[BioC] error in import.exon.scheme (XPS package)

[cstrato]

Dear Kripa,

Since you are using WinXP, can you please tell me the full path to 
HuEx-1_0-st-v2.r2.clf?

Is it:
C:\Volumes\GigaDrive\Affy\libraryfiles\HuEx-1_0-st-v2_libraryfile\HuEx-1_0-st-r2\HuEx-1_0-st-v2.r2.clf

Or is it:
C:\Volumes\GigaDrive\Affy\libraryfiles\HuEx-1_0-st-v2_libraryfile\HuEx-1_0-st-v2.r2.clf

Or is it:
C:\Volumes\GigaDrive\Affy\libraryfiles\HuEx-1_0-st-v2.r2.clf

Or is it a different path?

Please note that you need not use my examples for "libdir", "anndir", 
and "scmdir" (which BTW are my Mac directories). You can use your 
directories of choice.

Furthermore, can you please supply your sessionInfo().

Best regards
Christian
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C.h.r.i.s.t.i.a.n   S.t.r.a.t.o.w.a
V.i.e.n.n.a           A.u.s.t.r.i.a
e.m.a.i.l:        cstrato at aon.at
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On 2/10/11 4:56 PM, Kripa R wrote:
>
> Hello, I'm new to xps and having a little trouble getting things off the ground
> I'm working in windows using R 12.2 with ROOT 5.27.04
> Previously I'd set up my own directories so I copied the ones suggested in the guide but continue to see the following error:
> I believe the issue is in my directory, could someone please outline it for me?
>
> Error in import.exon.scheme("Scheme_HuEx10stv2r2_na31", filedir = file.path(scmdir,  :
>    missing CEL Layout File *.CLF
>
> ##########code thus far#############
>> libdir<- "/Volumes/GigaDrive/Affy/libraryfiles"
> ##HuEx-1_0-st-v2.r2.pgf and HuEx-1_0-st-v2.r2.clf have been placed here##
>
>> anndir<- "/Volumes/GigaDrive/Affy/Annotation"
> ##HuEx-1_0-st-v2.na31.hg19.probeset and HuEx-1_0-st-v2.na31.hg19.transcript have been placed here##
>
>> scmdir<- "/Volumes/GigaDrive/CRAN/Workspaces/Schemes"
>
>> scheme.huex10stv2.na31<- import.exon.scheme("Scheme_HuEx10stv2r2_na31", filedir = file.path(scmdir, "na31"),
> +                           file.path(libdir, "HuEx-1_0-st-v2_libraryfile", "HuEx-1_0-st-r2", "HuEx-1_0-st-v2.r2.clf"),
> +                           file.path(libdir, "HuEx-1_0-st-v2_libraryfile", "HuEx-1_0-st-r2", "HuEx-1_0-st-v2.r2.pgf"),
> +                           file.path(anndir, "Version10Sep", "HuEx-1_0-st-v2.na31.hg19.probeset.csv"),
> +                           file.path(anndir, "Version10Sep", "HuEx-1_0-st-v2.na31.hg19.transcript.csv"))
>
> Error in import.exon.scheme("Scheme_HuEx10stv2r2_na31", filedir = file.path(scmdir,  :
>
>    missing CEL Layout File *.CLF
>
>
> Thanks so much
> -K
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