I have generated a custom CDF file. When i try reading the cel files
using the custom CDF file, I get the following error:
Error in list(`AffymetrixCelSet$byName("GBM_TCGA", cdf = cdf)` =
<environment>, :
[2011-09-15 10:33:57] Exception: Failed to setup a data set for any of
1 data directories located. The following reasons were reported: (1)
Could not locate a file for this chip type: HuEx-1_0-st-v2 (while
trying 'rawData/Dataset1/HuEx-1_0-st-v2').
at throw(Exception(...))
at throw.default(msg)
at throw(msg)
at method(static, ...)
at AffymetrixCelSet$byName("Dataset1", cdf = cdf)
CODE:
library(aroma.affymetrix)
verbose <- Arguments$getVerbose(-8, timestamp=TRUE)
chipType <- "HuEx-1_0-st-v2"
cdf <- AffymetrixCdfFile$byChipType(chipType, tag="uniqueprobes")
cel <- AffymetrixCelSet$byName("Dataset1", cdf=cdf)
--
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