[BioC] error with plot in simpleaffy

[Larry.Lapointe at csiro.au]

Dear List,

I've discovered that upgrading to the latest simpleaffy (2.10-1) appears to fix this problem.

Please disregard earlier note...

LL

-----Original Message-----
From:	bioconductor-bounces at stat.math.ethz.ch on behalf of Lapointe, Larry (MOLSCI, North Ryde)
Sent:	Thu 4/28/2005 7:56 PM
To:	bioconductor at stat.math.ethz.ch
Cc:	
Subject:	[BioC] error with plot in simpleaffy

Hi all,

I’m attempting to QC a set of HGU133plus2 chips (n=20), using the simpleaffy package.

##########################
> qc.data<-qc(celdata,my.eset)
Getting probe level data...
Computing p-values
Doing PMA Calls
> plot(qc.data)
Error in plot.window(xlim, ylim, log, asp, ...) :
        need finite xlim values
        ...


###########################
(MacOS X 10.3.9, R 2.01, Bioconductor 1.5, simpleaffy 2.01, affy 1.5.8-1)



I noticed that Ariel Chernomoretz posted (precisely) the same error a while back, which I am reposting below.... Unfortunately, I haven’t run across a reply.

thanks,
Larry



>Dear all,
>
>I get the following error whenever I try to plot the results of the 
>quality control analysis
>
> >  qc<-qc(Data)
> >  plot(qc)
> > Error in plot.window(xlim, ylim, log, asp, ...) :
> >        need finite xlim values
> >      In addition: Warning messages:
> >      1: no finite arguments to min; returning Inf
> >      2: no finite arguments to max; returning -Inf
> >      3: no finite arguments to min; returning Inf
> >      4: no finite arguments to max; returning -Inf
> >
>
>I am using Solaris 8, R 2.0 (64 bits), Bioconductor 1.5, simpleaffy 2.01
>
>The same 2 code lines work fine under R 1.9 (64 bits), Bioconductor 
>1.4, simpleaffy 1.2.1
>
>Any help would be appreciated
>
>
>Ariel Chernomoretz, Ph.D.
>Centre de recherche du CHUL
>2705 Blv Laurier, bloc T-367
>Sainte-Foy, Qc
>G1V 4G2
>(418)-525-4444 ext 46339



-- 
_____________________________________
Lawrence LaPointe

CSIRO - Flinders University - Enterix
Office: 61 2 9325 3250
Alt. 61 2 9674 7797
Mobile: 04 0099 5027

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