def start(self):
# perform some logging
self.jlogger.info("Starting job with job id {}".format(self.job_id))
self.jlogger.debug("Job Config: {}".format(self.config))
self.jlogger.debug("Job Other Data: {}".format(self.job_data))
try:
rud.ReadUserData(self)
fg.FeatureGeneration(self, is_train=True)
pp.Preprocessing(self, is_train=True)
fs.FeatureSelection(self, is_train=True)
fe.FeatureExtraction(self, is_train=True)
clf.Classification(self)
cv.CrossValidation(self)
tsg.TestSetGeneration(self)
tspp.TestSetPreprocessing(self)
tsprd.TestSetPrediction(self)
job_success_status = True
except:
job_success_status = False
helper.update_running_job_status(self.job_id, "Errored")
self.jlogger.exception("Exception occurred in ML Job {} ".format(
self.job_id))
return job_success_status
def buildTestsTrainings(self):
""" Do the cross validation with the protein classes """
self.crossValidation = CrossValidation.CrossValidation()
self.crossValidation.addClass(self.oxidoreductaseProteinList)
self.crossValidation.addClass(self.transferaseProteinList)
self.crossValidation.addClass(self.hydrolaseProteinList)
self.crossValidation.addClass(self.lyaseProteinList)
self.crossValidation.addClass(self.isomeraseProteinList)
self.crossValidation.addClass(self.ligaseProteinList)
def test_addClass(self):
""" test adding a class """
crossValidation = CrossValidation.CrossValidation()
self.class1 = self.createClass('1', 148)
self.class2 = self.createClass('2', 17)
crossValidation.addClass(self.class1)
crossValidation.addClass(self.class2)
self.assertCrossValidation(crossValidation)
def run_part3(trainX, trainY, testX, testY, lr, eps, max_iter, lmd_reg, k=1):
valid_loss = []
smp_num, dim_num = trainX.shape
test_num = smp_num / k # sample number of a validation set
random_index = random.sample(xrange(0, smp_num),
smp_num) # for randomized split
for lmd in lmd_reg:
loss = cv.CrossValidation(trainX, trainY, lr, eps, max_iter, lmd, k,
test_num, random_index)
valid_loss.append(loss)
print "for diff lambda, their final validation loss are:", valid_loss
def __init__(self, path_folder, winlen):
if winlen != None:
self.winlen_ = winlen
else:
self.winlen_ = 0.025
self.reader_ = WaveReader.WaveReader(path_folder)
(self.signals, self.rate) = self.reader_.read_all()
self.converter = WaveToMfcc.WaveToMfcc(self.signals,
self.rate,
self.winlen_,
nfilt=30,
ncep=7)
self.gmm_table_ = []
self.cross_split = CrossValidation.CrossValidation(
self.converter.list_of_speakers, 2)
self.results_ = np.array([])
self.rr_ = np.array([])
def test_getNumberTests(self):
""" Tests the getNumberTests method """
crossValidation = CrossValidation.CrossValidation()
actual_test1 = crossValidation.getNumberTests(73)
actual_test2 = crossValidation.getNumberTests(117)
actual_test3 = crossValidation.getNumberTests(131)
actual_test4 = crossValidation.getNumberTests(51)
actual_test5 = crossValidation.getNumberTests(47)
actual_test6 = crossValidation.getNumberTests(17)
expected_test1 = 7, 10
expected_test2 = 12, 9
expected_test3 = 13, 14
expected_test4 = 5, 6
expected_test5 = 5, 2
expected_test6 = 1, 8
self.assertEqual(actual_test1, expected_test1)
self.assertEqual(actual_test2, expected_test2)
self.assertEqual(actual_test3, expected_test3)
self.assertEqual(actual_test4, expected_test4)
self.assertEqual(actual_test5, expected_test5)
self.assertEqual(actual_test6, expected_test6)
## Replace my references with references to your answers to those assignments.
## IMPORTANT NOTE !!
## Remember to install the Pillow library (which is required to execute 'import PIL')
## Remember to install Pytorch: https://pytorch.org/get-started/locally/ (if you want GPU you need to figure out CUDA...)
from PIL import Image
import torchvision
import torchvision.transforms as transforms
import torch
import numpy as np
import Assignment5Support
import EvaluationsStub
import CrossValidation
crossValidation = CrossValidation.CrossValidation(3)
import Featurize
if __name__=='__main__':
kDataPath = '../dataset_B_Eye_Images'
(xRaw, yRaw) = Assignment5Support.LoadRawData(kDataPath, includeLeftEye = True, includeRightEye = True)
(xTrainRaw, yTrainRaw, xTestRaw, yTestRaw) = Assignment5Support.TrainTestSplit(xRaw, yRaw, percentTest = .25)
print('Train is %f percent closed.' % (sum(yTrainRaw)/len(yTrainRaw)))
print('Test is %f percent closed.' % (sum(yTestRaw)/len(yTestRaw)))
# Load the images and then convert them into tensors (no normalization)
xTrainImages = [ Image.open(path) for path in xTrainRaw ]
xTrain, yTrain = Featurize.Featurize(xTrainImages, yTrainRaw)
print(f'Training data size: {xTrain.size()}')
dataset = DataSet(filename='../config/referral_source.txt')
path_to_file = os.path.join( gen_dir, filename+'.csv')
df = pd.read_csv(path_to_file, sep=',')
sf_univarate = dataset.univariate_selection(data=df, k_best=(len(df.loc[0]) - 1) )
sf_univarate.insert(0, 'value')
sf_importance = dataset.f_importance(data=df, n_attrs =(len(df.loc[0]) - 1) )
sf_importance.insert(0, 'value')
nm = NetworkModel()
ds = CrossValidation()
result_list = []
if feature_selection_name == 'univ':
f_selection = sf_univarate
elif feature_selection_name == 'impot':
f_selection = sf_importance
tmp_row = []
for layers in ann_proposal:
for momentum in momentum_proposal:
model = nm.create_model(layers=layers,
input_size=number_of_features,
output_size=len(set(df['value'])) ,
momentum=momentum)
def main():
print ""
print "\t+----------------------------------------------------------------+"
print "\t| |"
print "\t| CROSS VALIDATION OF LEARNING FORM EXAMPLE MODULES (LEM1) |"
print "\t| RULE INDUCTION ALGORITHM |"
print "\t| Author : Madhu Chegondi |"
print "\t| KUID : m136c192 |"
print "\t| |"
print "\t+----------------------------------------------------------------+"
print ""
dataFile = raw_input("\tEnter Name Of DataFile : ")
while (True):
if (dataFile):
try:
dfp = open('Data/' + dataFile, 'r')
# This Program assumes that first 2 lines of the input data filename have
# < a a a d >
# [ attribute1 attribute2 attribute3 decision ]
header1 = dfp.readline()
header2 = dfp.readline().strip().split()
AttNames = header2[1:-1]
DesName = header2[-2]
attr = []
decisions = []
for line in dfp:
if re.match(r'^\!.*', line) or line.strip() == '':
continue
line.strip()
values = line.split()
rawData = {}
des = {}
for i in range(len(values) - 1):
try:
if (type(float(values[i])) == float):
rawData[AttNames[i]] = float(values[i])
except ValueError:
rawData[AttNames[i]] = values[i]
attr.append(rawData)
des[DesName] = values[-1]
decisions.append(des.items())
break
except:
print "\t\tERROR: Enter A Valid File Name\n"
dataFile = raw_input("\tEnter Name Of DataFile : ")
else:
dataFile = raw_input("\tEnter Name Of DataFile : ")
print "\n\tCROSS VALIDATION TECHNIQUES"
print "\t\t1. BOOTSTRAP CROSS VALIDATION"
print "\t\t2. LEAVING ONE OUT CROSS VALIDATION"
choice = raw_input("\n\tENTER YOUR CHOICE OF CROSS VALIDATION (1 or 2) : ")
while True:
if choice == '1' or choice == '2':
break
else:
choice = raw_input(
"\tENTER YOUR CHOICE OF CROSS VALIDATION (1 or 2) : ")
samples = None
if choice == '1':
method = 'Bootstrap'
print "\n\tCONFIGURING BOOTSTRAP"
samples = raw_input(
"\t\tHow many samples do you wish to create (default 200 samples) : "
)
else:
method = 'LeaveOneOut'
CrossValidation.CrossValidation(attr, decisions, DesName, method, samples,
dataFile)
def executeSVM(X_train, y_train, OX_test, oy_test):
learning_rates = [1e-5, 1e-8]
regularization_strengths = [10e2, 10e4]
results = {}
best_val = -1
best_svm = None
# X_train = getCIFAR_as_32Pixels_Image(X_train)
# OX_test = getCIFAR_as_32Pixels_Image(OX_test)
accuracy = []
totalAccuracy = 0.0
## Implementing Cross Validation
crossValidObj = CrossValidation(5, X_train, y_train)
foldsGen = crossValidObj.generateTrainAndTest()
for i in range(5):
next(foldsGen)
X_test = OX_test
X_train = crossValidObj.train
y_train = crossValidObj.labels_train
X_val = crossValidObj.test
y_val = crossValidObj.labels_test
# Preprocessing: reshape the image data into rows
X_train = np.reshape(X_train, (X_train.shape[0], -1))
X_val = np.reshape(X_val, (X_val.shape[0], -1))
X_test = np.reshape(X_test, (X_test.shape[0], -1))
# Normalize the data: subtract the mean image
mean_image = np.mean(X_train, axis=0)
X_train -= mean_image
X_val -= mean_image
X_test -= mean_image
# Add bias dimension and transform into columns
X_train = np.hstack([X_train, np.ones((X_train.shape[0], 1))]).T
X_val = np.hstack([X_val, np.ones((X_val.shape[0], 1))]).T
X_test = np.hstack([X_test, np.ones((X_test.shape[0], 1))]).T
SVM_sgd = SVM()
losses_sgd = SVM_sgd.train(X_train,
y_train,
method='sgd',
batch_size=200,
learning_rate=1e-6,
reg=1e5,
num_iters=1000,
verbose=False,
vectorized=True)
y_train_pred_sgd = SVM_sgd.predict(X_train)[0]
print('Training accuracy: %f' % (np.mean(y_train == y_train_pred_sgd)))
y_val_pred_sgd = SVM_sgd.predict(X_val)[0]
print('Validation accuracy: %f' % (np.mean(y_val == y_val_pred_sgd)))
i = 0
interval = 5
for learning_rate in np.linspace(learning_rates[0],
learning_rates[1],
num=interval):
i += 1
print('The current iteration is %d/%d' % (i, interval))
for reg in np.linspace(regularization_strengths[0],
regularization_strengths[1],
num=interval):
svm = SVM()
svm.train(X_train,
y_train,
method='sgd',
batch_size=200,
learning_rate=learning_rate,
reg=reg,
num_iters=1000,
verbose=False,
vectorized=True)
y_train_pred = svm.predict(X_train)[0]
y_val_pred = svm.predict(X_val)[0]
train_accuracy = np.mean(y_train == y_train_pred)
val_accuracy = np.mean(y_val == y_val_pred)
results[(learning_rate, reg)] = (train_accuracy, val_accuracy)
if val_accuracy > best_val:
best_val = val_accuracy
best_svm = svm
else:
pass
# Print out the results
for learning_rate, reg in sorted(results):
train_accuracy, val_accuracy = results[(learning_rate, reg)]
print('learning rate %e and regularization %e, \n \
the training accuracy is: %f and validation accuracy is: %f.\n' %
(learning_rate, reg, train_accuracy, val_accuracy))
print(accuracy)
y_test_predict_result = best_svm.predict(X_test)
y_test_predict = y_test_predict_result[0]
test_accuracy = np.mean(oy_test == y_test_predict)
accuracy.append(test_accuracy)
totalAccuracy += test_accuracy
print('The test accuracy is: %f' % test_accuracy)
print(accuracy)
avgAccuracy = totalAccuracy / 5.0
print('Average Accuracy: %f' % avgAccuracy)