def test_trial_response_window_bounds_reward(ophys_experiment_id):
api = BehaviorOphysLimsApi(ophys_experiment_id)
session = BehaviorOphysSession(api)
response_window = session.task_parameters['response_window_sec']
for _, row in session.trials.iterrows():
lick_times = [(t - row.change_time) for t in row.lick_times]
if not np.isnan(row.reward_time):
# monitor delay is incorporated into the trials table change time
# TODO: where is this set in the session object?
camstim_change_time = row.change_time - 0.0351
reward_time = (row.reward_time - camstim_change_time)
assert response_window[0] < reward_time + 1/60
assert reward_time < response_window[1] + 1/60
if len(session.licks) > 0:
assert lick_times[0] < reward_time
def from_lims(cls, ophys_experiment_id: int) -> "BehaviorOphysSession":
return cls(api=BehaviorOphysLimsApi(ophys_experiment_id))
def test_get_nwb_filepath(ophys_experiment_id):
api = BehaviorOphysLimsApi(ophys_experiment_id)
assert api.get_nwb_filepath(
) == '/allen/programs/braintv/production/visualbehavior/prod0/specimen_823826986/ophys_session_859701393/ophys_experiment_860030092/behavior_ophys_session_860030092.nwb'
if verbose:
print('last flash ended at {}'.format(last_flash_end))
print('another flash should have started by {}'.format(
next_flash_would_have_started))
print('last trial ended at {}'.format(last_trial_end))
if not last_flash_start <= last_trial_end <= next_flash_would_have_started:
raise ValidationError(
'The last trial does not end between the start of the last flash and the expected start time of the next flash'
)
if __name__ == "__main__":
api = BehaviorOphysLimsApi()
ophys_experiment_id_list = [
775614751, 778644591, 787461073, 782675436, 783928214, 783927872,
787501821, 787498309, 788490510, 788488596, 788489531, 789359614,
790149413, 790709081, 791119849, 791453282, 791980891, 792813858,
792812544, 792816531, 792815735, 794381992, 794378505, 795076128,
795073741, 795952471, 795952488, 795953296, 795948257, 796106850,
796106321, 796108483, 796105823, 796308505, 797255551, 795075034,
798403387, 798404219, 799366517, 799368904, 799368262, 803736273,
805100431, 805784331, 805784313, 806456687, 806455766, 806989729,
807753318, 807752719, 807753334, 807753920, 796105304, 784482326,
779335436, 782675457, 791974731, 791979236, 800034837, 802649986,
806990245, 808621958, 808619526, 808619543, 808621034, 808621015
]
for ophys_experiment_id in ophys_experiment_id_list:
def setup_class(cls):
cls.bd = BehaviorDataLimsApi(976012750)
cls.od = BehaviorOphysLimsApi(976255949)
def from_lims(cls, ophys_experiment_id):
return cls(api=BehaviorOphysLimsApi(ophys_experiment_id))
def test_process_ophys_plane_timestamps(timestamps, plane_group, group_count,
expected):
actual = BehaviorOphysLimsApi._process_ophys_plane_timestamps(
timestamps, plane_group, group_count)
np.testing.assert_array_equal(expected, actual)