diff --git a/src/RNAseq_sen1D.nf b/src/RNAseq_sen1D.nf index 361028cbac69bfc533ab40bd24c6a5aed0517252..13269ddaa2bdc6fc6c12b51d10796ffefa8bb368 100644 --- a/src/RNAseq_sen1D.nf +++ b/src/RNAseq_sen1D.nf @@ -157,17 +157,11 @@ fi } /* bams sorting */ + process sort_bam { - tag "${pair_id}.bam" + tag "$bam.baseName" cpus 4 - input: - file bam from bam_files - - output: - file "*_sorted.bam" into sorted_bam_files - - script: """ samtools sort -@ ${task.cpus} -O BAM -o ${bam.baseName}_sorted.bam ${bam} """