[Bioc-devel] R v3.0.0: It's now official and BioC devel needs some updates

Dan Tenenbaum dtenenba at fhcrc.org
Sun Dec 16 22:42:42 CET 2012

On Sun, Dec 16, 2012 at 1:16 PM, Henrik Bengtsson <hb at biostat.ucsf.edu> wrote:
> >From http://stat.ethz.ch/R-manual/R-devel/NEWS:
>   "It is intended that this version will be released as R 3.0.0."
> They've already changed the R-devel version number from 2.16.0 to
> 3.0.0, which causes biocLite() et al. to fail, e.g.
>> source("http://www.bioconductor.org/biocLite.R")
> Installing package into 'C:/Users/hb/R/win-library/3.0'
> (as 'lib' is unspecified)
> Warning: unable to access index for repository http://www.bioconductor.org/packa
> ges/2.12/bioc/bin/windows/contrib/3.0
>    package 'BiocInstaller' is available as a source package but not as a binary
> 'biocLite.R' failed to install 'BiocInstaller', use
>   'install.packages("BiocInstaller",
>   repos="http://www.bioconductor.org/packages/2.12/bioc")'
> Warning message:
> package 'BiocInstaller' is not available (for R Under development)

This now works.

Note that we have not yet updated our devel build machines to R-3.0.0,
so there may be binary incompatibilities in Windows and Mac packages.
If in doubt, install from source.


> /Henrik
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