[BioC] mas5calls error with YG_S98 CEL files

[Bruz Marzolf]

Hi all,

I've encountered trouble when using mas5calls on CEL files from YG_S98 chips:

	data <- ReadAffy(filenames =  cel.file.name)
	PACalls <- mas5calls(data)

	Getting probe level data...
	Computing p-values
	Making P/M/A Calls
	Error in if (y < alpha1) { : missing value where TRUE/FALSE needed

Both the release and developmental version of the 'affy' package produce this same error, but only with YG_S98 chips (same code works fine on HG-U133_Plus_2 or Mouse430_2 chips).  Has anyone encountered this before?

Thanks!
Bruz