[BioC] error readAffy

[James MacDonald]

I don't know of any path on Windows that looks like
//Marvel-xms4rmgc/festplatte/A2M
Lab/01 Customers/AKH/Erowic/data/filename.cel

Do you perhaps mean something like C:/Marvel-xms4rmgc/festplatte/A2M
Lab/01 Customers/AKH/Erowic/data/filename.cel?

The error you see is R complaining that it cannot find the files as
written.

Best,

Jim



James W. MacDonald
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623
>>> "Auer Michael" <michael.auer at meduniwien.ac.at> 10/27/04 10:23 AM >>>
I am using Windows XP, R 2.0.0. and affy package 1.5.8

I have copied the files to the folder "//Marvel-xms4rmgc/festplatte/A2M
Lab/01 Customers/AKH/Erowic/data/filename.cel"

sample.names<- c("SCC9_A_0"," SCC9_A_C"," SCC9_A_N"," SCC9_A_CN",
"SCC9_B_0"," SCC9_B_C"," SCC9_B_N"," SCC9_B_CN", "SCC9_C_0","
SCC9_C_C","
SCC9_C_N"," SCC9_C_CN")

sample.files<-c("//Marvel-xms4rmgc/festplatte/A2M Lab/01
Customers/AKH/Erowic/data/BE_102104_sampleSSC 9 A o.CEL",
"//Marvel-xms4rmgc/festplatte/A2M Lab/01
Customers/AKH/Erowic/data/BE_102104_sampleSSC 9 A c.CEL",
"//Marvel-xms4rmgc/festplatte/A2M Lab/01
Customers/AKH/Erowic/data/BE_102104_sampleSSC9 A n.CEL",
"//Marvel-xms4rmgc/festplatte/A2M Lab/01
Customers/AKH/Erowic/data/BE_102104_sampleSSC 9 A  c+n.CEL",
"//Marvel-xms4rmgc/festplatte/A2M Lab/01
Customers/AKH/Erowic/data/BE_102104_sampleSSC 9 B o.CEL",
"//Marvel-xms4rmgc/festplatte/A2M Lab/01
Customers/AKH/Erowic/data/BE_102104_sampleSSC 9 B c.CEL",
"//Marvel-xms4rmgc/festplatte/A2M Lab/01
Customers/AKH/Erowic/data/BE_102104_sampleSSC 9 B n.CEL",
"//Marvel-xms4rmgc/festplatte/A2M Lab/01
Customers/AKH/Erowic/data/BE_102104_sampleSSC 9 B c+n.CEL",
"//Marvel-xms4rmgc/festplatte/A2M Lab/01
Customers/AKH/Erowic/data/BE_102204_sample SSC9 C o.CEL",
"//Marvel-xms4rmgc/festplatte/A2M Lab/01
Customers/AKH/Erowic/data/BE_102204_sample SSC9 C c.CEL",
"//Marvel-xms4rmgc/festplatte/A2M Lab/01
Customers/AKH/Erowic/data/BE_102204_sample SSC9 C n.CEL",
"//Marvel-xms4rmgc/festplatte/A2M Lab/01
Customers/AKH/Erowic/data/BE_102204_sample SSC9 C c+n.CEL")



I am loading the library

 library(affy)
Loading required package: Biobase
Loading required package: tools
Welcome to Bioconductor
         Vignettes contain introductory material.  To view,
         simply type: openVignette()
         For details on reading vignettes, see
         the openVignette help page.
Loading required package: reposTools


Then I am using ReadAffy and the following error message occurs with two
of the arrays.

pleca<-ReadAffy(filenames=sample.files,sampleNames =sample.names)
Error in initialize(value, ...) : Could not open file //Marvel-xm
4rmgc/festplatte/A2M Lab/01 Customers/AKH/Erowic/data/BE_102204_sample
SSC9 C n.CEL

What is the problem? Can anybody help. I can't go back to a former
release, because R 2.0.0. doesn't accept it.

Thanks

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