diff --git a/pipelines/nextflow/modules/omark/omark_output.nf b/pipelines/nextflow/modules/omark/omark_output.nf index c83d647..b6f6489 100644 --- a/pipelines/nextflow/modules/omark/omark_output.nf +++ b/pipelines/nextflow/modules/omark/omark_output.nf @@ -30,10 +30,10 @@ process OMARK_OUTPUT { path("*_proteins_detailed_summary.txt"), emit:summary_file script: - """ + def summary_name = summary_file def species = db.species.toLowerCase() def gca = db.gca.toLowerCase().replaceAll(/\./, "v").replaceAll(/_/, "") summary_name = [species, gca, "omark", "proteins_detailed_summary.txt"].join("_") - """ + }