Fixbug: reference

tasks/VEP.wdl

@@ -74,8 +74,8 @@ task VEP {
     perl ${vcf2maf_path}/vcf2vcf.pl \
     --input-vcf ${sample_id}.vcf --output-vcf ${basename}.norm.vcf \
     $SAMPLE \
-    --ref-fasta ${reference}
-    
+    --ref-fasta ${ref_dir}/${fasta}
+
     # VEP annotation
     perl ${vep_path}/vep --format vcf --vcf \
     --assembly ${ncbi_build} \