diff --git a/perl/liftOverVCF.pl b/perl/liftOverVCF.pl
index 23ff65239..42f56e632 100755
--- a/perl/liftOverVCF.pl
+++ b/perl/liftOverVCF.pl
@@ -34,7 +34,7 @@ my $unsorted_vcf = "$tmp_prefix.unsorted.vcf";
 
 # lift over the file
 print "Lifting over the vcf...";
-my $cmd = "java -jar $gatk/dist/GenomeAnalysisTK.jar -T LiftoverVCF -R $oldRef.fasta -B vcf,vcf,$in -o $unsorted_vcf -chain $chain -dict $newRef.dict";
+my $cmd = "java -jar $gatk/dist/GenomeAnalysisTK.jar -T LiftoverVariants -R $oldRef.fasta -B vcf,vcf,$in -o $unsorted_vcf -chain $chain -dict $newRef.dict";
 system($cmd);
 
 # we need to sort the lifted over file now
@@ -61,7 +61,7 @@ close(SORTED);
 
 # Filter the VCF for bad records
 print "\nFixing/removing bad records...\n";
-$cmd = "java -jar $gatk/dist/GenomeAnalysisTK.jar -T FilterLiftedVCF -R $newRef.fasta -B vcf,vcf,$sorted_vcf -o $out";
+$cmd = "java -jar $gatk/dist/GenomeAnalysisTK.jar -T FilterLiftedVariants -R $newRef.fasta -B vcf,vcf,$sorted_vcf -o $out";
 system($cmd);
 
 # clean up