Commit Graph

18343 Commits

Author SHA1 Message Date
Vailin Choi
ad317226ea Fix for HDFFV-9277: update the ainfo message after removing an attribute. 2018-07-20 11:21:50 -05:00
Binh-Minh Ribler
32d5a3be1c Merge pull request #1141 in HDFFV/hdf5 from ~BMRIBLER/hdf5_bmr_cpp4:develop to develop
Fixed HDFFV-10472 and replaced the C2Cpp function mapping table with a more supported format.

* commit 'dd0a040ec807912b80a9f1779fbf46c65d01cd57':
  Fixed EED-319 Description:     - Fixed doc issue       Added an html version for the C++ function mapping table and removed       the single web page version.       Updated cpp_doc_config to use the html file.     - Added a couple more minor tests
  Fixed HDFFV-10472 Description:     Added operator!= to DataType         bool operator!=(const DataType& compared_type) Platforms tested:     Linux/64 (jelly)     Linux/32 (jam)     Darwin (osx1010test)
2018-07-19 15:41:46 -05:00
Allen Byrne
e13beff99f Merge pull request #1144 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:develop to develop
* commit '77fa93e07b2b860ca314b2c332ebd440544e3326':
  Add cmakehdf5 command line option to turn on shell script testing. Option is on by default but can be disabled with --disable-shell-testing.
2018-07-19 11:23:38 -05:00
Larry Knox
77fa93e07b Add cmakehdf5 command line option to turn on shell script testing.
Option is on by default but can be disabled with --disable-shell-testing.
2018-07-19 09:49:32 -05:00
Larry Knox
64d8a67943 Merge pull request #1143 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:develop to develop
* commit '3c6654921000a8659276f1fcb32dd0ada1353558':
  Apply Cygwin pathches from Marco Atzeri. Commit Joe Lee's typo corrections for src/H5MF.c.
2018-07-18 17:15:42 -05:00
Allen Byrne
dfc06f7948 Merge pull request #1142 in HDFFV/hdf5 from ~BYRN/hdf5_adb:develop to develop
* commit '3a8892a0d90edb6c21c91ede18bf6b3cb2895af0':
  Adjust error handling
  TRILABS-137 Convert tcheck_version script to cmake tests
  ifdef around std flag for cygwin
2018-07-18 17:14:20 -05:00
Larry Knox
3c66549210 Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/~lrknox/hdf5_lrk into develop 2018-07-18 17:06:59 -05:00
Larry Knox
892252106a Apply Cygwin pathches from Marco Atzeri.
Commit Joe Lee's typo corrections for src/H5MF.c.
2018-07-18 17:01:53 -05:00
Allen Byrne
3a8892a0d9 Adjust error handling 2018-07-18 11:58:09 -05:00
Allen Byrne
e5156823bd TRILABS-137 Convert tcheck_version script to cmake tests 2018-07-18 10:42:14 -05:00
Binh-Minh Ribler
dd0a040ec8 Fixed EED-319
Description:
    - Fixed doc issue
      Added an html version for the C++ function mapping table and removed
      the single web page version.
      Updated cpp_doc_config to use the html file.
    - Added a couple more minor tests
2018-07-18 10:36:05 -05:00
Allen Byrne
72931507f9 ifdef around std flag for cygwin 2018-07-18 09:39:13 -05:00
Binh-Minh Ribler
9a306f8311 Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/~bmribler/hdf5_bmr_cpp4 into develop 2018-07-17 12:21:39 -05:00
Binh-Minh Ribler
a31cd3623f Fixed HDFFV-10472
Description:
    Added operator!= to DataType
        bool operator!=(const DataType& compared_type)
Platforms tested:
    Linux/64 (jelly)
    Linux/32 (jam)
    Darwin (osx1010test)
2018-07-17 12:21:07 -05:00
Binh-Minh Ribler
d95f36686b Merge pull request #1140 in HDFFV/hdf5 from ~BMRIBLER/hdf5_bmr_cpp4:develop to develop
Fixed part of HDFFV-10458: wrappers for H5Oget_info2, H5Oget_info_by_name2, and H5Oget_info_by_idx2.

* commit '3aa24435180d10aeca6493f7c1b277cfd5c73fad':
  Fixed HDFFV-10458 partially Description:     Added wrappers for H5Oget_info_by_idx2.
  Fixed comments
  Fixed HDFFV-10458 partially Description:     Added wrappers for H5Oget_info2 and H5Oget_info_by_name2.
2018-07-17 11:56:53 -05:00
Binh-Minh Ribler
3aa2443518 Fixed HDFFV-10458 partially
Description:
    Added wrappers for H5Oget_info_by_idx2.

    // Returns information about an HDF5 object, given its index.
    void getInfo(const char* grp_name, H5_index_t idx_type,
                 H5_iter_order_t order, hsize_t idx, H5O_info_t& objinfo,
                 unsigned fields = H5O_INFO_BASIC,
                 const LinkAccPropList& lapl = LinkAccPropList::DEFAULT)
    void getInfo(const H5std_string& grp_name, H5_index_t idx_type,
                 H5_iter_order_t order, hsize_t idx, H5O_info_t& objinfo,
                 unsigned fields = H5O_INFO_BASIC,
                 const LinkAccPropList& lapl = LinkAccPropList::DEFAULT)
Platforms tested:
    Linux/64 (jelly)
    Linux/32 (jam)
    Darwin (osx1010test)
2018-07-17 09:12:10 -05:00
Binh-Minh Ribler
944735221e Fixed comments 2018-07-17 01:32:07 -05:00
Binh-Minh Ribler
c7f42f181c Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/~bmribler/hdf5_bmr_cpp4 into develop 2018-07-17 01:16:56 -05:00
Binh-Minh Ribler
14bf28780a Fixed HDFFV-10458 partially
Description:
    Added wrappers for H5Oget_info2 and H5Oget_info_by_name2.

    // Returns information about an HDF5 object.
    void getInfo(H5O_info_t& objinfo, unsigned fields = H5O_INFO_BASIC)

    // Returns information about an HDF5 object, given its name.
    void getInfo(const char* name, H5O_info_t& objinfo,
                 unsigned fields = H5O_INFO_BASIC,
                 const LinkAccPropList& lapl = LinkAccPropList::DEFAULT)
    void getInfo(const H5std_string& name, H5O_info_t& objinfo,
                 unsigned fields = H5O_INFO_BASIC,
                 const LinkAccPropList& lapl = LinkAccPropList::DEFAULT)
Platforms tested:
    Linux/64 (jelly)
    Linux/32 (jam)
    Darwin (osx1010test)
2018-07-17 01:09:45 -05:00
Binh-Minh Ribler
8a50402569 Merge pull request #1139 in HDFFV/hdf5 from ~BMRIBLER/hdf5_bmr_cpp4:develop to develop
Fixed HDFFV-10476, HDFFV-10478, HDFFV-10480

* commit 'fe916ada370f33b48b3c39dbf9e3ff73df00fdb7':
  Removed white space
  Fixed HDFFV-10476, HDFFV-10478, HDFFV-10480 Description:     Fixed potential out of bound read and NULL pointer dereferences. Platforms tested:     Linux/64 (jelly)     Linux/32 (jam)     Darwin (osx1010test)
2018-07-16 22:12:21 -05:00
Binh-Minh Ribler
fe916ada37 Removed white space 2018-07-16 22:10:50 -05:00
Larry Knox
b888763b6d Merge pull request #1135 in HDFFV/hdf5 from ~BYRN/hdf5_adb:develop to develop
* commit '46986950ad2818a5235c821fa576e0f6470b39be':
  TRILAB-31 add note
  TRILAB-31 Working locally
2018-07-16 20:52:54 -05:00
Binh-Minh Ribler
073e0b1f03 Fixed HDFFV-10476, HDFFV-10478, HDFFV-10480
Description:
    Fixed potential out of bound read and NULL pointer dereferences.
Platforms tested:
    Linux/64 (jelly)
    Linux/32 (jam)
    Darwin (osx1010test)
2018-07-16 20:28:27 -05:00
Allen Byrne
46986950ad Merging in latest from upstream (HDFFV/hdf5:refs/heads/develop)
* commit '55666ace551369b3d72430c090ab9f1571e1be75':
  Combined macro lines as Dana commented Platforms tested:     Linux/64 (jelly) (very minor)
  Fix evaluation of __has_attribute(no_sanitize_address) on older GCC versions
  Fixed division-by-zero issues Description:     Fixed HDFFV-10481 and HDFFV-10477, division by 0.     Fixed another occurrence beside what were reported.     Also, changed a local variable to avoid an unnecessary cast. Platforms tested:     Linux/64 (jelly)     Linux/32 (jam)     Darwin (osx1010test)
2018-07-16 16:55:46 -05:00
Binh-Minh Ribler
55666ace55 Merge pull request #1134 in HDFFV/hdf5 from ~BMRIBLER/hdf5_bmr_cpp4:develop to develop
Fixed HDFFV-10481 and HDFFV-10477

* commit '83ca39ba9a2d6852dd7754b533f7839e9d2a0107':
  Combined macro lines as Dana commented Platforms tested:     Linux/64 (jelly) (very minor)
  Fixed division-by-zero issues Description:     Fixed HDFFV-10481 and HDFFV-10477, division by 0.     Fixed another occurrence beside what were reported.     Also, changed a local variable to avoid an unnecessary cast. Platforms tested:     Linux/64 (jelly)     Linux/32 (jam)     Darwin (osx1010test)
2018-07-16 14:52:43 -05:00
Binh-Minh Ribler
83ca39ba9a Combined macro lines as Dana commented
Platforms tested:
    Linux/64 (jelly) (very minor)
2018-07-16 14:48:11 -05:00
Jerome Soumagne
2725634ed9 Merge pull request #1136 in HDFFV/hdf5 from ~JSOUMAGNE/hdf5_fork:topic_sanitize_gcc48_fix to develop
* commit 'd5e7134df911808bba26ac6629e1fe8324916585':
  Fix evaluation of __has_attribute(no_sanitize_address) on older GCC versions
2018-07-16 13:41:42 -05:00
Jerome Soumagne
d5e7134df9 Fix evaluation of __has_attribute(no_sanitize_address) on older GCC versions 2018-07-16 13:33:23 -05:00
Allen Byrne
7117a66fd0 TRILAB-31 add note 2018-07-16 13:07:50 -05:00
Allen Byrne
47780cb4e0 TRILAB-31 Working locally 2018-07-16 13:01:53 -05:00
Jerome Soumagne
643593dfda Merge pull request #1112 in HDFFV/hdf5 from ~JSOUMAGNE/hdf5_fork:gcc_sanitize to develop
* commit '5afeefe1bae62fa5faf06c0c6f240e10863a2693':
  Fix H5detect to use no_sanitize_address attribute and support GCC sanitizers
2018-07-16 10:39:13 -05:00
Jordan Henderson
f649be9fdc Merge pull request #1127 in HDFFV/hdf5 from ~JHENDERSON/hdf5:develop to develop
* commit 'a8d6f100cdddbfc42d0c4abfeb4ceb8788b1b087':
  Add note about single chunk caching and serial library
  Add check for actually using the MPI file driver when caching one chunk
  Fix error message mentioning wrong MPI function used
  Fix for HDFFV-10509
  Revise H5D__mpio_array_gatherv() to not allocate memory needlessly
  Add test to continually grow and shrink chunks
  Changes to test with checksum filter as well as deflate filter
  Eliminate warning about signed to unsigned conversion
  Remove unused local variable
  Fix bug in parallel reads of compressed data
  Add data verification to parallel filtered compound write tests
  Add seven of fourteen parallel filtered data partial read tests
2018-07-16 09:37:54 -05:00
Larry Knox
518f4af900 Merge pull request #1131 in HDFFV/hdf5 from HDFFV-10527-typo-in-h5fs.c to develop
* commit 'cb38d210c3ec4945fd47b5861d7db137e0efac55':
  HDFFV-10527:corrected two more typos.
  HDFFV-10527:corrected typos in comment blocks.
2018-07-15 23:36:14 -05:00
Larry Knox
0f6d0803ef Merge pull request #1128 in HDFFV/hdf5 from HDFFV-10525-typo-in-vds.c to develop
* commit '863148d1fe0b6949708698ad9277dbdba8129e0c':
  fixed typo.
2018-07-15 23:35:54 -05:00
Binh-Minh Ribler
fa5d96dc5e Fixed division-by-zero issues
Description:
    Fixed HDFFV-10481 and HDFFV-10477, division by 0.
    Fixed another occurrence beside what were reported.
    Also, changed a local variable to avoid an unnecessary cast.
Platforms tested:
    Linux/64 (jelly)
    Linux/32 (jam)
    Darwin (osx1010test)
2018-07-15 23:31:09 -05:00
Binh-Minh Ribler
fafa49ef7f Merge pull request #1133 in HDFFV/hdf5 from ~BMRIBLER/hdf5_bmr_cpp4:develop to develop
Fixed HDFFV-10404

* commit 'ec31438afdaf575368938e930eb3af0865a342b3':
  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
2018-07-14 08:10:49 -05:00
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
Jordan Henderson
a8d6f100cd Add note about single chunk caching and serial library 2018-07-13 10:20:16 -05:00
Vailin Choi
ef30425b1c Merge pull request #1129 in HDFFV/hdf5 from ~VCHOI/my_hdf5_fork:develop to develop
* commit '08de02c838c05993fea5febb9c320a679e7f841a':
  Changes based on feedback from pull request.
  Fix test_misc33() in test/tmisc.c Open the test file read-only so that it can be accessed for testing.
  Modifications made based on feedback from pull request.
  Fix for HDFFV-10333: 1) Check for valid object header version for a refcount messge 2) Check for invalid fill value size 3) Check for invalid dimension size in a layout message 4) Add --enable-error-stack option to h5stat 5) Add error checks to h5stat.c 6) Add tests to h5stat and h5dump
  Fix daily test failure.
2018-07-13 10:02:24 -05:00
Jordan Henderson
0dc6c3c8b5 Add check for actually using the MPI file driver when caching one chunk
Better explain rationale behind chunk caching issue fix
2018-07-13 09:26:41 -05:00
Jordan Henderson
30d3bc2c91 Fix error message mentioning wrong MPI function used 2018-07-13 08:09:48 -05:00
Hyo-Kyung Lee
cb38d210c3 HDFFV-10527:corrected two more typos. 2018-07-12 18:56:20 -05:00
Hyo-Kyung Lee
5f34de4061 HDFFV-10527:corrected typos in comment blocks. 2018-07-12 18:45:30 -05:00
Vailin Choi
08de02c838 Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/~vchoi/my_hdf5_fork into develop 2018-07-12 18:26:56 -05:00
Vailin Choi
92bf81a0fb Changes based on feedback from pull request. 2018-07-12 18:25:49 -05:00
Allen Byrne
f1beebe80d Merge pull request #1125 in HDFFV/hdf5 from ~BYRN/hdf5_adb:develop to develop
* commit '8f652a87ca4b77779c4e338d255b4a5217b76227':
  HDFFV-10519 add JNI note
  Add actual file names fo diff
2018-07-12 16:21:14 -05:00
Larry Knox
3d08f00101 Merge pull request #1130 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:develop to develop
* commit '08a8202eda7a79495a6d48f6be2c0b114e11750f':
  Vailin's fix for H5open fail when file doesn't have write permissions for user in test_misc33().  The test file can be opened read-only because the test doesn't write to it.
2018-07-12 15:26:42 -05:00
Larry Knox
08a8202eda Vailin's fix for H5open fail when file doesn't have write permissions
for user in test_misc33().  The test file can be
opened read-only because the test doesn't write to it.
2018-07-12 14:31:02 -05:00
Vailin Choi
f369590a10 Fix test_misc33() in test/tmisc.c
Open the test file read-only so that it can be accessed for testing.
2018-07-12 13:55:45 -05:00
Vailin Choi
d1f8ac3312 Modifications made based on feedback from pull request. 2018-07-11 16:02:51 -05:00