Hi, dear sir/madam in bioconductor: I initially downloaded and installed Bioconductor 1.6 into our linux machine for the purpose of affymetrix array analysis. I used the script provided on the web source("http://www.bioconductor.org/biocLite.R") biocLite() to finish download and installation in R session. Then I loaded packages "affy" and "gcrma" to start my data processing work. Everything looked fine until I tried to run function "gcrma" with my real data. The system gave me an error message said: no slot of name "Imports" for this object of class "localPkg". I tried many methods to figure out the problem, including all the tips and clues provided by bioconductor. Unfortunately, I didn't find the answer for my problem. So I decide to seek help from you. My co- worker ran the same data set in his PC with Bioconductor 1.6, it worked very well. I am not sure what caused the error, could you help me to find the best solution for the problem? I pasted all the information in R session under my linux system as following. The linux system we are using now is Red Hat 8.0, R version is 2.1.1. Bioconductor 1.6 was installed into my user directory rather than the system directory automatically by script. No any system upgrading during the installation process. Many thanks in advance! Qian Total information: R : Copyright 2005, The R Foundation for Statistical Computing Version 2.1.1 (2005-06-20), ISBN 3-900051-07-0 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. Natural language support but running in an English locale R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages 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. > library(affy); library(maanova); library(gcrma) Loading required package: Biobase Loading required package: tools Welcome to Bioconductor Vignettes contain introductory material. To view, simply type: openVignette() For details on reading vignettes, see the openVignette help page. Loading required package: reposTools Attaching package: 'maanova' The following object(s) are masked from package:datasets : volcano Loading required package: matchprobes > BeforeProcessedData <- ReadAffy(celfile.path="../Cell_Data/") > GCRmaData=gcrma(BeforeProcessedData) Computing affinities[1] "Checking to see if your internet connection works..." Note: Using download type: Source Error in FUN(X[[1]], ...) : no slot of name "Imports" for this object of class "localPkg" > Qian Li Data Analyst The Jackson Lab 600 Main Street Bar Harbor, ME 04609 Telephone: 288-6715 Email: qli at jax.org