scikit-image/skimage/measure/tests/test_fit.py

import numpy as np
from numpy.testing import assert_equal, assert_raises, assert_almost_equal
from skimage.measure import LineModel, CircleModel, EllipseModel, ransac
from skimage.transform import AffineTransform


def test_line_model_invalid_input():
    assert_raises(ValueError, LineModel().estimate, np.empty((5, 3)))


def test_line_model_predict():
    model = LineModel()
    model.params = (10, 1)
    x = np.arange(-10, 10)
    y = model.predict_y(x)
    assert_almost_equal(x, model.predict_x(y))


def test_line_model_estimate():
    # generate original data without noise
    model0 = LineModel()
    model0.params = (10, 1)
    x0 = np.arange(-100, 100)
    y0 = model0.predict_y(x0)
    data0 = np.column_stack([x0, y0])

    # add gaussian noise to data
    np.random.seed(1234)
    data = data0 + np.random.normal(size=data0.shape)

    # estimate parameters of noisy data
    model_est = LineModel()
    model_est.estimate(data)

    # test whether estimated parameters almost equal original parameters
    assert_almost_equal(model0.params, model_est.params, 1)


def test_line_model_residuals():
    model = LineModel()
    model.params = (0, 0)
    assert_equal(abs(model.residuals(np.array([[0, 0]]))), 0)
    assert_equal(abs(model.residuals(np.array([[0, 10]]))), 0)
    assert_equal(abs(model.residuals(np.array([[10, 0]]))), 10)
    model.params = (5, np.pi / 4)
    assert_equal(abs(model.residuals(np.array([[0, 0]]))), 5)
    assert_almost_equal(abs(model.residuals(np.array([[np.sqrt(50), 0]]))), 0)


def test_line_model_under_determined():
    data = np.empty((1, 2))
    assert_raises(ValueError, LineModel().estimate, data)


def test_circle_model_invalid_input():
    assert_raises(ValueError, CircleModel().estimate, np.empty((5, 3)))


def test_circle_model_predict():
    model = CircleModel()
    r = 5
    model.params = (0, 0, r)
    t = np.arange(0, 2 * np.pi, np.pi / 2)

    xy = np.array(((5, 0), (0, 5), (-5, 0), (0, -5)))
    assert_almost_equal(xy, model.predict_xy(t))


def test_circle_model_estimate():
    # generate original data without noise
    model0 = CircleModel()
    model0.params = (10, 12, 3)
    t = np.linspace(0, 2 * np.pi, 1000)
    data0 = model0.predict_xy(t)

    # add gaussian noise to data
    np.random.seed(1234)
    data = data0 + np.random.normal(size=data0.shape)

    # estimate parameters of noisy data
    model_est = CircleModel()
    model_est.estimate(data)

    # test whether estimated parameters almost equal original parameters
    assert_almost_equal(model0.params, model_est.params, 1)


def test_circle_model_residuals():
    model = CircleModel()
    model.params = (0, 0, 5)
    assert_almost_equal(abs(model.residuals(np.array([[5, 0]]))), 0)
    assert_almost_equal(abs(model.residuals(np.array([[6, 6]]))),
                        np.sqrt(2 * 6**2) - 5)
    assert_almost_equal(abs(model.residuals(np.array([[10, 0]]))), 5)


def test_ellipse_model_invalid_input():
    assert_raises(ValueError, EllipseModel().estimate, np.empty((5, 3)))


def test_ellipse_model_predict():
    model = EllipseModel()
    r = 5
    model.params = (0, 0, 5, 10, 0)
    t = np.arange(0, 2 * np.pi, np.pi / 2)

    xy = np.array(((5, 0), (0, 10), (-5, 0), (0, -10)))
    assert_almost_equal(xy, model.predict_xy(t))


def test_ellipse_model_estimate():
    # generate original data without noise
    model0 = EllipseModel()
    model0.params = (10, 20, 15, 25, 0)
    t = np.linspace(0, 2 * np.pi, 100)
    data0 = model0.predict_xy(t)

    # add gaussian noise to data
    np.random.seed(1234)
    data = data0 + np.random.normal(size=data0.shape)

    # estimate parameters of noisy data
    model_est = EllipseModel()
    model_est.estimate(data)

    # test whether estimated parameters almost equal original parameters
    assert_almost_equal(model0.params, model_est.params, 0)


def test_ellipse_model_residuals():
    model = EllipseModel()
    # vertical line through origin
    model.params = (0, 0, 10, 5, 0)
    assert_almost_equal(abs(model.residuals(np.array([[10, 0]]))), 0)
    assert_almost_equal(abs(model.residuals(np.array([[0, 5]]))), 0)
    assert_almost_equal(abs(model.residuals(np.array([[0, 10]]))), 5)


def test_ransac_shape():
    np.random.seed(1)

    # generate original data without noise
    model0 = CircleModel()
    model0.params = (10, 12, 3)
    t = np.linspace(0, 2 * np.pi, 1000)
    data0 = model0.predict_xy(t)

    # add some faulty data
    outliers = (10, 30, 200)
    data0[outliers[0], :] = (1000, 1000)
    data0[outliers[1], :] = (-50, 50)
    data0[outliers[2], :] = (-100, -10)

    # estimate parameters of corrupted data
    model_est, inliers = ransac(data0, CircleModel, 3, 5)

    # test whether estimated parameters equal original parameters
    assert_equal(model0.params, model_est.params)
    for outlier in outliers:
        assert outlier not in inliers


def test_ransac_geometric():
    np.random.seed(1)

    # generate original data without noise
    src = 100 * np.random.random((50, 2))
    model0 = AffineTransform(scale=(0.5, 0.3), rotation=1,
                             translation=(10, 20))
    dst = model0(src)

    # add some faulty data
    outliers = (0, 5, 20)
    dst[outliers[0]] = (10000, 10000)
    dst[outliers[1]] = (-100, 100)
    dst[outliers[2]] = (50, 50)

    # estimate parameters of corrupted data
    model_est, inliers = ransac((src, dst), AffineTransform, 2, 20)

    # test whether estimated parameters equal original parameters
    assert_almost_equal(model0._matrix, model_est._matrix)
    assert np.all(np.nonzero(inliers == False)[0] == outliers)


def test_ransac_is_data_valid():
    np.random.seed(1)

    is_data_valid = lambda data: data.shape[0] > 2
    model, inliers = ransac(np.empty((10, 2)), LineModel, 2, np.inf,
                            is_data_valid=is_data_valid)
    assert_equal(model, None)
    assert_equal(inliers, None)


def test_ransac_is_model_valid():
    np.random.seed(1)

    def is_model_valid(model, data):
        return False
    model, inliers = ransac(np.empty((10, 2)), LineModel, 2, np.inf,
                            is_model_valid=is_model_valid)
    assert_equal(model, None)
    assert_equal(inliers, None)


def test_deprecated_params_attribute():
    model = LineModel()
    model.params = (10, 1)
    x = np.arange(-10, 10)
    y = model.predict_y(x)
    assert_equal(model.params, model._params)


if __name__ == "__main__":
    np.testing.run_module_suite()