diff --git a/src/nf_modules/bwa/main.nf b/src/nf_modules/bwa/main.nf index d422ca0a79ca1aeb6d7e72598ba80a79cd07bfc3..f93b91e2b415f5864c39ceffce4e555a2a5ddf94 100644 --- a/src/nf_modules/bwa/main.nf +++ b/src/nf_modules/bwa/main.nf @@ -21,7 +21,6 @@ bwa index -p ${fasta.simpleName} ${fasta} \ } -params.bwa_mem_R = '@RG\\tID:${library}\\tSM:${library}\\tLB:lib_${library}\\tPL:illumina' process mapping_fastq { container = "${container_url}" label "big_mem_multi_cpus" @@ -36,6 +35,7 @@ process mapping_fastq { tuple val(file_id), path("${file_id}_bwa_report.txt"), emit: report script: +bwa_mem_R = "@RG\\tID:${library}\\tSM:${library}\\tLB:lib_${library}\\tPL:illumina" """ bwa mem -t ${task.cpus} \ -R '${params.bwa_mem_R}' \