input template updates to accommodate scoregenotypes

Author: epiercehoffman

inputs/templates/terra_workspaces/cohort_mode/workflow_configurations/FilterGenotypes.json.tmpl

@@ -1,5 +1,5 @@
 {
-  "FilterGenotypes.vcf": "${this.concordance_vcf}",
+  "FilterGenotypes.vcf": "${this.unfiltered_recalibrated_vcf}",
   "FilterGenotypes.output_prefix": "${this.sample_set_set_id}",
   "FilterGenotypes.ploidy_table": "${this.ploidy_table}",
 

scripts/test/terra_validation.py

@@ -113,7 +113,7 @@ def main():
     parser.add_argument("-j", "--womtool-jar", help="Path to womtool jar", required=True)
     parser.add_argument("-n", "--num-input-jsons",
                         help="Number of Terra input JSONs expected",
-                        required=False, default=25, type=int)
+                        required=False, default=26, type=int)
     parser.add_argument("--log-level",
                         help="Specify level of logging information, ie. info, warning, error (not case-sensitive)",
                         required=False, default="INFO")