def test_05_not_latest_alignments_agree(self):
alignments = copy.deepcopy(self.alignments)
trajectory = copy.deepcopy(self.trajectory)
trajectory.update({'json': alignments})
traj = one.alyx.rest('trajectories',
'update',
id=self.prev_traj_id,
data=trajectory)
assert (self.prev_traj_id == traj['id'])
align_qc = AlignmentQC(self.probe_id,
one=one,
brain_atlas=brain_atlas,
channels=False)
align_qc.load_data(prev_alignments=traj['json'],
xyz_picks=np.array(self.xyz_picks) / 1e6,
cluster_chns=self.cluster_chns)
align_qc.resolved = 0
align_qc.run(update=True, upload_alyx=True, upload_flatiron=False)
insertion = one.alyx.rest('insertions', 'read', id=self.probe_id)
assert (insertion['json']['qc'] == 'NOT_SET')
assert (insertion['json']['extended_qc']['alignment_count'] == 4)
assert (insertion['json']['extended_qc']['alignment_stored'] ==
'2020-06-19T10:52:36_noam.roth')
assert (insertion['json']['extended_qc']['alignment_resolved'] == 1)
assert (
insertion['json']['extended_qc']['alignment_resolved_by'] == 'qc')
assert (insertion['json']['extended_qc']['alignment_qc'] > 0.8)
assert (np.isclose(insertion['json']['extended_qc']['alignment_qc'],
0.952319))
traj = one.alyx.rest('trajectories',
'list',
probe_id=self.probe_id,
provenance='Ephys aligned histology track')
assert (self.prev_traj_id != traj[0]['id'])
def _05_not_latest_alignments_agree(self):
alignments = copy.deepcopy(self.alignments)
trajectory = copy.deepcopy(self.trajectory)
trajectory.update({'json': alignments})
traj = one.alyx.rest('trajectories',
'update',
id=self.prev_traj_id,
data=trajectory)
self.assertEqual(self.prev_traj_id, traj['id'])
align_qc = AlignmentQC(self.probe_id,
one=one,
brain_atlas=brain_atlas,
channels=False)
align_qc.load_data(prev_alignments=traj['json'],
xyz_picks=np.array(self.xyz_picks) / 1e6,
cluster_chns=self.cluster_chns,
depths=SITES_COORDINATES[:, 1],
chn_coords=SITES_COORDINATES)
align_qc.resolved = 0
align_qc.run(update=True, upload_alyx=True, upload_flatiron=False)
_verify(self,
alignment_resolved='qc',
alignment_qc=0.952319,
alignment_count=4,
alignment_stored='2020-06-19T10:52:36_noam.roth',
trajectory_created=True)