Skip to content
Snippets Groups Projects
Verified Commit 801d4f6a authored by Laurent Modolo's avatar Laurent Modolo
Browse files

bwa: fix bug :46

parent e801efee
No related branches found
No related tags found
No related merge requests found
......@@ -43,7 +43,7 @@ if (file_id.containsKey('library')) {
bwa_mem_R = "@RG\\tID:${library}\\tSM:${library}\\tLB:lib_${library}\\tPL:illumina"
"""
bwa mem -t ${task.cpus} \
-R '${params.bwa_mem_R}' \
-R '${bwa_mem_R}' \
${index_id} ${reads[0]} ${reads[1]} 2> \
${file_id}_bwa_report.txt | \
samtools view -@ ${task.cpus} -Sb - > ${file_id}.bam
......
0% Loading or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment