hla reference location and human only bug

workflow/main.nf

@@ -5,7 +5,7 @@ params.fastqs="$params.input/*.fastq.gz"
 params.design="$params.input/design.txt"
 params.output = "$baseDir/output"
 
-params.genome="/project/shared/bicf_workflow_ref/GRCh38"
+params.genome="/project/shared/bicf_workflow_ref/human/GRCh38"
 params.capture="$params.genome/UTSWV2.bed"
 params.pairs="pe"
 params.cancer='skip'
@@ -122,7 +122,8 @@ process hlacalls {
 
   output:
   file("*.hisat_hla.*") into genotype
-  
+  when:
+  params.genome =~ /human/ 
   script:
   """
   bash $baseDir/process_scripts/alignment/hisat_genotype.sh -p $pair_id -x $fq1 -y $fq2

process_scripts @ a08836cd

-Subproject commit ee75859c118255085294e3cc981194b038ba8619
+Subproject commit a08836cddcd0092691f4242222e05d2d9078cbab