Agreed, i had no idea that this is a Bioconductor package. G.
On Tue, Jan 22, 2008 at 09:49:50AM -0500, James W. MacDonald wrote: > This is questionable advice for many CRAN packages, and horrible advice > for a Bioconductor package. If there are any dependencies (and BioC > packages often have many, and their dependencies may have > dependencies...) you can end up in download hell, all because you have > ignored the functionality that exists in R to handle such things. > > As other posters have noted, you can use setRepositories(). You can also > set this in your .Rprofile file with something like > > options(repos=(CRAN="http://ACloseRepository")) > > so you don't have to do anything interactively. > > Then use install.packages(), with dependencies=TRUE if you think there > may be dependencies (although I don't think it hurts if there are none). > > For Bioconductor packages, use biocLite() > > source("http://www.bioconductor.org/biocLite.R") > biocLite("GEOquery") > > Best, > > Jim > > > Gabor Csardi wrote: > >Eleni, download the package (I assume you know where it is), > >on Linux you will need the source package. Then from R type > > > >install.packages("<the file you downloaded>", repos=NULL) > > > >Gabor > > > >On Tue, Jan 22, 2008 at 11:26:12AM +0200, Eleni Christodoulou wrote: > >>Hi all, > >> > >>I am trying to install the package "GEOquery" in unix. I have downloaded > >>the > >>standard version of R and this package is not contained in the default. I > >>know that I can select repositories under windows but I don't know how to > >>do > >>it in unix. Does anyone have any idea on this? > >> > >>Thank you in advance, > >>Eleni > >> > >> [[alternative HTML version deleted]] > >> > >>______________________________________________ > >>R-help@r-project.org mailing list > >>https://stat.ethz.ch/mailman/listinfo/r-help > >>PLEASE do read the posting guide > >>http://www.R-project.org/posting-guide.html > >>and provide commented, minimal, self-contained, reproducible code. > > > > -- > James W. MacDonald, M.S. > Biostatistician > Affymetrix and cDNA Microarray Core > University of Michigan Cancer Center > 1500 E. Medical Center Drive > 7410 CCGC > Ann Arbor MI 48109 > 734-647-5623 -- Csardi Gabor <[EMAIL PROTECTED]> UNIL DGM ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.