diff --git a/scripts-dev/update_database b/scripts-dev/update_database
index 27a1ad1e7..1776d202c 100755
--- a/scripts-dev/update_database
+++ b/scripts-dev/update_database
@@ -58,10 +58,10 @@ if __name__ == "__main__":
             " on it."
         )
     )
-    parser.add_argument("-v", action='store_true')
+    parser.add_argument("-v", action="store_true")
     parser.add_argument(
         "--database-config",
-        type=argparse.FileType('r'),
+        type=argparse.FileType("r"),
         required=True,
         help="A database config file for either a SQLite3 database or a PostgreSQL one.",
     )
@@ -101,10 +101,7 @@ if __name__ == "__main__":
 
     # Instantiate and initialise the homeserver object.
     hs = MockHomeserver(
-        config,
-        database_engine,
-        db_conn,
-        db_config=config.database_config,
+        config, database_engine, db_conn, db_config=config.database_config,
     )
     # setup instantiates the store within the homeserver object.
     hs.setup()
@@ -112,13 +109,13 @@ if __name__ == "__main__":
 
     @defer.inlineCallbacks
     def run_background_updates():
-        yield store.run_background_updates(sleep=False)
+        yield store.db.updates.run_background_updates(sleep=False)
         # Stop the reactor to exit the script once every background update is run.
         reactor.stop()
 
     # Apply all background updates on the database.
-    reactor.callWhenRunning(lambda: run_as_background_process(
-        "background_updates", run_background_updates
-    ))
+    reactor.callWhenRunning(
+        lambda: run_as_background_process("background_updates", run_background_updates)
+    )
 
     reactor.run()
diff --git a/scripts/synapse_port_db b/scripts/synapse_port_db
index 7a2e177d3..72061177c 100755
--- a/scripts/synapse_port_db
+++ b/scripts/synapse_port_db
@@ -365,7 +365,9 @@ class Porter(object):
 
                 return headers, forward_rows, backward_rows
 
-            headers, frows, brows = yield self.sqlite_store.db.runInteraction("select", r)
+            headers, frows, brows = yield self.sqlite_store.db.runInteraction(
+                "select", r
+            )
 
             if frows or brows:
                 if frows:
@@ -521,7 +523,9 @@ class Porter(object):
     @defer.inlineCallbacks
     def run_background_updates_on_postgres(self):
         # Manually apply all background updates on the PostgreSQL database.
-        postgres_ready = yield self.postgres_store.has_completed_background_updates()
+        postgres_ready = (
+            yield self.postgres_store.db.updates.has_completed_background_updates()
+        )
 
         if not postgres_ready:
             # Only say that we're running background updates when there are background
@@ -529,9 +533,9 @@ class Porter(object):
             self.progress.set_state("Running background updates on PostgreSQL")
 
         while not postgres_ready:
-            yield self.postgres_store.do_next_background_update(100)
+            yield self.postgres_store.db.updates.do_next_background_update(100)
             postgres_ready = yield (
-                self.postgres_store.has_completed_background_updates()
+                self.postgres_store.db.updates.has_completed_background_updates()
             )
 
     @defer.inlineCallbacks
@@ -541,7 +545,7 @@ class Porter(object):
 
             # Check if all background updates are done, abort if not.
             updates_complete = (
-                yield self.sqlite_store.has_completed_background_updates()
+                yield self.sqlite_store.db.updates.has_completed_background_updates()
             )
             if not updates_complete:
                 sys.stderr.write(