From 95753e1b34c3d5f6158da89e207c12f22dc6c693 Mon Sep 17 00:00:00 2001
From: hanna <hanna@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Fri, 10 Apr 2009 20:22:04 +0000
Subject: [PATCH] Should've been calling queryOverlapping in locus mode.

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@360 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../gatk/dataSources/simpleDataSources/SAMBAMDataSource.java    | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/java/src/org/broadinstitute/sting/gatk/dataSources/simpleDataSources/SAMBAMDataSource.java b/java/src/org/broadinstitute/sting/gatk/dataSources/simpleDataSources/SAMBAMDataSource.java
index 94dac4697..35a55efc9 100644
--- a/java/src/org/broadinstitute/sting/gatk/dataSources/simpleDataSources/SAMBAMDataSource.java
+++ b/java/src/org/broadinstitute/sting/gatk/dataSources/simpleDataSources/SAMBAMDataSource.java
@@ -113,7 +113,7 @@ public class SAMBAMDataSource implements SimpleDataSource {
 
         // we do different things for locus and read modes
         if (locusMode) {
-            iter.query(location.getContig(), (int) location.getStart(), (int) location.getStop(), true);
+            iter.queryOverlapping(location.getContig(), (int) location.getStart(), (int) location.getStop());
         } else {
             iter.queryContained(location.getContig(), (int) location.getStart(), (int) location.getStop());
         }