Add fixme

2a64a1d6 · Peter van 't Hof · 364b0d00 · 2a64a1d6
Commit 2a64a1d6 authored Nov 11, 2015 by Peter van 't Hof
--- a/public/shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaTrait.scala
+++ b/public/shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaTrait.scala
@@ -262,6 +262,7 @@ trait ShivaTrait extends MultiSampleQScript with Reference {
        md.input = input
        md.output = new File(sampleDir, sampleId + ".dedup.bam")
        md.outputMetrics = new File(sampleDir, sampleId + ".dedup.metrics")
+        //FIXME: making this file intermediate make the pipeline restart unnessery jobs
        //md.isIntermediate = isIntermediate
        add(md)
        addSummarizable(md, "mark_duplicates")