On 04/14/2016 06:16 PM, Juan Nunez-Iglesias wrote:
No, both the 280K and the 70K were random indices. See the code at the end of the original post. The 200K at the start were merely me doing a quick check that the classifier *wasn't* perfectly accurate as claimed by the grid search.On Thu, Apr 14, 2016 at 3:38 AM, Andreas Mueller <t3k...@gmail.com <mailto:t3k...@gmail.com>> wrote:The 280k were the staring of the sequence, while the 70k were from a shuffled bit, right? On 04/12/2016 08:35 PM, Joel Nothman wrote:I don't think we can deny this is strange, certainly for real-world, IID data! On 13 April 2016 at 10:31, Juan Nunez-Iglesias <jni.s...@gmail.com <mailto:jni.s...@gmail.com>> wrote: Yes but would you expect sampling 280K / 3M to be qualitatively different from sampling 70K / 3M? At any rate I'll attempt a more rigorous test later this week and report back. Thanks! Juan. On Wed, Apr 13, 2016 at 10:21 AM, Joel Nothman <joel.noth...@gmail.com <mailto:joel.noth...@gmail.com>> wrote: It's hard to believe this is a software problem rather than a data problem. If your data was accidentally a duplicate of the dataset, you could certainly get 100%. On 13 April 2016 at 10:10, Juan Nunez-Iglesias <jni.s...@gmail.com <mailto:jni.s...@gmail.com>> wrote: Hallelujah! I'd given up on this thread. Thanks for resurrecting it, Andy! =) However, I don't think data distribution can explain the result, since GridSearchCV gives the expected result (~0.8 accuracy) with 3K and 70K random samples but changes to perfect classification for 280K samples. I don't have the data on this computer so I can't test it right now, though. Juan. On Wed, Apr 13, 2016 at 8:51 AM, Andreas Mueller <t3k...@gmail.com <mailto:t3k...@gmail.com>> wrote: Have you tried to "score" the grid-search on the non-training set? The cross-validation is using stratified k-fold while your confirmation used the beginning of the dataset vs the rest. Your data is probably not IID. On 03/10/2016 01:08 AM, Juan Nunez-Iglesias wrote:Hi all, TL;DR: when I run GridSearchCV with RandomForestClassifier and "many" samples (280K), it falsely shows accuracy of 1.0 for full trees (max_depth=None). This doesn't happen for fewer samples. Longer version: I'm trying to optimise RF hyperparameters using GridSearchCV for the first time. I have a lot of data (~3M samples, 140 features), so I subsampled it to do this. First I subsampled to 3000 samples, which finished in 5min, so I ran 70K samples to see if result would still hold. This resulted in completely different parameter choices, so I ran 280K samples overnight, to see whether at least the choices would stabilise as n -> inf. Then when I printed the top 10 models, I got the following: In [7]: bests = sorted(random_search.grid_scores_, reverse=True, key=lambda x: x [1]) In [8]: bests[:10] Out[8]: [mean: 1.00000, std: 0.00000, params: {'n_estimators': 500, 'bootstrap': True, ' max_features': 'auto', 'max_depth': None, 'criterion': 'gini'}, mean: 1.00000, std: 0.00000, params: {'n_estimators': 500, 'bootstrap': True, ' max_features': 5, 'max_depth': None, 'criterion': 'gini'}, mean: 1.00000, std: 0.00000, params: {'n_estimators': 200, 'bootstrap': True, ' max_features': 'auto', 'max_depth': None, 'criterion': 'entropy'}, mean: 1.00000, std: 0.00000, params: {'n_estimators': 200, 'bootstrap': True, ' max_features': 5, 'max_depth': None, 'criterion': 'entropy'}, mean: 1.00000, std: 0.00000, params: {'n_estimators': 200, 'bootstrap': True, ' max_features': 20, 'max_depth': None, 'criterion': 'entropy'}, mean: 1.00000, std: 0.00000, params: {'n_estimators': 20, 'bootstrap': False, ' max_features': 'auto', 'max_depth': None, 'criterion': 'gini'}, mean: 1.00000, std: 0.00000, params: {'n_estimators': 100, 'bootstrap': False, 'max_features': 'auto', 'max_depth': None, 'criterion': 'gini'}, mean: 1.00000, std: 0.00000, params: {'n_estimators': 20, 'bootstrap': False, ' max_features': 5, 'max_depth': None, 'criterion': 'gini'}, mean: 1.00000, std: 0.00000, params: {'n_estimators': 100, 'bootstrap': False, 'max_features': 5, 'max_depth': None, 'criterion': 'gini'}, mean: 1.00000, std: 0.00000, params: {'n_estimators': 500, 'bootstrap': False, 'max_features': 5, 'max_depth': None, 'criterion': 'gini'}] Needless to say, perfect accuracy is suspicious, and indeed, in this case, completely spurious: In [16]: rftop = ensemble.RandomForestClassifier(**{'n_estimators': 20, 'bootstr ap': False, 'max_features': 'auto', 'max_depth': None, 'criterion': 'gini'}) In [17]: rftop.fit(X[:200000], y[:200000]) In [20]: np.mean(rftop.predict(X[200000:]) == y[200000:]) Out[20]: 0.826125 That's more in line with what's expected for this dataset, and what was found by the search with 72K samples (top model: [mean: 0.82640, std: 0.00341, params: {'n_estimators': 500, 'bootstrap': False, 'max_features': 20, 'max_depth': 20, 'criterion': 'gini'},) Anyway, here's my code, any idea why more samples would cause this overfitting / testing on training data? # [omitted: boilerplate to load full data in X0, y0] import numpy as np idx = np.random.choice(len(y0), size=280000, replace=False) X, y = X0[idx], y0[idx] param_dist = {'n_estimators': [20, 100, 200, 500], 'max_depth': [3, 5, 20, None], 'max_features': ['auto', 5, 10, 20], 'bootstrap': [True, False], 'criterion': ['gini', 'entropy']} from sklearn import grid_search as gs from time import time from sklearn import ensemble rf = ensemble.RandomForestClassifier() random_search = gs.GridSearchCV(rf, param_grid=param_dist, refit=False, verbose=2, n_jobs=12) start=time(); random_search.fit(X, y); stop=time() Thank you! 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