import pandas as pd
import numpy as np
from keras import optimizers, losses, activations, models
from keras.callbacks import ModelCheckpoint, EarlyStopping, LearningRateScheduler, ReduceLROnPlateau
from keras.layers import Dense, Input, Dropout, Convolution1D, MaxPool1D, GlobalMaxPool1D, GlobalAveragePooling1D, \
concatenate
from sklearn.metrics import f1_score, accuracy_score
df_train = pd.read_csv("../input/mitbih_train.csv", header=None)
df_train = df_train.sample(frac=1)
df_test = pd.read_csv("../input/mitbih_test.csv", header=None)
Y = np.array(df_train[187].values).astype(np.int8)
X = np.array(df_train[list(range(187))].values)[..., np.newaxis]
Y_test = np.array(df_test[187].values).astype(np.int8)
X_test = np.array(df_test[list(range(187))].values)[..., np.newaxis]
def get_model():
nclass = 5
inp = Input(shape=(187, 1))
img_1 = Convolution1D(16, kernel_size=5, activation=activations.relu, padding="valid")(inp)
img_1 = Convolution1D(16, kernel_size=5, activation=activations.relu, padding="valid")(img_1)
img_1 = MaxPool1D(pool_size=2)(img_1)
img_1 = Dropout(rate=0.1)(img_1)
img_1 = Convolution1D(32, kernel_size=3, activation=activations.relu, padding="valid")(img_1)
img_1 = Convolution1D(32, kernel_size=3, activation=activations.relu, padding="valid")(img_1)
img_1 = MaxPool1D(pool_size=2)(img_1)
img_1 = Dropout(rate=0.1)(img_1)
img_1 = Convolution1D(32, kernel_size=3, activation=activations.relu, padding="valid")(img_1)
img_1 = Convolution1D(32, kernel_size=3, activation=activations.relu, padding="valid")(img_1)
img_1 = MaxPool1D(pool_size=2)(img_1)
img_1 = Dropout(rate=0.1)(img_1)
img_1 = Convolution1D(256, kernel_size=3, activation=activations.relu, padding="valid")(img_1)
img_1 = Convolution1D(256, kernel_size=3, activation=activations.relu, padding="valid")(img_1)
img_1 = GlobalMaxPool1D()(img_1)
img_1 = Dropout(rate=0.2)(img_1)
dense_1 = Dense(64, activation=activations.relu, name="dense_1")(img_1)
dense_1 = Dense(64, activation=activations.relu, name="dense_2")(dense_1)
dense_1 = Dense(nclass, activation=activations.softmax, name="dense_3_mitbih")(dense_1)
model = models.Model(inputs=inp, outputs=dense_1)
opt = optimizers.Adam(0.001)
model.compile(optimizer=opt, loss=losses.sparse_categorical_crossentropy, metrics=['acc'])
model.summary()
return model
model = get_model()
file_path = "baseline_cnn_mitbih.h5"
checkpoint = ModelCheckpoint(file_path, monitor='val_acc', verbose=1, save_best_only=True, mode='max')
early = EarlyStopping(monitor="val_acc", mode="max", patience=5, verbose=1)
redonplat = ReduceLROnPlateau(monitor="val_acc", mode="max", patience=3, verbose=2)
callbacks_list = [checkpoint, early, redonplat] # early
model.fit(X, Y, epochs=1000, verbose=2, callbacks=callbacks_list, validation_split=0.1)
model.load_weights(file_path)
pred_test = model.predict(X_test)
pred_test = np.argmax(pred_test, axis=-1)
f1 = f1_score(Y_test, pred_test, average="macro")
print("Test f1 score : %s "% f1)
acc = accuracy_score(Y_test, pred_test)
print("Test accuracy score : %s "% acc)