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Langdon W B
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@langdon-w-b-2726
Last seen 11.2 years ago
I have R running on a 64 bit version of linux.
The affy package is not working.
Ie cannot open a cel file.
Any help or comments would be most welcome
Thank you
Bill
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> 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
>
> a <- ReadAffy(filenames="GSM15785.cel",sd=FALSE);
Error in .nextMethod(e1, e2) :
comparison of these types is not implemented
> traceback()
35: eval(expr, envir, enclos)
34: eval(call, callEnv)
33: callNextMethod(e1, e2)
32: classVersion(object)[names(vers)] == vers
31: classVersion(object)[names(vers)] == vers
30: isCurrent(object, class(object))
29: isCurrent(object, class(object))
28: isCurrent(object)
27: isCurrent(object)
26: isValidVersion(object, "eSet")
25: validMsg(NULL, isValidVersion(object, "eSet"))
24: validityMethod(as(object, superClass))
23: identical(x, TRUE)
22: anyStrings(validityMethod(as(object, superClass)))
21: validObject(.Object)
20: .nextMethod(.Object, ...)
19: eval(expr, envir, enclos)
18: eval(call, callEnv)
17: callNextMethod(.Object, ...)
16: .local(.Object, ...)
15: .nextMethod(.Object, assayData = assayData, phenoData = phenoData,
featureData = featureData, experimentData = experimentData,
annotation = annotation)
14: eval(expr, envir, enclos)
13: eval(call, callEnv)
12: callNextMethod(.Object, assayData = assayData, phenoData =
phenoData,
featureData = featureData, experimentData = experimentData,
annotation = annotation)
11: .local(.Object, ...)
10: .nextMethod(.Object, assayData = assayData, phenoData = phenoData,
featureData = featureData, experimentData = experimentData,
annotation = annotation)
9: eval(expr, envir, enclos)
8: eval(call, callEnv)
7: callNextMethod(.Object, assayData = assayData, phenoData =
phenoData,
featureData = featureData, experimentData = experimentData,
annotation = annotation)
6: .local(.Object, ...)
5: initialize(value, ...)
4: initialize(value, ...)
3: new("AffyBatch", exprs = exprs, cdfName = cdfname, phenoData =
phenoData,
nrow = dim.intensity[1], ncol = dim.intensity[2], annotation =
cleancdfname(cdfname,
addcdf = FALSE), description = description, notes = notes)
2: read.affybatch(filenames = l$filenames, phenoData = l$phenoData,
description = l$description, notes = notes, compress =
compress,
rm.mask = rm.mask, rm.outliers = rm.outliers, rm.extra =
rm.extra,
verbose = verbose, sd = sd, cdfname = cdfname)
1: ReadAffy(filenames = "GSM15785.cel", sd = FALSE)
>
----------------------------------------------------------------------
W. B. Langdon,
Mathematical Sciences,
University of Essex
Wivenhoe Park,
Colchester CO4 3SQ, UK
http://www.essex.ac.uk/maths/staff/langdon/
CIGPU 2008 http://www.cs.ucl.ac.uk/staff/W.Langdon/cigpu/
Foundations of Genetic Programming
http://www.cs.ucl.ac.uk/staff/W.Langdon/FOGP
EuroGP 2008 http://evonet.lri.fr/EuroGP08/
GP EM http://www.springer.com/10710
GP Bibliography http://www.cs.bham.ac.uk/~wbl/biblio/
