Hello, I am trying to run the mas5 and rma methods of affy package on some data of affymetrix. It is supposed to be scanned from a new scanner. However I am getting this error where it complains about unknown cdf or cdf not existing in the repository . I am running on an older version of R ( R1.7) and bioconductor version of 1.2. Please could anybody guide me in getting around this problem. Thanks, Tapan Mehta

Yes...and what cdf, or chip type is that?? ..and mail the error message too. -----Original Message----- From: Tapan Mehta To: bioconductor@stat.math.ethz.ch Sent: 26/11/03 20:25 Subject: [BioC] Unknown cdf error while processing affy files Hello, I am trying to run the mas5 and rma methods of affy package on some data of affymetrix. It is supposed to be scanned from a new scanner. However I am getting this error where it complains about unknown cdf or cdf not existing in the repository . I am running on an older version of R ( R1.7) and bioconductor version of 1.2. Please could anybody guide me in getting around this problem. Thanks, Tapan Mehta _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor ********************************************************************** This email and any files transmitted with it are confidentia...{{dropped}}

If you are using the new scanner, this means that your .cel files are likely the new binary format. You need to update to the developmental version of affy. As I recall, you will also have to update to R-1.8.0 or later. Best, Jim James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623 >>> Tapan Mehta <tapmehta@yahoo.com> 11/26/03 3:25 PM >>> Hello, I am trying to run the mas5 and rma methods of affy package on some data of affymetrix. It is supposed to be scanned from a new scanner. However I am getting this error where it complains about unknown cdf or cdf not existing in the repository . I am running on an older version of R ( R1.7) and bioconductor version of 1.2. Please could anybody guide me in getting around this problem. Thanks, Tapan Mehta _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor