Re: [R] Installation Error with Bioconductor on R

From: Martin Morgan <mtmorgan_at_fhcrc.org>
Date: Thu, 19 Jun 2008 14:10:55 -0700

Hi AA

Ask on the bioconductor mailing list, following the 'mailing lists' link on the front page http://bioconductor.org

and...

A A wrote:
> Hi, I am trying to install Bioconductor onto R version 2.7.0 for Windows. I installed R, then followed the instructions on http://www.bioconductor.org/download, which state that you should type the following:
>
> source("http://bioconductor.org/biocLite.R")
> biocLite()
>
> When I do that, I get the following error:
>
> Running biocinstall version 2.2.9 with R version 2.7.0
> Your version of R requires version 2.2 of BioConductor.
> Will install the following packages:
> [1] "affy" "affydata" "affyPLM" "annaffy" "annotate"
> [6] "Biobase" "Biostrings" "DynDoc" "gcrma" "genefilter"
> [11] "geneplotter" "hgu95av2.db" "limma" "marray" "matchprobes"
> [16] "multtest" "ROC" "vsn" "xtable" "affyQCReport"

the command biocLite() installs a number of packages; the above message is NOT an error, but an information message saying that the packages mentioned above are to be installed. Likely these packages are retrieved from the internet and installed on your computer, there should be quite a bit more output before returning to R, or are you saying that R stops working after the message above?

> Anything that I install after this gives me the same error. I tried uninstalling R 2.7.0 and installing R 2.6.2, and performing the same commands, as above, but the same thing happens.
>
>
>
> Does anyone have any suggestions?
>
> Thanks,
>
> A
>
>
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-- 
Martin Morgan
Computational Biology / Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N.
PO Box 19024 Seattle, WA 98109

Location: Arnold Building M2 B169
Phone: (206) 667-2793

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Received on Thu 19 Jun 2008 - 22:39:40 GMT

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