class TestMorphologyMemoryManagement(unittest.TestCase):
def setUp(self):
self.morphology = Morphology(morphology_path)
def test_soma(self):
soma = self.morphology.soma()
del self.morphology
points = soma.profile_points()
sum = numpy.zeros(4)
for p in points:
sum += p
def test_section(self):
section = self.morphology.section(1)
del self.morphology
samples = section.samples()
sum = numpy.zeros(4)
for s in samples:
sum += s
class TestMorphologyMemoryManagement(unittest.TestCase):
def setUp(self):
self.morphology = Morphology(morphology_path)
def test_soma(self):
soma = self.morphology.soma()
del self.morphology
points = soma.profile_points()
sum = numpy.zeros(4)
for p in points:
sum += p
def test_section(self):
section = self.morphology.section(1)
del self.morphology
samples = section.samples()
sum = numpy.zeros(4)
for s in samples:
sum += s
class TestMorphologyFunctions(unittest.TestCase):
def setUp(self):
self.morphology = Morphology(morphology_path)
def test_array_accessors(self):
points = self.morphology.points()
assert (points.shape == (96, 4))
sections = self.morphology.sections()
assert (sections.shape == (13, 2))
section_types = self.morphology.section_types()
assert (section_types.shape == (13, ))
apicals = self.morphology.apicals()
assert (len(apicals) == 0)
def test_section(self):
Type = brain.neuron.SectionType
neurites = [Type.axon, Type.dendrite, Type.apical_dendrite]
ids = self.morphology.section_ids([Type.soma])
assert (ids == [0])
self.assertRaises(RuntimeError, lambda: self.morphology.section(0))
ids = self.morphology.section_ids(neurites)
assert (len(ids) == 12)
sections = self.morphology.sections([Type.soma])
assert (len(sections) == 0)
sections = self.morphology.sections(neurites)
assert (len(sections) == 12)
for id in ids:
self.morphology.section(int(id))
self.assertRaises(RuntimeError, lambda: self.morphology.section(1234))
def test_soma(self):
soma = self.morphology.soma()
assert (len(soma.profile_points()) == 4)
for p in soma.profile_points():
assert (len(p) == 4)
assert (numpy.isclose(soma.mean_radius(), 0.1))
assert (soma.centroid() == (0, 0, 0))
class TestMorphologyFunctions(unittest.TestCase):
def setUp(self):
self.morphology = Morphology(morphology_path)
def test_array_accessors(self):
points = self.morphology.points()
assert(points.shape == (96, 4))
sections = self.morphology.sections()
assert(sections.shape == (13, 2))
section_types = self.morphology.section_types()
assert(section_types.shape == (13,))
apicals = self.morphology.apicals()
assert(len(apicals) == 0)
def test_section(self):
Type = brain.neuron.SectionType
neurites = [Type.axon, Type.dendrite, Type.apical_dendrite]
ids = self.morphology.section_ids([Type.soma])
assert(ids == [0])
self.assertRaises(RuntimeError, lambda: self.morphology.section(0))
ids = self.morphology.section_ids(neurites)
assert(len(ids) == 12)
sections = self.morphology.sections([Type.soma])
assert(len(sections) == 0)
sections = self.morphology.sections(neurites)
assert(len(sections) == 12)
for id in ids:
self.morphology.section(int(id))
self.assertRaises(RuntimeError, lambda: self.morphology.section(1234))
def test_soma(self):
soma = self.morphology.soma()
assert(len(soma.profile_points()) == 4)
for p in soma.profile_points():
assert(len(p) == 4)
assert(numpy.isclose(soma.mean_radius(), 0.1))
assert(soma.centroid() == (0, 0, 0))