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import os
from functools import partial
import numpy
import pytest
from numpy.testing import assert_allclose
from sklearn._config import config_context
from sklearn.base import BaseEstimator
from sklearn.utils._array_api import (
_asarray_with_order,
_atol_for_type,
_average,
_convert_to_numpy,
_count_nonzero,
_estimator_with_converted_arrays,
_fill_or_add_to_diagonal,
_get_namespace_device_dtype_ids,
_is_numpy_namespace,
_isin,
_max_precision_float_dtype,
_nanmax,
_nanmean,
_nanmin,
_ravel,
device,
get_namespace,
get_namespace_and_device,
indexing_dtype,
np_compat,
yield_namespace_device_dtype_combinations,
)
from sklearn.utils._testing import (
SkipTest,
_array_api_for_tests,
assert_array_equal,
skip_if_array_api_compat_not_configured,
)
from sklearn.utils.fixes import _IS_32BIT, CSR_CONTAINERS, np_version, parse_version
@pytest.mark.parametrize("X", [numpy.asarray([1, 2, 3]), [1, 2, 3]])
def test_get_namespace_ndarray_default(X):
"""Check that get_namespace returns NumPy wrapper"""
xp_out, is_array_api_compliant = get_namespace(X)
assert xp_out is np_compat
assert not is_array_api_compliant
def test_get_namespace_ndarray_creation_device():
"""Check expected behavior with device and creation functions."""
X = numpy.asarray([1, 2, 3])
xp_out, _ = get_namespace(X)
full_array = xp_out.full(10, fill_value=2.0, device="cpu")
assert_allclose(full_array, [2.0] * 10)
with pytest.raises(ValueError, match="Unsupported device"):
xp_out.zeros(10, device="cuda")
@skip_if_array_api_compat_not_configured
def test_get_namespace_ndarray_with_dispatch():
"""Test get_namespace on NumPy ndarrays."""
X_np = numpy.asarray([[1, 2, 3]])
with config_context(array_api_dispatch=True):
xp_out, is_array_api_compliant = get_namespace(X_np)
assert is_array_api_compliant
# In the future, NumPy should become API compliant library and we should have
# assert xp_out is numpy
assert xp_out is np_compat
@skip_if_array_api_compat_not_configured
def test_get_namespace_array_api(monkeypatch):
"""Test get_namespace for ArrayAPI arrays."""
xp = pytest.importorskip("array_api_strict")
X_np = numpy.asarray([[1, 2, 3]])
X_xp = xp.asarray(X_np)
with config_context(array_api_dispatch=True):
xp_out, is_array_api_compliant = get_namespace(X_xp)
assert is_array_api_compliant
with pytest.raises(TypeError):
xp_out, is_array_api_compliant = get_namespace(X_xp, X_np)
def mock_getenv(key):
if key == "SCIPY_ARRAY_API":
return "0"
monkeypatch.setattr("os.environ.get", mock_getenv)
assert os.environ.get("SCIPY_ARRAY_API") != "1"
with pytest.raises(
RuntimeError,
match="scipy's own support is not enabled.",
):
get_namespace(X_xp)
@pytest.mark.parametrize("array_api", ["numpy", "array_api_strict"])
def test_asarray_with_order(array_api):
"""Test _asarray_with_order passes along order for NumPy arrays."""
xp = pytest.importorskip(array_api)
X = xp.asarray([1.2, 3.4, 5.1])
X_new = _asarray_with_order(X, order="F", xp=xp)
X_new_np = numpy.asarray(X_new)
assert X_new_np.flags["F_CONTIGUOUS"]
@pytest.mark.parametrize(
"array_namespace, device_, dtype_name",
yield_namespace_device_dtype_combinations(),
ids=_get_namespace_device_dtype_ids,
)
@pytest.mark.parametrize(
"weights, axis, normalize, expected",
[
# normalize = True
(None, None, True, 3.5),
(None, 0, True, [2.5, 3.5, 4.5]),
(None, 1, True, [2, 5]),
([True, False], 0, True, [1, 2, 3]), # boolean weights
([True, True, False], 1, True, [1.5, 4.5]), # boolean weights
([0.4, 0.1], 0, True, [1.6, 2.6, 3.6]),
([0.4, 0.2, 0.2], 1, True, [1.75, 4.75]),
([1, 2], 0, True, [3, 4, 5]),
([1, 1, 2], 1, True, [2.25, 5.25]),
([[1, 2, 3], [1, 2, 3]], 0, True, [2.5, 3.5, 4.5]),
([[1, 2, 1], [2, 2, 2]], 1, True, [2, 5]),
# normalize = False
(None, None, False, 21),
(None, 0, False, [5, 7, 9]),
(None, 1, False, [6, 15]),
([True, False], 0, False, [1, 2, 3]), # boolean weights
([True, True, False], 1, False, [3, 9]), # boolean weights
([0.4, 0.1], 0, False, [0.8, 1.3, 1.8]),
([0.4, 0.2, 0.2], 1, False, [1.4, 3.8]),
([1, 2], 0, False, [9, 12, 15]),
([1, 1, 2], 1, False, [9, 21]),
([[1, 2, 3], [1, 2, 3]], 0, False, [5, 14, 27]),
([[1, 2, 1], [2, 2, 2]], 1, False, [8, 30]),
],
)
def test_average(
array_namespace, device_, dtype_name, weights, axis, normalize, expected
):
xp = _array_api_for_tests(array_namespace, device_)
array_in = numpy.asarray([[1, 2, 3], [4, 5, 6]], dtype=dtype_name)
array_in = xp.asarray(array_in, device=device_)
if weights is not None:
weights = numpy.asarray(weights, dtype=dtype_name)
weights = xp.asarray(weights, device=device_)
with config_context(array_api_dispatch=True):
result = _average(array_in, axis=axis, weights=weights, normalize=normalize)
if np_version < parse_version("2.0.0") or np_version >= parse_version("2.1.0"):
# NumPy 2.0 has a problem with the device attribute of scalar arrays:
# https://github.com/numpy/numpy/issues/26850
assert device(array_in) == device(result)
result = _convert_to_numpy(result, xp)
assert_allclose(result, expected, atol=_atol_for_type(dtype_name))
@pytest.mark.parametrize(
"array_namespace, device, dtype_name",
yield_namespace_device_dtype_combinations(include_numpy_namespaces=False),
ids=_get_namespace_device_dtype_ids,
)
def test_average_raises_with_wrong_dtype(array_namespace, device, dtype_name):
xp = _array_api_for_tests(array_namespace, device)
array_in = numpy.asarray([2, 0], dtype=dtype_name) + 1j * numpy.asarray(
[4, 3], dtype=dtype_name
)
complex_type_name = array_in.dtype.name
if not hasattr(xp, complex_type_name):
# This is the case for cupy as of March 2024 for instance.
pytest.skip(f"{array_namespace} does not support {complex_type_name}")
array_in = xp.asarray(array_in, device=device)
err_msg = "Complex floating point values are not supported by average."
with (
config_context(array_api_dispatch=True),
pytest.raises(NotImplementedError, match=err_msg),
):
_average(array_in)
@pytest.mark.parametrize(
"array_namespace, device, dtype_name",
yield_namespace_device_dtype_combinations(include_numpy_namespaces=True),
ids=_get_namespace_device_dtype_ids,
)
@pytest.mark.parametrize(
"axis, weights, error, error_msg",
(
(
None,
[1, 2],
TypeError,
"Axis must be specified",
),
(
0,
[[1, 2]],
# NumPy 2 raises ValueError, NumPy 1 raises TypeError
(ValueError, TypeError),
"weights", # the message is different for NumPy 1 and 2...
),
(
0,
[1, 2, 3, 4],
ValueError,
"weights",
),
(0, [-1, 1], ZeroDivisionError, "Weights sum to zero, can't be normalized"),
),
)
def test_average_raises_with_invalid_parameters(
array_namespace, device, dtype_name, axis, weights, error, error_msg
):
xp = _array_api_for_tests(array_namespace, device)
array_in = numpy.asarray([[1, 2, 3], [4, 5, 6]], dtype=dtype_name)
array_in = xp.asarray(array_in, device=device)
weights = numpy.asarray(weights, dtype=dtype_name)
weights = xp.asarray(weights, device=device)
with config_context(array_api_dispatch=True), pytest.raises(error, match=error_msg):
_average(array_in, axis=axis, weights=weights)
def test_device_none_if_no_input():
assert device() is None
assert device(None, "name") is None
@skip_if_array_api_compat_not_configured
def test_device_inspection():
class Device:
def __init__(self, name):
self.name = name
def __eq__(self, device):
return self.name == device.name
def __hash__(self):
raise TypeError("Device object is not hashable")
def __str__(self):
return self.name
class Array:
def __init__(self, device_name):
self.device = Device(device_name)
# Sanity check: ensure our Device mock class is non hashable, to
# accurately account for non-hashable device objects in some array
# libraries, because of which the `device` inspection function shouldn't
# make use of hash lookup tables (in particular, not use `set`)
with pytest.raises(TypeError):
hash(Array("device").device)
# If array API dispatch is disabled the device should be ignored. Erroring
# early for different devices would prevent the np.asarray conversion to
# happen. For example, `r2_score(np.ones(5), torch.ones(5))` should work
# fine with array API disabled.
assert device(Array("cpu"), Array("mygpu")) is None
# Test that ValueError is raised if on different devices and array API dispatch is
# enabled.
err_msg = "Input arrays use different devices: cpu, mygpu"
with config_context(array_api_dispatch=True):
with pytest.raises(ValueError, match=err_msg):
device(Array("cpu"), Array("mygpu"))
# Test expected value is returned otherwise
array1 = Array("device")
array2 = Array("device")
assert array1.device == device(array1)
assert array1.device == device(array1, array2)
assert array1.device == device(array1, array1, array2)
# TODO: add cupy to the list of libraries once the following upstream issue
# has been fixed:
# https://github.com/cupy/cupy/issues/8180
@skip_if_array_api_compat_not_configured
@pytest.mark.parametrize("library", ["numpy", "array_api_strict", "torch"])
@pytest.mark.parametrize(
"X,reduction,expected",
[
([1, 2, numpy.nan], _nanmin, 1),
([1, -2, -numpy.nan], _nanmin, -2),
([numpy.inf, numpy.inf], _nanmin, numpy.inf),
(
[[1, 2, 3], [numpy.nan, numpy.nan, numpy.nan], [4, 5, 6.0]],
partial(_nanmin, axis=0),
[1.0, 2.0, 3.0],
),
(
[[1, 2, 3], [numpy.nan, numpy.nan, numpy.nan], [4, 5, 6.0]],
partial(_nanmin, axis=1),
[1.0, numpy.nan, 4.0],
),
([1, 2, numpy.nan], _nanmax, 2),
([1, 2, numpy.nan], _nanmax, 2),
([-numpy.inf, -numpy.inf], _nanmax, -numpy.inf),
(
[[1, 2, 3], [numpy.nan, numpy.nan, numpy.nan], [4, 5, 6.0]],
partial(_nanmax, axis=0),
[4.0, 5.0, 6.0],
),
(
[[1, 2, 3], [numpy.nan, numpy.nan, numpy.nan], [4, 5, 6.0]],
partial(_nanmax, axis=1),
[3.0, numpy.nan, 6.0],
),
([1, 2, numpy.nan], _nanmean, 1.5),
([1, -2, -numpy.nan], _nanmean, -0.5),
([-numpy.inf, -numpy.inf], _nanmean, -numpy.inf),
(
[[1, 2, 3], [numpy.nan, numpy.nan, numpy.nan], [4, 5, 6.0]],
partial(_nanmean, axis=0),
[2.5, 3.5, 4.5],
),
(
[[1, 2, 3], [numpy.nan, numpy.nan, numpy.nan], [4, 5, 6.0]],
partial(_nanmean, axis=1),
[2.0, numpy.nan, 5.0],
),
],
)
def test_nan_reductions(library, X, reduction, expected):
"""Check NaN reductions like _nanmin and _nanmax"""
xp = pytest.importorskip(library)
with config_context(array_api_dispatch=True):
result = reduction(xp.asarray(X))
result = _convert_to_numpy(result, xp)
assert_allclose(result, expected)
@pytest.mark.parametrize(
"namespace, _device, _dtype",
yield_namespace_device_dtype_combinations(),
ids=_get_namespace_device_dtype_ids,
)
def test_ravel(namespace, _device, _dtype):
xp = _array_api_for_tests(namespace, _device)
array = [[1, 2, 3], [4, 5, 6], [7, 8, 9], [10, 11, 12]]
array_xp = xp.asarray(array, device=_device)
with config_context(array_api_dispatch=True):
result = _ravel(array_xp)
result = _convert_to_numpy(result, xp)
expected = numpy.ravel(array, order="C")
assert_allclose(expected, result)
if _is_numpy_namespace(xp):
assert numpy.asarray(result).flags["C_CONTIGUOUS"]
@skip_if_array_api_compat_not_configured
@pytest.mark.parametrize("library", ["cupy", "torch"])
def test_convert_to_numpy_gpu(library): # pragma: nocover
"""Check convert_to_numpy for GPU backed libraries."""
xp = pytest.importorskip(library)
if library == "torch":
if not xp.backends.cuda.is_built():
pytest.skip("test requires cuda")
X_gpu = xp.asarray([1.0, 2.0, 3.0], device="cuda")
else:
X_gpu = xp.asarray([1.0, 2.0, 3.0])
X_cpu = _convert_to_numpy(X_gpu, xp=xp)
expected_output = numpy.asarray([1.0, 2.0, 3.0])
assert_allclose(X_cpu, expected_output)
def test_convert_to_numpy_cpu():
"""Check convert_to_numpy for PyTorch CPU arrays."""
torch = pytest.importorskip("torch")
X_torch = torch.asarray([1.0, 2.0, 3.0], device="cpu")
X_cpu = _convert_to_numpy(X_torch, xp=torch)
expected_output = numpy.asarray([1.0, 2.0, 3.0])
assert_allclose(X_cpu, expected_output)
class SimpleEstimator(BaseEstimator):
def fit(self, X, y=None):
self.X_ = X
self.n_features_ = X.shape[0]
return self
@skip_if_array_api_compat_not_configured
@pytest.mark.parametrize(
"array_namespace, converter",
[
("torch", lambda array: array.cpu().numpy()),
("array_api_strict", lambda array: numpy.asarray(array)),
("cupy", lambda array: array.get()),
],
)
def test_convert_estimator_to_ndarray(array_namespace, converter):
"""Convert estimator attributes to ndarray."""
xp = pytest.importorskip(array_namespace)
X = xp.asarray([[1.3, 4.5]])
est = SimpleEstimator().fit(X)
new_est = _estimator_with_converted_arrays(est, converter)
assert isinstance(new_est.X_, numpy.ndarray)
@skip_if_array_api_compat_not_configured
def test_convert_estimator_to_array_api():
"""Convert estimator attributes to ArrayAPI arrays."""
xp = pytest.importorskip("array_api_strict")
X_np = numpy.asarray([[1.3, 4.5]])
est = SimpleEstimator().fit(X_np)
new_est = _estimator_with_converted_arrays(est, lambda array: xp.asarray(array))
assert hasattr(new_est.X_, "__array_namespace__")
@pytest.mark.parametrize(
"namespace, _device, _dtype",
yield_namespace_device_dtype_combinations(),
ids=_get_namespace_device_dtype_ids,
)
def test_indexing_dtype(namespace, _device, _dtype):
xp = _array_api_for_tests(namespace, _device)
if _IS_32BIT:
assert indexing_dtype(xp) == xp.int32
else:
assert indexing_dtype(xp) == xp.int64
@pytest.mark.parametrize(
"namespace, _device, _dtype",
yield_namespace_device_dtype_combinations(),
ids=_get_namespace_device_dtype_ids,
)
def test_max_precision_float_dtype(namespace, _device, _dtype):
xp = _array_api_for_tests(namespace, _device)
expected_dtype = xp.float32 if _device == "mps" else xp.float64
assert _max_precision_float_dtype(xp, _device) == expected_dtype
@pytest.mark.parametrize(
"array_namespace, device, _",
yield_namespace_device_dtype_combinations(),
ids=_get_namespace_device_dtype_ids,
)
@pytest.mark.parametrize("invert", [True, False])
@pytest.mark.parametrize("assume_unique", [True, False])
@pytest.mark.parametrize("element_size", [6, 10, 14])
@pytest.mark.parametrize("int_dtype", ["int16", "int32", "int64", "uint8"])
def test_isin(
array_namespace, device, _, invert, assume_unique, element_size, int_dtype
):
xp = _array_api_for_tests(array_namespace, device)
r = element_size // 2
element = 2 * numpy.arange(element_size).reshape((r, 2)).astype(int_dtype)
test_elements = numpy.array(numpy.arange(14), dtype=int_dtype)
element_xp = xp.asarray(element, device=device)
test_elements_xp = xp.asarray(test_elements, device=device)
expected = numpy.isin(
element=element,
test_elements=test_elements,
assume_unique=assume_unique,
invert=invert,
)
with config_context(array_api_dispatch=True):
result = _isin(
element=element_xp,
test_elements=test_elements_xp,
xp=xp,
assume_unique=assume_unique,
invert=invert,
)
assert_array_equal(_convert_to_numpy(result, xp=xp), expected)
@pytest.mark.skipif(
os.environ.get("SCIPY_ARRAY_API") != "1", reason="SCIPY_ARRAY_API not set to 1."
)
def test_get_namespace_and_device():
# Use torch as a library with custom Device objects:
torch = pytest.importorskip("torch")
from sklearn.externals.array_api_compat import torch as torch_compat
some_torch_tensor = torch.arange(3, device="cpu")
some_numpy_array = numpy.arange(3)
# When dispatch is disabled, get_namespace_and_device should return the
# default NumPy wrapper namespace and "cpu" device. Our code will handle such
# inputs via the usual __array__ interface without attempting to dispatch
# via the array API.
namespace, is_array_api, device = get_namespace_and_device(some_torch_tensor)
assert namespace is get_namespace(some_numpy_array)[0]
assert not is_array_api
assert device is None
# Otherwise, expose the torch namespace and device via array API compat
# wrapper.
with config_context(array_api_dispatch=True):
namespace, is_array_api, device = get_namespace_and_device(some_torch_tensor)
assert namespace is torch_compat
assert is_array_api
assert device == some_torch_tensor.device
@pytest.mark.parametrize(
"array_namespace, device_, dtype_name",
yield_namespace_device_dtype_combinations(),
ids=_get_namespace_device_dtype_ids,
)
@pytest.mark.parametrize("csr_container", CSR_CONTAINERS)
@pytest.mark.parametrize("axis", [0, 1, None, -1, -2])
@pytest.mark.parametrize("sample_weight_type", [None, "int", "float"])
def test_count_nonzero(
array_namespace, device_, dtype_name, csr_container, axis, sample_weight_type
):
from sklearn.utils.sparsefuncs import count_nonzero as sparse_count_nonzero
xp = _array_api_for_tests(array_namespace, device_)
array = numpy.array([[0, 3, 0], [2, -1, 0], [0, 0, 0], [9, 8, 7], [4, 0, 5]])
if sample_weight_type == "int":
sample_weight = numpy.asarray([1, 2, 2, 3, 1])
elif sample_weight_type == "float":
sample_weight = numpy.asarray([0.5, 1.5, 0.8, 3.2, 2.4], dtype=dtype_name)
else:
sample_weight = None
expected = sparse_count_nonzero(
csr_container(array), axis=axis, sample_weight=sample_weight
)
array_xp = xp.asarray(array, device=device_)
with config_context(array_api_dispatch=True):
result = _count_nonzero(
array_xp, axis=axis, sample_weight=sample_weight, xp=xp, device=device_
)
assert_allclose(_convert_to_numpy(result, xp=xp), expected)
if np_version < parse_version("2.0.0") or np_version >= parse_version("2.1.0"):
# NumPy 2.0 has a problem with the device attribute of scalar arrays:
# https://github.com/numpy/numpy/issues/26850
assert device(array_xp) == device(result)
@pytest.mark.parametrize(
"array_namespace, device_, dtype_name",
yield_namespace_device_dtype_combinations(),
ids=_get_namespace_device_dtype_ids,
)
@pytest.mark.parametrize("wrap", [True, False])
def test_fill_or_add_to_diagonal(array_namespace, device_, dtype_name, wrap):
xp = _array_api_for_tests(array_namespace, device_)
array_np = numpy.zeros((5, 4), dtype=dtype_name)
array_xp = xp.asarray(array_np.copy(), device=device_)
numpy.fill_diagonal(array_np, val=1, wrap=wrap)
with config_context(array_api_dispatch=True):
_fill_or_add_to_diagonal(array_xp, value=1, xp=xp, add_value=False, wrap=wrap)
assert_array_equal(_convert_to_numpy(array_xp, xp=xp), array_np)
@pytest.mark.parametrize("csr_container", CSR_CONTAINERS)
@pytest.mark.parametrize("dispatch", [True, False])
def test_sparse_device(csr_container, dispatch):
a, b = csr_container(numpy.array([[1]])), csr_container(numpy.array([[2]]))
if dispatch and os.environ.get("SCIPY_ARRAY_API") is None:
raise SkipTest("SCIPY_ARRAY_API is not set: not checking array_api input")
with config_context(array_api_dispatch=dispatch):
assert device(a, b) is None
assert device(a, numpy.array([1])) is None
assert get_namespace_and_device(a, b)[2] is None
assert get_namespace_and_device(a, numpy.array([1]))[2] is None
|