def test_read():
try:
fd, temp_file = tempfile.mkstemp('test_neurolucida')
os.close(fd)
with open(temp_file, 'w') as fd:
fd.write(MORPH_ASC)
rdw = nasc.read(temp_file)
raw_data = rdw.data_block
eq_(raw_data.shape, (19, 7))
ok_(np.allclose(raw_data[:, COLS.ID], np.arange(0, 19))) # correct ID
# 3 is ID of end of the soma, 2 sections attach to this
ok_(np.count_nonzero(raw_data[:, COLS.P] == 3), 2)
finally:
os.remove(temp_file)
def test_read():
try:
fd, temp_file = tempfile.mkstemp('test_neurolucida')
os.close(fd)
with open(temp_file, 'w') as fd:
fd.write(MORPH_ASC)
rdw = nasc.read(temp_file)
raw_data = rdw.data_block
eq_(raw_data.shape, (19, 7))
ok_(np.allclose(raw_data[:, COLS.ID], np.arange(0, 19))) # correct ID
# 3 is ID of end of the soma, 2 sections attach to this
ok_(np.count_nonzero(raw_data[:, COLS.P] == 3), 2)
finally:
os.remove(temp_file)
def read_neurolucida(filename):
'''Lazy loading of Neurolucida ASCII reader'''
from neurom.io import neurolucida
return neurolucida.read(filename,
data_wrapper=DataWrapper)
