Set dtype of strain column in sequence index

Sets the dtype of the strain column in the sequence index to "string" prior to annotating metadata with that index. This change prevents pandas from inferring the dtype as numeric when strain names are all numeric. Fixes #948
nextstrain · May 25, 2022 · c49a5a6 · c49a5a6
1 parent 861840f
commit c49a5a6
Showing 1 changed file with 1 addition and 0 deletions.
diff --git a/scripts/annotate_metadata_with_index.py b/scripts/annotate_metadata_with_index.py
@@ -18,6 +18,7 @@
     index = pd.read_csv(
         args.sequence_index,
         sep="\t",
+        dtype={"strain": "string"}
     ).drop(
         columns=["length"],
     )