Greetings!!
I am trying to use a local CRAN and Bioconductor repository for
academic purposes. In this context, in biocLite.R script at
bioconductor.org suggests to use:
options("repos" = "http://localCRANsite";)
options("BioC_mirror" = "http://localBioconductorSite";)
source("http://bioconductor.org/biocLite.R";)
biocLite("package name").
After applying this modifications, only packages dependencies from
Bioconductor will user the local http://localBioconductorSite
repository. But, CRAN dependencies will override new "repos" value and
use http://cran.fhcrc.org instead. However, any
install.packages("package whatever") uses the new local repository
link.
I believe the problem lies in biocinstallRepos() function as it
returns a name character where CRAN value is "http://cran.fhcrc.org";
instead of the new link. Digging a little more, this function calls
.biocinstallRepos which has hard-coded inside "http://cran.fhcrc.org";.
Can someone has a workaround?
Best regards
Kachelo
[[alternative HTML version deleted]]
_______________________________________________
Bioc-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/bioc-devel
