From b71b66bd885da9b4fd097f4b4c8afe82da35076c Mon Sep 17 00:00:00 2001
From: aaron <aaron@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Mon, 2 Nov 2009 20:22:25 +0000
Subject: [PATCH] the underlying parameter is a float so we need to use
 Float.valueOf() instead; Noticed by external user Hou Huabin

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1958 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../sting/gatk/walkers/filters/VECHomopolymer.java           | 5 ++---
 1 file changed, 2 insertions(+), 3 deletions(-)

diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/filters/VECHomopolymer.java b/java/src/org/broadinstitute/sting/gatk/walkers/filters/VECHomopolymer.java
index f33fe54c5..91b960f53 100755
--- a/java/src/org/broadinstitute/sting/gatk/walkers/filters/VECHomopolymer.java
+++ b/java/src/org/broadinstitute/sting/gatk/walkers/filters/VECHomopolymer.java
@@ -1,5 +1,6 @@
 package org.broadinstitute.sting.gatk.walkers.filters;
 
+import net.sf.picard.reference.ReferenceSequence;
 import org.broadinstitute.sting.gatk.contexts.AlignmentContext;
 import org.broadinstitute.sting.gatk.contexts.VariantContext;
 import org.broadinstitute.sting.utils.BaseUtils;
@@ -9,8 +10,6 @@ import java.io.File;
 import java.io.IOException;
 import java.util.HashMap;
 
-import net.sf.picard.reference.ReferenceSequence;
-
 
 /**
  * Created by IntelliJ IDEA.
@@ -33,7 +32,7 @@ public class VECHomopolymer implements VariantExclusionCriterion {
         if ( args.get("extent") != null )
             extent = Integer.valueOf(args.get("extent"));
         if ( args.get("fraction") != null )
-            frac = Integer.valueOf(args.get("fraction"));
+            frac = Float.valueOf(args.get("fraction"));
 
         File refFile = new File ("/seq/references/Homo_sapiens_assembly18/v0/Homo_sapiens_assembly18.fasta");