import pytest import numpy as np import scipy.sparse as sp import warnings from sklearn import clone from sklearn.preprocessing import KBinsDiscretizer from sklearn.preprocessing import OneHotEncoder from sklearn.utils._testing import ( assert_array_almost_equal, assert_array_equal, assert_allclose_dense_sparse, ) X = [[-2, 1.5, -4, -1], [-1, 2.5, -3, -0.5], [0, 3.5, -2, 0.5], [1, 4.5, -1, 2]] @pytest.mark.parametrize( "strategy, expected", [ ("uniform", [[0, 0, 0, 0], [1, 1, 1, 0], [2, 2, 2, 1], [2, 2, 2, 2]]), ("kmeans", [[0, 0, 0, 0], [0, 0, 0, 0], [1, 1, 1, 1], [2, 2, 2, 2]]), ("quantile", [[0, 0, 0, 0], [1, 1, 1, 1], [2, 2, 2, 2], [2, 2, 2, 2]]), ], ) def test_fit_transform(strategy, expected): est = KBinsDiscretizer(n_bins=3, encode="ordinal", strategy=strategy) est.fit(X) assert_array_equal(expected, est.transform(X)) def test_valid_n_bins(): KBinsDiscretizer(n_bins=2).fit_transform(X) KBinsDiscretizer(n_bins=np.array([2])[0]).fit_transform(X) assert KBinsDiscretizer(n_bins=2).fit(X).n_bins_.dtype == np.dtype(int) def test_invalid_n_bins_array(): # Bad shape n_bins = np.full((2, 4), 2.0) est = KBinsDiscretizer(n_bins=n_bins) err_msg = r"n_bins must be a scalar or array of shape \(n_features,\)." with pytest.raises(ValueError, match=err_msg): est.fit_transform(X) # Incorrect number of features n_bins = [1, 2, 2] est = KBinsDiscretizer(n_bins=n_bins) err_msg = r"n_bins must be a scalar or array of shape \(n_features,\)." with pytest.raises(ValueError, match=err_msg): est.fit_transform(X) # Bad bin values n_bins = [1, 2, 2, 1] est = KBinsDiscretizer(n_bins=n_bins) err_msg = ( "KBinsDiscretizer received an invalid number of bins " "at indices 0, 3. Number of bins must be at least 2, " "and must be an int." ) with pytest.raises(ValueError, match=err_msg): est.fit_transform(X) # Float bin values n_bins = [2.1, 2, 2.1, 2] est = KBinsDiscretizer(n_bins=n_bins) err_msg = ( "KBinsDiscretizer received an invalid number of bins " "at indices 0, 2. Number of bins must be at least 2, " "and must be an int." ) with pytest.raises(ValueError, match=err_msg): est.fit_transform(X) @pytest.mark.parametrize( "strategy, expected", [ ("uniform", [[0, 0, 0, 0], [0, 1, 1, 0], [1, 2, 2, 1], [1, 2, 2, 2]]), ("kmeans", [[0, 0, 0, 0], [0, 0, 0, 0], [1, 1, 1, 1], [1, 2, 2, 2]]), ("quantile", [[0, 0, 0, 0], [0, 1, 1, 1], [1, 2, 2, 2], [1, 2, 2, 2]]), ], ) def test_fit_transform_n_bins_array(strategy, expected): est = KBinsDiscretizer( n_bins=[2, 3, 3, 3], encode="ordinal", strategy=strategy ).fit(X) assert_array_equal(expected, est.transform(X)) # test the shape of bin_edges_ n_features = np.array(X).shape[1] assert est.bin_edges_.shape == (n_features,) for bin_edges, n_bins in zip(est.bin_edges_, est.n_bins_): assert bin_edges.shape == (n_bins + 1,) @pytest.mark.parametrize("strategy", ["uniform", "kmeans", "quantile"]) def test_same_min_max(strategy): warnings.simplefilter("always") X = np.array([[1, -2], [1, -1], [1, 0], [1, 1]]) est = KBinsDiscretizer(strategy=strategy, n_bins=3, encode="ordinal") warning_message = "Feature 0 is constant and will be replaced with 0." with pytest.warns(UserWarning, match=warning_message): est.fit(X) assert est.n_bins_[0] == 1 # replace the feature with zeros Xt = est.transform(X) assert_array_equal(Xt[:, 0], np.zeros(X.shape[0])) def test_transform_1d_behavior(): X = np.arange(4) est = KBinsDiscretizer(n_bins=2) with pytest.raises(ValueError): est.fit(X) est = KBinsDiscretizer(n_bins=2) est.fit(X.reshape(-1, 1)) with pytest.raises(ValueError): est.transform(X) @pytest.mark.parametrize("i", range(1, 9)) def test_numeric_stability(i): X_init = np.array([2.0, 4.0, 6.0, 8.0, 10.0]).reshape(-1, 1) Xt_expected = np.array([0, 0, 1, 1, 1]).reshape(-1, 1) # Test up to discretizing nano units X = X_init / 10**i Xt = KBinsDiscretizer(n_bins=2, encode="ordinal").fit_transform(X) assert_array_equal(Xt_expected, Xt) def test_encode_options(): est = KBinsDiscretizer(n_bins=[2, 3, 3, 3], encode="ordinal").fit(X) Xt_1 = est.transform(X) est = KBinsDiscretizer(n_bins=[2, 3, 3, 3], encode="onehot-dense").fit(X) Xt_2 = est.transform(X) assert not sp.issparse(Xt_2) assert_array_equal( OneHotEncoder( categories=[np.arange(i) for i in [2, 3, 3, 3]], sparse_output=False ).fit_transform(Xt_1), Xt_2, ) est = KBinsDiscretizer(n_bins=[2, 3, 3, 3], encode="onehot").fit(X) Xt_3 = est.transform(X) assert sp.issparse(Xt_3) assert_array_equal( OneHotEncoder( categories=[np.arange(i) for i in [2, 3, 3, 3]], sparse_output=True ) .fit_transform(Xt_1) .toarray(), Xt_3.toarray(), ) @pytest.mark.parametrize( "strategy, expected_2bins, expected_3bins, expected_5bins", [ ("uniform", [0, 0, 0, 0, 1, 1], [0, 0, 0, 0, 2, 2], [0, 0, 1, 1, 4, 4]), ("kmeans", [0, 0, 0, 0, 1, 1], [0, 0, 1, 1, 2, 2], [0, 0, 1, 2, 3, 4]), ("quantile", [0, 0, 0, 1, 1, 1], [0, 0, 1, 1, 2, 2], [0, 1, 2, 3, 4, 4]), ], ) def test_nonuniform_strategies( strategy, expected_2bins, expected_3bins, expected_5bins ): X = np.array([0, 0.5, 2, 3, 9, 10]).reshape(-1, 1) # with 2 bins est = KBinsDiscretizer(n_bins=2, strategy=strategy, encode="ordinal") Xt = est.fit_transform(X) assert_array_equal(expected_2bins, Xt.ravel()) # with 3 bins est = KBinsDiscretizer(n_bins=3, strategy=strategy, encode="ordinal") Xt = est.fit_transform(X) assert_array_equal(expected_3bins, Xt.ravel()) # with 5 bins est = KBinsDiscretizer(n_bins=5, strategy=strategy, encode="ordinal") Xt = est.fit_transform(X) assert_array_equal(expected_5bins, Xt.ravel()) @pytest.mark.parametrize( "strategy, expected_inv", [ ( "uniform", [ [-1.5, 2.0, -3.5, -0.5], [-0.5, 3.0, -2.5, -0.5], [0.5, 4.0, -1.5, 0.5], [0.5, 4.0, -1.5, 1.5], ], ), ( "kmeans", [ [-1.375, 2.125, -3.375, -0.5625], [-1.375, 2.125, -3.375, -0.5625], [-0.125, 3.375, -2.125, 0.5625], [0.75, 4.25, -1.25, 1.625], ], ), ( "quantile", [ [-1.5, 2.0, -3.5, -0.75], [-0.5, 3.0, -2.5, 0.0], [0.5, 4.0, -1.5, 1.25], [0.5, 4.0, -1.5, 1.25], ], ), ], ) @pytest.mark.parametrize("encode", ["ordinal", "onehot", "onehot-dense"]) def test_inverse_transform(strategy, encode, expected_inv): kbd = KBinsDiscretizer(n_bins=3, strategy=strategy, encode=encode) Xt = kbd.fit_transform(X) Xinv = kbd.inverse_transform(Xt) assert_array_almost_equal(expected_inv, Xinv) @pytest.mark.parametrize("strategy", ["uniform", "kmeans", "quantile"]) def test_transform_outside_fit_range(strategy): X = np.array([0, 1, 2, 3])[:, None] kbd = KBinsDiscretizer(n_bins=4, strategy=strategy, encode="ordinal") kbd.fit(X) X2 = np.array([-2, 5])[:, None] X2t = kbd.transform(X2) assert_array_equal(X2t.max(axis=0) + 1, kbd.n_bins_) assert_array_equal(X2t.min(axis=0), [0]) def test_overwrite(): X = np.array([0, 1, 2, 3])[:, None] X_before = X.copy() est = KBinsDiscretizer(n_bins=3, encode="ordinal") Xt = est.fit_transform(X) assert_array_equal(X, X_before) Xt_before = Xt.copy() Xinv = est.inverse_transform(Xt) assert_array_equal(Xt, Xt_before) assert_array_equal(Xinv, np.array([[0.5], [1.5], [2.5], [2.5]])) @pytest.mark.parametrize( "strategy, expected_bin_edges", [("quantile", [0, 1, 3]), ("kmeans", [0, 1.5, 3])] ) def test_redundant_bins(strategy, expected_bin_edges): X = [[0], [0], [0], [0], [3], [3]] kbd = KBinsDiscretizer(n_bins=3, strategy=strategy) warning_message = "Consider decreasing the number of bins." with pytest.warns(UserWarning, match=warning_message): kbd.fit(X) assert_array_almost_equal(kbd.bin_edges_[0], expected_bin_edges) def test_percentile_numeric_stability(): X = np.array([0.05, 0.05, 0.95]).reshape(-1, 1) bin_edges = np.array([0.05, 0.23, 0.41, 0.59, 0.77, 0.95]) Xt = np.array([0, 0, 4]).reshape(-1, 1) kbd = KBinsDiscretizer(n_bins=10, encode="ordinal", strategy="quantile") warning_message = "Consider decreasing the number of bins." with pytest.warns(UserWarning, match=warning_message): kbd.fit(X) assert_array_almost_equal(kbd.bin_edges_[0], bin_edges) assert_array_almost_equal(kbd.transform(X), Xt) @pytest.mark.parametrize("in_dtype", [np.float16, np.float32, np.float64]) @pytest.mark.parametrize("out_dtype", [None, np.float32, np.float64]) @pytest.mark.parametrize("encode", ["ordinal", "onehot", "onehot-dense"]) def test_consistent_dtype(in_dtype, out_dtype, encode): X_input = np.array(X, dtype=in_dtype) kbd = KBinsDiscretizer(n_bins=3, encode=encode, dtype=out_dtype) kbd.fit(X_input) # test output dtype if out_dtype is not None: expected_dtype = out_dtype elif out_dtype is None and X_input.dtype == np.float16: # wrong numeric input dtype are cast in np.float64 expected_dtype = np.float64 else: expected_dtype = X_input.dtype Xt = kbd.transform(X_input) assert Xt.dtype == expected_dtype @pytest.mark.parametrize("input_dtype", [np.float16, np.float32, np.float64]) @pytest.mark.parametrize("encode", ["ordinal", "onehot", "onehot-dense"]) def test_32_equal_64(input_dtype, encode): # TODO this check is redundant with common checks and can be removed # once #16290 is merged X_input = np.array(X, dtype=input_dtype) # 32 bit output kbd_32 = KBinsDiscretizer(n_bins=3, encode=encode, dtype=np.float32) kbd_32.fit(X_input) Xt_32 = kbd_32.transform(X_input) # 64 bit output kbd_64 = KBinsDiscretizer(n_bins=3, encode=encode, dtype=np.float64) kbd_64.fit(X_input) Xt_64 = kbd_64.transform(X_input) assert_allclose_dense_sparse(Xt_32, Xt_64) # FIXME: remove the `filterwarnings` in 1.3 @pytest.mark.filterwarnings("ignore:In version 1.3 onwards, subsample=2e5") @pytest.mark.parametrize("subsample", [None, "warn"]) def test_kbinsdiscretizer_subsample_default(subsample): # Since the size of X is small (< 2e5), subsampling will not take place. X = np.array([-2, 1.5, -4, -1]).reshape(-1, 1) kbd_default = KBinsDiscretizer(n_bins=10, encode="ordinal", strategy="quantile") kbd_default.fit(X) kbd_with_subsampling = clone(kbd_default) kbd_with_subsampling.set_params(subsample=subsample) kbd_with_subsampling.fit(X) for bin_kbd_default, bin_kbd_with_subsampling in zip( kbd_default.bin_edges_[0], kbd_with_subsampling.bin_edges_[0] ): np.testing.assert_allclose(bin_kbd_default, bin_kbd_with_subsampling) assert kbd_default.bin_edges_.shape == kbd_with_subsampling.bin_edges_.shape def test_kbinsdiscretizer_subsample_invalid_strategy(): X = np.array([-2, 1.5, -4, -1]).reshape(-1, 1) kbd = KBinsDiscretizer(n_bins=10, encode="ordinal", strategy="uniform", subsample=3) err_msg = '`subsample` must be used with `strategy="quantile"`.' with pytest.raises(ValueError, match=err_msg): kbd.fit(X) # TODO: Remove in 1.3 def test_kbinsdiscretizer_subsample_warn(): X = np.random.rand(200001, 1).reshape(-1, 1) kbd = KBinsDiscretizer(n_bins=100, encode="ordinal", strategy="quantile") msg = "In version 1.3 onwards, subsample=2e5 will be used by default." with pytest.warns(FutureWarning, match=msg): kbd.fit(X) # TODO(1.3) remove def test_kbinsdiscretizer_subsample_values(): X = np.random.rand(220000, 1).reshape(-1, 1) kbd_default = KBinsDiscretizer(n_bins=10, encode="ordinal", strategy="quantile") kbd_with_subsampling = clone(kbd_default) kbd_with_subsampling.set_params(subsample=int(2e5)) msg = "In version 1.3 onwards, subsample=2e5 will be used by default." with pytest.warns(FutureWarning, match=msg): kbd_default.fit(X) kbd_with_subsampling.fit(X) assert not np.all(kbd_default.bin_edges_[0] == kbd_with_subsampling.bin_edges_[0]) assert kbd_default.bin_edges_.shape == kbd_with_subsampling.bin_edges_.shape @pytest.mark.parametrize( "encode, expected_names", [ ( "onehot", [ f"feat{col_id}_{float(bin_id)}" for col_id in range(3) for bin_id in range(4) ], ), ( "onehot-dense", [ f"feat{col_id}_{float(bin_id)}" for col_id in range(3) for bin_id in range(4) ], ), ("ordinal", [f"feat{col_id}" for col_id in range(3)]), ], ) def test_kbinsdiscrtizer_get_feature_names_out(encode, expected_names): """Check get_feature_names_out for different settings. Non-regression test for #22731 """ X = [[-2, 1, -4], [-1, 2, -3], [0, 3, -2], [1, 4, -1]] kbd = KBinsDiscretizer(n_bins=4, encode=encode).fit(X) Xt = kbd.transform(X) input_features = [f"feat{i}" for i in range(3)] output_names = kbd.get_feature_names_out(input_features) assert Xt.shape[1] == output_names.shape[0] assert_array_equal(output_names, expected_names)