[BioC] problems with marray and gpr files
mtmorgan at fhcrc.org
Sun Jan 18 16:43:39 CET 2009
Jörg <edd17 at gmx.de> writes:
> I am pretty new to marray and actually having the same problem.
> When using read.GenePix() I get the error
> ""Error in if (skip > 0) readLines(file, skip) :
> > missing value where TRUE/FALSE needed"
> Additionally I get a warning message
> ": In grep(layout.id, y) :
> Inputstring 30 not valid with this locale."
> When using the skip option with the number of row in the header I get
> "Error in `[.data.frame`(dat, , info.id) : undefined columns selected"
> I tried different gpr files also files downloaded from:
> The columns are named exactly as expected in read.GenePix()
> so I don't think it is a problem with the files.
> Here they mention that it might be a problem with R locate:
> Unfortunately I don't know a lot about this.
Can you mention what the output of
is? Also try
before read.GenePix, and if that does not work try, as you start R
from the command line of your operating system,
% LC_ALL="C" R
It would be good if you could report back to the list whether these
> My System:
> Ubuntu Feisty Fawn, Linux 2.6.24-23-generic i686,
> R version 2.8.1 (also tried older versions), Bioconductor 2.3
> I would be very grateful for every help or hint.
> thanks a lot,
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