[BioC] error in import.exon.scheme, XPS package

[cstrato]

Dear Lisa,

Could you please supply the sessionInfo() and the ROOT version you use?

 From your code I assume that you are using WinXP.

I am not sure if paste(...,sep="\\") is allowed, thus could you please 
try paste(...,sep="/") and:
libdir <- "C:/home/pathto/Affy/libraryfiles"
anndir <- "C:/home/pathto/Affy/Annotation"
etc
 From within R it is not necessary to use "\" on WinXP, you can use "/" 
as on Unix.

Could you please run the code again from RTerm and send me the complete 
output.

Best regards
Christian


Lisa Mu wrote:
> Dear Christian:
>
> I am new to XPS and  following your paper on comparing XPS with APT.
>
> I used the listed code to create scheme object:
>
> Scheme.HuEx10stv2r2.na27=import.exon.scheme( filename   =
> "Scheme_HuEx10stv2r2_na27",
>
>  filedir    = scmdir,
>
> layoutfile = paste(libdir, "HuEx-1_0-st-v2.r2.clf", sep = "\\"),
>
> schemefile = paste(libdir, "HuEx-1_0-st-v2.r2.pgf", sep = "\\"),
>
>  probeset   = paste(anndir, "HuEx-1_0-st-na27.hg18.probeset.csv", sep =
> "\\"),
>
>  transcript = paste(anndir, "HuEx-1_0-st-v2.na27.hg18.transcript.csv", sep =
> "\\"),
>
> add.mask=FALSE ,
>
> verbose=TRUE  )
>
> And I got error message :   Error in import.exon.scheme(filename =
> "Scheme_HuEx10stv2r2_na27", filedir = scmdir,  :
>   error in function ‘ImportExonSchemes’
>
> I am wondering whether you could give any suggestion on this.
>
> Thanks a lot.
>
> Lisa
>
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>
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