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experiments_DNGO.py
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experiments_DNGO.py
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"""
Copyright (C) 2022 Cognizant Digital Business, Evolutionary AI. All Rights Reserved.
Issued under the Academic Public License.
You can be released from the terms, and requirements of the Academic public license by purchasing a commercial license.
"""
from __future__ import absolute_import, division, print_function
import matplotlib.pyplot as plt
import torch
from pybnn import DNGO
import pickle
import os
import time
from util_DNGO import load_UCI121, dataset_read
import numpy as np
from sklearn.metrics import mean_absolute_error
from scipy.special import softmax
import scipy
import trustscore
os.environ['KMP_DUPLICATE_LIB_OK']='True'
#main file to run tests for all the RIO variants on all the datasets
model_name = "SVGP"
#number of Epochs for NN training
EPOCHS = 1000
#number of inducing points for SVGP
M = 50
dataset_name_list = ["balance-scale", "blood", "abalone", "annealing", "car", "contrac", "mammographic", "miniboone",
"wine", "lenses","breast-cancer-wisc-prog","haberman-survival","post-operative","spectf","plant-texture",
"pima","synthetic-control","iris","breast-tissue","conn-bench-vowel-deterding","ozone","oocytes_trisopterus_states_5b",
"twonorm","audiology-std","heart-switzerland","musk-2","spambase","lung-cancer","molec-biol-promoter","congressional-voting",
"conn-bench-sonar-mines-rocks","breast-cancer-wisc-diag","thyroid","spect","optical","arrhythmia","oocytes_merluccius_nucleus_4d",
"credit-approval", "cylinder-bands", "energy-y1", "energy-y2", "hill-valley", "image-segmentation", "led-display", "magic",
"cardiotocography-3clases", "chess-krvk", "chess-krvkp", "connect-4",
"Phishing","messidor","Bioconcentration","Climate","yeast",
"adult", "bank", "cardiotocography-10clases",
"nursery","oocytes_trisopterus_nucleus_2f","low-res-spect","ilpd-indian-liver","statlog-image","flags","semeion",
"wall-following","soybean","zoo","hayes-roth","plant-margin","hepatitis","wine-quality-red","parkinsons","wine-quality-white","mushroom",
"monks-3","breast-cancer","pittsburg-bridges-REL-L","statlog-heart","statlog-landsat","fertility","monks-1","statlog-vehicle",
"vertebral-column-3clases","ionosphere","pittsburg-bridges-TYPE","acute-nephritis","libras","horse-colic","oocytes_merluccius_states_2f","breast-cancer-wisc",
"pittsburg-bridges-MATERIAL","statlog-shuttle","waveform","steel-plates","statlog-german-credit","trains","statlog-australian-credit",
"acute-inflammation","page-blocks","molec-biol-splice","seeds","titanic","ringnorm","musk-1","glass","pittsburg-bridges-T-OR-D",
"planning","dermatology","monks-2","ecoli","primary-tumor","waveform-noise","teaching","lymphography","balloons","heart-cleveland",
"pendigits","plant-shape","letter","tic-tac-toe","echocardiogram","vertebral-column-2clases","heart-va","heart-hungarian","pittsburg-bridges-SPAN"]
# For newly added datasets only
new_dataset_name_list = ["Phishing","messidor","Bioconcentration","Climate"]
new_label_name_list = ["Result", "Class", "Class", "outcome"]
new_minibatch_size_list = [1082,921,623,432]
new_num_class_list = [3,2,3,2]
new_dataset_index_dict = {}
for i in range(len(new_dataset_name_list)):
new_dataset_index_dict[new_dataset_name_list[i]] = i
def build_regression_model(layer_width, input_dim):
model = keras.Sequential([
layers.Dense(layer_width, activation=tf.nn.relu, input_shape=[input_dim]),
layers.Dense(layer_width, activation=tf.nn.relu),
layers.Dense(1)
])
optimizer = tf.keras.optimizers.RMSprop(0.001)
model.compile(loss='mean_squared_error',
optimizer=optimizer,
metrics=['mean_absolute_error', 'mean_squared_error'])
return model
def build_classification_model(layer_width, num_class, input_dim):
model = keras.Sequential([
layers.Dense(layer_width, activation=tf.nn.relu, input_shape=[input_dim]),
layers.Dense(layer_width, activation=tf.nn.relu),
layers.Dense(num_class)
])
optimizer = tf.keras.optimizers.RMSprop(0.001)
model.compile(loss=tf.keras.losses.SparseCategoricalCrossentropy(from_logits=True),
optimizer="adam",#optimizer,
metrics=['accuracy'])
return model
def one_hot_encoding(origin_labels, num_class):
one_hot_labels = np.zeros((len(origin_labels),num_class))
one_hot_labels[np.arange(len(origin_labels)),origin_labels] = 1
return one_hot_labels
def acc_calculate(predictions, labels):
prediction_class = np.argmax(predictions, axis=1)
num_correct = np.sum(prediction_class==labels)
acc = num_correct/len(labels)
return acc
def run_RIO_classification(framework_variant, kernel_type, M, rio_data, rio_setups, algo_spec):
mean_list = []
var_list = []
correction_list = []
NN_MAE_list = []
RIO_MAE_list = []
PCT_within95Interval_list = []
PCT_within90Interval_list = []
PCT_within68Interval_list = []
computation_time_list = []
hyperparameter_list = []
num_optimizer_iter_list = []
if algo_spec == "moderator_direct_target":
train_labels_class = rio_data["one_hot_train_labels"][:,0].copy()
test_labels_class = rio_data["one_hot_test_labels"][:,0].copy()
train_NN_predictions_class = rio_data["one_hot_train_labels"][:,0].copy()
test_NN_predictions_class = rio_data["one_hot_test_labels"][:,0].copy()
for i in range(len(train_labels_class)):
train_labels_class[i] = np.max(rio_data["train_NN_predictions_softmax"][i])
train_NN_predictions_class[i] = np.max(rio_data["train_NN_predictions_softmax"][i])
if rio_data["train_check"][i]:
train_labels_class[i] = 1.0
else:
train_labels_class[i] = 0.0
for i in range(len(test_labels_class)):
test_labels_class[i] = np.max(rio_data["test_NN_predictions_softmax"][i])
test_NN_predictions_class[i] = np.max(rio_data["test_NN_predictions_softmax"][i])
if rio_data["test_check"][i]:
test_labels_class[i] = 1.0
else:
test_labels_class[i] = 0.0
train_NN_predictions_all = rio_data["train_NN_predictions_softmax"]
test_NN_predictions_all = rio_data["test_NN_predictions_softmax"]
NN_MAE = mean_absolute_error(test_labels_class, test_NN_predictions_class)
if framework_variant == "GP_corrected" or framework_variant == "GP":
with tf.Graph().as_default() as tf_graph, tf.Session(graph=tf_graph).as_default():
MAE, PCT_within95Interval, PCT_within90Interval, PCT_within68Interval, mean, var, computation_time, hyperparameter, num_optimizer_iter, mean_train, var_train = RIO_MRBF_multiple_running(framework_variant, \
kernel_type, \
rio_data["normed_train_data"], \
rio_data["normed_test_data"], \
train_labels_class, \
test_labels_class, \
train_NN_predictions_class, \
test_NN_predictions_class, \
train_NN_predictions_all, \
test_NN_predictions_all, \
M, \
rio_setups["use_ard"], \
rio_setups["scale_array"], \
rio_setups["separate_opt"])
else:
with tf.Graph().as_default() as tf_graph, tf.Session(graph=tf_graph).as_default():
MAE, PCT_within95Interval, PCT_within90Interval, PCT_within68Interval, mean, var, computation_time, hyperparameter, num_optimizer_iter, mean_train, var_train = RIO_variants_running(framework_variant, \
kernel_type, \
rio_data["normed_train_data"], \
rio_data["normed_test_data"], \
train_labels_class, \
test_labels_class, \
train_NN_predictions_class, \
test_NN_predictions_class, \
M, \
rio_setups["use_ard"], \
rio_setups["scale_array"])
if framework_variant == "GP_corrected" or framework_variant == "GP_corrected_inputOnly" or framework_variant == "GP_corrected_outputOnly" or algo_spec == "moderator_residual_target":
correction_list.append(mean)
mean_list.append(mean+test_NN_predictions_class)
correction = mean.copy()
mean = mean+test_NN_predictions_class
else:
mean_list.append(mean)
correction_list.append(mean)
correction = mean.copy()
var_list.append(var)
NN_MAE_list.append(NN_MAE)
RIO_MAE_list.append(MAE)
PCT_within95Interval_list.append(PCT_within95Interval)
PCT_within90Interval_list.append(PCT_within90Interval)
PCT_within68Interval_list.append(PCT_within68Interval)
computation_time_list.append(computation_time)
hyperparameter_list.append(hyperparameter)
num_optimizer_iter_list.append(num_optimizer_iter)
correction_list_transpose = np.array(correction_list).transpose()
mean_list_transpose = np.array(mean_list).transpose()
var_list_transpose = np.array(var_list).transpose()
print("mean of True: {}".format(np.mean(mean[np.where(rio_data["test_check"])])))
print("mean of False: {}".format(np.mean(mean[np.where(rio_data["test_check"] == False)])))
exp_result = {}
exp_result["mean"] = mean
exp_result["var"] = var
exp_result["RIO_MAE"] = MAE
exp_result["PCT_within95Interval"] = PCT_within95Interval
exp_result["PCT_within90Interval"] = PCT_within90Interval
exp_result["PCT_within68Interval"] = PCT_within68Interval
exp_result["computation_time"] = computation_time
exp_result["hyperparameter"] = hyperparameter
exp_result["num_optimizer_iter"] = num_optimizer_iter
exp_result["test_labels"] = rio_data["test_labels"].values.reshape(-1)
exp_result["test_NN_predictions"] = rio_data["test_NN_predictions"]
exp_result["mean_train"] = mean_train
exp_result["var_train"] = var_train
exp_result["train_labels"] = rio_data["train_labels"].values.reshape(-1)
exp_result["train_NN_predictions"] = rio_data["train_NN_predictions"]
exp_result["mean_correct_train"] = np.mean(mean_train[np.where(rio_data["train_check"])])
exp_result["mean_incorrect_train"] = np.mean(mean_train[np.where(rio_data["train_check"] == False)])
exp_result["mean_correct_test"] = np.mean(mean[np.where(rio_data["test_check"])])
exp_result["mean_incorrect_test"] = np.mean(mean[np.where(rio_data["test_check"] == False)])
return exp_result
for dataset_index in range(len(dataset_name_list)):
dataset_name = dataset_name_list[dataset_index]
print("exp for {} start".format(dataset_name))
NN_size = "64+64"
layer_width = 64
RUNS = 10
NN_info = NN_size
if dataset_name in new_dataset_name_list:
label_name = new_label_name_list[new_dataset_index_dict[dataset_name]]
minibatch_size = new_minibatch_size_list[new_dataset_index_dict[dataset_name]]
num_class = new_num_class_list[new_dataset_index_dict[dataset_name]]
dataset = dataset_read(dataset_name)
else:
normed_dataset, labels = load_UCI121(dataset_name)
num_class = np.max(labels.values)+1
print("num_class: {}".format(num_class))
for run in range(7, RUNS):
print("run{} start".format(run))
# preprocess data
if dataset_name in new_dataset_name_list:
train_dataset = dataset.sample(frac=0.8,random_state=run)
test_dataset = dataset.drop(train_dataset.index)
train_labels = train_dataset.pop(label_name).astype(int)
test_labels = test_dataset.pop(label_name).astype(int)
train_stats = train_dataset.describe()
train_stats = train_stats.transpose()
normed_train_data = (train_dataset - train_stats['mean']) / train_stats['std']
normed_test_data = (test_dataset - train_stats['mean']) / train_stats['std']
else:
normed_train_data = normed_dataset.sample(frac=0.8,random_state=run)
normed_test_data = normed_dataset.drop(normed_train_data.index)
train_labels = labels.take(normed_train_data.index)
test_labels = labels.drop(normed_train_data.index)
minibatch_size = len(normed_train_data)
# load data for one trial
algo_spec = "moderator_residual_target"
kernel_type = "RBF+RBF"
framework_variant = "GP"
add_info = "+separate_opt"
trial = 0
dir_name = "Results"
result_file_name = os.path.join(os.path.dirname(os.path.abspath(__file__)),dir_name,'{}_exp_result_{}_{}_{}_run{}_trail{}.pkl'.format(dataset_name, framework_variant, kernel_type, algo_spec+add_info, run, trial))
with open(result_file_name, 'rb') as result_file:
exp_result = pickle.load(result_file)
test_NN_predictions = exp_result["test_NN_predictions"]
train_NN_predictions = exp_result["train_NN_predictions"]
one_hot_train_labels = one_hot_encoding(train_labels.values.reshape(-1), num_class)
one_hot_test_labels = one_hot_encoding(test_labels.values.reshape(-1), num_class)
rio_data = {}
rio_setups = {}
rio_data["normed_train_data"] = normed_train_data
rio_data["normed_test_data"] = normed_test_data
rio_data["train_NN_predictions"] = train_NN_predictions
rio_data["test_NN_predictions"] = test_NN_predictions
rio_data["train_labels"] = train_labels
rio_data["test_labels"] = test_labels
rio_data["train_NN_predictions_softmax"] = softmax(exp_result["train_NN_predictions"], axis=1)
rio_data["test_NN_predictions_softmax"] = softmax(exp_result["test_NN_predictions"], axis=1)
rio_data["train_check"] = (rio_data["train_labels"].values.reshape(-1)==np.argmax(rio_data["train_NN_predictions"], axis=1))
rio_data["test_check"] = (rio_data["test_labels"].values.reshape(-1)==np.argmax(rio_data["test_NN_predictions"], axis=1))
rio_data["one_hot_train_labels"] = one_hot_train_labels
rio_data["one_hot_test_labels"] = one_hot_test_labels
# DNGO
moderator_train_labels = np.zeros(len(rio_data["train_check"]))
for i in range(len(rio_data["train_check"])):
if rio_data["train_check"].reshape(-1)[i]:
moderator_train_labels[i] =1
moderator_test_labels = np.zeros(len(rio_data["test_check"]))
for i in range(len(rio_data["test_check"])):
if rio_data["test_check"].reshape(-1)[i]:
moderator_test_labels[i] =1
moderator_train_data = train_NN_predictions
moderator_test_data = test_NN_predictions
model = DNGO(do_mcmc=False)
model.train(moderator_train_data, moderator_train_labels, do_optimize=True)
mean_test, var_test = model.predict(moderator_test_data)
mean_train, var_train = model.predict(moderator_train_data)
exp_info = {}
exp_info["moderator_test_mean"] = mean_test
exp_info["moderator_train_mean"] = mean_train
exp_info["moderator_test_var"] = var_test
exp_info["moderator_train_var"] = var_train
result_file_name = os.path.join(os.path.dirname(os.path.abspath(__file__)),'Results','{}_exp_info_DNGO_{}_run{}.pkl'.format(dataset_name, NN_info, run))
with open(result_file_name, 'wb') as result_file:
pickle.dump(exp_info, result_file)