Updating yml for 2 vcfs of known sites

[arvados-tutorial.git] / WGS-processing / yml / helper / bwamem-gatk-report-wf.yml

diff --git a/WGS-processing/yml/helper/bwamem-gatk-report-wf.yml b/WGS-processing/yml/helper/bwamem-gatk-report-wf.yml
index 5e5be2c355fdd3475dc6d423394a49b5c954c251..424189e6405ff43e828d93fc4537feadba925523 100644 (file)
--- a/WGS-processing/yml/helper/bwamem-gatk-report-wf.yml
+++ b/WGS-processing/yml/helper/bwamem-gatk-report-wf.yml
@@ -5,6 +5,10 @@ reference:
   format: edam:format_1929
   location: keep:a3af04432df3d71d22f2fe8be549ba96+5974/hg38.fa
 
+fullintervallist:
+  class: File
+  location: /data-sdd/pgp/testdata/full-noalt-scattered.interval_list
+
 fastq1:
   class: File
   format: edam:format_1930
@@ -36,7 +40,12 @@ tailhtml:
 
 scattercount: '32'
 
-knownsites:
+knownsites1:
+  class: File
+  format: edam:format_3016
+  location: keep:7c0b13bda857fa15d88c1039182f69d5+8052/Homo_sapiens_assembly38.dbsnp138.vcf
+
+knownsites2:
   class: File
   format: edam:format_3016
   location: keep:7c0b13bda857fa15d88c1039182f69d5+8052/Homo_sapiens_assembly38.known_indels.vcf.gz