Commit 55aba945 authored by Peter van 't Hof's avatar Peter van 't Hof
Browse files

Fixed link to bai file

parent 740df971
......@@ -190,7 +190,7 @@ trait ShivaTrait extends MultiSampleQScript with Reference {
} else {
val oldBamFile: File = inputBam.get
val oldIndex: File = new File(oldBamFile.getAbsolutePath.stripSuffix(".bam") + ".bai")
val newIndex: File = new File(libDir, oldBamFile.getName.stripSuffix(".bam") + ".bai")
val newIndex: File = new File(libDir, bamFile.get.getName.stripSuffix(".bam") + ".bai")
val baiLn = Ln(qscript, oldIndex, newIndex)
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