Hello Henrik, I am trying to use the the aroma.affymetrix package to check the quality of some mouse GeneST arrays. I got stuck with the cdf file. I downloaded the unsupported cdf file from Affymetrix, placed it in annotationData/chipTypes/MoGene-1_0-st-v1 folder and the run the following commands: library(affxparser) convertCdf(filename = "C:/Program Files/R/R-2.9.0/library/ aroma.affymetrix/annotationData/chipTypes/MoGene-1_0-st-v1/MoGene-1_0- st-v1.r3.cdf", outFilename = "C:/Program Files/R/R-2.9.0/library/aroma.affymetrix/ annotationData/chipTypes/MoGene-1_0-st-v1/MoGene-1_0-st-v1,r3.cdf")
library(aroma.affymetrix) verbose <- Arguments$getVerbose(-8, timestamp=TRUE) chipType <- "MoGene-1_0-st-v1" cdf <- AffymetrixCdfFile$byChipType(chipType, tags="r3") The problem is I am getting the following error message: Error in list(`AffymetrixCdfFile$byChipType(chipType, tags = "r3")` = <environment>, : [2010-07-12 12:42:56] Exception: Could not locate a file for this chip type: MoGene-1_0-st-v1,r3 at throw(Exception(...)) at throw.default("Could not locate a file for this chip type: ", paste(c(chipType, tags), collapse = ",")) at throw("Could not locate a file for this chip type: ", paste(c(chipType, tags), collapse = ",")) at method(static, ...) at AffymetrixCdfFile$byChipType(chipType, tags = "r3") I think the function is looking for the file someplace else, but I don't know where. Would you be able to help me out on this. Thank you. Zsuzsa -- When reporting problems on aroma.affymetrix, make sure 1) to run the latest version of the package, 2) to report the output of sessionInfo() and traceback(), and 3) to post a complete code example. You received this message because you are subscribed to the Google Groups "aroma.affymetrix" group with website http://www.aroma-project.org/. To post to this group, send email to aroma-affymetrix@googlegroups.com To unsubscribe and other options, go to http://www.aroma-project.org/forum/