3layer_selection.py

import numpy as np
import tensorflow as tf
import random as rn
import numpy as np

import os
# os.environ["CUDA_DEVICE_ORDER"] = "PCI_BUS_ID"   # see issue #152
# os.environ["CUDA_VISIBLE_DEVICES"] = ""
os.environ['PYTHONHASHSEED'] = '0'
np.random.seed(42)
rn.seed(12345)
session_conf = tf.ConfigProto(intra_op_parallelism_threads=1, inter_op_parallelism_threads=1)

from keras import backend as K

tf.set_random_seed(1234)

sess = tf.Session(graph=tf.get_default_graph(), config=session_conf)
K.set_session(sess)
from sklearn.preprocessing import MinMaxScaler
from sklearn.metrics import mean_squared_error
from sklearn.metrics import mean_absolute_error
from sklearn.preprocessing import LabelEncoder
from hyperopt import fmin, tpe, hp, STATUS_OK, Trials
from keras.layers import Input, Dense,LSTM,RepeatVector,GRU,Dropout,Reshape
from keras.layers import*
from keras.models import Model
from keras.models import Sequential
from deap import base, creator, tools, algorithms
from pandas import DataFrame
from pandas import Series
from pandas import concat
from pandas import read_csv
from pandas import datetime
import matplotlib.pyplot as plt
from math import sqrt
import random
import warnings
warnings.simplefilter("ignore", DeprecationWarning)


def parser(x):
	return datetime.strptime(x, '%Y-%m-%d %H:%M:%S')

# create a differenced series
def difference(dataset, interval=1):
	diff = list()
	for i in range(interval, len(dataset)):
		value = dataset[i] - dataset[i - interval]
		diff.append(value)
	return Series(diff)

# invert differenced value
def inverse_difference(history, yhat, interval=1):
	return yhat + history[:,0][-interval]

# scale train and test data to [-1, 1]
def scale(train, test):
	# fit scaler
	scaler = MinMaxScaler(feature_range=(-1, 1))
	scaler = scaler.fit(train)
	# transform train
	train = train.reshape(train.shape[0], train.shape[1])
	train_scaled = scaler.transform(train)
	# transform test
	test = test.reshape(test.shape[0], test.shape[1])
	test_scaled = scaler.transform(test)
	return scaler, train_scaled, test_scaled

# inverse scaling for a forecasted value
def invert_scale(scaler, X, value):
	new_row = []
	for x in X:
   		 new_row = new_row+[i for i in x]
            
	new_row.append(value) 
	new_row_2 = np.array(new_row)
	new_row_2 = new_row_2.reshape((1,new_row_2.shape[0]))
	inverted = scaler.inverse_transform(new_row_2)
	return inverted[0, -1]


def create_dataset(dataset,features, look_back=1):
	dataset = np.insert(dataset,[0]*look_back,0)    
	dataX, dataY = [], []
	for i in range(len(dataset)-look_back):
		a = dataset[i:(i+look_back)]
		dataX.append(a)
		dataY.append(dataset[i + look_back])
	dataY= np.array(dataY)        
	dataY = np.reshape(dataY,(dataY.shape[0],features))
	dataset = np.concatenate((dataX,dataY),axis=1)  
	return dataset



# convert series to supervised learning
def series_to_supervised(data,features, n_in=1, n_out=1, dropnan=True):
	n_vars = 1 if type(data) is list else data.shape[1]
	x = np.zeros(features)
	for i in range(n_in):
		data = np.insert(data,x,0)
	data = data.reshape(int(data.shape[0]/features),features) 
	df = DataFrame(data)
	cols, names = list(), list()
	# input sequence (t-n, ... t-1)
	for i in range(n_in, 0, -1):
		cols.append(df.shift(i))
		names += [('var%d(t-%d)' % (j+1, i)) for j in range(n_vars)]
	# forecast sequence (t, t+1, ... t+n)
	for i in range(0, n_out):
		cols.append(df.shift(-i))
		if i == 0:
			names += [('var%d(t)' % (j+1)) for j in range(n_vars)]
		else:
			names += [('var%d(t+%d)' % (j+1, i)) for j in range(n_vars)]
	# put it all together
	agg = concat(cols, axis=1)
	agg.columns = names
	# drop rows with NaN values
	if dropnan:
		agg.dropna(inplace=True)
	return agg


# make a one-step forecast
def forecast_lstm(model, batch_size, X):
	X = X.reshape(batch_size, X.shape[0], X.shape[1])
	yhat = model.predict(X, batch_size=batch_size)
	return yhat[0,0]


def read_data(): 

	
	window_size = 0
	features = 8


	series = read_csv('pollution.csv', header=0, index_col=0)	
	raw_values = series.values

	# integer encode wind direction
	encoder = LabelEncoder()
	raw_values[:,4] = encoder.fit_transform(raw_values[:,4])

	# transform data to be stationary
	diff = difference(raw_values, 1)


	dataset = diff.values
	dataset = create_dataset(dataset,features,window_size)

	return dataset,raw_values

data,raw_values = read_data()


space = {'seq_len':hp.choice('seq_len',[5,10,15,20,25,30]),
         'epochs_pre1':hp.choice('epochs_pre1',[i for i in range(50,1000)]),
         'epochs_pre2':hp.choice('epochs_pre2',[i for i in range(50,1000)]),
         'epochs_pre3':hp.choice('epochs_pre3',[i for i in range(50,1000)]),
         'epochs_finetune':hp.choice('epochs_finetune',[i for i in range(50,500)]),
         'units1':hp.choice('units1',[i for i in range(1,50)]),
         'units2':hp.choice('units2',[i for i in range(1,50)]),
         'units3':hp.choice('units3',[i for i in range(1,50)]),
         'dropout':hp.choice('dropout',[0.1,0.2,0.3,0.4,0.5,0.6,0.7,0.8,0.9]),
         'batch_size':hp.choice('batch_size',[73, 146, 219])}


def build_model(params):

	features = 8

	print ('Params testing: ', params)

	# frame as supervised learning
	reframed = series_to_supervised(data,features, params['seq_len'], 1)
	drop = [i for  i in  range(params['seq_len']*features+1,((params['seq_len']+1)*features))]
	reframed.drop(reframed.columns[drop], axis=1, inplace=True)
	reframed = reframed.values


	# split into train and test sets
	train_size = 365*24*4
	train, test = reframed[0:train_size], reframed[train_size:]


	# transform the scale of the data
	scaler, train_scaled, test_scaled = scale(train, test)

	# divide train into train and valid
	train2_size = int(365*24*3.5)
	train_scaled2, valid = train_scaled[0:train2_size], train_scaled[train2_size:]


	# split into input and outputs
	x_train,y_train = train_scaled2[:,0:-1],train_scaled2[:,-1]
	x_valid,y_valid = valid[:,0:-1],valid[:,-1]
	x_test,y_test = test_scaled[:,0:-1],test_scaled[:,-1]

	# reshape input to be 3D [samples, timesteps, features]
	x_train = x_train.reshape(x_train.shape[0],params['seq_len'],features)
	x_valid = x_valid.reshape(x_valid.shape[0],params['seq_len'],features)
	x_test = x_test.reshape(x_test.shape[0],params['seq_len'],features)
	print(x_train.shape, y_train.shape,x_valid.shape,y_valid.shape, x_test.shape, y_test.shape)


	print('\nstart pretraining')
	print('===============')

	timesteps = x_train.shape[1]
	input_dim = x_train.shape[2]
	hidden_layers = [params['units1'],params['units2'],params['units3']]
	epochs_pre = [params['epochs_pre1'],params['epochs_pre2'],params['epochs_pre3']]
	trained_encoder = []
	x_train_temp = x_train
	i= 1
	for hidden,epochs in zip(hidden_layers,epochs_pre):

		print('pretrain Autoencoder: {} ----> Encoder: {} ----> Epochs: {}'.format(i,hidden,epochs))
		print(x_train_temp.shape)
		print('=============================================================')

		inputs = Input(batch_shape=(params['batch_size'],timesteps, x_train_temp.shape[2]))
		encoded = CuDNNLSTM(hidden,batch_input_shape=( params['batch_size'],timesteps, x_train_temp.shape[2]),stateful = False)(inputs)
		decoded = RepeatVector(timesteps)(encoded) 
		decoded = CuDNNLSTM(input_dim,stateful = False,return_sequences = True)(decoded)

		AE = Model(inputs, decoded)

		encoder = Model(inputs,encoded)

		AE.compile(loss='mean_squared_error', optimizer='Adam')

		encoder.compile(loss='mean_squared_error', optimizer='Adam')

		AE.fit(x_train_temp, x_train,
		                         epochs = epochs,
		                         batch_size = params['batch_size'],
		                         shuffle = True,
		                         verbose = 0
		                         )


		# store trained encoder and its weights
		trained_encoder.append((AE.layers[1],AE.layers[1].get_weights()))

		# update training data
		x_train_temp = encoder.predict(x_train_temp,batch_size=params['batch_size'])

		# reshape encoded input to 3D
		inputs = Input(shape = (x_train_temp.shape[1],)) 
		reshape = RepeatVector(timesteps)(inputs)
		Repeat = Model(inputs,reshape)

		x_train_temp = Repeat.predict(x_train_temp,batch_size=params['batch_size'])
		i = i+1

	# Fine-turning
	print('\nFine-turning')
	print('============')

	l = len(trained_encoder)
	#build finetuning model
	model = Sequential()
	for i,encod in enumerate(trained_encoder):
		model.add(encod[0])
		model.layers[-1].set_weights(encod[1])
		model.add(Dropout(params['dropout']))
		if(i+1 != l): model.add(RepeatVector(timesteps))

	model.add(Dense(1))

	model.compile(loss='mean_squared_error', optimizer='Adam')

	model.fit(x_train, y_train, epochs=params['epochs_finetune'], batch_size = params['batch_size'], verbose = 0,shuffle=True)

	# redefine the model in order to test with one sample at a time (batch_size = 1)
	new_model = Sequential()
	new_model.add(CuDNNLSTM(params['units1'],batch_input_shape=( 1,timesteps, input_dim),stateful = False))
	for layer in model.layers[1:]:
		new_model.add(layer)

	# copy weights
	old_weights = model.get_weights()
	new_model.set_weights(old_weights)

	# forecast the valid data
	print('Forecasting valid Data')
	predictions_valid = list()
	for i in range(len(valid)):
		# make one-step forecast
		X = x_valid[i]
		y= y_valid[i]

		yhat = forecast_lstm(new_model, 1, X)
		# invert scaling
		yhat = invert_scale(scaler, X, yhat)
		# invert differencing
		yhat = inverse_difference(raw_values, yhat, len(test_scaled)+len(valid)+1-i)
		# store forecast
		predictions_valid.append(yhat)
		expected = raw_values[:,0][len(train_scaled2) + i + 1]
		#print('Month=%d, Predicted=%f, Expected=%f' % (i+1, yhat, expected))

	# report performance using RMSE
	rmse_valid = sqrt(mean_squared_error(raw_values[:,0][len(train_scaled2)+1:len(valid)+len(train_scaled2)+1], predictions_valid))
	print('valid RMSE: %.5f' % rmse_valid)
	print('==============================')
	
	return {'loss': rmse_valid, 'status': STATUS_OK}


trials = Trials()
best = fmin(build_model, space, algo=tpe.suggest, max_evals=50, trials=trials)
print ('best: ')
print (best)