Commit 8a0e0c8e authored by Peter van 't Hof's avatar Peter van 't Hof

Fixing Ln

parent dd6b452a
......@@ -271,7 +271,7 @@ trait MultisampleMappingTrait extends MultiSampleQScript
add(merge)
}
add(SambambaMarkdup(qscript, mergedBam, bamFile.get, isIntermediate = !keepMergedFiles))
Ln(qscript, bamFile.get + ".bai", bamFile.get.getAbsolutePath.stripSuffix(".bam") + ".bai")
add(Ln(qscript, bamFile.get + ".bai", bamFile.get.getAbsolutePath.stripSuffix(".bam") + ".bai"))
case _ => throw new IllegalStateException("This should not be possible, unimplemented MergeStrategy?")
}
......
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