def test_has_no_missing_parents_good_data(self):
f = os.path.join(SWC_PATH, 'Neuron.swc')
ok = chk.no_missing_parents(self.load_data(f))
nt.ok_(ok)
nt.eq_(len(ok.info), 0)
def test_has_no_missing_parents_bad_data(self):
f = os.path.join(SWC_PATH, 'Neuron_missing_parents.swc')
ok = chk.no_missing_parents(self.load_data(f))
nt.ok_(not ok)
nt.eq_(list(ok.info), [6, 217, 428, 639])
def load_neuron(filename, tree_action=set_tree_type):
"""
Loads a neuron keeping a record of the filename.
Args:
filename: the path of the file storing morphology data
tree_action: optional function to run on each of the neuron's
neurite trees.
Raises:
SomaError if no soma points in data.
IDSequenceError if filename contains invalid ID sequence
"""
data = load_data(filename)
if not check.has_increasing_ids(data):
raise IDSequenceError('Invald ID sequence found in raw data')
if not check.is_single_tree(data):
raise MultipleTrees('Multiple trees detected')
if not check.no_missing_parents(data):
raise MissingParentError('Missing parents detected')
nrn = make_neuron(data, tree_action)
nrn.name = os.path.splitext(os.path.basename(filename))[0]
return nrn
def time_no_missing_parents(self):
sc.no_missing_parents(self.data_wrapper)
def time_no_missing_parents(self):
sc.no_missing_parents(self.data_wrapper)