[BioC] Trouble with affy version 1.2.1

Isaac Neuhaus isaac.neuhaus@bms.com
Thu, 05 Sep 2002 08:21:02 -0400


Thanks.

Yes that fixed it.

Isaac

Laurent Gautier wrote:

> The use of the 'devel' version of the package Biobase should keep R
> happy.
>
> Let us know if it not the case.
>
> Hopin' it helps,
>
> Laurent
>
> On Wed, Sep 04, 2002 at 05:17:38PM -0400, Isaac Neuhaus wrote:
> > I am running R 1.5.1 and I have installed the affy package version
> > 1.2.1. When I start R and select library affy I get the following error.
> > Any help?
> >
> > Isaac
> >
> > P.S. I have installed HDF5 and rhdf5.
> > ---------------------------------------------------------------------------------------------
> >
> > > library(affy)
> > Loading required package: Biobase
> > Loading required package: methods
> > Expanding the signature to include omitted arguments
> > in definition: j = "missing"
> >
> > Attaching package `Biobase':
> >
> >
> >         The following object(s) are masked from package:base :
> >
> >          split
> >
> > *************
> > affy: development version (...this is usable...)
> > *************
> > demo(affy.tour) will eventually work and give an overview...
> > *************
> > If you have tkWidgets and rhdf5 installed, try
> > expresso(widget=T, hdf5=T)
> >  for a real thrill...
> > Loading required package: eda
> > -->detecting normalization methods from naming convention
> > -->detecting expression value methods from naming convention
> > -->detecting background correction methods from naming convention
> > -->initCdf
> > -->initCel
> > -->initCel.container
> > Loading required package: rhdf5
> >
> > Attaching package `rhdf5':
> >
> >
> >         The following object(s) are masked from package:base :
> >
> >          is.finite is.matrix
> >
> > -->initPPSet
> > -->initPPSet.container
> > -->initPlob
> > Error in setMethod("abstract", "Plob", function(object)
> > abstract(object@description),  :
> >         No existing definition for function "abstract"
> > Error in library(affy) : .First.lib failed
> >
> >
> > _______________________________________________
> > Bioconductor mailing list
> > Bioconductor@stat.math.ethz.ch
> > http://www.stat.math.ethz.ch/mailman/listinfo/bioconductor
>
> --
> --------------------------------------------------------------
> Laurent Gautier                 CBS, Building 208, DTU
> PhD. Student                    DK-2800 Lyngby,Denmark
> tel: +45 45 25 24 89            http://www.cbs.dtu.dk/laurent
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