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DOC show from_estimator and from_predictions for Displays #25994

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merged 4 commits into from Mar 30, 2023

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glemaitre
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closes #25980

I think a good enough solution for #25980 is to have a specific template for the displays.
It would give something like:

image

However, some displays do not implement from_predictions. Thus, an error will be raised by sphinx when we execute the include directive. I expect the CI to show an error then.

Does the Sphinx/HTML ninjas (maybe @lesteve @thomasjpfan) can think of some workaround to either include only if the file exists or discard those errors after sphinx compiling?

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@glemaitre
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So we get somewhere in the log:

/home/circleci/project/doc/modules/generated/sklearn.inspection.DecisionBoundaryDisplay.rst:10: CRITICAL: Problems with "include" directive path:
InputError: [Errno 2] No such file or directory: 'modules/generated/sklearn.inspection.DecisionBoundaryDisplay.from_predictions.examples'.
/home/circleci/project/doc/modules/generated/sklearn.inspection.PartialDependenceDisplay.rst:10: CRITICAL: Problems with "include" directive path:
InputError: [Errno 2] No such file or directory: 'modules/generated/sklearn.inspection.PartialDependenceDisplay.from_predictions.examples'.
/home/circleci/project/doc/modules/generated/sklearn.model_selection.LearningCurveDisplay.rst:10: CRITICAL: Problems with "include" directive path:
InputError: [Errno 2] No such file or directory: 'modules/generated/sklearn.model_selection.LearningCurveDisplay.from_predictions.examples'.

However, it is not collected by bash and the CI does not fail.
I am wondering if it is not good enough then.

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Probably autosummary errors somehow don reach to the main sphinx process ...

This adds a bit of noise to the log which is slightly annoying in some cases e.g. when you are trying to figure out which warning could cause the build to fail. I would say this is good enough though.

A cleaner alternative would be to add a different template for classes that don't have from_predictions

@glemaitre
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A cleaner alternative would be to add a different template for classes that don't have from_predictions

This is a good idea. I should only check if we can easily switch templates in the same doc section

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So we get somewhere in the log: [...]
However, it is not collected by bash and the CI does not fail.
I am wondering if it is not good enough then.

Is it because there are no examples using these ?

@glemaitre
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Is it because there are no examples using these ?

Not this is because this specific display does not implement from_predictions because it does not make sense.

@glemaitre
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So creating a new template is enough because the Displays are grouped properly.
Thanks @lesteve for the suggestion.

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Now the question is can you inherit the template to avoid code duplication ? 😄
(I'm kidding, let's merge)

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lesteve commented Mar 30, 2023

FYI I don't think you need the full doc build to check that your PR works 😉 for example see this HTML page in your first commit where you can see your template is taken into account.

@jeremiedbb jeremiedbb merged commit 84d4e5d into scikit-learn:main Mar 30, 2023
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Now the question is can you inherit the template to avoid code duplication ?

I will implement this feature in the RST language directly :)

Veghit pushed a commit to Veghit/scikit-learn that referenced this pull request Apr 15, 2023
MohitBurkule added a commit to MohitBurkule/scikit-learn that referenced this pull request May 7, 2023
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* MAINT Clean deprecation of normalize in calibration_curve for 1.3 (scikit-learn#25833)

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* DOC improve example of PatchExtractor (scikit-learn#26002)

* MAINT Parameters validation for datasets.make_friedman2 (scikit-learn#25986)

* MAINT Parameters validation for datasets.make_friedman3 (scikit-learn#25989)

* MAINT Parameters validation for datasets.make_sparse_uncorrelated (scikit-learn#26001)

* MAINT Parameters validation for datasets.make_spd_matrix (scikit-learn#26003)

* MAINT Parameters validation for datasets.make_sparse_spd_matrix (scikit-learn#26009)

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* DOC Use Scientific Python Plausible instance for analytics (scikit-learn#25547)

* MAINT Parameters validation for sklearn.preprocessing.scale (scikit-learn#26036)

* MAINT Parameters validation for sklearn.metrics.pairwise.haversine_distances (scikit-learn#26047)

* MAINT Parameters validation for sklearn.metrics.pairwise.laplacian_kernel (scikit-learn#26048)

* MAINT Parameters validation for sklearn.metrics.pairwise.linear_kernel (scikit-learn#26049)

* MAINT Parameters validation for sklearn.metrics.silhouette_samples (scikit-learn#26053)

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* TST add global_random_seed fixture to sklearn/datasets/tests/test_rcv1.py (scikit-learn#26043)

* MAINT Parameters validation for sklearn.metrics.pairwise.cosine_similarity (scikit-learn#26006)

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* ENH Adds isdtype to Array API wrapper (scikit-learn#26029)

* MAINT Parameters validation for sklearn.metrics.silhouette_score (scikit-learn#26054)

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* FIX fix spelling mistake in _NumPyAPIWrapper (scikit-learn#26064)

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* MAINT Parameters validation for sklearn.metrics.pairwise.paired_manhattan_distances (scikit-learn#26074)

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* MAINT Parameters validation for sklearn.preprocessing.binarize (scikit-learn#26076)

* MAINT Parameters validation for metrics.explained_variance_score (scikit-learn#26079)

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* MAINT Parameters validation for sklearn.preprocessing.maxabs_scale (scikit-learn#26077)

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* MAINT Parameters validation for sklearn.metrics.pairwise.rbf_kernel (scikit-learn#26071)

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* MAINT Parameters validation for sklearn.metrics.rand_score (scikit-learn#26138)

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* MAINT Parameters validation for sklearn.datasets.load_breast_cancer (scikit-learn#26165)

Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>

* MAINT Parameters validation for sklearn.metrics.cluster.entropy (scikit-learn#26162)

* MAINT Parameters validation for sklearn.datasets.fetch_species_distributions (scikit-learn#26161)

Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>

* ASV Fix tol in SGDRegressorBenchmark (scikit-learn#26146)

Co-authored-by: jeremie du boisberranger <jeremiedbb@yahoo.fr>

* MNT use api.openml.org URLs for fetch_openml (scikit-learn#26171)

* MAINT Parameters validation for sklearn.utils.resample (scikit-learn#26139)

* MAINT make it explicit that additive_chi2_kernel does not accept sparse matrix (scikit-learn#26178)

* MNT fix circleci link in README.rst (scikit-learn#26183)

* CI Fix circleci artifact redirector action (scikit-learn#26181)

* GOV introduce rights for groups as discussed in SLEP019 (scikit-learn#25753)

Co-authored-by: Julien <git@jjerphan.xyz>
Co-authored-by: Thomas J. Fan <thomasjpfan@gmail.com>

* MAINT Parameters validation for sklearn.neighbors.sort_graph_by_row_values (scikit-learn#26173)

Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>

* FIX improve convergence criterion for LogisticRegression(penalty="l1", solver='liblinear') (scikit-learn#25214)

Co-authored-by: Thomas J. Fan <thomasjpfan@gmail.com>
Co-authored-by: Olivier Grisel <olivier.grisel@ensta.org>

* MAINT Fix several typos in src and doc files (scikit-learn#26187)

* PERF fix overhead of _rescale_data in LinearRegression (scikit-learn#26207)

* ENH add Huber loss (scikit-learn#25966)

* MAINT Refactor GraphicalLasso and graphical_lasso (scikit-learn#26033)

Co-authored-by: Guillaume Lemaitre <g.lemaitre58@gmail.com>
Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>

* MAINT Cython linting (scikit-learn#25861)

* DOC Add JupyterLite button in example gallery (scikit-learn#25887)

* MAINT Parameters validation for sklearn.covariance.ledoit_wolf_shrinkage (scikit-learn#26200)

* MAINT Parameters validation for sklearn.datasets.load_linnerud (scikit-learn#26199)

* MAINT Parameters validation for sklearn.datasets.load_wine (scikit-learn#26196)

* DOC Added redirect to Provost paper + minor refactor (scikit-learn#26223)

* MAINT Parameter Validation for `covariance.graphical_lasso` (scikit-learn#25053)

Co-authored-by: Guillaume Lemaitre <g.lemaitre58@gmail.com>
Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>

* MAINT Parameters validation for sklearn.datasets.load_digits (scikit-learn#26195)

Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>

* MAINT Parameters validation for sklearn.preprocessing.quantile_transform (scikit-learn#26144)

Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>

* MAINT Parameters validation for sklearn.model_selection.cross_validate (scikit-learn#26129)

Co-authored-by: jeremiedbb <jeremiedbb@yahoo.fr>

* DOC Adds TargetEncoder example explaining the internal CV (scikit-learn#26185)

Co-authored-by: Tim Head <betatim@gmail.com>

* spelling mistake corrected in documentation for script `plot_document_clustering.py` (scikit-learn#26228)

Co-authored-by: Olivier Grisel <olivier.grisel@ensta.org>

* FIX possible UnboundLocalError in fetch_openml (scikit-learn#26236)

* ENH Adds PyTorch support to LinearDiscriminantAnalysis (scikit-learn#25956)

Co-authored-by: Olivier Grisel <olivier.grisel@ensta.org>
Co-authored-by: Tim Head <betatim@gmail.com>

* MNT Use fixed version of Pyodide (scikit-learn#26247)

* MNT Reset transform_output default in example to fix doc build build (scikit-learn#26269)

* DOC Update example plot_nearest_centroid.py (scikit-learn#26263)

* MNT reduce JupyterLite build size (scikit-learn#26246)

* DOC term -> meth in GradientBoosting (scikit-learn#26225)

* MNT speed-up html-noplot build (scikit-learn#26245)

Co-authored-by: Thomas J. Fan <thomasjpfan@gmail.com>

* MNT Use copy=False when creating DataFrames (scikit-learn#26272)

* MAINT Parameters validation for sklearn.model_selection.permutation_test_score (scikit-learn#26230)

* MAINT Parameters validation for sklearn.datasets.clear_data_home (scikit-learn#26259)

Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>

* MAINT Parameters validation for sklearn.datasets.load_files (scikit-learn#26203)

Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>

* MAINT Parameters validation for sklearn.datasets.get_data_home (scikit-learn#26260)

Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>

* DOC Fix y-axis plot labels in permutation test score example (scikit-learn#26240)

* MAINT cython-lint ignores asv_benchmarks (scikit-learn#26282)

* MAINT Parameter validation for metrics.cluster._supervised (scikit-learn#26258)

Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>

* DOC Improve docstring for tol in SequentialFeatureSelector (scikit-learn#26271)

* MAINT Parameters validation for  sklearn.datasets.load_sample_image (scikit-learn#26226)

Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>

* DOC Consistent param type for pos_label (scikit-learn#26237)

* DOC Minor grammar fix to imputation docs (scikit-learn#26283)

* MAINT Parameters validation for sklearn.calibration.calibration_curve (scikit-learn#26198)

Co-authored-by: jeremie du boisberranger <jeremiedbb@yahoo.fr>

* MAINT Parameters validation for sklearn.inspection.partial_dependence (scikit-learn#26209)

Co-authored-by: jeremie du boisberranger <jeremiedbb@yahoo.fr>

* MAINT Parameters validation for sklearn.model_selection.validation_curve (scikit-learn#26229)

Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>

* MAINT Parameters validation for sklearn.model_selection.learning_curve (scikit-learn#26227)

Co-authored-by: jeremie du boisberranger <jeremiedbb@yahoo.fr>

* MNT Remove deprecated pandas.api.types.is_sparse (scikit-learn#26287)

* CI Use Trusted Publishers for uploading wheels to PyPI (scikit-learn#26249)

* MAINT Parameters validation for sklearn.metrics.pairwise.manhattan_distances (scikit-learn#26122)

* PERF revert openmp use in csr_row_norms (scikit-learn#26275)

* MAINT Parameters validation for metrics.check_scoring (scikit-learn#26041)

Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>

* MNT Improve error message when checking classification target is of a non-regression type (scikit-learn#26281)

Co-authored-by: Adrin Jalali <adrin.jalali@gmail.com>
Co-authored-by: Thomas J. Fan <thomasjpfan@gmail.com>

* DOC fix link to User Guide encoder_infrequent_categories (scikit-learn#26309)

* MNT remove unused args in _predict_regression_tree_inplace_fast_dense (scikit-learn#26314)

* ENH Adds missing value support for trees (scikit-learn#23595)

Co-authored-by: Tim Head <betatim@gmail.com>
Co-authored-by: Julien Jerphanion <git@jjerphan.xyz>

* CLN Clean up logic in validate_data and cast_to_ndarray (scikit-learn#26300)

* MAINT refactor scorer using _get_response_values (scikit-learn#26037)

Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>
Co-authored-by: Adrin Jalali <adrin.jalali@gmail.com>

* DOC Add HGBDT to "see also" section of random forests (scikit-learn#26319)

Co-authored-by: ArturoAmorQ <arturo.amor-quiroz@polytechnique.edu>
Co-authored-by: Tim Head <betatim@gmail.com>

* MNT Bump Github Action labeler version to use newer Node (scikit-learn#26302)

* FIX thresholds should not exceed 1.0 with probabilities in `roc_curve`  (scikit-learn#26194)

Co-authored-by: Olivier Grisel <olivier.grisel@ensta.org>

* ENH Allow for appropriate dtype us in `preprocessing.PolynomialFeatures` for sparse matrices (scikit-learn#23731)

Co-authored-by: Aleksandr Kokhaniukov <alexander.kohanyukov@gmail.com>
Co-authored-by: Olivier Grisel <olivier.grisel@ensta.org>
Co-authored-by: Julien Jerphanion <git@jjerphan.xyz>
Co-authored-by: Thomas J. Fan <thomasjpfan@gmail.com>

* DOC Fix minor typo (scikit-learn#26327)

* MAINT bump minimum version for pytest (scikit-learn#26184)

Co-authored-by: Loïc Estève <loic.esteve@ymail.com>
Co-authored-by: Adrin Jalali <adrin.jalali@gmail.com>
Co-authored-by: Olivier Grisel <olivier.grisel@ensta.org>

* DOC fix return type in isotonic_regression (scikit-learn#26332)

* FIX fix available_if for MultiOutputRegressor.partial_fit (scikit-learn#26333)

Co-authored-by: Guillaume Lemaitre <g.lemaitre58@gmail.com>

* FIX make pipeline pass check_estimator (scikit-learn#26325)

* FEA Add multiclass support to `average_precision_score` (scikit-learn#24769)

Co-authored-by: Geoffrey <geoffrey.bolmier@gmail.com>
Co-authored-by: gbolmier <geoffrey.bolmier@volvocars.com>
Co-authored-by: Guillaume Lemaitre <g.lemaitre58@gmail.com>
Co-authored-by: Thomas J. Fan <thomasjpfan@gmail.com>

---------

Signed-off-by: Julien Jerphanion <git@jjerphan.xyz>
Co-authored-by: Jérémie du Boisberranger <34657725+jeremiedbb@users.noreply.github.com>
Co-authored-by: Meekail Zain <34613774+Micky774@users.noreply.github.com>
Co-authored-by: Julien Jerphanion <git@jjerphan.xyz>
Co-authored-by: Olivier Grisel <olivier.grisel@ensta.org>
Co-authored-by: zeeshan lone <56621467+still-learning-ev@users.noreply.github.com>
Co-authored-by: jeremiedbb <jeremiedbb@yahoo.fr>
Co-authored-by: Adrin Jalali <adrin.jalali@gmail.com>
Co-authored-by: Shiva chauhan <103742975+Shivachauhan17@users.noreply.github.com>
Co-authored-by: AymericBasset <45051041+AymericBasset@users.noreply.github.com>
Co-authored-by: Maren Westermann <maren.westermann@gmail.com>
Co-authored-by: Nishu Choudhary <51842539+choudharynishu@users.noreply.github.com>
Co-authored-by: Guillaume Lemaitre <g.lemaitre58@gmail.com>
Co-authored-by: Loïc Estève <loic.esteve@ymail.com>
Co-authored-by: Benedek Harsanyi <80836204+hbenedek@users.noreply.github.com>
Co-authored-by: Pooja Subramaniam <poojas2086@gmail.com>
Co-authored-by: Rushil Desai <rushildesai01@gmail.com>
Co-authored-by: Xiao Yuan <yuanx749@gmail.com>
Co-authored-by: Omar Salman <omar.salman@arbisoft.com>
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Co-authored-by: Théophile Baranger <39696928+tbaranger@users.noreply.github.com>
Co-authored-by: Thomas J. Fan <thomasjpfan@gmail.com>
Co-authored-by: Andreas Mueller <t3kcit@gmail.com>
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Co-authored-by: Geoffrey <geoffrey.bolmier@gmail.com>
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Improving documentation discoverability for Displays
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