コード例 #1
0
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
コード例 #2
0
ファイル: morphology.py プロジェクト: BlueBrain/Brion
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
コード例 #3
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))
コード例 #4
0
ファイル: morphology.py プロジェクト: adevress/Brion
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))