Hi Sally -- "Sally" <sagoldes at="" shaw.ca=""> writes: > Hi, > > I am using the current version of LIMMA (January 25, 2009) and am > having the following error message from this script below: > > Error Message: Error in new("AnnotatedDataFrame", data = > phenotypicdata) : trying to generate an object from a virtual class > ("AnnotatedDataFrame") > > Problematic Script (Note this script was originally run successfully > under the version of LIMMA current during the winter/spring of 2008, > but is not working now): > >> setClass("AnnotatedDataFrame") > [1] "AnnotatedDataFrame" You are defining a new class, and it is hiding the definition of the AnnotatedDataFrame class defined in Biobase; this is not related to limma, and would not have run under a version of R current in winter / spring 2008. Probably what you are intending is > library(Biobase) > adf<-new("AnnotatedDataFrame",data=phenotypicdata) Martin >> adf<-new("AnnotatedDataFrame",data=phenotypicdata) > > Here is my phenotypicdata: > > species time c0M1 c 0 c0M2 c 0 c0M3 c 0 c0M4 c 0 s0M1 s 0 s0M2 s > 0 s0M3 s 0 c24M1 c 24 c24M2 c 24 c24M3 c 24 s24M1 s 24 s24M2 s 24 > s24M3 s 24 s24M4 s 24 c48M1 c 48 c48M2 c 48 c48M3 c 48 s48M1 s 48 > s48M2 s 48 s48M3 s 48 s48M4 s 48 c96M1 c 96 c96M2 c 96 c96M3 c 96 > s96M1 s 96 s96M2 s 96 s96M3 s 96 s96M4 s 96 > > Thank-you > > Sally Goldes > > > > > > [[alternative HTML version deleted]] > > _______________________________________________ Bioconductor mailing > list Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor Search the > archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor -- Martin Morgan Computational Biology / Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: Arnold Building M2 B169 Phone: (206) 667-2793