From dcf2fa361d60ca6810b8c736ce590c3f39ae6f79 Mon Sep 17 00:00:00 2001
From: Eric Banks <ebanks@broadinstitute.org>
Date: Wed, 21 Mar 2012 12:14:31 -0400
Subject: [PATCH] Minor cleanup

---
 .../iterators/MalformedBAMErrorReformatingIterator.java     | 6 ++----
 1 file changed, 2 insertions(+), 4 deletions(-)

diff --git a/public/java/src/org/broadinstitute/sting/gatk/iterators/MalformedBAMErrorReformatingIterator.java b/public/java/src/org/broadinstitute/sting/gatk/iterators/MalformedBAMErrorReformatingIterator.java
index ca155a27f..18bf16d71 100644
--- a/public/java/src/org/broadinstitute/sting/gatk/iterators/MalformedBAMErrorReformatingIterator.java
+++ b/public/java/src/org/broadinstitute/sting/gatk/iterators/MalformedBAMErrorReformatingIterator.java
@@ -1,12 +1,10 @@
 package org.broadinstitute.sting.gatk.iterators;
 
-import net.sf.samtools.SAMFormatException;
 import net.sf.samtools.SAMRecord;
 import net.sf.samtools.util.CloseableIterator;
 import org.broadinstitute.sting.utils.exceptions.UserException;
 
 import java.io.File;
-import java.io.IOException;
 import java.util.Iterator;
 
 /**
@@ -24,7 +22,7 @@ public class MalformedBAMErrorReformatingIterator implements CloseableIterator<S
     public boolean hasNext() {
         try {
             return this.it.hasNext();
-        } catch ( RuntimeException e ) { // we need to catch RuntimeExceptions here because the Picard code is throwing them (among SAMFileExceptions) sometimes
+        } catch ( RuntimeException e ) { // we need to catch RuntimeExceptions here because the Picard code is throwing them (among SAMFormatExceptions) sometimes
             throw new UserException.MalformedBAM(source, e.getMessage());
         }
     }
@@ -32,7 +30,7 @@ public class MalformedBAMErrorReformatingIterator implements CloseableIterator<S
     public SAMRecord next() {
         try {
             return it.next();
-        } catch ( RuntimeException e ) { // we need to catch RuntimeExceptions here because the Picard code is throwing them (among SAMFileExceptions) sometimes
+        } catch ( RuntimeException e ) { // we need to catch RuntimeExceptions here because the Picard code is throwing them (among SAMFormatExceptions) sometimes
             throw new UserException.MalformedBAM(source, e.getMessage());
         }
     }