[R] [BioC] Rcurl 0.8-1 update for bioconductor 2.7
Day, Roger S
day01 at pitt.edu
Mon Dec 1 19:41:08 CET 2008
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)
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:
> > Hi,
> >> 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
> >> appreciated!
> > 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
> > R-help.
> > 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/
> > HTH,
> > -steve
> > _______________________________________________
> > Bioconductor mailing list
> > Bioconductor at stat.math.ethz.ch
> > https://stat.ethz.ch/mailman/listinfo/bioconductor
> > Search the archives:
> > http://news.gmane.org/gmane.science.biology.informatics.conductor
> Bioconductor mailing list
> Bioconductor at stat.math.ethz.ch
> Search the archives:
More information about the R-help