[narps_open_pipelines#220][94GU] Add unit tests

tests/pipelines/test_team_94GU.py

@@ -0,0 +1,108 @@
+from os.path import join
+
+from nipype import Workflow
+from nipype.interfaces.spm import RealignUnwarp, NewSegment, Coregister, Normalize12, Smooth, FieldMap
+from pytest import helpers, mark
+
+from narps_open.pipelines.team_94GU import PipelineTeam94GU
+from narps_open.pipelines.team_98BT import PipelineTeam98BT
+from narps_open.utils.configuration import Configuration
+
+
+class TestPipelinesTeam94GU:
+
+    @staticmethod
+    @mark.unit_test
+    def test_create():
+        """ Test the creation of a PipelineTeam2T6S object """
+
+        pipeline = PipelineTeam94GU()
+
+        # 1 - check the parameters
+        assert pipeline.fwhm == 6.0
+        assert pipeline.team_id == '94GU'
+
+        # 2 - check workflows
+        assert isinstance(pipeline.get_preprocessing(), Workflow)
+        assert pipeline.get_run_level_analysis() is None
+        assert pipeline.get_subject_level_analysis() is None
+        assert pipeline.get_group_level_analysis() is None
+
+    @staticmethod
+    @mark.unit_test
+    def test_extract_fieldmap_infos():
+
+        filedmap_file_1 = join(
+            Configuration()['directories']['test_data'], 'pipelines', 'phasediff_1.json')
+        filedmap_file_2 = join(
+            Configuration()['directories']['test_data'], 'pipelines', 'phasediff_2.json')
+
+        test_result = PipelineTeam94GU.extract_fieldmap_infos(
+            filedmap_file_1, ['magnitude_1', 'magnitude_2'])
+        assert test_result[0] == (0.00492, 0.00738)
+        assert test_result[1] == 'magnitude_1'
+        test_result = PipelineTeam98BT.get_fieldmap_info(
+            filedmap_file_2, ['magnitude_1', 'magnitude_2'])
+        assert test_result[0] == (0.00492, 0.00738)
+        assert test_result[1] == 'magnitude_2'
+
+    @staticmethod
+    @mark.unit_test
+    def test_get_fieldmap():
+        pipeline = PipelineTeam94GU()
+        node = pipeline.get_fieldmap()
+        assert isinstance(node.interface, FieldMap)
+
+    @staticmethod
+    @mark.unit_test
+    def test_get_motion_correction():
+        pipeline = PipelineTeam94GU()
+        node = pipeline.get_motion_correction()
+        assert isinstance(node.interface, RealignUnwarp)
+        assert node.name == 'motion_correction'
+        assert not node.inputs.register_to_mean
+
+    @staticmethod
+    @mark.unit_test
+    def test_get_segmentation():
+        pipeline = PipelineTeam94GU()
+        node = pipeline.get_segmentation()
+        assert isinstance(node.interface, NewSegment)
+        assert node.name == 'segmentation'
+        assert not node.inputs.register_to_mean
+
+    @staticmethod
+    @mark.unit_test
+    def test_get_coregistration():
+        pipeline = PipelineTeam94GU()
+        node = pipeline.get_coregistration()
+        assert isinstance(node.interface, Coregister)
+        assert node.name == 'coregistration'
+        assert node.inputs.cost_function == 'mi'
+
+    @staticmethod
+    @mark.unit_test
+    def test_get_normalisation():
+        pipeline = PipelineTeam94GU()
+        node = pipeline.get_normalise()
+        assert isinstance(node.interface, Normalize12)
+        assert node.name == 'normalise'
+        assert node.inputs.bias_regularization == 0.0001
+        assert node.inputs.bias_fwhm == 60
+        assert node.inputs.warping_regularization == [0, 0.001, 0.5, 0.05, 0.2]
+        assert node.inputs.write_voxel_sizes == [2, 2, 2]
+
+    @staticmethod
+    @mark.unit_test
+    def test_get_smoothing():
+        pipeline = PipelineTeam94GU()
+        node = pipeline.get_smoothing()
+        assert isinstance(node.interface, Smooth)
+        assert node.name == 'smoothing'
+        assert node.inputs.fwhm == pipeline.fwhm
+
+    @staticmethod
+    @mark.pipeline_test
+    def test_execution():
+        """ Test the execution of a PipelineTeam94GU and compare results """
+        helpers.test_pipeline_evaluation('94GU')