Hi, I installed R1.8.1, ran getBioC.R for bioC version 1.3. Then I downloaded the annotation packages 2 affy chips that I'm using (mgu74av2 and moe430a - build 1.8.0), and successfully installed them from the R menu (packages -> install packages from local zip files). When I tried to create an annotation table for my gene list I got the following error (for mgu74av2 and moe430a probe lists respectively): Error in exists(num, GOBPID2TERM) : Object "GOBPID2TERM" not found and Error in if (!is.na(go[1])) { : argument is of length zero In addition: Warning message: is.na() applied to non-(list or vector) in: is.na(go[1]) here is a full diary of what I did: ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > library(annaffy) > anncols <- aaf.handler()[c(1:3,12)] > > p <- scan('tempMGU74av2.txt', "") Read 183 items > anntable <- aafTableAnn(p, "mgu74av2", anncols) Loading required package: mgu74av2 Error in exists(num, GOBPID2TERM) : Object "GOBPID2TERM" not found > > > p <- scan('tempMOE430a.txt', "") Read 79 items > anntable <- aafTableAnn(p, "moe430a", anncols) Loading required package: moe430a Error in if (!is.na(go[1])) { : argument is of length zero In addition: Warning message: is.na() applied to non-(list or vector) in: is.na(go[1]) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ The error message is different for each chip type, but I suspect it's related to the same problem. Also, this worked perfectly fine for the mgu74av2 package (build 1.7.0) in R1.7.1, so I'm wondering whether this may be related to some incompatibility with R1.8.1, or is it simply an error on my part. In any case, any help with this problem would be greatly appreciated. Thanks Marlena