summarise: exclude-off-target Output extras when asked.

wwood · Oct 31, 2024 · ce9a3eb · ce9a3eb
1 parent f9045bb
commit ce9a3eb
Showing 1 changed file with 4 additions and 1 deletion.
diff --git a/singlem/main.py b/singlem/main.py
@@ -919,7 +919,10 @@ def get_min_taxon_coverage(args, subparser='pipe'):
             else:
                 mpkg = Metapackage.acquire_default()
                 pkgs = mpkg.singlem_packages
-            o2.otu_table_objects.append(otus.exclude_off_target_hits(pkgs))
+            # Do not lose the extra columns if they are provided as input by
+            # using return_archive_table=True. Currently an issue here that it
+            # doesn't error when extra info is not provided as input.
+            o2.otu_table_objects.append(otus.exclude_off_target_hits(pkgs, return_archive_table=True))
             otus = o2
 
         if args.krona: