[BioC] problem in diagnostic plots?

[Sandrine Dudoit]

Yes, the problem is with how we set widths and heights in the layout
function. Some combinations work on some computers but not others. We
will try to sort this out.

Sandrine

On Wed, 31 Jul 2002, Joshua Betcher wrote:

> 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
> >
> >
> >
> > _______________________________________________
> > Bioconductor mailing list
> > Bioconductor@stat.math.ethz.ch
> > http://www.stat.math.ethz.ch/mailman/listinfo/bioconductor
> >
>
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