[med-svn] [r-bioc-biocgenerics] branch master updated (be2d855 -> f8f0589)

[Charles Plessy]

This is an automated email from the git hooks/post-receive script.

plessy pushed a change to branch master
in repository r-bioc-biocgenerics.

      from  be2d855   debian/control: normalised with config-model-edit.
      adds  3f86ed7   Imported Upstream version 0.4.0
      adds  d2469c7   Imported Upstream version 0.6.0
       new  bd18c77   Merge branch 'upstream'
       new  cbaf052   Imported Upstream version 0.8.0
       new  79bb382   Merge tag 'upstream/0.8.0'
       new  ab04b53   New Bioconductor release.  No new license not copyright statement.
       new  f8f0589   Stopped claiming copyright on the packaging work (trivial).

The 5 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                 |   22 ++++++------
 NAMESPACE                   |   27 +++++++++++++--
 R/annotation.R              |    7 ++--
 R/{unique.R => append.R}    |    8 ++---
 R/{tapply.R => as.vector.R} |    8 ++---
 R/combine.R                 |    2 +-
 R/dge.R                     |   18 ++++++++++
 R/eval.R                    |    4 +++
 R/is.unsorted.R             |    8 +++++
 R/{image.R => normalize.R}  |    8 ++---
 R/normarg-utils.R           |   31 +++++++++++++++++
 R/plotMA.R                  |   10 ++++++
 R/show-utils.R              |   60 ++++++++++++++++++++++++++++++++
 R/tapply.R                  |    4 +--
 R/update.R                  |   41 ++++++++++++++++++++++
 TODO                        |    4 ---
 debian/changelog            |    7 ++--
 debian/copyright            |    5 ++-
 man/BiocGenerics-package.Rd |   20 +++++++----
 man/Extremes.Rd             |   26 +++++++-------
 man/annotation.Rd           |   20 ++++++-----
 man/append.Rd               |   72 ++++++++++++++++++++++++++++++++++++++
 man/as.data.frame.Rd        |   32 +++++++++--------
 man/as.vector.Rd            |   73 +++++++++++++++++++++++++++++++++++++++
 man/boxplot.Rd              |   24 +++++++------
 man/cbind.Rd                |   32 +++++++++--------
 man/clusterApply.Rd         |   17 +++++----
 man/combine.Rd              |   28 ++++++++-------
 man/density.Rd              |   24 +++++++------
 man/dge.Rd                  |   51 +++++++++++++++++++++++++++
 man/duplicated.Rd           |   28 ++++++++-------
 man/eval.Rd                 |   25 ++++++++------
 man/evalq.Rd                |   51 +++++++++++++++++++++++++++
 man/funprog.Rd              |   34 +++++++++---------
 man/get.Rd                  |   26 +++++++-------
 man/image.Rd                |   24 +++++++------
 man/is.unsorted.Rd          |   80 +++++++++++++++++++++++++++++++++++++++++++
 man/lapply.Rd               |   28 ++++++++-------
 man/mapply.Rd               |   25 ++++++++------
 man/match.Rd                |   24 +++++++------
 man/normalize.Rd            |   61 +++++++++++++++++++++++++++++++++
 man/nrow.Rd                 |   28 ++++++++-------
 man/order.Rd                |   24 +++++++------
 man/paste.Rd                |   26 +++++++-------
 man/plotMA.Rd               |   55 +++++++++++++++++++++++++++++
 man/rank.Rd                 |   25 +++++++-------
 man/rep.Rd                  |   28 ++++++++-------
 man/residuals.Rd            |   24 +++++++------
 man/row_colnames.Rd         |   28 ++++++++-------
 man/sets.Rd                 |   28 ++++++++-------
 man/sort.Rd                 |   26 +++++++-------
 man/strand.Rd               |   20 ++++++-----
 man/table.Rd                |   24 +++++++------
 man/tapply.Rd               |   25 ++++++++------
 man/unique.Rd               |   31 +++++++++--------
 man/unlist.Rd               |   26 +++++++-------
 man/updateObject.Rd         |   24 +++++++------
 man/weights.Rd              |   24 +++++++------
 man/xtabs.Rd                |   25 ++++++++------
 59 files changed, 1155 insertions(+), 435 deletions(-)
 copy R/{unique.R => append.R} (52%)
 copy R/{tapply.R => as.vector.R} (57%)
 create mode 100644 R/dge.R
 create mode 100644 R/is.unsorted.R
 copy R/{image.R => normalize.R} (58%)
 create mode 100644 R/normarg-utils.R
 create mode 100644 R/plotMA.R
 create mode 100644 R/show-utils.R
 create mode 100644 R/update.R
 create mode 100644 man/append.Rd
 create mode 100644 man/as.vector.Rd
 create mode 100644 man/dge.Rd
 create mode 100644 man/evalq.Rd
 create mode 100644 man/is.unsorted.Rd
 create mode 100644 man/normalize.Rd
 create mode 100644 man/plotMA.Rd

-- 
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