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Fix/handle categorical features #30798 #30799

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@Shyanil Shyanil commented Feb 9, 2025

Fix: Handle Categorical Features in SequentialFeatureSelector ([#30785](#30785))

Overview:
This update resolves an issue in the SequentialFeatureSelector class, where text and categorical features were not handled properly despite the estimator supporting them. The issue was tracked under [#30785](#30785).

Problem:
The SequentialFeatureSelector was not correctly handling pandas DataFrame inputs that included categorical or text-based features, leading to errors during feature selection. Although some estimators (e.g., XGBRegressor) support categorical features, the feature selector was failing to process them as expected.

Solution:
To address this issue, the following change was made to the sklearn/feature_selection/_sequential.py file:

  • Added Handling for Pandas DataFrames:
    The code was updated to ensure compatibility with pandas DataFrames. When the input X is a DataFrame, it uses .iloc[] to correctly slice the columns based on the candidate_mask.

    if isinstance(X, pd.DataFrame):
        X_new = X.iloc[:, candidate_mask]
    else:
        X_new = X[:, candidate_mask]

Impact:

  • The fix ensures that the SequentialFeatureSelector now properly handles both numeric and categorical features in DataFrames.
  • Estimators like XGBRegressor, which support categorical data, now function correctly with the feature selector without raising errors.

Testing:

  • Verified the solution with datasets containing numeric, categorical, and text features. The feature selector now works seamlessly across all data types.

Shyanil and others added 8 commits January 12, 2025 23:34
The average_precision_score function was returning misleading results
(1.0 or 0.0) when given a single sample. Added validation to require
at least 2 samples and provide a clear error message.

Fixes scikit-learn#30615
The average_precision_score function was returning misleading results
(1.0 or 0.0) when given a single sample. Added validation to require
at least 2 samples and provide a clear error message.

Fixes scikit-learn#30615
The average_precision_score function was returning misleading results
(1.0 or 0.0) when given a single sample. Added validation to require
at least 2 samples and provide a clear error message.

Fixes scikit-learn#30615
The average_precision_score function was returning misleading results
(1.0 or 0.0) when given a single sample. Added validation to require
at least 2 samples and provide a clear error message.

Fixes scikit-learn#30615
…-sample-30615

Fix:Fix/average precision score single sample 30615
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github-actions bot commented Feb 9, 2025

❌ Linting issues

This PR is introducing linting issues. Here's a summary of the issues. Note that you can avoid having linting issues by enabling pre-commit hooks. Instructions to enable them can be found here.

You can see the details of the linting issues under the lint job here


black

black detected issues. Please run black . locally and push the changes. Here you can see the detected issues. Note that running black might also fix some of the issues which might be detected by ruff. Note that the installed black version is black=24.3.0.


--- /home/runner/work/scikit-learn/scikit-learn/sklearn/metrics/_ranking.py	2025-02-10 09:36:15.086966+00:00
+++ /home/runner/work/scikit-learn/scikit-learn/sklearn/metrics/_ranking.py	2025-02-10 09:36:32.897032+00:00
@@ -218,11 +218,10 @@
     0.77...
     """
 
     def _binary_uninterpolated_average_precision(
         y_true, y_score, pos_label=1, sample_weight=None
-
     ):
         if len(y_true) < 2:
             raise ValueError(
                 f"Average precision requires at least 2 samples. Got {len(y_true)}."
                 " A single sample cannot form a precision-recall curve."
would reformat /home/runner/work/scikit-learn/scikit-learn/sklearn/metrics/_ranking.py

Oh no! 💥 💔 💥
1 file would be reformatted, 920 files would be left unchanged.

Generated for commit: acb30ab. Link to the linter CI: here

@adrinjalali
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The original issue shows a stacktrace where the error is coming from xgboost, not scikit-learn, so I'm not sure what's to fix here.

Comment on lines +314 to +317
if isinstance(X, pd.DataFrame):
X_new = X.iloc[:, candidate_mask]
else:
X_new = X[:, candidate_mask]
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You should the function _safe_indexing instead.

However, here it is already to late because you already too late. We should avoid the call to validate_data or at least not validate X to not convert it to a NumPy array.

We also need to use n_features = _num_features(X) to compute the number of features.

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@glemaitre Should I modify the earlier validation step to prevent X from being converted to a NumPy array? If so, should I change how validate_data is called, or should we handle it differently?

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validate_data has a skip_check_array arg which would skip conversion to numpy.

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