Add file to command line parser

broadinstitute · Feb 9, 2024 · 3124a44 · 3124a44
1 parent 66e28a5
commit 3124a44
Showing 1 changed file with 5 additions and 0 deletions.
diff --git a/src/main/scala/org/broadinstitute/gpp/poolq3/PoolQConfig.scala b/src/main/scala/org/broadinstitute/gpp/poolq3/PoolQConfig.scala
@@ -254,6 +254,11 @@ object PoolQConfig {
         val _ =
           opt[Path]("quality").valueName("<file>").action((f, c) => c.copy(output = c.output.copy(qualityFile = f)))
 
+        val _ =
+          opt[Path]("condition-barcode-counts-summary")
+            .valueName("<file>")
+            .action((f, c) => c.copy(output = c.output.copy(conditionBarcodeCountsSummaryFile = f)))
+
         val _ = opt[Path]("counts").valueName("<file>").action((f, c) => c.copy(output = c.output.copy(countsFile = f)))
 
         val _ = opt[Path]("normalized-counts").valueName("<file>").action { (f, c) =>