Make existing tests pass

movement/io/load_bboxes.py

@@ -350,7 +350,7 @@ def from_via_tracks_file(
 
 
 def _numpy_arrays_from_via_tracks_file(
-    file_path: Path, frame_regexp: str
+    file_path: Path, frame_regexp: str = r"(0\d*)\.\w+$"
 ) -> dict:
     """Extract numpy arrays from the input VIA tracks .csv file.
 
@@ -376,9 +376,9 @@ def _numpy_arrays_from_via_tracks_file(
 
     frame_regexp : str
         Regular expression pattern to extract the frame number from the
-        filename. The frame number is expected to be encoded in the filename
-        as an integer number led by at least one zero, followed by the file
-        extension.
+        filename. By default, the frame number is expected to be encoded in
+        the filename as an integer number led by at least one zero, followed
+        by the file extension.
 
     Returns
     -------
@@ -428,7 +428,7 @@ def _numpy_arrays_from_via_tracks_file(
 
 
 def _df_from_via_tracks_file(
-    file_path: Path, frame_regexp: str
+    file_path: Path, frame_regexp: str = r"(0\d*)\.\w+$"
 ) -> pd.DataFrame:
     """Load VIA tracks .csv file as a dataframe.
 
@@ -495,7 +495,7 @@ def _df_from_via_tracks_file(
     return df
 
 
-def _extract_confidence_from_via_tracks_df(df) -> np.ndarray:
+def _extract_confidence_from_via_tracks_df(df: pd.DataFrame) -> np.ndarray:
     """Extract confidence scores from the VIA tracks input dataframe.
 
     Parameters
@@ -526,7 +526,9 @@ def _extract_confidence_from_via_tracks_df(df) -> np.ndarray:
     return bbox_confidence
 
 
-def _extract_frame_number_from_via_tracks_df(df, frame_regexp) -> np.ndarray:
+def _extract_frame_number_from_via_tracks_df(
+    df: pd.DataFrame, frame_regexp: str = r"(0\d*)\.\w+$"
+) -> np.ndarray:
     """Extract frame numbers from the VIA tracks input dataframe.
 
     Parameters

tests/test_unit/test_load_bboxes.py

@@ -425,7 +425,9 @@ def test_df_from_via_tracks_file(via_tracks_file):
     """Test that the helper function correctly reads the VIA tracks .csv file
     as a dataframe.
     """
-    df = load_bboxes._df_from_via_tracks_file(via_tracks_file)
+    df = load_bboxes._df_from_via_tracks_file(
+        file_path=via_tracks_file,
+    )
 
     assert isinstance(df, pd.DataFrame)
     assert len(df.frame_number.unique()) == 5

tests/test_unit/test_validators/test_datasets_validators.py

@@ -360,10 +360,16 @@ def test_bboxes_dataset_validator_confidence_array(
             f"Expected a numpy array, but got {type(list())}.",
         ),  # not an ndarray, should raise ValueError
         (
-            np.array([1, 2, 3, 4, 6, 7, 8, 9, 10, 11]).reshape(-1, 1),
+            np.array([1, 2, 3, 6, 7, 8, 4, 9, 10, 11]).reshape(-1, 1),
             pytest.raises(ValueError),
-            "Frame numbers in frame_array are not continuous.",
-        ),  # frame numbers are not continuous
+            "Frame numbers in frame_array are not monotonically increasing.",
+        ),
+        (
+            np.array([1, 2, 3, 5, 6, 7, 8, 9, 10, 11]).reshape(-1, 1),
+            does_not_raise(),
+            "",
+        ),  # valid, frame numbers are not continuous but are monotonically
+        # increasing
         (
             None,
             does_not_raise(),
@@ -389,10 +395,10 @@ def test_bboxes_dataset_validator_frame_array(
             frame_array=frame_array,
         )
 
-    if frame_array is None:
+    if frame_array is not None:
+        assert str(getattr(excinfo, "value", "")) == log_message
+    else:
         n_frames = ds.position_array.shape[0]
         default_frame_array = np.arange(n_frames).reshape(-1, 1)
         assert np.array_equal(ds.frame_array, default_frame_array)
         assert ds.frame_array.shape == (ds.position_array.shape[0], 1)
-    else:
-        assert str(excinfo.value) == log_message