[BioC] Download problem

[Robert Gentleman]

Dear Fabio,
   Almost surely there is some local problem (to you). You will need to 
speak with someone there to find out what that problem might be. Not 
being able to open a URL from inside of R, suggests that you examine the 
relevant documentation on setting up other means of downloading (perhaps 
your site requires the use of a proxy server?), such as wget, etc. 
which you would need to configure.

  best wishes
    Robert

Fabio Passetti wrote:
> Dear bioconductor developers and mainteiners,
> 
> I have been trying to download since last week some packages either from 
> the web site or inside R. First, I tried to install inside R, as follows:
> 
>  > source("http://bioconductor.org/biocLite.R")
>  > biocLite("annaffy")
> Running biocinstall version 2.1.8 with R version 2.6.0
> Your version of R requires version 2.1 of Bioconductor.
> Warning in install.packages(pkgs = pkgs, repos = repos, dependencies =
> dependencies,  :
>   argument 'lib' is missing: using
>   '/storage/carma/R/x86_64-unknown-linux-gnu-library/2.6'
> also installing the dependency AnnotationDbi
> 
> trying URL
> 'http://bioconductor.org/packages/2.1/bioc/src/contrib/AnnotationDbi_1.0.6.tar.gz'
> Error in download.file(url, destfile, method, mode = "wb") :
>   cannot open URL
>   
> 'http://bioconductor.org/packages/2.1/bioc/src/contrib/AnnotationDbi_1.0.6.tar.gz'
> In addition: Warning message:
> In download.file(url, destfile, method, mode = "wb") :
>   cannot open: HTTP status was '403 Forbidden'
> Warning in download.packages(p0, destdir = tmpd, available = available,  :
>   download of package 'AnnotationDbi' failed
> trying URL
> 'http://bioconductor.org/packages/2.1/bioc/src/contrib/annaffy_1.10.0.tar.gz'
> Error in download.file(url, destfile, method, mode = "wb") :
>   cannot open URL
>   
> 'http://bioconductor.org/packages/2.1/bioc/src/contrib/annaffy_1.10.0.tar.gz'
> In addition: Warning message:
> In download.file(url, destfile, method, mode = "wb") :
>   cannot open: HTTP status was '403 Forbidden'
> Warning in download.packages(p0, destdir = tmpd, available = available,  :
>   download of package 'annaffy' failed
> 
> Then I have tried to download manually these packages from the 
> bioconductor web site, but they came corrupted.
> 
> Any help is appreciated.
> 
> Regards,
> 
> Fabio
> 
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-- 
Robert Gentleman, PhD
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M2-B876
PO Box 19024
Seattle, Washington 98109-1024
206-667-7700
rgentlem at fhcrc.org