def test_vesselsegment_get_hausdorff_dimension(self):
for voxel_size in self.voxel_sizes:
vs_line = vessel_stats.VesselSegment(TEST_PATH_LINE, voxel_size)
nose.tools.assert_equal(vs_line.get_hausdorff_dimension(), 1)
vs = vessel_stats.VesselSegment(TEST_PATH_CYCLE, voxel_size)
nose.tools.assert_equal(vs.get_hausdorff_dimension(), -0.0)
def test_vesselsegment_get_displacement(self):
for voxel_size, displacement in zip(self.voxel_sizes,
self.expected_lengths_line):
vs_line = vessel_stats.VesselSegment(TEST_PATH_LINE, voxel_size)
nose.tools.assert_equal(vs_line.get_displacement(), displacement)
vs = vessel_stats.VesselSegment([
(1, 1, 1),
(2, 2, 2),
(1, 1, 1),
], voxel_size)
nose.tools.assert_equal(vs.get_displacement(), 0)
def test_vesselsegment_tortuosity_and_contraction(self):
for voxel_size in self.voxel_sizes:
vs_line = vessel_stats.VesselSegment(TEST_PATH_LINE, voxel_size)
nose.tools.assert_equal(vs_line.get_tortuosity(), 1)
nose.tools.assert_equal(vs_line.get_tortuosity(),
1 / vs_line.get_contraction())
# Test the limit behaviors
vs = vessel_stats.VesselSegment(TEST_PATH_CYCLE, voxel_size)
nose.tools.assert_equal(vs.get_tortuosity(), np.inf)
vs = vessel_stats.VesselSegment(TEST_PATH_CYCLE, voxel_size)
nose.tools.assert_equal(vs.get_contraction(), 0)
def test_vesselsegment_get_length(self):
for voxel_size, length_line, length_cycle in zip(
self.voxel_sizes, self.expected_lengths_line,
self.expected_lengths_cycle):
vs_line = vessel_stats.VesselSegment(TEST_PATH_LINE, voxel_size)
nose.tools.assert_equal(vs_line.get_length(), length_line)
vs = vessel_stats.VesselSegment([
(0, 0, 0),
(2, 3, 4),
], voxel_size)
dist = np.sqrt((2 * voxel_size[0])**2 + (3 * voxel_size[1])**2 +
(4 * voxel_size[2])**2)
nose.tools.assert_equal(vs.get_length(), dist)
vs = vessel_stats.VesselSegment(TEST_PATH_CYCLE, voxel_size)
print(voxel_size, vs.get_length(), length_cycle)
nose.tools.assert_equal(vs.get_length(), length_cycle)
def test_vesselsegment_get_vessel_stats(self):
vs_line = vessel_stats.VesselSegment(TEST_PATH_LINE)
nose.tools.assert_dict_equal(
{
"nodes": 5,
"length": 4,
"contraction": 1,
"start_point": TEST_PATH_LINE[-1],
"end_point": TEST_PATH_LINE[0],
}, vs_line.get_vessel_stats())
def _set_vessel_segment_stats(self, path: list):
"""
:param stats - list
["length": float, "tortuosity": float,
"contraction": float, "hausdorff dimension": float]
:return a stats record for a segment based on path
"""
vessel_segment = vessel_stats.VesselSegment(path, self.vox_dim)
return [vessel_segment.get_vessel_stats()]