Temp: remove stratified logo from ml pipeline.

exploration/ml_pipeline_classification.py

@@ -46,9 +46,9 @@ import machine_learning.helper
 #
 
 # %% jupyter={"source_hidden": false, "outputs_hidden": false} nteract={"transient": {"deleting": false}}
-cv_method_str = '5kfold' # logo, half_logo, 5kfold # Cross-validation method (could be regarded as a hyperparameter)
+cv_method_str = 'logo' # logo, half_logo, 5kfold # Cross-validation method (could be regarded as a hyperparameter)
 n_sl = 3 # Number of largest/smallest accuracies (of particular CV) outputs
-undersampling = True # (bool) If True this will train and test data on balanced dataset (using undersampling method)
+undersampling = False # (bool) If True this will train and test data on balanced dataset (using undersampling method)
 
 # %% jupyter={"source_hidden": false, "outputs_hidden": false}
 model_input = pd.read_csv("../data/stressfulness_event_with_target_0_ver2/input_appraisal_stressfulness_event_mean.csv")
@@ -72,20 +72,27 @@ model_input['target'].value_counts()
 # %% jupyter={"source_hidden": false, "outputs_hidden": false}
 # UnderSampling
 if undersampling:
-  model_input_new = pd.DataFrame(columns=model_input.columns)
+    no_stress = model_input[model_input['target'] == 0]
-  for pid in model_input["pid"].unique():
+    stress = model_input[model_input['target'] == 1]
-    stress = model_input[(model_input["pid"] == pid) & (model_input['target'] == 1)]
-    no_stress = model_input[(model_input["pid"] == pid) & (model_input['target'] == 0)]
-    if (len(stress) == 0):
-      continue
-    if (len(no_stress) == 0):
-      continue
-    model_input_new = pd.concat([model_input_new, stress], axis=0)
     
-    no_stress = no_stress.sample(n=min(len(stress), len(no_stress)))
+    no_stress = no_stress.sample(n=len(stress))
-    # In case there are more stress samples than no_stress, take all instances of no_stress.
+    model_input = pd.concat([stress,no_stress], axis=0)
-    model_input_new = pd.concat([model_input_new, no_stress], axis=0)
+
-  model_input = model_input_new
+#   model_input_new = pd.DataFrame(columns=model_input.columns)
+#   for pid in model_input["pid"].unique():
+#     stress = model_input[(model_input["pid"] == pid) & (model_input['target'] == 1)]
+#     no_stress = model_input[(model_input["pid"] == pid) & (model_input['target'] == 0)]
+#     if (len(stress) == 0):
+#       continue
+#     if (len(no_stress) == 0):
+#       continue
+#     model_input_new = pd.concat([model_input_new, stress], axis=0)
+    
+#     no_stress = no_stress.sample(n=min(len(stress), len(no_stress)))
+#     # In case there are more stress samples than no_stress, take all instances of no_stress.
+#     model_input_new = pd.concat([model_input_new, no_stress], axis=0)
+#     model_input = model_input_new   
+#     model_input_new = pd.concat([model_input_new, no_stress], axis=0)
 
 
 # %% jupyter={"source_hidden": false, "outputs_hidden": false}
@@ -170,7 +177,7 @@ final_scores = machine_learning.helper.run_all_classification_models(imputer.fit
 # %%
 final_scores.index.name = "metric"
 final_scores = final_scores.set_index(["method", final_scores.index])
-final_scores.to_csv("../presentation/event_stressful_detection_5fold.csv")
+final_scores.to_csv(f"../presentation/event_stressful_detection_{cv_method_str}.csv")
 
 # %% [markdown]
 # ### Logistic Regression

presentation/event_stressful_detection_5fold.csv

@@ -0,0 +1,29 @@
+method,metric,max,mean
+Dummy,test_accuracy,0.8557046979865772,0.8548446932649828
+Dummy,test_average_precision,0.1457286432160804,0.14515530673501736
+Dummy,test_recall,0.0,0.0
+Dummy,test_f1,0.0,0.0
+logistic_reg,test_accuracy,0.8640939597315436,0.8504895843872606
+logistic_reg,test_average_precision,0.44363425265068757,0.37511495347389834
+logistic_reg,test_recall,0.3023255813953488,0.24266238973536486
+logistic_reg,test_f1,0.3909774436090226,0.318943511424051
+svc,test_accuracy,0.8557046979865772,0.8548446932649828
+svc,test_average_precision,0.44514416839823046,0.4068200938341621
+svc,test_recall,0.0,0.0
+svc,test_f1,0.0,0.0
+gaussian_naive_bayes,test_accuracy,0.7684563758389261,0.7479123806954234
+gaussian_naive_bayes,test_average_precision,0.2534828030085334,0.23379392278901853
+gaussian_naive_bayes,test_recall,0.42528735632183906,0.3924619085805935
+gaussian_naive_bayes,test_f1,0.34285714285714286,0.3107236284017699
+stochastic_gradient_descent,test_accuracy,0.8576214405360134,0.7773610783222601
+stochastic_gradient_descent,test_average_precision,0.3813093757959869,0.3617503752215592
+stochastic_gradient_descent,test_recall,0.686046511627907,0.2822507350975675
+stochastic_gradient_descent,test_f1,0.3652173913043478,0.21849107443075583
+random_forest,test_accuracy,0.9110738255033557,0.9011129472867694
+random_forest,test_average_precision,0.6998372262021191,0.6619275281099584
+random_forest,test_recall,0.4069767441860465,0.35356856455493185
+random_forest,test_f1,0.5691056910569107,0.5078402513053142
+xgboost,test_accuracy,0.9128978224455612,0.9007711937764886
+xgboost,test_average_precision,0.7366643049075349,0.698622165966308
+xgboost,test_recall,0.5287356321839081,0.44346431435445066
+xgboost,test_f1,0.638888888888889,0.5633957169928393

presentation/event_stressful_detection_logo.csv

@@ -0,0 +1,29 @@
+method,metric,max,mean
+Dummy,test_accuracy,1.0,0.8524114578096439
+Dummy,test_average_precision,0.7,0.14758854219035614
+Dummy,test_recall,0.0,0.0
+Dummy,test_f1,0.0,0.0
+logistic_reg,test_accuracy,0.9824561403508771,0.8445351955631311
+logistic_reg,test_average_precision,1.0,0.44605167668563583
+logistic_reg,test_recall,1.0,0.25353566685532386
+logistic_reg,test_f1,0.823529411764706,0.27951926390778625
+svc,test_accuracy,1.0,0.8524114578096439
+svc,test_average_precision,0.9612401707068228,0.44179454944271934
+svc,test_recall,0.0,0.0
+svc,test_f1,0.0,0.0
+gaussian_naive_bayes,test_accuracy,0.9,0.7491301746887129
+gaussian_naive_bayes,test_average_precision,0.9189430193277607,0.2833170327386991
+gaussian_naive_bayes,test_recall,1.0,0.3743761174081108
+gaussian_naive_bayes,test_f1,0.7000000000000001,0.2698456659235668
+stochastic_gradient_descent,test_accuracy,1.0,0.7926428596764739
+stochastic_gradient_descent,test_average_precision,1.0,0.4421948838597582
+stochastic_gradient_descent,test_recall,1.0,0.30156420704502945
+stochastic_gradient_descent,test_f1,0.8148148148148148,0.24088393234361388
+random_forest,test_accuracy,1.0,0.8722158105763481
+random_forest,test_average_precision,1.0,0.49817066323226833
+random_forest,test_recall,1.0,0.18161263127840668
+random_forest,test_f1,1.0,0.2508096532365307
+xgboost,test_accuracy,1.0,0.8812627400277729
+xgboost,test_average_precision,1.0,0.5505695112208401
+xgboost,test_recall,1.0,0.2896161238315027
+xgboost,test_f1,0.9411764705882353,0.36887408735855665