Closed replikation closed 5 months ago
current pangolin output table (conflict removed):
taxon,lineage,SH-alrt,UFbootstrap,lineages_version,status,note
needs adjustments in the workflow
old columns for reference:
{ grep "taxon," || exit 1; } { grep ",lineage," || exit 1; } { grep ",conflict," || exit 1; } { grep ",scorpio_call," || exit 1; } { grep ",scorpio_conflict," || exit 1; } { grep ",pangolin_version," || exit 1; } { grep ",scorpio_version," || exit 1; } { grep ",constellation_version," || exit 1; } { grep ",version," || exit 1; } { grep ",qc_status," || exit 1; } { grep ",qc_notes," || exit 1; }
and a new pangolin container update to avoid version conflicts
current pangolin output table (conflict removed):
taxon,lineage,SH-alrt,UFbootstrap,lineages_version,status,note
needs adjustments in the workflow
old columns for reference: