times series extraction

Docs/src2month

@@ -0,0 +1,1179 @@
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apt-sec.py

@@ -107,6 +107,7 @@ def load_DBs():
     src2dsa = dict()
     dsa2cve = dict()
     cvetable = dict()
+    src2month = dict()
     
     cache = config['DIR']['cache_dir']
     
@@ -139,7 +140,14 @@ def load_DBs():
     except (IOError, ValueError):
         print('read cache cvetable failed!! Maybe first run of the system?')
 
-    return(dsatable, src2dsa, dsa2cve, cvetable)
+    cache_src2month = cache + 'src2month'
+    try:
+        with open(cache_src2month) as fp:
+            src2month = json.load(fp)
+    except (IOError, ValueError):
+        print('read cache src2month failed!! Maybe first run of the system?')
+    
+    return(dsatable, src2dsa, dsa2cve, cvetable, src2month)
 
 
 ###############################################################################
@@ -147,9 +155,11 @@ def load_DBs():
 def myconverter(o):
     if isinstance(o, datetime.datetime) or isinstance(o, datetime.timedelta):
         return str(o)
+    if isinstance(o, np.float):
+        return o.astype(int)
 ###############################################################################
 ## save to files
-def save_DBs(dsatable, src2dsa, dsa2cve, cvetable):
+def save_DBs(dsatable, src2dsa, dsa2cve, cvetable, src2month):
     cache = config['DIR']['cache_dir']
     
     cache_dsatable = cache + 'dsatable'
@@ -184,6 +194,21 @@ def save_DBs(dsatable, src2dsa, dsa2cve, cvetable):
         print('write cache cvetable failed!! Fatal error')
         sys.exit(1)
 
+    cache_src2month = cache + 'src2month'
+    int_list = dict()
+    for element in src2month:
+        for i in range(len(src2month[element])):
+            if element in int_list:
+                int_list[element].append(int(src2month[element][i]))
+            else:
+                int_list[element] = []
+                int_list[element].append(int(src2month[element][i]))
+    try:
+        with open(cache_src2month, 'w') as fp:
+            json.dump(int_list, fp, default = myconverter)
+    except IOError:
+        print('write cache src2month failed!! Fatal error')
+        sys.exit(1)
 
 ###############################################################################
 ## Fetch current Packages, Sources and sha1sums files
@@ -470,6 +495,8 @@ def processCVEs(pkg, now, src2dsa, dsa2cve, src2month, cvetable, config):
 #        print(src2dsa[pkg])
 #        pkg_plot(pkg, cvestats)
 
+
+    ## TODO: Fix issue on first run of the system or on new package
     format_data(pkg, cvestats, src2month)
 
 
@@ -485,6 +512,7 @@ def format_data(pkg, cvestats, src2month):
     monthyear = []
     year = []
 
+    print(cvestats.items())
     items=list(cvestats.items())
     items.sort(key=lambda tup: tup[0])
 
@@ -584,7 +612,7 @@ def pkg_plot(pkg, cvestats):
             k += 1
     
 #    plt.xticks(datapoints, monthlabel)
-    print(year)
+#    print(year)
 #    plt.plot.hist(yearsx,year)
 #    plt.bar(yearsx, year, 1, color='blue')   
 #    plt.bar(datapoints, month, 1, color='blue')   
@@ -714,11 +742,11 @@ state['vendor'] = 'debian'
 #    os.makedirs(d)
 
 if action == 'update':
-    (dsatable, src2dsa, dsa2cve, cvetable) = load_DBs()
+    (dsatable, src2dsa, dsa2cve, cvetable, src2month) = load_DBs()
 #    loadsha1lists()
     aptsec_update(state,config, dsatable, client, src2dsa, dsa2cve, src2month, cvetable)
 #    save_sha1lists()
-    save_DBs(dsatable, src2dsa, dsa2cve, cvetable)
+    save_DBs(dsatable, src2dsa, dsa2cve, cvetable, src2month)
     save_state(state)
     ml.predict(src2month)
 elif action == 'status':

debian_advisory.py

@@ -42,6 +42,8 @@ def unifySrcName(name):
             newname = "firefox" 
         elif re.compile("iceweasel").match(name):
             newname = "firefox" 
+        elif re.compile("firefox-esr").match(name):
+            newname = "firefox" 
         elif re.compile("mozilla").match(name):
             newname = "firefox" 
         elif re.compile("mozilla-thunderbird").match(name):
@@ -136,12 +138,8 @@ def unifySrcName(name):
             newname = "gnutls26" 
         elif re.compile("gallery2").match(name):
             newname = "gallery" 
-        elif re.compile("firebird2").match(name):
-            newname = "firebird2.5" 
-        elif re.compile("firebird2.0").match(name):
-            newname = "firebird2.5" 
-        elif re.compile("firebird2.1").match(name):
-            newname = "firebird2.5" 
+        elif re.compile("firebird*").match(name):
+            newname = "firebird" 
         elif re.compile("fltk1.1").match(name):
             newname = "fltk1.3" 
         elif re.compile("fox1.4").match(name):

machine_learning.py

@@ -1,7 +1,14 @@
 from __future__ import absolute_import
 from __future__ import division
 from __future__ import print_function
+from statsmodels.tsa.stattools import adfuller
 import numpy as np
+import pandas as pd
+import matplotlib.pyplot as plt
+import statsmodels as sm
+from statsmodels.tsa.stattools import acf, pacf
+from statsmodels.tsa.arima_model import ARIMA
+from statsmodels.tsa.seasonal import seasonal_decompose
 
 import argparse
 import sys
@@ -12,6 +19,34 @@ import tensorflow as tf
 
 FLAGS = None
 
+
+def test_stationarity(timeseries):
+    
+    #Determing rolling statistics
+    rolmean = pd.rolling_mean(timeseries, window=12)
+    rolstd = pd.rolling_std(timeseries, window=12)
+
+    #Plot rolling statistics:
+    orig = plt.plot(timeseries, color='blue',label='Original')
+    mean = plt.plot(rolmean, color='red', label='Rolling Mean')
+    std = plt.plot(rolstd, color='black', label = 'Rolling Std')
+    
+
+
+    plt.legend(loc='best')
+    plt.title('Rolling Mean & Standard Deviation')
+    plt.show()
+
+    
+    #Perform Dickey-Fuller test:
+    print('Results of Dickey-Fuller Test:')
+    dftest = adfuller(timeseries, autolag='AIC')
+    dfoutput = pd.Series(dftest[0:4], index=['Test Statistic','p-value','#Lags Used','Number of Observations Used'])
+    for key,value in dftest[4].items():
+        dfoutput['Critical Value (%s)'%key] = value
+    print(dfoutput)
+
+
 def weight_variable(shape):
     initial = tf.truncated_normal(shape, stddev = 0.1)
     return tf.Variable(initial)
@@ -27,55 +62,102 @@ def max_pool_2x2(x):
     return tf.nn.max_pool(x, ksize=[1, 2, 2, 1], strides=[1, 2, 2, 1], padding='SAME')
 
 def predict(src2month):
-#    mnist = input_data.read_data_sets(FLAGS.data_dir, one_hot=True)
+
+    df = dict()
 
     pkg_num = len(src2month)
     training_num = len(src2month['linux'])-12
+    data = src2month['linux']
+    past = data[:len(data)-12]
+    print(data)
+    print(past)
+
+    data_rol = pd.rolling_mean(data, window=12)
+    rolmean = pd.rolling_mean(past, window=12)
+    print(rolmean)
+    print(len(rolmean))
+    past = rolmean[12:]
+
+    decomposition = seasonal_decompose(past, freq=12)
+
+#    fig = plt.figure()
+#    fig = decomposition.plot()
+#    fig.set_size_inches(15,8)
+
 
-    training_table = np.zeros((pkg_num, training_num))
-    test_values = np.zeros((pkg_num, 1))
+#    print(np.roll(past, 1))
+    df['first_difference'] = past - np.roll(past, 1)
+    df['first_difference'] = df['first_difference'][1:]
 
-    i=0
+    df['seasonal_difference'] = past - np.roll(past, 12)
+    df['seasonal_difference'] = df['seasonal_difference'][12:]
 
-    for key, value in src2month.items():
-        training_table[i] = value[0:training_num]
-        test_values[i, 0] = np.sum(value[training_num:])
-        i += 1
+    df['seasonal_first_difference'] = df['first_difference'] - np.roll(df['first_difference'], 12)
+    df['seasonal_first_difference'] = df['seasonal_first_difference'][12:]
 
+
+    print(len(df['first_difference']))
+    
+#    test_stationarity(past)
+#    test_stationarity(df['first_difference'])
+#    test_stationarity(df['seasonal_difference'])
+     
+#    test_stationarity(df['seasonal_first_difference'])
+ 
+#    fig = plt.figure(figsize=(12,8))
+#    ax1 = fig.add_subplot(211)
+#    fig = sm.graphics.tsaplots.plot_acf(df['seasonal_first_difference'], lags=40, ax=ax1)
+#    ax2 = fig.add_subplot(212)
+#    fig = sm.graphics.tsaplots.plot_pacf(df['seasonal_first_difference'], lags=40, ax=ax2)
+
+    lag_acf = acf(df['seasonal_first_difference'], nlags=20)
+    lag_pacf = pacf(df['seasonal_first_difference'], nlags=20, method='ols')
+
+
+    #Plot ACF: 
+    plt.subplot(121) 
+    plt.plot(lag_acf)
+    plt.axhline(y=0,linestyle='--',color='gray')
+    plt.axhline(y=-1.96/np.sqrt(len(df['seasonal_first_difference'])),linestyle='--',color='gray')
+    plt.axhline(y=1.96/np.sqrt(len(df['seasonal_first_difference'])),linestyle='--',color='gray')
+    plt.title('Autocorrelation Function')
+
+    #Plot PACF:
+    plt.subplot(122)
+    plt.plot(lag_pacf)
+    plt.axhline(y=0,linestyle='--',color='gray')
+    plt.axhline(y=-1.96/np.sqrt(len(df['seasonal_first_difference'])),linestyle='--',color='gray')
+    plt.axhline(y=1.96/np.sqrt(len(df['seasonal_first_difference'])),linestyle='--',color='gray')
+    plt.title('Partial Autocorrelation Function')
+    plt.tight_layout()
+
+
+    plt.show()
+
+    mod = sm.tsa.statespace.sarimax.SARIMAX(past, trend='n', order=(2,1,1), seasonal_order=(1,1,1,12))
+    results = mod.fit()
+    print(results.summary())
+
+
+
+    df['forecast'] = results.predict(start = len(past) + 1, end = len(past) + 102, dynamic= True)
+    pred = np.concatenate((np.zeros(180), df['forecast']))
     
+    fig = plt.figure(figsize=(12,8))
+    fig = plt.plot(data_rol, color='blue')
+    pred = np.concatenate((np.zeros(12), pred))
+    fig = plt.plot(pred, color='green')
+    print(len(data), len(past), len(pred))
+    reality = sum(data[193:205])
+    average = sum(data[181:193])
+    predicted = pred[203]
+
+    print('Actual vulnerabilities in 2016: ' + str(reality))
+    print('Number of vulnerabilities in 2015: ' + str(average))
+    print('Predicted vulnerabilities for 2016: ' + str(predicted * 12))
+    print('Prediction error: ' +  str(reality - predicted * 12))
+    print('Difference from previous year: ' + str(reality - average))
+
 
+    plt.show()
 
-    # Create the model
-    x = tf.placeholder(tf.float32, [None, training_num])
-    W = tf.Variable(tf.zeros([training_num, 1]))
-    b = tf.Variable(tf.zeros([1]))
-    y = tf.matmul(x, W) + b
-
-    # Define loss and optimizer
-    y_ = tf.placeholder(tf.float32, [None, 1])
-
-    # The raw formulation of cross-entropy,
-    #
-    #   tf.reduce_mean(-tf.reduce_sum(y_ * tf.log(tf.nn.softmax(y)),
-    #                                 reduction_indices=[1]))
-    #
-    # can be numerically unstable.
-    #
-    # So here we use tf.nn.softmax_cross_entropy_with_logits on the raw
-    # outputs of 'y', and then average across the batch.
-    cross_entropy = tf.reduce_mean(tf.nn.softmax_cross_entropy_with_logits(y, y_))
-    train_step = tf.train.GradientDescentOptimizer(0.5).minimize(cross_entropy)
-
-    #sess = tf.InteractiveSession()
-    # Train
-    tf.global_variables_initializer().run()
-    for _ in range(1000):
-        sess.run(train_step, feed_dict={x: training_table, y_: test_values})
-#    for _ in range(1000):
-#        batch_xs, batch_ys = mnist.train.next_batch(100)
-#        sess.run(train_step, feed_dict={x: batch_xs, y_: batch_ys})
-    print(y)
-    # Test trained model
-    correct_prediction = tf.equal(y, y_)
-    accuracy = tf.reduce_mean(tf.cast(correct_prediction, tf.float32))
-    print(sess.run(accuracy, feed_dict={x: training_table, y_: test_values}))

out.txt

@@ -1 +1,1179 @@
-<configparser.ConfigParser object at 0x7fc7df5624e0>
+libsoup2.4 1
+libcairo 1
+inspircd 6
+qemu 79
+playmidi 1
+kdeedu 1
+boinc 1
+firebird2.5 5
+lv 1
+libsoup 2
+hostapd 2
+fsp 2
+omega-rpg 1
+libapache-mod-dav 1
+multipath-tools 1
+libphp-adodb 4
+thttpd 4
+libvirt 10
+libcurl3-gnutls 1
+cron 2
+orville-write 1
+libapache2-mod-fcgid 3
+texinfo 2
+scrollkeeper 1
+prosody 3
+kdeutils 1
+bacula 1
+hdf5 4
+tar 5
+cvsnt 1
+nss-ldapd 1
+twiki 1
+phpbb2 17
+usermin 1
+gajim 3
+dropbear 2
+libgadu 2
+unarj 2
+tryton-client 1
+ddskk 1
+ghostscript 19
+gnujsp 1
+evolution-data-server 4
+libnids 1
+mapserver 12
+bsh 1
+nspr 6
+heimdal 17
+simpleproxy 2
+xmms 2
+zoph 2
+irssi-text 1
+debian-goodies 1
+requests 2
+xpcd 3
+openjdk 353
+mgetty 1
+wemi 1
+libebml 3
+lsh-utils 3
+redmine 4
+libcgroup 2
+bnc 1
+man-db 6
+dhis-tools-dns 1
+htcheck 1
+flim 1
+lpr-ppd 1
+oprofile 1
+freenet6 1
+nbd 5
+webcit 1
+php-cas 1
+lookup-el 1
+dhcp3 18
+lasso 1
+openexr 3
+gtk+2.0 10
+gps 3
+xfs 2
+websvn 4
+elinks 4
+phpgroupware 18
+python-cherrypy 1
+roundup 2
+ssmtp 1
+gtkhtml 1
+libx11 4
+hsftp 1
+phppgadmin 4
+libmailtools-perl 1
+libapache-mod-ssl 7
+libwmf 6
+viewvc 4
+apr 2
+ircii 1
+dbus 15
+acpid 5
+mod-auth-shadow 2
+gnutls28 1
+zlib 3
+jansson 1
+nginx 11
+pdfkit.framework 11
+moodle 50
+puppet 26
+up-imapproxy 1
+unbound 5
+jailer 1
+nfs-utils 2
+tdiary 2
+ettercap 1
+w3mmee-ssl 2
+jabber 1
+namazu2 1
+ganglia 1
+libgcrypt20 2
+changetrack 1
+ht 2
+qt-x11-free 3
+phpldapadmin 5
+zoo 1
+mariadb-10.0 64
+wml 2
+libapache2-mod-auth-pgsql 1
+qpopper 3
+isc-dhcp 11
+libapache-mod-jk 3
+cgiemail 1
+egroupware 6
+systemd 3
+libast 2
+udisks 1
+arc 2
+jasper 11
+iptables 1
+backup-manager 3
+wmtv 3
+bsd-mailx 1
+man2html 2
+dulwich 2
+ruby-actionpack-3.2 8
+gfax 1
+libpng 36
+chromium-browser 450
+libpam-krb5 2
+tor 14
+firefox 775
+drupal7 39
+dokuwiki 8
+gnats 1
+graphicsmagick 12
+request-tracker4 13
+virtualbox-ose 1
+tetex-bin 10
+pdns 10
+radsecproxy 2
+cyrus-sasl2 8
+xterm 1
+nut 1
+icinga 6
+gs-esp 1
+libidn 4
+xfsdump 2
+net-acct 1
+chkrootkit 1
+sqlalchemy 1
+unnamed 45
+reprepro 1
+lhasa 1
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powelaw.py

@@ -0,0 +1,38 @@
+import powerlaw
+from numpy import genfromtxt
+import matplotlib.pyplot as plt
+
+
+mydata = genfromtxt('power_law.csv', delimiter=',', dtype = 'int')
+print(len(mydata))
+print(mydata)
+
+## Build and print probability distribution, bins per 10
+distr = dict()
+for i in mydata:
+    bins = i // 10
+    if bins in distr:
+        distr[bins] += 1
+    else:
+        distr[bins] = 1
+
+for i in distr:
+    print(str(i) + ', ' + str(distr[i]))
+
+
+results=powerlaw.Fit(mydata, True, xmin=1, xmax = 2000)
+print(results.power_law.alpha)
+print(results.truncated_power_law.alpha)
+print(results.power_law.xmin)
+print(results.truncated_power_law.xmin)
+print(results.truncated_power_law.xmax)
+print(results.power_law.discrete)
+print(results.lognormal.mu)
+results.plot_pdf()
+results.power_law.plot_pdf()
+results.truncated_power_law.plot_pdf()
+results.lognormal.plot_pdf()
+plt.plot(results.data)
+plt.show()
+R, p=results.distribution_compare('power_law','lognormal_positive')
+print(R,p)

power_law.csv

@@ -0,0 +1,1179 @@
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