Hi, I downloaded 1.9beta and reinstalled all of BioC devel via >source("http://www.bioconductor.org/getBioC.R") >getBioC(relLevel="devel") and when I came to load library(affy) it told me it could not find a file. After investigating I found the aff>data folder still contained an RData.zip file. I extracted this and affy loaded fine. But looking through the libraries almost all the data folders contain these zip files (affy, annotate, base, Biobase etc... I had this problem with a probe metadata package and it was corrected and worked fine. Is it possible to change the packages available for download so I don't have to go through all the libraries extracting files which would a long time. I assume I'm not the only one with this problem, or is it something to do with the zip file extraction on my computer? Thanks Matt

On Wed, 24 Mar 2004, Matthew Hannah wrote: > >source("http://www.bioconductor.org/getBioC.R") > >getBioC(relLevel="devel") When did you do this - just now? there was a problem a couple of days ago, but I just checked the affy which is available on the site right now and they don't seem to have this problem. > I assume I'm not the only one with this problem, or is it something to do > with the zip file extraction on my computer? The root of the problem lies in the code from the specific packages (or how R handles data with 'Rcmd install --build', depending on your viewpoint). For the last several months, we've been hand patching the R that is used to build the Win32 packages - but sometimes this is not done when R is updated there, so our goal is to root out the situations where this happens in packages over the very near future and solve them at the package level.

I did it a few days ago, but I've just done it again. This time I'm not sure I got any BioC packages using >source("http://www.bioconductor.org/getBioC.R") >getBioC(relLevel="devel") it kept giving warnings such as Note: Package marrayClasses not found in any known repository. Also looking at my r library files it looks like most of them also have the rData.zip files in them. Is this normal? Was there a problem with the 1.9beta win32 installer aswell? Thanks Matt