Commit 6c7c75a7 authored by bow's avatar bow
Browse files

Default to not using MarkDuplicates PG tag as it creates conflicts when merging BAM files

parent 36568da0
......@@ -87,6 +87,10 @@ class Gentrap(val root: Configurable) extends QScript with MultiSampleQScript wi
"novelsplicing" -> 1,
"batch" -> 4,
"format" -> "sam"
// avoid conflicts when merging since the MarkDuplicate tags often cause merges to fail
"picard" -> Map (
"programrecordid" -> "null"
), super.defaults)
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