From 770a35d7aca245ef12f9d820b90d639c398bdfb0 Mon Sep 17 00:00:00 2001
From: "James A. Fellows Yates" <jfy133@gmail.com>
Date: Tue, 29 Nov 2022 12:49:20 +0100
Subject: [PATCH] Update conf/modules.config

---
 conf/modules.config | 12 +++++++-----
 1 file changed, 7 insertions(+), 5 deletions(-)

diff --git a/conf/modules.config b/conf/modules.config
index 7327a2b..9494e02 100644
--- a/conf/modules.config
+++ b/conf/modules.config
@@ -446,11 +446,13 @@ process {
     }
 
     withName: MOTUS_PROFILE {
-        ext.args = { [ 
-		params.save_ncbi_id ? "-p" : "",
-		params.save_read_counts ? "-c" : "",
-		params.save_mgc_counts ?  "-M ${task.ext.prefix}.mgc" : ""
-	].join(',').replaceAll(','," ") }
+        ext.args = { 
+            [ 
+		        params.save_ncbi_id ? "-p" : "",
+		        params.save_read_counts ? "-c" : "",
+		        params.save_mgc_counts ?  "-M ${task.ext.prefix}.mgc" : ""
+	        ].join(',').replaceAll(','," ")
+	    }
         ext.prefix = params.perform_runmerging ? { "${meta.id}-${meta.db_name}" } : { "${meta.id}-${meta.run_accession}-${meta.db_name}" }
         publishDir = [
             path: { "${params.outdir}/motus/${meta.db_name}/" },