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 [[alternative HTML version deleted]]

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 _._._._._._._._._._._._._._._._._._ 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 _._._._._._._._._._._._._._._._._._ 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 > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor >