From b65fedb83122009b39ccadbcfaaee1878ed04cb3 Mon Sep 17 00:00:00 2001
From: Sascha Meiers <meiers@embl.de>
Date: Wed, 20 Jun 2018 17:36:48 +0200
Subject: [PATCH] Changed bash script because a for Loop caused bash 4.4 to
hang within Docker
---
Snakefile | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/Snakefile b/Snakefile
index c6f565c..9e6396d 100644
--- a/Snakefile
+++ b/Snakefile
@@ -549,8 +549,8 @@ rule combine_strandphaser_output:
shell:
"""
set +o pipefail
- cat {input} | head -n1 > {output} 2> {log};
- for x in {input}; do tail -n+2 $x >> {output} 2>> {log}; done;
+ cat {input} | head -n1 > {output};
+ tail -q -n+2 {input} >> {output};
"""
--
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