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Recal file is in input to ApplyRecalibration not an output. 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5452 348d0f76-0448-11de-a6fe-93d51630548a
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rpoplin 2011-03-16 12:08:58 +00:00
parent 8e89ff170e
commit c6ef6ee8b7
1 changed files with 1 additions and 1 deletions
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2
java/src/org/broadinstitute/sting/playground/gatk/walkers/variantrecalibration/ApplyRecalibration.java
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@ -60,7 +60,7 @@ public class ApplyRecalibration extends RodWalker<Integer, Integer> {
/////////////////////////////
// Inputs
/////////////////////////////
@Output(fullName="recal_file", shortName="recalFile", doc="The output recal file used by ApplyRecalibration", required=true)
@Input(fullName="recal_file", shortName="recalFile", doc="The output recal file used by ApplyRecalibration", required=true)
private File RECAL_FILE;
@Input(fullName="tranches_file", shortName="tranchesFile", doc="The input tranches file describing where to cut the data", required=true)
private File TRANCHES_FILE;