From 0bca588629ee24c45918fa7557a0582b9f60ecbd Mon Sep 17 00:00:00 2001
From: hanna <hanna@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Mon, 11 May 2009 22:53:52 +0000
Subject: [PATCH] Botched some boolean logic.

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@658 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../sting/playground/gatk/walkers/ReadErrorRateWalker.java      | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/java/src/org/broadinstitute/sting/playground/gatk/walkers/ReadErrorRateWalker.java b/java/src/org/broadinstitute/sting/playground/gatk/walkers/ReadErrorRateWalker.java
index 128dde640..c6d5e4cd3 100755
--- a/java/src/org/broadinstitute/sting/playground/gatk/walkers/ReadErrorRateWalker.java
+++ b/java/src/org/broadinstitute/sting/playground/gatk/walkers/ReadErrorRateWalker.java
@@ -31,7 +31,7 @@ public class ReadErrorRateWalker extends ReadWalker<boolean[], int[]> {
      * @return true if the read can be processed, false if it should be ignored
      */
     public boolean filter(char[] ref, SAMRecord read) {
-        return (read.getCigar().numCigarElements() == 1 && read.getReadLength() > ref.length);
+        return (read.getCigar().numCigarElements() == 1 && read.getReadLength() <= ref.length);
     }
 
     /**