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 x = new HashSet(); - x.add(UAC); - x.addAll(getToolkit().getFilters()); - Map commandLineArgs = CommandLineUtils.getApproximateCommandLineArguments(x); + Set args = new HashSet(); + args.add(UAC); + args.addAll(getToolkit().getFilters()); + Map commandLineArgs = CommandLineUtils.getApproximateCommandLineArguments(args); for ( Map.Entry commandLineArg : commandLineArgs.entrySet() ) headerInfo.add(new VCFHeaderLine(String.format("UG_%s", commandLineArg.getKey()), commandLineArg.getValue()));