def remove_outliers_knn(
x: pd.DataFrame,
y: np.array,
contamination: float = 0.1) -> Tuple[pd.DataFrame, np.array]:
"""Remove outliers from the training/test set using PyOD's KNN classifier
Args:
x: DataFrame containing the X's
y: target array
contamination: the amount of contamination of the data set
Returns:
x and y with outliers removed
"""
clf = KNN(contamination=contamination, n_jobs=-1)
clf.fit(x)
labels = clf.labels_
print(
"{0:.2%} among {1:,} sample points are identified and removed as outliers"
.format(sum(labels) / x.shape[0], x.shape[0]))
x = x.iloc[labels == 0]
y = y[labels == 0]
return x, y
def train():
dataset = get_data(1000, 10, 100)
contamination = 0.01
with mlflow.start_run():
base_estimators = [
LOF(n_neighbors=5, contamination=contamination),
LOF(n_neighbors=15, contamination=contamination),
LOF(n_neighbors=25, contamination=contamination),
PCA(contamination=contamination),
KNN(n_neighbors=5, contamination=contamination),
KNN(n_neighbors=15, contamination=contamination),
KNN(n_neighbors=25, contamination=contamination)]
model = SUOD(base_estimators=base_estimators, n_jobs=6,
rp_flag_global=True,
bps_flag=True,
approx_flag_global=False,
contamination=contamination)
model.fit(dataset)
model.approximate(dataset)
predicted_labels = model.predict(dataset)
voted_labels = vote(predicted_labels)
true_labels = [0]*1000 + [1]*10
auc_score = roc_auc_score(voted_labels, true_labels)
print("The resulted area under the ROC curve score is {}".format(auc_score))
mlflow.log_metric("auc_score", auc_score)
mlflow.sklearn.log_model(model, "anomaly_model", conda_env="conda.yaml")
def get_all_readings_from_person(self,
person_tag,
remove_outliers=0,
additional_where=""):
#Debug.print_debug(self.file_path)
print(self.file_path)
dataset = sqlite3.connect(self.file_path)
if len(additional_where) > 0:
to_return = self.get_data_sql_query(
"select {} from {} where {} like {} {}".format(
', '.join(self.features), self.table_name,
self.person_column, person_tag, additional_where), dataset)
else:
to_return = self.get_data_sql_query(
"select {} from {} where {} like '{}'".format(
', '.join(self.features), self.table_name,
self.person_column, person_tag), dataset)
self.data = to_return
if (remove_outliers > 0):
knn = KNN(contamination=remove_outliers)
to_return_aux = to_return.copy()
to_return_aux = to_return_aux.drop(self.label_tag, 1)
knn.fit(to_return_aux)
pred = knn.predict(to_return_aux)
to_return = to_return.iloc[np.where(pred == 0)[0], :]
return to_return
def run_KNN_base_detector(data, k, metric='euclidean', p=2, method='mean'):
"""
Function to fit and predict the KNN base detector on `data`.
Input:
- data: pd.DataFrame, to run KNN on
- k: integer, parameter to indicate the amount of neighbours to include in relative density determination
- metric: string, distance metric to use, default `euclidean`
- p: int, default 2 since metric = `euclidean`, otherwise set according to distance metric
Output:
- clf of class pyod.models.knn.KNN with all its properties
"""
# Split data in values and targets: some datasets have an ID column, others don't
try:
X = data.drop(['outlier', 'id'], axis=1)
except KeyError:
X = data.drop('outlier', axis=1)
# Construct and fit classifier
clf = KNN(n_neighbors=k, metric='euclidean', p=p, method=method)
clf.fit(X) # Fit only on features
# Add ground truth labels for evaluation of the classifier
clf.true_labels_ = data['outlier']
# Return the classifier for further processing
return clf
def detectarOutlierKNN(self, idmodelo, Xtodos, corteOutlier):
# Detecao Outliers 1--------------------------------------------------------------
clf = KNN()
clf.fit(Xtodos)
# get outlier scores
y_train_scores = clf.decision_scores_ # raw outlier scores
y_test_scores = clf.decision_function(Xtodos) # outlier scores
YCodigoTodosComOutilier = self.selectMatrizY(idmodelo, "ID", "TODOS")
cont = 0
amostrasRemovidas = 0
for itemOutilier in y_train_scores:
if itemOutilier > corteOutlier:
contTodos = 0
for item in YCodigoTodosComOutilier:
amostra = str(item)
amostra = amostra.replace("[", "")
amostra = amostra.replace("]", "")
if contTodos == cont:
db.execute(
" update amostra set tpamostra = 'OUTLIER' where idamostra = " + str(amostra) + " and idmodelo = " + str(
idmodelo) + "")
print(itemOutilier)
amostrasRemovidas = amostrasRemovidas + 1
break
contTodos = contTodos + 1
cont = cont + 1
session.commit()
print("Numero de Amostras Removidas: " + str(amostrasRemovidas))
return cont
def training(data, img_shape, re_sample_type, text_len, permission_names,
extract_f):
# load training data
print('preparing training data')
inputs, permissions = prepare_training_data(data, img_shape,
re_sample_type, text_len,
permission_names)
# get features
print('generating training features')
features = extract_f.predict(inputs)
# train auto encoder model, knn model
print('training outlier model + knn model')
detectors = []
knn_trees = []
features_in_permissions = [
] # features in each permission, [permission_id, feature_id]
for p in permission_names:
print('training', p, '...')
features_current = []
for i in range(len(permissions)):
if p in permissions[i]:
features_current.append(features[i])
features_in_permissions.append(features_current)
detector = AutoEncoder(epochs=200, verbose=0)
detector.fit(features_current)
detectors.append(detector)
knn = KNN()
knn.fit(features_current)
knn_trees.append(knn)
return detectors, knn_trees, features_in_permissions
def construct_raw_base_estimators():
from pyod.models.knn import KNN
from pyod.models.lof import LOF
from pyod.models.cblof import CBLOF
from pyod.models.hbos import HBOS
from pyod.models.iforest import IForest
from pyod.models.abod import ABOD
from pyod.models.ocsvm import OCSVM
estimator_list = []
# predefined range of n_neighbors for KNN, AvgKNN, and LOF
k_range = [3, 5, 10, 20, 30, 40, 50, 60, 70, 80, 90, 100]
for k in k_range:
estimator_list.append(
KNN(n_neighbors=k, method="largest", contamination=0.05))
estimator_list.append(
KNN(n_neighbors=k, method="mean", contamination=0.05))
estimator_list.append(LOF(n_neighbors=k, contamination=0.05))
# predefined range of nu for one-class svm
nu_range = [0.01, 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 0.99]
for nu in nu_range:
estimator_list.append(OCSVM(nu=nu, contamination=0.05))
# predefined range for number of estimators in isolation forests
n_range = [10, 20, 50, 70, 100, 150, 200, 250]
for n in n_range:
estimator_list.append(
IForest(n_estimators=n, random_state=42, contamination=0.05))
return estimator_list
class IForestSupervisedKNN(BaseDetector):
def __init__(self, get_top=0.8, if_params={}, knn_params={}):
super(IForestSupervisedKNN, self).__init__()
self.get_top = get_top
self.is_fitted = False
self.iforest = IForest(**if_params)
self.knn = KNN(**knn_params)
def fit(self, X, y=None):
X = check_array(X)
self._set_n_classes(y)
self.iforest.fit(X)
scores = self.iforest.predict_proba(X)[:, 1]
normal_instances = X[np.argsort(scores)[:int(len(X) * self.get_top)]]
self.knn.fit(normal_instances)
self.decision_scores_ = self.decision_function(X)
self._process_decision_scores()
self.is_fitted = True
return self
def decision_function(self, X):
check_is_fitted(self, ['is_fitted'])
return self.knn.decision_function(X)
def load_classifiers(outliers_fraction):
outliers_fraction = min(0.5, outliers_fraction)
random_state = np.random.RandomState(42)
# Define nine outlier detection tools to be compared
classifiers = {
'Angle-based Outlier Detector (ABOD)':
ABOD(contamination=outliers_fraction),
'Cluster-based Local Outlier Factor (CBLOF)':
CBLOF(contamination=outliers_fraction,
check_estimator=False,
random_state=random_state),
'Feature Bagging':
FeatureBagging(LOF(n_neighbors=35),
contamination=outliers_fraction,
random_state=random_state),
'Histogram-base Outlier Detection (HBOS)':
HBOS(contamination=outliers_fraction),
'Isolation Forest':
IForest(contamination=outliers_fraction,
random_state=random_state,
behaviour="new"),
'K Nearest Neighbors (KNN)':
KNN(contamination=outliers_fraction),
'Average KNN':
KNN(method='mean', contamination=outliers_fraction),
'Local Outlier Factor (LOF)':
LOF(n_neighbors=35, contamination=outliers_fraction),
'Minimum Covariance Determinant (MCD)':
MCD(contamination=outliers_fraction, random_state=random_state),
'One-class SVM (OCSVM)':
OCSVM(contamination=outliers_fraction),
'Principal Component Analysis (PCA)':
PCA(contamination=outliers_fraction, random_state=random_state)
}
return classifiers
def __load_classifiers(self):
outliers_fraction = 0.05
random_state = np.random.RandomState(0)
classifiers = {
'Cluster-based Local Outlier Factor (CBLOF)':
CBLOF(contamination=outliers_fraction,
check_estimator=False,
random_state=random_state),
'Feature Bagging':
FeatureBagging(LOF(n_neighbors=35),
contamination=outliers_fraction,
random_state=random_state),
'Histogram-base Outlier Detection (HBOS)':
HBOS(contamination=outliers_fraction),
'Isolation Forest':
IForest(contamination=outliers_fraction,
random_state=random_state),
'K Nearest Neighbors (KNN)':
KNN(contamination=outliers_fraction),
'Average KNN':
KNN(method='mean', contamination=outliers_fraction),
'Local Outlier Factor (LOF)':
LOF(n_neighbors=35, contamination=outliers_fraction),
'Minimum Covariance Determinant (MCD)':
MCD(contamination=outliers_fraction, random_state=random_state),
'One-class SVM (OCSVM)':
OCSVM(contamination=outliers_fraction),
}
return classifiers
def __init__(self, window_size, step_size=1, contamination=0.1,
n_neighbors=5, method='largest',
radius=1.0, algorithm='auto', leaf_size=30,
metric='minkowski', p=2, metric_params=None, n_jobs=1,
**kwargs):
super(KDiscord, self).__init__(contamination=contamination)
self.window_size = window_size
self.step_size = step_size
# parameters for kNN
self.n_neighbors = n_neighbors
self.method = method
self.radius = radius
self.algorithm = algorithm
self.leaf_size = leaf_size
self.metric = metric
self.p = p
self.metric_params = metric_params
self.n_jobs = n_jobs
# initialize a kNN model
self.model_ = KNN(contamination=self.contamination,
n_neighbors=self.n_neighbors,
radius=self.radius,
algorithm=self.algorithm,
leaf_size=self.leaf_size,
metric=self.metric,
p=self.p,
metric_params=self.metric_params,
n_jobs=self.n_jobs,
**kwargs)
def some_random_test():
np.set_printoptions(threshold=sys.maxsize)
X = load_npz("X.npz").toarray()
Y = genfromtxt('Y.csv', delimiter=',')
# train kNN detector
clf_name = 'KNN'
clf = KNN()
# find outliers per class
# print(Y.shape)
# print(X[Y == 1.].shape)
# print(X[Y == 0.].shape)
# print(X[Y == 7.].shape)
# collect the outliers in a per class manner
classList = [1.0, 0.0, 7.0]
y_train_pred_total = []
for clas in classList:
clf.fit(X[Y == clas])
y_train_pred_total.append(clf.labels_)
# -------------------------RESULT---------------------
# 0:inlier, 1: outlier
np.array(y_train_pred_total).tofile('outliers.csv',
sep=',',
format='%10.5f')
def distanceBased(self):
'''
@brief Function that implements the distance based component
@param self
@return It returns the vector with the scores of the instances
'''
# Initialize the scores
scores = np.array([0] * len(self.dataset)).astype(float)
for i in range(self.num_iter):
knn = KNN(n_neighbors=5, contamination=self.contamination)
# Number in the interval [50, 1000]
subsample_size = np.random.randint(50, 1001)
sample = []
if subsample_size >= len(self.dataset):
sample = list(range(len(self.dataset)))
else:
# Take the sample and train the model
sample = np.random.choice(len(self.dataset),
size=subsample_size,
replace=False)
knn.fit(self.dataset[sample])
# Update the score to compute the mean
scores[sample] += knn.decision_scores_
# Return the mean
scores = scores / self.num_iter
scores = scale(scores)
return scores
def pred_KNN(self, k=5, comp_with="openaq"):
## hyperparameters for KNN is tuned here
# if self.bool_o_dict == True:
self.comp_with = comp_with
if comp_with == "openaq":
if self.X_o == []:
pred = []
elif self.X_o.shape[0] > k:
self.clf = KNN(n_neighbors=k)
self.clf.fit(self.X_o)
pred = self.clf.labels_
elif self.X_o.shape[0] > 2:
# print(f"The value of k is changed from {k} to {self.X_o.shape[0]-1}")
k = self.X_o.shape[0] - 1
self.clf = KNN(n_neighbors=k)
self.clf.fit(self.X_o)
pred = self.clf.labels_
else:
pred = []
#A_location, B_location, C_location = self.pred_location(pred)
elif comp_with == "cams":
pred = []
for each_X in self.X_c:
# if each_X exists then it will have a shape of (10,8)
self.clf = KNN(n_neighbors=k)
self.clf.fit(each_X)
pred.append(self.clf.labels_[-1])
A_location, B_location, C_location = self.pred_location(pred)
return A_location, B_location, C_location
def stop_train(filename):
"""
Stops training and saves the model as filename.sav
also saves the threshold, mean and standard deviation
in a json file of the same name. Also saves the pca model
"""
pca = PCA(n_components=3)
pca.fit(np.array(train.arr))
with open(filename + 'pca.sav', 'wb') as savpca:
pickle.dump(pca, savpca)
z = find_theta_score(np.array(train.arr), pca)
lof = KNN(n_neighbors=1)
lof.fit(z)
scores = lof.decision_scores_
with open(filename + 'knn.sav', 'wb') as savknn:
pickle.dump(lof, savknn)
mean = scores.mean()
stdev = scores.std()
thres = mean + 18 * stdev
params = {}
params['mean'] = mean
params['std'] = stdev
params['threshold'] = thres
with open(filename + '.json', 'w') as jsonf:
json.dump(params, jsonf)
print()
print("Training Completed")
def removeOutliers(df_flights_list,
contamination=0.001,
n_neighbors=1000,
method='mean'):
'''Remove Outliers'''
lf_array = []
for flights in df_flights_list:
lf_array.append(flights.lf.values)
lf_array = np.array(lf_array)
# Train kNN detector
outlier_model = KNN(contamination=contamination,
n_neighbors=n_neighbors,
method=method)
outlier_model.fit(lf_array)
# Get the prediction labels
outliers_labels = outlier_model.labels_ # binary labels (0: inliers, 1: outliers)
df_flights_list = [
df_flight for index, df_flight in enumerate(df_flights_list)
if outliers_labels[index] == 0
]
return df_flights_list
def fit(self,df):
logging.info("Initializaing Pipeline")
isTraining = True
self.isTraining = isTraining
self.adf = df
self.df = df.copy()
self.numeric_cols = getNumericColumns(df)
self.cat_cols = getCategorialColumns(df)
self.DEPENDENT_VARIABLE = getDependentVariable()
self.cat_cols_useless = [ "encounter_id" , "hospital_id" , "patient_id" , "icu_id"]
self.cat_cols_minus = [c for c in self.cat_cols if c not in ["clusterId","hospital_death", "encounter_id" , "hospital_id" , "patient_id"]]
self.cat_cols_minus_useless = [c for c in self.cat_cols if c not in ["clusterId", "encounter_id" , "hospital_id" , "patient_id" , "icu_id" ]]
self.cols_to_dummy = [c for c in self.cat_cols_minus_useless if c != "hospital_death"]
self.num_mean = SimpleImputer(strategy="median")
self.cat_freq = SimpleImputer(strategy="most_frequent")
self.rs = RobustScaler()
self.pt = PowerTransformer()
self.ohe = OneHotEncoder(handle_unknown='ignore' , sparse=False)
self.outlierKNN = KNN()
self.num_means = [MatrixFactorization() for i in range(4)]
self.cat_freqs = [SimpleImputer(strategy="most_frequent") for i in range(4)]
#self.label_encoders = defaultdict(LabelEncoder)
self.label_encoders = WOEEncoder()
self.later_num_transform = PowerTransformer()
self.X = self.df.drop([self.DEPENDENT_VARIABLE] , axis=1)
self.y = self.df[self.DEPENDENT_VARIABLE]
return self.GetTransformedData(isTraining)
def train_knn_anomaly_detector(input_df: pandas.DataFrame, domain: str, train_fields=(),
n_neighbors=10, contamination=0.1):
"""
:param input_df: The input dataframe
:param domain: The domain (model name)
:param train_fields: The features (numeric only)
:param n_neighbors: Number of neighbors to use by default for k neighbors queries.
:param contamination: The amount of contamination of the data set, i.e. the proportion of outliers in the data set.
Used when fitting to define the threshold on the decision function
:return: A list of predictions with included fields
"""
feature_group_id = hashlib.md5(str(list(train_fields).sort()).encode()).hexdigest()
drop_fields = [field for field in input_df.columns if field not in train_fields]
train_df = input_df.drop(drop_fields, axis=1)
for column in train_df.columns:
train_df[column] = train_df[column].fillna(0)
model_directory = os.path.join(const.DYNAMITE_CONF_ROOT, 'models', 'knn_anomaly_detector', feature_group_id)
model_pkl_file = os.path.join(model_directory, domain + '.pkl')
makedirs(model_directory)
model = KNN(contamination=contamination, n_neighbors=n_neighbors, metric='manhattan')
joblib.dump(model.fit(train_df), model_pkl_file)
def api_alert(influxdb_ip, influxdb_port, influxdb_user, influxdb_pwd,
influxdb_database, influxdb_table, apiid):
timelimit = 'time > now()-1d'
# 访问influxdb
client = InfluxDBClient(influxdb_ip, influxdb_port, influxdb_user,
influxdb_pwd, influxdb_database)
# 获取当前API一天前的数据
result = client.query('select Average, CallCount, ErrorRate from ' +
influxdb_table + ' where ApiId = \'' + apiid +
'\' and ' + timelimit + ';')
# 把resultset格式的数据转换成list格式
apis_table = list(result.get_points(measurement='apis'))
# 把要处理的数据存成DataFrame
df = pd.DataFrame(data=apis_table)
# 去掉不参与运算的列，取训练集x
x = df
x = x.drop("time", axis=1)
# 数据处理一下，归一化，映射到[0,1]
x['CallCount'] = (x['CallCount']-x['CallCount'].min()) / \
(x['CallCount'].max()-x['CallCount'].min())
x['Average'] = (x['Average']-x['Average'].min()) / \
(x['Average'].max()-x['Average'].min())
x['ErrorRate'] = x['ErrorRate'] / 100
# 取最后十秒的数据点作为测试点
x_last = x.tail(1)
#df_last = df.tail(1)
x = x.drop(x.index[-1])
df = df.drop(df.index[-1])
# 转换成numpy格式准备计算
x = x.values
# 训练一个kNN检测器
clf_name = 'kNN'
clf = KNN() # 初始化检测器clf
clf.fit(x) # 使用X_train训练检测器clf
# 给df添加一列显示异常分数
df['score'] = clf.decision_scores_
# 排序分数
df = df.sort_values("score", ascending=False)
#print(df.head(20))
# 新数据预测
test_data = x_last
test_scores = clf.decision_function(test_data)
if (test_scores > 0.8):
print('数据点异常程度4，必须报警')
elif (test_scores > 0.5):
print('数据点异常程度3，需要报警')
elif (test_scores > 0.1):
print('数据点异常程度2，建议报警')
elif (test_scores > 0.05):
print('数据点异常程度1，可以报警')
#这个分级是根据KNN.py的图像分析出来的，0.05以上的很明显是异常点，0.1以上已经出现了离群现象，0.5以上就距离数据点很远了。
#这个值根据训练用的时间相关，一天的数据0.05比较合适。
return test_scores
def __init__(self, get_top=0.8, if_params={}, knn_params={}):
super(IForestSupervisedKNN, self).__init__()
self.get_top = get_top
self.is_fitted = False
self.iforest = IForest(**if_params)
self.knn = KNN(**knn_params)
def median_knn(X_train, X_test, Y_train, Y_test):
from pyod.models.knn import KNN
model = KNN(method='median')
model.fit(X_train)
pred = model.predict(X_test)
acc = np.sum(pred == Y_test) / X_test.shape[0]
print(acc)
return (acc * 100)
def knnAD(self):
clf_name = 'KNN'
clf = KNN()
clf.fit(self.X)
# get the prediction labels and outlier scores of the training data
y_pred = clf.labels_ # binary labels (0: inliers, 1: outliers)
y_scores = clf.decision_scores_ # raw outlier scores
generateAnomalis(self.data, self.label, y_pred)
def train_monitoring_model(data):
logger.info("Training a monitoring model")
X_train, X_test = train_test_split(np.array(data, dtype='float'),
test_size=0.2)
monitoring_model = KNN(contamination=0.05, n_neighbors=15, p=5)
monitoring_model.fit(X_train)
return monitoring_model
def main():
scalers = ['no', 'std', 'minmax']
root = 'Unsupervised_Anamaly_Detection_csv'
start = 0
counts = 90
CPUS = 3
CPUS_Models = 4
sklearn_models = [
'AvgKNN', 'LargestKNN', 'MedKNN', 'PCA', 'COF', 'LODA', 'LOF', 'HBOS',
'MCD', 'AvgBagging', 'MaxBagging', 'IForest', 'CBLOF', 'COPOD', 'SOD',
'LSCPwithLODA', 'AveLMDD', 'VarLMDD', 'IqrLMDD', 'SoGaal', 'MoGaal',
'VAE', 'AutoEncoder'
]
models = {
'BRM': BRM(bootstrap_sample_percent=70),
'GM': GaussianMixture(),
'IF': IsolationForest(),
'OCSVM': OneClassSVM(),
'EE': EllipticEnvelope(),
'AvgKNN': KNN(method='mean'),
'LargestKNN': KNN(method='largest'),
'MedKNN': KNN(method='median'),
'PCA': PCA(),
'COF': COF(),
'LODA': LODA(),
'LOF': LOF(),
'HBOS': HBOS(),
'MCD': MCD(),
'AvgBagging': FeatureBagging(combination='average'),
'MaxBagging': FeatureBagging(combination='max'),
'CBLOF': CBLOF(n_clusters=10, n_jobs=4),
'FactorAnalysis': FactorAnalysis(),
'KernelDensity': KernelDensity(),
'COPOD': COPOD(),
'SOD': SOD(),
'LSCPwithLODA': LSCP([LODA(), LODA()]),
'AveLMDD': LMDD(dis_measure='aad'),
'VarLMDD': LMDD(dis_measure='var'),
'IqrLMDD': LMDD(dis_measure='iqr'),
'SoGaal': SO_GAAL(),
'MoGaal': MO_GAAL(),
'VAE': VAE(encoder_neurons=[8, 4, 2]),
'AutoEncoder': AutoEncoder(hidden_neurons=[6, 3, 3, 6]),
'OCKRA': m_OCKRA(),
}
name = "30_Models"
Parallel(n_jobs=CPUS) \
(delayed(runByScaler)
(root, scaler, models, start, counts,
other_models=sklearn_models,
CPUS=CPUS_Models,
save_name=name)
for scaler in scalers)
def outliers(base):
detector = KNN()
detector.fit(base)
previsoes = detector.labels_
outliers = []
for i in range(len(previsoes)):
if previsoes[i] == 1:
outliers.append(i)
base = base.drop(base.index[outliers])
return base
def setUp(self):
self.n_train = 100
self.n_test = 50
self.contamination = 0.1
self.roc_floor = 0.75
self.X_train, self.y_train, self.X_test, self.y_test = generate_data(
n_train=self.n_train, n_test=self.n_test,
contamination=self.contamination, random_state=42)
self.clf = KNN(contamination=self.contamination, method='median')
def S2(self):
self.S1()
water_data = self.water_data
result = self.result
# 数据预处理及模型训练
clean_data = water_data[water_data['S1'] == 0]
Y = pd.DataFrame(index=clean_data.index, columns=['S2'])
X_train = np.array(clean_data.iloc[:, 1:12])
name = list(clean_data.iloc[:, 1:12].columns.values)
scaler = preprocessing.StandardScaler().fit(X_train)
X_train = scaler.transform(X_train)
clf1 = IForest(contamination=0.05, max_features=11, bootstrap=True)
clf2 = KNN(contamination=0.05, n_neighbors=100)
clf3 = HBOS(contamination=0.05, n_bins=10)
clf4 = PCA(contamination=0.05)
clf1.fit(X_train)
clf2.fit(X_train)
clf3.fit(X_train)
clf4.fit(X_train)
Y['S2'] = clf1.labels_ * clf2.labels_ * clf3.labels_ * clf4.labels_
water_data = pd.concat([water_data, Y], axis=1)
# water_data.loc[water_data['S2'].isna(),['S2']]=0，将S1中异常的，在S2中标注为0；
result['统计异常'] = water_data['S2'].values
# 寻找异常维度
from sklearn.neighbors import KernelDensity
clean_data = water_data[water_data['S1'] == 0]
dens = pd.DataFrame(index=clean_data.index,
columns=[
'temperature', 'pH', 'EC', 'ORP', 'DO',
'turbidity', 'transparency', 'COD', 'P',
'NH3N', 'flux'
])
for i in dens.columns:
kde = KernelDensity(kernel='gaussian', bandwidth=0.5).fit(
clean_data[i].values.reshape(-1, 1))
dens[i] = np.exp(
kde.score_samples(clean_data[i].values.reshape(-1, 1)))
dens = dens.iloc[:, 0:11].rank()
dens['S2_names'] = dens.idxmin(axis=1)
water_data = pd.concat([water_data, dens['S2_names']], axis=1)
self.water_data = water_data
result['统计异常维度'] = water_data['S2_names'].values
# 存储模型
joblib.dump(scaler, "./water_model/S2_scaler")
joblib.dump(clf1, "./water_model/S2_Iforest")
def calculate(method, total_roc, total_prn, x_train, x_test, y_train, y_test):
if method == 'KNN':
clf = KNN()
elif method == 'CBLOF':
clf = CBLOF()
elif method == 'PCA':
clf = PCA()
else:
clf = IForest()
clf.fit(x_train) # 使用x_train训练检测器clf
# 返回训练数据x_train上的异常标签和异常分值
y_train_pred = clf.labels_ # 返回训练数据上的分类标签 (0: 正常值, 1: 异常值)
y_train_scores = clf.decision_scores_ # 返回训练数据上的异常值 (分值越大越异常)
print("On train Data:")
evaluate_print(method, y_train, y_train_scores)
# 用训练好的clf来预测未知数据中的异常值
y_test_pred = clf.predict(x_test) # 返回未知数据上的分类标签 (0: 正常值, 1: 异常值)
y_test_scores = clf.decision_function(x_test) # 返回未知数据上的异常值 (分值越大越异常)
print("On Test Data:")
evaluate_print(method, y_test, y_test_scores)
y_true = column_or_1d(y_test)
y_pred = column_or_1d(y_test_scores)
check_consistent_length(y_true, y_pred)
roc = np.round(roc_auc_score(y_true, y_pred), decimals=4),
prn = np.round(precision_n_scores(y_true, y_pred), decimals=4)
total_roc.append(roc)
total_prn.append(prn)
def setUp(self):
self.n_train = 200
self.n_test = 100
self.contamination = 0.1
self.roc_floor = 0.8
self.X_train, self.y_train, self.X_test, self.y_test = generate_data(
n_train=self.n_train, n_test=self.n_test,
contamination=self.contamination, random_state=42)
self.clf = KNN(contamination=self.contamination)
self.clf.fit(self.X_train)
def setUp(self):
self.n_train = 100
self.n_test = 50
self.contamination = 0.1
self.roc_floor = 0.75
self.X_train, self.y_train, self.X_test, self.y_test = generate_data(
n_train=self.n_train,
n_test=self.n_test,
contamination=self.contamination)
self.clf = KNN(contamination=self.contamination)
self.clf.fit(self.X_train)
class TestKnnMedian(unittest.TestCase):
def setUp(self):
self.n_train = 100
self.n_test = 50
self.contamination = 0.1
self.roc_floor = 0.75
self.X_train, self.y_train, self.X_test, self.y_test = generate_data(
n_train=self.n_train, n_test=self.n_test,
contamination=self.contamination, random_state=42)
self.clf = KNN(contamination=self.contamination, method='median')
def test_fit(self):
self.clf.fit(self.X_train)
def test_decision_function(self):
self.clf.fit(self.X_train)
self.clf.decision_function(self.X_train)
self.clf.decision_function(self.X_test)
def test_sklearn_estimator(self):
check_estimator(self.clf)
def tearDown(self):
pass
def setUp(self):
self.n_train = 100
self.n_test = 50
self.contamination = 0.1
self.roc_floor = 0.75
self.X_train, self.y_train, self.X_test, self.y_test = generate_data(
n_train=self.n_train, n_test=self.n_test,
contamination=self.contamination, random_state=42)
self.clf = KNN(contamination=self.contamination, method='median')
if __name__ == "__main__":
contamination = 0.1 # percentage of outliers
n_train = 200 # number of training points
n_test = 100 # number of testing points
# Generate sample data
X_train, y_train, X_test, y_test = \
generate_data(n_train=n_train,
n_test=n_test,
n_features=2,
contamination=contamination,
random_state=42)
# train kNN detector
clf_name = 'KNN'
clf = KNN()
clf.fit(X_train)
# get the prediction labels and outlier scores of the training data
y_train_pred = clf.labels_ # binary labels (0: inliers, 1: outliers)
y_train_scores = clf.decision_scores_ # raw outlier scores
# get the prediction on the test data
y_test_pred = clf.predict(X_test) # outlier labels (0 or 1)
y_test_scores = clf.decision_function(X_test) # outlier scores
# evaluate and print the results
print("\nOn Training Data:")
evaluate_print(clf_name, y_train, y_train_scores)
print("\nOn Test Data:")
evaluate_print(clf_name, y_test, y_test_scores)
n_clf = 20 # number of base detectors
# Initialize 20 base detectors for combination
k_list = [10, 20, 30, 40, 50, 60, 70, 80, 90, 100, 110, 120, 130, 140,
150, 160, 170, 180, 190, 200]
train_scores = np.zeros([X_train.shape[0], n_clf])
test_scores = np.zeros([X_test.shape[0], n_clf])
print('Combining {n_clf} kNN detectors'.format(n_clf=n_clf))
for i in range(n_clf):
k = k_list[i]
clf = KNN(n_neighbors=k, method='largest')
clf.fit(X_train_norm)
train_scores[:, i] = clf.decision_scores_
test_scores[:, i] = clf.decision_function(X_test_norm)
# Decision scores have to be normalized before combination
train_scores_norm, test_scores_norm = standardizer(train_scores,
test_scores)
# Combination by average
y_by_average = average(test_scores_norm)
evaluate_print('Combination by Average', y_test, y_by_average)
# Combination by max
y_by_maximization = maximization(test_scores_norm)
evaluate_print('Combination by Maximization', y_test, y_by_maximization)
class TestKnn(unittest.TestCase):
def setUp(self):
self.n_train = 100
self.n_test = 50
self.contamination = 0.1
self.roc_floor = 0.6
self.X_train, self.y_train, self.X_test, self.y_test = generate_data(
n_train=self.n_train, n_test=self.n_test,
contamination=self.contamination, random_state=42)
self.clf = KNN(contamination=self.contamination)
self.clf.fit(self.X_train)
def test_sklearn_estimator(self):
check_estimator(self.clf)
def test_parameters(self):
assert_true(hasattr(self.clf, 'decision_scores_') and
self.clf.decision_scores_ is not None)
assert_true(hasattr(self.clf, 'labels_') and
self.clf.labels_ is not None)
assert_true(hasattr(self.clf, 'threshold_') and
self.clf.threshold_ is not None)
assert_true(hasattr(self.clf, '_mu') and
self.clf._mu is not None)
assert_true(hasattr(self.clf, '_sigma') and
self.clf._sigma is not None)
def test_train_scores(self):
assert_equal(len(self.clf.decision_scores_), self.X_train.shape[0])
def test_prediction_scores(self):
pred_scores = self.clf.decision_function(self.X_test)
# check score shapes
assert_equal(pred_scores.shape[0], self.X_test.shape[0])
# check performance
assert_greater(roc_auc_score(self.y_test, pred_scores), self.roc_floor)
def test_prediction_labels(self):
pred_labels = self.clf.predict(self.X_test)
assert_equal(pred_labels.shape, self.y_test.shape)
def test_prediction_proba(self):
pred_proba = self.clf.predict_proba(self.X_test)
assert_greater_equal(pred_proba.min(), 0)
assert_less_equal(pred_proba.max(), 1)
def test_prediction_proba_linear(self):
pred_proba = self.clf.predict_proba(self.X_test, method='linear')
assert_greater_equal(pred_proba.min(), 0)
assert_less_equal(pred_proba.max(), 1)
def test_prediction_proba_unify(self):
pred_proba = self.clf.predict_proba(self.X_test, method='unify')
assert_greater_equal(pred_proba.min(), 0)
assert_less_equal(pred_proba.max(), 1)
def test_prediction_proba_parameter(self):
with assert_raises(ValueError):
self.clf.predict_proba(self.X_test, method='something')
def test_fit_predict(self):
pred_labels = self.clf.fit_predict(self.X_train)
assert_equal(pred_labels.shape, self.y_train.shape)
def test_fit_predict_score(self):
self.clf.fit_predict_score(self.X_test, self.y_test)
self.clf.fit_predict_score(self.X_test, self.y_test,
scoring='roc_auc_score')
self.clf.fit_predict_score(self.X_test, self.y_test,
scoring='prc_n_score')
with assert_raises(NotImplementedError):
self.clf.fit_predict_score(self.X_test, self.y_test,
scoring='something')
def test_predict_rank(self):
pred_socres = self.clf.decision_function(self.X_test)
pred_ranks = self.clf._predict_rank(self.X_test)
# assert the order is reserved
assert_allclose(rankdata(pred_ranks), rankdata(pred_socres), atol=2)
assert_array_less(pred_ranks, self.X_train.shape[0] + 1)
assert_array_less(-0.1, pred_ranks)
def test_predict_rank_normalized(self):
pred_socres = self.clf.decision_function(self.X_test)
pred_ranks = self.clf._predict_rank(self.X_test, normalized=True)
# assert the order is reserved
assert_allclose(rankdata(pred_ranks), rankdata(pred_socres), atol=2)
assert_array_less(pred_ranks, 1.01)
assert_array_less(-0.1, pred_ranks)
def tearDown(self):
pass
