Automatically drop is_lab_host=true records during phylogenetic workflow

nextstrain · Dec 18, 2024 · 4acba65 · 4acba65
1 parent a56685a
commit 4acba65
Showing 1 changed file with 2 additions and 1 deletion.
diff --git a/phylogenetic/rules/prepare_sequences.smk b/phylogenetic/rules/prepare_sequences.smk
@@ -75,7 +75,8 @@ rule filter:
             --group-by {params.group_by} \
             --sequences-per-group {params.sequences_per_group} \
             --min-length {params.min_length} \
-            --exclude-where country=? region=? date=? \
+            --exclude-where country=? region=? date=? is_lab_host='true' \
+            --query-columns is_lab_host:str
         """
 
 rule align: