def test_get_event_data(self):
data = self.data_dict['event_data']
reader = nsdf.NSDFReader(self.filename)
file_data = reader.get_event_data('cells', 'spike')
self.assertEqual(set(file_data.get_sources()), set(data.get_sources()))
self.assertEqual(data.unit, file_data.unit)
self.assertEqual(data.name, file_data.name)
for src in data.get_sources():
var = data.get_data(src)
fvar = file_data.get_data(src)
np.testing.assert_allclose(var, fvar)
def test_get_uniform_data(self):
reader = nsdf.NSDFReader(self.filename)
file_data = reader.get_uniform_data('granule', 'Vm')
data = self.data_dict['uniform_data']
self.assertEqual(set(file_data.get_sources()), set(data.get_sources()))
self.assertEqual(data.unit, file_data.unit)
self.assertEqual(data.name, file_data.name)
self.assertEqual(data.tunit, file_data.tunit)
self.assertAlmostEqual(data.dt, file_data.dt)
for src in data.get_sources():
np.testing.assert_allclose(data.get_data(src),
file_data.get_data(src))
def test_get_nonuniform_data(self):
data = self.data_dict['nonuniform_data']
reader = nsdf.NSDFReader(self.filename)
file_data = reader.get_nonuniform_data('mitral', 'Im')
self.assertEqual(set(file_data.get_sources()), set(data.get_sources()))
self.assertEqual(data.unit, file_data.unit)
self.assertEqual(data.name, file_data.name)
self.assertEqual(data.tunit, file_data.tunit)
for src in data.get_sources():
var, times = data.get_data(src)
fvar, ftimes = file_data.get_data(src)
np.testing.assert_allclose(var, fvar)
np.testing.assert_allclose(times, ftimes)
def test_attributes(self):
reader = nsdf.NSDFReader(self.filename)
self.assertEqual(reader.title, self.data_dict['title'])
self.assertEqual(reader.description, self.data_dict['description'])
for left, right in it.izip_longest(reader.creator,
self.data_dict['creator']):
self.assertEqual(left, right)
for left, right in it.izip_longest(reader.contributor,
self.data_dict['contributor']):
self.assertEqual(left, right)
for left, right in it.izip_longest(reader.software,
self.data_dict['software']):
self.assertEqual(left, right)
for left, right in it.izip_longest(reader.method,
self.data_dict['method']):
self.assertEqual(left, right)
self.assertEqual(reader.tstart, self.data_dict['tstart'].isoformat())
self.assertEqual(reader.tend, self.data_dict['tend'].isoformat())
self.assertEqual(reader.license, self.data_dict['license'])
self.assertEqual(reader.rights, self.data_dict['rights'])
def _init_reading(self):
reader = nsdf.NSDFReader(self.filename)
self.file_datetime = datetime.fromtimestamp(os.stat(self.filename).st_mtime)
self.objects_dict = {}
return reader
def read_hh_vm():
reader = nsdf.NSDFReader('hh_vm.h5')
data = reader.get_uniform_data('compartment_population', 'Vm')