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Updated rod binding syntax usage on CombineVariants from .rodBind to .variants.

This commit is contained in:
Khalid Shakir 2011-08-09 00:46:39 -04:00
parent d15852be0a
commit cb28875c2a
1 changed files with 1 additions and 1 deletions
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public/scala/src/org/broadinstitute/sting/queue/extensions/gatk/VcfGatherFunction.scala
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@ -43,7 +43,7 @@ class VcfGatherFunction extends CombineVariants with GatherFunction {
this.intervals = this.originalGATK.intervals this.intervals = this.originalGATK.intervals
this.intervalsString = this.originalGATK.intervalsString this.intervalsString = this.originalGATK.intervalsString
this.rodBind = this.gatherParts.zipWithIndex map { case (input, index) => new RodBind("input"+index, "VCF", input) } this.variants = this.gatherParts.zipWithIndex map { case (input, index) => new TaggedFile(input, "input"+index) }
this.rod_priority_list = (0 until this.gatherParts.size).map("input"+_).mkString(",") this.rod_priority_list = (0 until this.gatherParts.size).map("input"+_).mkString(",")
this.out = this.originalOutput this.out = this.originalOutput
this.assumeIdenticalSamples = true this.assumeIdenticalSamples = true