keras-autoencoder.py: fixed invalid preprocessing of received base64 packet data

* split logic into seperate jobs; nDPIsrvd and Keras
 * nDPIsrvd: break event processing and re-run `epoll_wait()` after client disconnected

Signed-off-by: Toni Uhlig <matzeton@googlemail.com>

examples/py-machine-learning/keras-autoencoder.py

@@ -1,12 +1,12 @@
 #!/usr/bin/env python3
 
 import base64
+import binascii
 import joblib
-import csv
-import matplotlib.pyplot as plt
+import multiprocessing as mp
 import numpy as np
 import os
-import pandas as pd
+import queue
 import sys
 
 sys.path.append(os.path.dirname(sys.argv[0]) + '/../../dependencies')
@@ -17,29 +17,37 @@ import nDPIsrvd
 from nDPIsrvd import nDPIsrvdSocket, TermColor
 
 INPUT_SIZE = nDPIsrvd.nDPId_PACKETS_PLEN_MAX
+LATENT_SIZE = 8
 TRAINING_SIZE = 500
+EPOCH_COUNT = 5
 BATCH_SIZE = 10
 
 def generate_autoencoder():
-    input_i = Input(shape=())
-    input_i = Embedding(input_dim=INPUT_SIZE, output_dim=INPUT_SIZE, mask_zero=True)(input_i)
-    encoded_h1 = Dense(1024, activation='relu', name='input_i')(input_i)
-    encoded_h2 = Dense(512, activation='relu', name='encoded_h1')(encoded_h1)
-    encoded_h3 = Dense(128, activation='relu', name='encoded_h2')(encoded_h2)
-    encoded_h4 = Dense(64, activation='relu', name='encoded_h3')(encoded_h3)
-    encoded_h5 = Dense(32, activation='relu', name='encoded_h4')(encoded_h4)
-    latent = Dense(2, activation='relu', name='encoded_h5')(encoded_h5)
-    decoder_h1 = Dense(32, activation='relu', name='latent')(latent)
-    decoder_h2 = Dense(64, activation='relu', name='decoder_h1')(decoder_h1)
-    decoder_h3 = Dense(128, activation='relu', name='decoder_h2')(decoder_h2)
-    decoder_h4 = Dense(512, activation='relu', name='decoder_h3')(decoder_h3)
-    decoder_h5 = Dense(1024, activation='relu', name='decoder_h4')(decoder_h4)
-    return input_i, Model(input_i, Dense(INPUT_SIZE, activation='sigmoid', name='decoder_h5')(decoder_h5))
+    input_i = Input(shape=(), name='input_i')
+    input_e = Embedding(input_dim=INPUT_SIZE, output_dim=INPUT_SIZE, mask_zero=True, name='input_e')(input_i)
+    encoded_h1 = Dense(1024, activation='relu', name='encoded_h1')(input_e)
+    encoded_h2 = Dense(512, activation='relu', name='encoded_h2')(encoded_h1)
+    encoded_h3 = Dense(128, activation='relu', name='encoded_h3')(encoded_h2)
+    encoded_h4 = Dense(64, activation='relu', name='encoded_h4')(encoded_h3)
+    encoded_h5 = Dense(32, activation='relu', name='encoded_h5')(encoded_h4)
+    latent = Dense(LATENT_SIZE, activation='relu', name='latent')(encoded_h5)
+
+    input_l = Input(shape=(LATENT_SIZE), name='input_l')
+    decoder_h1 = Dense(32, activation='relu', name='decoder_h1')(input_l)
+    decoder_h2 = Dense(64, activation='relu', name='decoder_h2')(decoder_h1)
+    decoder_h3 = Dense(128, activation='relu', name='decoder_h3')(decoder_h2)
+    decoder_h4 = Dense(512, activation='relu', name='decoder_h4')(decoder_h3)
+    decoder_h5 = Dense(1024, activation='relu', name='decoder_h5')(decoder_h4)
+    output_i = Dense(INPUT_SIZE, activation='sigmoid', name='output_i')(decoder_h5)
+
+    encoder = Model(input_e, latent, name='encoder')
+    decoder = Model(input_l, output_i, name='decoder')
+    return encoder, decoder, Model(input_e, decoder(encoder(input_e)), name='VAE')
 
 def compile_autoencoder():
-    inp, autoencoder = generate_autoencoder()
+    encoder, decoder, autoencoder = generate_autoencoder()
     autoencoder.compile(loss='mse', optimizer='adam', metrics=[tf.keras.metrics.Accuracy()])
-    return inp, autoencoder
+    return encoder, decoder, autoencoder
 
 def onJsonLineRecvd(json_dict, instance, current_flow, global_user_data):
     if 'packet_event_name' not in json_dict:
@@ -49,50 +57,122 @@ def onJsonLineRecvd(json_dict, instance, current_flow, global_user_data):
         json_dict['packet_event_name'] != 'packet-flow':
         return True
 
-    _, padded_pkts = global_user_data
-    buf = base64.b64decode(json_dict['pkt'], validate=True)
+    shutdown_event, training_event, padded_pkts = global_user_data
+    if shutdown_event.is_set():
+        return False
+
+    try:
+        buf = base64.b64decode(json_dict['pkt'], validate=True)
+    except binascii.Error as err:
+        sys.stderr.write('\nBase64 Exception: {}\n'.format(str(err)))
+        sys.stderr.write('Affected JSON: {}\n'.format(str(json_dict)))
+        sys.stderr.flush()
+        return False
 
     # Generate decimal byte buffer with valus from 0-255
     int_buf = []
     for v in buf:
         int_buf.append(int(v))
 
-    mat = np.array([int_buf])
+    mat = np.array([int_buf], dtype='float64')
 
     # Normalize the values
-    mat = mat.astype('float32') / 255.
+    mat = mat.astype('float64') / 255.0
 
     # Mean removal
-    matmean = np.mean(mat, axis=0)
+    matmean = np.mean(mat, dtype='float64')
     mat -= matmean
 
     # Pad resulting matrice
-    buf = preprocessing.sequence.pad_sequences(mat, padding="post", maxlen=INPUT_SIZE, truncating='post')
-    padded_pkts.append(buf[0])
+    buf = preprocessing.sequence.pad_sequences(mat, padding="post", maxlen=INPUT_SIZE, truncating='post', dtype='float64')
+    padded_pkts.put(buf[0])
 
-    sys.stdout.write('.')
-    sys.stdout.flush()
-    if (len(padded_pkts) % TRAINING_SIZE == 0):
-        print('\nGot {} packets, training..'.format(len(padded_pkts)))
-        tmp = np.array(padded_pkts)
-        history = autoencoder.fit(
-                                  tmp, tmp, epochs=10, batch_size=BATCH_SIZE,
-                                  validation_split=0.2,
-                                  shuffle=True
-                                 )
-        padded_pkts.clear()
+    #print(list(buf[0]))
 
-        #plot_model(autoencoder, show_shapes=True, show_layer_names=True)
-        #plt.plot(history.history['loss'])
-        #plt.plot(history.history['val_loss'])
-        #plt.title('model loss')
-        #plt.xlabel('loss')
-        #plt.ylabel('val_loss')
-        #plt.legend(['loss', 'val_loss'], loc='upper left')
-        #plt.show()
+    if not training_event.is_set():
+        sys.stdout.write('.')
+        sys.stdout.flush()
 
     return True
 
+def nDPIsrvd_worker(address, shared_shutdown_event, shared_training_event, shared_packet_list):
+    nsock = nDPIsrvdSocket()
+
+    try:
+        nsock.connect(address)
+        padded_pkts = list()
+        nsock.loop(onJsonLineRecvd, None, (shared_shutdown_event, shared_training_event, shared_packet_list))
+    except nDPIsrvd.SocketConnectionBroken as err:
+        sys.stderr.write('\nnDPIsrvd-Worker Socket Error: {}\n'.format(err))
+    except KeyboardInterrupt:
+        sys.stderr.write('\n')
+    except Exception as err:
+        sys.stderr.write('\nnDPIsrvd-Worker Exception: {}\n'.format(str(err)))
+    sys.stderr.flush()
+
+    shared_shutdown_event.set()
+
+def keras_worker(load_model, save_model, shared_shutdown_event, shared_training_event, shared_packet_queue):
+    shared_training_event.set()
+    if load_model is not None:
+        sys.stderr.write('Loading model from {}\n'.format(load_model))
+        sys.stderr.flush()
+        try:
+            encoder, decoder, autoencoder = joblib.load(load_model)
+        except:
+            sys.stderr.write('Could not load model from {}\n'.format(load_model))
+            sys.stderr.write('Compiling new Autoencoder..\n')
+            sys.stderr.flush()
+            encoder, decoder, autoencoder = compile_autoencoder()
+    else:
+        encoder, decoder, autoencoder = compile_autoencoder()
+    decoder.summary()
+    encoder.summary()
+    autoencoder.summary()
+    shared_training_event.clear()
+
+    try:
+        packets = list()
+        while not shared_shutdown_event.is_set():
+            try:
+                packet = shared_packet_queue.get(timeout=1)
+            except queue.Empty:
+                packet = None
+
+            if packet is None:
+                continue
+
+            packets.append(packet)
+            if len(packets) % TRAINING_SIZE == 0:
+                shared_training_event.set()
+                print('\nGot {} packets, training..'.format(len(packets)))
+                tmp = np.array(packets)
+                x_test_encoded = encoder.predict(tmp, batch_size=BATCH_SIZE)
+                history = autoencoder.fit(
+                                          tmp, tmp, epochs=EPOCH_COUNT, batch_size=BATCH_SIZE,
+                                          validation_split=0.2,
+                                          shuffle=True
+                                         )
+                packets.clear()
+                shared_training_event.clear()
+    except KeyboardInterrupt:
+        sys.stderr.write('\n')
+    except Exception as err:
+        if len(str(err)) == 0:
+            err = 'Unknown'
+        sys.stderr.write('\nKeras-Worker Exception: {}\n'.format(str(err)))
+    sys.stderr.flush()
+
+    if save_model is not None:
+        sys.stderr.write('Saving model to {}\n'.format(save_model))
+        sys.stderr.flush()
+        joblib.dump([encoder, decoder, autoencoder], save_model)
+
+    try:
+        shared_shutdown_event.set()
+    except:
+        pass
+
 if __name__ == '__main__':
     sys.stderr.write('\b\n***************\n')
     sys.stderr.write('*** WARNING ***\n')
@@ -125,23 +205,38 @@ if __name__ == '__main__':
     from tensorflow.keras.models import Model, Sequential
     from tensorflow.keras.utils import plot_model
 
-    if args.load_model is not None:
-        sys.stderr.write('Loading model from {}\n'.format(args.load_model))
-        autoencoder, options = joblib.load(args.load_model)
-    else:
-        _, autoencoder = compile_autoencoder()
-    autoencoder.summary()
+    mgr = mp.Manager()
+
+    shared_training_event = mgr.Event()
+    shared_training_event.clear()
+
+    shared_shutdown_event = mgr.Event()
+    shared_shutdown_event.clear()
+
+    shared_packet_queue = mgr.JoinableQueue()
+
+    nDPIsrvd_job = mp.Process(target=nDPIsrvd_worker, args=(
+                                                            address,
+                                                            shared_shutdown_event,
+                                                            shared_training_event,
+                                                            shared_packet_queue
+                                                           ))
+    nDPIsrvd_job.start()
+
+    keras_job = mp.Process(target=keras_worker, args=(
+                                                      args.load_model,
+                                                      args.save_model,
+                                                      shared_shutdown_event,
+                                                      shared_training_event,
+                                                      shared_packet_queue
+                                                     ))
+    keras_job.start()
 
-    nsock = nDPIsrvdSocket()
-    nsock.connect(address)
     try:
-        padded_pkts = list()
-        nsock.loop(onJsonLineRecvd, None, (autoencoder, padded_pkts))
-    except nDPIsrvd.SocketConnectionBroken as err:
-        sys.stderr.write('\n{}\n'.format(err))
+        shared_shutdown_event.wait()
     except KeyboardInterrupt:
-        print()
+        print('\nShutting down worker processess..')
 
-    if args.save_model is not None:
-        sys.stderr.write('Saving model to {}\n'.format(args.save_model))
-        joblib.dump([autoencoder, None], args.save_model)
+    nDPIsrvd_job.terminate()
+    nDPIsrvd_job.join()
+    keras_job.join()

nDPIsrvd.c

@@ -1422,7 +1422,7 @@ static int mainloop(int epollfd)
                 {
                     logger(1, "Epoll event error: %s", (errno != 0 ? strerror(errno) : "unknown"));
                 }
-                continue;
+                break;
             }
 
             if (events[i].data.fd == collector_un_sockfd || events[i].data.fd == distributor_un_sockfd ||