| Commit message (Collapse) | Author | Age | Files | Lines |
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Fix for the compilation error from the PGI compiler.
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(1) Remove unnecessary asserts
(2) Add code to insert bad offset values to the test file in gen_bad_offset.c
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Fix H5HL_offset_into() to return error when offset exceeds heap data block size.
Also fix other places that call this routine to detect error return.
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(Committed 8/1/2017 but not pushed from fork)
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a) multi/split drivers and
b) persisting free-space or using paged aggregation strategy
because the library will fail file creation (temporary) for the above conditions.
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Test the changes in a branch via daily testing.
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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.
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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.
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Fixes for:
* HDFFV-10247 (autotools Fortran long double bug)
* HDFFV-10248 (autotools deprecated debug/production tweak)
* HDFFV-10250 (-fno-omit-frame-pointer w/ symbols)
* Disabled missing parameter warnings in Java constant code
* Added H5I_VFL ID checks to tmisc.c
* Added 'get a dummy VFD' call to h5test library
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* H5FD_FEAT_DEFAULT_VFD_COMPATIBLE VFD feature flag (HDFFV-10214)
* H5FDdriver_query() API call (HDFFV-10215)
* Fix to skip SWMR tests that when the current VFD is not compatible
with the default VFD (HDFFV-10197)
* Removed obsolete compiler versions from config/gnu-flags (HDFFV-9937)
* Many warning fixes
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(cherry picked from commit 8807f918b9b00916efa822dda0301d3aa9debd80)
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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.
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~DEROBINS/hdf5_der:h5do_overwrite_1_10 to hdf5_1_10
* commit '1d786206df53942a3a3dbd538b369c94a632050d':
Removed redundant assignement.
Fixes the chunk overwrite bug (HDFFV-10187) and adds a new H5DO HL test.
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hdf5_1_10
* commit '1a4bda1bd824df2da1e8c3441881fb7fca6a4413':
Set the HDF5_GENERATE_HEADERS CMake option to default to ON and removed the option from the CMake cache init files.
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the option from the CMake cache init files.
Fixes HDFFV-10184
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Fix missing declaration for H5D__layout_compact_dirty_test().
Tested on mayll and osx1010test.
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Modifications made based on the review comments from pull request #494
Tested on moohan, mayll, kituo, platypus, ostrich, osx1010test, quail, emu.
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(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.
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Made couple changes based on the review comments.
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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.
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the parallel library.
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* 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
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running script to make changes.
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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
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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.
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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.
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* 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
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(https://jira.hdfgroup.org/browse/HDFFV-10055).
Briefly, in H5C_collective_write() in H5Cmpio.c,
the metadata cache attempts to perform a collective
write of metadata cache entries.
This worked fine as long as all processes had at
least one entry to write.
However, when the process has no entries, the
function tries to participate in the collective write
by calling MPI_File_set_view(),
MPI_File_write_all() and then MPI_File_set_view()
again, to match the calls in H5FD_mpio_write().
After pull request 183, the CGNS test benchmark_hdf5
started failing. On investigation, I determined that
the failure occurred in the first call to MPI_File_set_view()
in the "no data to write" path through H5C_collective_write().
Note that pull request 183 did not create the problem,
it only exposed it. The bug can be observed after pull
request 182 if one executes the CGNS progam
src/ptests/benchmark_hdf5 with 90 processes.
The problem appears to have been that the calls to
MPI_File_set_view() in H5C_collective_write() and
H5FD_mpio_write() were using different values for the
info parameter. I patched the problem by adding a
MPI specific VFD call allowing me to get the MPI_Info
used in H5FD_mpio_write() for use in
MPI_File_set_view() calls in H5C_collective_write().
Tested serial & parallel, debug & production on
Jelly.
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* commit 'b56fb149c9a3c9dca11b406b7a2488f0c93ee187':
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.
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Fix for HDFFV-10141.
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Fixes HDFFV-10141.
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* commit '2412158ed8326a3f3d62fbd947e470667d0b5951':
Add new file COPYING_LBNL_HDF5.
Revert "Clear hdf5 1.10 entries from RELEASE.txt in the develop branch. Entries"
Add LBNL license file and modify COPYING file accordingly.
Omnibus checkin for several relatively minor modifications:
Clear hdf5 1.10 entries from RELEASE.txt in the develop branch. Entries in this branch version of RELEASE.txt should be intended for the future 1.12.0 release.
Fix HDFFV-8089 Description: Some code within an "ifdef H5D_CHUNK_DEBUG" block was using outdated data structure but not caught because the case of H5D_CHUNK_DEBUG being defined was never tested. It was commented out. I defined H5D_CHUNK_DEBUG, tested, and commented out again. Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
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