I got the following error using qc reports in hgu95av2 chips affyQAReport(abatch, output = "pdf") Error in get(as.character(FUN), mode = "function", envir = envir) : variable "scp3" of mode "function" was not found I am working with affyQCReport_1.16.0 simpleaffy_2.14.05 R.Version() $platform [1] "i386-apple-darwin8.10.1" $arch [1] "i386" $os [1] "darwin8.10.1" $system [1] "i386, darwin8.10.1" $status [1] "" $major [1] "2" $minor [1] "6.0" $year [1] "2007" $month [1] "10" $day [1] "03" $`svn rev` [1] "43063" $language [1] "R" $version.string [1] "R version 2.6.0 (2007-10-03)"