Adapting tests

tests/test_run.py

@@ -64,8 +64,8 @@ expected_scores = {
 @pytest.mark.parametrize(
     "test_input, expected",
     [
-        ((FAKE_ANNOT_BIO, FAKE_PREDICT_BIO, THRESHOLD), expected_scores),
-        ((FAKE_BIO_NESTED, FAKE_BIO_NESTED, THRESHOLD), expected_scores_nested),
+        ((FAKE_ANNOT_BIO, FAKE_PREDICT_BIO, THRESHOLD, True), expected_scores),
+        ((FAKE_BIO_NESTED, FAKE_BIO_NESTED, THRESHOLD, True), expected_scores_nested),
     ],
 )
 def test_run(test_input, expected):