[BioC] Installing Packages from Bioconductor: Error

[James W. MacDonald]

Eric.Grund at serono.com wrote:
> Hi Everyone.
> 
> I am a R and Bioconductor novice.  On the R GUI when under packages I 
> click "install packages from bioconductor" I get this message:
> 
> 
> 
>>local({a<- CRAN.packages(CRAN=getOption("BIOC"))
> 
> + install.packages(select.list(a[,1],,TRUE), .libPaths()[1], available=a, 
> CRAN=getOption("BIOC"), dependencies=TRUE)})
> trying URL `http://www.bioconductor.org/bin/windows/contrib/2.0/PACKAGES'
> Error in download.file(url = paste(contriburl, "PACKAGES", sep = "/"),  : 
>         cannot open URL 
> `http://www.bioconductor.org/bin/windows/contrib/2.0/PACKAGES'
> In addition: Warning message: 
> unable to connect to 'www.bioconductor.org' on port 80. 
> 
> 
> Any suggestions are appreciated?  Thanks.  Eric.

Most questions like this can be answered quite easily by looking at 
either the Bioconductor website or by looking at the R FAQ. For 
instance, on the main BioC page, there is a link "Instructions on 
installing Bioconductor 1.5". If you follow that link, you will see the 
instructions as well as some further notes about people having troubles 
downloading the packages, along with a link to the R FAQ that covers 
this problem:

http://cran.r-project.org/bin/windows/rw-FAQ.html#The-internet-download-functions-fail_002e

One of the best things you can do as a novice is to check the FAQ and/or 
mailing lists first when you have problems. R has a steep learning 
curve, and the more you read, the less steep it will be.

Best,

Jim


> 
> Post-doc
> Serono
> Massachusetts
> 
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-- 
James W. MacDonald
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109