Using GridSearchCV for RandomForestRegressor

Question

I try to use GridSearchCVfor RandomForestRegressor, but always get ValueError: Found array with dim 100. Expected 500. Consider this toy example:

import numpy as np

from sklearn import ensemble
from sklearn.cross_validation import train_test_split
from sklearn.grid_search import GridSearchCV
from sklearn.metrics import r2_score

if __name__ == '__main__':

    X = np.random.rand(1000, 2)
    y = np.random.rand(1000)

    X_train, X_test, y_train, y_test = train_test_split(
        X, y, test_size=0.5, random_state=1)

    # Set the parameters by cross-validation
    tuned_parameters = {'n_estimators': [500, 700, 1000], 'max_depth': [None, 1, 2, 3], 'min_samples_split': [1, 2, 3]}

    # clf = ensemble.RandomForestRegressor(n_estimators=500, n_jobs=1, verbose=1)
    clf = GridSearchCV(ensemble.RandomForestRegressor(), tuned_parameters, cv=5, scoring=r2_score, n_jobs=-1, verbose=1)
    clf.fit(X_train, y_train)
    print clf.best_estimator_

This is what I get:

Fitting 5 folds for each of 36 candidates, totalling 180 fits
Traceback (most recent call last):
  File "C:\Users\abudis\Dropbox\machine_learning\toy_example.py", line 21, in <module>
    clf.fit(X_train, y_train)
  File "C:\Users\abudis\AppData\Local\Enthought\Canopy\User\lib\site-packages\sklearn\grid_search.py", line 596, in fit
    return self._fit(X, y, ParameterGrid(self.param_grid))
  File "C:\Users\abudis\AppData\Local\Enthought\Canopy\User\lib\site-packages\sklearn\grid_search.py", line 378, in _fit
    for parameters in parameter_iterable
  File "C:\Users\abudis\AppData\Local\Enthought\Canopy\User\lib\site-packages\sklearn\externals\joblib\parallel.py", line 653, in __call__
    self.dispatch(function, args, kwargs)
  File "C:\Users\abudis\AppData\Local\Enthought\Canopy\User\lib\site-packages\sklearn\externals\joblib\parallel.py", line 400, in dispatch
    job = ImmediateApply(func, args, kwargs)
  File "C:\Users\abudis\AppData\Local\Enthought\Canopy\User\lib\site-packages\sklearn\externals\joblib\parallel.py", line 138, in __init__
    self.results = func(*args, **kwargs)
  File "C:\Users\abudis\AppData\Local\Enthought\Canopy\User\lib\site-packages\sklearn\cross_validation.py", line 1240, in _fit_and_score
    test_score = _score(estimator, X_test, y_test, scorer)
  File "C:\Users\abudis\AppData\Local\Enthought\Canopy\User\lib\site-packages\sklearn\cross_validation.py", line 1296, in _score
    score = scorer(estimator, X_test, y_test)
  File "C:\Users\abudis\AppData\Local\Enthought\Canopy\User\lib\site-packages\sklearn\metrics\metrics.py", line 2324, in r2_score
    y_type, y_true, y_pred = _check_reg_targets(y_true, y_pred)
  File "C:\Users\abudis\AppData\Local\Enthought\Canopy\User\lib\site-packages\sklearn\metrics\metrics.py", line 65, in _check_reg_targets
    y_true, y_pred = check_arrays(y_true, y_pred)
  File "C:\Users\abudis\AppData\Local\Enthought\Canopy\User\lib\site-packages\sklearn\utils\validation.py", line 254, in check_arrays
    % (size, n_samples))
ValueError: Found array with dim 100. Expected 500

For some reason GridSearchCV, he believes that the parameter n_estimatorsshould be equal to the size of each fold. If I change the first value n_estimatorsin the tuned_parameters list, I get ValueErrorwith a different expected value.

Learning only one model using clf = ensemble.RandomForestRegressor(n_estimators=500, n_jobs=1, verbose=1)works fine, so I'm not sure if I am doing something wrong or there is a bug somewhere scikit-learn.

Answer 1

, , torer RandomForestRegressor (, , R ^ 2), GridSearchCV:

clf = GridSearchCV(ensemble.RandomForestRegressor(), tuned_parameters, cv=5, 
                   n_jobs=-1, verbose=1)

EDIT: @jnothman # 4081, :

. (, > X, y_true = None) → . scoring = 'r2' scoring = make_scorer (r2_score).