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git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2387 348d0f76-0448-11de-a6fe-93d51630548a
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asivache 2009-12-17 01:03:01 +00:00
parent ba86508854
commit acb4d477da
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java/src/org/broadinstitute/sting/gatk/walkers/indels/IndelIntervalWalker.java
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@ -76,6 +76,7 @@ public class IndelIntervalWalker extends ReadWalker<IndelIntervalWalker.Interval
GenomeLoc indelLoc = GenomeLocParser.createGenomeLoc(read.getReferenceIndex(), indelLeftEdge, indelRightEdge); GenomeLoc indelLoc = GenomeLocParser.createGenomeLoc(read.getReferenceIndex(), indelLeftEdge, indelRightEdge);
GenomeLoc refLoc = GenomeLocParser.createGenomeLoc(read); GenomeLoc refLoc = GenomeLocParser.createGenomeLoc(read);
// if ( indelLeftEdge == 10313124 || indelLeftEdge == 10313170 ) System.out.println("read: " +read.getReadName() + " ; " + refLoc + " ; " + indelLoc);
return new Interval(refLoc, indelLoc); return new Interval(refLoc, indelLoc);
} }