[BioC] how to check BioConductor version?
sfalcon at fhcrc.org
Thu Aug 10 16:50:08 CEST 2006
Jianping Jin <jjin at email.unc.edu> writes:
> We are running R-2.3.1/BioConductor on a Sun machine. I am wondering how I
> can check which version of BioConductor, 1.8 or 1.7 for example, was
> installed? Do I need to check package(s) of my interest by
> packageDescription() and see what version of R this package was
> built with?
Packages in a Bioconductor release do not share a common version
number. As a result, you will want to verify installed package
versions against the version number that is part of a given release.
You can use packageDescription to find the installed package version.
You can browse the package version number in a particular release
You can also pull the package information from the online repositories
using available.packages and then do comparisons in R.
[below, untested outline of how to go about this]
bioc18 = available.packages(contrib.url("http://www.bioconductor.org/packages/1.8/bioc/"))
instPkgs = installed.packages()
commonPkgs = intersect(rownames(bioc18), rownames(instPkgs))
mapply(function(x, y) compareVersion(x, y),
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