def test_ilr():
# 1D
x = np.array([1, 2, 3, 4])
lg = log2([(x[0])**(1 / 1) / x[1], (x[0] * x[1])**(1 / 2) / x[2],
(x[0] * x[1] * x[2])**(1 / 3) / x[3]])
coeff = np.sqrt([1 / 2, 2 / 3, 3 / 4])
ilrx_ = coeff * lg
ilrx = ilr(x)
assert ilrx.shape == ilrx_.shape
for i, j in zip(ilrx, ilrx_):
assert i == pytest.approx(j)
# 2D with multiple rows
x = np.array([1, 2, 3, 4])
y = np.array([2, 3, 4, 5])
ilrx_ = np.array([-0.70710678, -0.88586817, -0.98583641])
ilry_ = np.array([-0.41363095, -0.57768664, -0.68728405])
xy = np.array([x, y])
ilrxy_ = np.array([ilrx_, ilry_])
ilrxy = ilr(xy)
assert ilrxy.shape == ilrxy_.shape
for i, j in zip(ilrxy.ravel(), ilrxy_.ravel()):
assert i == pytest.approx(j)
# 2D with single rows
xy = np.array([x])
ilrxy_ = np.array([ilrx_])
ilrxy = ilr(xy)
assert ilrxy.shape == ilrxy_.shape
for i, j in zip(ilrxy.ravel(), ilrxy_.ravel()):
assert i == pytest.approx(j)
def test_ilr():
# 1D
x = np.array([1, 2, 3, 4])
lg = log2([(x[0] )**(1/1) / x[1],
(x[0] * x[1] )**(1/2) / x[2],
(x[0] * x[1] * x[2])**(1/3) / x[3]])
coeff = np.sqrt([1/2, 2/3, 3/4])
ilrx_ = coeff * lg
ilrx = ilr(x)
assert_equal(ilrx.shape, ilrx_.shape)
for i, j in zip(ilrx, ilrx_):
assert_almost_equal(i, j)
# 2D with multiple rows
x = np.array([1, 2, 3, 4])
y = np.array([2, 3, 4, 5])
ilrx_ = np.array([-0.70710678, -0.88586817, -0.98583641])
ilry_ = np.array([-0.41363095, -0.57768664, -0.68728405])
xy = np.array([x, y])
ilrxy_ = np.array([ilrx_, ilry_])
ilrxy = ilr(xy)
assert_equal(ilrxy.shape, ilrxy_.shape)
for i, j in zip(ilrxy.ravel(), ilrxy_.ravel()):
assert_almost_equal(i, j)
# 2D with single rows
xy = np.array([x])
ilrxy_ = np.array([ilrx_])
ilrxy = ilr(xy)
assert_equal(ilrxy.shape, ilrxy_.shape)
for i, j in zip(ilrxy.ravel(), ilrxy_.ravel()):
assert_almost_equal(i, j)
def test_ilr_inv():
x = np.array([1, 2, 3, 4]) / 10
x_ilr = ilr(x)
y = ilr_inv(x_ilr)
assert x.shape == y.shape
assert np.allclose(x, y)
x = np.array([[1, 2, 3, 4], [2, 2, 2, 4]]) / 10
x_ilr = ilr(x)
y = ilr_inv(x_ilr)
assert x.shape == y.shape
assert np.allclose(x, y)
def test_ilr_inv():
x = np.array([1, 2, 3, 4]) / 10
x_ilr = ilr(x)
y = ilr_inv(x_ilr)
assert_equal_shape(x, y)
assert_almost_equal_array(x, y)
x = np.array([[1, 2, 3, 4], [2, 2, 2, 4]]) / 10
x_ilr = ilr(x)
y = ilr_inv(x_ilr)
assert_equal_shape(x, y)
assert_almost_equal_array(x, y)
def test_ilr_inv():
x = np.array([1, 2, 3, 4]) / 10
x_ilr = ilr(x)
y = ilr_inv(x_ilr)
assert_equal_shape(x, y)
assert_almost_equal_array(x, y)
x = np.array([[1, 2, 3, 4], [2, 2, 2, 4]]) / 10
x_ilr = ilr(x)
y = ilr_inv(x_ilr)
assert_equal_shape(x, y)
assert_almost_equal_array(x, y)
def test_equiv_dist():
x = np.array([1, 2, 3, 4])
y = np.array([3, 5, 1, 1])
aitchison_dist = dist(x, y)
euclidean_dist = np.linalg.norm(ilr(x) - ilr(y))
assert aitchison_dist == pytest.approx(euclidean_dist)
def test_equiv_norm():
x = np.array([1, 2, 3, 4])
aitchison_norm = norm(x)
euclidean_norm = np.linalg.norm(ilr(x))
assert aitchison_norm == pytest.approx(euclidean_norm)
def test_equiv_inner1():
x = np.array([1, 2, 3, 4])
y = np.array([3, 5, 1, 1])
aitchison_inner = inner(x, y)
euclidean_inner = np.inner(ilr(x), ilr(y))
assert aitchison_inner == pytest.approx(euclidean_inner)
def test_equiv_dist():
x = np.array([1, 2, 3, 4])
y = np.array([3, 5, 1, 1])
aitchison_dist = dist(x, y)
euclidean_dist = np.linalg.norm(ilr(x) - ilr(y))
assert_almost_equal(aitchison_dist, euclidean_dist)
def test_equiv_norm():
x = np.array([1, 2, 3, 4])
aitchison_norm = norm(x)
euclidean_norm = np.linalg.norm(ilr(x))
assert_almost_equal(aitchison_norm, euclidean_norm)
def test_equiv_inner1():
x = np.array([1, 2, 3, 4])
y = np.array([3, 5, 1, 1])
aitchison_inner = inner(x, y)
euclidean_inner = np.inner(ilr(x), ilr(y))
assert_almost_equal(aitchison_inner, euclidean_inner)
def test_equiv_dist():
x = np.array([1, 2, 3, 4])
y = np.array([3, 5, 1, 1])
aitchison_dist = dist(x, y)
euclidean_dist = np.linalg.norm(ilr(x)-ilr(y))
assert_almost_equal(aitchison_dist, euclidean_dist)
def test_equiv_norm():
x = np.array([1, 2, 3, 4])
aitchison_norm = norm(x)
euclidean_norm = np.linalg.norm(ilr(x))
assert_almost_equal(aitchison_norm, euclidean_norm)
def test_equiv_inner1():
x = np.array([1, 2, 3, 4])
y = np.array([3, 5, 1, 1])
aitchison_inner = inner(x, y)
euclidean_inner = np.inner(ilr(x), ilr(y))
assert_almost_equal(aitchison_inner, euclidean_inner)
