[BioC] Help with Prada Package: Installation and Run

[Oleg Sklyar]

>> filepath <- system.file("extdata", "fas Bcl2 plate323 -04-04.A01", package
> =
> + "prada")
>> filepath
> [1] ""
>> sampdat <- readFCS(filepath)
> Error: filename != "" is not TRUE

You did the print for 'filepath' and it shows [1] "", which means that 
in readFCS you are trying to read a missing file. Thus it is reasonable 
that you get an error message which checks the condition whether the 
file name you supplied is not empty. In this case it is, thus the result 
is not TRUE. There is probably a statement in the code: 
stopifnot(filename != "") which outputds exactly what you see.

So it probably has nothing to do with installation and rather with the 
file name supplied in this example. In fact, check the spaces in the 
file name, maybe they need to be escaped with a \ ?

Best
Oleg

-- 
Dr Oleg Sklyar | EBI-EMBL, Cambridge CB10 1SD, UK | +44-1223-494466