Question: readGenericHeader problem in limma 2.7.8?
12.9 years ago by
Bobby Prill • 60
Bobby Prill • 60 wrote:
There seems to be a problem with read.maimages() in the current release version of bioconductor (1.8). I need load a "generic" gpr- like file using the column headers. The following code used to work, but now is broken: library(limma) cols = list(Rf="F635 Median",Gf="F532 Median",Rb="B635 Median",Gb="B532 Median") RG = read.maimages("mydata.gpr", columns=cols) Is this a bug? How can I get around this problem? I have tried limma version 2.7.8 and 2.7.9 I'm on a Mac OSX 10.4.7 Running R.app 1.16 The error message is: Error in readGenericHeader(fullname, columns = columns, sep = sep) : Specified column headings not found in file In addition: Warning message: input string 1 is invalid in this locale in: grep(pattern, x, ignore.case, extended, value, fixed, useBytes) Even though it says it can't find the headers, I know they are there. This error started to occur when I installed a fresh copy of Bioconductor 1.8 after my disk crashed. I was probably running 1.7 before that. I don't know how to attempt an install of 1.7 to see if that affects anything. Thanks for the help.
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