Hello, I am having troubles installing the package "affy". I first start 'R' and from there I type in the commands source() and getBioC() with the appropriate arguments as shown below. I got the following output: % % R : Copyright 2003, The R Foundation for Statistical Computing % Version 1.8.1 (2003-11-21), ISBN 3-900051-00-3 % % R is free software and comes with ABSOLUTELY NO WARRANTY. % You are welcome to redistribute it under certain conditions. % Type 'license()' or 'licence()' for distribution details. % % R is a collaborative project with many contributors. % Type 'contributors()' for more information and % 'citation()' on how to cite R in publications. % % Type 'demo()' for some demos, 'help()' for on-line help, or % 'help.start()' for a HTML browser interface to help. % Type 'q()' to quit R. % % > source("http://www.bioconductor.org/getBioC.R") % > getBioC("affy") % Running getBioC version 1.2.52.... % If you encounter problems, first make sure that % you are running the latest version of getBioC() % which can be found at: www.bioconductor.org/getBioC.R % % Please direct any concerns or questions to bioconductor@stat.math.ethz.ch. % % Warning message: % cannot open: HTTP status was `0 (null)' % Error in getReposTools(relLevel, PLATFORM, destdir, method = method, bioCoption = bioCoption) : % Could not get the required package reposTools % What is going wrong? Thanks for the help, with best regards, Enrico Carlon -- __________________________________________________ Enrico Carlon - IRI Lille (France) e-mail: enrico.carlon@iemn.univ-lille1.fr http://www.lifl.fr/~iri-bn/pages/index.html

> % Warning message: > % cannot open: HTTP status was `0 (null)' > % Error in getReposTools(relLevel, PLATFORM, destdir, method = method, bioCoption = bioCoption) : > % Could not get the required package reposTools > What is going wrong? My initial thought was that there was some sort of problem with your R's internet configuration, that's typically what this tends to be caused by. However, the getBioC script actually checks before it starts downloading things that it can connect to bioconductor.org so this doesn't seem to be the case, but I can't think of what else it might be. Basically that error you got is generated because the URL it was using to get to the package was invalid. Can you try reviewing this question in the R FAQ: http://cran.r-project.org/bin/windows/rw- FAQ.html#The%20internet%20download%20functions%20fail. And see if that helps? It is also possible that this is a transient problem w/ internet connectivity, does this problem still happen? Thanks -J