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pipeline4.py
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pipeline4.py
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import os
from time import localtime, strftime
import numpy as np
import matplotlib.pyplot as plt
from sklearn.impute import KNNImputer
from build.class_gain import GAIN
from build.class_misgan import MisGAN
from build.utils import normalization
original_data = np.genfromtxt("datasets/mydata2/gaussian_mixture.csv", delimiter=",")
original_data = np.array(original_data, dtype="float32")
np.random.seed(666)
myGAIN = GAIN(dim=original_data.shape[1])
myMisGAN = MisGAN(dim=original_data.shape[1])
LIST_MISS_RATES = np.arange(start=0.1, stop=0.81, step=0.1)
NB_NEIGHBOURS = 50
NB_EPOCHS_GAIN = 20000
NB_EPOCHS_MISGAN = 5000
NB_REPEAT_TRAIN = 20
NB_REPEAT_IMPUTATION = 50
rmse_gain = np.zeros((NB_REPEAT_TRAIN, len(LIST_MISS_RATES)))
rmse_misgan = np.zeros((NB_REPEAT_TRAIN, len(LIST_MISS_RATES)))
rmse_knn1 = np.zeros((NB_REPEAT_TRAIN, len(LIST_MISS_RATES)))
rmse_knn2 = np.zeros((NB_REPEAT_TRAIN, len(LIST_MISS_RATES)))
for i1 in range(NB_REPEAT_TRAIN):
print(f"\n== Repeat {i1} ==", flush=True)
for i2 in range(len(LIST_MISS_RATES)):
miss_rate = LIST_MISS_RATES[i2]
print(f"-> Miss_rate = {np.round(miss_rate, decimals=1)} | Time: ", end="", flush=True)
print(strftime("%Y-%m-%d %H:%M:%S", localtime()), flush=True)
r = np.random.uniform(size=original_data.shape)
miss_mask = (r < miss_rate)
nb_miss_val = np.sum(miss_mask)
miss_data = np.copy(original_data)
miss_data[miss_mask] = np.nan
norm_data, norm_params = normalization(miss_data)
norm_full_data, _ = normalization(original_data, norm_params=norm_params)
myGAIN.reinitialize() # For GAIN and MisGAN
myMisGAN.reinitialize()
myGAIN.train(norm_data, batch_size=128, epochs=NB_EPOCHS_GAIN)
myMisGAN.train(norm_data, batch_size=128, epochs=NB_EPOCHS_MISGAN)
impute_gain = np.zeros_like(miss_data)
impute_misgan = np.zeros_like(miss_data)
for i3 in range(NB_REPEAT_IMPUTATION):
impute_gain += myGAIN.impute(norm_data)
impute_misgan += myMisGAN.impute(norm_data)
impute_gain /= NB_REPEAT_IMPUTATION
impute_misgan /= NB_REPEAT_IMPUTATION
rmse_gain[i1, i2] = np.sqrt(np.sum((impute_gain - norm_full_data) ** 2) / nb_miss_val)
rmse_misgan[i1, i2] = np.sqrt(np.sum((impute_misgan - norm_full_data) ** 2) / nb_miss_val)
print("KNN starts... ", end="")
print(strftime("%Y-%m-%d %H:%M:%S", localtime()))
myKNN1 = KNNImputer(n_neighbors=NB_NEIGHBOURS, weights="uniform", metric="nan_euclidean")
myKNN1.fit(norm_data)
impute_knn1 = myKNN1.transform(norm_data)
myKNN2 = KNNImputer(n_neighbors=NB_NEIGHBOURS, weights="distance", metric="nan_euclidean")
myKNN2.fit(norm_data)
impute_knn2 = myKNN2.transform(norm_data)
rmse_knn1[i1, i2] = np.sqrt(np.sum((impute_knn1 - norm_full_data) ** 2) / nb_miss_val)
rmse_knn2[i1, i2] = np.sqrt(np.sum((impute_knn2 - norm_full_data) ** 2) / nb_miss_val)
if not os.path.exists("results/pipeline4/"):
os.makedirs("results/pipeline4/")
if not os.path.exists("results/pipeline4/plots"):
os.makedirs("results/pipeline4/plots")
np.save("results/pipeline4/rmse_gain.npy", rmse_gain)
np.save("results/pipeline4/rmse_misgan.npy", rmse_misgan)
np.save("results/pipeline4/rmse_knn1.npy", rmse_knn1)
np.save("results/pipeline4/rmse_knn2.npy", rmse_knn2)
# Plot 1: GAIN and MisGAN performances
mu1 = np.mean(rmse_gain, axis=0)
std1 = np.std(rmse_gain, axis=0)
mu2 = np.mean(rmse_misgan, axis=0)
std2 = np.std(rmse_misgan, axis=0)
plt.figure(figsize=(6, 4))
plt.errorbar(LIST_MISS_RATES-0.01, mu1, yerr=std1, color="indigo", marker=".", capsize=5.0, ls="", label="GAIN")
plt.errorbar(LIST_MISS_RATES+0.01, mu2, yerr=std2, color="grey", marker=".", capsize=5.0, ls="", label="MisGAN")
plt.xlabel("Missing rate")
plt.ylabel("RMSE")
plt.title("Mixture of three Gaussian dataset [1000x5]")
plt.legend()
plt.tight_layout()
plt.savefig("results/pipeline4/plots/rmse1.pdf")
# Plot 2: KNN performances
mu1 = np.mean(rmse_knn1, axis=0)
std1 = np.std(rmse_knn1, axis=0)
mu2 = np.mean(rmse_knn2, axis=0)
std2 = np.std(rmse_knn2, axis=0)
plt.figure(figsize=(6, 4))
plt.errorbar(LIST_MISS_RATES-0.01, mu1, yerr=std1, color="indigo", marker=".", capsize=5.0, ls="", label="KNN-uniform")
plt.errorbar(LIST_MISS_RATES+0.01, mu2, yerr=std2, color="grey", marker=".", capsize=5.0, ls="", label="KNN-distance")
plt.xlabel("Missing rate")
plt.ylabel("RMSE")
plt.title("Mixture of three Gaussian dataset [1000x5]")
plt.legend()
plt.tight_layout()
plt.savefig("results/pipeline4/plots/rmse2.pdf")
# Plot 3: together, it's better
mu1 = np.mean(rmse_gain, axis=0)
std1 = np.std(rmse_gain, axis=0)
mu2 = np.mean(rmse_misgan, axis=0)
std2 = np.std(rmse_misgan, axis=0)
mu3 = np.mean(rmse_knn1, axis=0)
std3 = np.std(rmse_knn1, axis=0)
mu4 = np.mean(rmse_knn2, axis=0)
std4 = np.std(rmse_knn2, axis=0)
plt.figure(figsize=(6, 4))
plt.errorbar(LIST_MISS_RATES-0.03, mu1, yerr=std1, color="indigo", marker=".", capsize=5.0, ls="", label="GAIN")
plt.errorbar(LIST_MISS_RATES-0.01, mu2, yerr=std2, color="grey", marker=".", capsize=5.0, ls="", label="MisGAN")
plt.errorbar(LIST_MISS_RATES+0.01, mu3, yerr=std3, color="teal", marker=".", capsize=5.0, ls="", label="KNN-uniform")
plt.errorbar(LIST_MISS_RATES+0.03, mu4, yerr=std4, color="peru", marker=".", capsize=5.0, ls="", label="KNN-distance")
plt.xlabel("Missing rate")
plt.ylabel("RMSE")
plt.title("Mixture of three Gaussian dataset [1000x5]")
plt.legend()
plt.tight_layout()
plt.savefig("results/pipeline4/plots/rmse3.pdf")
# Plot 4: Get rid of MisGAN
mu1 = np.mean(rmse_gain, axis=0)
std1 = np.std(rmse_gain, axis=0)
mu3 = np.mean(rmse_knn1, axis=0)
std3 = np.std(rmse_knn1, axis=0)
mu4 = np.mean(rmse_knn2, axis=0)
std4 = np.std(rmse_knn2, axis=0)
plt.figure(figsize=(6, 4))
plt.errorbar(LIST_MISS_RATES-0.02, mu1, yerr=std1, color="indigo", marker=".", capsize=5.0, ls="", label="GAIN")
plt.errorbar(LIST_MISS_RATES, mu3, yerr=std3, color="teal", marker=".", capsize=5.0, ls="", label="KNN-uniform")
plt.errorbar(LIST_MISS_RATES+0.02, mu4, yerr=std4, color="peru", marker=".", capsize=5.0, ls="", label="KNN-distance")
plt.xlabel("Missing rate")
plt.ylabel("RMSE")
plt.title("Mixture of three Gaussian dataset [1000x5]")
plt.legend()
plt.tight_layout()
plt.savefig("results/pipeline4/plots/rmse4.pdf")