From bef1c50b3b11bdd60da3ea6123c23c2a0fd4e5a4 Mon Sep 17 00:00:00 2001
From: ebanks <ebanks@348d0f76-0448-11de-a6fe-93d51630548a>
Date: Wed, 16 Dec 2009 21:41:06 +0000
Subject: [PATCH] Some cleanup

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2382 348d0f76-0448-11de-a6fe-93d51630548a
---
 .../sting/gatk/walkers/genotyper/UnifiedGenotyper.java   | 9 ++++-----
 1 file changed, 4 insertions(+), 5 deletions(-)

diff --git a/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyper.java b/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyper.java
index a87fc3cb5..b45430593 100755
--- a/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyper.java
+++ b/java/src/org/broadinstitute/sting/gatk/walkers/genotyper/UnifiedGenotyper.java
@@ -38,7 +38,6 @@ import org.broadinstitute.sting.utils.genotype.*;
 import org.broadinstitute.sting.utils.genotype.vcf.*;
 
 import net.sf.samtools.SAMReadGroupRecord;
-import net.sf.picard.filter.SamRecordFilter;
 
 import java.io.File;
 import java.util.*;
@@ -184,10 +183,10 @@ public class UnifiedGenotyper extends LocusWalker<Pair<VariationCall, List<Genot
             headerInfo.addAll(VCFGenotypeRecord.getSupportedHeaderStrings());
 
         // all of the arguments from the argument collection
-        Set<Object> x = new HashSet<Object>();
-        x.add(UAC);
-        x.addAll(getToolkit().getFilters());
-        Map<String,String> commandLineArgs = CommandLineUtils.getApproximateCommandLineArguments(x);
+        Set<Object> args = new HashSet<Object>();
+        args.add(UAC);
+        args.addAll(getToolkit().getFilters());
+        Map<String,String> commandLineArgs = CommandLineUtils.getApproximateCommandLineArguments(args);
         for ( Map.Entry<String, String> commandLineArg : commandLineArgs.entrySet() )
             headerInfo.add(new VCFHeaderLine(String.format("UG_%s", commandLineArg.getKey()), commandLineArg.getValue()));