Update long_read.smk

IKIM-Essen · Feb 16, 2022 · 095d223 · 095d223
1 parent 35d0b56
commit 095d223
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/workflow/rules/long_read.smk b/workflow/rules/long_read.smk
@@ -80,7 +80,7 @@ rule porechop_primer_trimming:
         "logs/{date}/trimmed/porechop/primer_clipped/{sample}.log",
     threads: 2
     shell:
-        "(porechop -i {input.fastq_in} -o {output} --no_split --end_size 35 --extra_end_trim 0 -t {threads} -v 1) 2> {log}"
+        "(porechop -i {input.fastq_in} -o {output} --no_split --end_size 35 --extra_end_trim 0 -t {threads} -v 1) > {log} 2>&1"
 
 
 rule nanofilt: