try with clean db

Author: blink1073

.evergreen/scaffold_atlas.py

@@ -83,21 +83,25 @@ def create_index(client: MongoClient, filename: Path) -> None:
     indexes = [index["name"] for index in collection.list_search_indexes()]
     if index_name not in indexes:
         collection.create_search_index(search_index)
-        logger.debug("waiting for search index to be ready...")
-        wait_until_complete = 60
-        _wait_for_predicate(
-            predicate=lambda: _is_index_ready(collection, index_name),
-            err=f"Index {index_name} update did not complete in {wait_until_complete}!",
-            timeout=wait_until_complete,
-        )
-        logger.debug("waiting for search index to be ready... done.")
+
     else:
         logger.debug(
-            "search index already exists!: %s on %s.%s",
+            "search index already exists, updating: %s on %s.%s",
             index_name,
             database_name,
             collection_name,
         )
+        collection.update_search_index(index_name, loaded_index_configuration)
+
+    logger.debug("waiting for search index to be ready...")
+    wait_until_complete = 60
+    _wait_for_predicate(
+        predicate=lambda: _is_index_ready(collection, index_name),
+        err=f"Index {index_name} update did not complete in {wait_until_complete}!",
+        timeout=wait_until_complete,
+    )
+    logger.debug("waiting for search index to be ready... done.")
+
     logger.debug(
         "creating search index: %s on %s.%s... done",
         index_name,