From e7bfb733cdbe76cc07ef9c272d644a8f0db1b283 Mon Sep 17 00:00:00 2001 From: Laurent Modolo <laurent.modolo@ens-lyon.fr> Date: Sat, 20 Feb 2021 08:31:54 +0100 Subject: [PATCH] bwa: fix typo :42 --- src/nf_modules/bwa/main.nf | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/nf_modules/bwa/main.nf b/src/nf_modules/bwa/main.nf index a6b60adc..e97f218a 100644 --- a/src/nf_modules/bwa/main.nf +++ b/src/nf_modules/bwa/main.nf @@ -39,7 +39,7 @@ process mapping_fastq { bwa mem -t ${task.cpus} \ ${index_id} ${reads[0]} ${reads[1]} 2> \ ${file_id}_bwa_report.txt | \ - samtools view -@ ${task.cpus} -Sb - > ${pair_id}.bam + samtools view -@ ${task.cpus} -Sb - > ${file_id}.bam """ } -- GitLab