From: Seth Falcon <sfalcon at fhcrc.org>
To: Martin Maechler <maechler at stat.math.ethz.ch>
Date: Tue, 10 Apr 2007 06:25:21 -0700
Subject: Re: [Bioc-devel] BioC Release 2.0 REMINDER
Hi Martin,
Martin Maechler <maechler at stat.math.ethz.ch> writes:
I wonder however, why
biocLite(.) or biocinstalll(.)
biocinstall is an implementation detail (perhaps we should hide it
better) and should never be called directly.
do only partially work for me.
I get
Running biocinstall version 2.0.3 with R version 2.5.0 (currently in alpha)
Your version of R requires version 2.0 of Bioconductor (currently in alpha too).
Will install the following packages:
[1] "affy" "affydata" "affyPLM" "annaffy" "annotate"
[6] "Biobase" "Biostrings" "DynDoc" "gcrma" "genefilter"
[11] "geneplotter" "hgu95av2" "limma" "marray" "matchprobes"
[16] "multtest" "ROC" "vsn" "xtable"
Please wait...
Warning: unable to access index for repository http://bioconductor.org/packages/2.0/bioc/src/contrib
Warning: unable to access index for repository http://bioconductor.org/packages/2.0/data/annotation/src/contrib
...............
and in the end nothing is installed.
Maybe you need to update the index file there,
or was I supposed not to use biocinstall() for alpha/beta
testing ?
Can you verify that you can connect to the bioconductor.org website?
biocLite worked for me on the 8th (from Switzerland, even) and seems
to be working for me this morning in Seattle.
It would also help to know what getOption("pkgType") says for you.
Can others confirm difficulty using biocLite?