def initialize(trainingfeatures,traininglabels,p=0.7):
alldata = ClassificationDataSet(trainingfeatures.shape[1], 1, nb_classes=len(set(traininglabels)))
for i in xrange(traininglabels[0]):
alldata.appendLinked(trainingfeatures[i] , traininglabels[i])
trndata, tstdata = alldata.splitWithProportion( p )
trndata._convertToOneOfMany(bounds=[0, 1])
tstdata._convertToOneOfMany(bounds=[0, 1])
model, accuracy, params = buildANN(trndata, tstdata)
print '\nThe best model had '+str(accuracy)+'% accuracy and used the parameters:\n'+params+'\n'
return model
def main():
print "Calculating mfcc...."
mfcc_coeff_vectors_dict = {}
for i in range(1, 201):
extractor = FeatureExtractor(
'/home/venkatesh/Venki/FINAL_SEM/Project/Datasets/Happiness/HappinessAudios/' + str(i) + '.wav')
mfcc_coeff_vectors = extractor.calculate_mfcc()
mfcc_coeff_vectors_dict.update({str(i): (mfcc_coeff_vectors, mfcc_coeff_vectors.shape[0])})
for i in range(201, 401):
extractor = FeatureExtractor(
'/home/venkatesh/Venki/FINAL_SEM/Project/Datasets/Sadness/SadnessAudios/' + str(i - 200) + '.wav')
mfcc_coeff_vectors = extractor.calculate_mfcc()
mfcc_coeff_vectors_dict.update({str(i): (mfcc_coeff_vectors, mfcc_coeff_vectors.shape[0])})
audio_with_min_frames, min_frames = get_min_frames_audio(
mfcc_coeff_vectors_dict)
processed_mfcc_coeff = preprocess_input_vectors(
mfcc_coeff_vectors_dict, min_frames)
# frames = min_frames
# print frames
# print len(processed_mfcc_coeff['1'])
# for each_vector in processed_mfcc_coeff['1']:
# print len(each_vector)
print "mffcc found..."
classes = ["happiness", "sadness"]
training_data = ClassificationDataSet(
26, target=1, nb_classes=2, class_labels=classes)
# training_data = SupervisedDataSet(13, 1)
try:
network = NetworkReader.readFrom(
'network_state_frame_level_new2_no_pp1.xml')
except:
for i in range(1, 51):
mfcc_coeff_vectors = processed_mfcc_coeff[str(i)]
for each_vector in mfcc_coeff_vectors:
training_data.appendLinked(each_vector, [1])
for i in range(201, 251):
mfcc_coeff_vectors = processed_mfcc_coeff[str(i)]
for each_vector in mfcc_coeff_vectors:
training_data.appendLinked(each_vector, [0])
training_data._convertToOneOfMany()
print "prepared training data.."
print training_data.indim, training_data.outdim
network = buildNetwork(
training_data.indim, 5, training_data.outdim, fast=True)
trainer = BackpropTrainer(network, learningrate=0.01, momentum=0.99)
print "Before training...", trainer.testOnData(training_data)
trainer.trainOnDataset(training_data, 1000)
print "After training...", trainer.testOnData(training_data)
NetworkWriter.writeToFile(
network, "network_state_frame_level_new2_no_pp.xml")
def start():
featuresList=[]
labelsList=[]
featuresList, labelsList= loadFile("output.txt")
print 'Normalizing array...'
normalizearray(featuresList)
alldata = ClassificationDataSet( len(featuresList[0]), 1, nb_classes=8, class_labels=['ffi_brainmatter','ffi_neuron','ffi_vacuole','ffi_astrocyte', 'wt_brainmatter', 'wt_neuron', 'wt_vacuole', 'wt_astrocyte'] )
for i in range(len(labelsList)):
alldata.appendLinked(featuresList[i], labelsList[i])
#print 'All data: ', alldata
#print 'Statisticcs: ', alldata.calculateStatistics()
newK=fSel.getTreeFeatures(featuresList, labelsList);
newK=newK.shape[1]
print "K= ", newK
reducedFeatures= fSel.getBestK(featuresList,labelsList, 'f_classif', newK)
reducedData=ClassificationDataSet( len(reducedFeatures[0]), 1, nb_classes=8, class_labels=['ffi_brainmatter','ffi_neuron','ffi_vacuole','ffi_astrocyte', 'wt_brainmatter', 'wt_neuron', 'wt_vacuole', 'wt_astrocyte'] )
#prep reducedData object with reduced feature list
for i in range(len(labelsList)):
reducedData.appendLinked(reducedFeatures[i], labelsList[i])
print 'Splitting test and training data...'
tstdata, trndata = alldata.splitWithProportion( 0.30 )
reducedTestData, reducedTrainData=reducedData.splitWithProportion(0.3)
print 'Number of training and test patterns: ', len(trndata), len(tstdata)
trndata._convertToOneOfMany(bounds=[0,1])
tstdata._convertToOneOfMany(bounds=[0,1])
reducedTestData._convertToOneOfMany(bounds=[0,1])
reducedTrainData._convertToOneOfMany(bounds=[0,1])
#print "Number of training patterns: ", len(trndata)
print "Input and output dimensions: ", trndata.indim, trndata.outdim
#print "Sample (input, target, class):"
#print trndata['input'][0], trndata['target'][0], trndata['class'][0]
#print trndata['input'][1], trndata['target'][1], trndata['class'][1]
buildFNN(tstdata, trndata)
print "___________________________________________FEATURE REDUCTION________________________________________________"
buildFNN(reducedTestData, reducedTrainData)
def _createL1Dataset(self, classifiers, l1PreDataset):
l1DatasetDimensions = classifiers[0].distributionLength() * len(classifiers)
l1Dataset = ClassificationDataSet(l1DatasetDimensions, nb_classes=2)
for instance in l1PreDataset:
input = instance[0]
target = instance[1]
l1Input = _getLevel1Input(classifiers, input, self.useDistributions)
l1Dataset.appendLinked(l1Input, target)
return l1Dataset
def _createDatasetForClass(self, dataset, classValue):
datasetForClass = ClassificationDataSet(dataset.getDimension('input'), nb_classes=2)
for instance in dataset:
input = instance[0]
target = instance[1]
if target[0] == classValue:
datasetForClass.appendLinked(input, [1])
else:
datasetForClass.appendLinked(input, [0])
return datasetForClass
def main():
print "Calculating mfcc...."
mfcc_coeff_vectors_dict = {}
for i in range(1, 201):
extractor = FeatureExtractor('/home/venkatesh/Venki/FINAL_SEM/Project/Datasets/Happiness/HappinessAudios/' + str(i) + '.wav')
mfcc_coeff_vectors = extractor.calculate_mfcc()
mfcc_coeff_vectors_dict.update({str(i): (mfcc_coeff_vectors, mfcc_coeff_vectors.shape[0])})
for i in range(201, 401):
extractor = FeatureExtractor('/home/venkatesh/Venki/FINAL_SEM/Project/Datasets/Sadness/SadnessAudios/' + str(i - 200) + '.wav')
mfcc_coeff_vectors = extractor.calculate_mfcc()
mfcc_coeff_vectors_dict.update({str(i): (mfcc_coeff_vectors, mfcc_coeff_vectors.shape[0])})
audio_with_min_frames, min_frames = get_min_frames_audio(mfcc_coeff_vectors_dict)
processed_mfcc_coeff = preprocess_input_vectors(mfcc_coeff_vectors_dict, min_frames)
frames = min_frames
print "mfcc found...."
classes = ["happiness", "sadness"]
try:
network = NetworkReader.readFrom('network_state_new_.xml')
except:
# Create new network and start Training
training_data = ClassificationDataSet(frames * 26, target=1, nb_classes=2, class_labels=classes)
# training_data = SupervisedDataSet(frames * 39, 1)
for i in range(1, 151):
mfcc_coeff_vectors = processed_mfcc_coeff[str(i)]
training_data.appendLinked(mfcc_coeff_vectors.ravel(), [1])
# training_data.addSample(mfcc_coeff_vectors.ravel(), [1])
for i in range(201, 351):
mfcc_coeff_vectors = processed_mfcc_coeff[str(i)]
training_data.appendLinked(mfcc_coeff_vectors.ravel(), [0])
# training_data.addSample(mfcc_coeff_vectors.ravel(), [0])
training_data._convertToOneOfMany()
network = buildNetwork(training_data.indim, 5, training_data.outdim)
trainer = BackpropTrainer(network, learningrate=0.01, momentum=0.99)
print "Before training...", trainer.testOnData(training_data)
trainer.trainOnDataset(training_data, 1000)
print "After training...", trainer.testOnData(training_data)
NetworkWriter.writeToFile(network, "network_state_new_.xml")
print "*" * 30 , "Happiness Detection", "*" * 30
for i in range(151, 201):
output = network.activate(processed_mfcc_coeff[str(i)].ravel())
# print output,
# if output > 0.7:
# print "happiness"
class_index = max(xrange(len(output)), key=output.__getitem__)
class_name = classes[class_index]
print class_name
def _getFilteredDataset(self, dataset, pair):
datasetForPair = ClassificationDataSet(dataset.getDimension('input'), nb_classes=2)
for instance in dataset:
input = instance[0]
target = instance[1]
classValue = target[0]
# First class in pair is negative class and the second one is a positive class
if classValue == pair[0]:
datasetForPair.appendLinked(input, [0])
elif classValue == pair[1]:
datasetForPair.appendLinked(input, [1])
return datasetForPair
def _createGradingDataset(self, baseClassifier, gradingSet, numOfAttirubes):
gradingDataset = ClassificationDataSet(numOfAttirubes, nb_classes=2, class_labels=["Incorrect", "Correct"])
for instance in gradingSet:
# Get attributes from the instances
attributes = instance[0]
# Get class from the instance
cls = instance[0][0]
prediction = baseClassifier.getPrediction(attributes)
if prediction == cls:
gradingDataset.appendLinked(attributes, [CorrectPrediction])
else:
gradingDataset.appendLinked(attributes, [IncorrectPrediction])
return gradingDataset
def _testTrainingOnClassificationDataset(self):
DS = ClassificationDataSet(2, class_labels=['Zero', 'One'])
DS.appendLinked([ 0, 0 ] , [0])
DS.appendLinked([ 0, 1 ] , [0])
DS.appendLinked([ 1, 0 ] , [0])
DS.appendLinked([ 1, 1 ] , [1])
network = buildNetwork(DS.indim, 5, 2, outclass=SoftmaxLayer)
trainer = BackpropTrainer( network, momentum=0.1, verbose=True, weightdecay=0.01)
nnf = NeuralNetworkFactory(network, trainer, seed=2, iterationsNum=20)
nnClassifier = nnf.buildClassifier(DS)
self.assertEqual(nnClassifier.getPrediction([0, 0]), 0)
self.assertEqual(nnClassifier.getPrediction([0, 1]), 0)
self.assertEqual(nnClassifier.getPrediction([1, 0]), 0)
self.assertEqual(nnClassifier.getPrediction([1, 1]), 1)
from pybrain.tools.shortcuts import buildNetwork from pybrain.datasets.classification import ClassificationDataSet, SequenceClassificationDataSet from pybrain.supervised.trainers import BackpropTrainer from pybrain.structure.connections import FullConnection from pybrain.structure.modules import TanhLayer, LSTMLayer # Load Dataset. ds = ClassificationDataSet(2, class_labels=['zero', 'one']) ds.appendLinked((0, 0), 0) ds.appendLinked((0, 1), 0) ds.appendLinked((1, 0), 1) ds.appendLinked((1, 1), 0) # Load Dataset. sds = SequenceClassificationDataSet(1, 1) sds.appendLinked(0, 0) sds.appendLinked(0, 0) sds.newSequence() sds.appendLinked(0, 0) sds.appendLinked(1, 0) sds.newSequence() sds.appendLinked(1, 0) sds.appendLinked(0, 1) sds.newSequence() sds.appendLinked(1, 0) sds.appendLinked(1, 0) sds.newSequence() print ds['input'] print ds['target']
def testTwoDimensionalLinearClassificationTest(self):
# Class number one - points from I quadrant of Cartesian coordinates
# Class number two - points from III quadrant of Cartesian coordinates
testDataset = ClassificationDataSet(2, nb_classes=2, class_labels=["I-Quadrant", "III-Quadrant"])
testDataset.appendLinked([2, 2], [0])
testDataset.appendLinked([4, 2], [0])
testDataset.appendLinked([5, 0], [0])
testDataset.appendLinked([0, 5], [0])
testDataset.appendLinked([3, 2], [0])
testDataset.appendLinked([8, 1], [0])
testDataset.appendLinked([1, 8], [0])
testDataset.appendLinked([-4, -2], [1])
testDataset.appendLinked([-3, -2], [1])
testDataset.appendLinked([-8, -1], [1])
testDataset.appendLinked([-1, -5], [1])
testDataset.appendLinked([-2, -2], [1])
testDataset.appendLinked([-5, -5], [1])
optimizer = GradientOptimizer(minChange=1e-6)
optimizer.maxLearningSteps = 1000
optimizer.verbose = False
lrf = LogisticRegressionFactory(optimizer)
classifier = lrf.buildClassifier(testDataset)
self.assertEqual(classifier.getPrediction([3, 3]), 0)
self.assertEqual(classifier.getPrediction([2, 4]), 0)
self.assertEqual(classifier.getPrediction([10, 10]), 0)
self.assertEqual(classifier.getPrediction([9, 5]), 0)
self.assertEqual(classifier.getPrediction([-4, -4]), 1)
self.assertEqual(classifier.getPrediction([-20, -20]), 1)
self.assertEqual(classifier.getPrediction([-8, -3]), 1)
self.assertEqual(classifier.getPrediction([-9, -9]), 1)
def testOneDimensionalClassificationTest(self):
# Imaginable medical dataset. If tumor is small it is benigh, otherwise it is malignant.
tumorDataset = ClassificationDataSet(1, nb_classes=2, class_labels=["Benign", "Malignant"])
tumorDataset.appendLinked([0.1], [0])
tumorDataset.appendLinked([0.15], [0])
tumorDataset.appendLinked([0.2], [0])
tumorDataset.appendLinked([0.33], [0])
tumorDataset.appendLinked([0.23], [0])
tumorDataset.appendLinked([0.4], [0])
tumorDataset.appendLinked([0.8], [1])
tumorDataset.appendLinked([1.4], [1])
tumorDataset.appendLinked([2.3], [1])
tumorDataset.appendLinked([0.9], [1])
tumorDataset.appendLinked([1.9], [1])
tumorDataset.appendLinked([2.9], [1])
optimizer = GradientOptimizer(minChange=1e-6)
optimizer.maxLearningSteps = 1000
optimizer.verbose = False
lrf = LogisticRegressionFactory(optimizer)
classifier = lrf.buildClassifier(tumorDataset)
self.assertEqual(classifier.getPrediction([0.2]), 0)
self.assertEqual(classifier.getPrediction([0.1]), 0)
self.assertEqual(classifier.getPrediction([0.3]), 0)
self.assertEqual(classifier.getPrediction([0.001]), 0)
self.assertEqual(classifier.getPrediction([1.2]), 1)
self.assertEqual(classifier.getPrediction([2.2]), 1)
self.assertEqual(classifier.getPrediction([3.2]), 1)
self.assertEqual(classifier.getPrediction([1.9]), 1)
def testNonLinearClassificaion(self):
# This tests checks if logistic regression classifier will able
# to classify non linear separable data
# Data set consists of two classes were elements of class 0
# are inside the circle of radius 0.5 and elements with class 1
# are outside this circle
dataset = ClassificationDataSet(4, nb_classes=2, class_labels=["0", "1"])
dataset.appendLinked(self._getSquaredTerms([0.5, 0.5]), [0])
dataset.appendLinked(self._getSquaredTerms([0, 0.5]), [0])
dataset.appendLinked(self._getSquaredTerms([0.5, 0]), [0])
dataset.appendLinked(self._getSquaredTerms([0, 0]), [0])
dataset.appendLinked(self._getSquaredTerms([0.3, 0.2]), [0])
dataset.appendLinked(self._getSquaredTerms([0.3, -0.5]), [0])
dataset.appendLinked(self._getSquaredTerms([-0.3, 0.5]), [0])
dataset.appendLinked(self._getSquaredTerms([-0.4, 0]), [0])
dataset.appendLinked(self._getSquaredTerms([0.6, -0.3]), [0])
dataset.appendLinked(self._getSquaredTerms([-0.3, -0.5]), [0])
dataset.appendLinked(self._getSquaredTerms([2, 4]), [1])
dataset.appendLinked(self._getSquaredTerms([4, -5]), [1])
dataset.appendLinked(self._getSquaredTerms([-3, 2]), [1])
dataset.appendLinked(self._getSquaredTerms([4, 4]), [1])
dataset.appendLinked(self._getSquaredTerms([-3, 5]), [1])
dataset.appendLinked(self._getSquaredTerms([-2, -4]), [1])
dataset.appendLinked(self._getSquaredTerms([-5, 0]), [1])
dataset.appendLinked(self._getSquaredTerms([5, 0]), [1])
dataset.appendLinked(self._getSquaredTerms([4, 3]), [1])
dataset.appendLinked(self._getSquaredTerms([-5, 1]), [1])
optimizer = GradientOptimizer(minChange=1e-6)
optimizer.maxLearningSteps = 1000
optimizer.verbose = False
lrf = LogisticRegressionFactory(optimizer)
classifier = lrf.buildClassifier(dataset)
self.assertEqual(classifier.getPrediction(self._getSquaredTerms([0.1, 0.1])), 0)
self.assertEqual(classifier.getPrediction(self._getSquaredTerms([0.1, -0.1])), 0)
self.assertEqual(classifier.getPrediction(self._getSquaredTerms([-0.1, 0.1])), 0)
self.assertEqual(classifier.getPrediction(self._getSquaredTerms([-0.1, -0.1])), 0)
self.assertEqual(classifier.getPrediction(self._getSquaredTerms([4, 4])), 1)
self.assertEqual(classifier.getPrediction(self._getSquaredTerms([4, -4])), 1)
self.assertEqual(classifier.getPrediction(self._getSquaredTerms([-4, 4])), 1)
self.assertEqual(classifier.getPrediction(self._getSquaredTerms([-4, -4])), 1)