fix

broadinstitute · Jan 14, 2025 · 322a395 · 322a395
1 parent 5242458
commit 322a395
Showing 1 changed file with 2 additions and 1 deletion.
diff --git a/pipes/WDL/tasks/tasks_ncbi.wdl b/pipes/WDL/tasks/tasks_ncbi.wdl
@@ -869,7 +869,8 @@ task biosample_to_genbank {
           if special.startswith('Influenza'):
             print("special organism is Influenza A/B/C")
             # simplify isolate name
-            header_key_map['isolate'] = 'strain'
+            if 'strain' in row.keys():
+              header_key_map['isolate'] = 'strain'
             for row in biosample_attributes:
               # populate serotype from name parsing
               match = re.search(r'\(([^()]+)\)+$', row['sample_name'])