process QUASIRECOMB { tag "${prefix}" label 'process_high' label 'quasirecomb' container 'quay.io/biocontainers/quasirecomb:1.2--hdfd78af_1' input: tuple val(prefix), path(bam), path(bai) output: tuple val(prefix), path("*.fasta") publishDir "results/${task.process}", mode: 'copy' when: task.ext.when == null || task.ext.when script: def jmemstring = task.memory.toMega() + 'M' """ quasirecomb \\ -XX:+UseParallelGC \\ -Xms2g \\ -Xmx${jmemstring} \\ -XX:+UseNUMA \\ -XX:NewRatio=9 \\ -i "${bam}" mv quasispecies.fasta "${prefix}.fasta" """ }