diff --git a/numalogic/config/factory.py b/numalogic/config/factory.py index 6284d6b3..27bd94a4 100644 --- a/numalogic/config/factory.py +++ b/numalogic/config/factory.py @@ -63,12 +63,14 @@ class PostprocessFactory(_ObjectFactory): class ThresholdFactory(_ObjectFactory): """Factory class to create threshold instances.""" - from numalogic.models.threshold import StdDevThreshold, StaticThreshold, SigmoidThreshold + from numalogic.models.threshold import \ + StdDevThreshold, MahalanobisThreshold, StaticThreshold, SigmoidThreshold _CLS_MAP: ClassVar[dict] = { "StdDevThreshold": StdDevThreshold, "StaticThreshold": StaticThreshold, "SigmoidThreshold": SigmoidThreshold, + "MahalanobisThreshold": MahalanobisThreshold, } diff --git a/numalogic/models/threshold/__init__.py b/numalogic/models/threshold/__init__.py index ba26f79b..d7892e1f 100644 --- a/numalogic/models/threshold/__init__.py +++ b/numalogic/models/threshold/__init__.py @@ -1,4 +1,5 @@ from numalogic.models.threshold._std import StdDevThreshold +from numalogic.models.threshold._mahalanobis import MahalanobisThreshold from numalogic.models.threshold._static import StaticThreshold, SigmoidThreshold -__all__ = ["StdDevThreshold", "StaticThreshold", "SigmoidThreshold"] +__all__ = ["StdDevThreshold", "StaticThreshold", "SigmoidThreshold", "MahalanobisThreshold"] diff --git a/numalogic/models/threshold/_mahalanobis.py b/numalogic/models/threshold/_mahalanobis.py new file mode 100644 index 00000000..756f807a --- /dev/null +++ b/numalogic/models/threshold/_mahalanobis.py @@ -0,0 +1,145 @@ +from typing import Final + +import numpy as np +import numpy.typing as npt + +from numalogic.base import BaseThresholdModel +from typing_extensions import Self + +from numalogic.tools.exceptions import ModelInitializationError + +_INLIER: Final[int] = 0 +_OUTLIER: Final[int] = 1 + + +class MahalanobisThreshold(BaseThresholdModel): + """ + Multivariate threshold estimator using Mahalanobis distance. + + The maximum outlier probability is used to calculate the k value + using Chebyshev's inequality. This basically means that the + probability of values lying outside the interval + (mean - k * std, mean + k * std) is not more than max_outlier_prob. + A value of 0.1 means that 90% of the values lie within the interval and + 10% of the values lie outside the interval. + + The threshold is calculated as the + mean of Mahalanobis distance plus k times the standard deviation + of Mahalanobis distance. + + Args: + ---- + max_outlier_prob: maximum outlier probability (default: 0.1) + + Raises + ------ + ValueError: if max_outlier_prob is not in range (0, 1) + """ + + def __init__(self, max_outlier_prob: float = 0.1): + if not 0.0 < max_outlier_prob < 1.0: + raise ValueError("max_outlier_prob should be in range (0, 1)") + self._k = self._chebyshev_k(max_outlier_prob) + self._distr_mean = None + self._cov_inv = None + self._md_thresh = None + self._is_fitted = False + + @property + def threshold(self): + """Returns the threshold value.""" + return self._md_thresh + + @property + def std_factor(self): + """Returns the k value calculated using Chebyshev's inequality.""" + return self._k + + @staticmethod + def _chebyshev_k(p: float) -> float: + """Calculate the k value using Chebyshev's inequality.""" + return np.reciprocal(np.sqrt(p)) + + def fit(self, x: npt.NDArray[float]) -> Self: + """ + Fit the estimator on the training set. + + Args: + ---- + x: training data + + Returns + ------- + self + """ + self._distr_mean = np.mean(x, axis=0) + cov = np.cov(x, rowvar=False) + self._cov_inv = np.linalg.inv(cov) + mahal_dist = self.mahalanobis(x) + self._md_thresh = np.mean(mahal_dist) + self._k * np.std(mahal_dist) + self._is_fitted = True + return self + + def mahalanobis(self, x: npt.NDArray[float]) -> npt.NDArray[float]: + """ + Calculate the Mahalanobis distance. + + Args: + ---- + x: input data + + Returns + ------- + Mahalanobis distance vector + """ + x_distance = x - self._distr_mean + mahal_grid = x_distance @ self._cov_inv @ x_distance.T + return np.sqrt(np.diagonal(mahal_grid)) + + def predict(self, x: npt.NDArray[float]) -> npt.NDArray[int]: + """ + Returns an integer array of same shape as input. + 0 denotes inlier, 1 denotes outlier. + + Args: + ---- + x: input data + + Returns + ------- + Integer Array of 0s and 1s + + Raises + ------ + RuntimeError: if the model is not fitted yet + """ + if not self._is_fitted: + raise ModelInitializationError("Model not fitted yet.") + md = self.mahalanobis(x) + y_hat = np.zeros_like(x) + y_hat[md < self._md_thresh] = _INLIER + y_hat[md >= self._md_thresh] = _OUTLIER + return y_hat + + def score_samples(self, x: npt.NDArray[float]) -> npt.NDArray[float]: + """ + Returns the outlier score for each sample. + + Score is calculated as the ratio of Mahalanobis distance to threshold. + A score greater than 1.0 means that the sample is an outlier. + + Args: + ---- + x: input data + + Returns + ------- + Outlier score for each sample + + Raises + ------ + RuntimeError: if the model is not fitted yet + """ + if not self._is_fitted: + raise ModelInitializationError("Model not fitted yet.") + return self.mahalanobis(x) / self._md_thresh diff --git a/numalogic/registry/dynamodb_registry.py b/numalogic/registry/dynamodb_registry.py index 4ff4432d..3ee1d49f 100644 --- a/numalogic/registry/dynamodb_registry.py +++ b/numalogic/registry/dynamodb_registry.py @@ -80,7 +80,8 @@ class DynamoDBRegistry(ArtifactManager): role: AWS role with access to DynamoDB table models_to_retain: number of models to retain in the DB (default = 2) cache_registry: ArtifactCache instance, must have an expiration set for the - model to be refreshed + model to be refreshed. + Examples -------- >>> from numalogic.models.autoencoder.variants import VanillaAE diff --git a/poetry.lock b/poetry.lock index a272d2ee..c22f24f1 100644 --- a/poetry.lock +++ b/poetry.lock @@ -2,98 +2,98 @@ [[package]] name = "aiohttp" -version = "3.8.4" +version = "3.8.5" description = "Async http client/server framework (asyncio)" 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(>=2.1)", "setuptools (>=67.8)", "time-machine (>=2.9)"] +test = ["covdefaults (>=2.3)", "coverage (>=7.2.7)", "coverage-enable-subprocess (>=1)", "flaky (>=3.7)", "packaging (>=23.1)", "pytest (>=7.4)", "pytest-env (>=0.8.2)", "pytest-freezer (>=0.4.8)", "pytest-mock (>=3.11.1)", "pytest-randomly (>=3.12)", "pytest-timeout (>=2.1)", "setuptools (>=68)", "time-machine (>=2.10)"] [[package]] name = "wcwidth" @@ -4526,18 +4601,18 @@ multidict = ">=4.0" [[package]] name = "zipp" -version = "3.15.0" +version = "3.16.2" description = "Backport of pathlib-compatible object wrapper for zip files" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" files = [ - {file = "zipp-3.15.0-py3-none-any.whl", hash = "sha256:48904fc76a60e542af151aded95726c1a5c34ed43ab4134b597665c86d7ad556"}, - {file = "zipp-3.15.0.tar.gz", hash = "sha256:112929ad649da941c23de50f356a2b5570c954b65150642bccdd66bf194d224b"}, + {file = "zipp-3.16.2-py3-none-any.whl", hash = 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a/tests/models/test_threshold.py b/tests/models/test_threshold.py index 05834685..d58d72f0 100644 --- a/tests/models/test_threshold.py +++ b/tests/models/test_threshold.py @@ -2,7 +2,13 @@ import numpy as np -from numalogic.models.threshold import StdDevThreshold, StaticThreshold, SigmoidThreshold +from numalogic.models.threshold import ( + StdDevThreshold, + StaticThreshold, + SigmoidThreshold, + MahalanobisThreshold, +) +from numalogic.tools.exceptions import ModelInitializationError class TestStdDevThreshold(unittest.TestCase): @@ -23,6 +29,53 @@ def test_estimator_score(self): self.assertAlmostEqual(0.93317, np.mean(score), places=2) +class TestMahalanobisThreshold(unittest.TestCase): + @classmethod + def setUpClass(cls) -> None: + rng = np.random.default_rng(42) + cls.x_train = rng.normal(size=(100, 15)) + cls.x_test = rng.normal(size=(30, 15)) + + def test_init(self): + clf = MahalanobisThreshold(max_outlier_prob=0.25) + clf.fit(self.x_train) + md = clf.mahalanobis(self.x_test) + self.assertTupleEqual((self.x_test.shape[0],), md.shape) + self.assertGreater(all(md), 0.0) + self.assertGreater(clf.threshold, 0.0) + self.assertEqual(clf.std_factor, 2.0) + + def test_init_err(self): + with self.assertRaises(ValueError): + MahalanobisThreshold(max_outlier_prob=0.0) + with self.assertRaises(ValueError): + MahalanobisThreshold(max_outlier_prob=1.0) + + def test_predict(self): + clf = MahalanobisThreshold() + clf.fit(self.x_train) + y = clf.predict(self.x_test) + self.assertTupleEqual(self.x_test.shape, y.shape) + self.assertEqual(np.max(y), 1) + self.assertEqual(np.min(y), 0) + + def test_predict_err(self): + clf = MahalanobisThreshold() + with self.assertRaises(ModelInitializationError): + clf.predict(self.x_test) + + def test_score_samples(self): + clf = MahalanobisThreshold() + clf.fit(self.x_train) + y = clf.score_samples(self.x_test) + self.assertTupleEqual(self.x_test.shape, y.shape) + + def test_score_samples_err(self): + clf = MahalanobisThreshold() + with self.assertRaises(ModelInitializationError): + clf.score_samples(self.x_test) + + class TestStaticThreshold(unittest.TestCase): def setUp(self) -> None: self.x = np.arange(20).reshape(10, 2).astype(float)