fix cnMops.R

4c2905e2 · Sander Bollen · e1d52a35 · 4c2905e2
Commit 4c2905e2 authored Jan 09, 2017 by Sander Bollen
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biopet-extensions/src/main/resources/nl/lumc/sasc/biopet/extensions/cnmops.R ...rc/main/resources/nl/lumc/sasc/biopet/extensions/cnmops.R +1 -1

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--- a/biopet-extensions/src/main/resources/nl/lumc/sasc/biopet/extensions/cnmops.R
+++ b/biopet-extensions/src/main/resources/nl/lumc/sasc/biopet/extensions/cnmops.R
@@ -31,7 +31,7 @@ CNRoutput <- opt$cnr
 windowLength <- opt$wl
 bamFile <- args

-BAMFiles <- strsplit(c(bamFile), " ")[[1]]
+BAMFiles <- bamFile
 bamDataRanges <- tryCatch(
    {
        getReadCountsFromBAM(BAMFiles, mode="paired", refSeqName=chromosome, WL=windowLength, parallel=opt$threads)