[BioC] cellHTS2: help with ConfFile (convertWellCoordinates) function
dunicadj at tcd.ie
dunicadj at tcd.ie
Tue Feb 19 23:43:01 CET 2008
Hi all ,
I have a problem when configuring my files in CellHTS2. Primarily, I get an
error concerning my ConfFile which says the following-
Error in convertWellCoordinates(slog$Well, pdim(object)) :
'x' must be either a character vector with alphanumeric well IDs (e.g. 'B03'
or c('B', '03'))
or a vector of integers with position IDs within a plate (e.g. 27).
My Plateconf.txt file looks like this, which to me seems the right format.
However, regardless of whether I specify each plate and well as below, or use
the compressed format shown in the cellHTS2 vignette I still get the same
error.
Wells: 96
Plates: 18
Plate Well Content
1 A01 Neg
1 A02 Neg
1 A03 Sample
1 A04 Sample
1 A05 Sample
1 A06 Sample
My only naïve idea is that while generating the tab delinated txt file using
exell that the final well descriptions are not recognised as alphanumeric by
cellHTS2. I have tried generating the file in notepad but with no success.
Is there some other way I should be generating the plateConf file? I have even
adapted the ConfFile from the KcViab example folder and stil get the same
error.
I have attached a copy of my ConfFile if necessary
Any help would be greatfully appreciated.
Dara Dunican
Cell Signalling Group,
Institute of Molecular Medicine,
Trinity College Dublin,
Ireland
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