forestall wrong sequence completeness inference

oschwengers · Dec 4, 2023 · 231788b · 231788b
1 parent bb8366a
commit 231788b
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/bakta/utils.py b/bakta/utils.py
@@ -407,7 +407,7 @@ def qc_contigs(contigs: Sequence[dict], replicons: Dict[str, dict]) -> Tuple[Seq
                 contig['complete'] = True
                 contig['topology'] = bc.TOPOLOGY_CIRCULAR
                 log.debug('qc: detected Unicycler circular topology via description: id=%s, description=%s', contig['id'], contig['description'])
-            elif('complete' in contig_description):  # detection of public/described sequences
+            elif('complete' in contig_description and 'complete=false' not in contig_description):  # detection of public/described sequences
                 contig['complete'] = True
                 contig['topology'] = bc.TOPOLOGY_CIRCULAR
                 log.debug('qc: detected complete replicon via description: id=%s, description=%s', contig['id'], contig['description'])