[med-svn] [r-bioc-genomicalignments] branch upstream updated (8d7a12c -> e421045)

[Andreas Tille]

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

      from  8d7a12c   New upstream version 1.12.2
       new  e421045   New upstream version 1.14.0

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
been added to this reference.


Summary of changes:
 DESCRIPTION                                |   8 ++++----
 NAMESPACE                                  |   3 ++-
 NEWS                                       |  24 ++++++++++++++++++++++++
 R/GAlignmentPairs-class.R                  |   4 ++--
 R/GAlignments-class.R                      |   7 +++----
 R/findOverlaps-methods.R                   |  18 +++++++++---------
 build/vignette.rds                         | Bin 543 -> 544 bytes
 inst/doc/GenomicAlignmentsIntroduction.pdf | Bin 184723 -> 185023 bytes
 inst/doc/OverlapEncodings.pdf              | Bin 204315 -> 283285 bytes
 inst/doc/WorkingWithAlignedNucleotides.pdf | Bin 144152 -> 214717 bytes
 inst/doc/summarizeOverlaps.pdf             | Bin 166426 -> 204190 bytes
 man/findOverlaps-methods.Rd                |   4 ++--
 12 files changed, 46 insertions(+), 22 deletions(-)

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