Commit 88adefce authored by Wai Yi Leung's avatar Wai Yi Leung
Browse files

Limit reporting of events in REF/ALT col to < SVTYPE > (saves space and post-processingpower)

parent 5164aa32
......@@ -31,7 +31,8 @@ class Pindel(val root: Configurable) extends SvCaller {
/** Default pipeline config */
override def defaults = Map(
"pindelvcf" -> Map(
"rdate" -> new SimpleDateFormat("yyyyMMdd").format(Calendar.getInstance().getTime())
"rdate" -> new SimpleDateFormat("yyyyMMdd").format(Calendar.getInstance().getTime()),
"compact_output_limit" -> 10
))
def biopetScript() {
......
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