Hi Thanks for the help Pierre. I managed to resolve it. I am just using the AffymetrixCelSet$byName with the cdf information instead of the chipType. For some reason, that still refuses to work.
Nitesh On Monday, 18 June 2012 11:39:34 UTC-4, NT_CMU wrote: > > Hi > > I am new to aroma.affymetrix. I am not sure why the command > "AffymetrixCelSet$byName" is not working. > > cs <- AffymetrixCelSet$byName("test.CEL",chipType = > "../../annotationData/chipTypes/GenomeWideSNP_6") > Error in method(static, ...) : > [2012-06-18 11:34:57] Exception: Failed to create AffymetrixCdfFile > object. Could to locate an annotation data file for chip type > '../../annotationData/chipTypes/GenomeWideSNP_6' (without requiring any > tags) and with filename extension 'cdf'. > > at #04. method(static, ...) > - method() is in environment 'aroma.core' > > at #03. AffymetrixCdfFile$byChipType(chipType) > - AffymetrixCdfFile$byChipType() is local of the calling function > > at #02. method(static, ...) > - method() is in environment 'aroma.affymetrix' > > at #01. AffymetrixCelSet$byName("test.CEL", chipType = > "../../annotationData/chipTypes/GenomeWideSNP_6") > - AffymetrixCelSet$byName() is local of the calling function > > > I think my directory structure is wrong. But i could use some pointers on > how to get things moving because i've been trying to get this command > working for over 4 days now. > > Also, another issue is I am able to load CDF files with the basic > "AffymetrixCdfFile("GenomeWideSNP_6,Full.CDF") ". But if i use the command > AffymetrixCdfFile$byChipType("GenomeWideSNP_6",tags="Full"), it gives me an > error. Am I doing something really wrong? > > 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 aroma-affymetrix@googlegroups.com To unsubscribe and other options, go to http://www.aroma-project.org/forum/