Commit Graph

20754 Commits

Author SHA1 Message Date
Dana Robinson
f0a687f133 Merge branch 'develop' into develop_minor 2020-03-18 13:06:15 -07:00
Vailin Choi
9c93c1bb00 Merge pull request #2451 in HDFFV/hdf5 from ~VCHOI/my_third_fork:bugfix/develop_seg_fault_sel_compat to develop
* commit '81b1ed4e1724b8a6a731ab2b8fb03234a8b49d15':
  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
2020-03-16 14:06:57 -05:00
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
Dana Robinson
3d29cbb27f Very minor comment change in H5VLconnector.h. 2020-03-12 13:21:11 -07:00
David Young
7613f7e1aa Merge pull request #2378 in HDFFV/hdf5 from ~DYOUNG/werror:dont-crash-on-close to develop
* commit '093c2c7e69bc4a40e9d49eece1d6fdcf54e8ecb0':
  Avoid a crash, don't check if we're flushing when the file is closing: there's no need to check if the metadata cache is flushing if we already know the file is closing, because the condition we rely on is "closing OR flushing."  Further, the cache may have already gone away, so sometimes calling into the cache to see if it's flushing will crash the program.
2020-03-12 14:00:07 -05:00
Vailin Choi
a24b0c4a84 Merge pull request #26 in ~VCHOI/my_third_fork from develop to bugfix/develop_seg_fault_sel_compat
* commit '9abbdeaa66c70a00b6a7bedee9c76d2493a8e947': (31 commits)
  Remove system command from valgrind reports
  Whitespace
  Fix incorrect FUNC_LEAVE macro (should match FUNC_ENTER_*_TAG).
  Add semicolons to more PASSED() invocations.
  So that I can use PASSED(); anywhere a statement can go, #define PASSED() with a do-while wrapper.
  revert type cast
  Switch the 'get offset' operation from a dataset 'get' callback to a [native] dataset 'optional' operation.
  Modfy expression to match mpicc build with Intel as intel compiler, not gcc.
  Complete the comment on thread_main(), explaining why the barrier is used.
  Fixed issue building HDF5 with NAG Fortran 7.0.
  The first implementation seemed to allow for the possibility that a thread could block at the barrier, wake and exit the barrier, re-acquire the barrier lock and increase `nentered` before the other blocked threads woke and checked `nentered % count == 0`.  Then the other blocked threads would check `nentered % count == 0` and, finding it false, go back to sleep in the barrier.  This new implementation waits for a looser condition to obtain so that threads don't go back to sleep in the barrier.
  Add java version and reference libsettings
  Test the right condition for the EBUSY return in pthread_barrier_destroy().
  s/exit_failure/EXIT_FAILURE/g
  Implement pthread_barrier(3) for Darwin using a counter, condition variable, and mutex.  Untested.
  Update examples and fix old version references.
  Move MODEL check to before usage in CTestScript.cmake.
  Copy generated files instead creating twice
  Fix standalone link
  Fix Fortran macro use and jni comment
  ...
2020-03-11 16:23:56 -05:00
David Young
9abbdeaa66 Merge pull request #2351 in HDFFV/hdf5 from ~DYOUNG/werror:b-bye-HDpthread_self to develop
* commit '224cb4a03406ed72e02d026efeab47fdf7f6b33b':
  Use a naked pthread_self() call in the HDF5 thread wrappers.
2020-03-05 11:06:39 -06:00
David Young
7350db497b Merge pull request #2424 in HDFFV/hdf5 from ~DYOUNG/hdf5:passed-do-while to develop
* commit 'b53eb6fb29e556c482ce20fa7a21485c99beea74':
  Add semicolons to more PASSED() invocations.
  So that I can use PASSED(); anywhere a statement can go, #define PASSED() with a do-while wrapper.
2020-03-05 11:05:29 -06:00
Allen Byrne
7413557dd5 Merge pull request #2434 in HDFFV/hdf5 from ~BYRN/hdf5_adb:develop to develop
* commit '24298a031f0b7f6a04364cfbfbdd9c8b6cc1a038':
  Remove system command from valgrind reports
  Whitespace
2020-03-04 09:29:03 -06:00
Allen Byrne
24298a031f Remove system command from valgrind reports 2020-03-02 14:11:25 -06:00
Allen Byrne
5fc283da8e Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)
* commit 'a01ac97ba509e51905b816e8a29b5d0b2bc8be87':
  Fix incorrect FUNC_LEAVE macro (should match FUNC_ENTER_*_TAG).
2020-03-01 09:24:12 -06:00
Jake Smith
a01ac97ba5 Merge pull request #2427 in HDFFV/hdf5 from ~JAKE.SMITH/hdf5:develop to develop
* commit '2d9a81878d05732725f96d7d9b20ada8dfd2a146':
  Fix incorrect FUNC_LEAVE macro (should match FUNC_ENTER_*_TAG).
2020-02-29 23:39:00 -06:00
Allen Byrne
5abf6785cb Whitespace 2020-02-29 14:01:55 -06:00
Kimmy Mu
6e565dd271 Merge pull request #2431 in HDFFV/hdf5 from ~KMU/hdf5:bugfix/type_cast to develop
* commit 'b5cf422799797cf0b573cc9992f866381bd63054':
  revert type cast
2020-02-28 22:12:16 -06:00
Jacob Smith
2d9a81878d Fix incorrect FUNC_LEAVE macro (should match FUNC_ENTER_*_TAG). 2020-02-28 17:14:45 -06:00
David Young
b53eb6fb29 Add semicolons to more PASSED() invocations. 2020-02-28 16:52:22 -06:00
David Young
3e93aa9514 So that I can use PASSED(); anywhere a statement can go, #define PASSED() with
a do-while wrapper.
2020-02-28 16:51:55 -06:00
kmu
b5cf422799 revert type cast 2020-02-28 14:47:13 -06:00
Quincey Koziol
885aa08ec4 Merge pull request #2419 in HDFFV/hdf5 from revise_get_offset to develop
* commit '38af6ee3d59a8e836f4c62dd533ddabd914c7abb':
  Switch the 'get offset' operation from a dataset 'get' callback to a [native] dataset 'optional' operation.
2020-02-28 14:27:16 -06:00
Quincey Koziol
38af6ee3d5 Switch the 'get offset' operation from a dataset 'get' callback to a [native]
dataset 'optional' operation.
2020-02-28 14:06:28 -06:00
Larry Knox
d7eec7d6ec Merge pull request #2411 in HDFFV/hdf5 from ~DYOUNG/werror:darwin-barriers to develop
* commit '803d805c74466a9d736455930b17de2d9f5cb02d':
  Complete the comment on thread_main(), explaining why the barrier is used.
  The first implementation seemed to allow for the possibility that a thread could block at the barrier, wake and exit the barrier, re-acquire the barrier lock and increase `nentered` before the other blocked threads woke and checked `nentered % count == 0`.  Then the other blocked threads would check `nentered % count == 0` and, finding it false, go back to sleep in the barrier.  This new implementation waits for a looser condition to obtain so that threads don't go back to sleep in the barrier.
  Test the right condition for the EBUSY return in pthread_barrier_destroy().
  s/exit_failure/EXIT_FAILURE/g
  Implement pthread_barrier(3) for Darwin using a counter, condition variable, and mutex.  Untested.
2020-02-28 06:22:13 -06:00
Larry Knox
cfc52fc273 Merge pull request #2415 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:develop to develop
* commit '811988f82c182012704942d333ee7800f4a78349':
  Modfy expression to match mpicc build with Intel as intel compiler, not gcc.
2020-02-27 22:03:28 -06:00
Larry Knox
811988f82c Modfy expression to match mpicc build with Intel as intel compiler, not
gcc.
2020-02-27 17:06:41 -06:00
Scot Breitenfeld
0a581b0ac0 Merge pull request #2414 in HDFFV/hdf5 from ~BRTNFLD/hdf5_msb:develop to develop
* commit 'dde7e73d9fe8cc3b849767790aa9b13ee2d600cd':
  Fixed issue building HDF5 with NAG Fortran 7.0.
2020-02-27 16:23:06 -06:00
David Young
803d805c74 Complete the comment on thread_main(), explaining why the barrier is used. 2020-02-27 16:14:44 -06:00
Allen Byrne
a8755bfe2b Merge pull request #2412 in HDFFV/hdf5 from ~BYRN/hdf5_adb:develop to develop
* commit '6686cac564f5d0015a32b92e4478002069c973ee':
  Add java version and reference libsettings
2020-02-27 14:55:48 -06:00
M. Scot Breitenfeld
dde7e73d9f Fixed issue building HDF5 with NAG Fortran 7.0.
Accounted for the additon of half precision floating-point with a KIND=16.

HDFFV-11033
2020-02-27 12:19:29 -06:00
David Young
4be589813a The first implementation seemed to allow for the possibility that a thread
could block at the barrier, wake and exit the barrier, re-acquire the barrier
lock and increase `nentered` before the other blocked threads woke and checked
`nentered % count == 0`.  Then the other blocked threads would check `nentered
% count == 0` and, finding it false, go back to sleep in the barrier.  This new
implementation waits for a looser condition to obtain so that threads don't go
back to sleep in the barrier.
2020-02-27 11:27:45 -06:00
Allen Byrne
6686cac564 Add java version and reference libsettings 2020-02-27 10:51:13 -06:00
David Young
11d22f3ea5 Test the right condition for the EBUSY return in pthread_barrier_destroy(). 2020-02-27 10:17:24 -06:00
David Young
802bf2dc1e s/exit_failure/EXIT_FAILURE/g 2020-02-27 10:16:49 -06:00
Allen Byrne
9a0e84fb47 Merge pull request #2409 in HDFFV/hdf5 from ~BYRN/hdf5_adb:develop to develop
* commit '13f5b3aee20d1d65f56dc08f088e0f218da5cf37':
  Update examples and fix old version references.
  Move MODEL check to before usage in CTestScript.cmake.
2020-02-27 08:56:44 -06:00
David Young
b87d9cb50e Implement pthread_barrier(3) for Darwin using a counter, condition variable,
and mutex.  Untested.
2020-02-26 20:38:57 -06:00
Allen Byrne
13f5b3aee2 Update examples and fix old version references. 2020-02-26 13:54:34 -06:00
Allen Byrne
f53220dc20 Move MODEL check to before usage in CTestScript.cmake. 2020-02-26 09:50:38 -06:00
Allen Byrne
1775d6c9bc Merge pull request #2405 in HDFFV/hdf5 from ~BYRN/hdf5_adb:develop to develop
* commit '2af8a87af0d7a1589a4df22d16b2d2513876e7a9':
  Copy generated files instead creating twice
  Fix standalone link
2020-02-25 16:28:11 -06:00
Allen Byrne
2af8a87af0 Copy generated files instead creating twice 2020-02-25 16:04:56 -06:00
Allen Byrne
4906d3d6a8 Fix standalone link 2020-02-25 14:57:14 -06:00
Allen Byrne
ddb95a6dc5 Merge pull request #2398 in HDFFV/hdf5 from ~BYRN/hdf5_adb:develop to develop
* commit '04e67af8f968b2c6f50cb42990d3dfa79aa353d9':
  Fix Fortran macro use and jni comment
2020-02-25 09:40:07 -06:00
Allen Byrne
04e67af8f9 Fix Fortran macro use and jni comment 2020-02-25 09:22:19 -06:00
Allen Byrne
fe7c3fb646 Merge pull request #2394 in HDFFV/hdf5 from ~BYRN/hdf5_adb:develop to develop
* commit 'cf58730177d60fd7311582a29539d87f10a7d88e':
  Update Windows platforms
  HDFFV-11036 add release note
  HDFFV-11036 add file compare test process
  Correct usage of add_compile_definitions
2020-02-24 13:59:40 -06:00
Allen Byrne
cf58730177 Update Windows platforms 2020-02-24 13:54:00 -06:00
Allen Byrne
1885c3e7d7 Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)
* commit 'd24afb233383aa6c945fad430eb1b66edc4d6c63':
  Add missing MANIFEST entry, ./doc/code-conventions.md .
2020-02-24 13:00:25 -06:00
Allen Byrne
4fcd2589bb HDFFV-11036 add release note 2020-02-24 12:49:56 -06:00
Allen Byrne
f7212df030 HDFFV-11036 add file compare test process 2020-02-24 12:45:22 -06:00
David Young
d24afb2333 Merge pull request #2385 in HDFFV/hdf5 from manifest-repair to develop
* commit '921278c604b3129c1ff5066f0a2b94abcb3aa8f7':
  Add missing MANIFEST entry, ./doc/code-conventions.md .
2020-02-24 10:49:09 -06:00
Allen Byrne
1773b327fb Correct usage of add_compile_definitions 2020-02-23 16:22:31 -06:00
Larry Knox
2129aa4c24 Merge pull request #2390 in HDFFV/hdf5 from ~BYRN/hdf5_adb:develop to develop
* commit '666205a55f01698a71484f504bc8eb9541800f25':
  TRILAB-142 Change minimum CMake version to 3.12
2020-02-21 23:19:57 -06:00
Allen Byrne
666205a55f TRILAB-142 Change minimum CMake version to 3.12 2020-02-21 16:16:06 -06:00
Allen Byrne
909f9ee6d0 Merge pull request #2388 in HDFFV/hdf5 from ~BYRN/hdf5_adb:develop to develop
* commit '380fe7cfdfd98461cb1bff54bad4de0ee9904ad6':
  Fix always true issue because member is not dynamically allocated
  CMake cleanup
  HDFFV-11032 fix JNI call
2020-02-21 16:05:51 -06:00