added test case for soichi/stats/rh.aparc.stats (freesurfer 7)

https://github.com/fphammerle/freesurfer-stats/issues/8
https://github.com/fphammerle/freesurfer-stats/pull/1

tests/test_cortical_parcellation_stats.py

@@ -24,10 +24,12 @@ import pytest
 from conftest import SUBJECTS_DIR
 from freesurfer_stats import CorticalParcellationStats
 
+# pylint: disable=too-many-arguments
 
 @pytest.mark.parametrize(
     ('path', 'headers', 'hemisphere',
-     'whole_brain_measurements', 'structural_measurements'),
+     'whole_brain_measurements', 'structural_measurements_length',
+     'structural_measurements_subset'),
     [(os.path.join(SUBJECTS_DIR, 'fabian', 'stats', 'lh.aparc.DKTatlas.stats.short'),
       {'CreationTime': datetime.datetime(2019, 5, 9, 21, 5, 54, tzinfo=datetime.timezone.utc),
        'generating_program': 'mris_anatomical_stats',
@@ -56,6 +58,7 @@ from freesurfer_stats import CorticalParcellationStats
        'supratentorial_volume_mm^3': 1172669.548920,
        'supratentorial_volume_without_ventricles_mm^3': 1164180.548920,
        'estimated_total_intracranial_volume_mm^3': 1670487.274486},
+      3,
       [{'structure_name': 'caudalanteriorcingulate',
         'number_of_vertices': 2061,
         'surface_area_mm^2': 1472,
@@ -115,6 +118,7 @@ from freesurfer_stats import CorticalParcellationStats
        'supratentorial_volume_mm^3': 1172669.548920,
        'supratentorial_volume_without_ventricles_mm^3': 1164180.548920,
        'estimated_total_intracranial_volume_mm^3': 1670487.274486},
+      2,
       [{'structure_name': 'bankssts',
         'number_of_vertices': 1344,
         'surface_area_mm^2': 825,
@@ -134,9 +138,71 @@ from freesurfer_stats import CorticalParcellationStats
         'integrated_rectified_mean_curvature_mm^-1': 0.110,
         'integrated_rectified_gaussian_curvature_mm^-2': 0.021,
         'folding_index': 3,
-        'intrinsic_curvature_index': 0.6}])],
+        'intrinsic_curvature_index': 0.6}]),
+     (os.path.join(
+         SUBJECTS_DIR, 'soichi', 'stats', 'rh.aparc.stats'),
+      {'CreationTime': datetime.datetime(2020, 5, 4, 22, 20, 26, tzinfo=datetime.timezone.utc),
+       'AnnotationFileTimeStamp': datetime.datetime(2020, 5, 4, 21, 58, 13),
+       'AnnotationFile': '../label/rh.aparc.annot',
+       'SUBJECTS_DIR': '/N/dc2/scratch/hayashis/bigred3-workflows'
+                       '/5eb0689676c10ead933d673c/5eb068b076c10e7b013d673f',
+       'anatomy_type': 'surface',
+       'cmdline': 'mris_anatomical_stats -th3 -mgz -cortex ../label/rh.cortex.label '
+                  '-f ../stats/rh.aparc.stats -b -a ../label/rh.aparc.annot -c '
+                  '../label/aparc.annot.ctab output rh white',
+       'cvs_version': '7.0.0',
+       'generating_program': 'mris_anatomical_stats',
+       'hemi': 'rh',
+       'hostname': 'nid00762',
+       'machine': 'x86_64',
+       'mrisurf.c-cvs_version': '7.0.0',
+       'subjectname': 'output',
+       'sysname': 'Linux',
+       'user': 'hayashis'},
+      'right',
+      {'white_surface_total_area_mm^2': 83579.2,
+       'mean_thickness_mm': 2.35815,
+       'brain_segmentation_volume_mm^3': 1169408.0,
+       'brain_segmentation_volume_without_ventricles_mm^3': 1157593.0,
+       'brain_segmentation_volume_without_ventricles_from_surf_mm^3': 1157593.0,
+       'total_cortical_gray_matter_volume_mm^3': 454587.696158,
+       'supratentorial_volume_mm^3': 1023873.0,
+       'supratentorial_volume_without_ventricles_mm^3': 1012058.0,
+       'estimated_total_intracranial_volume_mm^3': 1420434.160521},
+      34,
+      [{'structure_name': 'bankssts',
+        'number_of_vertices': 1094,
+        'surface_area_mm^2': 757,
+        'gray_matter_volume_mm^3': 1725,
+        'average_thickness_mm': 2.215,
+        'thickness_stddev_mm': 0.544,
+        'integrated_rectified_mean_curvature_mm^-1': 0.109,
+        'integrated_rectified_gaussian_curvature_mm^-2': 0.025,
+        'folding_index': 9,
+        'intrinsic_curvature_index': 1.1},
+       {'structure_name': 'caudalanteriorcingulate',
+        'number_of_vertices': 1137,
+        'surface_area_mm^2': 780,
+        'gray_matter_volume_mm^3': 2327,
+        'average_thickness_mm': 2.842,
+        'thickness_stddev_mm': 0.667,
+        'integrated_rectified_mean_curvature_mm^-1': 0.116,
+        'integrated_rectified_gaussian_curvature_mm^-2': 0.021,
+        'folding_index': 11,
+        'intrinsic_curvature_index': 1.0},
+       {'structure_name': 'caudalmiddlefrontal',
+        'number_of_vertices': 3126,
+        'surface_area_mm^2': 2218,
+        'gray_matter_volume_mm^3': 5978,
+        'average_thickness_mm': 2.447,
+        'thickness_stddev_mm': 0.605,
+        'integrated_rectified_mean_curvature_mm^-1': 0.122,
+        'integrated_rectified_gaussian_curvature_mm^-2': 0.024,
+        'folding_index': 28,
+        'intrinsic_curvature_index': 3.1}])],
 )
-def test_read(path, headers, hemisphere, whole_brain_measurements, structural_measurements):
+def test_read(path, headers, hemisphere, whole_brain_measurements, structural_measurements_length,
+              structural_measurements_subset):
     stats = CorticalParcellationStats.read(path)
     assert headers == stats.headers
     assert hemisphere == stats.hemisphere
@@ -159,9 +225,10 @@ def test_read(path, headers, hemisphere, whole_brain_measurements, structural_me
         'folding_index',
         'intrinsic_curvature_index',
     ]
+    assert len(stats.structural_measurements) == structural_measurements_length
     pandas.util.testing.assert_frame_equal(
-        left=pandas.DataFrame(structural_measurements),
-        right=stats.structural_measurements,
+        left=pandas.DataFrame(structural_measurements_subset),
+        right=stats.structural_measurements.iloc[:3],
         check_like=True,  # ignore the order of index & columns
         check_dtype=True,
         check_names=True,