[ENH] Add dummy clusterer tags #2551

MatthewMiddlehurst · 2025-02-19T22:56:57Z

Adds tags to let dummy clusterer handle multivariate, unequal length and missing values.

aeon-actions-bot · 2025-02-19T22:57:16Z

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* forecaster base and dummy * forecasting tests * forecasting tests * forecasting tests * forecasting tests * regression * notebook * regressor * regressor * regressor * tags * tags * requires_y * forecasting notebook * forecasting notebook * remove tags * fix forecasting testing (they still fail though) * _is_fitted -> is_fitted * _is_fitted -> is_fitted * _forecast * notebook * is_fitted * y_fitted * ETS forecaster * add y checks and conversion * add tag * tidy * _check_is_fitted() * _check_is_fitted() * Add fully functional ETS Forecaster. Modify base to not set default y in forecast. Update tests for ETS Forecaster. Add script to verify ETS Forecaster against statsforecast module using a large number of random parameter inputs. * Add fully functional ETS Forecaster. Modify base to not set default y in forecast. Update tests for ETS Forecaster. Add script to verify ETS Forecaster against statsforecast module using a large number of random parameter inputs. (#2318) Co-authored-by: Alex Banwell <arb1g19@soton.ac.uk> * Add faster numba version of ETS forecaster * Seperate out predict code, and add test to test without creating a class - significantly faster! * Modify _verify_ets.py to allow easy switching between statsforecast versions. This confirms that my algorithms without class overheads is significantly faster than nixtla statsforecast, and with class overheads, it is faster than their current algorithm * Add basic gradient decent optimization algorithm for smoothing parameters * Ajb/forecasting (#2357) * Add fully functional ETS Forecaster. Modify base to not set default y in forecast. Update tests for ETS Forecaster. Add script to verify ETS Forecaster against statsforecast module using a large number of random parameter inputs. * Add faster numba version of ETS forecaster * Seperate out predict code, and add test to test without creating a class - significantly faster! * Modify _verify_ets.py to allow easy switching between statsforecast versions. This confirms that my algorithms without class overheads is significantly faster than nixtla statsforecast, and with class overheads, it is faster than their current algorithm * Add basic gradient decent optimization algorithm for smoothing parameters --------- Co-authored-by: Alex Banwell <arb1g19@soton.ac.uk> * Add additional AutoETS algorithms, and comparison scripts * Add ARIMA model in * [MNT] Testing fixes (#2531) * adjust test for non numpy output * test list output * test dataframe output * change pickle test * equal nans * test scalar output * fix lists output * allow arrays of objects * allow arrays of objects * test for boolean elements (MERLIN) * switch to deep equals * switch to deep equals * switch to deep equals * message * testing fixes --------- Co-authored-by: Tony Bagnall <ajb@uea.ac.uk> * Automated `pre-commit` hook update (#2533) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [DOC] Improve type hint guide and add link to the page. (#2532) * type hints * bad change * text * Add new datasets to tsf_datasets.py * Add functions for writing out .tsf files, as well as functions for manipulating the train/test split and windowing * Fix issues causing tests to fail * [DOC] Add 'Raises' section to docstring (#1766) (#2484) * Fix line endings * Moved test_cboss.py to testing/tests directory * Updated docstring comments and made methods protected * Fix line endings * Moved test_cboss.py to testing/tests directory * Updated docstring comments and made methods protected * Updated * Updated * Removed test_cboss.py * Updated * Updated * Add files for generating the datasets, and the CSV for the chosen datasets * Add windowed series train/test files * Automated `pre-commit` hook update (#2541) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * fix test (#2528) * [BUG] add ExpSmoothingSeriesTransformer and MovingAverageSeriesTransformer to __init__ (#2550) * update docs to fix 2548 docs * update init to fix 2548 bug * Automated `pre-commit` hook update (#2567) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Bump ossf/scorecard-action in the github-actions group (#2569) Bumps the github-actions group with 1 update: [ossf/scorecard-action](https://github.com/ossf/scorecard-action). Updates `ossf/scorecard-action` from 2.4.0 to 2.4.1 - [Release notes](https://github.com/ossf/scorecard-action/releases) - [Changelog](https://github.com/ossf/scorecard-action/blob/main/RELEASE.md) - [Commits](ossf/scorecard-action@v2.4.0...v2.4.1) --- updated-dependencies: - dependency-name: ossf/scorecard-action dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [ENH] Added class weights to feature based classifiers (#2512) * class weights added to classification/feature based * Automatic `pre-commit` fixes * Test function for Catch22Classifier added * Test function for SummaryClassifier added * Test for tsfreshClassifier added * Soft dependecy check added for tsfresh * Test signature test case added * added test_mlp.py (#2537) * test file for FCNNetwork added (#2559) * Documentation improvement of certain BaseClasses (#2516) Co-authored-by: Antoine Guillaume <antoine.guillaume45@gmail.com> * [ENH] Test coverage for AEFCNNetwork Improved (#2558) * test file added for aefcn * Test file for aefcn added * Test file reforammted * soft dependency added * name issues resolved * [ENH] Test coverage for TimeCNNNetwork Improved (#2534) * Test coverage improved for cnn network * assertion changed for test_cnn * coverage improved along with naming * [ENH] Test coverage for Resnet Network (#2553) * Resnet pytest * Resnet pytest * Fixed tensorflow failing * Added Resnet in function name * 📝 Add shinymack as a contributor for code (#2577) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * 📝 Add kevinzb56 as a contributor for doc (#2588) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * [MNT] Raise version bound for `scikit-learn` 1.6 (#2486) * update ver and new tags * default tags * toml * Update _shapelets.py Fix linear estimator coefs issue * expected results * Change expected results * update * only linux * remove mixins just to see test * revert --------- Co-authored-by: Antoine Guillaume <antoine.guillaume45@gmail.com> * [MNT] Bump the python-packages group across 1 directory with 2 updates (#2598) Updates the requirements on [scipy](https://github.com/scipy/scipy) and [sphinx](https://github.com/sphinx-doc/sphinx) to permit the latest version. Updates `scipy` to 1.15.2 - [Release notes](https://github.com/scipy/scipy/releases) - [Commits](scipy/scipy@v1.9.0...v1.15.2) Updates `sphinx` to 8.2.3 - [Release notes](https://github.com/sphinx-doc/sphinx/releases) - [Changelog](https://github.com/sphinx-doc/sphinx/blob/master/CHANGES.rst) - [Commits](sphinx-doc/sphinx@v0.1.61611...v8.2.3) --- updated-dependencies: - dependency-name: scipy dependency-type: direct:production dependency-group: python-packages - dependency-name: sphinx dependency-type: direct:production dependency-group: python-packages ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Automated `pre-commit` hook update (#2581) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * Automated `pre-commit` hook update (#2603) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [ENH] Adds support for distances that are asymmetric but supports unequal length (#2613) * Adds support for distances that are asymmetric but supports unequal length * Added name to contributors * create smoothing filters notebook (#2547) * Remove datasets added * Reorganise code for generating train/test cluster files, including adding sliding window and train/test transformers * Add NaiveForecaster * Fix Bug in NaiveForecaster * Fix dataset generate script stuff * [DOC] Notebook on Feature-based Clustering (#2579) * Feature-based clustering * Feature-based clustering update * Update clustering overview * formatting * Automated `CONTRIBUTORS.md` update (#2614) Co-authored-by: chrisholder <4674372+chrisholder@users.noreply.github.com> * Updated Interval Based Notebook (#2620) * [DOC] Added Docstring for regression forecasting (#2564) * Added Docstring for Regression * Added Docstring for Regression * exog fix * GSoC announcement (#2629) * Automated `pre-commit` hook update (#2632) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Bump tj-actions/changed-files from 45 to 46 in the github-actions group (#2637) * [MNT] Bump tj-actions/changed-files in the github-actions group Bumps the github-actions group with 1 update: [tj-actions/changed-files](https://github.com/tj-actions/changed-files). Updates `tj-actions/changed-files` from 45 to 46 - [Release notes](https://github.com/tj-actions/changed-files/releases) - [Changelog](https://github.com/tj-actions/changed-files/blob/main/HISTORY.md) - [Commits](tj-actions/changed-files@v45...v46) --- updated-dependencies: - dependency-name: tj-actions/changed-files dependency-type: direct:production update-type: version-update:semver-major dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> * Update pr_precommit.yml --------- Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [MNT] Update numpy requirement in the python-packages group (#2643) Updates the requirements on [numpy](https://github.com/numpy/numpy) to permit the latest version. Updates `numpy` to 2.2.4 - [Release notes](https://github.com/numpy/numpy/releases) - [Changelog](https://github.com/numpy/numpy/blob/main/doc/RELEASE_WALKTHROUGH.rst) - [Commits](numpy/numpy@v1.21.0...v2.2.4) --- updated-dependencies: - dependency-name: numpy dependency-type: direct:production dependency-group: python-packages ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [MNT,DEP] _binary.py metrics deprecated (#2600) * functions deprecated * Empty-Commit * version changed * Support for unequal length timeseries in itakura parallelogram (#2647) * [ENH] Implement DTW with Global alignment (#2565) * Implements Dynamic Time Warping with Global Invariances * Adds Numba JIT compilation support * Adds docs and numba support for dtw_gi and test_distance fixed * Fixes doctests * Automatic `pre-commit` fixes * Minor changes * Minor changes * Remove dtw_gi function and combine with private method _dtw_gi * Adds parameter tests * Fixes doctests * Minor changes * [ENH] Adds kdtw kernel support for kernelkmeans (#2645) * Adds kdtw kernel support for kernelkmeans * Code refactor * Adds tests for kdtw clustering * minor changes * minor changes * [MNT] Skip some excected results tests when numba is disabled (#2639) * skip some numba tests * Empty commit for CI * Update testing_config.py --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Remove REDCOMETs from testing exclusion list (#2630) * remove excluded estimators * redcomets fix * Ensure ETS algorithms are behaving correctly, and do more testing on AutoETS, along with AutoETS forecaster class * Fix a couple of bugs in the forecasters, add Sktime and StatsForecast wrappers for their AutoETS implementations * [ENH] Replace `prts` metrics (#2400) * Pre-commit fixes * Position parameter in calculate_bias * Added recall metric * merged into into one file * test added * Changes in test and range_metrics * list of list running but error! * flattening lists, all cases passed * Empty-Commit * changes * Protected functions * Changes in documentation * Changed test cases into seperate functions * test cases added and added range recall * udf_gamma removed from precision * changes * more changes * recommended changes * changes * Added Parameters * removed udf_gamma from precision * Added binary to range * error fixing * test comparing prts and range_metrics * Beta parameter added in fscore * Added udf_gamma function * f-score failing when comparing against prts * fixed f-score output * alpha usage * Empty-Commit * added test case to use range-based input for metrics * soft dependency added * doc update --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: Sebastian Schmidl <10573700+SebastianSchmidl@users.noreply.github.com> * Clarify documentation regarding unequal length series limitation (#2589) Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * Automated `pre-commit` hook update (#2683) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Bump tj-actions/changed-files in the github-actions group (#2686) Bumps the github-actions group with 1 update: [tj-actions/changed-files](https://github.com/tj-actions/changed-files). Updates `tj-actions/changed-files` from 46.0.1 to 46.0.3 - [Release notes](https://github.com/tj-actions/changed-files/releases) - [Changelog](https://github.com/tj-actions/changed-files/blob/main/HISTORY.md) - [Commits](tj-actions/changed-files@v46.0.1...v46.0.3) --- updated-dependencies: - dependency-name: tj-actions/changed-files dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [ENH] Set `outlier_norm` default to True for Catch22 estimators (#2659) * sets outlier_norm=True by deafault * Minor changes * Docs improvement * [MNT] Use MacOS for examples/ workflow (#2668) * update bash to 5.x for lastpipe support * added esig installation * install boost before esig * fixed examples path issue for excluded notebooks * switched to fixed version of macos * added signature_method.ipynb to excluded list * removed symlink for /bin/bash * Correct AutoETS algorithms to not use multiplicative error models for data which is not strictly positive. Add check to ets for this * Reject multiplicative components for data not strictly positive * Update dependencies.md (#2717) Correct typo in dependencies.md * Automated `pre-commit` hook update (#2708) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [ENH] Test Coverage for Pairwise Distance (#2590) * Pairwise distance matrix test * Empty commit for CI --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * re-running notebook for fixing cell output error (#2597) * Docstring (#2609) * [DOC] Add 'Raises' section to docstring #1766 (#2617) * [DOC] Add 'Raises' section to docstring #1766 * Automatic `pre-commit` fixes * Update _base.py * Automatic `pre-commit` fixes --------- Co-authored-by: ayushsingh9720 <199482418+ayushsingh9720@users.noreply.github.com> * [DOC] Contributor docs update (#2554) * contributing docs update * contributing docs update 2 * typos * Update contributing.md new section * Update testing.md testing update * Update contributing.md dont steal code * Automatic `pre-commit` fixes * Update contributing.md if --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> Co-authored-by: Antoine Guillaume <antoine.guillaume45@gmail.com> * prevent assignment on PRs (#2703) * Update run_examples.sh (#2701) * [BUG] SevenNumberSummary bugfix and input rename (#2555) * summary bugfix * maintainer * test * readme (#2556) * remove MutilROCKETRegressor from alias mapping (#2623) Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * Automated `pre-commit` hook update (#2731) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Bump the github-actions group with 2 updates (#2733) Bumps the github-actions group with 2 updates: [actions/create-github-app-token](https://github.com/actions/create-github-app-token) and [tj-actions/changed-files](https://github.com/tj-actions/changed-files). Updates `actions/create-github-app-token` from 1 to 2 - [Release notes](https://github.com/actions/create-github-app-token/releases) - [Commits](actions/create-github-app-token@v1...v2) Updates `tj-actions/changed-files` from 46.0.3 to 46.0.4 - [Release notes](https://github.com/tj-actions/changed-files/releases) - [Changelog](https://github.com/tj-actions/changed-files/blob/main/HISTORY.md) - [Commits](tj-actions/changed-files@v46.0.3...v46.0.4) --- updated-dependencies: - dependency-name: actions/create-github-app-token dependency-version: '2' dependency-type: direct:production update-type: version-update:semver-major dependency-group: github-actions - dependency-name: tj-actions/changed-files dependency-version: 46.0.4 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Fixed a few spelling/grammar mistakes on TSC docs examples (#2738) * Fix docstring inconsistencies in benchmarking module (resolves #809) (#2735) * issue#809 Fix docstrings for benchmarking functions * Fixed docstrings in results_loaders.py * Fix docstring inconsistencies in benchmarking module - resolves #809 * Fix docstring inconsistencies in benchmarking module - resolves #809 * [ENH] `best_on_top` addition in `plot_pairwise_scatter` (#2655) * Empty-Commit * best_on_top parameter added * changes * [ENH] Add dummy clusterer tags (#2551) * dummy clusterer tags * len * [ENH] Collection conversion cleanup and `df-list` fix (#2654) * collection conversion cleanup * notebook * fixes --------- Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> * [MNT] Updated the release workflows (#2638) * edit release workflows to use trusted publishing * docs * [MNT,ENH] Update to allow Python 3.13 (#2608) * python 3.13 * tensorflow * esig * tensorflow * tensorflow * esig and matrix profile * signature notebook * remove prts * fix * remove annoying deps from all_extras * Update pyproject.toml * [ENH] Hard-Coded Tests for `test_metrics.py` (#2672) * Empty-Commit * hard-coded tests * changes * Changed single ticks to double (#2640) Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * 📝 Add HaroonAzamFiza as a contributor for doc (#2740) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * [ENH,MNT] Assign Bot (assigned issues>2) (#2702) * Empty-Commit * point 2 working * changes * changes in comment message * [MNT,ENH] Assign-bot (Allow users to type alternative phrases for assingment) (#2704) * added extra features * added comments * optimized code * optimized code * made changes requested by moderators * fixed conflicts * fixed conflicts * fixed conflicts --------- Co-authored-by: Ramana-Raja <ramanarajakesavaraja@gamil.com> * 📝 Add Ramana-Raja as a contributor for code (#2741) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * Release v1.1.0 (#2696) * v1.1.0 draft * finish * Automated `pre-commit` hook update (#2743) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Bump the github-actions group with 2 updates (#2744) Bumps the github-actions group with 2 updates: [crs-k/stale-branches](https://github.com/crs-k/stale-branches) and [tj-actions/changed-files](https://github.com/tj-actions/changed-files). Updates `crs-k/stale-branches` from 7.0.0 to 7.0.1 - [Release notes](https://github.com/crs-k/stale-branches/releases) - [Commits](crs-k/stale-branches@v7.0.0...v7.0.1) Updates `tj-actions/changed-files` from 46.0.4 to 46.0.5 - [Release notes](https://github.com/tj-actions/changed-files/releases) - [Changelog](https://github.com/tj-actions/changed-files/blob/main/HISTORY.md) - [Commits](tj-actions/changed-files@v46.0.4...v46.0.5) --- updated-dependencies: - dependency-name: crs-k/stale-branches dependency-version: 7.0.1 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions - dependency-name: tj-actions/changed-files dependency-version: 46.0.5 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [DOC] Add implementation references (#2748) * implementation references * better attribution * use gpu installs for periodic tests (#2747) * Use shape calculation in _fit to optimize QUANTTransformer (#2727) * [REF] Refactor Anomaly Detection Module into Submodules by Algorithm Family (#2694) * Refactor Anomaly Detection Module into Submodules by Algorithm Family * updated documentation and references * implemented suggested changes * minor changes * added headers for remaining algorithm family * removing tree-based header * Automated `pre-commit` hook update (#2756) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [ENH]Type hints/forecasting (#2737) * Type hints for primitive data types in base module * Type hints for primitive data types and strings in forecating module * type hints for primitives in foreacasting module * Revert "type hints for primitives in foreacasting module" This reverts commit 575122d. * type hints for primitives in forecasting module * Automated `pre-commit` hook update (#2766) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [ENH] Implement `load_model` function for ensemble classifiers (#2631) * feat: implement `load_model` function for LITETimeClassifier Implement separate `load_model` function for LITETimeClassifier, which takes in `model_path` as list of strings and `classes` and loads all the models separately and stores them in `self.classifiers_` * feat: implement `load_model` function for InceptionTimeClassifier Implement separate `load_model` function for InceptionTimeClassifier, which takes in `model_path` as list of strings and `classes` and loads all the models separately and stores them in `self.classifiers_` * fix: typo in load model function * feat: convert load_model functions to classmethods * test: implement test for save load for LITETIME and Inception classification models * Automatic `pre-commit` fixes * refactor: move loading tests to separate files * Update _ae_abgru.py (#2771) * Automated `pre-commit` hook update (#2779) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [DOC] Fix Broken [Source] Link and Improve Documentation for suppress_output() (#2677) * Fix Broken [Source] Link and Improve Documentation for suppress_output() Function * modified docstring and added tests * modified docstring example * modifying docstring examples * modifying docstring examples * updating conf file * updated docstring * base transform tidy (#2773) * DOC: Add Raises section for invalid weights in KNeighborsTimeSeriesClassifier (#1766) (#2764) Document the ValueError raised during initialization when an unsupported value is passed to the 'weights' parameter. Clarifies expected exceptions for users and improves API documentation consistency. Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [ENH] Fixes Issue Improve `_check_params` method in `kmeans.py` and `kmedoids.py` (#2682) * Improves _check_params * removes function and adds a var * minor changes * minor changes * minor changes * line endings to LF * use variable instead of duplicating strings * weird file change * weird file change --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [ENH] Add type hints for deep learning regression classes (#2644) * type hints for cnn for regrssion * editing import modules Model & Optim * type hints for disjoint_cnn for regrssion * FIX type hints _get_test_params * ENH Change linie of importing typing * type hints for _encoder for regrssion * type hints for _fcn for regrssion * type hints for _inception_time for regrssion * type hints for _lite_time for regrssion * type hints for _mlp for regrssion * type hints for _resnet for regrssion * type hints for _base for regrssion * FIX: mypy errors in _disjoint_cnn.py file * FIX: mypy typing errors * Fix: Delete variable types, back old-verbose * FIX: add model._save in save_last_model_to_file function * FIX: Put TYPE_CHECKING downside * Fix: Put Any at the top * [DOC] Add RotationForest Classifier Notebook for Time Series Classification (#2592) * Add RotationForest Classifier Notebook for Time Series Classification * Added references and modified doc * minor modifications to notebook description * Update rotation_forest.ipynb --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * fix: Codeowners for benchmarking metrics AD (#2784) * [GOV] Supporting Developer role (#2775) * supporting dev role * pr req * Update governance.md * typo * Automatic `pre-commit` fixes * aeon --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT, ENH, DOC] Rework similarity search (#2473) * WIP remake module structure * Update _brute_force.py * Update test__commons.py * WIP mock and test * Add test for base subsequence * Fix subsequence_search tests * debug brute force mp * more debug of subsequence tests * more debug of subsequence tests * Add functional LSH neighbors * add notebook for sim search tasks * Updated series similarity search * Fix mistake addition in transformers and fix base classes * Fix registry and api reference * Update documentation and fix some leftover bugs * Update documentation and add default test params * Fix identifiers and test data shape for all_estimators tests * Fix missing params * Fix n_jobs params and tags, add some docs * Fix numba test bug and update testing data for sim search * Fix imports, testing data tests, and impose predict/_predict interface to all sim search estimators * Fix args * Fix extract test * update docs api and notebooks * remove notes * Patrick comments * Adress comments and clean index code * Fix Patrick comments * Fix variable suppression mistake * Divide base class into task specific * Fix typo in imports * Empty commit for CI * Fix typo again * Add check_inheritance exception for similarity search * Revert back to non per type base classes * Factor check index and typo in test --------- Co-authored-by: Patrick Schäfer <patrick.schaefer@hu-berlin.de> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: baraline <10759117+baraline@users.noreply.github.com> * [ENH] Adapt the DCNN Networks to use Weight Norm Wrappers (#2628) * adapt the dcnn networks to use weight norm wrappers and remove l2 regularization * Automatic `pre-commit` fixes * add custom object * Automatic `pre-commit` fixes * fix trial --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [GOV] Remove inactive developers (#2776) * inactive devs * logo fix * Automated `pre-commit` hook update (#2792) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * Code to generate differenced datasets * Add AutoARIMA algorithm into Aeon * Add ArimaForecaster to forecasting 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* dummy clusterer tags * len

* added numba prange to all pairwise distances * sfa update * changed warning * custom pairwise threaded * fixed * added threaded decorator * fix * fix * expanded threaded decorator to work with classes * fix * Automated `CONTRIBUTORS.md` update (#2614) Co-authored-by: chrisholder <4674372+chrisholder@users.noreply.github.com> * Updated Interval Based Notebook (#2620) * [DOC] Added Docstring for regression forecasting (#2564) * Added Docstring for Regression * Added Docstring for Regression * exog fix * GSoC announcement (#2629) * Automated `pre-commit` hook update (#2632) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Bump tj-actions/changed-files from 45 to 46 in the github-actions group (#2637) * [MNT] Bump tj-actions/changed-files in the github-actions group Bumps the github-actions group with 1 update: [tj-actions/changed-files](https://github.com/tj-actions/changed-files). Updates `tj-actions/changed-files` from 45 to 46 - [Release notes](https://github.com/tj-actions/changed-files/releases) - [Changelog](https://github.com/tj-actions/changed-files/blob/main/HISTORY.md) - [Commits](https://github.com/tj-actions/changed-files/compare/v45...v46) --- updated-dependencies: - dependency-name: tj-actions/changed-files dependency-type: direct:production update-type: version-update:semver-major dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> * Update pr_precommit.yml --------- Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [MNT] Update numpy requirement in the python-packages group (#2643) Updates the requirements on [numpy](https://github.com/numpy/numpy) to permit the latest version. Updates `numpy` to 2.2.4 - [Release notes](https://github.com/numpy/numpy/releases) - [Changelog](https://github.com/numpy/numpy/blob/main/doc/RELEASE_WALKTHROUGH.rst) - [Commits](https://github.com/numpy/numpy/compare/v1.21.0...v2.2.4) --- updated-dependencies: - dependency-name: numpy dependency-type: direct:production dependency-group: python-packages ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [MNT,DEP] _binary.py metrics deprecated (#2600) * functions deprecated * Empty-Commit * version changed * Support for unequal length timeseries in itakura parallelogram (#2647) * [ENH] Implement DTW with Global alignment (#2565) * Implements Dynamic Time Warping with Global Invariances * Adds Numba JIT compilation support * Adds docs and numba support for dtw_gi and test_distance fixed * Fixes doctests * Automatic `pre-commit` fixes * Minor changes * Minor changes * Remove dtw_gi function and combine with private method _dtw_gi * Adds parameter tests * Fixes doctests * Minor changes * [ENH] Adds kdtw kernel support for kernelkmeans (#2645) * Adds kdtw kernel support for kernelkmeans * Code refactor * Adds tests for kdtw clustering * minor changes * minor changes * [MNT] Skip some excected results tests when numba is disabled (#2639) * skip some numba tests * Empty commit for CI * Update testing_config.py --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Remove REDCOMETs from testing exclusion list (#2630) * remove excluded estimators * redcomets fix * [ENH] Replace `prts` metrics (#2400) * Pre-commit fixes * Position parameter in calculate_bias * Added recall metric * merged into into one file * test added * Changes in test and range_metrics * list of list running but error! * flattening lists, all cases passed * Empty-Commit * changes * Protected functions * Changes in documentation * Changed test cases into seperate functions * test cases added and added range recall * udf_gamma removed from precision * changes * more changes * recommended changes * changes * Added Parameters * removed udf_gamma from precision * Added binary to range * error fixing * test comparing prts and range_metrics * Beta parameter added in fscore * Added udf_gamma function * f-score failing when comparing against prts * fixed f-score output * alpha usage * Empty-Commit * added test case to use range-based input for metrics * soft dependency added * doc update --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: Sebastian Schmidl <10573700+SebastianSchmidl@users.noreply.github.com> * Clarify documentation regarding unequal length series limitation (#2589) Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * Automated `pre-commit` hook update (#2683) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Bump tj-actions/changed-files in the github-actions group (#2686) Bumps the github-actions group with 1 update: [tj-actions/changed-files](https://github.com/tj-actions/changed-files). Updates `tj-actions/changed-files` from 46.0.1 to 46.0.3 - [Release notes](https://github.com/tj-actions/changed-files/releases) - [Changelog](https://github.com/tj-actions/changed-files/blob/main/HISTORY.md) - [Commits](https://github.com/tj-actions/changed-files/compare/v46.0.1...v46.0.3) --- updated-dependencies: - dependency-name: tj-actions/changed-files dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [ENH] Set `outlier_norm` default to True for Catch22 estimators (#2659) * sets outlier_norm=True by deafault * Minor changes * Docs improvement * [MNT] Use MacOS for examples/ workflow (#2668) * update bash to 5.x for lastpipe support * added esig installation * install boost before esig * fixed examples path issue for excluded notebooks * switched to fixed version of macos * added signature_method.ipynb to excluded list * removed symlink for /bin/bash * Update dependencies.md (#2717) Correct typo in dependencies.md * Automated `pre-commit` hook update (#2708) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [ENH] Test Coverage for Pairwise Distance (#2590) * Pairwise distance matrix test * Empty commit for CI --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * re-running notebook for fixing cell output error (#2597) * Docstring (#2609) * [DOC] Add 'Raises' section to docstring #1766 (#2617) * [DOC] Add 'Raises' section to docstring #1766 * Automatic `pre-commit` fixes * Update _base.py * Automatic `pre-commit` fixes --------- Co-authored-by: ayushsingh9720 <199482418+ayushsingh9720@users.noreply.github.com> * [DOC] Contributor docs update (#2554) * contributing docs update * contributing docs update 2 * typos * Update contributing.md new section * Update testing.md testing update * Update contributing.md dont steal code * Automatic `pre-commit` fixes * Update contributing.md if --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> Co-authored-by: Antoine Guillaume <antoine.guillaume45@gmail.com> * prevent assignment on PRs (#2703) * Update run_examples.sh (#2701) * [BUG] SevenNumberSummary bugfix and input rename (#2555) * summary bugfix * maintainer * test * readme (#2556) * remove MutilROCKETRegressor from alias mapping (#2623) Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * Automated `pre-commit` hook update (#2731) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Bump the github-actions group with 2 updates (#2733) Bumps the github-actions group with 2 updates: [actions/create-github-app-token](https://github.com/actions/create-github-app-token) and [tj-actions/changed-files](https://github.com/tj-actions/changed-files). 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Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Fixed a few spelling/grammar mistakes on TSC docs examples (#2738) * Fix docstring inconsistencies in benchmarking module (resolves #809) (#2735) * issue#809 Fix docstrings for benchmarking functions * Fixed docstrings in results_loaders.py * Fix docstring inconsistencies in benchmarking module - resolves #809 * Fix docstring inconsistencies in benchmarking module - resolves #809 * [ENH] `best_on_top` addition in `plot_pairwise_scatter` (#2655) * Empty-Commit * best_on_top parameter added * changes * [ENH] Add dummy clusterer tags (#2551) * dummy clusterer tags * len * [ENH] Collection conversion cleanup and `df-list` fix (#2654) * collection conversion cleanup * notebook * fixes --------- Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> * [MNT] Updated the release workflows (#2638) * edit release workflows to use trusted publishing * docs * [MNT,ENH] Update to allow Python 3.13 (#2608) * python 3.13 * tensorflow * esig * tensorflow * tensorflow * esig and matrix profile * signature notebook * remove prts * fix * remove annoying deps from all_extras * Update pyproject.toml * [ENH] Hard-Coded Tests for `test_metrics.py` (#2672) * Empty-Commit * hard-coded tests * changes * Changed single ticks to double (#2640) Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * 📝 Add HaroonAzamFiza as a contributor for doc (#2740) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * [ENH,MNT] Assign Bot (assigned issues>2) (#2702) * Empty-Commit * point 2 working * changes * changes in comment message * [MNT,ENH] Assign-bot (Allow users to type alternative phrases for assingment) (#2704) * added extra features * added comments * optimized code * optimized code * made changes requested by moderators * fixed conflicts * fixed conflicts * fixed conflicts --------- Co-authored-by: Ramana-Raja <ramanarajakesavaraja@gamil.com> * 📝 Add Ramana-Raja as a contributor for code (#2741) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * Release v1.1.0 (#2696) * v1.1.0 draft * finish * Automated `pre-commit` hook update (#2743) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Bump the github-actions group with 2 updates (#2744) Bumps the github-actions group with 2 updates: [crs-k/stale-branches](https://github.com/crs-k/stale-branches) and [tj-actions/changed-files](https://github.com/tj-actions/changed-files). Updates `crs-k/stale-branches` from 7.0.0 to 7.0.1 - [Release notes](https://github.com/crs-k/stale-branches/releases) - [Commits](https://github.com/crs-k/stale-branches/compare/v7.0.0...v7.0.1) Updates `tj-actions/changed-files` from 46.0.4 to 46.0.5 - [Release notes](https://github.com/tj-actions/changed-files/releases) - [Changelog](https://github.com/tj-actions/changed-files/blob/main/HISTORY.md) - [Commits](https://github.com/tj-actions/changed-files/compare/v46.0.4...v46.0.5) --- updated-dependencies: - dependency-name: crs-k/stale-branches dependency-version: 7.0.1 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions - dependency-name: tj-actions/changed-files dependency-version: 46.0.5 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [DOC] Add implementation references (#2748) * implementation references * better attribution * use gpu installs for periodic tests (#2747) * Use shape calculation in _fit to optimize QUANTTransformer (#2727) * [REF] Refactor Anomaly Detection Module into Submodules by Algorithm Family (#2694) * Refactor Anomaly Detection Module into Submodules by Algorithm Family * updated documentation and references * implemented suggested changes * minor changes * added headers for remaining algorithm family * removing tree-based header * Automated `pre-commit` hook update (#2756) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [ENH]Type hints/forecasting (#2737) * Type hints for primitive data types in base module * Type hints for primitive data types and strings in forecating module * type hints for primitives in foreacasting module * Revert "type hints for primitives in foreacasting module" This reverts commit 575122d14b28742140ef1e16a3a351dd5db5072b. * type hints for primitives in forecasting module * Automated `pre-commit` hook update (#2766) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [ENH] Implement `load_model` function for ensemble classifiers (#2631) * feat: implement `load_model` function for LITETimeClassifier Implement separate `load_model` function for LITETimeClassifier, which takes in `model_path` as list of strings and `classes` and loads all the models separately and stores them in `self.classifiers_` * feat: implement `load_model` function for InceptionTimeClassifier Implement separate `load_model` function for InceptionTimeClassifier, which takes in `model_path` as list of strings and `classes` and loads all the models separately and stores them in `self.classifiers_` * fix: typo in load model function * feat: convert load_model functions to classmethods * test: implement test for save load for LITETIME and Inception classification models * Automatic `pre-commit` fixes * refactor: move loading tests to separate files * Update _ae_abgru.py (#2771) * Automated `pre-commit` hook update (#2779) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [DOC] Fix Broken [Source] Link and Improve Documentation for suppress_output() (#2677) * Fix Broken [Source] Link and Improve Documentation for suppress_output() Function * modified docstring and added tests * modified docstring example * modifying docstring examples * modifying docstring examples * updating conf file * updated docstring * base transform tidy (#2773) * DOC: Add Raises section for invalid weights in KNeighborsTimeSeriesClassifier (#1766) (#2764) Document the ValueError raised during initialization when an unsupported value is passed to the 'weights' parameter. Clarifies expected exceptions for users and improves API documentation consistency. Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [ENH] Fixes Issue Improve `_check_params` method in `kmeans.py` and `kmedoids.py` (#2682) * Improves _check_params * removes function and adds a var * minor changes * minor changes * minor changes * line endings to LF * use variable instead of duplicating strings * weird file change * weird file change --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [ENH] Add type hints for deep learning regression classes (#2644) * type hints for cnn for regrssion * editing import modules Model & Optim * type hints for disjoint_cnn for regrssion * FIX type hints _get_test_params * ENH Change linie of importing typing * type hints for _encoder for regrssion * type hints for _fcn for regrssion * type hints for _inception_time for regrssion * type hints for _lite_time for regrssion * type hints for _mlp for regrssion * type hints for _resnet for regrssion * type hints for _base for regrssion * FIX: mypy errors in _disjoint_cnn.py file * FIX: mypy typing errors * Fix: Delete variable types, back old-verbose * FIX: add model._save in save_last_model_to_file function * FIX: Put TYPE_CHECKING downside * Fix: Put Any at the top * [DOC] Add RotationForest Classifier Notebook for Time Series Classification (#2592) * Add RotationForest Classifier Notebook for Time Series Classification * Added references and modified doc * minor modifications to notebook description * Update rotation_forest.ipynb --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * fix: Codeowners for benchmarking metrics AD (#2784) * [GOV] Supporting Developer role (#2775) * supporting dev role * pr req * Update governance.md * typo * Automatic `pre-commit` fixes * aeon --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT, ENH, DOC] Rework similarity search (#2473) * WIP remake module structure * Update _brute_force.py * Update test__commons.py * WIP mock and test * Add test for base subsequence * Fix subsequence_search tests * debug brute force mp * more debug of subsequence tests * more debug of subsequence tests * Add functional LSH neighbors * add notebook for sim search tasks * Updated series similarity search * Fix mistake addition in transformers and fix base classes * Fix registry and api reference * Update documentation and fix some leftover bugs * Update documentation and add default test params * Fix identifiers and test data shape for all_estimators tests * Fix missing params * Fix n_jobs params and tags, add some docs * Fix numba test bug and update testing data for sim search * Fix imports, testing data tests, and impose predict/_predict interface to all sim search estimators * Fix args * Fix extract test * update docs api and notebooks * remove notes * Patrick comments * Adress comments and clean index code * Fix Patrick comments * Fix variable suppression mistake * Divide base class into task specific * Fix typo in imports * Empty commit for CI * Fix typo again * Add check_inheritance exception for similarity search * Revert back to non per type base classes * Factor check index and typo in test --------- Co-authored-by: Patrick Schäfer <patrick.schaefer@hu-berlin.de> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: baraline <10759117+baraline@users.noreply.github.com> * [ENH] Adapt the DCNN Networks to use Weight Norm Wrappers (#2628) * adapt the dcnn networks to use weight norm wrappers and remove l2 regularization * Automatic `pre-commit` fixes * add custom object * Automatic `pre-commit` fixes * fix trial --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [GOV] Remove inactive developers (#2776) * inactive devs * logo fix * Automated `pre-commit` hook update (#2792) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * Add SomtoOnyekwelu to .all-contributorsrc (#2788) * Automated `CONTRIBUTORS.md` update (#2794) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [BUG] Fix a bug in ClaSP Series Transformer when using floatXX as Input (where XX != 64) (#2774) * Automatic conversion to float64. * remove print * [DOC] Changed SummaryClusterer's summary_stat from "percentiles" to "quantiles" (#2778) * changed summary_stats * changed summary_stats * changed summary_stats * changed summary_stats for regression and classification * [ENH] Test coverage for AEAttentionBiGRUNetwork Improved (#2540) * test file for ae_abgru added * soft depedency of tf resolved * aeabgru test file changed, bug resolved * aeabgru file reverted to original state * [BUG] Better error message for Rotation Forest with no usable attributes (#2798) * better error message for rotf failure * Update _rotation_forest_classifier.py * Update _rotation_forest_regressor.py * [DOC] Inconsistent double ticks in segmentation package, public docstring only (#2622) * double ticks EAggloSegmenter docstring * double ticks HMMSegmenter docstring * double ticks InformationGainSegmenter docstring * double ticks for other EAggloSegmenter docstring and removed extra whitespace --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * put lower bound keras (#2808) * [REF] Refactor smoothing transformers into a sub-package (#2783) * mockup * init * decorator * correct import and tag * base docs * wrappers * tests * docs and imports * test params * register * big refactor * smoothing refactor * ad stuff * fixes * fixes * no longer required * [ENH] Refactor range-based metrics to restore original behavior (#2781) * feat: refactor range-based metrics to be consistent with the other AD metrics and integrate them into the AD test harness * refactor: move new range metrics methods into their old place and remove the deprecation * refactor: factor out test execution from test fixtures * refactor: move tests to new methods * fix: copy'n'paste error * [ENH]Use n_jobs parameter in KNeighborsTimeSeriesClassifier. (#2687) * Use n_jobs parameter in KNeighborsTimeSeriesClassifier. * Don't convert proba dtype. * Remove is_fitted checks, update docstring. * Implement parallel backend param. * Correct keyword argument for Parallel. * Add check_n_jobs. --------- Co-authored-by: stijn <s.j.rotman@tilburguniversity.edu> * [ENH] add informational tags back to estimator docs (#2652) * feat: add new tags information for anomaly detection * feat: add tag information in given anomaly modles * fix: add new anomaly detector tags in mock anomaly detector class * fix: use anomaly-detector instead of estimator for new tags * update and add basic testing * fixes --------- Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> * [DOC] Documentation improvement of BaseSeriesEstimator and BaseAeonEstimator (#2612) * Added the docs for base series and base classes * Updated documentation for base classes --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [ENH] HydraTransformer Output changed (#2656) * output type added * hydra wflow modified * hydra test file added * pr_pytest reverted * soft dep check added * soft dep corrected * docstring corrected, enhanced test cases * [DOC] Improved Hidalgo Segmentation Notebook (#2616) * Improved Hidalgo Segmentation Notebook * Updated hidalgo notebook --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * new devs and workflow consolidation (#2797) * all branches (#2809) * Automated `pre-commit` hook update (#2820) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * [MNT] Bump crs-k/stale-branches in the github-actions group (#2821) Bumps the github-actions group with 1 update: [crs-k/stale-branches](https://github.com/crs-k/stale-branches). Updates `crs-k/stale-branches` from 7.0.1 to 8.1.1 - [Release notes](https://github.com/crs-k/stale-branches/releases) - [Commits](https://github.com/crs-k/stale-branches/compare/v7.0.1...v8.1.1) --- updated-dependencies: - dependency-name: crs-k/stale-branches dependency-version: 8.1.1 dependency-type: direct:production update-type: version-update:semver-major dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * fix: indexing in kdtw (#2826) * [ENH] Added test cases for feature based clustering (#2690) * Added test cases for feature based clustering * Automatic `pre-commit` fixes * added docstring * Automatic `pre-commit` fixes * added . * added . * updated tsfresh * Automatic `pre-commit` fixes * added pytest _check_soft_dependencies for tsfresh * Automatic `pre-commit` fixes * added more testing * Automatic `pre-commit` fixes * added docs * added docs * added pytest * Automatic `pre-commit` fixes * improved docs * Automatic `pre-commit` fixes * improved test cases * changes made as requested by moderators * changes made as requested by moderators * Automatic `pre-commit` fixes * changed "percentiles" to "quantiles" --------- Co-authored-by: Ramana-Raja <ramanarajakesavaraja@gamil.com> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> * [DOC] Fix inconsistent double backticks in updated similarity_search module docstrings (#2618) * [ENH] Update `_continuous.py` functions (#2822) * update continuous, has test failure * parameters back to original * alpha added into precision * removes p_alpha deprecation * changes * [MNT] stop segmenters changing state in predict (#2526) * remove stored variables in predict * IGTS * GGS * FLUSS * FLUSS * CLASP * CLASP * revert clasp * revert clasp * revert clasp * Update testing_config.py * Update _fluss.py * refactor dummy to naive (#2831) * [ENH] add a difference transformer to series transformations (#2729) * add difference transformer to series transformations * add myself to .all-contributorsrc * small modification * modify according to reviews * [ENH] add informational tags back to estimator docs (#2652) * feat: add new tags information for anomaly detection * feat: add tag information in given anomaly modles * fix: add new anomaly detector tags in mock anomaly detector class * fix: use anomaly-detector instead of estimator for new tags * update and add basic testing * fixes --------- Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> * [DOC] Documentation improvement of BaseSeriesEstimator and BaseAeonEstimator (#2612) * Added the docs for base series and base classes * Updated documentation for base classes --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [ENH] HydraTransformer Output changed (#2656) * output type added * hydra wflow modified * hydra test file added * pr_pytest reverted * soft dep check added * soft dep corrected * docstring corrected, enhanced test cases * [DOC] Improved Hidalgo Segmentation Notebook (#2616) * Improved Hidalgo Segmentation Notebook * Updated hidalgo notebook --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * new devs and workflow consolidation (#2797) * all branches (#2809) * Automated `pre-commit` hook update (#2820) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * [MNT] Bump crs-k/stale-branches in the github-actions group (#2821) Bumps the github-actions group with 1 update: [crs-k/stale-branches](https://github.com/crs-k/stale-branches). Updates `crs-k/stale-branches` from 7.0.1 to 8.1.1 - [Release notes](https://github.com/crs-k/stale-branches/releases) - [Commits](https://github.com/crs-k/stale-branches/compare/v7.0.1...v8.1.1) --- updated-dependencies: - dependency-name: crs-k/stale-branches dependency-version: 8.1.1 dependency-type: direct:production update-type: version-update:semver-major dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * fix: indexing in kdtw (#2826) * [ENH] Added test cases for feature based clustering (#2690) * Added test cases for feature based clustering * Automatic `pre-commit` fixes * added docstring * Automatic `pre-commit` fixes * added . * added . * updated tsfresh * Automatic `pre-commit` fixes * added pytest _check_soft_dependencies for tsfresh * Automatic `pre-commit` fixes * added more testing * Automatic `pre-commit` fixes * added docs * added docs * added pytest * Automatic `pre-commit` fixes * improved docs * Automatic `pre-commit` fixes * improved test cases * changes made as requested by moderators * changes made as requested by moderators * Automatic `pre-commit` fixes * changed "percentiles" to "quantiles" --------- Co-authored-by: Ramana-Raja <ramanarajakesavaraja@gamil.com> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> * [DOC] Fix inconsistent double backticks in updated similarity_search module docstrings (#2618) * delete some descriptions * modification to _maintainer_ --------- Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> Co-authored-by: Adarsh Dubey <dubeyadarshmain@gmail.com> Co-authored-by: Kevin Shah <161136814+kevinzb56@users.noreply.github.com> Co-authored-by: Balgopal Moharana <99070111+lucifer4073@users.noreply.github.com> Co-authored-by: Kavya Rambhia <161142013+kavya-r30@users.noreply.github.com> Co-authored-by: aeon-actions-bot[bot] <148872591+aeon-actions-bot[bot]@users.noreply.github.com> Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Sebastian Schmidl <10573700+SebastianSchmidl@users.noreply.github.com> Co-authored-by: Ramana Raja <83065061+Ramana-Raja@users.noreply.github.com> Co-authored-by: Ramana-Raja <ramanarajakesavaraja@gamil.com> Co-authored-by: Ciph3r <142653450+adityagh006@users.noreply.github.com> * Automated `CONTRIBUTORS.md` update (#2832) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [BUG] Fix data loader (#2810) * Update _data_loaders.py * Update _data_loaders.py * stop deleting directories * Automated `pre-commit` hook update (#2841) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * 📝 Add lucifer4073 as a contributor for code (#2846) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * [BUG] Adds test case for using csr_matrix with pickle - invalidates #2210 (#2843) * Extend test parameter set to validate if csx_matrix works with pickle. * Invalidates bug #2210 * [DOC] Docstring improved for dummy regressor (#2839) * Docstring improved for dummy regressor * convo resolved * remove numba typing (#2858) * [DOC] Regression forecaster docstring (#2837) * docstring * docstring * [ENH] Whole-series anomaly detection (#2326) * mockup * init * decorator * correct import and tag * base docs * wrappers * tests * docs and imports * test params * register * big refactor * smoothing refactor * Revert "smoothing refactor" This reverts commit c245ccbd0c1481b188a9094ccd7ff493613a89cd. * fixes * final bits and docs for refactor * fixes * testing fixes * Update aeon/anomaly_detection/collection/base.py Co-authored-by: Sebastian Schmidl <10573700+SebastianSchmidl@users.noreply.github.com> * Update docs/api_reference/anomaly_detection.rst Co-authored-by: Sebastian Schmidl <10573700+SebastianSchmidl@users.noreply.github.com> * Review changes * docs * import --------- Co-authored-by: Sebastian Schmidl <10573700+SebastianSchmidl@users.noreply.github.com> * [MNT] Bump the github-actions group across 1 directory with 2 updates (#2868) Bumps the github-actions group with 2 updates in the / directory: [ossf/scorecard-action](https://github.com/ossf/scorecard-action) and [crs-k/stale-branches](https://github.com/crs-k/stale-branches). Updates `ossf/scorecard-action` from 2.4.1 to 2.4.2 - [Release notes](https://github.com/ossf/scorecard-action/releases) - [Changelog](https://github.com/ossf/scorecard-action/blob/main/RELEASE.md) - [Commits](https://github.com/ossf/scorecard-action/compare/v2.4.1...v2.4.2) Updates `crs-k/stale-branches` from 8.1.1 to 8.2.0 - [Release notes](https://github.com/crs-k/stale-branches/releases) - [Commits](https://github.com/crs-k/stale-branches/compare/v8.1.1...v8.2.0) --- updated-dependencies: - dependency-name: ossf/scorecard-action dependency-version: 2.4.2 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions - dependency-name: crs-k/stale-branches dependency-version: 8.2.0 dependency-type: direct:production update-type: version-update:semver-minor dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Automated `pre-commit` hook update (#2867) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * [ENH] introduce revised version of ETS (#2834) * first version for correctness testing * timing * examples * new tests * refactor predict * final ETS * arima first * docstrings * docstrings * Convert error, trend and seasonality types to strings * Automatic `pre-commit` fixes * Add Type hints back in * Fix Type hints * Fix Linting issue * Automatic `pre-commit` fixes * Update test_ets to use strings for error, trend and seasonality types * Automatic `pre-commit` fixes * switch to fastmath * remove _arima, incorrectly introduced here * all int or str parameters * refactor variable name --------- Co-authored-by: alexbanwell1 <31886108+alexbanwell1@users.noreply.github.com> * [DOC] Update the projects lists (#2146) * remove Theta * projects * draft * add some papers * update papers * update projects * remove completed projects * remove poorly specified/out of date projects * remove merlin projects * restructure papers by year * papers using aeon * projects list and previous projects * update papers --------- Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> * [DEP] Remove `prts` dependency (#2863) * remove prts from pyproject * docs * Update _continuous.py * Automatic `pre-commit` fixes --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [ENH] Starting Self Supervised Model with first example (#2385) * add ssl module in transformations collection * add api * add test params * fix example * restart tests * test fix params * network none * revert * import inside function * try dummy * test repr * network repr * enhance testing * fix test * replace tcnn by lite * tony's comments * fix typing * fix znorm * z_norm in test * add exp module * Update repr.py * Update base.py * Automatic `pre-commit` fixes --------- Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * update slack link (#2877) * [BUG] Switch results loaders from http to https (#2883) * https * https in tests * [ENH] Correct broken source links for `set_params` and `get_params` in Aeon estimator docs (#2754) * Correct broken source links for `set_params` and `get_params` in Aeon estimator docs * made necessary changes * made necessary changes * modified linkcode_resolve * added comments * open PR comment changes (#2878) * [ENH] Implemented Tracking differentiator-based multiview dilated characteristics (TD-MVDC) Classifier (#2535) * Files and structure of tdmvdc class added * utility functions for tdmvdc applied * unecessary files removed * Initial implementation of TDMVDC added * accuracy improved to the required 81 per cent * test params added for tdmvdc * n_jobs temporarily disabled * n_jobs test params removed * Revert "n_jobs test params removed" This reverts commit 91539099f3cd3a201b7fe68bfea80a9ae5ebc706. * multithreading capability temporarily removed from tdmvdc * multithreading added * n_jobs removed from test_param * test added for tdmvdc * test added for tdmvdc * optimized comments * Made tdmvdc uniform across all feauture based classifiers * tdmvdc tested * check constructor test exlcuded for tdmvdc * changed * init file changed * check constructor corrected tdmvdc --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> * Automated `pre-commit` hook update (#2888) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * [MNT] Update pandas requirement in the python-packages group (#2889) Updates the requirements on [pandas](https://github.com/pandas-dev/pandas) to permit the latest version. Updates `pandas` to 2.3.0 - [Release notes](https://github.com/pandas-dev/pandas/releases) - [Commits](https://github.com/pandas-dev/pandas/compare/v2.0.0...v2.3.0) --- updated-dependencies: - dependency-name: pandas dependency-version: 2.3.0 dependency-type: direct:production dependency-group: python-packages ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [MNT] Drop Python 3.9 (#2845) * drop python 3.9 * fixes * readme * tag * test skip * [ENH] Series transformer pipeline and datatype list tidy (#2830) * series pipeline * fixes and docs * test fix * fix * [ENH] Multivariate and unequal PF, speed-ups and distance classifier tidy (#2872) * pass 1 * pf change fixes and derivative function merge * test * fixes * expected result * unequal and deprecations * [ENH] Add two forecasting tags (#2882) * add tags * correct exog * typo * [DOC] A fix to inconsistent double tick quote for the classification.distance_based module (#2627) * A fix to inconsistent double quotes * A fix to inconsistent double quotes * A fix to inconsistent double quotes * A fix to inconsistent double quotes * Revert "A fix to inconsistent double quotes" This reverts commit ff98c81a6c29b61d053e66c80f9f167b718172f5. * A fix to inconsistent double quotes * A fix to inconsistent double quotes * fix inconsistent double ticks * Automatic `pre-commit` fixes * Update _elastic_ensemble.py * Update _proximity_forest.py --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * 📝 Add Ahmed-Zahran02 as a contributor for doc (#2892) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * [BUG] Forecasting regressor fix and notebook (#2885) * stop returning an array * notebook * Create window.png * fix test and typo * remove unfinished sentence * 📝 Add AnaghDeshpande as a contributor for doc (#2896) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * [GOV] Use the NumFOCUS code of conduct and rename `aeon` workgroup (#2852) * code of conduct update and readmes * typo --------- Co-authored-by: Sebastian Schmidl <10573700+SebastianSchmidl@users.noreply.github.com> * [DOC] resolved the inconsistency of double ticks for the anomaly detection module #809 (#2546) * resolved the inconsistency of double quotes * resolved the inconsistency of double ticks * resolved the pre-commit errors occuring due to flake8 * Update _cblof.py made changes in line number 19 and 145. * Automatic `pre-commit` fixes * Update _copod.py made changes in line number 76 * Automatic `pre-commit` fixes * Update _iforest.py made changes in line number 19 * Automatic `pre-commit` fixes * Update _kmeans.py made changes in line number 178 * Automatic `pre-commit` fixes * Update _merlin.py made changes in line number 215 * Automatic `pre-commit` fixes * Update _one_class_svm.py made changes in line number 19 * Automatic `pre-commit` fixes * Update _pyodadapter.py made changes in line number 165 * Update _stomp.py made changes in line number 125 * Automatic `pre-commit` fixes * converted directives to single ticks * added double ticks to code ref * fixed link in cblof.py and some other minor changes * Update base.py --------- Co-authored-by: Patrick Schäfer <patrick.schaefer@hu-berlin.de> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [ENH] Forecasting testing (#2891) * call forecasting checks * basic cleanup * fix * add assert error messages * remove fit_is_empty check (see #2893) * remove extra argument to fit * remove extra argument to predict * correct forecast argument * Update _yield_forecasting_checks.py * add test for predict --------- Co-authored-by: Tony Bagnall <ajb@uea.ac.uk> * [MNT] Fixing CI issues and separate doctests from regular CI runners (#2902) * trying to fix CI stuff * use numba in codecov * try cov * no cov * doctest-plus * doctest-plus * addopts * dedicated doctest test * periodic * [BUG] Fixes a bug with SFAFast throwing an error when calling transform after fit (#2897) * Bugfix for SFA_Fast with transform called after fit * [MNT] Bump stefanzweifel/git-auto-commit-action from 5 to 6 in the github-actions group (#2906) * [MNT] Bump stefanzweifel/git-auto-commit-action Bumps the github-actions group with 1 update: [stefanzweifel/git-auto-commit-action](https://github.com/stefanzweifel/git-auto-commit-action). Updates `stefanzweifel/git-auto-commit-action` from 5 to 6 - [Release notes](https://github.com/stefanzweifel/git-auto-commit-action/releases) - [Changelog](https://github.com/stefanzweifel/git-auto-commit-action/blob/master/CHANGELOG.md) - [Commits](https://github.com/stefanzweifel/git-auto-commit-action/compare/v5...v6) --- updated-dependencies: - dependency-name: stefanzweifel/git-auto-commit-action dependency-version: '6' dependency-type: direct:production update-type: version-update:semver-major dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> * Update issue_comment_edited.yml * Update pr_precommit.yml --------- Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [ENH] Added RNN in networks (#2875) * RNN net architecture added * Fixed activation function for both str and list * RNN test mesage corrected * reverted workflow * reverted workflow * requested changes applied * convo resolved * Update README.md (#2908) * [ENH] Add recursive and direct methods to forecasting base class (#2899) * base class methods * direct * recursive * base * direct_forecasting * recursive_forecasting * recursive_forecasting * recursive_forecasting * direct notebook * direct notebook * direct notebook * switch to iterative * switch to iterative * iterative * iterative notebook * append change * append change * fix regression bug * comment * [ENH] remove horizon from ETS constructor, parametrize ETS tests (#2898) * remove horizon from ETS argument, parametrize tests * remove horizon from example * docstring * [ENH] Refactor example dataset for unequal length univariate (#2859) * deprecate PLAID * add pickup * deprecated * [ENH, REF]Refactored time-point based ROCKAD implementation (#2804) * mockup * init * decorator * correct import and tag * base docs * wrappers * tests * docs and imports * test params * register * big refactor * smoothing refactor * Revert "smoothing refactor" This reverts commit c245ccbd0c1481b188a9094ccd7ff493613a89cd. * fixes * final bits and docs for refactor * move predict_proba logic into inner_predict for code consistency * Added reference and example code, updated description * Adapted tests to be semi-supervised * Added semi-supervised labeling to description * moved Attributes above References and Examples, updated path of collection based rockad implementation * merge 2 * CI errors * maintainer * doctest --------- Co-authored-by: MatthewMiddlehurst <m.middlehurst@uea.ac.uk> Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> * [ENH] enhance naive forecaster with new strategies (#2869) * naive forecaster with new strategies * few modifications according to reviews * made modifications and add documentation * modifications according to reviews * try to pass the test * delete one comment * modify 1)more test cases for seasonal_last 2)raise exception for y input in _predict, and related documentation * fix typo * take y * Update _naive.py --------- Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> * [ENH,REF] Unequal length collection transforms (#2903) * move and update unequal transforms * unequal transforms * comment * better sorting * extra transform test * changes for review * Release v1.2.0 (#2912) * release prep * changelog * Automated `pre-commit` hook update (#2914) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * [MNT] Comments on numba caching and release CI fix (#2916) * release CI jank * comment * swap * [ENH] Improves `create_multi_comparison_matrix` parameters and saving (#2657) * Empty-Commit * condensed parameters and showing output * test cases updated * changes * updated examples * point 2 working * [DOC] Clarify comments regarding issue assignment limits and user notifications * condensed parameters and showing output * test cases updated * changes * dir -> save_path * Reverted _mcm.py and its test to match main * requested changes done, pdf not showing yet * changes * changes * updated docstring * changes * requested changes * example file changes * changed formats default to None --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [MNT] Prevents assignment on Restricted Labels (#2706) * restricted labels * set * resolve conflicts * merge assign PRs and small change --------- Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> * [MNT] Update scikit-learn requirement from <1.7.0,>=1.0.0 to >=1.0.0,<1.8.0 in the python-packages group (#2907) * [MNT] Update scikit-learn requirement in the python-packages group Updates the requirements on [scikit-learn](https://github.com/scikit-learn/scikit-learn) to permit the latest version. Updates `scikit-learn` to 1.7.0 - [Release notes](https://github.com/scikit-learn/scikit-learn/releases) - [Commits](https://github.com/scikit-learn/scikit-learn/compare/1.0...1.7.0) --- updated-dependencies: - dependency-name: scikit-learn dependency-version: 1.7.0 dependency-type: direct:production dependency-group: python-packages ... Signed-off-by: dependabot[bot] <support@github.com> * new validation * Update test_rockad.py * Update _rockad.py --------- Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> * [MNT] issue-assign-bot - only users with write access should be able to assign others (#2739) * only admins can assign others * improve comment message * Automatic `pre-commit` fixes * fixes according to latest code * Automatic `pre-commit` fixes * changes according to latest code * resolve merge conflicts * Automatic `pre-commit` fixes * adjust according to latest code * merge --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [MNT] Created workflow for closing "AI Spam" pull requests (#2750) * added ai_spam * Automatic `pre-commit` fixes * fixed comment text * fixed comment text * updated to python 3.11 --------- Co-authored-by: Ramana-Raja <ramanarajakesavaraja@gamil.com> * [ENH] Use `np.argpartition` for efficient top-k selection instead of `np.argsort` (#2805) * use argpartition for efficient selection instead of argsort * made the required changes * [EHN] Allow exogenous variables in regression forecasters (#2915) * add exogenous variable feature to base and regression forecasters * delete self._check_X for exog --------- Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> * Automated `pre-commit` hook update (#2922) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * [MNT] Bump actions/create-github-app-token in the github-actions group (#2923) Bumps the github-actions group with 1 update: [actions/create-github-app-token](https://github.com/actions/create-github-app-token). 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Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [ENH] Added RecurrentRegressor for time series regression (#2894) * RNN net architecture added * Fixed activation function for both str and list * RNN test mesage corrected * RNN regressor added * init updated w rnn * reverted workflow * reverted workflow * requested changes applied * updated with latest recurrent network * merged with main * [MNT] Add testing workflow for multithreading and make threaded estimators use `check_n_jobs` (#2913) * multithreading test * njons and workflow fix * tde and base test * _n_jobs in testing * _n_jobs in testing * more test fixes * fixes * more n_jobs * more n_jobs * more n_jobs * more n_jobs * more n_jobs * test fix * test fix * test fix * test fix * hopefully last * hopefully last again * dont enumerate * periodic test * [DOC,MNT] Documentation configuration clean-up (#2911) * start * remove old parameter * 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* other tests * docstrings * refactor forecasting checks * test * test * regression notebook * test_ets * Revert "test_ets" This reverts commit 827a12a0a2fa3fec2d55d481a97aed62bd290059. * Revert "regression notebook" This reverts commit 27978022921c8c436d1ae458511ce5885d425c09. * ets * notebook * naive testing * [ENH] Clone estimator in direct forecast (#2936) * clone estimator * clone estimator * tests * test update * [ENH] Implement Time-Varying Parameter (TVP) regression forecaster using Kalman filter (#2920) * TVP * bug * refactor * test * test * add notebook * docstring * add an intercept * includes * squeeze predict * format * remove incomplete example * add test params * dummy test * dummy test * clone estimator * clone estimator * remove y is none * notebook * tests * tests * test update * remove pointless test * docstring update * [MNT] Add codespell support (config, workflow to detect/not fix) and make it fix a "few" typos (#2653) * Add github action to codespell main on push 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added * tcn_network updated with default params * tcn reshaped * tcn changed * tcn updated * doctest corrected * tcn rshaped * workflow corrected * [BUG] Improve signature docs (#2929) * signature docs * tests * typo * notebook * correct image * fix test * decalre in init * switch classifier to store SignatureTransformer * revert classifier * revert transformer * embed image rather than link * equation * equation * remove tests * maths * maths * add eq * add eq * remove example * line break --------- Co-authored-by: Antoine Guillaume <antoine.guillaume45@gmail.com> * [MNT] Workflow maintenance (#2919) * keep running doctests on fail * renames * remove 3.13.5 * [ENH] Add Basic ARIMA model (#2860) * arima first * move utils * make functions private * Modularise SARIMA model * Add ARIMA forecaster to forecasting package * Add example to ARIMA forecaster, this also tests the forecaster is producing the expected results * Basic ARIMA model * Convert ARIMA to numba version * Adjust parameters to allow modification in fit * Update example and return native python type * Fix examples for tests * Fix Nelder-Mead Optimisation Algorithm Example * Fix Nelder-Mead Optimisation Algorithm Example #2 * Remove Nelder-Mead Example due to issues with numba caching functions * Fix return type issue * Address PR Feedback * Ignore small tolerances in floating point value in output of example * Fix kpss_test example * Fix kpss_test example #2 * Update documentation for ARIMAForecaster, change constant_term to be bool, and fix bug with it not operating on differemced data * Modify ARIMA to allow predicting multiple values by updating the state without refitting the model * Fix bug using self.d rather than self.d_ * refactor ARIMA * docstring * find forecast_ in fit * remove optional y * add iterative * typo * typo * calculate forecast_ * use differenced * example * iterative * arima tests * revert to float * switch nelder_mead version * isolate loss function * isolate loss 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Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [ENH] New experimental module: imbalance in collection transformers (#2498) * first draft * [ENH] wrapper for smote and adasyn of the imbalance module in collection transformers (#2501) * smote & adasyn in aeon.transformation.imbalance * smote & adasyn in aeon.transformation.imbalance * smote & adasyn in aeon.transformation.imbalance * smote & adasyn in aeon.transformation.imbalance * make experimental * inherit from SMOTE * test equivalence to imblearn * move tests * format * import * add test parameters * Ported OHIT (#2573) * Automatic `pre-commit` fixes * docstrings * remove import * remove incorrect test parameters * docstrings * examples * examples * refactor variable name * format comments and reference * typos --------- Co-authored-by: Chuanhang Qiu <80885865+LinGinQiu@users.noreply.github.com> Co-authored-by: MatthewMiddlehurst 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* added numba prange to all pairwise distances * sfa update * changed warning * thread kneighbors * fix test * custom pairwise threaded * fixed * added threaded decorator * merge changes and fixed call * fix * fix * fixed * expanded threaded decorator to work with classes * fixed * fix * merge * added test for kneighbors * added test for kneighbors * fix * Automated `CONTRIBUTORS.md` update (#2614) Co-authored-by: chrisholder <4674372+chrisholder@users.noreply.github.com> * Updated Interval Based Notebook (#2620) * [DOC] Added Docstring for regression forecasting (#2564) * Added Docstring for Regression * Added Docstring for Regression * exog fix * GSoC announcement (#2629) * Automated `pre-commit` hook update (#2632) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Bump tj-actions/changed-files from 45 to 46 in the github-actions group (#2637) * [MNT] Bump tj-actions/changed-files in the github-actions group Bumps the github-actions group with 1 update: [tj-actions/changed-files](https://github.com/tj-actions/changed-files). 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Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [MNT,DEP] _binary.py metrics deprecated (#2600) * functions deprecated * Empty-Commit * version changed * Support for unequal length timeseries in itakura parallelogram (#2647) * [ENH] Implement DTW with Global alignment (#2565) * Implements Dynamic Time Warping with Global Invariances * Adds Numba JIT compilation support * Adds docs and numba support for dtw_gi and test_distance fixed * Fixes doctests * Automatic `pre-commit` fixes * Minor changes * Minor changes * Remove dtw_gi function and combine with private method _dtw_gi * Adds parameter tests * Fixes doctests * Minor changes * [ENH] Adds kdtw kernel support for kernelkmeans (#2645) * Adds kdtw kernel support for kernelkmeans * Code refactor * Adds tests for kdtw clustering * minor changes * minor changes * [MNT] Skip some excected results tests when numba is disabled (#2639) * skip some numba tests * Empty commit for CI * Update testing_config.py --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Remove REDCOMETs from testing exclusion list (#2630) * remove excluded estimators * redcomets fix * [ENH] Replace `prts` metrics (#2400) * Pre-commit fixes * Position parameter in calculate_bias * Added recall metric * merged into into one file * test added * Changes in test and range_metrics * list of list running but error! * flattening lists, all cases passed * Empty-Commit * changes * Protected functions * Changes in documentation * Changed test cases into seperate functions * test cases added and added range recall * udf_gamma removed from precision * changes * more changes * recommended changes * changes * Added Parameters * removed udf_gamma from precision * Added binary to range * error fixing * test comparing prts and range_metrics * Beta parameter added in fscore * Added udf_gamma function * f-score failing when comparing against prts * fixed f-score output * alpha usage * Empty-Commit * added test case to use range-based input for metrics * soft dependency added * doc update --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: Sebastian Schmidl <10573700+SebastianSchmidl@users.noreply.github.com> * Clarify documentation regarding unequal length series limitation (#2589) Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * Automated `pre-commit` hook update (#2683) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Bump tj-actions/changed-files in the github-actions group (#2686) Bumps the github-actions group with 1 update: [tj-actions/changed-files](https://github.com/tj-actions/changed-files). 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Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [ENH] Set `outlier_norm` default to True for Catch22 estimators (#2659) * sets outlier_norm=True by deafault * Minor changes * Docs improvement * [MNT] Use MacOS for examples/ workflow (#2668) * update bash to 5.x for lastpipe support * added esig installation * install boost before esig * fixed examples path issue for excluded notebooks * switched to fixed version of macos * added signature_method.ipynb to excluded list * removed symlink for /bin/bash * Update dependencies.md (#2717) Correct typo in dependencies.md * Automated `pre-commit` hook update (#2708) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [ENH] Test Coverage for Pairwise Distance (#2590) * Pairwise distance matrix test * Empty commit for CI --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * re-running notebook for fixing cell output error (#2597) * Docstring (#2609) * [DOC] Add 'Raises' section to docstring #1766 (#2617) * [DOC] Add 'Raises' section to docstring #1766 * Automatic `pre-commit` fixes * Update _base.py * Automatic `pre-commit` fixes --------- Co-authored-by: ayushsingh9720 <199482418+ayushsingh9720@users.noreply.github.com> * [DOC] Contributor docs update (#2554) * contributing docs update * contributing docs update 2 * typos * Update contributing.md new section * Update testing.md testing update * Update contributing.md dont steal code * Automatic `pre-commit` fixes * Update contributing.md if --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> Co-authored-by: Antoine Guillaume <antoine.guillaume45@gmail.com> * prevent assignment on PRs (#2703) * Update run_examples.sh (#2701) * [BUG] SevenNumberSummary bugfix and input rename (#2555) * summary bugfix * maintainer * test * readme (#2556) * remove MutilROCKETRegressor from alias mapping (#2623) Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * Automated `pre-commit` hook update (#2731) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Bump the github-actions group with 2 updates (#2733) Bumps the github-actions group with 2 updates: [actions/create-github-app-token](https://github.com/actions/create-github-app-token) and [tj-actions/changed-files](https://github.com/tj-actions/changed-files). Updates `actions/create-github-app-token` from 1 to 2 - [Release notes](https://github.com/actions/create-github-app-token/releases) - [Commits](https://github.com/actions/create-github-app-token/compare/v1...v2) Updates `tj-actions/changed-files` from 46.0.3 to 46.0.4 - [Release notes](https://github.com/tj-actions/changed-files/releases) - [Changelog](https://github.com/tj-actions/changed-files/blob/main/HISTORY.md) - [Commits](https://github.com/tj-actions/changed-files/compare/v46.0.3...v46.0.4) --- updated-dependencies: - dependency-name: actions/create-github-app-token dependency-version: '2' dependency-type: direct:production update-type: version-update:semver-major dependency-group: github-actions - dependency-name: tj-actions/changed-files dependency-version: 46.0.4 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Fixed a few spelling/grammar mistakes on TSC docs examples (#2738) * Fix docstring inconsistencies in benchmarking module (resolves #809) (#2735) * issue#809 Fix docstrings for benchmarking functions * Fixed docstrings in results_loaders.py * Fix docstring inconsistencies in benchmarking module - resolves #809 * Fix docstring inconsistencies in benchmarking module - resolves #809 * [ENH] `best_on_top` addition in `plot_pairwise_scatter` (#2655) * Empty-Commit * best_on_top parameter added * changes * [ENH] Add dummy clusterer tags (#2551) * dummy clusterer tags * len * [ENH] Collection conversion cleanup and `df-list` fix (#2654) * collection conversion cleanup * notebook * fixes --------- Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> * [MNT] Updated the release workflows (#2638) * edit release workflows to use trusted publishing * docs * [MNT,ENH] Update to allow Python 3.13 (#2608) * python 3.13 * tensorflow * esig * tensorflow * tensorflow * esig and matrix profile * signature notebook * remove prts * fix * remove annoying deps from all_extras * Update pyproject.toml * [ENH] Hard-Coded Tests for `test_metrics.py` (#2672) * Empty-Commit * hard-coded tests * changes * Changed single ticks to double (#2640) Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * 📝 Add HaroonAzamFiza as a contributor for doc (#2740) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * [ENH,MNT] Assign Bot (assigned issues>2) (#2702) * Empty-Commit * point 2 working * changes * changes in comment message * [MNT,ENH] Assign-bot (Allow users to type alternative phrases for assingment) (#2704) * added extra features * added comments * optimized code * optimized code * made changes requested by moderators * fixed conflicts * fixed conflicts * fixed conflicts --------- Co-authored-by: Ramana-Raja <ramanarajakesavaraja@gamil.com> * 📝 Add Ramana-Raja as a contributor for code (#2741) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * Release v1.1.0 (#2696) * v1.1.0 draft * finish * Automated `pre-commit` hook update (#2743) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT] Bump the github-actions group with 2 updates (#2744) Bumps the github-actions group with 2 updates: [crs-k/stale-branches](https://github.com/crs-k/stale-branches) and [tj-actions/changed-files](https://github.com/tj-actions/changed-files). Updates `crs-k/stale-branches` from 7.0.0 to 7.0.1 - [Release notes](https://github.com/crs-k/stale-branches/releases) - [Commits](https://github.com/crs-k/stale-branches/compare/v7.0.0...v7.0.1) Updates `tj-actions/changed-files` from 46.0.4 to 46.0.5 - [Release notes](https://github.com/tj-actions/changed-files/releases) - [Changelog](https://github.com/tj-actions/changed-files/blob/main/HISTORY.md) - [Commits](https://github.com/tj-actions/changed-files/compare/v46.0.4...v46.0.5) --- updated-dependencies: - dependency-name: crs-k/stale-branches dependency-version: 7.0.1 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions - dependency-name: tj-actions/changed-files dependency-version: 46.0.5 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [DOC] Add implementation references (#2748) * implementation references * better attribution * use gpu installs for periodic tests (#2747) * Use shape calculation in _fit to optimize QUANTTransformer (#2727) * [REF] Refactor Anomaly Detection Module into Submodules by Algorithm Family (#2694) * Refactor Anomaly Detection Module into Submodules by Algorithm Family * updated documentation and references * implemented suggested changes * minor changes * added headers for remaining algorithm family * removing tree-based header * Automated `pre-commit` hook update (#2756) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [ENH]Type hints/forecasting (#2737) * Type hints for primitive data types in base module * Type hints for primitive data types and strings in forecating module * type hints for primitives in foreacasting module * Revert "type hints for primitives in foreacasting module" This reverts commit 575122d14b28742140ef1e16a3a351dd5db5072b. * type hints for primitives in forecasting module * Automated `pre-commit` hook update (#2766) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [ENH] Implement `load_model` function for ensemble classifiers (#2631) * feat: implement `load_model` function for LITETimeClassifier Implement separate `load_model` function for LITETimeClassifier, which takes in `model_path` as list of strings and `classes` and loads all the models separately and stores them in `self.classifiers_` * feat: implement `load_model` function for InceptionTimeClassifier Implement separate `load_model` function for InceptionTimeClassifier, which takes in `model_path` as list of strings and `classes` and loads all the models separately and stores them in `self.classifiers_` * fix: typo in load model function * feat: convert load_model functions to classmethods * test: implement test for save load for LITETIME and Inception classification models * Automatic `pre-commit` fixes * refactor: move loading tests to separate files * Update _ae_abgru.py (#2771) * Automated `pre-commit` hook update (#2779) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [DOC] Fix Broken [Source] Link and Improve Documentation for suppress_output() (#2677) * Fix Broken [Source] Link and Improve Documentation for suppress_output() Function * modified docstring and added tests * modified docstring example * modifying docstring examples * modifying docstring examples * updating conf file * updated docstring * base transform tidy (#2773) * DOC: Add Raises section for invalid weights in KNeighborsTimeSeriesClassifier (#1766) (#2764) Document the ValueError raised during initialization when an unsupported value is passed to the 'weights' parameter. Clarifies expected exceptions for users and improves API documentation consistency. Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [ENH] Fixes Issue Improve `_check_params` method in `kmeans.py` and `kmedoids.py` (#2682) * Improves _check_params * removes function and adds a var * minor changes * minor changes * minor changes * line endings to LF * use variable instead of duplicating strings * weird file change * weird file change --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [ENH] Add type hints for deep learning regression classes (#2644) * type hints for cnn for regrssion * editing import modules Model & Optim * type hints for disjoint_cnn for regrssion * FIX type hints _get_test_params * ENH Change linie of importing typing * type hints for _encoder for regrssion * type hints for _fcn for regrssion * type hints for _inception_time for regrssion * type hints for _lite_time for regrssion * type hints for _mlp for regrssion * type hints for _resnet for regrssion * type hints for _base for regrssion * FIX: mypy errors in _disjoint_cnn.py file * FIX: mypy typing errors * Fix: Delete variable types, back old-verbose * FIX: add model._save in save_last_model_to_file function * FIX: Put TYPE_CHECKING downside * Fix: Put Any at the top * [DOC] Add RotationForest Classifier Notebook for Time Series Classification (#2592) * Add RotationForest Classifier Notebook for Time Series Classification * Added references and modified doc * minor modifications to notebook description * Update rotation_forest.ipynb --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * fix: Codeowners for benchmarking metrics AD (#2784) * [GOV] Supporting Developer role (#2775) * supporting dev role * pr req * Update governance.md * typo * Automatic `pre-commit` fixes * aeon --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [MNT, ENH, DOC] Rework similarity search (#2473) * WIP remake module structure * Update _brute_force.py * Update test__commons.py * WIP mock and test * Add test for base subsequence * Fix subsequence_search tests * debug brute force mp * more debug of subsequence tests * more debug of subsequence tests * Add functional LSH neighbors * add notebook for sim search tasks * Updated series similarity search * Fix mistake addition in transformers and fix base classes * Fix registry and api reference * Update documentation and fix some leftover bugs * Update documentation and add default test params * Fix identifiers and test data shape for all_estimators tests * Fix missing params * Fix n_jobs params and tags, add some docs * Fix numba test bug and update testing data for sim search * Fix imports, testing data tests, and impose predict/_predict interface to all sim search estimators * Fix args * Fix extract test * update docs api and notebooks * remove notes * Patrick comments * Adress comments and clean index code * Fix Patrick comments * Fix variable suppression mistake * Divide base class into task specific * Fix typo in imports * Empty commit for CI * Fix typo again * Add check_inheritance exception for similarity search * Revert back to non per type base classes * Factor check index and typo in test --------- Co-authored-by: Patrick Schäfer <patrick.schaefer@hu-berlin.de> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: baraline <10759117+baraline@users.noreply.github.com> * [ENH] Adapt the DCNN Networks to use Weight Norm Wrappers (#2628) * adapt the dcnn networks to use weight norm wrappers and remove l2 regularization * Automatic `pre-commit` fixes * add custom object * Automatic `pre-commit` fixes * fix trial --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [GOV] Remove inactive developers (#2776) * inactive devs * logo fix * Automated `pre-commit` hook update (#2792) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * Add SomtoOnyekwelu to .all-contributorsrc (#2788) * Automated `CONTRIBUTORS.md` update (#2794) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [BUG] Fix a bug in ClaSP Series Transformer when using floatXX as Input (where XX != 64) (#2774) * Automatic conversion to float64. * remove print * [DOC] Changed SummaryClusterer's summary_stat from "percentiles" to "quantiles" (#2778) * changed summary_stats * changed summary_stats * changed summary_stats * changed summary_stats for regression and classification * [ENH] Test coverage for AEAttentionBiGRUNetwork Improved (#2540) * test file for ae_abgru added * soft depedency of tf resolved * aeabgru test file changed, bug resolved * aeabgru file reverted to original state * [BUG] Better error message for Rotation Forest with no usable attributes (#2798) * better error message for rotf failure * Update _rotation_forest_classifier.py * Update _rotation_forest_regressor.py * [DOC] Inconsistent double ticks in segmentation package, public docstring only (#2622) * double ticks EAggloSegmenter docstring * double ticks HMMSegmenter docstring * double ticks InformationGainSegmenter docstring * double ticks for other EAggloSegmenter docstring and removed extra whitespace --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * put lower bound keras (#2808) * [REF] Refactor smoothing transformers into a sub-package (#2783) * mockup * init * decorator * correct import and tag * base docs * wrappers * tests * docs and imports * test params * register * big refactor * smoothing refactor * ad stuff * fixes * fixes * no longer required * [ENH] Refactor range-based metrics to restore original behavior (#2781) * feat: refactor range-based metrics to be consistent with the other AD metrics and integrate them into the AD test harness * refactor: move new range metrics methods into their old place and remove the deprecation * refactor: factor out test execution from test fixtures * refactor: move tests to new methods * fix: copy'n'paste error * [ENH]Use n_jobs parameter in KNeighborsTimeSeriesClassifier. (#2687) * Use n_jobs parameter in KNeighborsTimeSeriesClassifier. * Don't convert proba dtype. * Remove is_fitted checks, update docstring. * Implement parallel backend param. * Correct keyword argument for Parallel. * Add check_n_jobs. --------- Co-authored-by: stijn <s.j.rotman@tilburguniversity.edu> * [ENH] add informational tags back to estimator docs (#2652) * feat: add new tags information for anomaly detection * feat: add tag information in given anomaly modles * fix: add new anomaly detector tags in mock anomaly detector class * fix: use anomaly-detector instead of estimator for new tags * update and add basic testing * fixes --------- Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> * [DOC] Documentation improvement of BaseSeriesEstimator and BaseAeonEstimator (#2612) * Added the docs for base series and base classes * Updated documentation for base classes --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [ENH] HydraTransformer Output changed (#2656) * output type added * hydra wflow modified * hydra test file added * pr_pytest reverted * soft dep check added * soft dep corrected * docstring corrected, enhanced test cases * [DOC] Improved Hidalgo Segmentation Notebook (#2616) * Improved Hidalgo Segmentation Notebook * Updated hidalgo notebook --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * new devs and workflow consolidation (#2797) * all branches (#2809) * Automated `pre-commit` hook update (#2820) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * [MNT] Bump crs-k/stale-branches in the github-actions group (#2821) Bumps the github-actions group with 1 update: [crs-k/stale-branches](https://github.com/crs-k/stale-branches). Updates `crs-k/stale-branches` from 7.0.1 to 8.1.1 - [Release notes](https://github.com/crs-k/stale-branches/releases) - [Commits](https://github.com/crs-k/stale-branches/compare/v7.0.1...v8.1.1) --- updated-dependencies: - dependency-name: crs-k/stale-branches dependency-version: 8.1.1 dependency-type: direct:production update-type: version-update:semver-major dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * fix: indexing in kdtw (#2826) * [ENH] Added test cases for feature based clustering (#2690) * Added test cases for feature based clustering * Automatic `pre-commit` fixes * added docstring * Automatic `pre-commit` fixes * added . * added . * updated tsfresh * Automatic `pre-commit` fixes * added pytest _check_soft_dependencies for tsfresh * Automatic `pre-commit` fixes * added more testing * Automatic `pre-commit` fixes * added docs * added docs * added pytest * Automatic `pre-commit` fixes * improved docs * Automatic `pre-commit` fixes * improved test cases * changes made as requested by moderators * changes made as requested by moderators * Automatic `pre-commit` fixes * changed "percentiles" to "quantiles" --------- Co-authored-by: Ramana-Raja <ramanarajakesavaraja@gamil.com> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> * [DOC] Fix inconsistent double backticks in updated similarity_search module docstrings (#2618) * [ENH] Update `_continuous.py` functions (#2822) * update continuous, has test failure * parameters back to original * alpha added into precision * removes p_alpha deprecation * changes * [MNT] stop segmenters changing state in predict (#2526) * remove stored variables in predict * IGTS * GGS * FLUSS * FLUSS * CLASP * CLASP * revert clasp * revert clasp * revert clasp * Update testing_config.py * Update _fluss.py * refactor dummy to naive (#2831) * [ENH] add a difference transformer to series transformations (#2729) * add difference transformer to series transformations * add myself to .all-contributorsrc * small modification * modify according to reviews * [ENH] add informational tags back to estimator docs (#2652) * feat: add new tags information for anomaly detection * feat: add tag information in given anomaly modles * fix: add new anomaly detector tags in mock anomaly detector class * fix: use anomaly-detector instead of estimator for new tags * update and add basic testing * fixes --------- Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> * [DOC] Documentation improvement of BaseSeriesEstimator and BaseAeonEstimator (#2612) * Added the docs for base series and base classes * Updated documentation for base classes --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [ENH] HydraTransformer Output changed (#2656) * output type added * hydra wflow modified * hydra test file added * pr_pytest reverted * soft dep check added * soft dep corrected * docstring corrected, enhanced test cases * [DOC] Improved Hidalgo Segmentation Notebook (#2616) * Improved Hidalgo Segmentation Notebook * Updated hidalgo notebook --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * new devs and workflow consolidation (#2797) * all branches (#2809) * Automated `pre-commit` hook update (#2820) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * [MNT] Bump crs-k/stale-branches in the github-actions group (#2821) Bumps the github-actions group with 1 update: [crs-k/stale-branches](https://github.com/crs-k/stale-branches). Updates `crs-k/stale-branches` from 7.0.1 to 8.1.1 - [Release notes](https://github.com/crs-k/stale-branches/releases) - [Commits](https://github.com/crs-k/stale-branches/compare/v7.0.1...v8.1.1) --- updated-dependencies: - dependency-name: crs-k/stale-branches dependency-version: 8.1.1 dependency-type: direct:production update-type: version-update:semver-major dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * fix: indexing in kdtw (#2826) * [ENH] Added test cases for feature based clustering (#2690) * Added test cases for feature based clustering * Automatic `pre-commit` fixes * added docstring * Automatic `pre-commit` fixes * added . * added . * updated tsfresh * Automatic `pre-commit` fixes * added pytest _check_soft_dependencies for tsfresh * Automatic `pre-commit` fixes * added more testing * Automatic `pre-commit` fixes * added docs * added docs * added pytest * Automatic `pre-commit` fixes * improved docs * Automatic `pre-commit` fixes * improved test cases * changes made as requested by moderators * changes made as requested by moderators * Automatic `pre-commit` fixes * changed "percentiles" to "quantiles" --------- Co-authored-by: Ramana-Raja <ramanarajakesavaraja@gamil.com> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> * [DOC] Fix inconsistent double backticks in updated similarity_search module docstrings (#2618) * delete some descriptions * modification to _maintainer_ --------- Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> Co-authored-by: Adarsh Dubey <dubeyadarshmain@gmail.com> Co-authored-by: Kevin Shah <161136814+kevinzb56@users.noreply.github.com> Co-authored-by: Balgopal Moharana <99070111+lucifer4073@users.noreply.github.com> Co-authored-by: Kavya Rambhia <161142013+kavya-r30@users.noreply.github.com> Co-authored-by: aeon-actions-bot[bot] <148872591+aeon-actions-bot[bot]@users.noreply.github.com> Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Sebastian Schmidl <10573700+SebastianSchmidl@users.noreply.github.com> Co-authored-by: Ramana Raja <83065061+Ramana-Raja@users.noreply.github.com> Co-authored-by: Ramana-Raja <ramanarajakesavaraja@gamil.com> Co-authored-by: Ciph3r <142653450+adityagh006@users.noreply.github.com> * Automated `CONTRIBUTORS.md` update (#2832) Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [BUG] Fix data loader (#2810) * Update _data_loaders.py * Update _data_loaders.py * stop deleting directories * Automated `pre-commit` hook update (#2841) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * 📝 Add lucifer4073 as a contributor for code (#2846) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * [BUG] Adds test case for using csr_matrix with pickle - invalidates #2210 (#2843) * Extend test parameter set to validate if csx_matrix works with pickle. * Invalidates bug #2210 * [DOC] Docstring improved for dummy regressor (#2839) * Docstring improved for dummy regressor * convo resolved * remove numba typing (#2858) * [DOC] Regression forecaster docstring (#2837) * docstring * docstring * [ENH] Whole-series anomaly detection (#2326) * mockup * init * decorator * correct import and tag * base docs * wrappers * tests * docs and imports * test params * register * big refactor * smoothing refactor * Revert "smoothing refactor" This reverts commit c245ccbd0c1481b188a9094ccd7ff493613a89cd. * fixes * final bits and docs for refactor * fixes * testing fixes * Update aeon/anomaly_detection/collection/base.py Co-authored-by: Sebastian Schmidl <10573700+SebastianSchmidl@users.noreply.github.com> * Update docs/api_reference/anomaly_detection.rst Co-authored-by: Sebastian Schmidl <10573700+SebastianSchmidl@users.noreply.github.com> * Review changes * docs * import --------- Co-authored-by: Sebastian Schmidl <10573700+SebastianSchmidl@users.noreply.github.com> * [MNT] Bump the github-actions group across 1 directory with 2 updates (#2868) Bumps the github-actions group with 2 updates in the / directory: [ossf/scorecard-action](https://github.com/ossf/scorecard-action) and [crs-k/stale-branches](https://github.com/crs-k/stale-branches). Updates `ossf/scorecard-action` from 2.4.1 to 2.4.2 - [Release notes](https://github.com/ossf/scorecard-action/releases) - [Changelog](https://github.com/ossf/scorecard-action/blob/main/RELEASE.md) - [Commits](https://github.com/ossf/scorecard-action/compare/v2.4.1...v2.4.2) Updates `crs-k/stale-branches` from 8.1.1 to 8.2.0 - [Release notes](https://github.com/crs-k/stale-branches/releases) - [Commits](https://github.com/crs-k/stale-branches/compare/v8.1.1...v8.2.0) --- updated-dependencies: - dependency-name: ossf/scorecard-action dependency-version: 2.4.2 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions - dependency-name: crs-k/stale-branches dependency-version: 8.2.0 dependency-type: direct:production update-type: version-update:semver-minor dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Automated `pre-commit` hook update (#2867) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * [ENH] introduce revised version of ETS (#2834) * first version for correctness testing * timing * examples * new tests * refactor predict * final ETS * arima first * docstrings * docstrings * Convert error, trend and seasonality types to strings * Automatic `pre-commit` fixes * Add Type hints back in * Fix Type hints * Fix Linting issue * Automatic `pre-commit` fixes * Update test_ets to use strings for error, trend and seasonality types * Automatic `pre-commit` fixes * switch to fastmath * remove _arima, incorrectly introduced here * all int or str parameters * refactor variable name --------- Co-authored-by: alexbanwell1 <31886108+alexbanwell1@users.noreply.github.com> * [DOC] Update the projects lists (#2146) * remove Theta * projects * draft * add some papers * update papers * update projects * remove completed projects * remove poorly specified/out of date projects * remove merlin projects * restructure papers by year * papers using aeon * projects list and previous projects * update papers --------- Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> * [DEP] Remove `prts` dependency (#2863) * remove prts from pyproject * docs * Update _continuous.py * Automatic `pre-commit` fixes --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [ENH] Starting Self Supervised Model with first example (#2385) * add ssl module in transformations collection * add api * add test params * fix example * restart tests * test fix params * network none * revert * import inside function * try dummy * test repr * network repr * enhance testing * fix test * replace tcnn by lite * tony's comments * fix typing * fix znorm * z_norm in test * add exp module * Update repr.py * Update base.py * Automatic `pre-commit` fixes --------- Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * update slack link (#2877) * [BUG] Switch results loaders from http to https (#2883) * https * https in tests * [ENH] Correct broken source links for `set_params` and `get_params` in Aeon estimator docs (#2754) * Correct broken source links for `set_params` and `get_params` in Aeon estimator docs * made necessary changes * made necessary changes * modified linkcode_resolve * added comments * open PR comment changes (#2878) * [ENH] Implemented Tracking differentiator-based multiview dilated characteristics (TD-MVDC) Classifier (#2535) * Files and structure of tdmvdc class added * utility functions for tdmvdc applied * unecessary files removed * Initial implementation of TDMVDC added * accuracy improved to the required 81 per cent * test params added for tdmvdc * n_jobs temporarily disabled * n_jobs test params removed * Revert "n_jobs test params removed" This reverts commit 91539099f3cd3a201b7fe68bfea80a9ae5ebc706. * multithreading capability temporarily removed from tdmvdc * multithreading added * n_jobs removed from test_param * test added for tdmvdc * test added for tdmvdc * optimized comments * Made tdmvdc uniform across all feauture based classifiers * tdmvdc tested * check constructor test exlcuded for tdmvdc * changed * init file changed * check constructor corrected tdmvdc --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> * Automated `pre-commit` hook update (#2888) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * [MNT] Update pandas requirement in the python-packages group (#2889) Updates the requirements on [pandas](https://github.com/pandas-dev/pandas) to permit the latest version. Updates `pandas` to 2.3.0 - [Release notes](https://github.com/pandas-dev/pandas/releases) - [Commits](https://github.com/pandas-dev/pandas/compare/v2.0.0...v2.3.0) --- updated-dependencies: - dependency-name: pandas dependency-version: 2.3.0 dependency-type: direct:production dependency-group: python-packages ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [MNT] Drop Python 3.9 (#2845) * drop python 3.9 * fixes * readme * tag * test skip * [ENH] Series transformer pipeline and datatype list tidy (#2830) * series pipeline * fixes and docs * test fix * fix * [ENH] Multivariate and unequal PF, speed-ups and distance classifier tidy (#2872) * pass 1 * pf change fixes and derivative function merge * test * fixes * expected result * unequal and deprecations * [ENH] Add two forecasting tags (#2882) * add tags * correct exog * typo * [DOC] A fix to inconsistent double tick quote for the classification.distance_based module (#2627) * A fix to inconsistent double quotes * A fix to inconsistent double quotes * A fix to inconsistent double quotes * A fix to inconsistent double quotes * Revert "A fix to inconsistent double quotes" This reverts commit ff98c81a6c29b61d053e66c80f9f167b718172f5. * A fix to inconsistent double quotes * A fix to inconsistent double quotes * fix inconsistent double ticks * Automatic `pre-commit` fixes * Update _elastic_ensemble.py * Update _proximity_forest.py --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * 📝 Add Ahmed-Zahran02 as a contributor for doc (#2892) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * [BUG] Forecasting regressor fix and notebook (#2885) * stop returning an array * notebook * Create window.png * fix test and typo * remove unfinished sentence * 📝 Add AnaghDeshpande as a contributor for doc (#2896) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * [GOV] Use the NumFOCUS code of conduct and rename `aeon` workgroup (#2852) * code of conduct update and readmes * typo --------- Co-authored-by: Sebastian Schmidl <10573700+SebastianSchmidl@users.noreply.github.com> * [DOC] resolved the inconsistency of double ticks for the anomaly detection module #809 (#2546) * resolved the inconsistency of double quotes * resolved the inconsistency of double ticks * resolved the pre-commit errors occuring due to flake8 * Update _cblof.py made changes in line number 19 and 145. * Automatic `pre-commit` fixes * Update _copod.py made changes in line number 76 * Automatic `pre-commit` fixes * Update _iforest.py made changes in line number 19 * Automatic `pre-commit` fixes * Update _kmeans.py made changes in line number 178 * Automatic `pre-commit` fixes * Update _merlin.py made changes in line number 215 * Automatic `pre-commit` fixes * Update _one_class_svm.py made changes in line number 19 * Automatic `pre-commit` fixes * Update _pyodadapter.py made changes in line number 165 * Update _stomp.py made changes in line number 125 * Automatic `pre-commit` fixes * converted directives to single ticks * added double ticks to code ref * fixed link in cblof.py and some other minor changes * Update base.py --------- Co-authored-by: Patrick Schäfer <patrick.schaefer@hu-berlin.de> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [ENH] Forecasting testing (#2891) * call forecasting checks * basic cleanup * fix * add assert error messages * remove fit_is_empty check (see #2893) * remove extra argument to fit * remove extra argument to predict * correct forecast argument * Update _yield_forecasting_checks.py * add test for predict --------- Co-authored-by: Tony Bagnall <ajb@uea.ac.uk> * [MNT] Fixing CI issues and separate doctests from regular CI runners (#2902) * trying to fix CI stuff * use numba in codecov * try cov * no cov * doctest-plus * doctest-plus * addopts * dedicated doctest test * periodic * [BUG] Fixes a bug with SFAFast throwing an error when calling transform after fit (#2897) * Bugfix for SFA_Fast with transform called after fit * [MNT] Bump stefanzweifel/git-auto-commit-action from 5 to 6 in the github-actions group (#2906) * [MNT] Bump stefanzweifel/git-auto-commit-action Bumps the github-actions group with 1 update: [stefanzweifel/git-auto-commit-action](https://github.com/stefanzweifel/git-auto-commit-action). Updates `stefanzweifel/git-auto-commit-action` from 5 to 6 - [Release notes](https://github.com/stefanzweifel/git-auto-commit-action/releases) - [Changelog](https://github.com/stefanzweifel/git-auto-commit-action/blob/master/CHANGELOG.md) - [Commits](https://github.com/stefanzweifel/git-auto-commit-action/compare/v5...v6) --- updated-dependencies: - dependency-name: stefanzweifel/git-auto-commit-action dependency-version: '6' dependency-type: direct:production update-type: version-update:semver-major dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> * Update issue_comment_edited.yml * Update pr_precommit.yml --------- Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [ENH] Added RNN in networks (#2875) * RNN net architecture added * Fixed activation function for both str and list * RNN test mesage corrected * reverted workflow * reverted workflow * requested changes applied * convo resolved * Update README.md (#2908) * [ENH] Add recursive and direct methods to forecasting base class (#2899) * base class methods * direct * recursive * base * direct_forecasting * recursive_forecasting * recursive_forecasting * recursive_forecasting * direct notebook * direct notebook * direct notebook * switch to iterative * switch to iterative * iterative * iterative notebook * append change * append change * fix regression bug * comment * [ENH] remove horizon from ETS constructor, parametrize ETS tests (#2898) * remove horizon from ETS argument, parametrize tests * remove horizon from example * docstring * [ENH] Refactor example dataset for unequal length univariate (#2859) * deprecate PLAID * add pickup * deprecated * [ENH, REF]Refactored time-point based ROCKAD implementation (#2804) * mockup * init * decorator * correct import and tag * base docs * wrappers * tests * docs and imports * test params * register * big refactor * smoothing refactor * Revert "smoothing refactor" This reverts commit c245ccbd0c1481b188a9094ccd7ff493613a89cd. * fixes * final bits and docs for refactor * move predict_proba logic into inner_predict for code consistency * Added reference and example code, updated description * Adapted tests to be semi-supervised * Added semi-supervised labeling to description * moved Attributes above References and Examples, updated path of collection based rockad implementation * merge 2 * CI errors * maintainer * doctest --------- Co-authored-by: MatthewMiddlehurst <m.middlehurst@uea.ac.uk> Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> * [ENH] enhance naive forecaster with new strategies (#2869) * naive forecaster with new strategies * few modifications according to reviews * made modifications and add documentation * modifications according to reviews * try to pass the test * delete one comment * modify 1)more test cases for seasonal_last 2)raise exception for y input in _predict, and related documentation * fix typo * take y * Update _naive.py --------- Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> * [ENH,REF] Unequal length collection transforms (#2903) * move and update unequal transforms * unequal transforms * comment * better sorting * extra transform test * changes for review * Release v1.2.0 (#2912) * release prep * changelog * Automated `pre-commit` hook update (#2914) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * [MNT] Comments on numba caching and release CI fix (#2916) * release CI jank * comment * swap * [ENH] Improves `create_multi_comparison_matrix` parameters and saving (#2657) * Empty-Commit * condensed parameters and showing output * test cases updated * changes * updated examples * point 2 working * [DOC] Clarify comments regarding issue assignment limits and user notifications * condensed parameters and showing output * test cases updated * changes * dir -> save_path * Reverted _mcm.py and its test to match main * requested changes done, pdf not showing yet * changes * changes * updated docstring * changes * requested changes * example file changes * changed formats default to None --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [MNT] Prevents assignment on Restricted Labels (#2706) * restricted labels * set * resolve conflicts * merge assign PRs and small change --------- Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> * [MNT] Update scikit-learn requirement from <1.7.0,>=1.0.0 to >=1.0.0,<1.8.0 in the python-packages group (#2907) * [MNT] Update scikit-learn requirement in the python-packages group Updates the requirements on [scikit-learn](https://github.com/scikit-learn/scikit-learn) to permit the latest version. Updates `scikit-learn` to 1.7.0 - [Release notes](https://github.com/scikit-learn/scikit-learn/releases) - [Commits](https://github.com/scikit-learn/scikit-learn/compare/1.0...1.7.0) --- updated-dependencies: - dependency-name: scikit-learn dependency-version: 1.7.0 dependency-type: direct:production dependency-group: python-packages ... Signed-off-by: dependabot[bot] <support@github.com> * new validation * Update test_rockad.py * Update _rockad.py --------- Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: MatthewMiddlehurst <pfm15hbu@gmail.com> * [MNT] issue-assign-bot - only users with write access should be able to assign others (#2739) * only admins can assign others * improve comment message * Automatic `pre-commit` fixes * fixes according to latest code * Automatic `pre-commit` fixes * changes according to latest code * resolve merge conflicts * Automatic `pre-commit` fixes * adjust according to latest code * merge --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * [MNT] Created workflow for closing "AI Spam" pull requests (#2750) * added ai_spam * Automatic `pre-commit` fixes * fixed comment text * fixed comment text * updated to python 3.11 --------- Co-authored-by: Ramana-Raja <ramanarajakesavaraja@gamil.com> * [ENH] Use `np.argpartition` for efficient top-k selection instead of `np.argsort` (#2805) * use argpartition for efficient selection instead of argsort * made the required changes * [EHN] Allow exogenous variables in regression forecasters (#2915) * add exogenous variable feature to base and regression forecasters * delete self._check_X for exog --------- Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> * Automated `pre-commit` hook update (#2922) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * [MNT] Bump actions/create-github-app-token in the github-actions group (#2923) Bumps the github-actions group with 1 update: [actions/create-github-app-token](https://github.com/actions/create-github-app-token). Updates `actions/create-github-app-token` from 1 to 2 - [Release notes](https://github.com/actions/create-github-app-token/releases) - [Commits](https://github.com/actions/create-github-app-token/compare/v1...v2) --- updated-dependencies: - dependency-name: actions/create-github-app-token dependency-version: '2' dependency-type: direct:production update-type: version-update:semver-major dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [ENH] Added RecurrentRegressor for time series regression (#2894) * RNN net architecture added * Fixed activation function for both str and list * RNN test mesage corrected * RNN regressor added * init updated w rnn * reverted workflow * reverted workflow * requested changes applied * updated with latest recurrent network * merged with main * [MNT] Add testing workflow for multithreading and make threaded estimators use `check_n_jobs` (#2913) * multithreading test * njons and workflow fix * tde and base test * _n_jobs in testing * _n_jobs in testing * more test fixes * fixes * more n_jobs * more n_jobs * more n_jobs * more n_jobs * more n_jobs * test fix * test fix * test fix * test fix * hopefully last * hopefully last again * dont enumerate * periodic test * [DOC,MNT] Documentation configuration clean-up (#2911) * start * remove old parameter * numpydoc config * conf tidy * headers * exclude unused methods and update gsoc in about * changelog * binder button * myst config * remove extra bullet point * changelog * Automatic `pre-commit` fixes --------- Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * [DOC] fix incorrect references of classes in getting started page (#2762) * fix: incorrect references of classes in getting started page * fix: typo in BaseSimilaritySearch --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * Automated `pre-commit` hook update (#2932) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * [DOC] Add RecurrentRegressor and RecurrentNetowork to api_reference (#2935) * Recurrent Regressor added to API doc * Recurrent network added to API doc * [ENH] Refactor to set forecast_ in fit and to require y in predict (#2927) * require y in predict * forecast_ * remove calls to predict * doc examples * regression forecaster rework * other tests * docstrings * refactor forecasting checks * test * test * regression notebook * test_ets * Revert "test_ets" This reverts commit 827a12a0a2fa3fec2d55d481a97aed62bd290059. * Revert "regression notebook" This reverts commit 27978022921c8c436d1ae458511ce5885d425c09. * ets * notebook * naive testing * [ENH] Clone estimator in direct forecast (#2936) * clone estimator * clone estimator * tests * test update * [ENH] Implement Time-Varying Parameter (TVP) regression forecaster using Kalman filter (#2920) * TVP * bug * refactor * test * test * add notebook * docstring * add an intercept * includes * squeeze predict * format * remove incomplete example * add test params * dummy test * dummy test * clone estimator * clone estimator * remove y is none * notebook * tests * tests * test update * remove pointless test * docstring update * [MNT] Add codespell support (config, workflow to detect/not fix) and make it fix a "few" typos (#2653) * Add github action to codespell main on push and PRs * Add rudimentary codespell config * Add pre-commit definition for codespell * Some skips for codespell -- lots of work todo * [DATALAD RUNCMD] run codespell throughout fixing typos automagically (but ignoring overall fail due to ambigous ones) === Do not change lines below === { "chain": [], "cmd": "codespell -w || :", "exit": 0, "extra_inputs": [], "inputs": [], "outputs": [], "pwd": "." } ^^^ Do not change lines above ^^^ * codespeed notebook and testing * incorrect typos and notebooks * more typos * config and fixes * Update similarity_search.ipynb fix notebook typos * update skip * temp typo and annotation workflow * annotations * fix typos --------- Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: Antoine Guillaume <antoine.guillaume45@gmail.com> * typo (#2944) * correct checkout (#2945) * DOC: fix typos in MatrixProfileSeriesTransformer (#2940) (#2941) Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> * 📝 Add CodeFor2001 as a contributor for doc (#2946) * 📝 Update CONTRIBUTORS.md [skip ci] * 📝 Update .all-contributorsrc [skip ci] --------- Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> * [ENH] Rework ETS Forecaster (#2939) * iterative * iterative ETS * notebook * Fix bug in seasonality calculation * Add example for ETS iterative forecasting * ets tests * holding notebook * example * Run Itertive notebook --------- Co-authored-by: Alex Banwell <arb1g19@soton.ac.uk> * [MNT] add n_jobs parameter for sax invertion (#2953) * add n_jobs * add tag * Automated `pre-commit` hook update (#2949) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * [DEP] Deprecate PLAID dataset (#2928) * remove PLAID * remove PLAID * [DOC] Classification notebook links (#2942) * fix links * fix links --------- Co-authored-by: Antoine Guillaume <antoine.guillaume45@gmail.com> * [ENH] Added TemporalConvolutionalNetwork in aeon/networks (#2933) * tcn network added * tcn_net pytest added * tcn_network updated with default params * tcn reshaped * tcn changed * tcn updated * doctest corrected * tcn rshaped * workflow corrected * [BUG] Improve signature docs (#2929) * signature docs * tests * typo * notebook * correct image * fix test * decalre in init * switch classifier to store SignatureTransformer * revert classifier * revert transformer * embed image rather than link * equation * equation * remove tests * maths * maths * add eq * add eq * remove example * line break --------- Co-authored-by: Antoine Guillaume <antoine.guillaume45@gmail.com> * [MNT] Workflow maintenance (#2919) * keep running doctests on fail * renames * remove 3.13.5 * [ENH] Add Basic ARIMA model (#2860) * arima first * move utils * make functions private * Modularise SARIMA model * Add ARIMA forecaster to forecasting package * Add example to ARIMA forecaster, this also tests the forecaster is producing the expected results * Basic ARIMA model * Convert ARIMA to numba version * Adjust parameters to allow modification in fit * Update example and return native python type * Fix examples for tests * Fix Nelder-Mead Optimisation Algorithm Example * Fix Nelder-Mead Optimisation Algorithm Example #2 * Remove Nelder-Mead Example due to issues with numba caching functions * Fix return type issue * Address PR Feedback * Ignore small tolerances in floating point value in output of example * Fix kpss_test example * Fix kpss_test example #2 * Update documentation for ARIMAForecaster, change constant_term to be bool, and fix bug with it not operating on differemced data * Modify ARIMA to allow predicting multiple values by updating the state without refitting the model * Fix bug using self.d rather than self.d_ * refactor ARIMA * docstring * find forecast_ in fit * remove optional y * add iterative * typo * typo * calculate forecast_ * use differenced * example * iterative * arima tests * revert to float * switch nelder_mead version * isolate loss function * isolate loss function * remove the utils version of nelder mead * set self.c_ correctly * numba optimise * numba optimise * numba optimise * Add missing _extract_paras file * initial residuals bug and proper differencing d>1 * loss function ignores zeroed start points * fix test * revert FLOAT_CMP * refactor into forecasting * remove example --------- Co-authored-by: Tony Bagnall <ajb@uea.ac.uk> Co-authored-by: Alex Banwell <arb1g19@soton.ac.uk> Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> * Automated `pre-commit` hook update (#2959) Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> * clean space for swap CI to stop sporadic failue (#2965) * [MNT] Bump crs-k/stale-branches in the github-actions group (#2950) --- updated-dependencies: - dependency-name: crs-k/stale-branches dependency-version: 8.2.1 dependency-type: direct:production update-type: version-update:semver-patch dependency-group: github-actions ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * [ENH] New experimental module: imbalance in collection transformers (#2498) * first draft * [ENH] wrapper for smote and adasyn of the imbalance module in collection transformers (#2501) * smote & adasyn in aeon.transformation.imbalance * smote & adasyn in aeon.transformation.imbalance * smote & adasyn in aeon.transformation.imbalance * smote & adasyn in aeon.transformation.imbalance * make experimental * inherit from SMOTE * test equivalence to imblearn * move tests * format * import * add test parameters * Ported OHIT (#2573) * Automatic `pre-commit` fixes * docstrings * remove import * remove incorrect test parameters * docstrings * examples * examples * refactor variable name * format comments and reference * typos --------- Co-authored-by: Chuanhang Qiu <80885865+LinGinQiu@users.noreply.github.com> Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> * stop overwriting y (#2969) * [BUG] Fix redcomets bug when using only one sample (#2952) * Fix * fix exemples * Empty commit for CI * Rework examples and add test * Try fixing example indentation error * Fix examples --------- Co-authored-by: baraline <10759117+baraline@users.noreply.github.com> Co-authored-by: Patrick Schäfer <patrick.schaefer@hu-berlin.de> * [DEP] Remove deprecated transforms (#2961) * remove depcated transforms * fixes * updated dtw gi * debug * debug * debug * debug * fix * refactored regressor * removed file * added test for knn regressor kneighbors * fixed sklearn compatiability tests * cleaned up and commented kneighbors function * fixed when list passed * added public and private methods for kneigbors and additionally expanded testing with comments * removed threaded decorator and swapped to private method --------- Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: Antoine Guillaume <antoine.guillaume45@gmail.com> Co-authored-by: Matthew Middlehurst <pfm15hbu@gmail.com> Co-authored-by: aeon-actions-bot[bot] <148872591+aeon-actions-bot[bot]@users.noreply.github.com> Co-authored-by: chrisholder <4674372+chrisholder@users.noreply.github.com> Co-authored-by: Kavya Rambhia <161142013+kavya-r30@users.noreply.github.com> Co-authored-by: MatthewMiddlehurst <25731235+MatthewMiddlehurst@users.noreply.github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Aryan Pola <98093778+aryanpola@users.noreply.github.com> Co-authored-by: Tanish Yelgoe <143334319+tanishy7777@users.noreply.github.com> Co-authored-by: Sebastian Schmidl <10573700+SebastianSchmidl@users.noreply.github.com> Co-authored-by: Kaustubh <97254178+Kaustbh@users.noreply.github.com> Co-authored-by: Akash Kawle <128881349+shinymack@users.noreply.github.com> Co-authored-by: TinaJin0228 <60577222+TinaJin0228@users.noreply.github.com> Co-authored-by: Ayush Singh <rawatsinghayush9720@gmail.com> Co-authored-by: ayushsingh9720 <199482418+ayushsingh9720@users.noreply.github.com> Co-authored-by: HaroonAzamFiza <haroonazamfiza@gmail.com> Co-authored-by: adityagh006 <142653450+adityagh006@users.noreply.github.com> Co-authored-by: Tony Bagnall <a.j.bagnall@soton.ac.uk> Co-authored-by: V_26@ <valencia.saldanha26@gmail.com> Co-authored-by: allcontributors[bot] <46447321+allcontributors[bot]@users.noreply.github.com> Co-authored-by: Ramana Raja <83065061+Ramana-Raja@users.noreply.github.com> Co-authored-by: Ramana-Raja <ramanarajakesavaraja@gamil.com> Co-authored-by: Ahmed Zahran <136983104+Ahmed-Zahran02@users.noreply.github.com> Co-authored-by: Adarsh Dubey <dubeyadarshmain@gmail.com> Co-authored-by: Ali El Hadi ISMAIL FAWAZ <54309336+hadifawaz1999@users.noreply.github.com> Co-authored-by: Somto Onyekwelu <117727947+SomtoOnyekwelu@users.noreply.github.com> Co-authored-by: Saad Al-Tohamy <92796871+saadaltohamy@users.noreply.github.com> Co-authored-by: Patrick Schäfer <patrick.schaefer@hu-berlin.de> Co-authored-by: baraline <10759117+baraline@users.noreply.github.com> Co-authored-by: Aadya Chinubhai <77720426+aadya940@users.noreply.github.com> Co-authored-by: Balgopal Moharana <99070111+lucifer4073@users.noreply.github.com> Co-authored-by: Massimiliano <117172198+nMaax@users.noreply.github.com> Co-authored-by: steenrotsman <78110080+steenrotsman@users.noreply.github.com> Co-authored-by: stijn <s.j.rotman@tilburguniversity.edu> Co-authored-by: Kevin Shah <161136814+kevinzb56@users.noreply.github.com> Co-authored-by: TonyBagnall <9594042+TonyBagnall@users.noreply.github.com> Co-authored-by: alexbanwell1 <31886108+alexbanwell1@users.noreply.github.com> Co-authored-by: Anagh.B.Deshpande <125550290+AnaghDeshpande@users.noreply.github.com> Co-authored-by: Tony Bagnall <ajb@uea.ac.uk> Co-authored-by: Patrick <55019140+pattplatt@users.noreply.github.com> Co-authored-by: MatthewMiddlehurst <m.middlehurst@uea.ac.uk> Co-authored-by: Yaroslav Halchenko <debian@onerussian.com> Co-authored-by: Saniya S Inamdar <39870781+CodeFor2001@users.noreply.github.com> Co-authored-by: Alex Banwell <arb1g19@soton.ac.uk> Co-authored-by: Chuanhang Qiu <80885865+LinGinQiu@users.noreply.github.com>

MatthewMiddlehurst added 2 commits February 19, 2025 22:55

dummy clusterer tags

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len

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MatthewMiddlehurst requested review from chrisholder and TonyBagnall as code owners February 19, 2025 22:56

aeon-actions-bot bot added clustering Clustering package enhancement New feature, improvement request or other non-bug code enhancement labels Feb 19, 2025

TonyBagnall approved these changes Apr 11, 2025

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TonyBagnall merged commit d1d1ae5 into main Apr 11, 2025
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TonyBagnall deleted the mm/dummyclusterer branch April 11, 2025 19:19

chrisholder pushed a commit that referenced this pull request Jul 30, 2025

[ENH] Add dummy clusterer tags (#2551)

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* dummy clusterer tags * len

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[ENH] Add dummy clusterer tags #2551

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[ENH] Add dummy clusterer tags #2551

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