[BioC] Limma: setting up printer information for agilent files

[Daniel Brewer]

I am having trouble setting up the printer information for an agilent
data set.  These are the commands I am following:
> targets <- readTargets()
> stuff <- read.maimages(targets$FileName,source="agilent")
> #Setup layout
> stuff$genes$Block <- 1
> names(stuff$genes)[2] <- "Column"
> stuff$printer <- getLayout(stuff$genes)
> imageplot(log2(stuff$Rb[,1]), stuff$printer, low="white", high="red")
> Error in imageplot(log2(stuff$Rb[, 1]), stuff$printer, low = "white",  : 
>         Number of image spots does not agree with layout dimensions

I added Block information (there is only one block on agilent arrays)
and changed a column name from "Col" to "Column".  The block is 119x156.

Any idea what I am doing wrong?

The printer object gives this:
> stuff$printer
> $ngrid.r
> [1] 1
> 
> $ngrid.c
> [1] 1
> 
> $nspot.r
> [1] 119
> 
> $nspot.c
> [1] 156
> 
> attr(,"class")
> [1] "PrintLayout"

Thanks
-- 
**************************************************************

Daniel Brewer, Ph.D.

Email: daniel.brewer at icr.ac.uk