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* Add metadata cache optimization to reduce skip list usage.

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* Add BEST_EFFORT value to HDF5_USE_FILE_LOCKING environment variable.
  * Add H5Pset/get_file_locking() API calls.
  * Add Mirror VFD.
    Use TCP/IP sockets to perform write-only (W/O) file I/O on a remote
    machine. Must be used in conjunction with the Splitter VFD.
  * Add Splitter VFD.
    Maintain separate R/W and W/O channels for "concurrent" file writes
    to two files using a single HDF5 file handle.
  * Fixed an assertion failure in the parallel library when collectively
   filling chunks.
  * Fortran/C++ libs: Add wrappers for H5Pset/get_file_locking() API calls.
     h5pget_file_locking_f()
     h5pset_file_locking_f()
  * Added new Fortran parameters:
        H5F_LIBVER_ERROR_F
        H5F_LIBVER_NBOUNDS_F
        H5F_LIBVER_V18_F
        H5F_LIBVER_V110_F
  * Add new Fortran API: h5pget_libver_bounds_f.
  * h5repack added options to control how external links are handled.
  * The tools library was updated by standardizing the error stack process.
  * The H5DSis_scale function was updated to return "not a dimension scale" (0)
    instead of failing (-1), when CLASS or DIMENSION_SCALE attributes are
    not written according to Dimension Scales Specification.
  * Bug Fixes:
    + Fix bug and simplify collective metadata write operation when some ranks
      have no entries to contribute.  This fixes parallel regression test
      failures with IBM SpectrumScale MPI on the Summit system at ORNL.
    + Fixed use-of-uninitialized-value error.

OBS-URL: https://build.opensuse.org/package/show/science/hdf5?expand=0&rev=141
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Egbert Eich 2020-11-28 20:11:44 +00:00 committed by Git OBS Bridge
parent f7f6dfb4d4
commit bf5699679e
1 changed files with 97 additions and 2 deletions
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@ -2,8 +2,103 @@
Fri Nov 6 10:41:02 UTC 2020 - Ana Guerrero Lopez <aguerrero@suse.com>
- Update to version 1.10.7
* https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.10/hdf5-1.10.6/src/hdf5-1.10.6-RELEASE.txt
* https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.10/hdf5-1.10.7/src/hdf5-1.10.7-RELEASE.txt
* Add metadata cache optimization to reduce skip list usage.
* Add BEST_EFFORT value to HDF5_USE_FILE_LOCKING environment variable.
* Add H5Pset/get_file_locking() API calls.
* Add Mirror VFD.
Use TCP/IP sockets to perform write-only (W/O) file I/O on a remote
machine. Must be used in conjunction with the Splitter VFD.
* Add Splitter VFD.
Maintain separate R/W and W/O channels for "concurrent" file writes
to two files using a single HDF5 file handle.
* Fixed an assertion failure in the parallel library when collectively
filling chunks.
* Fortran/C++ libs: Add wrappers for H5Pset/get_file_locking() API calls.
h5pget_file_locking_f()
h5pset_file_locking_f()
* Added new Fortran parameters:
H5F_LIBVER_ERROR_F
H5F_LIBVER_NBOUNDS_F
H5F_LIBVER_V18_F
H5F_LIBVER_V110_F
* Add new Fortran API: h5pget_libver_bounds_f.
* h5repack added options to control how external links are handled.
* The tools library was updated by standardizing the error stack process.
* The H5DSis_scale function was updated to return "not a dimension scale" (0)
instead of failing (-1), when CLASS or DIMENSION_SCALE attributes are
not written according to Dimension Scales Specification.
* Bug Fixes:
+ Fix bug and simplify collective metadata write operation when some ranks
have no entries to contribute. This fixes parallel regression test
failures with IBM SpectrumScale MPI on the Summit system at ORNL.
+ Fixed use-of-uninitialized-value error.
Appropriate initialization of local structs was added to remove the
use-of-uninitialized-value errors reported by MemorySanitizer.
+ Creation of dataset with optional filter.
A fix is applied to allow the creation of a dataset in such
situation, as specified in the user documentation.
+ Explicitly declared dlopen to use RTLD_LOCAL.
+ H5Sset_extent_none() sets the dataspace class to H5S_NO_CLASS which
causes asserts/errors when passed to other dataspace API calls.
+ Fixed the segmentation fault when reading attributes with multiple threads
The problem was fixed by setting the file pointer to the current opened
file pointer when the attribute was accessed. Similar patch up was done
before when reading dataset with variable length string datatype.
+ Don't allocate an empty (0-dimensioned) chunked dataset's chunk
index, until the dataset's dimensions are increased.
+ Fortan: Corrected INTERFACE INTENT(IN) to INTENT(OUT) for buf_size in
h5fget_file_image_f.
+ h5diff fixed a command line parsing error.
+ h5diff added a command line option to ignore attributes.
+ h5diff added another level to the verbose argument to print filenames.
+ h5repack was fixed to repack the reference attributes properly.
* For details check:
https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.10/hdf5-1.10.7/src/hdf5-1.10.7-RELEASE.txt
- version 1.10.6
* Added S3 and HDFS Virtual File Drivers (VFDs) to HDF5.
Instructions to enable them when configuring HDF5 on Linux and Mac
may be found at.
https://portal.hdfgroup.org/display/HDF5/Virtual+File+Drivers+-+S3+and+HDFS.
* Added new wrappers for H5Pset/get_create_intermediate_group()
LinkCreatPropList::setCreateIntermediateGroup()
LinkCreatPropList::getCreateIntermediateGroup()
* h5repack was fixed to repack datasets with external storage
to other types of storage.
* Bug Fixes:
+ Improved performance when creating a large number of small datasets by
retrieving default property values from the API context instead of doing
skip list searches. More work is required to achieve parity with HDF5 1.8.
+ Fixed user-created data access properties not existing in the property list
returned by H5Dget_access_plist. Thanks to Steven Varga for submitting a
reproducer and a patch.
+ Inappropriate linking with deprecated MPI C++ libraries.
HDF5 does not define *_SKIP_MPICXX in the public headers, so applications
can inadvertently wind up linking to the deprecated MPI C++ wrappers.
MPICH_SKIP_MPICXX and OMPI_SKIP_MPICXX have both been defined in H5public.h
so this should no longer be an issue. HDF5 makes no use of the deprecated
MPI C++ wrappers.
+ fcntl(2)-based file locking incorrectly passed the lock argument struct
instead of a pointer to the struct, causing errors on systems where
flock(2) is not available.
This bug affects HDF5 1.10.0 through 1.10.5.
fcntl(2)-based file locking now correctly passes the struct pointer.
+ Fixed a bug caused by a bad tag value when condensing object header
messages.
+ Fixed an issue when creating a file with non-default file space info
together with library high bound setting to H5F_LIBVER_V18.
This was fixed by setting and checking the proper version in the file
space info message based on the library low and high bounds when creating
and opening the HDF5 file.
+ Fixed an issue where copying a version 1.8 dataset between files using
H5Ocopy fails due to an incompatible fill version.
+ Fixed a bug that would cause an error or cause fill values to be
incorrectly read from a chunked dataset using the "single chunk" index if
+ Fixed a bug that could cause an error or cause fill values to be
incorrectly read from a dataset that was written to using H5Dwrite_chunk
if the dataset was not closed after writing.
+ Fixed memory leak in scale offset filter.
* For details check:
https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-1.10/hdf5-1.10.6/src/hdf5-1.10.6-RELEASE.txt
- Security bugs fixed:
* CVE-2018-13870: heap-based buffer over-read in the function
H5O_link_decode in H5Olink.c (bsc#1101493)