[med-svn] [r-bioc-cummerbund] branch upstream updated (1498ad5 -> a29b49c)

[Andreas Tille]

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

      from  1498ad5   Imported Upstream version 2.12.1
       new  a29b49c   Imported Upstream version 2.14.0

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                              |   6 +-
 NAMESPACE                                |   4 +-
 R/database-setup.R                       |   2 +-
 R/methods-CuffData.R                     | 209 ++++++++++++++++---------------
 R/methods-CuffFeatureSet.R               |   1 +
 R/methods-CuffGene.R                     |   1 +
 R/methods-CuffSet.R                      |   4 +-
 build/vignette.rds                       | Bin 302 -> 301 bytes
 inst/doc/cummeRbund-example-workflow.pdf | Bin 198167 -> 197972 bytes
 inst/doc/cummeRbund-manual.pdf           | Bin 1567910 -> 1568280 bytes
 man/createDB.Rd                          |  36 ------
 11 files changed, 116 insertions(+), 147 deletions(-)
 delete mode 100644 man/createDB.Rd

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