I tried to run gcrma on 15 chips on Windows XP with R1.9.0-development and Bioconductor development, and get the 50 warnings, the following is the output: eset<-gcrma(data) Loading required package: rgu34aprobe Loading required package: matchprobes background correction: gcrma normalization: quantiles PM/MM correction : pmonly expression values: medianpolish background correcting...done. normalizing...done. 8799 ids to be processed ......... There were 50 or more warnings (use warnings() to see the first 50) > warnings() Warning messages: 1: multi-argument returns are deprecated in: return(y = yhat, wt) 2: multi-argument returns are deprecated in: return(y = yhat, wt) 3: multi-argument returns are deprecated in: return(y = yhat, wt) 4: multi-argument returns are deprecated in: return(y = yhat, wt) 5: multi-argument returns are deprecated in: return(y = yhat, wt) 6: multi-argument returns are deprecated in: return(y = yhat, wt) 7: multi-argument returns are deprecated in: return(y = yhat, wt) 8: multi-argument returns are deprecated in: return(y = yhat, wt) 9: multi-argument returns are deprecated in: return(y = yhat, wt) 10: multi-argument returns are deprecated in: return(y = yhat, wt) ... I got the same warnings when used R1.8.1 with 1.3 Bioconductor. I would appreciate any information. Caimiao [[alternative HTML version deleted]]

tell us the version of gcrma. On Tue, 10 Feb 2004, Caimiao Wei wrote: > I tried to run gcrma on 15 chips on Windows XP with R1.9.0-development and > Bioconductor development, and get the 50 warnings, the following is the > output: > > eset<-gcrma(data) > Loading required package: rgu34aprobe > Loading required package: matchprobes > background correction: gcrma > normalization: quantiles > PM/MM correction : pmonly > expression values: medianpolish > background correcting...done. > normalizing...done. > 8799 ids to be processed > ......... > There were 50 or more warnings (use warnings() to see the first 50) > > warnings() > Warning messages: > 1: multi-argument returns are deprecated in: return(y = yhat, wt) > 2: multi-argument returns are deprecated in: return(y = yhat, wt) > 3: multi-argument returns are deprecated in: return(y = yhat, wt) > 4: multi-argument returns are deprecated in: return(y = yhat, wt) > 5: multi-argument returns are deprecated in: return(y = yhat, wt) > 6: multi-argument returns are deprecated in: return(y = yhat, wt) > 7: multi-argument returns are deprecated in: return(y = yhat, wt) > 8: multi-argument returns are deprecated in: return(y = yhat, wt) > 9: multi-argument returns are deprecated in: return(y = yhat, wt) > 10: multi-argument returns are deprecated in: return(y = yhat, wt) > ... > > > > I got the same warnings when used R1.8.1 with 1.3 Bioconductor. > > > > > > I would appreciate any information. > > > > Caimiao > > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor >