Hi, 
I have been using Calmate to process my affy SNP6 array data. The goal is 
to call calibrated allele specific copy number. However, I ran into an 
error following the vignette http://aroma-project.org/vignettes/CalMaTe. 
The code is as following

library(aroma.affymetrix)
library(calmate)
verbose <- Arguments$getVerbose(-8, timestamp=TRUE)
dataSet <- 'mydata'
chipType <- "GenomeWideSNP_6"
cdf <- AffymetrixCdfFile$byChipType(chipType, tags="Full")
csR <- AffymetrixCelSet$byName(dataSet, cdf=cdf)
#print(csR)
dsList <- doASCRMAv2(csR, plm="RmaCnPlm", verbose=verbose)
#print(dsList)

Error message is 

...
20130104 14:42:50|       Fitting...done
20130104 14:42:50|      Allele probe-pair group #7 ('missing') of 7...done
20130104 14:42:50|     Fitting calibration model...done
*Error in UseMethod("sapply") :
  no applicable method for 'sapply' applied to an object of class "list"*
20130104 14:42:50|    Array #1 ('0064.01') of 2...done
20130104 14:42:50|   Calibrating 2 arrays...done
20130104 14:42:50|  Calibrating data set for allelic cross talk...done

Appears it is almost done until this small glitch.
Any comments?

Thank you. 

-- 
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.


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