[BioC] processSwathData for HumanHT-12 v4

[Stephen Edwards]

I'm getting the following error when running processSwathData on files from a
HiScan run on the HumanHT-12 v4.  I'm wondering whether it is due to the fact
that this chip type results in 3 swath files (at least with our instrument)
instead of one or two as previously discussed
(http://article.gmane.org/gmane.science.biology.informatics.conductor/38045/match=processSwathData).
 I've posted an example data set (5719680020.tar.gz) on
ftp://ftp2.cancerresearchuk.org/pub/beadarray/ per the post above.  I deleted
the tif files to reduce the file size, but I get the same error when the images
are included.

processSwathData(twoColour=FALSE,  segmentHeight=1800, segmentWidth=15750)
5719680020_A 
Error in cbind(txtFileCoords, locsFileCoords[, c(1, 4:ncol(locsFileCoords))]) : 
  number of rows of matrices must match (see arg 2)
sessionInfo()
R version 2.14.0 (2011-10-31)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8    
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8   
 [7] LC_PAPER=C                 LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] grid      stats     graphics  grDevices utils     datasets  methods  
[8] base     

other attached packages:
[1] beadarray_2.4.1 ggplot2_0.8.9   proto_0.3-9.2   reshape_0.8.4  
[5] plyr_1.6        Biobase_2.14.0 

loaded via a namespace (and not attached):
[1] AnnotationDbi_1.16.10 BeadDataPackR_1.6.0   DBI_0.2-5            
[4] IRanges_1.12.5        limma_3.10.0          RSQLite_0.11.1