renable all tests

tests/tests/test_brainmapper/test_transform_widget.py

@@ -137,15 +137,13 @@ def mock_display_info(mocker):
     )
 
 
-# @pytest.fixture(scope="function")
-# def transformation_widget_with_transformed_points(
-#     transformation_widget_with_data,
-# ):
-#     transformation_widget_with_data.
-#     run_transform_points_to_downsampled_space()
-#     transformation_widget_with_data.
-#     run_transform_downsampled_points_to_atlas_space()
-#     return transformation_widget_with_data
+@pytest.fixture(scope="function")
+def transformation_widget_with_transformed_points(
+    transformation_widget_with_data,
+):
+    transformation_widget_with_data.run_transform_points_to_downsampled_space()
+    transformation_widget_with_data.run_transform_downsampled_points_to_atlas_space()
+    return transformation_widget_with_data
 
 
 @pytest.fixture(scope="function")
@@ -268,23 +266,23 @@ def test_call_transform_points_to_atlas_space(
     mock_analyse_points.assert_called_once()
 
 
-# def test_transform_points_to_atlas_space(
-#     transformation_widget_with_transformed_points,
-# ):
-#     np.testing.assert_array_equal(
-#         transformation_widget_with_transformed_points.viewer.layers[
-#             "Points in downsampled space"
-#         ].data,
-#         points_in_downsampled_space,
-#     )
-#     np.testing.assert_array_equal(
-#         transformation_widget_with_transformed_points.viewer.layers[
-#             "Points in atlas space"
-#         ].data,
-#         points_in_atlas_space,
-#     )
-#
-#
+def test_transform_points_to_atlas_space(
+    transformation_widget_with_transformed_points,
+):
+    np.testing.assert_array_equal(
+        transformation_widget_with_transformed_points.viewer.layers[
+            "Points in downsampled space"
+        ].data,
+        points_in_downsampled_space,
+    )
+    np.testing.assert_array_equal(
+        transformation_widget_with_transformed_points.viewer.layers[
+            "Points in atlas space"
+        ].data,
+        points_in_atlas_space,
+    )
+
+
 def test_transformation_raises_info_points_out_of_bounds(
     transformation_widget_with_data, mock_display_info
 ):
@@ -428,89 +426,85 @@ def test_display_brainreg_directory_warning_calls_display_info(
     )
 
 
-#
-#
-# def test_analysis(transformation_widget_with_transformed_points):
-#     transformation_widget_with_transformed_points.analyse_points()
-#
-#     assert (
-#         transformation_widget_with_transformed_points.all_points_df.shape[0]
-#         == 21
-#     )
-#
-#     df = transformation_widget_with_transformed_points.points_per_region_df
-#     assert (
-#         df.loc[
-#             df["structure_name"] == "Caudoputamen", "left_cell_count"
-#         ].values[0]
-#         == 9
-#     )
-#     assert (
-#         df.loc[df["structure_name"] == "Pons", "left_cell_count"].values[0]
-#         == 1
-#     )
-#     assert (
-#         df.loc[
-#             df["structure_name"]
-#             == "Primary somatosensory area, upper limb, layer 5",
-#             "left_cells_per_mm3",
-#         ].values[0]
-#         == 0
-#     )
-
-
-# def test_save_df_to_csv(
-#     mocker,
-#     transformation_widget_with_transformed_points,
-#     sample_dataframe,
-#     tmp_path,
-# ):
-#     # Mock dialog to avoid need for UI
-#     mock_get_save_file_name = mocker.patch(
-#         "brainglobe_utils.brainmapper.transform_widget.
-#         QFileDialog.getSaveFileName"
-#     )
-#
-#     save_path = tmp_path / "test.csv"
-#     mock_get_save_file_name.return_value = (save_path, "CSV Files (*.csv)")
-#
-#     transformation_widget_with_transformed_points.save_df_to_csv(
-#         sample_dataframe
-#     )
-#
-#     # Ensure the file dialog was called
-#     mock_get_save_file_name.assert_called_once_with(
-#         transformation_widget_with_transformed_points,
-#         "Choose filename",
-#         "",
-#         "CSV Files (*.csv)",
-#     )
-#
-#     assert save_path.exists()
-
-
-# def test_save_all_points_and_summary_csv(
-#     mocker,
-#     transformation_widget_with_transformed_points,
-#     tmp_path,
-# ):
-#     transformation_widget_with_transformed_points.analyse_points()
-#
-#     # Mock dialog to avoid need for UI
-#     mock_get_save_file_name = mocker.patch(
-#         "brainglobe_utils.brainmapper.
-#         transform_widget.QFileDialog.getSaveFileName"
-#     )
-#
-#     save_path = tmp_path / "all_points.csv"
-#     mock_get_save_file_name.return_value = (save_path, "CSV Files (*.csv)")
-#     transformation_widget_with_transformed_points.save_all_points_csv()
-#     assert save_path.exists()
-#
-#     save_path = tmp_path / "points_per_region.csv"
-#     mock_get_save_file_name.return_value = (save_path, "CSV Files (*.csv)")
-#     transformation_widget_with_transformed_points.save_points_summary_csv()
-#     assert save_path.exists()
+def test_analysis(transformation_widget_with_transformed_points):
+    transformation_widget_with_transformed_points.analyse_points()
+
+    assert (
+        transformation_widget_with_transformed_points.all_points_df.shape[0]
+        == 21
+    )
+
+    df = transformation_widget_with_transformed_points.points_per_region_df
+    assert (
+        df.loc[
+            df["structure_name"] == "Caudoputamen", "left_cell_count"
+        ].values[0]
+        == 9
+    )
+    assert (
+        df.loc[df["structure_name"] == "Pons", "left_cell_count"].values[0]
+        == 1
+    )
+    assert (
+        df.loc[
+            df["structure_name"]
+            == "Primary somatosensory area, upper limb, layer 5",
+            "left_cells_per_mm3",
+        ].values[0]
+        == 0
+    )
+
+
+def test_save_df_to_csv(
+    mocker,
+    transformation_widget_with_transformed_points,
+    sample_dataframe,
+    tmp_path,
+):
+    # Mock dialog to avoid need for UI
+    mock_get_save_file_name = mocker.patch(
+        "brainglobe_utils.brainmapper.transform_widget.QFileDialog.getSaveFileName"
+    )
+
+    save_path = tmp_path / "test.csv"
+    mock_get_save_file_name.return_value = (save_path, "CSV Files (*.csv)")
+
+    transformation_widget_with_transformed_points.save_df_to_csv(
+        sample_dataframe
+    )
+
+    # Ensure the file dialog was called
+    mock_get_save_file_name.assert_called_once_with(
+        transformation_widget_with_transformed_points,
+        "Choose filename",
+        "",
+        "CSV Files (*.csv)",
+    )
+
+    assert save_path.exists()
+
+
+def test_save_all_points_and_summary_csv(
+    mocker,
+    transformation_widget_with_transformed_points,
+    tmp_path,
+):
+    transformation_widget_with_transformed_points.analyse_points()
+
+    # Mock dialog to avoid need for UI
+    mock_get_save_file_name = mocker.patch(
+        "brainglobe_utils.brainmapper.transform_widget.QFileDialog.getSaveFileName"
+    )
+
+    save_path = tmp_path / "all_points.csv"
+    mock_get_save_file_name.return_value = (save_path, "CSV Files (*.csv)")
+    transformation_widget_with_transformed_points.save_all_points_csv()
+    assert save_path.exists()
+
+    save_path = tmp_path / "points_per_region.csv"
+    mock_get_save_file_name.return_value = (save_path, "CSV Files (*.csv)")
+    transformation_widget_with_transformed_points.save_points_summary_csv()
+    assert save_path.exists()
 
 
 def test_is_atlas_installed(mocker, transformation_widget):