[med-svn] [r-bioc-variantannotation] branch upstream updated (25974dc -> 1e3ba2e)

[Andreas Tille]

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tille pushed a change to branch upstream
in repository r-bioc-variantannotation.

      from  25974dc   New upstream version 1.22.3
       new  1e3ba2e   New upstream version 1.24.1

The 1 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "adds" were already present in the repository and have only
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Summary of changes:
 DESCRIPTION                      |   4 +--
 NAMESPACE                        |   2 +-
 NEWS                             |  29 ++++++++++++++++
 R/AllClasses.R                   |   4 +--
 R/methods-VCF-class.R            |  37 +++++++++++++--------
 R/methods-VCFHeader-class.R      |   6 ++--
 R/methods-VRangesList-class.R    |   3 ++
 R/methods-VcfFile.R              |   7 ++--
 R/methods-locateVariants.R       |   2 +-
 build/vignette.rds               | Bin 270 -> 271 bytes
 inst/doc/VariantAnnotation.pdf   | Bin 203450 -> 203854 bytes
 inst/doc/filterVcf.pdf           | Bin 176665 -> 176665 bytes
 inst/unitTests/test_VCF-class.R  |   2 +-
 man/VCF-class.Rd                 |  69 ++++++++++++++++++++++++---------------
 man/VRangesList-class.Rd         |  18 ++++++++++
 man/summarizeVariants-methods.Rd |   3 +-
 16 files changed, 131 insertions(+), 55 deletions(-)

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