def project_solution(height, length, gs_x, gs_y, u_in, cc, au, av, ap, rho, mu):
# Get Mesh
u_grid, v_grid, p_grid = Preprocessing.gen_mesh(height, length, gs_x, gs_y)
# Get Initial Values
u, v, p = Preprocessing.initial_con(u_grid[0].shape[0], u_grid[1].shape[0], u=0., v=0., p=0.)
# Get Boundary Conditions
bc = Preprocessing.boundary_cond('velocity', 'velocity gradient', 'no slip', 'no slip', [u_in, None, None, None])
# Create viewers
p_viewer = Viewer.FlowContours(p, p_grid[0], p_grid[1], [0, 0, length, height], 'Pressure')
x_v_viewer = Viewer.FlowContours(u, u_grid[0], u_grid[1], [0, 0, length, height], 'X Velocity')
y_v_viewer = Viewer.FlowContours(v, v_grid[0], v_grid[1], [0, 0, length, height], 'Y Velocity')
s = Solver.Solution(p, u, v, u_grid[0], v_grid[0], v_grid[1], u_grid[1], bc, cc, au, av, ap, rho, mu, p_viewer,
x_v_viewer, y_v_viewer)
p = s.p_n[s.ni/2:-1, s.nj/2]
dp = p[-1]-p[0]
print 'dp/dx = ' + str(dp/(gs_x*(len(p)-1)))
print 'max U = ' + str(s.u_n[s.ni/2:-1, s.nj/2].max())
print 'max V = ' + str(s.v_n[s.ni/2:-1, s.nj/2].max())
Viewer.keep_open()
def oldNewDupes(sources=glob.glob("duplicate/sources/*.txt"),
suspectDupe=glob.glob("duplicate/duplicates/*.txt")):
dupesDictionary = {}
for src in sources:
duplicates = []
doc = open(src, 'r', encoding='utf-8')
string = doc.read()
doc.close()
src_tokens = nltk.word_tokenize(Preprocessing.process(string))
for dp in suspectDupe.copy():
if src == dp:
continue
doc = open(dp, 'r', encoding='utf-8')
dupe = doc.read()
doc.close()
dupe = nltk.word_tokenize(Preprocessing.process(dupe))
if jaccard(set(src_tokens), set(dupe)) > 0.9:
duplicates.append(ntpath.basename(dp))
suspectDupe.remove(dp)
print(ntpath.basename(src))
print(ntpath.basename(dp))
try:
dupesDictionary[ntpath.basename(src)] = duplicates
except:
dupesDictionary = {ntpath.basename(src): duplicates}
return dupesDictionary
def runEpisode(ale, agent, stepsRemaining):
maxEpisodeDuration = 60 * 60 * 5 #Max game duration is 5 minutes, at 60 fps
framesElapsed = 0
totalEpisodeReward = 0
ale_game_over = False
screenObservation = ale.getScreenRGB()
preprocessedObservation = Preprocessing.preprocessALEObservation(screenObservation, agent.inputHeight, agent.inputWidth)
action = agent.startEpisode(preprocessedObservation)
while not ale_game_over and framesElapsed < stepsRemaining and framesElapsed < maxEpisodeDuration:
framesElapsed += 1
reward = ale.act(action)
totalEpisodeReward += reward
if ale.game_over():
ale_game_over = True
screenObservation = ale.getScreenRGB()
preprocessedObservation = Preprocessing.preprocessALEObservation(screenObservation, agent.inputHeight, agent.inputWidth)
action = agent.stepEpisode(reward, preprocessedObservation)
ale.reset_game()
avgLoss = agent.endEpisode(0)
return framesElapsed, totalEpisodeReward, avgLoss
def getImage():
while True:
if lib.ftrScanGetFrame(hDevice, pointer(pBuffer), None)==1:
#print "Done!\n\nWriting to file......\n"
vect = bytearray(pBuffer.raw)
outputIm = Image.new("RGB", (ImageSize.nWidth, ImageSize.nHeight))
outputIm.putdata(vect)
base_name = '/home/samara/Documentos/TG/Amostras/Valter/Valter1'+str(datetime.datetime.now()).replace(':','_').replace('/','_')+'.jpeg'
img = outputIm.save(base_name)
#image_64 = base64.encodestring(open(img,"rb").read())
#image_64 = unicode(base64.encodestring(open(img,"rb").read()))
#print(image_64)
#print('ok-teste')
#return img
#print('ok')
#print(img)
improveImage = Preprocessing.improveImage(base_name)
skeletonization = Preprocessing.skeletonization(improveImage)
createKeyPoints = Preprocessing.createKeyPoints(skeletonization)#
encryptFingerprint = Preprocessing.encryptFingerprint(createKeyPoints)
print(encryptFingerprint)
#teste = Preprocessing.webservice(encryptFingerprint)
#print(image_64)
return encryptFingerprint
break
else:
PrintErrorMessage(lib.ftrScanGetLastError())
sleep(0.2)
print 'System Terminate'
lib.ftrScanCloseDevice(hDevice)
def predict_and_write(self, min, max, alp):
mnb = MultinomialNB(alpha=alp)
train_data = Preprocessing.process_train()
test_set = Preprocessing.process_test()
x_test = test_set[1]
id_data = test_set[0]
x_all = train_data[:, 0]
y_all = train_data[:, 1]
vectorizer = TfidfVectorizer(min_df=min,
max_df=max,
ngram_range=(1, 1),
stop_words='english',
strip_accents='ascii')
output = vectorizer.fit_transform(x_all)
x_all = output[:, :]
mnb.fit(x_all, y_all)
x_test = vectorizer.transform(x_test.ravel())[:, :]
y_pred = mnb.predict(x_test).ravel()
y_pred = y_pred.reshape(len(y_pred), 1)
y_pred = np.concatenate((id_data.reshape(len(id_data), 1), y_pred),
axis=1)
first = ["Id", "Category"]
y_pred = np.concatenate((np.array(first).reshape(1, 2), y_pred),
axis=0)
np.savetxt("prediction.csv", y_pred, fmt="%s", delimiter=",")
CSVChange.write()
return
def runEpisode(ale, agent, stepsRemaining):
maxEpisodeDuration = 60 * 60 * 5 #Max game duration is 5 minutes, at 60 fps
framesElapsed = 0
totalEpisodeReward = 0
ale_game_over = False
screenObservation = ale.getScreenRGB()
preprocessedObservation = Preprocessing.preprocessALEObservation(
screenObservation, agent.inputHeight, agent.inputWidth)
action = agent.startEpisode(preprocessedObservation)
while not ale_game_over and framesElapsed < stepsRemaining and framesElapsed < maxEpisodeDuration:
framesElapsed += 1
reward = ale.act(action)
totalEpisodeReward += reward
if ale.game_over():
ale_game_over = True
screenObservation = ale.getScreenRGB()
preprocessedObservation = Preprocessing.preprocessALEObservation(
screenObservation, agent.inputHeight, agent.inputWidth)
action = agent.stepEpisode(reward, preprocessedObservation)
ale.reset_game()
avgLoss = agent.endEpisode(0)
return framesElapsed, totalEpisodeReward, avgLoss
def preprocess_aalto_hand_data_sequences(
data,
time_per_frame=1 / 240.,
max_skipped_frames=30,
remove_timestamp_column=True,
min_seq_length=240,
representation=Representations.REPRESENTATION_XYZ,
reorder_columns=True,
verbose=True):
data, step_index = preprocess_aalto_hand_data(
data,
remove_timestamp_column=False,
representation=representation,
reorder_columns=reorder_columns,
verbose=verbose,
returnStepIndex=True)
data = pre.assign_sequence_ids(data, time_per_frame, max_skipped_frames)
print '%d. Added a sequence id column: Found %d sequences based on %.6fs per frame and a maximum gap of %d skipped frames.' \
% (step_index, data['Sequence_id'].max(), time_per_frame, max_skipped_frames)
step_index += 1
if min_seq_length is not None:
data = pre.remove_short_sequences(data, min_seq_length)
data = data.reset_index()
num_seqs_left = len(data.groupby('Sequence_id'))
print '%d. Removed %d short sequences (shorter than %d frames), leaving %d sequences.' \
% (step_index, data['Sequence_id'].max()-num_seqs_left, min_seq_length, num_seqs_left)
step_index += 1
if remove_timestamp_column:
data = remove_time_column(data, step_index, verbose)
step_index += 1
return data
def SI():
global svc_clf, P300_clf
ind = random.randint(0, 25)
print("num =", ind)
Series = np.load("../npSave/Pavarisa280219R06.npy")[ind, 0, :, :]
print(np.asarray(Series).shape)
bb, a = pre.butter_bandpass(0.5, 30, 500, order=5)
bandpassData = pre.lfilter(bb, a, Series)
print(bandpassData.shape)
KaiserData = []
for i in range(8):
tmp = pre.KaiserFil(bandpassData[i])
KaiserData.append(tmp)
phaseData = np.array(
[np.unwrap(np.angle(hilbert(i))) for i in bandpassData])
powerData = np.array([np.abs(hilbert(i)) for i in bandpassData])
aaa = np.ravel((phaseData, powerData))
A = np.reshape(aaa, (1, -1))
Seq = []
output = svc_clf.decision_function(A) # np.array([FeaturedData]))[0]
for j in range(26):
Seq.append([-output[0][j], j])
Seq.sort() # sort percentage
SI_result = ''
for t in Seq[0:9]: # เลือก 9 ตัวที่มี percent มากสุด
SI_result = SI_result + 'ABCDEFGHIJKLMNOPQRSTUVWXYZ'[
t[1]] # แปรผลเป็นตัวอักษรimport socket
print('Result:' + SI_result)
return SI_result
def browse_file():
global filename
filename = filedialog.askopenfilename()
print(filename)
# Audio preprocessing
pr.noise_reductionM1(filename)
def test_order_files_to_paires(self):
self.assertEqual(Preprocessing.order_files_to_paires(["testfile35_1.fastq.gz", "testfile36_2.fastq.gz", "testfile36_1.fastq.gz", "testfile35_2.fastq.gz"]),
[("testfile35_1.fastq.gz", "testfile35_2.fastq.gz"), ("testfile36_1.fastq.gz", "testfile36_2.fastq.gz")])
with self.assertRaises(Exception) as context:
Preprocessing.order_files_to_paires(["testfile35_1.fastq.gz", "testfile36_2.fastq.gz", "testfile36_1.fastq.gz"]),
self.assertTrue("File_list argument does not contain pair for '" + "testfile35_1.fastq.gz" + "'" in str(context.exception))
def work(self):
Prep.process(self.saveFilename)
self.saveFilenameRes = 'imgResult.png'
self.res = TI.KNNDigits(self.saveFilenameRes)
self.result.set("Your number is " + str(self.res))
#self.lblRight.labelText = self.result
#.lblRight.grid(row=0, column=0, sticky="nsew")
self.displayPictureRight()
def upload():
# Panggil UploadForm dari form.py
form = UploadForm()
docList = renderDocList()
global fileList , wordList , mVec
# Jika ada file tersubmit, ambil nama file (secured oleh werkzeug) , cek ekstensinya jika .txt, simpan file ke folder test
if form.validate_on_submit():
for files in form.file.data :
filename = secure_filename(files.filename)
file_ext = os.path.splitext(filename)[1]
if file_ext != '.txt':
flash(f'Format of file(s) uploaded is not allowed (.txt only), file submission canceled!' , 'danger')
return redirect(url_for('upload'))
files.save('../test/' + filename)
flash(f'File(s) added!' , 'success')
# Karena ada input file baru, database kamus di-update
# Menampung semua nama file ke dalam suatu variabel list fileList
fileList = []
for root, dirs, files in os.walk('../test', topdown=False):
for name in files :
dir = os.path.join(root,name).split('\\') # Mengambil hanya nama filenya, tidak bersama direktori yang displit oleh \
fileList.append(dir[1])
contentList = []
for name in fileList :
# Menampung tiap konten dalam tiap file, melakukan cleaning, konversi ke token, menghapus stopword, dan lemmatize
content = Read.readfile('../test/'+name)
content = Read.cleaning(content)
content = Read.token(content)
content = Preprocessing.stopwords(content)
content = Preprocessing.stemming(content)
# Menggabungkan semua konten menjadi satu list
contentList.append(content)
# Membuat variabel penampung kata-kata yang ada di dokumen
wordList = []
for content in contentList :
for word in content :
if word not in wordList :
wordList.append(word)
# Membuat variabel penampung jumlah kemunculan tiap kata pada tiap data
mVec = [[0 for x in range(len(wordList))] for y in range(len(fileList))]
j = 0
for content in contentList :
for word in content :
for i in range(len(wordList)) :
if word == wordList[i] :
mVec[j][i] = mVec[j][i] + 1
j = j + 1
return redirect(url_for('upload'))
return render_template('upload.html', form=form, docs = docList)
def prepare_faces():
base_path = 'E:/BosphorusDB/ply/'
persons = get_person_ids(base_path)
for person in persons:
print person
person_path = base_path + person + '_filtered'
s_save_path = person_path.replace('ply',
'npy').replace('_filtered', '')
pr.convert_ply_to_npy(person_path, s_save_path)
def prepFiles(self, type):
self.cleanRepository()
tabFiles = []
Prep.preprocess(self.saveFilename, type)
for file in os.listdir(self.dirPrep):
if file.endswith(".png"):
tabFiles.append(self.dirPrep + '/' + file)
return tabFiles
def solution_zscore(self, solution):
new_solution = list()
new_x = 0
for index, x in enumerate(solution):
new_x = 0
new_x = (x - PRE.average(self.pre_processedX[index + 1])) / (
PRE.standard_deviation(self.pre_processedX[index + 1]))
new_solution.append(new_x)
return new_solution
def main():
# Load Data
train_data, test_data = prep.load_data()
# Encode Categorical Variables
x_train, y_train, x_test, id_test = prep.encode_categories(train_data, test_data)
# Decompositions
pca = PCA(n_components=5)
ica = FastICA(n_components=5, max_iter=1000)
tsvd = TruncatedSVD(n_components=5)
gp = GaussianRandomProjection(n_components=5)
sp = SparseRandomProjection(n_components=5, dense_output=True)
def describeLines(image,numPoints=8,radius=1,eps=1e-7):
imageLines=preprocessing.getHorizontalImageLinesGray(image,20)
concattinatedImage=preprocessing.concatinateLines(imageLines)
# compute the Local Binary Pattern representation
# of the image, and then use the LBP representation
# to build the histogram of patterns
lbp = feature.local_binary_pattern(concattinatedImage, numPoints,radius, method="default")
(hist, _) = np.histogram(lbp, bins=256, range=(0,256))
#(hist, _) = np.histogram(lbp.ravel(),bins=np.arange(0, numPoints + 3),range=(0, numPoints + 2))
# normalize the histogram [np.where(lbp<255)]
hist = hist.astype("float")
hist /= (hist.sum())
# return the histogram of Local Binary Patterns
return hist[0:255].tolist()
def plot_examples(path):
img = cv2.imread(
path,
cv2.IMREAD_GRAYSCALE)
height = img.shape[0]
width = img.shape[1]
img_prewitt=Preprocessing.prewitt(img,width,height,True)
img_roberts= Preprocessing.roberts(img,width,height,True)
plt.imshow(img_prewitt, cmap = 'Greys')
plt.title('Prewitt operator')
plt.show()
plt.imshow(img_roberts, cmap='Greys')
plt.title('Roberts operator')
plt.show()
def build_phoneme_object(pair_index, word_index, info):
phonemes = []
for phoneme_index in range(3, len(info[pair_index][word_index])):
if info[pair_index][word_index][phoneme_index] == '':
break
start = 0 if phoneme_index == 3 else \
Preprocessing.toInt((info[pair_index][word_index + 1][phoneme_index - 1]))
end = Preprocessing.toInt(info[pair_index][word_index + 1][phoneme_index])
phoneme = {'phoneme': info[pair_index][word_index][phoneme_index],
'start': start,
'end': end
}
phonemes.append(phoneme)
return phonemes
def train_regressor(filename):
pipe = Pipeline([('reduce_dim', TruncatedSVD(n_components=70)), ('regression', MLPRegressor(solver='lbfgs'))])
param_grid={'regression__hidden_layer_sizes':[(230,),(300,)],'regression__alpha':[0.0001,0.1,0.01]}
mlp = GridSearchCV(pipe, param_grid,cv=10)
features,labels,sparse_encoder,int_encoder = Preprocessing.feature_extraction_regression_train(filename)
mlp.fit(features,labels)
return mlp,sparse_encoder,int_encoder
def text_clean_df(merged_df, trans_df, pipeline=TOPIC_PIPELINE):
df1 = text_df(merged_df, trans_df)
col_processed = [
pre.text_preprocessing(text, pipeline) for text in tqdm(df1['Convo_1'])
]
df1['Convo_1'] = cc.untokenize(col_processed)
return df1
def createJsonRepresentation(app):
unit = getUnit(app)
root = {}
allWits = []
rdgs = [el for el in app.childNodes if el.nodeType == 1]
for rdg in rdgs:
appLevel = {}
appLevel['id'] = rdg.getAttribute('wit')
tokenList = []
ws = rdg.getElementsByTagName('w')
for ind, w in enumerate(ws):
if not 3 in [child.nodeType for child in w.childNodes]:
continue
currentWord = w
if ind == 0:
previousWord = ''
else:
previousWord = ws[ind-1]
token = {}
token['t'] = currentWord.toxml()[8 + len(w.getAttribute('n')):-4]
token['n'] = Preprocessing.conflate(currentWord)
token['u'] = unit
tokenList.append(token)
appLevel['tokens'] = tokenList
allWits.append(appLevel)
root['witnesses'] = allWits
return json.loads(json.dumps(root))
def search(sentence):
result = {}
words = Preprocessing.Clean(sentence)
for word in words:
q = db.search(qr.Word == word)
rating = []
try:
for i in range(len(q[0]['Count'])):
rating.append(q[0]['Place'][i] - q[0]['Count'][i])
documents = q[0]['Documents']
rating, documents = (list(t)
for t in zip(*sorted(zip(rating, documents))))
result[word] = documents
except:
pass
if sentence.startswith('"') and sentence.endswith('"'):
res = ()
if len(words) > 1 and result:
for r in result:
if res:
res = res.intersection(result[r])
else:
res = set(result[r])
return {'result': list(res)}
else:
return result
else:
return result
def test(X, cutline, columns):
X.drop("scores", axis='columns', inplace=True)
anomaly_path = "./CIC-output/normal-1.pcap_Flow.csv"
anomaly_data = Preprocessing.load_df(anomaly_path)
result = []
c = 1
for xi in range(len(anomaly_data)):
nth_data = list()
for x in list(anomaly_data.columns):
nth_data.append(anomaly_data.loc[xi,x])
X.loc[len(X)] = nth_data
#LOF
clf = LocalOutlierFactor(n_neighbors=2, contamination=0.1)
y_pred = clf.fit_predict(X.values)
X_scores = clf.negative_outlier_factor_
X_scores = np.array(X_scores, dtype=np.float64)
print("[{}] - {}".format(c, -X_scores[-1]))
if -X_scores[-1] >= cutline:
result.append(-1) # out
c+=1
else:
result.append(1) # in
c+=1
print('=====')
X = X.drop(X.index[len(X)-1])
print("\n\n")
print("FileName : {}".format(anomaly_path))
print(result)
print("-1 : {}".format(result.count(-1)))
print("1 : {}".format(result.count(1)))
return ''
def run_OMR(inputPath, classifiersPath):
image, useAugmented = Preprocessing.read_and_preprocess_image(inputPath)
Processing = Pipeline.Augmented if useAugmented else Pipeline.Standard
Classifier.load_classifiers(classifiersPath)
image = Processing.remove_brace(image)
lineImage, staffDim = Processing.extract_staff_lines(image)
groups = Processing.split_bars(image, lineImage, staffDim)
output = []
for group in groups:
components, sanitized, staffDim, lineImage, dotBoxes = Processing.segment_image(
group)
Classifier.assign_components(sanitized, components, staffDim)
Processing.join_meters(components)
Processing.bind_accidentals_to_following_notes(components)
Processing.bind_dots_to_notes(components, dotBoxes)
Processing.assign_note_tones(components, sanitized, lineImage,
staffDim, group)
output.append(Display.get_guido_notation(components))
return output
def random_forest():
modelPath = "RandomForest1.joblib"
dataFile = pd.read_csv(self.filePath)
# Preprocessing:
f = Preprocessing("output.csv")
f.preprocessing("filetest.csv")
file_data = pd.read_csv("output.csv")
file_data_test = file_data.drop(['RainTomorrow'], axis=1)
rf = load(modelPath)
result = rf.predict(file_data_test)
df = pd.DataFrame(result)
label = Label(self.canvas, text=df)
label.config(font=("Helvetica", 17))
label.place(x=850, y=150)
def getFeatureVector(image):
_, allcontour = preprocessing.segmentCharactersUsingProjection(
image, "contorBasedOrientation")
histDirections = np.zeros(9)
totalContourpixels = 0
for i in range(len(allcontour)):
totalContourpixels += len(allcontour[i])
for j in range(len(allcontour[i]) - 1):
xdiff = allcontour[i][j][0] - allcontour[i][j + 1][0]
ydiff = allcontour[i][j][1] - allcontour[i][j + 1][1]
if xdiff < 0 and ydiff < 0:
histDirections[1] += 1
elif xdiff == 0 and ydiff > 0:
histDirections[2] += 1
elif xdiff > 0 and ydiff < 0:
histDirections[3] += 1
elif xdiff > 0 and ydiff == 0:
histDirections[4] += 1
elif xdiff > 0 and ydiff > 0:
histDirections[5] += 1
elif xdiff == 0 and ydiff > 0:
histDirections[6] += 1
elif xdiff < 0 and ydiff > 0:
histDirections[7] += 1
elif xdiff < 0 and ydiff == 0:
histDirections[8] += 1
return (histDirections / totalContourpixels).tolist()
def train(filename):
fileTrain = xlrd.open_workbook(filename)
dataTrain = fileTrain.sheet_by_index(0)
rowLen = dataTrain.nrows
filePreprocessed = openpyxl.Workbook()
dataPreprocessed = filePreprocessed.active
for i in range(0, rowLen):
data_i = dataTrain.cell(i,0).value
class_i = dataTrain.cell(i, 1).value
prep = Preprocessing.preprocess(data_i)
# print(prep)
if prep:
# prep = list(prep).split()
for i in range(0,len(prep)):
dataPreprocessed.append([''.join(prep[i]), class_i])
filePreprocessed.save("dataset_preprocessing.xlsx")
# FeatureSelection.mutualInformation()
# FeatureSelection.elimination()
# NaiveBayes.classify(filename)
def predict(self, X, means, std_devs):
X = Preprocessing.zscore_norm_prediction(X, means, std_devs)
solution = self.forward_propagation(X)[-1]
print('----- SOLUTION -----')
print(solution.item((0, 0)))
def train_dimension_reduction(filename):
pipe = Pipeline([('reduce_dim', TruncatedSVD()), ('classification', SVC())])
param_grid={'reduce_dim__n_components': [70,75,85,100,120], 'classification__kernel':['poly','linear','rbf'], 'classification__C':[0.1,0.5,1,2]}
svm = GridSearchCV(pipe, param_grid,cv=10)
features,labels,sparse_encoder,int_encoder = Preprocessing.feature_extraction_sparse_train(filename)
svm.fit(features,labels)
return svm,sparse_encoder,int_encoder
def train_sparse( filename ):
svm = SVC()
features,labels,sparse_encoder,int_encoder = Preprocessing.feature_extraction_sparse_train(filename)
param_grid={'kernel':['poly','linear','rbf'], 'C': [0.1,0.5,0.9,1,2]}
best_svm = GridSearchCV(svm, param_grid,cv=10)
best_svm.fit(features,labels)
return best_svm,sparse_encoder,int_encoder
def preprocess(self, img_face):
Size_For_Eye_Detection = (48, 48)
img_face = cv2.resize(img_face, Size_For_Eye_Detection,
Image.ANTIALIAS)
img_norm = Preprocessing.LBH_Norm(img_face)
# img_norm = Preprocessing.mask_on_rect(img_norm)
return img_norm, img_face
def save_preprocessed_tweets(self):
with open(self.tweets_not_processed_file_path, 'r',
encoding='utf-8') as csv_r_file:
csv_reader = csv.reader(csv_r_file)
path = r"./data"
self.tweets_processed_file_path = os.path.join(path,\
self.tweets_not_processed_file_name[:14]+\
self.tweets_not_processed_file_name[18:])
# print(self.tweets_processed_file_path)
with open(self.tweets_processed_file_path,
'w',
encoding='utf-8',
newline='') as csv_w_file:
csv_writer = csv.writer(csv_w_file)
csv_writer.writerow(['tweet_id', 'processed_tweet'])
#skip headers
next(csv_reader)
for tweet in csv_reader:
if (len(tweet) == 2):
processed_tweet = preprocess.preprocess_tweets("".join(
tweet[1]))
# print(processed_tweet)
t = processed_tweet
t = " ".join(t)
csv_writer.writerow([tweet[0], t])
return self.tweets_processed_file_path
def createWordCloud(text):
#removes STOPWORDS from the chart to make more readable
return WordCloud(stopwords=Preprocessing.stemText(
STOPWORDS | {'endofsen', 'endofpar', 'said', 'say', 'will'}),
background_color="white",
width=500,
height=500).generate(text)
def integrator():
K=5
Preprocessing.main()
Boostrap.main(Preprocessing.inputSet)
#print(Boostrap.testSet)
global prediction
prediction={}
#bootstrapVoting
for i in range(Boostrap.NO_OF_BOOTSTRAPS):
print("*** %d BootStrap ****" %(i))
#prediction[i]=KNN.main(Boostrap.bootstrap[i],Boostrap.testSet,K)
(inputToRectifier,probabilityChart, priors, featureAndValues, trainSetLength)=NaiveBayes.NaiveBayes(Boostrap.bootstrap[i])
print("********DECIION TREE************")
tree=DecisionTree.GenerateTreeFromDatasetGivenByAssorter(inputToRectifier)
print("********DECIION TREE ENDS************")
print("********TEST NAIVE START************")
probabilityDistributionChart=NaiveBayes.GetProbabilityDistributionTable(probabilityChart, priors, featureAndValues, Boostrap.testSet,trainSetLength)
print("********TEST NAIVE ENDS************")
print("********PREDICTION START************")
prediction[i]=DecisionTree.PredictedList(probabilityDistributionChart,tree,Boostrap.testSet)
#print("***prediction***",prediction)
print("*********** BootStrapVoting *************")
boostrapVoting()
calculateTestError()
import datetime, json, os, Preprocessing, sys, xml.dom.minidom as minidom
os.chdir(os.path.abspath(os.path.dirname(__file__)))
args = sys.argv
assert len(args) == 3, "Expected 4 arguments exactly! -i followed by input directory path"
assert '-i' in args and os.path.exists(args[args.index('-i')+1]), "Invalid input directory"
path = args[args.index('-i')+1]
xmls = filter(lambda x: str(x.split('.')[len(x.split('.'))-1]) == 'xml' , os.listdir(path))
l = len(xmls)
count = 0
print
for afile in xmls:
count += 1
Preprocessing.updateProgressBar('XMLtoJSON.py', float(100)*count/l)
unit = Preprocessing.parseName(afile)
root = {}
alldocs = []
rdgs = [el for el in minidom.parse(os.path.join(path, afile)).getElementsByTagName('*') if el.localName in ['lem', 'rdg']]
for rdg in rdgs:
docLevel = {}
docLevel['id'] = rdg.getAttribute('wit')
tokenList = []
ws = rdg.getElementsByTagName('w')
words = []
for w in range(len(ws)):
if not 3 in [child.nodeType for child in ws[w].childNodes]: #checking presence of text nodes inside the w
continue
currentWord = ws[w]
previousWord = ''
if textNodeValue != '-':
normalizedAttrValue = token[0]['n']
else:
textNodeValue = ''
normalizedAttrValue = ''
tokenElement.appendChild(doc.createTextNode(textNodeValue))
tokenElement.setAttribute('n', normalizedAttrValue)
tokenElement.setAttribute('u', unitValue)
tokenElement.setAttribute('witness', nameToNumber[number])
blockElement.appendChild(tokenElement)
number += 1
line.appendChild(blockElement)
return pseudoPrettyPrint(normalChars(line.toprettyxml().encode('utf-8')))
if os.path.exists('output.xml'):
os.remove('output.xml')
with codecs.open('output.xml', 'a') as out:
out.write('<collationOutput>\n')
for app in apps:
c += 1
Preprocessing.updateProgressBar('Collation', float(100)*c/l)
collationResults = collate_pretokenized_json(createJsonRepresentation(app), 'json')
out.write(processColumn(collationResults, getUnit(app)))
if c % FLUSH == 0:
Preprocessing.updateProgressBar('Collation', float(100)*c/l, True)
gc.collect()
out.write('</collationOutput>')
print '\nTook', datetime.datetime.now() - startTime, 'to execute.'
filenameTesting = "../../data/testing_48x48_aligned_large.p_R.csv.gz"
totTime = 0
count = 0
show = True
ok = 0
preds = 0
import matplotlib.pyplot as plt
plt.ion()
pos = np.arange(6)+.5
with gzip.open(filenameTesting) as f:
reader = csv.reader(f)
for row in reader:
truePerson = int(row[0])
vals = np.asarray(row[1:], np.float)
start = time.time()
preprocessed = Preprocessing.preprocess(vals, None, 46, show)
res = pred.getPrediction(preprocessed / 255.)
totTime += time.time() - start
predPerson = int(res.argmax())
plt.clf()
plt.yticks(pos, ('Dejan', 'Diego', 'Martin', 'Oliver', 'Rebekka', 'Ruedi'))
predPValue = res[0][res.argmax()]
if (predPValue > 0.9):
preds += 1
if predPerson == truePerson:
if (predPValue > 0.9):
ok += 1
col = 'g'
else:
col = 'r'
plt.barh(pos, np.asarray(res[0], dtype = float), align='center', color = col)
import pandas as pd
import Preprocessing as prep
train_data = pd.read_csv('data/train.csv')
preprocessed_data = prep.preprocess(train_data)
print preprocessed_data.describe()
def evaluate_lenet5(topo, learning_rate=0.005, n_epochs=500, datasetName='mnist.pkl.gz',
batch_size=4242, stateIn = None, stateOut = None):
rng = numpy.random.RandomState(23455)
theano_rng = RandomStreams(numpy.random.randint(2 ** 30))
#Original
#datasets = load_data(dataset)
#n_out = 10
datasets = Preprocessing.load_pictures()
# pickle.dump(datasets, open( datasetName, "wb" ) ) #Attention y is wrong
# print("Saveing the pickeled data-set")
#Loading the pickled images
#print("Loading the pickels data-set " + str(datasetName))
#datasets = pickle.load(open(datasetName, "r"))
n_out = 6
batch_size = 10
print(" Learning rate " + str(learning_rate))
# Images for face recognition
#train_set_x, train_set_y = datasets[0]
valid_set_x, valid_set_y = datasets[0]
test_set_x, test_set_y = datasets[1]
# compute number of minibatches for training, validation and testing
n_valid_batches = valid_set_x.get_value(borrow=True).shape[0]
n_test_batches = test_set_x.get_value(borrow=True).shape[0]
n_valid_batches /= batch_size
n_test_batches /= batch_size
# allocate symbolic variables for the data
index = T.lscalar() # index to a [mini]batch
x = T.matrix('x') # the data is presented as rasterized images
y = T.ivector('y') # the labels are presented as 1D vector of
# [int] labels
######################
# BUILD ACTUAL MODEL #
######################
print '... building the model'
print 'Number of Kernels' + str(topo.nkerns)
in_2 = 14 #Input in second layer (layer1)
# Reshape matrix of rasterized images of shape (batch_size,28*28)
# to a 4D tensor, compatible with our LeNetConvPoolLayer
layer0_input = x.reshape((batch_size, 1, topo.ishape[0], topo.ishape[1]))
# Using presistent state from last run
w0 = w1 = b0 = b1 = wHidden = bHidden = wLogReg = bLogReg = None
if stateIn is not None:
print(" Loading previous state ...")
state = pickle.load(open(stateIn, "r"))
convValues = state.convValues
w0 = convValues[0][0]
b0 = convValues[0][1]
w1 = convValues[1][0]
b1 = convValues[1][1]
hiddenVals = state.hiddenValues
wHidden = hiddenVals[0]
bHidden = hiddenVals[1]
logRegValues = state.logRegValues
wLogReg = logRegValues[0]
bLogReg = logRegValues[1]
print("Hallo Gallo")
# Construct the first convolutional pooling layer:
# filtering reduces the image size to (28-5+1,28-5+1)=(24,24)
# maxpooling reduces this further to (24/2,24/2) = (12,12)
# 4D output tensor is thus of shape (batch_size,nkerns[0],12,12)
layer0 = LeNetConvPoolLayer(rng, input=layer0_input,
image_shape=(batch_size, 1, topo.ishape[0], topo.ishape[0]),
filter_shape=(topo.nkerns[0], 1, topo.filter_1, topo.filter_1),
poolsize=(topo.pool_1, topo.pool_1), wOld=w0, bOld=b0)
# Construct the second convolutional pooling layer
# filtering reduces the image size to (12-5+1,12-5+1)=(8,8)
# maxpooling reduces this further to (8/2,8/2) = (4,4)
# 4D output tensor is thus of shape (nkerns[0],nkerns[1],4,4)
layer1 = LeNetConvPoolLayer(rng, input=layer0.output,
image_shape=(batch_size, topo.nkerns[0], topo.in_2, topo.in_2),
filter_shape=(topo.nkerns[1], topo.nkerns[0], topo.filter_2, topo.filter_2),
poolsize=(topo.pool_2, topo.pool_2), wOld=w1, bOld=b1)
# the HiddenLayer being fully-connected, it operates on 2D matrices of
# shape (batch_size,num_pixels) (i.e matrix of rasterized images).
# This will generate a matrix of shape (20,32*4*4) = (20,512)
layer2_input = layer1.output.flatten(2)
# Evt. some drop out for the fully connected layer
# Achtung p=1 entspricht keinem Dropout.
# layer2_input = theano_rng.binomial(size=layer2_input.shape, n=1, p=1 - 0.02) * layer2_input
# paper_6 no dropout
# paper_14 again 0.02 dropout
# paper_15 again no dropout
layer2 = HiddenLayer(rng, input=layer2_input, n_in=topo.nkerns[1] * topo.hidden_input,
n_out=topo.numLogisticInput, activation=T.tanh, Wold = wHidden, bOld = bHidden)
# classify the values of the fully-connected sigmoidal layer
layer3 = LogisticRegression(input=layer2.output, n_in=topo.numLogisticInput, n_out=n_out, Wold = wLogReg, bOld=bLogReg )
# Some regularisation (not for the conv-Kernels)
L2_sqr = (layer2.W ** 2).sum() + (layer3.W ** 2).sum()
# the cost we minimize during training is the NLL of the model
cost = layer3.negative_log_likelihood(y) + 0.001 * L2_sqr
# paper7
# paper9 back to 0.001 again
# paper10 no reg.
# paper12 back to 0.001 again
# create a function to compute the mistakes that are made by the model
test_model = theano.function([index], layer3.errors(y),
givens={
x: test_set_x[index * batch_size: (index + 1) * batch_size],
y: test_set_y[index * batch_size: (index + 1) * batch_size]})
validate_model = theano.function([index], layer3.errors(y),
givens={
x: valid_set_x[index * batch_size: (index + 1) * batch_size],
y: valid_set_y[index * batch_size: (index + 1) * batch_size]})
# create a list of all model parameters to be fit by gradient descent
params = layer3.params + layer2.params + layer1.params + layer0.params
# create a list of gradients for all model parameters
grads = T.grad(cost, params)
# train_model is a function that updates the model parameters by
# SGD Since this model has many parameters, it would be tedious to
# manually create an update rule for each model parameter. We thus
# create the updates list by automatically looping over all
# (params[i],grads[i]) pairs.
updates = []
for param_i, grad_i in zip(params, grads):
updates.append((param_i, param_i - learning_rate * grad_i))
###############
# TRAIN MODEL #
###############
print '... training'
# early-stopping parameters
patience = 10000 # look as this many examples regardless
patience_increase = 2 # wait this much longer when a new best is
# found
improvement_threshold = 0.995 # a relative improvement of this much is
# considered significant
# go through this many
# minibatche before checking the network
# on the validation set; in this case we
# check every epoch
best_params = None
best_validation_loss = numpy.inf
best_iter = 0
test_score = 0.
start_time = time.clock()
epoch = 0
done_looping = False
epoch_fraction = 0.0
while (epoch < n_epochs) and (not done_looping):
# New epoch the training set is disturbed again
print(" Starting new training epoch")
print(" Manipulating the training set")
train_set_x, train_set_y = Preprocessing.giveMeNewTraining()
n_train_batches = train_set_x.get_value(borrow=True).shape[0]
n_train_batches /= batch_size
validation_frequency = min(n_train_batches, patience / 2)
print(" Compiling new function")
learning_rate *= 0.993 #See Paper from Cican
train_model = theano.function([index], cost, updates=updates,
givens={
x: train_set_x[index * batch_size: (index + 1) * batch_size],
y: train_set_y[index * batch_size: (index + 1) * batch_size]})
print(" Finished compiling the training set")
epoch = epoch + 1
for minibatch_index in xrange(n_train_batches): #Alle einmal anfassen
iter = (epoch - 1) * n_train_batches + minibatch_index
epoch_fraction += 1.0 / float(n_train_batches)
if iter % 100 == 0:
print 'training @ iter = ', iter, ' epoch_fraction ', epoch_fraction
cost_ij = train_model(minibatch_index)
if (iter + 1) % validation_frequency == 0:
# compute zero-one loss on validation set
validation_losses = [validate_model(i) for i in xrange(n_valid_batches)]
this_validation_loss = numpy.mean(validation_losses)
# test it on the test set
test_start = time.clock();
test_losses = [test_model(i) for i in xrange(n_test_batches)]
train_costs = [train_model(i) for i in xrange(n_test_batches)]
dt = time.clock() - test_start
print'Testing %i faces in %f msec image / sec %f', batch_size * n_test_batches, dt, dt/(n_test_batches * batch_size)
test_score = numpy.mean(test_losses)
train_cost = numpy.mean(train_costs)
print('%i, %f, %f, %f, %f, 0.424242' % (epoch, this_validation_loss * 100.,test_score * 100., learning_rate, train_cost))
# if we got the best validation score until now
if this_validation_loss < best_validation_loss:
#improve patience if loss improvement is good enough
if this_validation_loss < best_validation_loss * improvement_threshold:
patience = max(patience, iter * patience_increase)
# save best validation score and iteration number
best_validation_loss = this_validation_loss
best_iter = iter
# # test it on the test set
# test_losses = [test_model(i) for i in xrange(n_test_batches)]
# test_score = numpy.mean(test_losses)
# print((' epoch %i, minibatch %i/%i, test error of best '
# 'model %f %%') %
# (epoch, minibatch_index + 1, n_train_batches,
# test_score * 100.))
# if (this_validation_loss < 0.02):
# learning_rate /= 2
# print("Decreased learning rate due to low xval error to " + str(learning_rate))
if patience <= iter:
print("--------- Finished Looping ----- earlier ")
done_looping = True
break
end_time = time.clock()
print('---------- Optimization complete -------------------------')
print('Res: ', str(topo.nkerns))
print('Res: ', learning_rate)
print('Res: Best validation score of %f %% obtained at iteration %i,' \
'with test performance %f %%' %
(best_validation_loss * 100., best_iter + 1, test_score * 100.))
print('Res: The code for file ' + os.path.split(__file__)[1] + ' ran for %.2fm' % ((end_time - start_time) / 60.))
# Oliver
if not os.path.isdir("conv_images"):
os.makedirs("conv_images")
os.chdir("conv_images")
# d = layer0.W.get_value() #e.g. (20, 1, 5, 5) number of filter, num of incomming filters, dim filter
# for i in range(0, numpy.shape(d)[0]):
# dd = d[i][0]
# rescaled = (255.0 / dd.max() * (dd - dd.min())).astype(numpy.uint8)
# img = Image.fromarray(rescaled)
# img.save('filter_l0' + str(i) + '.png')
#
# d = layer1.W.get_value() #e.g. (20, 1, 5, 5) number of filter, num of incomming filters, dim filter
# for i in range(0, numpy.shape(d)[0]):
# dd = d[i][0]
# rescaled = (255.0 / dd.max() * (dd - dd.min())).astype(numpy.uint8)
# img = Image.fromarray(rescaled)
# img.save('filter_l1' + str(i) + '.png')
state = LeNet5State(topology=topo,
convValues = [layer0.getParametersAsValues(), layer1.getParametersAsValues()],
hiddenValues = layer2.getParametersAsValues(),
logRegValues = layer3.getParametersAsValues())
print
if stateOut is not None:
pickle.dump(state, open(stateOut, 'wb') ) #Attention y is wrong
print("Saved the pickeled data-set")
return learning_rate
assert len(args) == 3, "Expected exactly 2 arguments!\n\n-i followed by input directory path"
assert '-i' in args and os.path.exists(args[args.index('-i')+1]), "Invalid input directory"
def normalChars(l):
return l.replace('<', '<').replace('>','>').replace('"', '"')
path = args[args.index('-i')+1]
jsons = filter(lambda x: str(x.split('.')[len(x.split('.'))-1]) == 'json' , os.listdir(path))
os.chdir(path)
c = 0
l = len(jsons)
couldnt = []
print
for afile in jsons:
c += 1
Preprocessing.updateProgressBar('JSONtoXML.py', float(100)*c/l)
data = json.loads(open(afile, 'r').read())
nameToNumber = {number:name for number, name in enumerate(data['witnesses'])}
with codecs.open(afile[:-4] + 'xml','w') as out:
doc = minidom.Document()
witnessElement = doc.createElement('witnesses')
doc.appendChild(witnessElement)
blockc = 0
for block in data['table']:
blockc += 1
blockElement = doc.createElement('block')
blockElement.setAttributeNode(doc.createAttribute('n'))
blockElement.setAttribute('n', str(blockc-1))
number = 0
for token in block:
tokenElement = doc.createElement('token')
def classify(self,article, dataModel):
"fungsi mengklasifikasikan suatu artikel berdasarkan model Bayes yang telah dibuat"
label = []
# preprocessing for data input
token = Preprocessing.preprocess(article)
# get label from xls
for i in range(1, dataModel.ncols):
label.append(dataModel.cell(0, i).value)
if token:
probability = []
# get probability
i = 0
idx = 0
while i < len(token):
probability.append([])
j = 2
while j < dataModel.nrows:
if token[i] == dataModel.cell(j, 0).value:
for k in range(0, len(label)):
pd = dataModel.cell(j, k+1).value
probability[idx].append(pd)
break
j += 1
if j == dataModel.nrows:
del probability[-1]
i += 1
else:
i += 1
idx += 1
# probability calc
pFinal = []
for i in range(0, len(label)):
pc = dataModel.cell(1, i+1).value
valP = 1
for j in range(0, len(probability)):
valP *= probability[j][i]
if len(probability) == 1:
if valP != 1:
value = valP
else:
value = 0
else:
if valP != 1:
value = valP*pc
else:
value = 0
pFinal.append(value)
maks = max(pFinal)
if maks != 0:
for i in range(0, len(pFinal)):
if pFinal[i] == maks:
idxMax = i
decision = dataModel.cell(0, idxMax+1).value
else:
decision = 'ERROR'
else:
decision = 'ERROR'
return decision
def runEpisode(ale, agent, stepsRemaining, currentEpisodeTask, frameSkip, maxNoActions):
maxEpisodeDuration = 60 * 60 * 5 #Max game duration is 5 minutes, at 60 fps
framesElapsed = 0
totalEpisodeReward = 0
ale_game_over = False
width, height = ale.getScreenDims()
screenBuffer = np.zeros((2, height, width), dtype=np.uint8)
screenBufferIndex = 0
frameSkipCounter = 0
rewardPool = 0
reward = 0
startingLives = -1
if maxNoActions > 0:
numNoActionsToTake = np.random.randint(0, maxNoActions)
for x in xrange(numNoActionsToTake):
ale.act(0)
screenObservation = ale.getScreenRGB()
grayScreenObservation = Preprocessing.grayScaleALEObservation(screenObservation)
screenBuffer[screenBufferIndex] = grayScreenObservation
screenBufferIndex = (screenBufferIndex + 1) % 2
preprocessedObservation = Preprocessing.resizeALEObservation(grayScreenObservation, agent.inputHeight, agent.inputWidth)
action = agent.startEpisode(preprocessedObservation, currentEpisodeTask)
startingLives = ale.lives()
while not ale_game_over and framesElapsed < stepsRemaining and framesElapsed < maxEpisodeDuration:
framesElapsed += 1
frameSkipCounter = 0
while frameSkipCounter < frameSkip:
rewardPool += ale.act(action)
# if not ale.game_over() and startingLives == -1:
# startingLives = ale.lives()
screenObservation = ale.getScreenRGB()
grayScreenObservation = Preprocessing.grayScaleALEObservation(screenObservation)
screenBuffer[screenBufferIndex] = grayScreenObservation
screenBufferIndex = (screenBufferIndex + 1) % 2
frameSkipCounter += 1
if ale.game_over() or (agent.training == True and agent.deathEndsEpisode and ale.lives() != startingLives):
ale_game_over = True
break
reward = rewardPool
rewardPool = 0
totalEpisodeReward += reward
# if not ale.game_over() and startingLives == -1:
# startingLives = ale.lives()
# if ale.game_over() or (agent.deathEndsEpisode and ale.lives() != startingLives):
# ale_game_over = True
maxImage = np.maximum(screenBuffer[screenBufferIndex, ...], screenBuffer[screenBufferIndex - 1, ...])
preprocessedObservation = Preprocessing.resizeALEObservation(maxImage, agent.inputHeight, agent.inputWidth)
action = agent.stepEpisode(reward, preprocessedObservation)
ale.reset_game()
avgLoss = agent.endEpisode(reward)
return framesElapsed, totalEpisodeReward, avgLoss
assert len(args) == 5, "Expected 4 arguments! \n\n-i followed by input directory path\n-o followed by output file path"
assert '-i' in args and os.path.exists(args[args.index('-i')+1]), "Invalid input directory"
assert '-o' in args and not args.index('-o') == len(args)-1, "No output file path provided"
path = args[args.index('-i')+1]
jsonFileName = os.path.join(os.getcwd(), args[args.index('-o')+1])
xmls = filter(lambda x: str(x.split('.')[len(x.split('.'))-1]) == 'xml' , os.listdir(path))
root = {}
alldocs = []
l = len(xmls)
count = 0
for afile in xmls:
count += 1
print 'XMLsToJSON.py: Processing', afile, 'file', count, 'out of', l
unit = Preprocessing.parseName(afile)
docLevel = {}
docLevel['id'] = afile
tokenList = []
if debug:
html.write('<h2>' + afile + '</h2><table border = "1"><th>Original<th>Conflated</th>')
ws = minidom.parse(os.path.join(path, afile)).getElementsByTagName('w')
words = []
for w in range(len(ws)):
if not 3 in [child.nodeType for child in ws[w].childNodes]: #checking presence of text nodes inside the w
continue
currentWord = ws[w]
previousWord = ''
try:
previousWord = ws[w-1]
except IndexError:
return previous_row[-1]
def isBlank(node):
return node.getAttribute('n') == ''
os.chdir(path)
if os.path.exists('Postprocessed'):
shutil.rmtree('Postprocessed')
os.mkdir('Postprocessed')
print
for afile in xmls:
c += 1
Preprocessing.updateProgressBar('Postprocessing.py', float(100)*c/x)
doc = minidom.parse(os.path.join(path, afile))
blocks = doc.getElementsByTagName('block')
tokens = doc.getElementsByTagName('token')
blanks = [token for token in tokens if token.getAttribute('n') == '']
if blanks:
#generate dictionary of witness to its token nodes for each row
column1Toks = blocks[0].getElementsByTagName('token')
wit2toks = {}
for token in column1Toks:
wit = token.getAttribute('witness')
row = [token for token in doc.getElementsByTagName('token') if token.nodeType == 1 and token.getAttribute('witness') == wit]
wit2toks[wit] = row
for (wit, row) in wit2toks.items():
#generate list of lists of sequences of empty tokens
fin = []