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test_trackingutils.py
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152 lines (125 loc) · 5.74 KB
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#
# DeepLabCut Toolbox (deeplabcut.org)
# © A. & M.W. Mathis Labs
# https://github.com/DeepLabCut/DeepLabCut
#
# Please see AUTHORS for contributors.
# https://github.com/DeepLabCut/DeepLabCut/blob/master/AUTHORS
#
# Licensed under GNU Lesser General Public License v3.0
#
import numpy as np
import pytest
from deeplabcut.core import trackingutils
@pytest.fixture()
def ellipse():
params = {"x": 0, "y": 0, "width": 2, "height": 4, "theta": np.pi / 2}
return trackingutils.Ellipse(**params)
def test_ellipse(ellipse):
assert ellipse.aspect_ratio == 2
np.testing.assert_equal(ellipse.contains_points(np.asarray([[0, 0], [10, 10]])), [True, False])
def test_ellipse_similarity(ellipse):
assert ellipse.calc_similarity_with(ellipse) == 1
def test_ellipse_fitter():
fitter = trackingutils.EllipseFitter()
assert fitter.fit(np.random.rand(2, 2)) is None
xy = np.asarray([[-2, 0], [2, 0], [0, 1], [0, -1]], dtype=float)
assert fitter.fit(xy) is not None
fitter.sd = 0
el = fitter.fit(xy)
assert np.isclose(el.parameters, [0, 0, 4, 2, 0]).all()
def test_ellipse_tracker(ellipse):
tracker1 = trackingutils.EllipseTracker(ellipse.parameters)
tracker2 = trackingutils.EllipseTracker(ellipse.parameters)
assert tracker1.id != tracker2.id
tracker1.update(ellipse.parameters)
assert tracker1.hit_streak == 1
state = tracker1.predict()
np.testing.assert_equal(ellipse.parameters, state)
_ = tracker1.predict()
assert tracker1.hit_streak == 0
def test_sort_ellipse():
tracklets = dict()
mot_tracker = trackingutils.SORTEllipse(1, 1, 0.6)
poses = np.random.rand(2, 10, 3)
trackers = mot_tracker.track(poses[..., :2])
assert trackers.shape == (2, 7)
trackingutils.fill_tracklets(tracklets, trackers, poses, imname=0)
assert all(id_ in tracklets for id_ in trackers[:, -2])
assert all(np.array_equal(tracklets[n][0], pose) for n, pose in enumerate(poses))
def test_tracking_ellipse(real_assemblies, real_tracklets):
tracklets_ref = real_tracklets.copy()
_ = tracklets_ref.pop("header", None)
tracklets = dict()
mot_tracker = trackingutils.SORTEllipse(1, 1, 0.6)
for ind, assemblies in real_assemblies.items():
animals = np.stack([ass.data for ass in assemblies])
trackers = mot_tracker.track(animals[..., :2])
trackingutils.fill_tracklets(tracklets, trackers, animals, ind)
assert len(tracklets) == len(tracklets_ref)
assert [len(tracklet) for tracklet in tracklets.values()] == [len(tracklet) for tracklet in tracklets_ref.values()]
assert all(t.shape[1] == 4 for tracklet in tracklets.values() for t in tracklet.values())
def test_box_tracker():
bbox = 0, 0, 100, 100
tracker1 = trackingutils.BoxTracker(bbox)
tracker2 = trackingutils.BoxTracker(bbox)
assert tracker1.id != tracker2.id
tracker1.update(bbox)
assert tracker1.hit_streak == 1
state = tracker1.predict()
np.testing.assert_equal(bbox, state)
_ = tracker1.predict()
assert tracker1.hit_streak == 0
def test_tracking_box(real_assemblies, real_tracklets):
tracklets_ref = real_tracklets.copy()
_ = tracklets_ref.pop("header", None)
tracklets = dict()
mot_tracker = trackingutils.SORTBox(1, 1, 0.1)
for ind, assemblies in real_assemblies.items():
animals = np.stack([ass.data for ass in assemblies])
bboxes = trackingutils.calc_bboxes_from_keypoints(animals)
trackers = mot_tracker.track(bboxes)
trackingutils.fill_tracklets(tracklets, trackers, animals, ind)
assert len(tracklets) == len(tracklets_ref)
assert [len(tracklet) for tracklet in tracklets.values()] == [len(tracklet) for tracklet in tracklets_ref.values()]
assert all(t.shape[1] == 4 for tracklet in tracklets.values() for t in tracklet.values())
def test_tracking_montblanc(
real_assemblies_montblanc,
real_tracklets_montblanc,
):
tracklets_ref = real_tracklets_montblanc.copy()
_ = tracklets_ref.pop("header", None)
tracklets = dict()
tracklets["single"] = real_assemblies_montblanc[1]
mot_tracker = trackingutils.SORTEllipse(1, 1, 0.6)
for ind, assemblies in real_assemblies_montblanc[0].items():
animals = np.stack([ass.data for ass in assemblies])
trackers = mot_tracker.track(animals[..., :2])
trackingutils.fill_tracklets(tracklets, trackers, animals, ind)
assert len(tracklets) == len(tracklets_ref)
assert [len(tracklet) for tracklet in tracklets.values()] == [len(tracklet) for tracklet in tracklets_ref.values()]
for k, assemblies in tracklets.items():
ref = tracklets_ref[k]
for ind, data in assemblies.items():
frame = f"frame{str(ind).zfill(3)}" if k != "single" else ind
np.testing.assert_equal(data, ref[frame])
def test_calc_bboxes_from_keypoints():
# Test bounding box from a single keypoint
xy = np.asarray([[[0, 0, 1]]])
np.testing.assert_equal(trackingutils.calc_bboxes_from_keypoints(xy, 10), [[-10, -10, 10, 10, 1]])
np.testing.assert_equal(trackingutils.calc_bboxes_from_keypoints(xy, 20, 10), [[-10, -20, 30, 20, 1]])
width = 200
height = width * 2
xyp = np.zeros((1, 2, 3))
xyp[:, 1, :2] = width, height
xyp[:, 1, 2] = 1
with pytest.raises(ValueError):
_ = trackingutils.calc_bboxes_from_keypoints(xyp[..., :2])
bboxes = trackingutils.calc_bboxes_from_keypoints(xyp)
np.testing.assert_equal(bboxes, [[0, 0, width, height, 0.5]])
slack = 20
bboxes = trackingutils.calc_bboxes_from_keypoints(xyp, slack=slack)
np.testing.assert_equal(bboxes, [[-slack, -slack, width + slack, height + slack, 0.5]])
offset = 50
bboxes = trackingutils.calc_bboxes_from_keypoints(xyp, offset=offset)
np.testing.assert_equal(bboxes, [[offset, 0, width + offset, height, 0.5]])