Added reference

733260e8 · Peter van 't Hof · 9ef784e9 · 733260e8
Commit 733260e8 authored Nov 18, 2016 by Peter van 't Hof
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biopet-tools-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/tools/BamStats.scala ...scala/nl/lumc/sasc/biopet/extensions/tools/BamStats.scala +2 -0

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--- a/biopet-tools-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/tools/BamStats.scala
+++ b/biopet-tools-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/tools/BamStats.scala
@@ -25,10 +25,12 @@ class BamStats(val root: Configurable) extends ToolCommandFunction with Referenc

  override def defaultThreads = 3
  override def defaultCoreMemory = 5.0
+  override def dictRequired = true

  override def beforeGraph() {
    super.beforeGraph()
    jobOutputFile = new File(outputDir, ".bamstats.out")
+    if (reference == null) reference = referenceFasta()
  }

  /** Creates command to execute extension */