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Specify default values. 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3364 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
kiran 2010-05-14 21:42:53 +00:00
parent 6efd05831b
commit 95b29f608b
1 changed files with 3 additions and 3 deletions
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6
java/src/org/broadinstitute/sting/playground/gatk/walkers/diagnostics/ComputeConfusionMatrix.java
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@ -45,13 +45,13 @@ import java.util.Hashtable;
*/
@Reference(window=@Window(start=-5,stop=5))
public class ComputeConfusionMatrix extends LocusWalker<Integer, Integer> {
@Argument(fullName="minimumDepth", shortName="minDepth", doc="Require locus pileup to have specified minimum depth", required=false)
@Argument(fullName="minimumDepth", shortName="minDepth", doc="Require locus pileup to have specified minimum depth (default: 10)", required=false)
public Integer MIN_DEPTH = 10;
@Argument(fullName="maximumDepth", shortName="maxDepth", doc="Require locus pileup to have specified maximum depth", required=false)
@Argument(fullName="maximumDepth", shortName="maxDepth", doc="Require locus pileup to have specified maximum depth (default: 100)", required=false)
public Integer MAX_DEPTH = 100;
@Argument(fullName="contextWindowSize", shortName="window", doc="Size of context window", required=false)
@Argument(fullName="contextWindowSize", shortName="window", doc="Size of context window (default: 0)", required=false)
public Integer WINDOW_SIZE = 0;
private Hashtable<String, Integer> confusionCounts = new Hashtable<String, Integer>();