[Bioc-devel] adapting 'biocinstall' to my institute's needs
sfalcon at fhcrc.org
Wed May 3 18:11:42 CEST 2006
Paul Shannon <pshannon at systemsbiology.org> writes:
> I have a number of R-shy users. One big hurdle they face is installing
> packages. 'getBioC' and 'biocLite' seem like just the right
biocLite is trying to solve two problems:
1. Make it easy to install Bioc and/or CRAN packages and their
dependencies. To this end, it is really just a wrapper around
install.packages that sets the repos option to a vector of Bioc
package repositories (software, annotation, experiment, etc).
2. Choose the right collection of Bioc package repositories based on
the version of R being used.
Florian pointed you towards the source. If you plan to locally
support multiple R/Bioc versions then modifying these scripts seem
like a good way to go. OTOH, if you can live with support for single
version, then you could simplify quite a bit --- that is, you just
need a wrapper on install.packages that lists all of your repositories
(and possibly points to internet repositories as well).
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