--- a
+++ b/python-scripts/runCancerSVAE.py
@@ -0,0 +1,85 @@
+from keras.layers import Input, Dense
+from keras.models import Model
+import numpy as np
+import pandas as pd
+import matplotlib.pyplot as plt
+from sklearn.cluster import KMeans
+from sklearn.cluster import k_means
+from sklearn.metrics import silhouette_score, davies_bouldin_score
+from sklearn.preprocessing import normalize
+import time
+from sklearn import metrics
+from myUtils import *
+from SVAEclass import VAE
+import os
+from keras import backend as K
+
+
+def get_EM(datapath,resultpath):
+    omics1 = np.loadtxt('{}/log_exp_omics.txt'.format(datapath))
+    omics1 = np.transpose(omics1)
+    omics1 = normalize(omics1, axis=0, norm='max')
+    print(omics1.shape)
+    omics2 = np.loadtxt('{}/log_mirna_omics.txt'.format(datapath))
+    omics2 = np.transpose(omics2)
+    omics2 = normalize(omics2, axis=0, norm='max')
+    print(omics2.shape)
+    omics3 = np.loadtxt('{}/methy_omics.txt'.format(datapath))
+    omics3 = np.transpose(omics3)
+    omics3 = normalize(omics3, axis=0, norm='max')
+    print(omics3.shape)
+    omics = np.concatenate((omics1, omics2, omics3), axis=1)
+    print(omics.shape)
+    data = omics
+    input_dim = data.shape[1]
+    encoding1_dim = 3000
+    encoding2_dim = 300
+    middle_dim = 10
+    noise_factor = 0.1
+
+    dims = [encoding1_dim, encoding2_dim, middle_dim]
+    vae = VAE(data, dims)
+    vae.autoencoder.summary()
+    vae.train()
+    encoded_factors = vae.predict(data)
+    if not os.path.exists("{}/SVAE_FCTAE_EM.txt".format(resultpath)):
+        os.mknod("{}/SVAE_FCTAE_EM.txt".format(resultpath))
+    np.savetxt("{}/SVAE_FCTAE_EM.txt".format(resultpath), encoded_factors)
+    K.clear_session()
+
+
+if __name__ == '__main__':
+    data_dir_list = []
+    result_dir_list = []
+    data_path = r"data/cancer"
+    result_path = r"result/cancer"
+    dir_or_files = os.listdir(data_path)
+    for dir_file in dir_or_files:
+        # 获取目录或者文件的路径
+        data_dir_file_path = os.path.join(data_path, dir_file)
+        result_dir_file_path = os.path.join(result_path, dir_file)
+        # 判断该路径为文件还是路径
+        if os.path.isdir(data_dir_file_path):
+            data_dir_list.append(data_dir_file_path)
+            if not os.path.exists(result_dir_file_path):
+                os.makedirs(result_dir_file_path)
+            result_dir_list.append(result_dir_file_path)
+    #print(data_dir_list)
+    #print(result_dir_list)
+    # data_dir_list=['data/cancer/breast', 'data/cancer/gbm', 'data/cancer/ovarian', 'data/cancer/sarcoma', 'data/cancer/lung', 'data/cancer/liver']
+    # result_dir_list=['result/cancer/breast', 'result/cancer/gbm', 'result/cancer/ovarian', 'result/cancer/sarcoma', 'result/cancer/lung', 'result/cancer/liver']
+
+    # for datapath,resultpath in zip(data_dir_list,result_dir_list):
+    #     get_EM(datapath, resultpath)
+    datapath='data/cancer/gbm'
+    resultpath='result/cancer/gbm'  
+    get_EM(datapath, resultpath)
+
+
+
+
+
+
+
+
+