From 234137dee8f43253b447a6cb791428815213ca22 Mon Sep 17 00:00:00 2001 From: ebanks Date: Tue, 31 Mar 2009 15:14:00 +0000 Subject: [PATCH] use boolean instead of String for flag to suppress printing in map git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@236 348d0f76-0448-11de-a6fe-93d51630548a --- .../sting/gatk/walkers/DepthOfCoverageWalker.java | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/DepthOfCoverageWalker.java b/java/src/org/broadinstitute/sting/gatk/walkers/DepthOfCoverageWalker.java index 488a85da0..20346d91d 100755 --- a/java/src/org/broadinstitute/sting/gatk/walkers/DepthOfCoverageWalker.java +++ b/java/src/org/broadinstitute/sting/gatk/walkers/DepthOfCoverageWalker.java @@ -14,11 +14,11 @@ import java.util.List; * To change this template use File | Settings | File Templates. */ public class DepthOfCoverageWalker extends LocusWalker> { - @Argument(fullName="printall",required=false,defaultValue="true") - public String printAllLoci; // booleans don't work + @Argument(fullName="suppressLocusPrinting",required=false,defaultValue="false") + public boolean suppressPrinting; public Integer map(List rodData, char ref, LocusContext context) { - if (printAllLoci.equals("true")) + if ( !suppressPrinting ) out.printf("%s: %d%n", context.getLocation(), context.getReads().size() ); return context.getReads().size(); }