Finish classification presentation.
junos
parent
852e17afbe
commit
2bb95657d8
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@ -30,28 +30,34 @@ from sklearn.model_selection import LeaveOneGroupOut, cross_validate
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from sklearn.dummy import DummyClassifier
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from sklearn.impute import SimpleImputer
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from lightgbm import LGBMClassifier
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import xgboost as xg
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from IPython.core.interactiveshell import InteractiveShell
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InteractiveShell.ast_node_interactivity = "all"
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from pathlib import Path
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nb_dir = os.path.split(os.getcwd())[0]
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if nb_dir not in sys.path:
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sys.path.append(nb_dir)
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import machine_learning.labels
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import machine_learning.model
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from machine_learning.helper import run_all_classification_models
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# %% [markdown]
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# # RAPIDS models
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# %% [markdown]
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# ## Set script's parameters
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#
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# %%
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cv_method_str = 'logo' # logo, halflogo, 5kfold # Cross-validation method (could be regarded as a hyperparameter)
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n_sl = 1 # Number of largest/smallest accuracies (of particular CV) outputs
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# %% jupyter={"source_hidden": true}
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model_input = pd.read_csv("../data/stressfulness_event_nonstandardized/input_appraisal_stressfulness_event_mean.csv")
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filename = Path("E:/STRAWresults/inputData/stressfulness_event/input_appraisal_stressfulness_event_mean.csv")
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model_input = pd.read_csv(filename)
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# %% jupyter={"source_hidden": true}
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index_columns = ["local_segment", "local_segment_label", "local_segment_start_datetime", "local_segment_end_datetime"]
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@ -59,11 +65,11 @@ model_input.set_index(index_columns, inplace=True)
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model_input['target'].value_counts()
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# %% jupyter={"source_hidden": true}
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# bins = [-10, -1, 1, 10] # bins for z-scored targets
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bins = [0, 1, 4] # bins for stressfulness (1-4) target
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model_input['target'], edges = pd.cut(model_input.target, bins=bins, labels=['low', 'high'], retbins=True, right=True) #['low', 'medium', 'high']
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bins = [-10, -1, 1, 10] # bins for z-scored targets
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# bins = [0, 1, 4] # bins for stressfulness (1-4) target
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model_input['target'], edges = pd.cut(model_input.target, bins=bins, labels=['low', 'medium', 'high'], retbins=True, right=True) #['low', 'medium', 'high']
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model_input['target'].value_counts(), edges
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# model_input = model_input[model_input['target'] != "medium"]
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model_input = model_input[model_input['target'] != "medium"]
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model_input['target'] = model_input['target'].astype(str).apply(lambda x: 0 if x == "low" else 1)
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model_input['target'].value_counts()
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@ -98,7 +104,6 @@ if not categorical_features.empty:
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numerical_features = data_x.drop(categorical_feature_colnames, axis=1)
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train_x = pd.concat([numerical_features, categorical_features], axis=1)
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train_x.dtypes
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# %% jupyter={"source_hidden": true}
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cv_method = None # Defaults to 5 k-folds in cross_validate method
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@ -113,273 +118,10 @@ if cv_method_str == 'logo' or cv_method_str == 'half_logo':
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# %% jupyter={"source_hidden": true}
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imputer = SimpleImputer(missing_values=np.nan, strategy='median')
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# %% [markdown]
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# ### Baseline: Dummy Classifier (most frequent)
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dummy_class = DummyClassifier(strategy="most_frequent")
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# %%
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final_scores = run_all_classification_models(imputer.fit_transform(train_x), data_y, data_groups, cv_method)
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# %% jupyter={"source_hidden": true}
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dummy_classifier = cross_validate(
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dummy_class,
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X=imputer.fit_transform(train_x),
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y=data_y,
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groups=data_groups,
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cv=cv_method,
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n_jobs=-1,
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error_score='raise',
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scoring=('accuracy', 'average_precision', 'recall', 'f1')
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)
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# %% jupyter={"source_hidden": true}
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print("Acc", np.mean(dummy_classifier['test_accuracy']))
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print("Precision", np.mean(dummy_classifier['test_average_precision']))
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print("Recall", np.mean(dummy_classifier['test_recall']))
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print("F1", np.mean(dummy_classifier['test_f1']))
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print(f"Largest {n_sl} ACC:", np.sort(-np.partition(-dummy_classifier['test_accuracy'], n_sl)[:n_sl])[::-1])
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print(f"Smallest {n_sl} ACC:", np.sort(np.partition(dummy_classifier['test_accuracy'], n_sl)[:n_sl]))
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# %% [markdown]
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# ### Logistic Regression
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# %% jupyter={"source_hidden": true}
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logistic_regression = linear_model.LogisticRegression()
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# %% jupyter={"source_hidden": true}
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log_reg_scores = cross_validate(
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logistic_regression,
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X=imputer.fit_transform(train_x),
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y=data_y,
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groups=data_groups,
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cv=cv_method,
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n_jobs=-1,
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scoring=('accuracy', 'precision', 'recall', 'f1')
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)
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# %% jupyter={"source_hidden": true}
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print("Acc", np.mean(log_reg_scores['test_accuracy']))
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print("Precision", np.mean(log_reg_scores['test_precision']))
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print("Recall", np.mean(log_reg_scores['test_recall']))
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print("F1", np.mean(log_reg_scores['test_f1']))
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print(f"Largest {n_sl} ACC:", np.sort(-np.partition(-log_reg_scores['test_accuracy'], n_sl)[:n_sl])[::-1])
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print(f"Smallest {n_sl} ACC:", np.sort(np.partition(log_reg_scores['test_accuracy'], n_sl)[:n_sl]))
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# %% [markdown]
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# ### Support Vector Machine
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# %% jupyter={"source_hidden": true}
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svc = svm.SVC()
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# %% jupyter={"source_hidden": true}
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svc_scores = cross_validate(
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svc,
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X=imputer.fit_transform(train_x),
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y=data_y,
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groups=data_groups,
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cv=cv_method,
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n_jobs=-1,
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scoring=('accuracy', 'precision', 'recall', 'f1')
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)
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# %% jupyter={"source_hidden": true}
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print("Acc", np.mean(svc_scores['test_accuracy']))
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print("Precision", np.mean(svc_scores['test_precision']))
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print("Recall", np.mean(svc_scores['test_recall']))
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print("F1", np.mean(svc_scores['test_f1']))
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print(f"Largest {n_sl} ACC:", np.sort(-np.partition(-svc_scores['test_accuracy'], n_sl)[:n_sl])[::-1])
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print(f"Smallest {n_sl} ACC:", np.sort(np.partition(svc_scores['test_accuracy'], n_sl)[:n_sl]))
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# %% [markdown]
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# ### Gaussian Naive Bayes
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# %% jupyter={"source_hidden": true}
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gaussian_nb = naive_bayes.GaussianNB()
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# %% jupyter={"source_hidden": true}
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gaussian_nb_scores = cross_validate(
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gaussian_nb,
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X=imputer.fit_transform(train_x),
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y=data_y,
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groups=data_groups,
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cv=cv_method,
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n_jobs=-1,
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error_score='raise',
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scoring=('accuracy', 'precision', 'recall', 'f1')
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)
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# %% jupyter={"source_hidden": true}
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print("Acc", np.mean(gaussian_nb_scores['test_accuracy']))
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print("Precision", np.mean(gaussian_nb_scores['test_precision']))
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print("Recall", np.mean(gaussian_nb_scores['test_recall']))
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print("F1", np.mean(gaussian_nb_scores['test_f1']))
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print(f"Largest {n_sl} ACC:", np.sort(-np.partition(-gaussian_nb_scores['test_accuracy'], n_sl)[:n_sl])[::-1])
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print(f"Smallest {n_sl} ACC:", np.sort(np.partition(gaussian_nb_scores['test_accuracy'], n_sl)[:n_sl]))
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# %% [markdown]
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# ### Stochastic Gradient Descent Classifier
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# %% jupyter={"source_hidden": true}
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sgdc = linear_model.SGDClassifier()
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# %% jupyter={"source_hidden": true}
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sgdc_scores = cross_validate(
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sgdc,
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X=imputer.fit_transform(train_x),
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y=data_y,
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groups=data_groups,
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cv=cv_method,
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n_jobs=-1,
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error_score='raise',
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scoring=('accuracy', 'precision', 'recall', 'f1')
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)
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# %% jupyter={"source_hidden": true}
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print("Acc", np.mean(sgdc_scores['test_accuracy']))
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print("Precision", np.mean(sgdc_scores['test_precision']))
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print("Recall", np.mean(sgdc_scores['test_recall']))
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print("F1", np.mean(sgdc_scores['test_f1']))
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print(f"Largest {n_sl} ACC:", np.sort(-np.partition(-sgdc_scores['test_accuracy'], n_sl)[:n_sl])[::-1])
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print(f"Smallest {n_sl} ACC:", np.sort(np.partition(sgdc_scores['test_accuracy'], n_sl)[:n_sl]))
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# %% [markdown]
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# ### K-nearest neighbors
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# %% jupyter={"source_hidden": true}
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knn = neighbors.KNeighborsClassifier()
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# %% jupyter={"source_hidden": true}
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knn_scores = cross_validate(
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knn,
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X=imputer.fit_transform(train_x),
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y=data_y,
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groups=data_groups,
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cv=cv_method,
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n_jobs=-1,
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error_score='raise',
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scoring=('accuracy', 'precision', 'recall', 'f1')
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)
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# %% jupyter={"source_hidden": true}
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print("Acc", np.mean(knn_scores['test_accuracy']))
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print("Precision", np.mean(knn_scores['test_precision']))
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print("Recall", np.mean(knn_scores['test_recall']))
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print("F1", np.mean(knn_scores['test_f1']))
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print(f"Largest {n_sl} ACC:", np.sort(-np.partition(-knn_scores['test_accuracy'], n_sl)[:n_sl])[::-1])
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print(f"Smallest {n_sl} ACC:", np.sort(np.partition(knn_scores['test_accuracy'], n_sl)[:n_sl]))
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# %% [markdown]
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# ### Decision Tree
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# %% jupyter={"source_hidden": true}
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dtree = tree.DecisionTreeClassifier()
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# %% jupyter={"source_hidden": true}
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dtree_scores = cross_validate(
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dtree,
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X=imputer.fit_transform(train_x),
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y=data_y,
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groups=data_groups,
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cv=cv_method,
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n_jobs=-1,
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error_score='raise',
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scoring=('accuracy', 'precision', 'recall', 'f1')
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)
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# %% jupyter={"source_hidden": true}
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print("Acc", np.mean(dtree_scores['test_accuracy']))
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print("Precision", np.mean(dtree_scores['test_precision']))
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print("Recall", np.mean(dtree_scores['test_recall']))
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print("F1", np.mean(dtree_scores['test_f1']))
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print(f"Largest {n_sl} ACC:", np.sort(-np.partition(-dtree_scores['test_accuracy'], n_sl)[:n_sl])[::-1])
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print(f"Smallest {n_sl} ACC:", np.sort(np.partition(dtree_scores['test_accuracy'], n_sl)[:n_sl]))
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# %% [markdown]
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# ### Random Forest Classifier
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# %% jupyter={"source_hidden": true}
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rfc = ensemble.RandomForestClassifier()
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# %% jupyter={"source_hidden": true}
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rfc_scores = cross_validate(
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rfc,
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X=imputer.fit_transform(train_x),
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y=data_y,
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groups=data_groups,
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cv=cv_method,
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n_jobs=-1,
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error_score='raise',
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scoring=('accuracy', 'precision', 'recall', 'f1')
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)
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# %% jupyter={"source_hidden": true}
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print("Acc", np.mean(rfc_scores['test_accuracy']))
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print("Precision", np.mean(rfc_scores['test_precision']))
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print("Recall", np.mean(rfc_scores['test_recall']))
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print("F1", np.mean(rfc_scores['test_f1']))
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print(f"Largest {n_sl} ACC:", np.sort(-np.partition(-rfc_scores['test_accuracy'], n_sl)[:n_sl])[::-1])
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print(f"Smallest {n_sl} ACC:", np.sort(np.partition(rfc_scores['test_accuracy'], n_sl)[:n_sl]))
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# %% [markdown]
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# ### Gradient Boosting Classifier
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# %% jupyter={"source_hidden": true}
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gbc = ensemble.GradientBoostingClassifier()
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# %% jupyter={"source_hidden": true}
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gbc_scores = cross_validate(
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gbc,
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X=imputer.fit_transform(train_x),
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y=data_y,
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groups=data_groups,
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cv=cv_method,
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n_jobs=-1,
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error_score='raise',
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scoring=('accuracy', 'precision', 'recall', 'f1')
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)
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# %% jupyter={"source_hidden": true}
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print("Acc", np.mean(gbc_scores['test_accuracy']))
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print("Precision", np.mean(gbc_scores['test_precision']))
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print("Recall", np.mean(gbc_scores['test_recall']))
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print("F1", np.mean(gbc_scores['test_f1']))
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print(f"Largest {n_sl} ACC:", np.sort(-np.partition(-gbc_scores['test_accuracy'], n_sl)[:n_sl])[::-1])
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print(f"Smallest {n_sl} ACC:", np.sort(np.partition(gbc_scores['test_accuracy'], n_sl)[:n_sl]))
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# %% [markdown]
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# ### LGBM Classifier
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# %% jupyter={"source_hidden": true}
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lgbm = LGBMClassifier()
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# %% jupyter={"source_hidden": true}
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lgbm_scores = cross_validate(
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lgbm,
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X=imputer.fit_transform(train_x),
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y=data_y,
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groups=data_groups,
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cv=cv_method,
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n_jobs=-1,
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error_score='raise',
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scoring=('accuracy', 'precision', 'recall', 'f1')
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)
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# %% jupyter={"source_hidden": true}
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print("Acc", np.mean(lgbm_scores['test_accuracy']))
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print("Precision", np.mean(lgbm_scores['test_precision']))
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print("Recall", np.mean(lgbm_scores['test_recall']))
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print("F1", np.mean(lgbm_scores['test_f1']))
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print(f"Largest {n_sl} ACC:", np.sort(-np.partition(-lgbm_scores['test_accuracy'], n_sl)[:n_sl])[::-1])
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print(f"Smallest {n_sl} ACC:", np.sort(np.partition(lgbm_scores['test_accuracy'], n_sl)[:n_sl]))
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# %% [markdown]
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# ### XGBoost Classifier
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# %% jupyter={"source_hidden": true}
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xgb_classifier = xg.sklearn.XGBClassifier()
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# %% jupyter={"source_hidden": true}
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xgb_classifier_scores = cross_validate(
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xgb_classifier,
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X=imputer.fit_transform(train_x),
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y=data_y,
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groups=data_groups,
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cv=cv_method,
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n_jobs=-1,
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error_score='raise',
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scoring=('accuracy', 'precision', 'recall', 'f1')
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)
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# %% jupyter={"source_hidden": true}
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print("Acc", np.mean(xgb_classifier_scores['test_accuracy']))
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print("Precision", np.mean(xgb_classifier_scores['test_precision']))
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print("Recall", np.mean(xgb_classifier_scores['test_recall']))
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print("F1", np.mean(xgb_classifier_scores['test_f1']))
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print(f"Largest {n_sl} ACC:", np.sort(-np.partition(-xgb_classifier_scores['test_accuracy'], n_sl)[:n_sl])[::-1])
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print(f"Smallest {n_sl} ACC:", np.sort(np.partition(xgb_classifier_scores['test_accuracy'], n_sl)[:n_sl]))
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# %%
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final_scores.index.name = "metric"
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final_scores = final_scores.set_index(["method", final_scores.index])
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final_scores.to_csv("event_stressfulness_lmh_lh_scores.csv")
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