[BioC] read.marrayRaw()

[Jean Yee Hwa Yang]

Hi Julia,

This is a recently discovered bug, one of the function calculate the
number of rows wronly when the layout parameter is there.  The current fix
is to do exactly what you have propose.  I will fix it ASAP.

Cheers

Jean

> I am using the marray package to read in two-color cDNA array data (R 
> 1.9.1, marray 1.5.14, linux).
> When I try:
>  >theLayout = new("marrayLayout", maNgr=8, maNgc=4, maNsr=24, maNsc=24)
>  >a= read.marrayRaw(files, name.Gf="CH1I", name.Gb= "CH1B", 
> name.Rf="CH2I", name.Rb="CH2B", layout=theLayout)
> a is a marrayRaw object with only one spot.
> 
> When I omit the layout in the read.marrayRaw call and assign it later, 
> it seems to work fine:
>  >a= read.marrayRaw(files, name.Gf="CH1I", name.Gb= "CH1B", 
> name.Rf="CH2I", name.Rb="CH2B")
>  > a at maLayout <- theLayout
> 
> In my older R version (R 1.9.0, marray 1.5.8) the first call also worked.
> Now my question is: Has the read.marrayRaw function changed in some way 
> (I haven`t found anything in the documentation), is it a bug or 
> something else still?
> 
> Any help or information is highly appreciated,
> Julia
> 
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