[BioC] Diagnostic plots error

[michael watson (IAH-C)]

Hi Mike

Possibly not that much help, but I have encountered the "Figure margins too large" problem before, and it is what it says it is - basically something is trying to fit a graph or figure into an image (postscript in your case) that isn't big enough.  Somewhere, the code is setting the size of the postscript image output to be a certain size and your graph is bigger.  

I don't know maNormPlots() very well, but check the documentation to see if somehow you can play about with the image output size

Cheers
Mick

-----Original Message-----
From: Mike Schaffer [mailto:mschaff at bu.edu]
Sent: 01 September 2003 07:16
To: bioconductor at stat.math.ethz.ch
Subject: [BioC] Diagnostic plots error


Took a few days, but I'm up to speed with R and Bioconductor.

I have the individual plots working via X11, but the diagnostic plots  
are causing me trouble.  I'm having a problem that I saw (in the  
mailing list archives) was related to the layout subroutine.

When I run the diagnostic plots, I get the following errors:

 >  
maNormPlots(name.norm[,1],save=TRUE,fname="maNorm_Plots.ps",dev="postscr 
ipt")
Error in plot.new() : Figure margins too large

 >  
maRawPlots(name.raw[,1],save=TRUE,fname="maRaw_Plots.ps",dev="postscript 
")
Error in factor(z, levels = 1:nlevels(x), labels = levels(x), ordered =  
is.ordered(x)) :
         invalid labels; length 0 should be 1 or 2

Has this bug been investigated or is there a workaround?  Can anyone  
offer help?  Thanks.


My details:
(Mac OS X 10.2.6, BioC 1.2, R 1.7.1, iBook 600mHz, 640MB RAM)
 > version
          _
platform powerpc-apple-darwin6.6
arch     powerpc
os       darwin6.6
system   powerpc, darwin6.6
status
major    1
minor    7.1
year     2003
month    06
day      16
language R

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