[BioC] R hanging up on install of BioConductor

[Steve Lianoglou]

Also, if you are running R using the R.app GUI, I believe it just
looks like it's doing nothing when all the install process is going
on.

It's actually been a long time since I used the GUI (I just run
through terminal, or emacs), so I'm not sure if this is your problem,
but I remember it doing that back when I was first using "it" (the
GUI) and getting into R.

-steve

On Tue, Oct 5, 2010 at 2:36 PM, Hollis Wright <wrighth at ohsu.edu> wrote:
> For what it's worth, the Fred Hutch mirror does seem to be agonizingly slow for me at the moment. I switched to the Bethesda mirror with chooseBioCMirror and setRepositories and it is installing at
> normal speed. Could be worth a try.
>
> Hollis Wright, PhD
> Oregon Clinical and Translational Research Institute
> ________________________________________
> From: bioconductor-bounces at stat.math.ethz.ch [bioconductor-bounces at stat.math.ethz.ch] On Behalf Of Vincent Carey [stvjc at channing.harvard.edu]
> Sent: Tuesday, October 05, 2010 11:01 AM
> To: ANJAN PURKAYASTHA
> Cc: bioconductor at stat.math.ethz.ch
> Subject: Re: [BioC] R hanging up on install of BioConductor
>
> There is no evidence of a problem at the bioc server end, so you need
> to consider your
> network connectivity.  Try to work within R, using install.packages,
> to acquire something small
> like
>
> install.packages("ash")
>
> R "hanging" might indicate that you don't have sufficient connectivity
> to complete the transaction;
> it is not a bioconductor issue.  Various issues regarding the roles of
> proxies are reviewed in the
> documentation retrieved with ?download.file in R
>
> On Tue, Oct 5, 2010 at 12:14 PM, ANJAN PURKAYASTHA
> <anjan.purkayastha at gmail.com> wrote:
>> Hi,
>> Am working on  Mac OS X 10.5.8. Just installed R 2.11.1.
>> Tried to install the base packages of Bioconductor with :
>>
>> source("http://bioconductor.org/biocLite.R")
>> biocLite()
>>
>>
>> R hangs while downloading the various modules.   Have tried it multiple
>> times (after multiple reinstalls of R) - no success.  Anybody else having
>> this problem?
>> Thanks,
>> Anjan
>>
>>
>>
>>
>> --
>> ===================================
>> anjan purkayastha, phd.
>> research associate
>> fas center for systems biology,
>> harvard university
>> 52 oxford street
>> cambridge ma 02138
>> phone-703.740.6939
>> ===================================
>>
>>        [[alternative HTML version deleted]]
>>
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>
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-- 
Steve Lianoglou
Graduate Student: Computational Systems Biology
 | Memorial Sloan-Kettering Cancer Center
 | Weill Medical College of Cornell University
Contact Info: http://cbio.mskcc.org/~lianos/contact