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Oops...broke a Queue compile dependency on the GATK. 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5596 348d0f76-0448-11de-a6fe-93d51630548a
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hanna 2011-04-08 02:53:22 +00:00
parent fece2167b3
commit 1763a41e94
1 changed files with 1 additions and 1 deletions
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2
scala/src/org/broadinstitute/sting/queue/extensions/gatk/BamGatherFunction.scala
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@ -50,7 +50,7 @@ class BamGatherFunction extends GatherFunction with PicardBamFunction {
val compression = QFunction.findField(originalFunction.getClass, SAMFileWriterArgumentTypeDescriptor.COMPRESSION_FULLNAME) val compression = QFunction.findField(originalFunction.getClass, SAMFileWriterArgumentTypeDescriptor.COMPRESSION_FULLNAME)
this.compressionLevel = originalGATK.getFieldValue(compression).asInstanceOf[Option[Int]] this.compressionLevel = originalGATK.getFieldValue(compression).asInstanceOf[Option[Int]]
val indexBam = QFunction.findField(originalFunction.getClass, SAMFileWriterArgumentTypeDescriptor.CREATE_INDEX_FULLNAME) val indexBam = QFunction.findField(originalFunction.getClass, SAMFileWriterArgumentTypeDescriptor.DISABLE_INDEXING_FULLNAME)
this.createIndex = originalGATK.getFieldValue(indexBam).asInstanceOf[Option[Boolean]] this.createIndex = originalGATK.getFieldValue(indexBam).asInstanceOf[Option[Boolean]]
super.freezeFieldValues super.freezeFieldValues