[BioC] Invalid "marrayInfo"

[Hongxian He]

Hi, Juerg: 

I just happened to encounter the same problem today. The error lies in 
the following command in read.marrayInfo():

> descript <- new("marrayInfo", maNotes=notes)
Error in validObject(.Object) : Invalid "marrayInfo" object: Invalid 
object for slot "maInfo" in class "marrayInfo": got class "NULL", should 
be or extend class "data.frame"

The problem is that the constructor of marrayInfo does not allow maInfo 
slot to be empty. The error disappears if you give the maInfo, e.g.
> descript <- new("marrayInfo", 
maInfo=data.frame(c("trt","ref","ref","trt")), maNotes=notes)

Thus for now, you can modify the function to pass 
in the corresponding maInfo (add maInfo=maInfo to the parameter list, 
then change the above line to  
descript <- new("marrayInfo", maInfo=maInfo, maNotes=notes)

cheers,
Hongxian


On Thu, 24 Jul 2003, Straubhaar, Juerg wrote:

> Using the command line: 
> 
>  
> 
> *       swirl.samples<-read.marrayInfo(file.path(datadir,
> "SwirlSample.txt"))
> 
>  
> 
> directly out of the Vignette: Introduction to the Bioconductor
> marrayInput packacke, I get the following error:
> 
>  
> 
> Error in validObject(.Object) : Invalid "marrayInfo" object: Invalid
> object for slot "maInfo" in class "marrayInfo": got class "NULL", should
> be or extend class "data.frame"
> 
>  
> 
> I couldn't parse my sample information into the maInfo object and I
> noticed it doesn't work with the Bioconductor example file either. Has
> the marrayInfo Class changed?
> 
>  
> 
> Juerg Straubhaar,
> 
> Umass Med
> 
> 
> 	[[alternative HTML version deleted]]
> 
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-- 
Hongxian He
Postdoctoral Researcher
Center for Bioinformatics
University of Pennsylvania