From 8ae97bd9c69000a900a56a296b1b2049d57584ac Mon Sep 17 00:00:00 2001
From: James Fellows Yates <jfy133@gmail.com>
Date: Thu, 27 Jul 2023 13:41:55 +0200
Subject: [PATCH] Remove now unnecessary variable from command

---
 modules/nf-core/centrifuge/centrifuge/main.nf | 3 +--
 1 file changed, 1 insertion(+), 2 deletions(-)

diff --git a/modules/nf-core/centrifuge/centrifuge/main.nf b/modules/nf-core/centrifuge/centrifuge/main.nf
index 964ee2cdfff..29f851174c7 100644
--- a/modules/nf-core/centrifuge/centrifuge/main.nf
+++ b/modules/nf-core/centrifuge/centrifuge/main.nf
@@ -47,8 +47,7 @@ process CENTRIFUGE_CENTRIFUGE {
         --report-file ${prefix}.report.txt \\
         -S ${prefix}.results.txt \\
         $unaligned \\
-        $aligned \\
-        $sam_output \\
+        $aligned
 
     cat <<-END_VERSIONS > versions.yml
     "${task.process}":