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* Fix for HDFFV-10217 infinite loop in H5VM_power2up().Vailin Choi2017-07-104-6/+26
| | | | | | The function H5VM_power2up() returns the next power of 2 for n. When n exceeds 2^63, it overflows and becomes 0 causing the infinite looping. The fix ensures that the function checks for n >= 2^63 and returns 0.
* More minor whitespace cleanupDana Robinson2017-07-031-3/+3
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* Fixed a minor comment typo in H5R.cDana Robinson2017-07-031-1/+1
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* * Reverted removal of H5I_REFERENCE to avoid breaking binaryDana Robinson2017-07-0315-5/+100
| | | | | | compatibility. * Added a quick H5I_REFERENCE smoke check to test_misc19() in tmisc.c.
* Purged the unused H5I_REFERENCE from the library.Dana Robinson2017-07-0114-115/+22
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* Added a test for VFD IDs to testhdf5.Dana Robinson2017-07-012-243/+70
| | | | | | | This required adding some code to generate a fake VFD class to pass to H5FDregister(). Also, a bunch of whitespace and comment tidying.
* Fix for HDFFV-10160Vailin Choi2017-06-293-0/+36
| | | | Modifications to fix the assertion/abort failure when the application does not close the file.
* Fix for HDFFV-7853 H5Ocopy doesn't work with open identifiersVailin Choi2017-06-115-88/+155
| | | | Changes made so that raw data for dataset objects are copied from cached info when possible instead of flushing objects to file and read them back in again.
* Revert "Merge pull request #567 in HDFFV/hdf5 from ↵Dana Robinson2017-06-098-395/+230
| | | | | | | ~DEROBINS/hdf5_der:develop to develop" This reverts commit 4242753848c44ab3b5d226e66225eac2f64db314, reversing changes made to b0e79fe6dd20ec7aa1b3e5f0f8b370639a4ef5bd.
* * Made STATIC free lists EXTERN for H5O_layout_t.Dana Robinson2017-06-077-170/+251
| | | | * Made all non-global instances of H5O_layout_t in H5Pdcpl.c dynamic.
* Updated H5O_layout_t dynamic work to use the H5FL interface.Dana Robinson2017-06-077-28/+79
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* Made some H5O_layout_t stack allocations dynamic (quiets warnings).Dana Robinson2017-06-066-53/+86
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* Merge branch 'develop' into windows_openDana Robinson2017-05-3130-1674/+1755
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| * Merge branch 'develop' into compat_feature_flagDana Robinson2017-05-2611-137/+145
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| | * Merge pull request #538 in HDFFV/hdf5 from ↵Dana Robinson2017-05-267-128/+131
| | |\ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ~DEROBINS/hdf5_der:may_dev_warnings to develop * commit '57f0a296c0b727e3d86cea312ba46efc98d76227': Minor warning fix. More minor warning fixes. Minor warning fixes in the tools. Minor type fixes to h5watch. A few more warnings fixed. Fixed additional minor warnings. Fixed many minor warnings.
| | | * More minor warning fixes.Dana Robinson2017-05-251-1/+1
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| | | * Fixed many minor warnings.Dana Robinson2017-05-256-127/+130
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| | * | Merge pull request #534 in HDFFV/hdf5 from ↵Frank Willmore2017-05-251-0/+5
| | |\ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | ~FRANK.WILLMORE/hdf5:fix-set-mpi-err-handler to develop * commit '1ee90786196c10c2c616a9fb4b8b1f92ebefa1f2': updated MPI error handling call for MPICH2 standard cleanup enabled MPI error handling added test file
| | | * | updated MPI error handling call for MPICH2 standardFrank Willmore2017-05-241-1/+1
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| | | * | enabled MPI error handlingFrank Willmore2017-05-231-0/+5
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| | * | | Added missing casts for the return value of H5I_object_verify().Dana Robinson2017-05-243-9/+9
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| * | | * Added new public H5FDdriver_query() API call.Dana Robinson2017-05-244-7/+48
| | | | | | | | | | | | | | | | | | | | | | | | * Changed return type of H5FD_driver_query() to herr_t. * Updated swmr.c to use H5FDdriver_query() instead of the private call. * Added some flags tests to vfd.c.
| * | | * Made H5FD_driver_query() a private function instead of static.Dana Robinson2017-05-244-39/+40
| | | | | | | | | | | | | | | | | | | | | | | | | | | | * Moved H5FD_driver_query() to H5FDint.c. * Minor typo fixes in H5I.c. * Updated swmr.c to check the VFD feature flags and skip the retries test when the VFD is not compatible with H5P_DEFAULT.
| * | | Fixed HDFFV-10214:Dana Robinson2017-05-198-17/+28
| |/ / | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * Updated comments in the library to accurately reflect the semantics of the H5FD_FEAT_POSIX_COMPAT_HANDLE flag. * Removed the check for the POSIX compatible handle feature flag when determining if a VFD supports SWMR. Partial work for HDFFV-10197: * Added a new H5FD_FEAT_DEFAULT_VFD_COMPATIBLE feature flag that is set when a VFD creates output that is compatible with the default VFD. Will be used in the testing but might also be generally useful to users.
| * | Incorporate additional code changes for the H5DOread_chunk patch from GE ↵Vailin Choi2017-05-151-21/+22
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Heathcare (HDFFV-9934) This is the similar set of changes that was checked in to 1.8 branch: Incorporate the code changes that were missing from the original patch: (1) Additional tests in hl/test/test_dset_opt.c (2) Fix in src/H5Dchunk.c for direct access when an entry is in chunk cache but not dirty Tested on platypus, ostrich, kituo, mayll, osx1010test, moohan, quail, emu.
| * | Merged HDFFV-10187 direct chunk overwrite bugfix to develop from 1.10 branch.Dana Robinson2017-05-121-5/+11
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| * | HDFFV-10186 Add endianess to bitfield and fix testsAllen Byrne2017-05-101-8/+21
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| * | Fix for HDFFV-10051Vailin Choi2017-05-091-0/+1
| | | | | | | | | | | | | | | Fix missing declaration for H5D__layout_compact_dirty_test(). Tested on mayll and osx1010test.
| * | Merge pull request #494 in HDFFV/hdf5 from ~VCHOI/my_hdf5_fork:develop to ↵Vailin Choi2017-05-093-4/+55
| |\ \ | | | | | | | | | | | | | | | | | | | | | | | | | | | | develop * commit 'd436db6c6efdfe7e9dbe06a642715116ef0eb5e3': Fix for the two issues reported in HDFFV-10051 Modifications made based on the review comments from pull request #494 Tested on moohan, mayll, kituo, platypus, ostrich, osx1010test, quail, emu. Fix for the two issues reported in HDFFV-10051: (1) Repeated open/close of a compact dataset fails due to the increment of ndims in the dataset structure for every open. --This is done only for chunked dataset via H5D__chunk_set_sizes(). (2) layout "dirty" flag for a compact dataset is not reset properly after flushing the data at dataset close. --Reset the "dirty" flag before flushing the message to the object header via H5O_msg_write(). Tested on moohan, kituo, platypus, ostrich, osx1010test, quail, emu.
| | * | Fix for the two issues reported in HDFFV-10051Vailin Choi2017-05-092-1/+44
| | | | | | | | | | | | | | | | | | | | Modifications made based on the review comments from pull request #494 Tested on moohan, mayll, kituo, platypus, ostrich, osx1010test, quail, emu.
| | * | Fix for the two issues reported in HDFFV-10051:Vailin Choi2017-05-072-3/+11
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | (1) Repeated open/close of a compact dataset fails due to the increment of ndims in the dataset structure for every open. --This is done only for chunked dataset via H5D__chunk_set_sizes(). (2) layout "dirty" flag for a compact dataset is not reset properly after flushing the data at dataset close. --Reset the "dirty" flag before flushing the message to the object header via H5O_msg_write(). Tested on moohan, kituo, platypus, ostrich, osx1010test, quail, emu.
| * | | HDFFV-10186 Whitespace changesAllen Byrne2017-05-091-1441/+1389
| |/ / | | | | | | | | | Mostly replacing tabs with spaces Removed empty mod sections
| * | Set the HDF5_GENERATE_HEADERS CMake option to default to ON and removedDana Robinson2017-04-271-1/+1
| | | | | | | | | | | | | | | | | | the option from the CMake cache init files. Fixes HDFFV-10184
* | | Rework of the POSIX file open permissions and macros to clean upDana Robinson2017-04-287-28/+18
| | | | | | | | | | | | | | | | | | HDopen() calls. Also fixed a minor const warning in the core VFD.
* | | Changed the Windows POSIX open() file permissions to be correctDana Robinson2017-04-287-9/+28
|/ / | | | | | | according to MSDN. Partial fix for HDFFV-9630.
* | Change position of declaration to top of blockAllen Byrne2017-04-271-1/+2
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* | Modifications based on pull request review.Vailin Choi2017-04-261-1/+1
| | | | | | | | Made couple changes based on the review comments.
* | Incorporate patch from GE Healthcare (HDFFV-9934)Vailin Choi2017-04-256-70/+438
| | | | | | | | | | 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.
* | HDFFV-10170 revert entire changeAllen Byrne2017-04-251-83/+3
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* | Merge pull request #426 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10 to ↵Larry Knox2017-04-25440-2653/+1768
| | | | | | | | | | | | | | | | | | | | 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.
* | Commit copyright header change for src/H5PLpkg.c which was added after ↵lrknox2017-04-251-6/+4
| | | | | | | | running script to make changes.
* | Revert HDFFV-9655 by disabling test and not using new function.Allen Byrne2017-04-242-13/+15
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* | Merge pull request #447 in HDFFV/hdf5 from ↵Allen Byrne2017-04-211-7/+87
|\ \ | | | | | | | | | | | | | | | | | | | | | | | | ~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
| * | HDFFV-9655 fix test and some warningsAllen Byrne2017-04-211-3/+3
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| * | Merge remote-tracking branch 'origin/develop' intoAllen Byrne2017-04-2121-341/+716
| |\ \ | | | | | | | | | | | | bugfix/HDFFV-9655-plugin-path-relative
| | * | Fix parameter formAllen Byrne2017-04-211-4/+4
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| * | | HDFFV-9655 fix compile and testAllen Byrne2017-04-211-35/+47
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| * | | HDFFV-9655 - Add functions for '@' - untestedAllen Byrne2017-03-291-0/+68
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* | | | Fixed problems that prevent bin/trace from marking up some functions.Dana Robinson2017-04-213-22/+20
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* | | The cache_image test shows a skipped message about EoC in parallel.Dana Robinson2017-04-201-1/+0
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