in pykilosort/main.py, l.38: get_ephys_reader is instanciated
raw_data = get_ephys_reader(dat_path)
The default parameter in init() of this class for n_channel is None.
This gets fed to _memmap_flat() in phylib/io/traces.py, l.310
where it is compared with 0: assert n_channels > 0, phylib/io/traces.py, l.154
Full log:
Traceback (most recent call last):
File "<ipython-input-10-e3f4401b61dd>", line 4, in <module>
run(dat_path=dat_path, probe=probe, params=params, dir_path=dir_path)
File "C:\Users\Maxime\Desktop\pyKilosort\pykilosort\pykilosort\main.py", line 38, in run
raw_data = get_ephys_reader(dat_path)
File "c:\users\maxime\anaconda3\envs\pykilosort\lib\site-packages\phylib\io\traces.py", line 490, in get_ephys_reader
return klass(arg, **kwargs)
File "c:\users\maxime\anaconda3\envs\pykilosort\lib\site-packages\phylib\io\traces.py", line 310, in __init__
self._mmaps = [
File "c:\users\maxime\anaconda3\envs\pykilosort\lib\site-packages\phylib\io\traces.py", line 311, in <listcomp>
_memmap_flat(path, dtype=dtype, n_channels=n_channels, offset=offset)
File "c:\users\maxime\anaconda3\envs\pykilosort\lib\site-packages\phylib\io\traces.py", line 154, in _memmap_flat
assert n_channels > 0
TypeError: '>' not supported between instances of 'NoneType' and 'int'
Thanks, I'd only tested on compressed datasets... I just pushed a fix. You need to update the runks script to specify the n_channels, dtype, and sample_rate (see README)
in pykilosort/main.py, l.38: get_ephys_reader is instanciated
raw_data = get_ephys_reader(dat_path)
The default parameter in init() of this class for n_channel is None.
This gets fed to _memmap_flat() in phylib/io/traces.py, l.310
where it is compared with 0: assert n_channels > 0, phylib/io/traces.py, l.154
Full log: