Hi, you should also get the following annotation files:
annotationData/ chipTypes/ GenomeWideSNP_6/ GenomeWideSNP_6,Full,*.acs GenomeWideSNP_6,Full,*.ugp GenomeWideSNP_6,Full,*.ufl as explained in for instance http://aroma-project.org/vignettes/CRMAv2. You can get them from http://aroma-project.org/chipTypes/GenomeWideSNP_6/ /Henrik On Mon, Jun 18, 2012 at 1:58 PM, NT_CMU <[email protected]> wrote: > Hi > > I'm trying to run the command "doCRMAv2", and i get these errors. Let me > know what the problem is, if any of you have encountered this before. I > thought i did not have some library installed but, i have both ACNE and > aroma.affymetrix working properly. > >> ds <- doCRMAv2("LeeAV_2012",chipType="GenomeWideSNP_6,Full") > Error in getGenomeInformation.AffymetrixCdfFile(cdf) : > [2012-06-18 16:55:10] Exception: Failed to retrieve genome information for > this chip type: GenomeWideSNP_6 > > at #12. getGenomeInformation.AffymetrixCdfFile(cdf) > - getGenomeInformation.AffymetrixCdfFile() is in environment > 'aroma.affymetrix' > > at #11. getGenomeInformation(cdf) > - getGenomeInformation() is in environment 'aroma.affymetrix' > > at #10. getSubsetToAvg.AllelicCrosstalkCalibration(this) > - getSubsetToAvg.AllelicCrosstalkCalibration() is in environment > 'aroma.affymetrix' > > at #09. getSubsetToAvg(this) > - getSubsetToAvg() is in environment 'aroma.affymetrix' > > at #08. getParameters.AllelicCrosstalkCalibration(this) > - getParameters.AllelicCrosstalkCalibration() is in environment > 'aroma.affymetrix' > > at #07. getParameters(this) > - getParameters() is in environment 'R.rsp' > > at #06. process.AllelicCrosstalkCalibration(acc, verbose = verbose) > - process.AllelicCrosstalkCalibration() is in environment > > > Thanks > > Nitesh > > -- > 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 [email protected] > To unsubscribe and other options, go to http://www.aroma-project.org/forum/ -- 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 [email protected] To unsubscribe and other options, go to http://www.aroma-project.org/forum/
