[BioC] MacOS Package installation problems

Wed May 30 18:33:50 CEST 2012

On Wed, May 30, 2012 at 12:19 PM, Dan Tenenbaum <dtenenba at fhcrc.org> wrote:
> On Wed, May 30, 2012 at 9:14 AM, Michael Salbaum
> <Michael.Salbaum at pbrc.edu> wrote:
>> Hi everyone,
>>
>> Newbie question:
>>
>> I'm having trouble with package installation on a Mac (OS 10.6.8)
>>
>>>  source("http://bioconductor.org/biocLite.R")
>>>     biocLite("DESeq")
>> BioC_mirror: http://bioconductor.org
>> Using R version 2.15, BiocInstaller version 1.4.4.
>> Warning: unable to access index for repository http://brainarray.mbni.med.umich.edu/bioc/bin/macosx/leopard/contrib/2.15
>> Installing package(s) 'DESeq'
>> Warning: unable to access index for repository http://cran.sixsigmaonline.org/bin/macosx/leopard/contrib/2.15
>> Error: Line starting '<!DOCTYPE html PUBLI ...' is malformed!
>>
>> Dialing into http://cran.sixsigmaonline.org/bin/ only lists a linux directory, but no macosx
>>
>> Advice  is greatly appreciated - thanks!
>
> I would suggest using bioconductor.org as your repository.
> Try:
> chooseBioCmirror()
> And choose the "Seattle" option.

Dan, did you mean CRAN mirror?

chooseCRANmirror()

It looks like the CRAN mirror was the issue.

Sean

> Dan
>
>
>>
>> J. Michael Salbaum, Ph.D.
>> Associate Professor
>> Pennington Biomedical Research Center
>> Louisiana State University System
>> 6400 Perkins Road
>> Baton Rouge, LA 70808
>>
>> (225) 763-2782
>>
>>
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>>
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