Fix bug: Haplotyper

tasks/Haplotyper.wdl

@@ -30,13 +30,6 @@ task Haplotyper {
       INTERVAL=""
     fi
 
-    if [ ${pon_vcf} ]; then
-      PON="--pon ${pon_vcf}"
-      ${SENTIEON_INSTALL_DIR}/bin/sentieon util vcfindex ${pon_vcf}
-    else
-      PON=""
-    fi
-
     ${SENTIEON_INSTALL_DIR}/bin/sentieon driver -t $nt \
 	--interval ${regions} -r ${ref_dir}/${fasta} \
 	-i ${recaled_bam} -q ${recal_table}\