def test_ignore_exceptions():
pop = utils.load_neurons((NO_SOMA_FILE, ), ignored_exceptions=(SomaError, ))
nt.eq_(len(pop), 0)
pop = utils.load_neurons((NO_SOMA_FILE, ),
ignored_exceptions=(SomaError, RawDataError, ))
nt.eq_(len(pop), 0)
def test_load_neurons_filenames():
pop = utils.load_neurons(FILENAMES, name='test123')
assert len(pop.neurons) == 2
assert pop.name == 'test123'
for nrn, name in zip(pop.neurons, NRN_NAMES):
assert isinstance(nrn, Neuron)
assert nrn.name == name
def test_load_neurons_directory_name():
pop = utils.load_neurons(VALID_DATA_PATH, name='test123')
nt.assert_equal(len(pop.neurons), 4)
nt.assert_equal(len(pop), 4)
nt.assert_equal(pop.name, 'test123')
for nrn in pop:
nt.assert_true(isinstance(nrn, Neuron))
def test_load_neurons_filenames():
pop = utils.load_neurons(FILENAMES, name='test123')
nt.assert_equal(len(pop.neurons), 2)
nt.assert_equal(pop.name, 'test123')
for nrn, name in zip(pop.neurons, NRN_NAMES):
nt.assert_true(isinstance(nrn, Neuron))
nt.assert_equal(nrn.name, name)
def test_load_neurons_directory_name():
pop = utils.load_neurons(VALID_DATA_PATH, name='test123')
assert len(pop.neurons) == 4
assert len(pop) == 4
assert pop.name == 'test123'
for nrn in pop:
assert isinstance(nrn, Neuron)
def test_load_neurons_directory():
pop = utils.load_neurons(VALID_DATA_PATH)
assert len(pop.neurons) == 4
assert len(pop) == 4
assert pop.name == 'valid_set'
for nrn in pop:
assert isinstance(nrn, Neuron)
def test_load_neurons_directory():
pop = utils.load_neurons(VALID_DATA_PATH)
nt.assert_equal(len(pop.neurons), 4)
nt.assert_equal(len(pop), 4)
nt.assert_equal(pop.name, 'valid_set')
for nrn in pop:
nt.assert_true(isinstance(nrn, Neuron))
def test_load_neurons_directory_name():
pop = utils.load_neurons(VALID_DATA_PATH, name='test123')
nt.assert_equal(len(pop.neurons), 5)
nt.assert_equal(len(pop), 5)
nt.assert_equal(pop.name, 'test123')
for nrn in pop:
nt.assert_true(isinstance(nrn, Neuron))
def test_load_neurons_filenames():
pop = utils.load_neurons(FILENAMES, name='test123')
nt.assert_equal(len(pop.neurons), 3)
nt.assert_equal(pop.name, 'test123')
for nrn, name in zip(pop.neurons, NRN_NAMES):
nt.assert_true(isinstance(nrn, Neuron))
nt.assert_equal(nrn.name, name)
def test_load_neurons_directory():
pop = utils.load_neurons(VALID_DATA_PATH)
nt.assert_equal(len(pop.neurons), 5)
nt.assert_equal(len(pop), 5)
nt.assert_equal(pop.name, 'valid_set')
for nrn in pop:
nt.assert_true(isinstance(nrn, Neuron))
def test_load_neurons():
# List of strings
nrns = utils.load_neurons(map(str, FILES), neuron_loader=_mock_load_neuron)
for i, nrn in enumerate(nrns):
assert nrn.name == FILES[i].stem
with pytest.raises(NeuroMError):
utils.load_neurons(MISSING_PARENTS_FILE, )
# Single string
nrns = utils.load_neurons(str(FILES[0]), neuron_loader=_mock_load_neuron)
assert nrns[0].name == FILES[0].stem
# Single Path
nrns = utils.load_neurons(FILES[0], neuron_loader=_mock_load_neuron)
assert nrns[0].name == FILES[0].stem
# sequence of strings
nrns = utils.load_neurons(map(str, FILES), neuron_loader=_mock_load_neuron)
for i, nrn in enumerate(nrns):
assert nrn.name == FILES[i].stem
# sequence of Path objects
nrns = utils.load_neurons(FILES, neuron_loader=_mock_load_neuron)
for nrn, file in zip(nrns, FILES):
assert nrn.name == file.stem
# string path to a directory
nrns = utils.load_neurons(str(SWC_PATH), neuron_loader=_mock_load_neuron)
# is subset so that if new morpho are added to SWC_PATH, the test does not break
assert {f.stem for f in FILES}.issubset({nrn.name for nrn in nrns})
# Path path to a directory
nrns = utils.load_neurons(SWC_PATH, neuron_loader=_mock_load_neuron)
# is subset so that if new morpho are added to SWC_PATH, the test does not break
assert {f.stem for f in FILES}.issubset({nrn.name for nrn in nrns})
def test_load_neurons():
# List of strings
nrns = utils.load_neurons(map(str, FILES), neuron_loader=_mock_load_neuron)
for i, nrn in enumerate(nrns):
nt.assert_equal(nrn.name, FILES[i].stem)
nt.assert_raises(RawDataError, utils.load_neurons,
(MISSING_PARENTS_FILE, ))
# Single string
nrns = utils.load_neurons(str(FILES[0]), neuron_loader=_mock_load_neuron)
nt.assert_equal(nrns[0].name, FILES[0].stem)
# Single Path
nrns = utils.load_neurons(FILES[0], neuron_loader=_mock_load_neuron)
nt.assert_equal(nrns[0].name, FILES[0].stem)
# sequence of strings
nrns = utils.load_neurons(map(str, FILES), neuron_loader=_mock_load_neuron)
for i, nrn in enumerate(nrns):
nt.assert_equal(nrn.name, FILES[i].stem)
# sequence of Path objects
nrns = utils.load_neurons(FILES, neuron_loader=_mock_load_neuron)
for nrn, file in zip(nrns, FILES):
nt.assert_equal(nrn.name, file.stem)
# string path to a directory
nrns = utils.load_neurons(str(SWC_PATH), neuron_loader=_mock_load_neuron)
# is subset so that if new morpho are added to SWC_PATH, the test does not break
nt.assert_true({f.stem
for f in FILES}.issubset({nrn.name
for nrn in nrns}))
# Path path to a directory
nrns = utils.load_neurons(SWC_PATH, neuron_loader=_mock_load_neuron)
# is subset so that if new morpho are added to SWC_PATH, the test does not break
nt.assert_true({f.stem
for f in FILES}.issubset({nrn.name
for nrn in nrns}))
nt.assert_raises(SomaError, utils.load_neurons, NO_SOMA_FILE)
def test_load_neurons():
nrns = utils.load_neurons(FILES, neuron_loader=_mock_load_neuron)
for i, nrn in enumerate(nrns):
nt.assert_equal(nrn.name, _get_name(FILES[i]))
def test_load_neurons():
nrns = utils.load_neurons(FILES, neuron_loader=_mock_load_neuron)
for i, nrn in enumerate(nrns):
nt.assert_equal(nrn.name, _get_name(FILES[i]))
def test_load_neurons():
nrns = utils.load_neurons(FILES, neuron_loader=_mock_load_neuron)
for i, nrn in enumerate(nrns):
nt.assert_equal(nrn.name, _get_name(FILES[i]))
nt.assert_raises(SomaError, utils.load_neurons, NO_SOMA_FILE)
def test_ignore_exceptions():
with pytest.raises(NeuroMError):
utils.load_neurons(MISSING_PARENTS_FILE, )
pop = utils.load_neurons((MISSING_PARENTS_FILE, ),
ignored_exceptions=(RawDataError, ))
assert len(pop) == 0
def test_ignore_exceptions():
nt.assert_raises(RawDataError, utils.load_neurons,
(MISSING_PARENTS_FILE, ))
pop = utils.load_neurons((MISSING_PARENTS_FILE, ),
ignored_exceptions=[RawDataError])
nt.eq_(len(pop), 0)