fix(MSIsensor): baseline

defaults

@@ -20,6 +20,7 @@
   "germline_resource": "oss://genomics-platform-reference-data/gnomAD/af-only-gnomad.v3.1.1.vcf.gz",
   "germline_resource_tbi": "oss://genomics-platform-reference-data/gnomAD/af-only-gnomad.v3.1.1.vcf.gz.tbi",
   "gc": "oss://ivd-product/reference/Sequenza/GRCh38.gc50Base.wig.gz",
+  "baseline": "oss://ivd-product/reference/MSIsensor/hg38_reference.list_baseline",
   "sentieon_docker": "registry.cn-shanghai.aliyuncs.com/choppy-pipe/sentieon-genomics:v202112.05",
   "manta_docker": "registry.cn-shanghai.aliyuncs.com/choppy-pipe/manta:1.6.0",
   "bcftools_docker": "registry.cn-shanghai.aliyuncs.com/choppy-pipe/bcftools:v1.9",

inputs

@@ -30,6 +30,7 @@
   "{{ project_name }}.annovar_database": "{{ annovar_database }}",
   "{{ project_name }}.annotsv_database": "{{ annotsv_database }}",
   "{{ project_name }}.gc": "{{ gc }}",
+  "{{ project_name }}.baseline": "{{ baseline }}",
   "{{ project_name }}.disk_size": "{{ disk_size }}",
   "{{ project_name }}.cluster_config": "{{ cluster_config }}"
 }

workflow.wdl

@@ -47,6 +47,7 @@ workflow {{ project_name }} {
   File annovar_database
   File annotsv_database
   File gc
+  File baseline
   
   File? regions
   Int? interval_padding