[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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