fixing bai output for indel cleaning.

2011-08-24 15:58:34 -04:00 · 2011-08-24 15:58:34 -04:00 · dc8398e165
parent 2b2a4e0795
commit dc8398e165
1 changed files with 0 additions and 1 deletions
--- a/public/scala/qscript/org/broadinstitute/sting/queue/qscripts/DataProcessingPipeline.scala
+++ b/public/scala/qscript/org/broadinstitute/sting/queue/qscripts/DataProcessingPipeline.scala
@ -313,7 +313,6 @@ class DataProcessingPipeline extends QScript {
  }

  case class clean (inBams: File, tIntervals: File, outBam: File) extends IndelRealigner with CommandLineGATKArgs {
-    @Output(doc="output bai file") var bai = swapExt(outBam, ".bam", ".bai")
    this.input_file :+= inBams
    this.targetIntervals = tIntervals
    this.out = outBam