[med-svn] [r-cran-vegan] branch upstream updated (c054784 -> 8fe98ea)

[Andreas Tille]

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

tille pushed a change to branch upstream
in repository r-cran-vegan.

      from  c054784   Imported Upstream version 2.3-0
       new  8fe98ea   Imported Upstream version 2.3-1

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
been added to this reference.


Summary of changes:
 DESCRIPTION                     |  10 +--
 MD5                             | 135 ++++++++++++++++++++--------------------
 NAMESPACE                       |   4 +-
 R/adonis.R                      |   6 +-
 R/alias.cca.R                   |   4 +-
 R/anosim.R                      |   3 +-
 R/anova.cca.R                   |  16 +++--
 R/anova.ccabyterm.R             |  70 ++++++++++++++-------
 R/anova.ccalist.R               |  30 +++++----
 R/anova.ccanull.R               |  21 ++++---
 R/biplot.rda.R                  |   7 ++-
 R/centroids.cca.R               |   2 +-
 R/factorfit.R                   |   3 +-
 R/mantel.R                      |   3 +-
 R/mantel.partial.R              |   3 +-
 R/metaMDS.R                     |  21 ++++---
 R/metaMDSdist.R                 |   1 +
 R/monoMDS.R                     |   2 +-
 R/mrpp.R                        |   3 +-
 R/mso.R                         |   4 +-
 R/oecosimu.R                    |  11 +++-
 R/ordiR2step.R                  |   5 ++
 R/ordiareatest.R                |   3 +-
 R/permustats.R                  |  37 +++++++----
 R/permutest.betadisper.R        |  10 +--
 R/permutest.cca.R               |   4 --
 R/plot.cca.R                    |  10 +--
 R/plot.prc.R                    |   9 +--
 R/points.cca.R                  |   9 +--
 R/predict.cca.R                 |  11 ++--
 R/predict.rda.R                 |  11 ++--
 R/print.cca.R                   |   2 +-
 R/print.permutest.cca.R         |   3 +-
 R/protest.R                     |   3 +-
 R/rarecurve.R                   |  10 +++
 R/scalingUtils.R                |  27 ++++++++
 R/scores.cca.R                  |  22 ++++---
 R/scores.rda.R                  |   6 +-
 R/simper.R                      |   3 +-
 R/summary.cca.R                 |  14 +++--
 R/summary.prc.R                 |   7 +--
 R/text.cca.R                    |   9 +--
 R/tolerance.cca.R               |   9 ++-
 R/vectorfit.R                   |   3 +-
 data/BCI.env.rda                | Bin 0 -> 337 bytes
 inst/NEWS.Rd                    |  79 +++++++++++++++++++++++
 inst/doc/FAQ-vegan.pdf          | Bin 148353 -> 148353 bytes
 inst/doc/NEWS.html              |  92 +++++++++++++++++++++++++++
 inst/doc/decision-vegan.pdf     | Bin 342516 -> 342248 bytes
 inst/doc/diversity-vegan.pdf    | Bin 365737 -> 365321 bytes
 inst/doc/intro-vegan.pdf        | Bin 235169 -> 234771 bytes
 man/BCI.Rd                      |  42 +++++++++----
 man/adipart.Rd                  |   6 +-
 man/anova.cca.Rd                |   5 +-
 man/biplot.rda.Rd               |  22 +++++--
 man/cca.Rd                      |   4 +-
 man/diversity.Rd                | 107 +++++--------------------------
 man/monoMDS.Rd                  |   2 +-
 man/permustats.Rd               |  12 ++--
 man/plot.cca.Rd                 |  75 ++++++++++++++--------
 man/prc.Rd                      |  23 +++++--
 man/predict.cca.Rd              |  16 +++--
 man/{diversity.Rd => rarefy.Rd} |  95 ++++------------------------
 man/specaccum.Rd                |  77 +++++++++++------------
 man/tolerance.Rd                |   8 ++-
 vignettes/FAQ-vegan.pdf         | Bin 148353 -> 148353 bytes
 vignettes/NEWS.html             |  92 +++++++++++++++++++++++++++
 vignettes/decision-vegan.tex    |  20 +++---
 vignettes/diversity-vegan.tex   |  80 ++++++++++++------------
 vignettes/intro-vegan.tex       |  50 +++++++--------
 70 files changed, 915 insertions(+), 578 deletions(-)
 create mode 100644 R/scalingUtils.R
 create mode 100644 data/BCI.env.rda
 copy man/{diversity.Rd => rarefy.Rd} (50%)

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