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remove unused argument lodThreshold. 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1057 348d0f76-0448-11de-a6fe-93d51630548a
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jmaguire 2009-06-19 12:40:12 +00:00
parent 9a0151b7e1
commit 3a1b58ca65
1 changed files with 0 additions and 1 deletions
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java/src/org/broadinstitute/sting/playground/gatk/walkers/MultiSampleCaller.java
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@ -25,7 +25,6 @@ public class MultiSampleCaller extends LocusWalker<String,String>
{
@Argument(required=false, shortName="fractional_counts", doc="should we use fractional counts?") public boolean FRACTIONAL_COUNTS = false;
@Argument(required=false, shortName="max_iterations", doc="Maximum number of iterations for EM") public int MAX_ITERATIONS = 10;
@Argument(fullName="lodThreshold", shortName="lod", required=false, doc="lod threshold for outputting individual genotypes") public Double lodThreshold = 0.0;
@Argument(fullName="discovery_output", shortName="discovery_output", required=true, doc="file to write SNP discovery output to") public String DISCOVERY_OUTPUT;
@Argument(fullName="individual_output", shortName="individual_output", required=true, doc="file to write individual SNP calls to") public String INDIVIDUAL_OUTPUT;
@Argument(fullName="sample_name_regex", shortName="sample_name_regex", required=false, doc="sample_name_regex") public String SAMPLE_NAME_REGEX = null;