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Add filename keyword argument to NeuralynxIO #1023

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Merged
samuelgarcia merged 1 commit into from
Oct 28, 2021
Merged

Add filename keyword argument to NeuralynxIO #1023

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9 changes: 6 additions & 3 deletions neo/io/neuralynxio.py
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Original file line number Diff line number Diff line change
Expand Up @@ -26,7 +26,7 @@ class NeuralynxIO(NeuralynxRawIO, BaseFromRaw):
_prefered_signal_group_mode = 'group-by-same-units'
mode = 'dir'

def __init__(self, dirname, use_cache=False, cache_path='same_as_resource',
def __init__(self, dirname='', filename='', use_cache=False, cache_path='same_as_resource',
keep_original_times=False):
"""
Initialise IO instance
Expand All @@ -46,6 +46,9 @@ def __init__(self, dirname, use_cache=False, cache_path='same_as_resource',
shifted to begin at t_start = 0*pq.second.
Default: False
"""
NeuralynxRawIO.__init__(self, dirname=dirname, use_cache=use_cache,
NeuralynxRawIO.__init__(self, dirname=dirname, filename=filename, use_cache=use_cache,
cache_path=cache_path, keep_original_times=keep_original_times)
BaseFromRaw.__init__(self, dirname)
if self.rawmode == 'one-file':
BaseFromRaw.__init__(self, filename)
elif self.rawmode == 'one-dir':
BaseFromRaw.__init__(self, dirname)
11 changes: 11 additions & 0 deletions neo/test/iotest/test_neuralynxio.py
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Expand Up @@ -178,6 +178,17 @@ def test_read_block(self):
block = nio.read_block(signal_group_mode='group-by-same-units')
self.assertEqual(len(block.groups), 1)

def test_read_single_file(self):
filename = self.get_local_path(
'neuralynx/Cheetah_v5.7.4/original_data/CSC1.ncs'
)
nio = NeuralynxIO(filename=filename, use_cache=False)
block = nio.read_block()
self.assertTrue(len(block.segments[0].analogsignals) > 0)
self.assertTrue((len(block.segments[0].spiketrains)) == 0)
self.assertTrue((len(block.segments[0].events)) == 0)
self.assertTrue((len(block.segments[0].epochs)) == 0)


class TestPegasus_v211(CommonNeuralynxIOTest, unittest.TestCase):
pegasus_version = '2.1.1'
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