Merge pull request #139 from wustl-oncology/mutect_localization_optional_false

malachig · web-flow · commit 7d822f0f5d5a · 2024-08-26T21:27:57.000-05:00
changing localization_optional to false in mutect tool
diff --git a/definitions/tools/mutect.wdl b/definitions/tools/mutect.wdl
@@ -16,10 +16,10 @@ task mutect {
   }
 
   parameter_meta {
-    tumor_bam: { localization_optional: true }
-    tumor_bam_bai: { localization_optional: true }
-    normal_bam: { localization_optional: true }
-    normal_bam_bai: { localization_optional: true }
+    tumor_bam: { localization_optional: false }
+    tumor_bam_bai: { localization_optional: false }
+    normal_bam: { localization_optional: false }
+    normal_bam_bai: { localization_optional: false }
   }
 
   Float reference_size = size([reference, reference_fai, reference_dict], "GB")

Original file line number	Diff line number	Diff line change
`@@ -16,10 +16,10 @@ task mutect {`
`16`	`16`	`}`
`17`	`17`
`18`	`18`	`parameter_meta {`
`19`		`- tumor_bam: { localization_optional: true }`
`20`		`- tumor_bam_bai: { localization_optional: true }`
`21`		`- normal_bam: { localization_optional: true }`
`22`		`- normal_bam_bai: { localization_optional: true }`
	`19`	`+ tumor_bam: { localization_optional: false }`
	`20`	`+ tumor_bam_bai: { localization_optional: false }`
	`21`	`+ normal_bam: { localization_optional: false }`
	`22`	`+ normal_bam_bai: { localization_optional: false }`
`23`	`23`	`}`
`24`	`24`
`25`	`25`	`Float reference_size = size([reference, reference_fai, reference_dict], "GB")`