[R] Installation of RCurl Windows binary package from BioC extra repos (was Re: [BioC] Rcurl 0.8-1 update for bioconductor 2.7)
paboyoun at fhcrc.org
Mon Dec 1 20:10:01 CET 2008
Good to hear from you again. Given that RCurl is hosted in both the CRAN
mirrors and in the Bioconductor extra repository, it can be a little
confusing how to install it on your system. The recommended path is to
follow the steps on the Bioconductor extra home page for RCurl
To install this package, start R and enter:
Day, Roger S wrote:
> Hi Patrick,
> Greetings from !(sunny) Pittsburgh.
> What's the scoop on RCurl on windows (XP)?
> I've tried to install RCurl_0.92-0.zip and RCurl_0.9-3.zip,
> with both R 2.7.2 and R 2.8.0 from the RGUI (utils:::menuInstallLocal),
> and get the error
> "Windows binary packages in zipfiles are not supported".
> which (according to google's one and only hit) comes from a perl script.
> Your suggestion (below) to use biocLite hangs the R session, at this point:
> Running biocinstall version 2.3.9 with R version 2.8.0
> Your version of R requires version 2.3 of Bioconductor.
> trying URL 'http://bioconductor.org/packages/2.3/extra/src/contrib/RCurl_0.92-0.tar.gz'
> Content type 'application/x-gzip' length 239873 bytes (234 Kb)
> opened URL
> downloaded 234 Kb
> (In this case, R 2.7.2.)
> We also tried to build RCurl from the tarballs,
> in DOS window and in Cygwin window,
> with a variety of problems.
> Is there a current solution to installing RCurl on windows?
> (I'm moving this topic to r-help from bioconductor
> on suggestions seen on that list.)
> Thanks for your help.
>> -----Original Message-----
>> From: bioconductor-bounces at stat.math.ethz.ch
>> [mailto:bioconductor-bounces at stat.math.ethz.ch] On Behalf Of
>> Patrick Aboyoun
>> Sent: Thursday, May 29, 2008 8:49 PM
>> To: Steve Lianoglou
>> Cc: Yan Zhou; bioconductor at stat.math.ethz.ch
>> Subject: Re: [BioC] Rcurl 0.8-1 update for bioconductor 2.7
>> Steve and Yan,
>> We just uploaded source, Windows binary, and MacOS X Tiger
>> binary packages for RCurl 0.9-3 to the Bioconductor CRAN-like
>> repository http://bioconductor.org/packages/2.2/extra. This
>> repository is make available when you use R 2.7.0 and type
>> Let me know if this meets your needs.
>> Steve Lianoglou wrote:
>>>> I'm seeking help here regarding updating the Rcurl for macOSX to a
>>>> newer version so it'll accomodate to bioconductor 2.7. The current
>>>> version of Rcurl 0.8-1 (in bioconductor 2.7 for macOSX) is
>> built for
>>>> bioconductor 2.6; Is there anyone who could help to put the
>>>> bioconductor 2.7 compatible version of Rcurl into the
>> database? So we
>>>> could use packages depending on Rcurl? Any kind help is greatly
>>> When this was brought up earlier, I think the consensus was
>> that since
>>> this isn't a bioconductor hosted package, you'd better
>> inquire over at
>>> That said, someone also suggested earlier to install it
>> straight from
>>> the source via this incantation:
>>>> install.packages("RCurl", repos = "http://www.omegahat.org/R")
>>> I don't think that worked for me, and I ended up d/ling the source
>>> package and installing it manually, by first d/ling it and
>>> uncompressing it. You'll get an RCurl folder. At the
>> command line, you
>>> can then:
>>> $ R CMD BUILD RCurl
>>> $ R CMD CHECK RCurl_0.9-3.tar.gz
>>> $ R CMD INSTALL RCurl_0.9-3.tar.gz
>>> I'm not sure if this is the best way, but I seem to have a fully
>>> functioning RCurl again since the biomaRt package relies on
>> that, and
>>> that works now.
>>> Btw - you can get RCurl here: http://www.omegahat.org/RCurl/
>>> Bioconductor mailing list
>>> Bioconductor at stat.math.ethz.ch
>>> Search the archives:
>> Bioconductor mailing list
>> Bioconductor at stat.math.ethz.ch
>> Search the archives:
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