def setup_units(self):
params = {'testarg2': 'yes', 'testarg3': True}
self.unit1 = Unit(name='test',
description='tester 1',
file_origin='test.file',
channels_indexes=[1],
testarg1=1,
**params)
self.unit2 = Unit(name='test',
description='tester 2',
file_origin='test.file',
channels_indexes=[2],
testarg1=1,
**params)
self.unit1.annotate(testarg1=1.1, testarg0=[1, 2, 3])
self.unit2.annotate(testarg11=1.1, testarg10=[1, 2, 3])
self.unit1.spiketrains = self.train1
self.unit2.spiketrains = self.train2
self.unit1.spikes = self.spike1
self.unit2.spikes = self.spike2
create_many_to_one_relationship(self.unit1)
create_many_to_one_relationship(self.unit2)
def setup_units(self):
params = {'testarg2': 'yes', 'testarg3': True}
self.unit1 = Unit(name='test', description='tester 1',
file_origin='test.file', channels_indexes=[1],
testarg1=1, **params)
self.unit2 = Unit(name='test', description='tester 2',
file_origin='test.file', channels_indexes=[2],
testarg1=1, **params)
self.unit1.annotate(testarg1=1.1, testarg0=[1, 2, 3])
self.unit2.annotate(testarg11=1.1, testarg10=[1, 2, 3])
self.unit1.spiketrains = self.train1
self.unit2.spiketrains = self.train2
self.unit1.spikes = self.spike1
self.unit2.spikes = self.spike2
self.unit1.create_many_to_one_relationship()
self.unit2.create_many_to_one_relationship()
def setup_unit(self):
unitname11 = 'unit 1 1'
unitname12 = 'unit 1 2'
unitname21 = 'unit 2 1'
unitname22 = 'unit 2 2'
self.unitnames1 = [unitname11, unitname12]
self.unitnames2 = [unitname21, unitname22, unitname11]
self.unitnames = [unitname11, unitname12, unitname21, unitname22]
unit11 = Unit(name=unitname11, channel_indexes=np.array([1]))
unit12 = Unit(name=unitname12, channel_indexes=np.array([2]))
unit21 = Unit(name=unitname21, channel_indexes=np.array([1]))
unit22 = Unit(name=unitname22, channel_indexes=np.array([2]))
unit23 = Unit(name=unitname11, channel_indexes=np.array([1]))
self.units1 = [unit11, unit12]
self.units2 = [unit21, unit22, unit23]
self.units = [unit11, unit12, unit21, unit22]
def setUp(self):
unitname11 = 'unit 1 1'
unitname12 = 'unit 1 2'
unitname21 = 'unit 2 1'
unitname22 = 'unit 2 2'
channame11 = 'chan 1 1'
channame12 = 'chan 1 2'
channame21 = 'chan 2 1'
channame22 = 'chan 2 2'
segname11 = 'seg 1 1'
segname12 = 'seg 1 2'
segname21 = 'seg 2 1'
segname22 = 'seg 2 2'
self.rcgname1 = 'rcg 1'
self.rcgname2 = 'rcg 2'
self.rcgnames = [self.rcgname1, self.rcgname2]
self.unitnames1 = [unitname11, unitname12]
self.unitnames2 = [unitname21, unitname22, unitname11]
self.unitnames = [unitname11, unitname12, unitname21, unitname22]
self.channames1 = [channame11, channame12]
self.channames2 = [channame21, channame22, channame11]
self.channames = [channame11, channame12, channame21, channame22]
self.segnames1 = [segname11, segname12]
self.segnames2 = [segname21, segname22, segname11]
self.segnames = [segname11, segname12, segname21, segname22]
unit11 = Unit(name=unitname11)
unit12 = Unit(name=unitname12)
unit21 = Unit(name=unitname21)
unit22 = Unit(name=unitname22)
unit23 = unit11
chan11 = RecordingChannel(name=channame11)
chan12 = RecordingChannel(name=channame12)
chan21 = RecordingChannel(name=channame21)
chan22 = RecordingChannel(name=channame22)
chan23 = chan11
seg11 = Segment(name=segname11)
seg12 = Segment(name=segname12)
seg21 = Segment(name=segname21)
seg22 = Segment(name=segname22)
seg23 = seg11
self.units1 = [unit11, unit12]
self.units2 = [unit21, unit22, unit23]
self.units = [unit11, unit12, unit21, unit22]
self.chan1 = [chan11, chan12]
self.chan2 = [chan21, chan22, chan23]
self.chan = [chan11, chan12, chan21, chan22]
self.seg1 = [seg11, seg12]
self.seg2 = [seg21, seg22, seg23]
self.seg = [seg11, seg12, seg21, seg22]
self.rcg1 = RecordingChannelGroup(name=self.rcgname1)
self.rcg2 = RecordingChannelGroup(name=self.rcgname2)
self.rcg = [self.rcg1, self.rcg2]
self.rcg1.units = self.units1
self.rcg2.units = self.units2
self.rcg1.recordingchannels = self.chan1
self.rcg2.recordingchannels = self.chan2
class TestUnit(unittest.TestCase):
def setUp(self):
self.setup_spikes()
self.setup_spiketrains()
self.setup_units()
def setup_units(self):
params = {'testarg2': 'yes', 'testarg3': True}
self.unit1 = Unit(name='test',
description='tester 1',
file_origin='test.file',
channels_indexes=[1],
testarg1=1,
**params)
self.unit2 = Unit(name='test',
description='tester 2',
file_origin='test.file',
channels_indexes=[2],
testarg1=1,
**params)
self.unit1.annotate(testarg1=1.1, testarg0=[1, 2, 3])
self.unit2.annotate(testarg11=1.1, testarg10=[1, 2, 3])
self.unit1.spiketrains = self.train1
self.unit2.spiketrains = self.train2
self.unit1.spikes = self.spike1
self.unit2.spikes = self.spike2
create_many_to_one_relationship(self.unit1)
create_many_to_one_relationship(self.unit2)
def setup_spikes(self):
spikename11 = 'spike 1 1'
spikename12 = 'spike 1 2'
spikename21 = 'spike 2 1'
spikename22 = 'spike 2 2'
spikedata11 = 10 * pq.ms
spikedata12 = 20 * pq.ms
spikedata21 = 30 * pq.s
spikedata22 = 40 * pq.s
self.spikenames1 = [spikename11, spikename12]
self.spikenames2 = [spikename21, spikename22]
self.spikenames = [spikename11, spikename12, spikename21, spikename22]
spike11 = Spike(spikedata11, t_stop=100 * pq.s, name=spikename11)
spike12 = Spike(spikedata12, t_stop=100 * pq.s, name=spikename12)
spike21 = Spike(spikedata21, t_stop=100 * pq.s, name=spikename21)
spike22 = Spike(spikedata22, t_stop=100 * pq.s, name=spikename22)
self.spike1 = [spike11, spike12]
self.spike2 = [spike21, spike22]
self.spike = [spike11, spike12, spike21, spike22]
def setup_spiketrains(self):
trainname11 = 'spiketrain 1 1'
trainname12 = 'spiketrain 1 2'
trainname21 = 'spiketrain 2 1'
trainname22 = 'spiketrain 2 2'
traindata11 = np.arange(0, 10) * pq.ms
traindata12 = np.arange(10, 20) * pq.ms
traindata21 = np.arange(20, 30) * pq.s
traindata22 = np.arange(30, 40) * pq.s
self.trainnames1 = [trainname11, trainname12]
self.trainnames2 = [trainname21, trainname22]
self.trainnames = [trainname11, trainname12, trainname21, trainname22]
train11 = SpikeTrain(traindata11, t_stop=100 * pq.s, name=trainname11)
train12 = SpikeTrain(traindata12, t_stop=100 * pq.s, name=trainname12)
train21 = SpikeTrain(traindata21, t_stop=100 * pq.s, name=trainname21)
train22 = SpikeTrain(traindata22, t_stop=100 * pq.s, name=trainname22)
self.train1 = [train11, train12]
self.train2 = [train21, train22]
self.train = [train11, train12, train21, train22]
def test_unit_creation(self):
assert_neo_object_is_compliant(self.unit1)
assert_neo_object_is_compliant(self.unit2)
self.assertEqual(self.unit1.name, 'test')
self.assertEqual(self.unit2.name, 'test')
self.assertEqual(self.unit1.description, 'tester 1')
self.assertEqual(self.unit2.description, 'tester 2')
self.assertEqual(self.unit1.file_origin, 'test.file')
self.assertEqual(self.unit2.file_origin, 'test.file')
self.assertEqual(self.unit1.annotations['testarg0'], [1, 2, 3])
self.assertEqual(self.unit2.annotations['testarg10'], [1, 2, 3])
self.assertEqual(self.unit1.annotations['testarg1'], 1.1)
self.assertEqual(self.unit2.annotations['testarg1'], 1)
self.assertEqual(self.unit2.annotations['testarg11'], 1.1)
self.assertEqual(self.unit1.annotations['testarg2'], 'yes')
self.assertEqual(self.unit2.annotations['testarg2'], 'yes')
self.assertTrue(self.unit1.annotations['testarg3'])
self.assertTrue(self.unit2.annotations['testarg3'])
self.assertTrue(hasattr(self.unit1, 'spikes'))
self.assertTrue(hasattr(self.unit2, 'spikes'))
self.assertEqual(len(self.unit1.spikes), 2)
self.assertEqual(len(self.unit2.spikes), 2)
for res, targ in zip(self.unit1.spikes, self.spike1):
self.assertEqual(res, targ)
self.assertEqual(res.name, targ.name)
for res, targ in zip(self.unit2.spikes, self.spike2):
self.assertEqual(res, targ)
self.assertEqual(res.name, targ.name)
self.assertTrue(hasattr(self.unit1, 'spiketrains'))
self.assertTrue(hasattr(self.unit2, 'spiketrains'))
self.assertEqual(len(self.unit1.spiketrains), 2)
self.assertEqual(len(self.unit2.spiketrains), 2)
for res, targ in zip(self.unit1.spiketrains, self.train1):
assert_arrays_equal(res, targ)
self.assertEqual(res.name, targ.name)
for res, targ in zip(self.unit2.spiketrains, self.train2):
assert_arrays_equal(res, targ)
self.assertEqual(res.name, targ.name)
def test_unit_merge(self):
self.unit1.merge(self.unit2)
spikeres1 = [sig.name for sig in self.unit1.spikes]
spikeres2 = [sig.name for sig in self.unit2.spikes]
trainres1 = [sig.name for sig in self.unit1.spiketrains]
trainres2 = [sig.name for sig in self.unit2.spiketrains]
self.assertEqual(spikeres1, self.spikenames)
self.assertEqual(spikeres2, self.spikenames2)
self.assertEqual(trainres1, self.trainnames)
self.assertEqual(trainres2, self.trainnames2)
for res, targ in zip(self.unit1.spikes, self.spike):
self.assertEqual(res, targ)
for res, targ in zip(self.unit2.spikes, self.spike2):
self.assertEqual(res, targ)
for res, targ in zip(self.unit1.spiketrains, self.train):
assert_arrays_equal(res, targ)
for res, targ in zip(self.unit2.spiketrains, self.train2):
assert_arrays_equal(res, targ)
class TestUnit(unittest.TestCase):
def setUp(self):
self.setup_spikes()
self.setup_spiketrains()
self.setup_units()
def setup_units(self):
params = {'testarg2': 'yes', 'testarg3': True}
self.unit1 = Unit(name='test', description='tester 1',
file_origin='test.file', channels_indexes=[1],
testarg1=1, **params)
self.unit2 = Unit(name='test', description='tester 2',
file_origin='test.file', channels_indexes=[2],
testarg1=1, **params)
self.unit1.annotate(testarg1=1.1, testarg0=[1, 2, 3])
self.unit2.annotate(testarg11=1.1, testarg10=[1, 2, 3])
self.unit1.spiketrains = self.train1
self.unit2.spiketrains = self.train2
self.unit1.spikes = self.spike1
self.unit2.spikes = self.spike2
self.unit1.create_many_to_one_relationship()
self.unit2.create_many_to_one_relationship()
def setup_spikes(self):
spikename11 = 'spike 1 1'
spikename12 = 'spike 1 2'
spikename21 = 'spike 2 1'
spikename22 = 'spike 2 2'
spikedata11 = 10 * pq.ms
spikedata12 = 20 * pq.ms
spikedata21 = 30 * pq.s
spikedata22 = 40 * pq.s
self.spikenames1 = [spikename11, spikename12]
self.spikenames2 = [spikename21, spikename22]
self.spikenames = [spikename11, spikename12, spikename21, spikename22]
spike11 = Spike(spikedata11, t_stop=100*pq.s, name=spikename11)
spike12 = Spike(spikedata12, t_stop=100*pq.s, name=spikename12)
spike21 = Spike(spikedata21, t_stop=100*pq.s, name=spikename21)
spike22 = Spike(spikedata22, t_stop=100*pq.s, name=spikename22)
self.spike1 = [spike11, spike12]
self.spike2 = [spike21, spike22]
self.spike = [spike11, spike12, spike21, spike22]
def setup_spiketrains(self):
trainname11 = 'spiketrain 1 1'
trainname12 = 'spiketrain 1 2'
trainname21 = 'spiketrain 2 1'
trainname22 = 'spiketrain 2 2'
traindata11 = np.arange(0, 10) * pq.ms
traindata12 = np.arange(10, 20) * pq.ms
traindata21 = np.arange(20, 30) * pq.s
traindata22 = np.arange(30, 40) * pq.s
self.trainnames1 = [trainname11, trainname12]
self.trainnames2 = [trainname21, trainname22]
self.trainnames = [trainname11, trainname12, trainname21, trainname22]
train11 = SpikeTrain(traindata11, t_stop=100*pq.s, name=trainname11)
train12 = SpikeTrain(traindata12, t_stop=100*pq.s, name=trainname12)
train21 = SpikeTrain(traindata21, t_stop=100*pq.s, name=trainname21)
train22 = SpikeTrain(traindata22, t_stop=100*pq.s, name=trainname22)
self.train1 = [train11, train12]
self.train2 = [train21, train22]
self.train = [train11, train12, train21, train22]
def test_unit_creation(self):
assert_neo_object_is_compliant(self.unit1)
assert_neo_object_is_compliant(self.unit2)
self.assertEqual(self.unit1.name, 'test')
self.assertEqual(self.unit2.name, 'test')
self.assertEqual(self.unit1.description, 'tester 1')
self.assertEqual(self.unit2.description, 'tester 2')
self.assertEqual(self.unit1.file_origin, 'test.file')
self.assertEqual(self.unit2.file_origin, 'test.file')
self.assertEqual(self.unit1.annotations['testarg0'], [1, 2, 3])
self.assertEqual(self.unit2.annotations['testarg10'], [1, 2, 3])
self.assertEqual(self.unit1.annotations['testarg1'], 1.1)
self.assertEqual(self.unit2.annotations['testarg1'], 1)
self.assertEqual(self.unit2.annotations['testarg11'], 1.1)
self.assertEqual(self.unit1.annotations['testarg2'], 'yes')
self.assertEqual(self.unit2.annotations['testarg2'], 'yes')
self.assertTrue(self.unit1.annotations['testarg3'])
self.assertTrue(self.unit2.annotations['testarg3'])
self.assertTrue(hasattr(self.unit1, 'spikes'))
self.assertTrue(hasattr(self.unit2, 'spikes'))
self.assertEqual(len(self.unit1.spikes), 2)
self.assertEqual(len(self.unit2.spikes), 2)
for res, targ in zip(self.unit1.spikes, self.spike1):
self.assertEqual(res, targ)
self.assertEqual(res.name, targ.name)
for res, targ in zip(self.unit2.spikes, self.spike2):
self.assertEqual(res, targ)
self.assertEqual(res.name, targ.name)
self.assertTrue(hasattr(self.unit1, 'spiketrains'))
self.assertTrue(hasattr(self.unit2, 'spiketrains'))
self.assertEqual(len(self.unit1.spiketrains), 2)
self.assertEqual(len(self.unit2.spiketrains), 2)
for res, targ in zip(self.unit1.spiketrains, self.train1):
assert_arrays_equal(res, targ)
self.assertEqual(res.name, targ.name)
for res, targ in zip(self.unit2.spiketrains, self.train2):
assert_arrays_equal(res, targ)
self.assertEqual(res.name, targ.name)
def test_unit_merge(self):
self.unit1.merge(self.unit2)
spikeres1 = [sig.name for sig in self.unit1.spikes]
spikeres2 = [sig.name for sig in self.unit2.spikes]
trainres1 = [sig.name for sig in self.unit1.spiketrains]
trainres2 = [sig.name for sig in self.unit2.spiketrains]
self.assertEqual(spikeres1, self.spikenames)
self.assertEqual(spikeres2, self.spikenames2)
self.assertEqual(trainres1, self.trainnames)
self.assertEqual(trainres2, self.trainnames2)
for res, targ in zip(self.unit1.spikes, self.spike):
self.assertEqual(res, targ)
for res, targ in zip(self.unit2.spikes, self.spike2):
self.assertEqual(res, targ)
for res, targ in zip(self.unit1.spiketrains, self.train):
assert_arrays_equal(res, targ)
for res, targ in zip(self.unit2.spiketrains, self.train2):
assert_arrays_equal(res, targ)
def test__children(self):
rcg = RecordingChannelGroup(name='rcg1')
rcg.units = [self.unit1]
rcg.create_many_to_one_relationship()
self.assertEqual(self.unit1._container_child_objects, ())
self.assertEqual(self.unit1._data_child_objects,
('Spike', 'SpikeTrain'))
self.assertEqual(self.unit1._single_parent_objects,
('RecordingChannelGroup',))
self.assertEqual(self.unit1._multi_child_objects, ())
self.assertEqual(self.unit1._multi_parent_objects, ())
self.assertEqual(self.unit1._child_properties, ())
self.assertEqual(self.unit1._single_child_objects,
('Spike', 'SpikeTrain'))
self.assertEqual(self.unit1._container_child_containers, ())
self.assertEqual(self.unit1._data_child_containers,
('spikes', 'spiketrains'))
self.assertEqual(self.unit1._single_child_containers,
('spikes', 'spiketrains'))
self.assertEqual(self.unit1._single_parent_containers,
('recordingchannelgroup',))
self.assertEqual(self.unit1._multi_child_containers, ())
self.assertEqual(self.unit1._multi_parent_containers, ())
self.assertEqual(self.unit1._child_objects,
('Spike', 'SpikeTrain'))
self.assertEqual(self.unit1._child_containers,
('spikes', 'spiketrains'))
self.assertEqual(self.unit1._parent_objects,
('RecordingChannelGroup',))
self.assertEqual(self.unit1._parent_containers,
('recordingchannelgroup',))
self.assertEqual(len(self.unit1.children),
len(self.spike1) + len(self.train1))
self.assertEqual(self.unit1.children[0].name, self.spikenames1[0])
self.assertEqual(self.unit1.children[1].name, self.spikenames1[1])
self.assertEqual(self.unit1.children[2].name, self.trainnames1[0])
self.assertEqual(self.unit1.children[3].name, self.trainnames1[1])
self.assertEqual(len(self.unit1.parents), 1)
self.assertEqual(self.unit1.parents[0].name, 'rcg1')
self.unit1.create_many_to_one_relationship()
assert_neo_object_is_compliant(self.unit1)