Dear Robert (and Tiago), The problem here is that CRAN itself has a version of XML which was built for R 1.6.1. It not Tiago's fault! Gordon At 12:02 PM 4/03/2003, Robert Gentleman wrote: >On Mon, Mar 03, 2003 at 04:44:56PM -0800, Tiago R Magalhaes wrote: > > I am sorry to bother you with such an irrelevant question and I understand > > if you can't reply to it > > > > I am biologist working on microarrays (Affy) and I am trying to run R (I > > have some experience on S plus) > > I tryed to install the Bioconductor Package and I cannot > > it tells me that I have to install an XML file: > > Package annotate version 1.0.5 requires package XML version >= 0.92-2, > > would you like to try to install this package? [yes/no] yes > > > > when I click yes it runs, dowloads something and then: > > Warning message: > > Running R version 1.6.2 and package XML was built for R version 1.6.1, > > skipping. > > Please look at the option versForce if you would like to continue. in: > > installPkg(fileName, pkg, pkgVer, type, lib, repEntry, versForce) > > Hmm, > I am not sure where you are getting an old XML from?, > but what you can do is, > start R > use the menu named Packages > from that select the item > Install Package from CRAN > from the dialog select > XML > > and that should handle XML; then try to install Bioconductor again > with that in > > Robert > > > > > > and I am stuck > > > > any ideas on how to solve this problem? > > > > thanks very much > > > > > > tiago magalhaes > > > > > > (follows the all dialogue with the computer) > > > > [1] "Getting/installing packages reposTools and Biobase" > > Package annotate version 1.0.5 requires package XML version >= 0.92-2, > > would you like to try to install this package? [yes/no] yes > > Note: No specified download type, defaulting to Win32 > > [1] "Attempting to download XML from > > http://www.bioconductor.org//CRANrepository" > > [1] "Download complete." > > [1] "Installing XML" > > From URL: http://www.bioconductor.org//CRANrepository > > XML version 0.93-1 > > > > Packages that were not updated: > > annotate > > genefilter > > geneplotter > > edd > > ROC > > multtest > > Biobase > > tkWidgets > > > > Warning message: > > Running R version 1.6.2 and package XML was built for R version 1.6.1, > > skipping. > > Please look at the option versForce if you would like to continue. in: > > installPkg(fileName, pkg, pkgVer, type, lib, repEntry, versForce) > > > > _______________________________________________ > > Bioconductor mailing list > > Bioconductor@stat.math.ethz.ch > > http://www.stat.math.ethz.ch/mailman/listinfo/bioconductor ---------------------------------------------------------------------- ----------------- Dr Gordon K Smyth, Senior Research Scientist, Bioinformatics, Walter and Eliza Hall Institute of Medical Research, 1G Royal Parade, Parkville, Vic 3050, Australia Tel: (03) 9345 2326, Fax (03) 9347 0852, Email: smyth@wehi.edu.au, www: http://www.statsci.org