[BioC] maQualityPlots on Mac

[McGee, Monnie]

Dear List,

I am running R 2.3.1 on a Power Mac G5 with MAC OS 10.4.7 installed.  I am running R from the Cocoa GUI.

I tried using the package arrayQuality with the swirl zebrafish data, as outlined in the marray Quick start guide.  I received the following error as I was working along:

> maQualityPlots(mraw)
Error in X11(paste("png::", filename, sep = ""), width, height, pointsize,  : 
	unable to start device PNG
In addition: Warning message:
unable to open connection to X11 display '' 

So I tried: 

> maQualityPlots(mraw,dev="jpeg")
Error in X11(paste("jpeg::", quality, ":", filename, sep = ""), width,  : 
	unable to start device JPEG
In addition: Warning message:
unable to open connection to X11 display '' 
> maQualityPlots(mraw,dev="ps")
[1] "Format error, format will be set to PNG"
Error in X11(paste("png::", filename, sep = ""), width, height, pointsize,  : 
	unable to start device PNG
In addition: Warning message:
unable to open connection to X11 display '' 
> maQualityPlots(mraw,dev="quartz")
[1] "Format error, format will be set to PNG"
Error in X11(paste("png::", filename, sep = ""), width, height, pointsize,  : 
	unable to start device PNG
In addition: Warning message:
unable to open connection to X11 display '' 
> 

Other graphics, like image() and plot(), run just fine.

Incidentally, I tried running maQualityPlots using my X11 version of R, and the option dev="jpeg".  I got the plots that I wanted.  The function also ran with the default device (png), but my Mac could not open the files when I tried to display them.

So, I have the devices on my computer ( at least, I have jpeg - but I'd like png, too.  I think the quality would be better), but the GUI interface cannot find it.

 How do I get the correct device installed on my Mac and get the GUI to recognize it?

Thanks,
Monnie


Monnie McGee, Ph.D.
Assistant Professor
Department of Statistical Science
Southern Methodist University
Ph: 214-768-2462
Fax: 214-768-4035