[med-svn] [r-cran-pscbs] branch master updated (6020efa -> 385840d)

[Andreas Tille]

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tille pushed a change to branch master
in repository r-cran-pscbs.

      from  6020efa   Upload to unstable
       new  6e6d7e1   New upstream version 0.63.0
       new  b1b6611   Updated version 0.63.0 from 'upstream/0.63.0'
       new  f7c6399   New upstream version
       new  0f851ca   debhelper 10
       new  27284b6   Standards-Version: 4.1.1
       new  385840d   New Build-Depends: r-bioc-aroma.light

The 6 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                          |   26 +-
 INSTALL.md                           |    3 +-
 NAMESPACE                            |   10 +-
 NEWS                                 | 3611 ++++++++++++++++++++++------------
 R/CBS.CALL.R                         |    3 -
 R/CBS.R                              |    2 +-
 R/NonPairedPSCBS.R                   |    2 +-
 R/PSCBS.isLocallyPhased.R            |   12 +
 R/PairedPSCBS.R                      |    4 +-
 R/PairedPSCBS.callCopyNeutral.R      |   69 +-
 R/PairedPSCBS.estimateKappa.R        |    3 -
 R/callSegmentationOutliers.R         |    4 -
 R/findNeutralCopyNumberState.R       |    4 -
 R/segmentByCBS.R                     |    5 -
 R/segmentByNonPairedPSCBS.R          |    1 -
 R/segmentByPairedPSCBS.R             |    4 +-
 R/zzz.R                              |   64 +-
 README.md                            |   10 +-
 appveyor.yml                         |   11 +-
 cran-comments.md                     |   54 +-
 debian/changelog                     |   10 +
 debian/compat                        |    2 +-
 debian/control                       |    5 +-
 incl/999.missingdocs.txt             |    2 +
 man/Non-documented_objects.Rd        |    2 +
 man/NonPairedPSCBS.Rd                |    2 +-
 man/PSCBS.Rd                         |    1 +
 man/PairedPSCBS.Rd                   |    2 +-
 man/estimateDeltaCN.PairedPSCBS.Rd   |    6 +-
 revdep/README.md                     |   89 +-
 revdep/problems.md                   |   28 +-
 revdep/timing.md                     |   22 +-
 tests/segmentByCBS,futures.R         |   10 +-
 tests/segmentByPairedPSCBS,futures.R |    4 +-
 34 files changed, 2606 insertions(+), 1481 deletions(-)
 create mode 100644 R/PSCBS.isLocallyPhased.R

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