require values for the various filtering-related Boolean inputs in al…

…ign_and_count require values for the various filtering-related Boolean inputs in align_and_count, since the default values guarantee they'll be set
broadinstitute · Mar 9, 2024 · 78f8fa0 · 78f8fa0
1 parent 7eaec98
commit 78f8fa0
Showing 1 changed file with 4 additions and 4 deletions.
diff --git a/pipes/WDL/tasks/tasks_reports.wdl b/pipes/WDL/tasks/tasks_reports.wdl
@@ -392,10 +392,10 @@ task align_and_count {
     File   ref_db
     Int    topNHits = 3
 
-    Boolean? filter_bam_to_proper_primary_mapped_reads         = false
-    Boolean? do_not_require_proper_mapped_pairs_when_filtering = false
-    Boolean? keep_singletons_when_filtering                    = false
-    Boolean? keep_duplicates_when_filtering                    = false
+    Boolean filter_bam_to_proper_primary_mapped_reads         = false
+    Boolean do_not_require_proper_mapped_pairs_when_filtering = false
+    Boolean keep_singletons_when_filtering                    = false
+    Boolean keep_duplicates_when_filtering                    = false
 
     Int?   machine_mem_gb
     String docker = "quay.io/broadinstitute/viral-core:2.3.0"