[BioC] problem in diagnostic plots?

[Joshua Betcher]

The problem lies with the use of the "layout" function within maDiagnPlots1.
Hopefully this will get fixed eventually.

Josh
----- Original Message -----
From: "Peter Baker (CMIS, Indooroopilly)" <Peter.Baker@csiro.au>
To: "Bioconductor Mailing List" <bioconductor@stat.math.ethz.ch>
Sent: Wednesday, July 31, 2002 5:19 AM
Subject: [BioC] problem in diagnostic plots?


> Hi All
>
> I've just started using Bioconductor and seems really good.
>
> As a test, I've read in two GenePix files - essentially the same code
> as ReadSpot example and seem to be able to plot, print, normalise ....
>
> The only problem I've encountered is
>
> > maDiagnPlots1(test[,2])
> Error in plot.new() : Figure margins too large
> > maRawPlots(test[,2])
> Error in plot.new() : Figure margins too large
> > maNormPlots(test[,2])
> Error in maMloc(structure(list(), maRf = structure(c(4109, 771, 3073,  :
> No direct or inherited method for function "maMloc" for this call
>
> I get the first plot only - seems to stop at the second
>
> Does anyone recognise this sort of problem?
>
> Could it be missing values? Do I need to filter these in some way
> before plotting? The arrays have row 10 of each 'block' empty
>
> ------------------------------------------------
>
> However, plots like these work absolutely fine
>
> ### backgrounds
> maImage(test[,1], x = "maGb", contour=TRUE)
> maImage(test[,1], x = "maRb", contour=TRUE)
>
> ### raw images
> maImage(test[,1])
>
> > version
>          _
> platform i686-pc-linux-gnu
> arch     i686
> os       linux-gnu
> system   i686, linux-gnu
> status
> major    1
> minor    5.1
> year     2002
> month    06
> day      17
> language R
>
> > Sys.info()
>      sysname                               release
>      "Linux"                         "2.4.18-5smp"
> (RedHat linux 7.3)
>
> Thanks for your help
>
> Regards
> Peter
>
>
> --
> Dr Peter Baker, Statistician (Bioinformatics/Genetics),
> CSIRO Mathematical & Information Sciences,
> 120 Meiers Rd, INDOOROOPILLY, QLD 4068.  Australia.
> Email: <Peter.Baker@csiro.au>
> WWW: http://www.cmis.csiro.au/Peter.Baker/
> Phone:+61 7 3214 2210   Fax:+61 7 3214 2881
>
>
>
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