spyglass
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Model inclusion of track graph in Decoding notebooks
This line mentions the possibility of including a track graph in decoding
https://github.com/LorenFrankLab/spyglass/blob/03e39960e31bb358ba3f112220a5fdbb2e6acc76/notebooks/py_scripts/41_Decoding_Clusterless.py#L259-L261
In my brief attempt, I did not find the process of including this graph straight forward, needing to remap kwargs across a fetched value and classes from non_local_detector
. I hit errors with the embedded ObservationModel
having an empty name
Partial error stack
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
src/spyglass/utils/dj_mixin.py:612: in populate
return super().populate(*restrictions, **kwargs)
../datajoint-python/datajoint/autopopulate.py:254: in populate
status = self._populate1(key, jobs, **populate_kwargs)
../datajoint-python/datajoint/autopopulate.py:322: in _populate1
make(dict(key), **(make_kwargs or {}))
src/spyglass/decoding/v1/clusterless.py:212: in make
classifier.fit(
../../miniconda3/envs/spy/lib/python3.9/site-packages/non_local_detector/models/base.py:960: in fit
self._fit(
../../miniconda3/envs/spy/lib/python3.9/site-packages/non_local_detector/models/base.py:493: in _fit
self.initialize_state_index()
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
self = ClusterlessDetector(clusterless_algorithm='clusterless_kde',
clusterless_algorithm_params={'block_...ke=False)],
sampling_frequency=500.0,
state_names=['Continuous', 'Fragmented'])
def initialize_state_index(self):
self.n_discrete_states_ = len(self.state_names)
bin_sizes = []
state_ind = []
is_track_interior = []
for ind, obs in enumerate(self.observation_models):
if obs.is_local or obs.is_no_spike:
bin_sizes.append(1)
state_ind.append(ind * np.ones((1,), dtype=int))
is_track_interior.append(np.ones((1,), dtype=bool))
else:
environment = self.environments[
> self.environments.index(obs.environment_name)
]
E ValueError: '' is not in list
../../miniconda3/envs/spy/lib/python3.9/site-packages/