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Feature LOF outlier detector #746

Merged
merged 285 commits into from
Jun 12, 2023
Merged

Feature LOF outlier detector #746

merged 285 commits into from
Jun 12, 2023
This pull request is big! We’re only showing the most recent 250 commits.

Commits on Jan 3, 2023

  1. Update default knn ensemble aggregator and normalizer values

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    mauicv committed Jan 3, 2023
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Commits on Jan 4, 2023

  1. Add tests for aggregator and normalizer default values

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    mauicv committed Jan 4, 2023
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  2. Merge branch 'master' into feature/knn-outlier-detector

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    mauicv committed Jan 4, 2023
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  3. Remove Optional type from aggregator

    @mauicv
    mauicv committed Jan 4, 2023
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  4. Change X -> x throughout

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    mauicv committed Jan 4, 2023
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  5. Change anomaly -> outlier throughout

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    mauicv committed Jan 4, 2023
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  6. Improve fpr description

    @mauicv
    mauicv committed Jan 4, 2023
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  7. Update PValNormalizer docstring

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    mauicv committed Jan 4, 2023
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  8. Add custom error types

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    mauicv committed Jan 4, 2023
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  9. Test pval and shift and scale normalizer output values

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    mauicv committed Jan 4, 2023
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  10. Test aggregator output values

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    mauicv committed Jan 4, 2023
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  11. Remove unneeded NotImplemnentedErrors from ABC abstract methods

    @mauicv
    mauicv committed Jan 4, 2023
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  12. Fix typos

    @mauicv
    mauicv committed Jan 4, 2023
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  13. Fix method typo

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    mauicv committed Jan 4, 2023
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  14. Fix docstrings for KNNTorch

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    mauicv committed Jan 4, 2023
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  15. Set api signatures to accept np.ndarray and not List types

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    mauicv committed Jan 4, 2023
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  16. Fix mypy error

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    mauicv committed Jan 4, 2023
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Commits on Jan 5, 2023

  1. Move to numpy logic from OutlierDetectorOutput dataclass to base class

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    mauicv committed Jan 5, 2023
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  2. Refactor init knn logic

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    mauicv committed Jan 5, 2023
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  3. Refator str to aggregator and normalizer methods to backend

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    mauicv committed Jan 5, 2023
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Commits on Jan 6, 2023

  1. Align kNN output with other outlier detectors

    @mauicv
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  2. Refactor backend.pytorch into pytorch module

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    mauicv committed Jan 6, 2023
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  3. Fix optional dependency tests

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    mauicv committed Jan 6, 2023
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Commits on Jan 10, 2023

  1. Add backticks do docstrings

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    mauicv committed Jan 10, 2023
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Commits on Jan 11, 2023

  1. Update docstrings

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    mauicv committed Jan 11, 2023
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  2. reword numpy to torch tensor in transform object docstrings

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    mauicv committed Jan 11, 2023
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  3. Update return type hints

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    mauicv committed Jan 11, 2023
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Commits on Jan 16, 2023

  1. Add Mahalanobis detector

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    mauicv committed Jan 16, 2023
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  2. Add hasattr check in _accumulator method

    @mauicv
    mauicv committed Jan 16, 2023
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  3. Merge branch 'feature/knn-outlier-detector' into feature/mahalanobis-od

    @mauicv
    mauicv committed Jan 16, 2023
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  4. Add singlular dispatch pattern for _to_numpy method

    @mauicv
    mauicv committed Jan 16, 2023
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  5. Merge branch 'feature/knn-outlier-detector' into feature/mahalanobis-od

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    mauicv committed Jan 16, 2023
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Commits on Jan 17, 2023

  1. Add Mahalanobis tests

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    mauicv committed Jan 17, 2023
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  2. Fix flake8 error

    @mauicv
    mauicv committed Jan 17, 2023
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  3. Add MahalanobisTorch to test_dep_management tests

    @mauicv
    mauicv committed Jan 17, 2023
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  4. Replace alibi_detect.utils._types imports with typing_extension

    @mauicv
    mauicv committed Jan 17, 2023
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  5. Merge branch 'feature/knn-outlier-detector' into feature/mahalanobis-od

    @mauicv
    mauicv committed Jan 17, 2023
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  6. Minor change

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    mauicv committed Jan 17, 2023
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  7. Replace singular_dispatch_method with singular_dispatch

    @mauicv
    mauicv committed Jan 17, 2023
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  8. Merge branch 'feature/knn-outlier-detector' into feature/mahalanobis-od

    @mauicv
    mauicv committed Jan 17, 2023
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  9. Update changed _to_numpy logic

    @mauicv
    mauicv committed Jan 17, 2023
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  10. Rename test files

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    mauicv committed Jan 17, 2023
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Commits on Jan 18, 2023

  1. Improove docstrings for mahalanobis detector

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    mauicv committed Jan 18, 2023
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  2. Merge branch 'master' into feature/knn-outlier-detector

    @mauicv
    mauicv committed Jan 18, 2023
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  3. Merge branch 'feature/knn-outlier-detector' into feature/mahalanobis-od

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    mauicv committed Jan 18, 2023
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Commits on Jan 20, 2023

  1. Merge branch 'master' into feature/knn-outlier-detector

    @mauicv
    mauicv committed Jan 20, 2023
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  2. Rename new mahalanobis -> _mahalanobis

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    mauicv committed Jan 20, 2023
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  3. Rename Mahalanobis detector symbol

    @mauicv
    mauicv committed Jan 20, 2023
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  4. Merge branch 'feature/knn-outlier-detector' into feature/mahalanobis-od

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    mauicv committed Jan 20, 2023
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  5. Add pca detector

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    mauicv committed Jan 20, 2023
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Commits on Jan 23, 2023

  1. Add make_moons integration tests

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    mauicv committed Jan 23, 2023
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  2. Add optional dependency functionality

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    mauicv committed Jan 23, 2023
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  3. Add docstrings for pca outlier detector

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    mauicv committed Jan 23, 2023
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Commits on Jan 24, 2023

  1. Fix minor PR suggested changes

    @mauicv
    mauicv committed Jan 24, 2023
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  2. Make knn object private

    @mauicv
    mauicv committed Jan 24, 2023
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  3. Improve the kNN detector docstrings

    @mauicv
    mauicv committed Jan 24, 2023
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  4. Rename aggregator to ensembler

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    mauicv committed Jan 24, 2023
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  5. Merge branch 'master' into feature/knn-outlier-detector

    @mauicv
    mauicv committed Jan 24, 2023
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  6. Merge branch 'feature/knn-outlier-detector' into feature/mahalanobis-od

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    mauicv committed Jan 24, 2023
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  7. Merge branch 'feature/mahalanobis-od' into feature/pca-od

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    mauicv committed Jan 24, 2023
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  8. Remove unnessesery code

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    mauicv committed Jan 24, 2023
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Commits on Jan 31, 2023

  1. Add experimental module

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    mauicv committed Jan 31, 2023
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  2. Merge branch 'feature/knn-outlier-detector' into feature/mahalanobis-od

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    mauicv committed Jan 31, 2023
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  3. Add Mahalanobis to experiemental namespace

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  4. Merge branch 'feature/mahalanobis-od' into feature/pca-od

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    mauicv committed Jan 31, 2023
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  5. Add PCA to the experimental namespace

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    mauicv committed Jan 31, 2023
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  6. Add sklearn gmm od backend

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    mauicv committed Jan 31, 2023
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Commits on Feb 1, 2023

  1. Add gmm pytorch backend

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    mauicv committed Feb 1, 2023
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  2. Add _gmm tests

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    mauicv committed Feb 1, 2023
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  3. Add _to_numpy as a static method on base backend class

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    mauicv committed Feb 1, 2023
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  4. Merge branch 'feature/knn-outlier-detector' into feature/mahalanobis-od

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    mauicv committed Feb 1, 2023
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  5. Refactor mahalanobis to use staticmethod _to_numpy

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    mauicv committed Feb 1, 2023
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  6. Merge branch 'feature/mahalanobis-od' into feature/pca-od

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    mauicv committed Feb 1, 2023
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  7. Refactor PCA to use staticmethod _to_numpy

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  8. Merge branch 'feature/pca-od' into feature/gmm-od

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    mauicv committed Feb 1, 2023
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  9. Add GMM to experimental namespace

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    mauicv committed Feb 1, 2023
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  10. Add args param to fit

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    mauicv committed Feb 1, 2023
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  11. Make args kwargs

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    mauicv committed Feb 1, 2023
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  12. Fix minor issue

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    mauicv committed Feb 1, 2023
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Commits on Feb 2, 2023

  1. Fix typing issues

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    mauicv committed Feb 2, 2023
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  2. Import mahalanobis from module __init__

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  3. Merge branch 'feature/mahalanobis-od' into feature/pca-od

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  4. Merge branch 'feature/pca-od' into feature/gmm-od

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    mauicv committed Feb 2, 2023
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  5. Add device logic to gmm torch

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    mauicv committed Feb 2, 2023
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  6. Minor change to docstring

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    mauicv committed Feb 2, 2023
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Commits on Feb 3, 2023

  1. Remove OutlierDetector

    @mauicv
    mauicv committed Feb 3, 2023
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  2. Add comments to test and remove duplicate test

    @mauicv
    mauicv committed Feb 3, 2023
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  3. Add further comments to _knn tests

    @mauicv
    mauicv committed Feb 3, 2023
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  4. Correct method name spelling

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    mauicv committed Feb 3, 2023
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  5. Fix return in docstring

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    mauicv committed Feb 3, 2023
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  6. Add no grad decorator to backend methods

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Commits on Feb 6, 2023

  1. Merge branch 'feature/knn-outlier-detector' into feature/mahalanobis-od

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  2. Add minor fixes from merging knn branch

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    mauicv committed Feb 6, 2023
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  3. Merge branch 'feature/mahalanobis-od' into feature/pca-od

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  4. Minor fix

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    mauicv committed Feb 6, 2023
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  5. Merge branch 'feature/mahalanobis-od' into feature/pca-od

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  6. Add fixes for merged pca branch

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    mauicv committed Feb 6, 2023
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  7. Merge branch 'feature/pca-od' into feature/gmm-od

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    mauicv committed Feb 6, 2023
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  8. Fix merge issues from pca

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    mauicv committed Feb 6, 2023
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  9. Fix minor linting issue

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    mauicv committed Feb 6, 2023
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Commits on Feb 13, 2023

  1. Use docstring in test instead of comments

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    mauicv committed Feb 13, 2023
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  2. Address minor pr comments

    @mauicv
    mauicv committed Feb 13, 2023
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Commits on Feb 14, 2023

  1. Add kwarg formatting for fit method parameters on gmm

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    mauicv committed Feb 14, 2023
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  2. Add method docstrings for GMM detector

    @mauicv
    mauicv committed Feb 14, 2023
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  3. Add torchscript test and comments

    @mauicv
    mauicv committed Feb 14, 2023
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  4. Add further documentation for tests

    @mauicv
    mauicv committed Feb 14, 2023
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Commits on Feb 15, 2023

  1. Remove singular dispatch pattern

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    mauicv committed Feb 15, 2023
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  2. Merge branch 'master' into feature/knn-outlier-detector

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  3. Merge branch 'feature/knn-outlier-detector' into feature/mahalanobis-od

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  4. Merge branch 'feature/mahalanobis-od' into feature/pca-od

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  5. Merge branch 'feature/pca-od' into feature/gmm-od

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Commits on Feb 21, 2023

  1. Add pytorch backend for LOF detector

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  2. Add kernel option to lof detector pytorch backend

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  3. Add _lof outlier detector frontend

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  4. Add device logic

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  5. Fix typing errors

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Commits on Feb 22, 2023

  1. Fit ensembler in infer_threshold step not fit step

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  2. Add further documentation to knn detector

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Commits on Feb 28, 2023

  1. Refactor exceptions into seperate file and add base class

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  2. Rename exceptions to be consistent with alibi

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Commits on Mar 7, 2023

  1. Remove __future__ annotations imports and unused _types imports

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  2. Add link from base protocols to transform docstrings

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  3. Rename transform_protocols and others to PascalCase

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  4. Remove private methods from public __init__

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  5. Fix missing comma bug

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  6. Add metion about torch device in KNNTorch and KNN docstrings

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  7. Make argument captialization consitent

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  8. Add missing raise statment

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Commits on Mar 8, 2023

  1. Remove constructors from mixins

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  2. Change code formatting to be more readable

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  3. Revert "Remove constructors from mixins" 

    This reverts commit d539063.
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  4. Remove constructors from FitMixinTorch

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  5. Remove private method pattern in ensemble mixins

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  6. Fix spelling mistakes

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  7. Add np.isclose for sum to one check

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  8. Fix mutable default issue

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Commits on Mar 9, 2023

  1. Expose _knn docstrings in the experimental namespace

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  2. Fix minor spelling mistake

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Commits on Mar 14, 2023

  1. Add self return types

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  2. Make fit an abstract method on FitMixin

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  3. Add tests to check correct errors raised in KNNTorch backend

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  4. Fix fxiture scope error in tests

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Commits on Mar 15, 2023

  1. Catch and throw less confusing errors from backend components

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  2. Remove return self statments for consistency with old detectors

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  3. Reword docstring for _catch_error dectorator

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  4. Remove autodoc comment

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Commits on Mar 16, 2023

  1. Add value error for invalid choice of fpr

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  2. Set default PValNormalizer

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  3. Cast outlier booleans to ints

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  4. Rewrite the 1st paragraph of the knn detector docstring

    @mauicv
    mauicv committed Mar 16, 2023
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  5. Minor change

    @mauicv
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  6. Add docstrings for the ensemble tests

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Commits on Mar 17, 2023

  1. Rename x_ref to x in infer_threshold

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  2. Merge branch 'feature/knn-outlier-detector' into feature/mahalanobis-od

    @mauicv
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  3. Merge branch 'master' into feature/mahalanobis-od

    @mauicv
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  4. Fix failing tests

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Commits on Mar 20, 2023

  1. Minor changes to align mahalanobis and kNN work

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  2. Revert renaming change

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  3. Further alignment changes

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  4. Minor change to Mahanobis backend docstrings

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  5. Rewrite docstrings for mahalanobis detector

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  6. Add docstrings for tests

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  7. Add docstrings for mahalanobis backend tests

    @mauicv
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  8. Minor change

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  9. Make X in detector private methods lowercase

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Commits on Apr 6, 2023

  1. Change ensemble=None to ensemble=False in mahalanobis detector torch … 

    …backend
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  2. Make set_fitted private

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  3. Use super in MahalanobisDetector

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  4. Reorder docstring sections to be compatible with numpy conventions

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  5. Minor docstring changes

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  6. Remove cpu method call on tensor

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  7. Remove cpu method call on tensor 2

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  8. Remove as_tensor method on input to score

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  9. Change principle -> principal

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Commits on Apr 13, 2023

  1. Merge branch 'feature/mahalanobis-od' into feature/pca-od

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  2. Merge branch 'master' into feature/pca-od

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Commits on Apr 19, 2023

  1. Fix broken tests

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  2. Fix remaining tests

    @mauicv
    mauicv committed Apr 19, 2023
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  3. Fix linting error

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    mauicv committed Apr 19, 2023
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  4. Minor fix in _pca

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  5. MInor changes

    @mauicv
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  6. Surface correct errors

    @mauicv
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  7. Fix tests for error surfacing

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    mauicv committed Apr 19, 2023
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  8. Minor error fix

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  9. Update tests and add docstrings

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  10. Add save scrited detectors to temp_file in integration tests

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  11. Add docstrings fro backend pca tests

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Commits on Apr 20, 2023

  1. Minor fix

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  2. Update docstrings on PCA detector

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  3. Revert minor change

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  4. Update pca backend docstrings

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  5. Merge branch 'master' into feature/pca-od

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Commits on Apr 26, 2023

  1. Add and raise errors for incorrect n_components values

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  2. Fix inccorect docstrings for pca

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  3. Fix minor issue

    @mauicv
    mauicv committed Apr 26, 2023
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  4. Fix incorrect detector name in docstring

    @mauicv
    mauicv committed Apr 26, 2023
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  5. Remove redundant storage and computation in fit step

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  6. Rename incorrectly named save files in tests

    @mauicv
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  7. Fix issue in centering simialrity matrix

    @mauicv
    mauicv committed Apr 26, 2023
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  8. Minor fix

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  9. Merge branch 'master' into feature/pca-od

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Commits on Apr 27, 2023

  1. Update device types

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  2. Import Literals from typing_extensions instead of internal types

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  3. Remove cpu calls from backends

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  4. Rename compute_score to _score

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  5. Change principle -> principal

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  6. Fix minor typing issue

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Commits on May 2, 2023

  1. Merge branch 'feature/pca-od' into feature/gmm-od

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  2. Merge branch 'master' into feature/gmm-od

    @mauicv
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  3. Fix tests

    @mauicv
    mauicv committed May 2, 2023
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  4. Update sklearn backend base class to match torch base class

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    mauicv committed May 2, 2023
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  5. Update sklearn gmm implementation

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  6. Fix mypy errors

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    mauicv committed May 2, 2023
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  7. Catch n_components < 1 error

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Commits on May 3, 2023

  1. Fix tests

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  2. Fix mypy issue in np.quantile

    @mauicv
    mauicv committed May 3, 2023
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  3. Fix optional dependencies issue

    @mauicv
    mauicv committed May 3, 2023
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  4. Update docstrings on gmm backends

    @mauicv
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  5. Update docstrings for sklearn base OD class

    @mauicv
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  6. Update _gmm docstrings

    @mauicv
    mauicv committed May 3, 2023
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  7. Minor fix

    @mauicv
    mauicv committed May 3, 2023
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  8. Add docstrings for GMModel

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    mauicv committed May 3, 2023
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Commits on May 11, 2023

  1. Make requested changes

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    mauicv committed May 11, 2023
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  2. Fix typo

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    mauicv committed May 11, 2023
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  3. Make pr requested changes

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    mauicv committed May 11, 2023
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  4. Add convergence checks in gmm pytorch backend fit method

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    mauicv committed May 11, 2023
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  5. Rename epochs to max_epochs in pytorch fit method

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    mauicv committed May 11, 2023
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  6. Fix minor typing error

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    mauicv committed May 11, 2023
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Commits on May 15, 2023

  1. Fix py3.7 typing issue

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    mauicv committed May 15, 2023
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  2. Change fit arg order

    @mauicv
    mauicv committed May 15, 2023
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  3. Fix type

    @mauicv
    mauicv committed May 15, 2023
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  4. Minor change

    @mauicv
    mauicv committed May 15, 2023
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  5. Change max_epochs docstring

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    mauicv committed May 15, 2023
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  6. Update docstring

    @mauicv
    mauicv committed May 15, 2023
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  7. Merge branch 'feature/gmm-od' into feature/lof-od

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    mauicv committed May 15, 2023
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  8. Merge branch 'master' into feature/lof-od

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    mauicv committed May 15, 2023
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  9. Fix merge import errors

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    mauicv committed May 15, 2023
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Commits on May 16, 2023

  1. Fix tests and typing

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    mauicv committed May 16, 2023
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Commits on May 17, 2023

  1. Update tests

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    mauicv committed May 17, 2023
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Commits on May 22, 2023

  1. Update optional dep tests for LOFTorch

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    mauicv committed May 22, 2023
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  2. Fix issues in _lof

    @mauicv
    mauicv committed May 22, 2023
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Commits on May 24, 2023

  1. Add comments to fit and score logic

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    mauicv committed May 24, 2023
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  2. Remove shape comments

    @mauicv
    mauicv committed May 24, 2023
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  3. Fix tests

    @mauicv
    mauicv committed May 24, 2023
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  4. Update lof docstrings

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    mauicv committed May 24, 2023
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  5. Update docstrings for lof backend

    @mauicv
    mauicv committed May 24, 2023
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  6. Minor change

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    mauicv committed May 24, 2023
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Commits on Jun 12, 2023

  1. Update score docstring

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    mauicv committed Jun 12, 2023
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  2. Update _compute_K docstring

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    mauicv committed Jun 12, 2023
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  3. Merge branch 'master' into feature/lof-od

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    mauicv committed Jun 12, 2023
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