Hi, Bioconductor devs, In very rare cases (eg http://article.gmane.org/gmane.science.biology.informatics.conductor/35266/match=update+edgeR) where BioC package authors have released an urgent bug fix within a given BioC update cycle, the usual automated biocLite installation process does not appear to support recreating a very specific R/Bioc environment containing a precisely specified package release (say the previous edgeR 2.2.0 fixed by 2.2.5). You might argue a user should never do this, but since we want truly reproducible analyses (the context is the new toolshed dependency control mechanisms in Galaxy), we need to control *all* dependencies for a given release of a (eg edgeR) wrapper at this very fine level of granularity, acknowledging that reproducible =/= valid.
Take that edgeR update as a test case. I know about http://bioconductor.org/checkResults/ and eg https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/edgeR/ but I have been unable to figure out how to track down the 2.2.0 edgeR archive (or for that matter the 2.2.5 bugfix) - I'm sure it is in svn somewhere. Any advice on how I can identify a long term reliable svn or other url to script the download of a specific (even if know buggy) historical archive of (eg) edgeR 2.2.0? [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
