I tried to apply makePDpackage (from the MakePlatformDesgin package) on the files of the Affymetrix 10k (Version 2.0) array. I got the following error message: Reading Mapping10K_Xba142.cdf Magic number is not 67. This is probably not a binary cdf file. Error in CDFintoRList(cdf) : Problem reading binary cdf file /home/tim/mydata/programming/copynumber/cdf- files/10k/Mapping10K_Xba142.cdf. Possibly corrupted or truncated? Indead Mapping10K_Xba142.cdf is not in binary format. Is there any solution? Thank you Tim -------------------------------------------------------------- Tim M. Strom Tel: +49 89 3187 3296 Institut fuer Humangenetik Fax: +49 89 3187 3297 Ingolstaedter Landstr. 1 85764 Neuherberg Germany WWW: http://ihg.gsf.de

Hi Tim, Tim Strom wrote: > I tried to apply makePDpackage (from the MakePlatformDesgin > package) on the files of the Affymetrix 10k (Version 2.0) array. > > I got the following error message: > Reading Mapping10K_Xba142.cdf > Magic number is not 67. This is probably not a binary cdf file. > Error in CDFintoRList(cdf) : Problem reading binary cdf file > /home/tim/mydata/programming/copynumber/cdf- files/10k/Mapping10K_Xba142.cdf. > Possibly corrupted or truncated? > > Indead Mapping10K_Xba142.cdf is not in binary format. > Is there any solution? Yup. Add a textCDF = TRUE to your call to makePDpackage() HTH, Jim > > > Thank you > Tim > > > -------------------------------------------------------------- > > Tim M. Strom Tel: +49 89 3187 3296 > Institut fuer Humangenetik Fax: +49 89 3187 3297 > Ingolstaedter Landstr. 1 > 85764 Neuherberg > Germany > > WWW: http://ihg.gsf.de > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor -- James W. MacDonald, M.S. Biostatistician Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623

Hi Tim, sorry, this is not the perfect solution yet, but you can use the textCDF flag in makePDpackage. makePDpackage(..., textCDF=TRUE) please, feel free to contact me directly if you need anything else. b. On Mon, 27 Feb 2006, Tim Strom wrote: > I tried to apply makePDpackage (from the MakePlatformDesgin > package) on the files of the Affymetrix 10k (Version 2.0) array. > > I got the following error message: > Reading Mapping10K_Xba142.cdf > Magic number is not 67. This is probably not a binary cdf file. > Error in CDFintoRList(cdf) : Problem reading binary cdf file > /home/tim/mydata/programming/copynumber/cdf- files/10k/Mapping10K_Xba142.cdf. > Possibly corrupted or truncated? > > Indead Mapping10K_Xba142.cdf is not in binary format. > Is there any solution? > > > Thank you > Tim > > > -------------------------------------------------------------- > > Tim M. Strom Tel: +49 89 3187 3296 > Institut fuer Humangenetik Fax: +49 89 3187 3297 > Ingolstaedter Landstr. 1 > 85764 Neuherberg > Germany > > WWW: http://ihg.gsf.de > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor >