[BioC] Exploding PLASQ Inevitable : slot exprs AffyBatch

pingzhao Hu phu at sickkids.ca
Wed Aug 8 21:00:29 CEST 2007


   Hi Richard,
   You need to change a little bit the code.
round(ReadAffy(filenames = paste(celFolder,
i, sep = "/"))@exprs) 

   to
   round(exprs(ReadAffy(filenames = paste(celFolder,i, sep = "/")))))
   in
   celExtNorm and celExtract functions.
   Thanks for Ben told me this before.
   Pingzhao
   -------------------------------------
I'm getting a mysterious error message 
"no slot of name "exprs" for this object of class
"AffyBatch""

Anybody got any ideas on what crime I committed?

I got the latest greatest Bioconductor stuff
yesterday.

The gory details ...

-bash-3.00$ uname -a
Linux xxxxx.yyy.nih.gov 2.6.9-42.0.3.ELsmp #1 SMP Mon
Sep 25 17:24:31 EDT 2006 x86_64 x86_64 x86_64
GNU/Linux

-bash-3.00$ R
WARNING: ignoring environment value of R_HOME

R version 2.5.1 (2007-06-27)
Copyright (C) 2007 The R Foundation for Statistical
Computing
ISBN 3-900051-07-0
 ... [blah blah blah ] ....

[Previously saved workspace restored]

> library(affy)
Loading required package: Biobase
Loading required package: tools

Welcome to Bioconductor

  Vignettes contain introductory material. To view,
type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages
'citation(pkgname)'.

Loading required package: affyio
> library(PLASQ500K)
Loading required package: GLAD
Loading required package: aws
[1] "Have fun with GLAD"
> pscn(NspFolder=NULL, StyFolder="/work/joe/TUMOR",
normNspFolder=NULL, normStyFolder="/work/joe/NORMAL")
[1] "Reading in Normal .cel files"
[1] "Reading Files"
[1] "XMapping250K_Sty_A02_47432.CEL"
[1] "now readaffy"
Error in round(ReadAffy(filenames = paste(celFolder,
i, sep = "/"))@exprs) :
        no slot of name
"exprs" for this object of
class "AffyBatch"
>


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