diff --git a/modules/minimap2.nf b/modules/minimap2.nf index af7ed58..86660c3 100644 --- a/modules/minimap2.nf +++ b/modules/minimap2.nf @@ -14,7 +14,7 @@ process ALIGN_WITH_PRESET { script: preset = params.platform == "ont" ? "map-ont" : "sr" - secondary = params.secondary ? "no" : "ues" + secondary = params.secondary ? "no" : "yes" """ minimap2 \ --secondary=${secondary} \