 770 warnings (from ~940) in 134 files (from
148), with 28 unique kinds of warnings (from 31).

Tested on:
    MacOSX/64 10.11.5 (amazon) w/serial & parallel
    (h5committest forthcoming)
2016-07-22 17:43:18 -05:00
Dana Robinson
a89b064e2b [svn-r27916] Re-merge of r27884-27891 from the trunk + bugfix for a few
H5S recursive functions where an aliased pointer was
incorrectly set too early.

Tested on: Ubuntu 15.04 (Linux 3.19 x86_64) w/ gcc 4.9.2
           serial and parallel (w/ MPICH 3.1.4)
2015-09-29 21:36:46 -05:00
Dana Robinson
5c0a8cc86e [svn-r27912] Revert of r27887, which caused failures in the vds test. These
changes will be merged more carefully so we can more easily
identify any errors that arise.

Tested on: Ubuntu 15.04 (Linux 3.19 x86_64) w/ gcc 4.9.2
           serial and parallel (w/ MPICH 3.1.4)
2015-09-29 13:56:27 -05:00
Quincey Koziol
6f1dda474c [svn-r27887] Description:
Merge changes from trunk to the branch.

Tested on:
    MacOSX/64 10.10.5 (amazon) w/serial & parallel
    (h5committest not required on this branch)
2015-09-26 20:39:06 -05:00
Quincey Koziol
8186a5cee1 [svn-r27884] Description:
Update dataspace selection encode/decode routines to avoid type aliasing
errors.

Tested on:
    Linux/64 2.6.x (platypus) w/production
    (h5committest forthcoming)
2015-09-26 18:52:42 -05:00
Quincey Koziol
0695d6366a [svn-r27835] Description:
Sync w/trunk.

Tested on:
    MacOSX/64 10.10.5 (amazon) w/serial & parallel
    (h5committest not required on this branch)
2015-09-20 21:18:45 -05:00