diff --git a/tasks/task_taxonID.wdl b/tasks/task_taxonID.wdl index 8f9e1b8b..0ec524e2 100644 --- a/tasks/task_taxonID.wdl +++ b/tasks/task_taxonID.wdl @@ -129,6 +129,7 @@ task pangolin4 { Float max_ambig = 0.5 String docker = "quay.io/staphb/pangolin:4.0.4-pdata-1.2.133" String? analysis_mode + String? pangolin_arguments } command <<< set -e @@ -143,7 +144,8 @@ task pangolin4 { ~{'--min-length ' + min_length} \ ~{'--max-ambig ' + max_ambig} \ --outfile "~{samplename}.pangolin_report.csv" \ - --verbose + --verbose \ + ~{pangolin_arguments} python3 <