From 668c7da33d00bb0eecb0444b85aeccd9bb03e607 Mon Sep 17 00:00:00 2001
From: hanna <hanna@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Fri, 29 Jan 2010 21:35:59 +0000
Subject: [PATCH] Bug fix in custom override of queryOverlapping.

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2743 348d0f76-0448-11de-a6fe-93d51630548a
---
 java/src/net/sf/samtools/BAMFileReader2.java | 5 ++++-
 1 file changed, 4 insertions(+), 1 deletion(-)

diff --git a/java/src/net/sf/samtools/BAMFileReader2.java b/java/src/net/sf/samtools/BAMFileReader2.java
index 54a23b090..51030e534 100644
--- a/java/src/net/sf/samtools/BAMFileReader2.java
+++ b/java/src/net/sf/samtools/BAMFileReader2.java
@@ -565,7 +565,10 @@ class BAMFileReader2
          * Closes down the existing iterator.
          */
         public void close() {
-            wrappedIterator.close();
+            if (this != mCurrentIterator) {
+                throw new IllegalStateException("Attempt to close non-current iterator");
+            }
+            mCurrentIterator = null;
         }
 
         /**