Revisions of hdf5

Atri Bhattacharya's avatar Atri Bhattacharya (badshah400) accepted request 992096 from Atri Bhattacharya's avatar Atri Bhattacharya (badshah400) (revision 155)
- Update to version 1.12.2
- Minor re-base of existing patches to apply cleanly:
- Drop upstreamed patch: hdf5-1.10.8-pr1494-fix-release-check-version.patch.
buildservice-autocommit accepted request 977433 from Egbert Eich's avatar Egbert Eich (eeich) (revision 154)
baserev update by copy to link target
Egbert Eich's avatar Egbert Eich (eeich) committed (revision 153)
- set higher constraints for succesfull mpich tests (boo#1133222)
buildservice-autocommit accepted request 975082 from Egbert Eich's avatar Egbert Eich (eeich) (revision 152)
baserev update by copy to link target
Egbert Eich's avatar Egbert Eich (eeich) accepted request 975081 from Egbert Eich's avatar Egbert Eich (eeich) (revision 151)
  * CVE-2018-17234: Memory leak in the H5O__chunk_deserialize() 
  * CVE-2018-17434: A SIGFPE signal is raised in function apply_filters()
  of h5repack_filters.c (bsc#1109566)
Egbert Eich's avatar Egbert Eich (eeich) accepted request 974893 from Egbert Eich's avatar Egbert Eich (eeich) (revision 150)
- Security Fix:
  Add configure option --disable-hltools to disable GIF tools as
  recommended in the 1.10.8 release:
  CVE-2018-17433 (bsc#1109565),
  CVE-2018-17436 (bsc#1109568),
  CVE-2020-10809 (bsc#1167404).

  * Fixed CVE-2018-17432 (bsc#1109564)
    parsing (bsc#1167401)
  * Fixed CVE-2018-14460 (bsc#1102175)
  * Fixed CVE-2018-11206 (bsc#1093657)
    (same issue as CVE-2018-14032 (bsc#1101474))
  * Fixed CVE-2018-14033 (bsc#1101471)
    (same issue as CVE-2020-10811 (bsc#1167405))
    H5D__select_io() of H5Dselect.c in the HDF HDF5 through 1.10.3
    (bsc#1109570)
  * CVE-2018-17437: Memory leak in the H5O_dtype_decode_helper() function
  in H5Odtype.c. (bsc#1109569)
  * CVE-2018-17237: A SIGFPE signal is raised in the function 
  H5D__chunk_set_info_real (bsc#1109168) (commit 4e31361d).
buildservice-autocommit accepted request 969150 from Atri Bhattacharya's avatar Atri Bhattacharya (badshah400) (revision 149)
baserev update by copy to link target
Atri Bhattacharya's avatar Atri Bhattacharya (badshah400) accepted request 967624 from Christoph Junghans's avatar Christoph Junghans (cjunghans) (revision 148)
- add hdf5-wrappers.patch from Fedora, so strip flags from
  wrappers and prefer shared linking
- add missing zlib-devel devel dep
buildservice-autocommit accepted request 966612 from Egbert Eich's avatar Egbert Eich (eeich) (revision 147)
baserev update by copy to link target
Egbert Eich's avatar Egbert Eich (eeich) accepted request 966185 from Benjamin Greiner's avatar Benjamin Greiner (bnavigator) (revision 146)
- Add hdf5-1.10.8-pr1494-fix-release-check-version.patch
  * boo#1179521, boo#1196682, gh#HDFGroup/hdf5#1494
  * Avoids package crashes due to an overeager version check.
    Packages depending on the shared libraries are not being
    rebuilt in Factory after a patchlevel version bump of hdf5
    without SONAME changes.
Egbert Eich's avatar Egbert Eich (eeich) accepted request 955494 from Atri Bhattacharya's avatar Atri Bhattacharya (badshah400) (revision 145)
* Update to version 1.10.8.
* Minor rebase of patches to apply cleanly.
buildservice-autocommit accepted request 867822 from Egbert Eich's avatar Egbert Eich (eeich) (revision 144)
baserev update by copy to link target
Egbert Eich's avatar Egbert Eich (eeich) accepted request 867810 from Egbert Eich's avatar Egbert Eich (eeich) (revision 143)
- Fix update_so_version.sh, write so versions to file being included.
buildservice-autocommit accepted request 851572 from Egbert Eich's avatar Egbert Eich (eeich) (revision 142)
baserev update by copy to link target
Egbert Eich's avatar Egbert Eich (eeich) committed (revision 141)
  * 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.
buildservice-autocommit accepted request 848498 from Ana Guerrero's avatar Ana Guerrero (anag) (revision 140)
baserev update by copy to link target
Ana Guerrero's avatar Ana Guerrero (anag) accepted request 848496 from Ana Guerrero's avatar Ana Guerrero (anag) (revision 139)
- 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
- Security bugs fixed: 
  * CVE-2018-13870: heap-based buffer over-read in the function 
    H5O_link_decode in H5Olink.c  (bsc#1101493)
  * CVE-2018-13869: memcpy parameter overlap in the function 
    H5O_link_decode in H5Olink.c (bsc#1101495)
  * CVE-2018-17438:  A SIGFPE signal is raised in the function 
    H5D__select_io() of H5Dselect.c in the HDF HDF5 through 1.10.3 
    library during an attempted parse of a crafted HDF file, 
    because of incorrect protection against division
    (bsc#1109570)
  * CVE-2018-17435: A heap-based buffer over-read in H5O_attr_decode() 
    in H5Oattr.c in the HDF HDF5 through 1.10.3 library allows 
    attackers to cause a denial of service via a crafted HDF5 file. 
    (bsc#1109567)
- Refresh patches

- Security bugs fixed: 
  * CVE-2018-17233: A SIGFPE signal is raised in the function 
  H5D__create_chunk_file_map_hyper. (bsc#1109166)
  * CVE-2018-17434: Memory leak in the H5O__chunk_deserialize() 
  function in H5Ocache.c (bsc#1109167)
  * CVE-2018-17437: A SIGFPE signal is raised in the function 
  H5D__chunk_set_info_real. (bsc#1109168)
- Security bugs fixed: 
  * CVE-2017-17505: NULL pointer dereference in the function
    H5O_pline_decode allowing for DoS via crafted file (bsc#1072087)
  * CVE-2017-17506: Out of bounds read in the function
buildservice-autocommit accepted request 833710 from Egbert Eich's avatar Egbert Eich (eeich) (revision 138)
baserev update by copy to link target
Egbert Eich's avatar Egbert Eich (eeich) accepted request 833594 from Egbert Eich's avatar Egbert Eich (eeich) (revision 137)
- Add build support for gcc10 to HPC build (bsc#1174439).
buildservice-autocommit accepted request 822016 from Christian Goll's avatar Christian Goll (mslacken) (revision 136)
baserev update by copy to link target
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