Commit Graph

6681 Commits

Author SHA1 Message Date
Dana Robinson
734aebc395 Rework of the POSIX file open permissions and macros to clean up
HDopen() calls.

Also fixed a minor const warning in the core VFD.
2017-04-28 18:13:22 -04:00
Dana Robinson
d3b664b6a7 Changed the Windows POSIX open() file permissions to be correct
according to MSDN. Partial fix for HDFFV-9630.
2017-04-28 08:11:29 -07:00
Dana Robinson
1a4bda1bd8 Set the HDF5_GENERATE_HEADERS CMake option to default to ON and removed
the option from the CMake cache init files.

Fixes HDFFV-10184
2017-04-27 16:10:52 -04:00
Dana Robinson
80d57c242a Set the HDF5_GENERATE_HEADERS CMake option to default to ON and removed
the option from the CMake cache init files.

Fixes HDFFV-10184
2017-04-27 15:18:18 -04:00
Allen Byrne
4fb75982b1 Change position of declaration to top of block 2017-04-27 08:53:57 -05:00
Allen Byrne
a302f508a5 Change position of declaration to top of block 2017-04-27 08:52:34 -05:00
Vailin Choi
ae05b0c726 Modifications based on pull request review.
Made couple changes based on the review comments.
2017-04-26 14:49:45 -05:00
Vailin Choi
14e9856778 Incorporate patch from GE Healthcare (HDFFV-9934)
This is the same patch that had already been integrated to 1.8 branch (pull request #387).
Tested on moohan, ostrich, platypus, emu, osx1010test, quail, kituo, mayll.
2017-04-26 14:48:17 -05:00
Vailin Choi
bacb45b38a Modifications based on pull request review.
Made couple changes based on the review comments.
2017-04-26 14:00:34 -05:00
Vailin Choi
cb8e82a53d Incorporate patch from GE Healthcare (HDFFV-9934)
This is the same patch that had already been integrated to 1.8 branch (pull request #387).
Tested on moohan, ostrich, platypus, emu, osx1010test, quail, kituo, mayll.
2017-04-25 18:08:53 -05:00
Allen Byrne
2420df5a85 HDFFV-10170 revert entire change 2017-04-25 16:34:52 -05:00
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
1073ac45ef Commit copyright header change for src/H5PLpkg.c which was added after running script to make changes. 2017-04-25 15:59:21 -05:00
Allen Byrne
2599c23164 Change signature of H5PLget_size 2017-04-25 09:40:54 -05:00
Allen Byrne
6fac0de158 Revert HDFFV-9655 by disabling test and not using new function. 2017-04-24 15:10:58 -05:00
Dana Robinson
87ceb78392 Fixed problems that prevent bin/trace from marking up some functions. 2017-04-24 15:48:47 -04:00
Allen Byrne
e2bf6e2beb Merge pull request #447 in HDFFV/hdf5 from ~BYRN/hdf5_adb:bugfix/HDFFV-9655-plugin-path-relative to develop
* commit 'a995a63085d88e1a633770536efeff5b01569445':
  HDFFV-9655 fix test and some warnings
  HDFFV-9655 fix compile and test
  HDFFV-9655 - Add functions for '@' - untested
2017-04-21 14:40:37 -05:00
Allen Byrne
a995a63085 HDFFV-9655 fix test and some warnings 2017-04-21 10:58:32 -05:00
Allen Byrne
aeb1500897 Merge remote-tracking branch 'origin/develop' into
bugfix/HDFFV-9655-plugin-path-relative
2017-04-21 10:41:50 -05:00
Allen Byrne
3968c5c3bf Fix parameter form 2017-04-21 10:07:30 -05:00
Allen Byrne
ae1144f882 HDFFV-9655 fix compile and test 2017-04-21 10:02:43 -05:00
Dana Robinson
739f413b78 Fixed problems that prevent bin/trace from marking up some functions. 2017-04-20 20:19:15 -04:00
Dana Robinson
15f85df540 bin/trace updates in H5PL.c 2017-04-20 18:14:44 -04:00
Dana Robinson
cbab16c8f2 The cache_image test shows a skipped message about EoC in parallel. 2017-04-20 16:59:05 -04:00
Dana Robinson
2b936c79e2 Added code to disable the evict-on-close feature in
the parallel library.
2017-04-20 16:58:34 -04:00
Dana Robinson
5ed622b9ca The cache_image test shows a skipped message about EoC in parallel. 2017-04-20 16:11:47 -04:00
Dana Robinson
d594cb2cc6 Added code to disable the evict-on-close feature in
the parallel library.
2017-04-19 18:28:21 -04:00
Allen Byrne
ed9ffe7249 Reformat char * args 2017-04-18 09:34:10 -05:00
Larry Knox
dcd18f8684 Merge pull request #431 in HDFFV/hdf5 from ~BYRN/hdf5_adb:hdf5_1_10 to hdf5_1_10
* commit 'b67e626ba9095f35dd9a8f9e8ca906320f85914c':
  HDFFV-10173 remove hook for noinst libs
  HDFFV-10170 fix noinst for test libs
  HDFFV-10173 fix compile on VS2008
  Due to HDFVIEW-19 add read VL as string function
2017-04-17 16:28:25 -05:00
Allen Byrne
5f313c0172 HDFFV-10173 fix compile on VS2008 2017-04-17 12:40:00 -05:00
Allen Byrne
afcede5368 Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)
* commit '5f7822fac4673cdb9e8ed60d104566c9df43303f':
  Express test mods to test/cache.c
2017-04-17 12:34:10 -05:00
Allen Byrne
6bbc8b69cf HDFFV-10173 fix compile on VS2008 2017-04-17 11:32:32 -05:00
Jordan Henderson
4a0937f26a Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)
* commit '906c1819188755a04fde6cc0ad7346775a6e61b8':
  Skip tests for page buffering in test/fheap.c for parallel build Skip the two tests for page buffering in test/fheap.c because this feature is disabled in parallel. Activate full testing when this feature is re-enabled in the future for parallel build.
  Due to HDFVIEW-19 add read VL as string function
  Fix URL name
  updated with README changes
  DAILYTEST-250 change test props to reduce timeout
  Combined the README_DEVEL and README, and removed out-dated README material
  Fix for H5Dset_extent test failure with extensive array indexing (HDFFV-9771) 1) Calculate chunk index for extensive array index based on swizzled max chunks when unlim_dim > 0 2) Minor fixes to test/fheap.c that somehow were missed from last check in.  See pull request #396 review comments.
2017-04-17 09:29:24 -05:00
lrknox
54957d37f5 Commit copyright header change for src/H5PLpkg.c which was added after running script to make changes. 2017-04-15 12:50:10 -05:00
lrknox
49cded79ce Add new files in release_docs to MANIFEST.
Cimmit changes to Makefile.in(s) and H5PL.c that resulted from running
autogen.sh.

Conflicts:
	README.txt
	c++/src/Makefile.in
	fortran/src/Makefile.in
	hl/c++/src/Makefile.in
	hl/fortran/src/Makefile.in
	hl/src/Makefile.in
	java/src/jni/Makefile.in
	release_docs/RELEASE.txt
	src/Makefile.in
2017-04-15 08:17:10 -05:00
mainzer
4651eb738d Express test mods to test/cache.c
Modified test/cache.c to skip the smoke checks with paged aggregation
for all express test levels other than 0

Change to src/H5PL.c seems to be the result of autogen.sh.  As it
seems to be correct, I am checking it in.

Tested serial and parallel (debug only) on jelly.
2017-04-14 23:44:23 -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
Jordan Henderson
ad99159ad6 Fix deadlocking issue 2017-04-13 15:52:21 -05:00
Jordan Henderson
78321f1013 Fix link-chunk I/O by tidying up local_info_array 2017-04-13 10:37:36 -05:00
Vailin Choi
f75379d780 Fix for H5Dset_extent test failure with extensive array indexing (HDFFV-9771)
1) Calculate chunk index for extensive array index based on swizzled max chunks when unlim_dim > 0
2) Minor fixes to test/fheap.c that somehow were missed from last check in.  See pull request #396 review comments.
2017-04-11 23:48:51 -05:00
Jordan Henderson
cbbd6b0df3 Minimize size of H5D_filtered_collective_io_info_t struct 2017-04-11 15:57:31 -05:00
Vailin Choi
9742792f8c Fix for H5Dset_extent test failure with extensive array indexing (HDFFV-9771)
1) Calculate chunk index for extensive array index based on swizzled max chunks when unlim_dim > 0
2) Minor fixes to test/fheap.c that somehow were missed from last check in.  See pull request #396 review comments.
2017-04-11 11:59:27 -05:00
Quincey Koziol
da4b690977 Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into merge_hyperslab_updates 2017-04-11 08:40:00 -07:00
Larry Knox
725b443f1f Merge pull request #408 in HDFFV/hdf5 from develop to hdf5_1_10
* commit 'ccb4e9ed9a5e0af27db9f1504a628e35d7f4cf92': (27 commits)
  Removed commeted out code from H5C_dump_coll_write_list()
  Checkin of fix for CGNS bug (https://jira.hdfgroup.org/browse/HDFFV-10055).
  HDFFV-10143 add missing javadoc param
  Add missing test status
  Fix CMake regex commands
  Modify test/fheap.c to run with various file space strategies and/or page buffering Modify test/fheap.c to run with different combinations of file space strategies and page buffering only when ExpressMode is 0 (HDF5TestExpress is 0). Tested on ostrich, platypus, mayll, emu, osx1010test, quail, kite, kituo.
  Updated the H5L.c error message after additional thought. Fix for HDFFV-10141.
  Updated an error message in H5L.c to be more helpful. Fixes HDFFV-10141.
  Re-enabled fixed array index testing in the test_random_rank4_vl() test in test/set_extent. This was fixed some time ago, but the test was never re-enabled for that index type.
  Fix typo deletion
  HDFFV-10143 Update new feature section.
  HDFFV-10143 clean up format and function return
  HDFFV-10143 Add plugin APIs to Java interface
  Update with checks for index bounds
  Update tools issues
  HDFFV-10143 fix use before set
  HDFFV-10143 surround will fail with try block
  HDFFV-10143 typo cleanup
  HDFFV-10143 typo removed
  Fix code error and use H5PL_MAX_PATH_NUM in test
  ...
2017-04-11 09:24:47 -05:00
Jordan Henderson
a22597fab4 Revise first-phase algorithm to only use rank 0 for redistribution 2017-04-10 14:59:58 -05:00
Jordan Henderson
ca9b25fd01 Merge pull request #4 in ~JHENDERSON/hdf5 from feature/parallel_filters to develop
* commit '7883c0d01b4eadba84697c7bb3322a304d242ed6': (38 commits)
  Add comments
  In current implementation, list must be gathered to all
  Correct error with usage of array_gather function
  Make array_gather routine more general
  Updated comments
  Add comments to H5D_filtered_collective_io_info_t data structure
  Remove debugging statements
  Revert "Merge latest changes from develop"
  Merge latest changes from develop
  removed erroneous casts from non-rvalue H5MM_free() calls. Replaced assignment of void return values with explicit value of NULL
  Fix issue with uninitialized chunk index during chunk re-insertion into index
  Remove potential infinite loops caused by goto in error label region
  Remove note about src_type_size vs dst_type_size
  Trigger error if library tries to break to independent I/O with filters in the pipeline
  Fix issue in H5D__mpio_array_gather when no one contributes anything
  Iterator for initial chunk entry IO operation should use source datatype size
  Fix bug where data doesn't write correctly when MEMSPACE isnt the same as FILESPACE
  Check return value of H5S_GET_EXTENT_NPOINTS macro
  Fix macro complaint in H5Dmpio.c
  Test code for user passing one-chunk-per-process hint to library
  ...
2017-04-10 09:46:06 -05:00
Jordan Henderson
7883c0d01b Add comments 2017-04-10 09:44:19 -05:00
Jordan Henderson
b314f57e23 In current implementation, list must be gathered to all 2017-04-09 16:57:02 -05:00
Jordan Henderson
8a454e941c Correct error with usage of array_gather function 2017-04-09 16:54:51 -05:00
Jordan Henderson
bbc9f1be45 Make array_gather routine more general 2017-04-09 16:36:19 -05:00