Hi everyone, is multtest supposed to depend on reposTools? The website does not cite any dependencies, and it loads genefilter, tools, survival, splines and reposTools. I don't mind about the first ones (although it should be noted), but I find loading up reposTools a bit annoying. It generates error messages (since I'm not running as root), and has me wondering why it would want to change my installation. I'm running R 2.0.0 and multtest 1.5.2. Francois

Hi Francois, Francois Pepin <fpepin@cs.mcgill.ca> writes: > is multtest supposed to depend on reposTools? I think there is code in multtest to automagically load data packages. The author has asked me about ways of accomplishing this without using reposTools and I have just recently sent on a solution. So I expect the dependency on reposTools to go away in the next release. > The website does not cite any dependencies, and it loads genefilter, > tools, survival, splines and reposTools. > > I don't mind about the first ones (although it should be noted), but I > find loading up reposTools a bit annoying. It generates error messages > (since I'm not running as root), and has me wondering why it would want > to change my installation. This is a separate issue and one which we will look into. reposTools should not generate any error messages upon loading. It would be helpful if you can provide us with some detail on the error message you are seeing and what the permissions are on the relevant package library directories. Thanks for the report. Best, + seth

> It would be helpful if you can provide us with some detail on the > error message you are seeing and what the permissions are on the > relevant package library directories. This is what I'm getting: Warning messages: 1: Incorrect permissions to edit package database, /usr/local/lib/R/library/liblisting.Rda in: save.locLib(locLibList, curLib) 2: Incorrect permissions to edit package database, /usr/local/lib/R/library/liblisting.Rda in: save.locLib(locLibList, curLib) The permissions: [francois@ybrig library]$ls -l liblisting.Rda -rw-r--r-- 1 root root 38678 Mar 25 12:14 liblisting.Rda Those are the permissions I have for all the files I checked in that directory. This is Bioconductor 1.5 with R 2.0.0 on Fedora Core 2. Francois