def main():
"""Do something with the project code! Have fun :) """
preprocessor = Preprocessor()
preprocessor.import_labeled_data("data/train.csv")
X_total, t_total = preprocessor.encode_labels(use_new_encoder=True)
X_train, X_test, t_train, t_test = preprocessor.train_test_split(
X_total, t_total)
# transform data and overwrite non-transformed data
X_train_scaled = preprocessor.scale_data(X_train, use_new_scaler=True)
X_test_scaled = preprocessor.scale_data(X_test, use_new_scaler=False)
# apply PCA
X_train = preprocessor.apply_pca(X_train_scaled,
use_new_pca=True,
n_components=27,
whiten=False)
X_test = preprocessor.apply_pca(X_test_scaled, use_new_pca=False)
clf = NaiveBayes(X_train, t_train)
clf.optimize_hyperparameters()
clf.display_general_validation_results()
clf.display_cv_results()
print("Test accuracy : {:.03f}".format(clf.get_accuracy(X_test, t_test)))
print("Test f1-score : {:.03f}".format(clf.get_f1_score(X_test, t_test)))
label_predictions = make_new_predictions("data/test.csv", preprocessor,
clf)
def main():
# Directory where this script is located
dirname = os.path.dirname(__file__)
# List of terms to be ignored by the tokenizer
ignore_terms = []
# Collect the terms we want to ignore
for ignore_file_name in IGNORE_TERMS_FILE_NAMES:
with open(os.path.join(dirname, ignore_file_name)) as file:
ignore_terms.extend(term.strip() for term in file)
# Create our custom tokenizer, it receives the terms we want to ignore
preprocessor = Preprocessor(word_chars='a-zA-Z0-9', inter_chars="'",
min_length=3, ignore=ignore_terms)
for line in sys.stdin:
bug_report = json.loads(line)
old_title = bug_report['title']
old_description = bug_report['description']
bug_report['title'] = ' '.join(preprocessor.preprocess(old_title))
bug_report['description'] = ' '.join(
preprocessor.preprocess(old_description))
print(json.dumps(bug_report))
def predict(name, command):
command = command.lower()
label_path = path.join(path.dirname(path.realpath(__file__)), "intents",
"config", "labels", "%s_labels.json" % name)
with open(label_path, encoding="utf8") as f:
labels = json.load(f)
word_vocab = Vocabulary()
word_vocab.load("%s_word_vocab.json" % name)
#char embedding
char_vocab = Vocabulary()
char_vocab.load("%s_char_vocab.json" % name)
idx2label = dict((idx, label) for idx, label in enumerate(labels))
preprocessor = Preprocessor(word_vocab, None, char_vocab)
model = BiLSTMCRF(labels, len(word_vocab), len(char_vocab))
model.load_weights('intents/config/weights/%s.hdf5' % name)
sentence = tokenize(command)
features = preprocessor.transform([sentence])
p = model.predict(features)
predicted_labels = []
for pred in p:
predicted_labels.append(idx2label[pred])
for word, label in zip(sentence, predicted_labels):
print('%s: %s' % (word, label))
def __init__(self):
'''
This constructor is supposed to initialize data members.
Use triple quotes for function documentation.
'''
self.num_train_samples=0
self.num_feat=1
self.num_labels=1
self.is_trained=False
'''Ici quelques classifieurs téstés'''
#self.model = clf = LogisticRegression(random_state=0, solver='lbfgs', multi_class='ovr')
#self.model = clf = GaussianNB()
#self.model = clf = KNeighborsClassifier()
#self.model = clf = QuadraticDiscriminantAnalysis()
#self.model = clf = RandomForestClassifier(n_estimators= 80 , max_depth= 20, max_features= 'sqrt')
#self.model = clf = Pipeline([('preprocessing', Preprocessor()),('classification', MLPClassifier(hidden_layer_sizes=(200,100,50,20),max_iter=1500,solver='adam', learning_rate='invscaling', activation='relu'))])
#self.model = clf = Pipeline([('SelectKBest', Preprocessor2()),('PCA', Preprocessor()),('classification', MLPClassifier(hidden_layer_sizes=(200,100,50,20),max_iter=1500,solver='adam', learning_rate='invscaling', activation='relu'))])
'''Ici, nous testons trois classifier que nous mettons en competition.'''
fancy_classifier1 = MLPClassifier(hidden_layer_sizes=(200,100,50,20),max_iter=1500,solver='adam', learning_rate='invscaling', activation='relu')
fancy_classifier2 = Pipeline([('preprocessing', Preprocessor()),('classification', MLPClassifier(hidden_layer_sizes=(200,100,50,20),max_iter=1500,solver='adam', learning_rate='invscaling', activation='relu'))])
fancy_classifier3 = Pipeline([('SelectKBest', Preprocessor2()),('PCA', Preprocessor()),('classification', MLPClassifier(hidden_layer_sizes=(200,100,50,20),max_iter=1500,solver='adam', learning_rate='invscaling', activation='relu'))])
self.model = clf = VotingClassifier(estimators=[('Fancy Classifier1', fancy_classifier1),('Fancy Classifier2', fancy_classifier2),('Fancy Classifier3', fancy_classifier3)],voting='soft')
class Pipeline(BaseEstimator, TransformerMixin):
"""
"""
def __init__(self,
numeric,
id=None,
target=None,
categorical=None,
verbose=0):
self.created_features = None
self.id = id
self.target = target
self.categorical = categorical
self.numeric = numeric
self.verbose = verbose
self.feature_generator = None
self.preprocessor = None
def fit_transform(self, df, y=None, **fit_params):
with Timer('pipelines.Pipeline.fit_transform:', self.verbose):
self.feature_generator = FeatureGenerator(
id=self.id,
numeric=self.numeric,
categorical=self.categorical,
target=self.target,
verbose=self.verbose,
)
df_features = self.feature_generator.fit_transform(df)
self.preprocessor = Preprocessor(
id=self.id,
numeric=self.numeric,
categorical=self.categorical,
target=self.target,
verbose=self.verbose,
)
x = self.preprocessor.fit_transform(df_features)
return x
def transform(self, df):
with Timer('pipelines.Pipeline.transform:', self.verbose):
if self.feature_generator is None:
raise NotFittedError(
f'feature_generator = {self.feature_generator}')
if self.preprocessor is None:
raise NotFittedError(f'preprocessor = {self.preprocessor}')
df_features = self.feature_generator.transform(df)
x = self.preprocessor.transform(df_features)
return x
def fit(self, x, y=None, **fit_params):
return self
def get_feature_names(self):
return self.created_features
def test_preprocessing(self):
"""Test full preprocessing pipeline."""
data_path = '../data'
prepper = Preprocessor(data_path)
prepper.execute()
files = os.listdir(data_path + '/')
assert 'm5.db' in files
def __init__(self, max_comments_per_subreddit=100000):
self.getter = CommentGetter()
self.preprocessor = Preprocessor()
self.max_comments_per_subreddit = max_comments_per_subreddit
# if load_from_files:
# self.dictionary = Dictionary(
# wordToIndexDict=pickler.loadData('wordToIndexDict'),
# indexToWordDict=pickler.loadData('indexToWordDict'))
# else:
# self.dictionary = Dictionary()
self.dictionary = Dictionary()
def preprocess_data(vocab_size, batch_size, num_workers=0, max_input_len=400,
max_target_len=100):
p = Preprocessor(chosen_dataset)
print('preprocessing started')
train_set, test_set, validation_set = p.create_data_loaders(vocab_size, batch_size, num_workers=num_workers,
max_input_len=max_input_len, max_target_len=max_target_len)
print('preprocessing finished')
return p, train_set, test_set, validation_set
def preprocess_signals(data: pd.DataFrame, args: Namespace) -> pd.DataFrame:
with Cache.configure(args.currency_pair, args.tick_rate):
signal_strategy = SignalStrategyFactory.get(
'ma', **signal_strat_argument_parser(args))
stopping_strat_argument_parser(args)
stop_strategy = StoppingStrategyFactory.get(
args.stopping_strat, **stopping_strat_argument_parser(args))
preprocessor = Preprocessor(signal_strategy, stop_strategy)
if args.no_cache:
return preprocessor.find_signals(data)
else:
return preprocessor.get_signals(data)
def test_get_emoji_score(self):
prep5 = Preprocessor(corpus1, remove_short_tweets=False, verbose_emoji=False)
self.assertEqual(prep5.get_emoji_score(0)["positive"], 2)
self.assertEqual(prep5.get_emoji_score(0)["negative"], 0)
self.assertEqual(prep5.get_emoji_score(1)["positive"], 0)
self.assertEqual(prep5.get_emoji_score(1)["negative"], 1)
self.assertEqual(prep5.get_emoji_score(2)["positive"], 0)
self.assertEqual(prep5.get_emoji_score(2)["negative"], 0)
prep5 = Preprocessor(corpus1, remove_short_tweets=False, verbose_emoji=True)
self.assertEqual(prep5.get_emoji_score(0)["positive"], 2)
self.assertEqual(prep5.get_emoji_score(0)["negative"], 0)
self.assertEqual(prep5.get_emoji_score(1)["positive"], 0)
self.assertEqual(prep5.get_emoji_score(1)["negative"], 1)
self.assertEqual(prep5.get_emoji_score(2)["positive"], 0)
self.assertEqual(prep5.get_emoji_score(2)["negative"], 0)
def test_keras_feature_extractor_extract_features():
ext = KerasFeatureExtractor(TEST_NET_ID, ckpt_path=TEST_CKPT_PATH)
ds = Dataset(name=TEST_NAME, prefix=TEST_PREFIX, batch_size=8)
ds.initialize(fp=TEST_SOURCES)
ds.load_images()
imgs = [e.image for e in ds.elements]
prepro = Preprocessor()
imgs = prepro.preprocess_images(imgs)
result = ext.extract_features(images=imgs)
assert isinstance(result, np.ndarray) == True
assert len(result) == ds.count
def main():
args = parse()
corpus = Preprocessor(args.directory).run()
lengths: Dict[str, int] = {
"<50": 0,
"50-99": 0,
"100-199": 0,
"200-399": 0,
"400+": 0
}
for blog, _ in corpus:
word_count = len(blog)
if word_count <= 50:
lengths["<50"] += 1
elif word_count <= 99:
lengths["50-99"] += 1
elif word_count <= 199:
lengths["100-199"] += 1
elif word_count <= 399:
lengths["200-399"] += 1
else:
lengths["400+"] += 1
# min, max
lengths["min"] = min((len(blog) for blog, _ in corpus))
lengths["max"] = max((len(blog) for blog, _ in corpus))
with open(os.path.join(args.results, "lengths.json"), "w") as file:
json.dump(lengths, file, indent=4, ensure_ascii=True)
def __init__(self,
classifier=RandomForestClassifier(n_estimators=180,
max_depth=None,
max_features='auto')):
print("CONSTRUCTEUR MODELE")
self.classifierUsed = classifier
self.preprocess = Preprocessor()
#self.clf = classifier
PipelineUse = Pipeline([('preprocessing', self.preprocess),
('classification', self.classifierUsed)])
self.clf = VotingClassifier(estimators=[
('Gradient Tree Boosting', ensemble.GradientBoostingClassifier()),
('Pipeline', PipelineUse),
('RandomForestClassifier',
RandomForestClassifier(n_estimators=180,
max_depth=None,
max_features='auto'))
],
voting='soft')
self.num_train_samples = 0
self.num_feat = 1
self.num_labels = 1
self.is_trained = False
def run(schema_path, name, sample_size, batch_size, epochs):
dataset = Dataset(schema_path, name)
labels, data = dataset.get_data()
X = [x['words'] for x in data]
y = [x['labels'] for x in data]
word_vocab = Vocabulary()
word_vocab.build_vocab([w for command in X for w in command])
#char embedding
char_vocab = Vocabulary()
char_vocab.build_vocab([ch for w in word_vocab for ch in w])
labels2idx = dict((label, idx) for idx, label in enumerate(labels))
idx2label = dict((idx, label) for idx, label in enumerate(labels))
preprocessor = Preprocessor(word_vocab, labels2idx, char_vocab)
model = BiLSTMCRF(labels, len(word_vocab), len(char_vocab))
trainer = Trainer(model, X, y, preprocessor.transform, split=[0.75, 0.95])
trainer.train(batch_size, epochs)
trainer.evaluate(idx2label)
model.save_weights(name)
dataset.save(X[:sample_size], labels)
word_vocab.save("%s_word_vocab.json" % name)
char_vocab.save("%s_char_vocab.json" % name)
def evaluate_decision(self, model_data):
"""
Using the results from the model_decision, prompt the user and decide what to do next.
"""
from preprocessing import Preprocessor
from feature_selection import FeatureSelector
from sklearn.pipeline import Pipeline
preprocess = Preprocessor(self)
feature_select = FeatureSelector(self)
model_name, model, model_performance = model_data
steps = [
('preprocess', preprocess),
('feature_select', feature_select),
('clf', model)
]
pipeline = Pipeline(steps) # this is our classifier pipeline that transforms data and makes predictions.
metric = self.parameters['final_min_performance_metric']
model_performance = model_performance[metric]
min_performance = self.parameters['final_min_performance']
if model_performance > min_performance:
print('Minimum performance required:', min_performance, metric)
print('Model performance', model_performance, metric)
print('The model meets minimum requirements!')
deploy = input('Type "C" to cancel, or type anything else to save the model: ')
if deploy.strip().lower() != 'c':
file_name = input('Enter file name:')
# save the model so it can be easily loaded next time and used to make predictions.
self.file_handler.save_model(file_name, pipeline)
def predictFromModel(self):
try:
self.pred_data_val.deletePredictionFile()
self.log_writer.log(self.file_object, 'Start of Prediction')
data_getter = Data_Getter_Prediction(self.file_object,
self.log_writer)
data = data_getter.get_data()
preprocessor = Preprocessor(self.file_object, self.log_writer)
is_null_present = preprocessor.is_null_present(data)
if (is_null_present):
data = preprocessor.impute_missing_values(data)
cols_to_drop = preprocessor.get_columns_with_zero_std_deviation(
data)
data = preprocessor.remove_columns(data, cols_to_drop)
file_loader = File_operation(self.file_object, self.log_writer)
model = file_loader.load_model('my_model')
X, y = preprocessor.separate_label_feature(data, 'Calories')
result = list(model.predict(X.values))
result = pd.Series(result, name='Predictions')
path = "Prediction_Output_File/Predictions.csv"
result.to_csv("Prediction_Output_File/Predictions.csv",
header=True,
mode='a+')
self.log_writer.log(self.file_object, 'End of Prediction')
except Exception as ex:
self.log_writer.log(
self.file_object,
'Error occured while running the prediction!! Error:: %s' % ex)
raise ex
return path, result.head().to_json(orient="records")
def trainingModel(self):
self.log_writer.log(self.file_object, 'Start of Training')
try:
data_getter = Data_Getter(self.file_object, self.log_writer)
data = data_getter.get_data()
preprocessor = Preprocessor(self.file_object, self.log_writer)
X, Y = preprocessor.separate_label_feature(
data, label_column_name='Calories')
is_null_present = preprocessor.is_null_present(X)
if (is_null_present):
X = preprocessor.impute_missing_values(X)
cols_to_drop = preprocessor.get_columns_with_zero_std_deviation(X)
X = preprocessor.remove_columns(X, cols_to_drop)
x_train, x_test, y_train, y_test = train_test_split(
X, Y, test_size=1 / 3, random_state=355)
model_finder = Model_Finder(self.file_object, self.log_writer)
best_model_name, best_model = model_finder.get_best_model(
x_train, y_train, x_test, y_test)
file_op = File_operation(self.file_object, self.log_writer)
save_model = file_op.save_model(best_model, best_model_name)
self.log_writer.log(self.file_object, 'Successful End of Training')
self.file_object.close()
except Exception:
self.log_writer.log(self.file_object,
'Unsuccessful End of Training')
self.file_object.close()
raise Exception
def prepare_nn_patterns(lemmatizer: Preprocessor):
try:
with open('nn_patterns.pickle', 'rb') as handle:
nn_patterns = pickle.load(handle)
except:
nn_patterns = lemmatizer.lemmatize_all_patterns()
with open('nn_patterns.pickle', 'wb') as handle:
pickle.dump(nn_patterns, handle, protocol=pickle.HIGHEST_PROTOCOL)
return nn_patterns
def __init__(self, preprocessing_chain_after_squaring,
preprocessing_chain_after_flattening, preprocessing_options,
training_set, **kwargs):
self.preprocessor = Preprocessor(preprocessing_chain_after_squaring,
preprocessing_chain_after_flattening,
preprocessing_options, training_set)
self.kwargs = kwargs
self.__dict__.update(kwargs)
if training_set is not None:
self.fit(*training_set)
def stem(self,
text,
poetic_preprocessing=False,
remove_tek=False,
tek_string=None):
preprocessor = Preprocessor()
text = preprocessor.compulsory_preprocessing(text)
if poetic_preprocessing:
text = preprocessor.poetic_preprocessing(text,
remove_tek=remove_tek,
tek_string=tek_string)
l = SentenceTokenizer(text)
if len(l) == 1:
sentence = l[0]
return self.stem_word(sentence)
else:
a = []
for sentence in l:
a.append(self.stem(sentence))
return a
def __init__(self):
'''
This constructor is supposed to initialize data members.
Use triple quotes for function documentation.
'''
self.num_train_samples = 121499
self.num_feat = 56 #attributs
self.num_labels = 1 #classes
self.is_trained = False
self.clf = Pipeline([('preprocessor', Preprocessor()),
('class', SGDClassifier())])
def test(self):
mnist = input_data.read_data_sets('MNIST_data', one_hot=True)
test_results = self.out_image.eval(
feed_dict={
self.x: mnist.test.images,
self.y_: mnist.test.labels,
self.keep_prob: 1.0
})
combined_images = np.zeros(
(0, 56)) # Empty array of 'correct' dimensions for concatenation
for i in range(10):
test_image = np.array(test_results[i]).reshape((28, 28))
test_image = self.post_process(test_image)
actual_image = np.array(mnist.test.images[i]).reshape(
(28, 28)) * 255
actual_image = np.rot90(actual_image)
# Stack output image with actual horizontally, for comparison
image_column = np.hstack((test_image, actual_image))
combined_images = np.vstack((combined_images, image_column))
Preprocessor.displayImage(combined_images)
def preprocess_data_split(split, output_folder):
# 1. Create dataframes
dataframes = _get_dataframes(split)
# 2. Preprocessing pipeline
processed = Preprocessor().preprocess(dataframes, WORD_FREQ_FILE_PATH)
# 3. Convert to spacy
spacy_format = Converter().to_spacy(processed)
# 4. Save the properly formatted output
output_file_path = os.path.join(output_folder, '{}_doc'.format(split))
with open(output_file_path, 'w+') as f:
json.dump(spacy_format, f)
def fit_transform(self, df, y=None, **fit_params):
with Timer('pipelines.Pipeline.fit_transform:', self.verbose):
self.feature_generator = FeatureGenerator(
id=self.id,
numeric=self.numeric,
categorical=self.categorical,
target=self.target,
verbose=self.verbose,
)
df_features = self.feature_generator.fit_transform(df)
self.preprocessor = Preprocessor(
id=self.id,
numeric=self.numeric,
categorical=self.categorical,
target=self.target,
verbose=self.verbose,
)
x = self.preprocessor.fit_transform(df_features)
return x
def __init__(self, train_path, test_path):
self.train_path = train_path
self.test_path = test_path
self.preprocessor = Preprocessor()
self.trn = pd.DataFrame(columns=Classifier._COLS) # Read data_frame
self.tst = pd.DataFrame(columns=Classifier._COLS) # Read data_frame
self.trn_gs = pd.DataFrame(columns=Classifier._GS_COLS) # Known labels
self.tst_gs = pd.DataFrame(columns=Classifier._GS_COLS) # Known labels
self.tok_trn = []
self.tok_tst = []
self.feature_extractor = FeatureExtractor()
self.jaccard = Jaccard()
self.rfr = RFR()
self.nn = MLPRegressor(hidden_layer_sizes=(100, 30, 30),
validation_fraction=0.3,
alpha=0.3,
warm_start=False,
max_iter=1000,
activation='logistic')
def generate_intervals():
# Script to generate a given number of frequency intervals given
# a frequent items output from Borgelt
intervals = 30
output_folders = []
for interval, res in enumerate(Preprocessor.triple_intervals('../tmp/observed_frequent_items.out', intervals=intervals)):
# Triple set of 1/intervals part of the data
interval_id = 'interval_' + str(intervals) + '_' + str(interval)
output_folder = cross_validate_disc_version(env.BORGELT_ALGORITHM, env.AOL_MERGED_FILE, sample_pct=-100000, iterations=2, restricted_triples=res, extra_id=interval_id, min_support=-30)
output_folders.append(output_folder)
print 'output folders: ', output_folders
def __init__(self, learning_rate=1e-4, dataset_name="offices"):
self.x = tf.placeholder(tf.float32, shape=[None, 304, 228, 3])
self.y_ = tf.placeholder(tf.float32, shape=[None, 74, 55])
self.learning_rate = learning_rate
self.weights = dict()
self._create_network()
print("Creating session and intitalizing weights... ")
self.sess = tf.InteractiveSession()
self._initialize_weights()
self.saver = tf.train.Saver(self.weights)
print("Done initializing session.")
# Overwrite this when we load model with global step value
# Increased to 0 when training, so first step is first image in batch
self.step = -1
# Load dataset into memory prior to training / testing
print("Loading dataset and batching unit... ")
self.pp = Preprocessor(dataset_name, greyscale=False)
print("Done loading dataset.")
def test_search_lanes():
# img_path = '../test_output_folder/bin_img.jpg'
img_path = '../test_images/straight_lines1.jpg'
img = cv2.imread(img_path)
preprocessor = Preprocessor()
pimg = preprocessor.preprocess_image(img)
bimg, _ = color_n_edge_threshold(pimg)
lanedetector = LaneDetector()
# search_lanes(img,self.is_first_pass=False,l=l,r=r);
# plt.subplot(121);
# plt.title("Original Image")
# plt.imshow(img[:,:,::-1]);
# # preprocessed_img = preprocess_image(img);
# plt.subplot(122);
plt.title("Visulized Image")
plt.imshow(bimg, cmap='gray')
l, r, vis_img = lanedetector.search_lanes(bimg, is_first_pass=True)
def test_reduce_repeated_letters_corpus(self):
prep6 = Preprocessor(["Teeest test"], remove_short_tweets=False, reduce_chars=True)
corpus = prep6.preprocessed_corpus()[0]
self.assertEqual(corpus[0], ["test", "test"])
prep6 = Preprocessor(["Teeest test"], remove_short_tweets=False, reduce_chars=False)
corpus = prep6.preprocessed_corpus()[0]
self.assertEqual(corpus[0], ["teeest", "test"])
def _build(self, classifier_model, X, y=None):
"""
Inner build function that builds a single model.
"""
model = Pipeline([
('preprocessor', Preprocessor()),
('vectorizer', TfidfVectorizer(tokenizer=identity, preprocessor=None, lowercase=False, ngram_range=(1, 2))),
('classifier', classifier_model),
])
model.fit(X, y)
return model
def train(self):
print(path)
if self.path == 'data/bank-additional-full.csv':
data = pd.read_csv('data/bank-additional-full.csv', sep=';')
data['y'] = data['y'].map({'yes': 1, 'no': 0})
else:
data = pd.read_csv('path')
process = Preprocessor(data)
data, columns = process._divide_data(data, self.label)
categorical, numerical = process._classify_data(columns, data)
transformed, y = process._preprocess_data(categorical,
numerical,
preprocessor=scaler)
#dealing with our imbalanced data by oversampling the data set
model = Modelling()
x_train, x_test, y_train, y_test = model._splitdata(transformed,
y,
size=self.validate)
X, y = DealwithSample(x_train, y_train, method=sampler)
model = model.Prediction(X, x_test, y, y_test, method=self.model)
def main():
"""
Invoke this module as a script.
"""
args = parse_args()
_set_up_logging(args)
random.seed(a=args.seed)
preprocessor = Preprocessor(lowercase=args.lowercase,
unknown_label_id=0,
ngram_range=args.ngram_range)
pooling_classifier = PoolingClassifier(max_epochs=args.max_epochs,
validation_interval=args.validation_interval,
validation_metric=args.validation_metric,
early_stop=args.early_stop,
early_stop_patience=args.early_stop_patience,
early_stop_tol=args.early_stop_tol,
word_embedding_size=args.word_embedding_size,
pooling_method=args.pooling_method,
average_dropout=args.average_dropout,
random_state=args.seed,
model_path=args.model_path)
_, _, _, X, y = preprocessor.preprocess_file(file_path=args.train_file,
with_labels=True,
min_seq_length=args.min_seq_length,
max_seq_length=args.max_seq_length)
pooling_classifier.fit(X, y)
logger.info("Preparing test file.")
# prepare test file entries into X_test
ids, X_texts, _, X, y = preprocessor.preprocess_file(file_path=args.test_file,
with_labels=False,
fit=False)
logger.info("Predicting test file.")
# make predictions for entries in test file
y_probs = pooling_classifier.predict_proba(X)
y_label_ids = pooling_classifier.predict(X)
# converting label ids back to string labels
y_labels = preprocessor.inverse_transform_labels(y_label_ids)
preprocessor.write_file(file_path=args.model_path + ".test.predictions.csv",
ids=ids,
X_texts=X_texts,
y_probs=y_probs,
y_labels=y_labels,
verbose=False)
ax2.set_title(filter_name)
ax2.axis('off')
ax2.set_adjustable('box-forced')
if __name__ == "__main__":
# Settings
box_size = 80
scale_factor = 0.8
mask_scale = 0.2
plot = False
box_size *= scale_factor
# Load Preprocessor
print("Preprocessing")
p = Preprocessor("../images/slum_image.jpg")
p.scale_image(scale_factor)
p.exposure_equalization(method="equal")
p.convert_color("RGB","HSV")
p.save_current_as("structure")
p.reset()
p.scale_image(mask_scale)
p.exposure_equalization(method="equal")
p.convert_color("RGB","HSV")
p.save_current_as("mask")
# Load images for mask and structure information
img2 = p.get_version("mask")[:,:,0]
img = p.get_version("structure")[:,:,2]
class Tagger():
def __init__(self,
config_path=None,
nb_encoding_layers = 1,
nb_dense_dims = 30,
batch_size = 100,
nb_left_tokens = 2,
nb_right_tokens = 2,
nb_embedding_dims = 150,
model_dir = 'new_model',
postcorrect = True,
include_token = True,
include_context = True,
include_lemma = True,
include_pos = True,
include_morph = True,
include_dev = True,
include_test = True,
nb_filters = 100,
filter_length = 3,
focus_repr = 'recurrent',
dropout_level = .1,
load = False,
nb_epochs = 15,
min_token_freq_emb = 5,
halve_lr_at = 10,
max_token_len = None,
min_lem_cnt = 1,
):
if load:
if model_dir:
self.config_path = os.sep.join((model_dir, 'config.txt'))
else:
raise ValueError('To load a tagger you, must specify model_name!')
else:
self.config_path = config_path
if not config_path and not load:
self.nb_encoding_layers = int(nb_encoding_layers)
self.nb_dense_dims = int(nb_dense_dims)
self.batch_size = int(batch_size)
self.nb_left_tokens = int(nb_left_tokens)
self.nb_right_tokens = int(nb_right_tokens)
self.nb_context_tokens = self.nb_left_tokens + self.nb_right_tokens
self.nb_embedding_dims = int(nb_embedding_dims)
self.model_dir = model_dir
self.postcorrect = bool(postcorrect)
self.nb_filters = int(nb_filters)
self.filter_length = int(filter_length)
self.focus_repr = focus_repr
self.dropout_level = float(dropout_level)
self.include_token = include_token
self.include_context = include_context
self.include_lemma = include_lemma
self.include_pos = include_pos
self.include_morph = include_morph
self.include_dev = include_dev
self.include_test = include_test
self.min_token_freq_emb = min_token_freq_emb
self.nb_epochs = int(nb_epochs)
self.halve_lr_at = int(halve_lr_at)
self.max_token_len = int(max_token_len)
self.min_lem_cnt = int(min_lem_cnt)
else:
param_dict = utils.get_param_dict(self.config_path)
print('Using params from config file: ', param_dict)
self.nb_encoding_layers = int(param_dict['nb_encoding_layers'])
self.nb_epochs = int(param_dict['nb_epochs'])
self.nb_dense_dims = int(param_dict['nb_dense_dims'])
self.batch_size = int(param_dict['batch_size'])
self.nb_left_tokens = int(param_dict['nb_left_tokens'])
self.nb_right_tokens = int(param_dict['nb_right_tokens'])
self.nb_context_tokens = self.nb_left_tokens + self.nb_right_tokens
self.nb_embedding_dims = int(param_dict['nb_embedding_dims'])
self.model_dir = param_dict['model_dir']
self.postcorrect = bool(param_dict['postcorrect'])
self.nb_filters = int(param_dict['nb_filters'])
self.filter_length = int(param_dict['filter_length'])
self.focus_repr = param_dict['focus_repr']
self.dropout_level = float(param_dict['dropout_level'])
self.include_token = param_dict['include_token']
self.include_context = param_dict['include_context']
self.include_lemma = param_dict['include_lemma']
self.include_pos = param_dict['include_pos']
self.include_morph = param_dict['include_morph']
self.include_dev = param_dict['include_dev']
self.include_test = param_dict['include_test']
self.min_token_freq_emb = int(param_dict['min_token_freq_emb'])
self.halve_lr_at = int(param_dict['halve_lr_at'])
self.max_token_len = int(param_dict['max_token_len'])
self.min_lem_cnt = int(param_dict['min_lem_cnt'])
# create a models directory if it isn't there already:
if not os.path.isdir(self.model_dir):
os.mkdir(model_dir)
# initialize:
self.setup = False
self.curr_nb_epochs = 0
self.train_tokens, self.dev_tokens, self.test_tokens = None, None, None
self.train_lemmas, self.dev_lemmas, self.test_lemmas = None, None, None
self.train_pos, self.dev_pos, self.test_pos = None, None, None
self.train_morph, self.dev_morph, self.test_morph = None, None, None
if load:
self.load()
def load(self):
print('Re-loading preprocessor...')
self.preprocessor = pickle.load(open(os.sep.join((self.model_dir, \
'preprocessor.p')), 'rb'))
print('Re-loading pretrainer...')
self.pretrainer = pickle.load(open(os.sep.join((self.model_dir, \
'pretrainer.p')), 'rb'))
print('Re-building model...')
self.model = model_from_json(open(os.sep.join((self.model_dir, 'model_architecture.json'))).read())
self.model.load_weights(os.sep.join((self.model_dir, 'model_weights.hdf5')))
loss_dict = {}
idx_cnt = 0
if self.include_lemma:
loss_dict['lemma_out'] = 'categorical_crossentropy'
self.lemma_out_idx = idx_cnt
idx_cnt += 1
print('Loading known lemmas...')
self.known_lemmas = pickle.load(open(os.sep.join((self.model_dir, \
'known_lemmas.p')), 'rb'))
if self.include_pos:
loss_dict['pos_out'] = 'categorical_crossentropy'
self.pos_out_idx = idx_cnt
idx_cnt += 1
if self.include_morph:
self.morph_out_idx = idx_cnt
idx_cnt += 1
if self.include_morph == 'label':
loss_dict['morph_out'] = 'categorical_crossentropy'
elif self.include_morph == 'multilabel':
loss_dict['morph_out'] = 'binary_crossentropy'
self.model.compile(optimizer='adadelta', loss=loss_dict)
def setup_to_train(self, train_data=None, dev_data=None, test_data=None):
# create a model directory:
if os.path.isdir(self.model_dir):
shutil.rmtree(self.model_dir)
os.mkdir(self.model_dir)
self.train_tokens = train_data['token']
if self.include_test:
self.test_tokens = test_data['token']
if self.include_dev:
self.dev_tokens = dev_data['token']
idx_cnt = 0
if self.include_lemma:
self.lemma_out_idx = idx_cnt
idx_cnt += 1
self.train_lemmas = train_data['lemma']
self.known_lemmas = set(self.train_lemmas)
if self.include_dev:
self.dev_lemmas = dev_data['lemma']
if self.include_test:
self.test_lemmas = test_data['lemma']
if self.include_pos:
self.pos_out_idx = idx_cnt
idx_cnt += 1
self.train_pos = train_data['pos']
if self.include_dev:
self.dev_pos = dev_data['pos']
if self.include_test:
self.test_pos = test_data['pos']
if self.include_morph:
self.morph_out_idx = idx_cnt
self.train_morph = train_data['morph']
if self.include_dev:
self.dev_morph = dev_data['morph']
if self.include_test:
self.test_morph = test_data['morph']
self.preprocessor = Preprocessor().fit(tokens=self.train_tokens,
lemmas=self.train_lemmas,
pos=self.train_pos,
morph=self.train_morph,
include_lemma=self.include_lemma,
include_morph=self.include_morph,
max_token_len=self.max_token_len,
focus_repr=self.focus_repr,
min_lem_cnt=self.min_lem_cnt,
)
self.pretrainer = Pretrainer(nb_left_tokens=self.nb_left_tokens,
nb_right_tokens=self.nb_right_tokens,
size=self.nb_embedding_dims,
minimum_count=self.min_token_freq_emb)
self.pretrainer.fit(tokens=self.train_tokens)
train_transformed = self.preprocessor.transform(tokens=self.train_tokens,
lemmas=self.train_lemmas,
pos=self.train_pos,
morph=self.train_morph)
if self.include_dev:
dev_transformed = self.preprocessor.transform(tokens=self.dev_tokens,
lemmas=self.dev_lemmas,
pos=self.dev_pos,
morph=self.dev_morph)
if self.include_test:
test_transformed = self.preprocessor.transform(tokens=self.test_tokens,
lemmas=self.test_lemmas,
pos=self.test_pos,
morph=self.test_morph)
self.train_X_focus = train_transformed['X_focus']
if self.include_dev:
self.dev_X_focus = dev_transformed['X_focus']
if self.include_test:
self.test_X_focus = test_transformed['X_focus']
if self.include_lemma:
self.train_X_lemma = train_transformed['X_lemma']
if self.include_dev:
self.dev_X_lemma = dev_transformed['X_lemma']
if self.include_test:
self.test_X_lemma = test_transformed['X_lemma']
if self.include_pos:
self.train_X_pos = train_transformed['X_pos']
if self.include_dev:
self.dev_X_pos = dev_transformed['X_pos']
if self.include_test:
self.test_X_pos = test_transformed['X_pos']
if self.include_morph:
self.train_X_morph = train_transformed['X_morph']
if self.include_dev:
self.dev_X_morph = dev_transformed['X_morph']
if self.include_test:
self.test_X_morph = test_transformed['X_morph']
self.train_contexts = self.pretrainer.transform(tokens=self.train_tokens)
if self.include_dev:
self.dev_contexts = self.pretrainer.transform(tokens=self.dev_tokens)
if self.include_test:
self.test_contexts = self.pretrainer.transform(tokens=self.test_tokens)
print('Building model...')
nb_tags = None
try:
nb_tags = len(self.preprocessor.pos_encoder.classes_)
except AttributeError:
pass
nb_morph_cats = None
try:
nb_morph_cats = self.preprocessor.nb_morph_cats
except AttributeError:
pass
max_token_len, token_char_dict = None, None
try:
max_token_len = self.preprocessor.max_token_len
token_char_dict = self.preprocessor.token_char_dict
except AttributeError:
pass
max_lemma_len, lemma_char_dict = None, None
try:
max_lemma_len = self.preprocessor.max_lemma_len
lemma_char_dict = self.preprocessor.lemma_char_dict
except AttributeError:
pass
nb_lemmas = None
try:
nb_lemmas = len(self.preprocessor.lemma_encoder.classes_)
except AttributeError:
pass
self.model = build_model(token_len=max_token_len,
token_char_vector_dict=token_char_dict,
lemma_len=max_lemma_len,
nb_tags=nb_tags,
nb_morph_cats=nb_morph_cats,
lemma_char_vector_dict=lemma_char_dict,
nb_encoding_layers=self.nb_encoding_layers,
nb_dense_dims=self.nb_dense_dims,
nb_embedding_dims=self.nb_embedding_dims,
nb_train_tokens=len(self.pretrainer.train_token_vocab),
nb_context_tokens=self.nb_context_tokens,
pretrained_embeddings=self.pretrainer.pretrained_embeddings,
include_token=self.include_token,
include_context=self.include_context,
include_lemma=self.include_lemma,
include_pos=self.include_pos,
include_morph=self.include_morph,
nb_filters = self.nb_filters,
filter_length = self.filter_length,
focus_repr = self.focus_repr,
dropout_level = self.dropout_level,
nb_lemmas = nb_lemmas,
)
self.save()
self.setup = True
def train(self, nb_epochs=None):
if nb_epochs:
self.nb_epochs = nb_epochs
for i in range(self.nb_epochs):
scores = self.epoch()
return scores
def print_stats(self):
print('Train stats:')
utils.stats(tokens=self.train_tokens, lemmas=self.train_lemmas, known=self.preprocessor.known_tokens)
print('Test stats:')
utils.stats(tokens=self.test_tokens, lemmas=self.test_lemmas, known=self.preprocessor.known_tokens)
def test(self, multilabel_threshold=0.5):
if not self.include_test:
raise ValueError('Please do not call .test() if no test data is available.')
score_dict = {}
# get test predictions:
test_in = {}
if self.include_token:
test_in['focus_in'] = self.test_X_focus
if self.include_context:
test_in['context_in'] = self.test_contexts
test_preds = self.model.predict(test_in,
batch_size=self.batch_size)
if isinstance(test_preds, np.ndarray):
test_preds = [test_preds]
if self.include_lemma:
print('::: Test scores (lemmas) :::')
pred_lemmas = self.preprocessor.inverse_transform_lemmas(predictions=test_preds[self.lemma_out_idx])
if self.postcorrect:
for i in range(len(pred_lemmas)):
if pred_lemmas[i] not in self.known_lemmas:
pred_lemmas[i] = min(self.known_lemmas,
key=lambda x: editdistance.eval(x, pred_lemmas[i]))
score_dict['test_lemma'] = evaluation.single_label_accuracies(gold=self.test_lemmas,
silver=pred_lemmas,
test_tokens=self.test_tokens,
known_tokens=self.preprocessor.known_tokens)
if self.include_pos:
print('::: Test scores (pos) :::')
pred_pos = self.preprocessor.inverse_transform_pos(predictions=test_preds[self.pos_out_idx])
score_dict['test_pos'] = evaluation.single_label_accuracies(gold=self.test_pos,
silver=pred_pos,
test_tokens=self.test_tokens,
known_tokens=self.preprocessor.known_tokens)
if self.include_morph:
print('::: Test scores (morph) :::')
pred_morph = self.preprocessor.inverse_transform_morph(predictions=test_preds[self.morph_out_idx],
threshold=multilabel_threshold)
if self.include_morph == 'label':
score_dict['test_morph'] = evaluation.single_label_accuracies(gold=self.test_morph,
silver=pred_morph,
test_tokens=self.test_tokens,
known_tokens=self.preprocessor.known_tokens)
elif self.include_morph == 'multilabel':
score_dict['test_morph'] = evaluation.multilabel_accuracies(gold=self.test_morph,
silver=pred_morph,
test_tokens=self.test_tokens,
known_tokens=self.preprocessor.known_tokens)
return score_dict
def save(self):
# save architecture:
json_string = self.model.to_json()
with open(os.sep.join((self.model_dir, 'model_architecture.json')), 'wb') as f:
f.write(json_string)
# save weights:
self.model.save_weights(os.sep.join((self.model_dir, 'model_weights.hdf5')), \
overwrite=True)
# save preprocessor:
with open(os.sep.join((self.model_dir, 'preprocessor.p')), 'wb') as f:
pickle.dump(self.preprocessor, f)
# save pretrainer:
with open(os.sep.join((self.model_dir, 'pretrainer.p')), 'wb') as f:
pickle.dump(self.pretrainer, f)
if self.include_lemma:
# save known lemmas:
with open(os.sep.join((self.model_dir, 'known_lemmas.p')), 'wb') as f:
pickle.dump(self.known_lemmas, f)
# save config file:
if self.config_path:
# make sure that we can reproduce parametrization when reloading:
if not self.config_path == os.sep.join((self.model_dir, 'config.txt')):
shutil.copy(self.config_path, os.sep.join((self.model_dir, 'config.txt')))
else:
with open(os.sep.join((self.model_dir, 'config.txt')), 'w') as F:
F.write('# Parameter file\n\n[global]\n')
F.write('nb_encoding_layers = '+str(self.nb_encoding_layers)+'\n')
F.write('nb_dense_dims = '+str(self.nb_dense_dims)+'\n')
F.write('batch_size = '+str(self.batch_size)+'\n')
F.write('nb_left_tokens = '+str(self.nb_left_tokens)+'\n')
F.write('nb_right_tokens = '+str(self.nb_right_tokens)+'\n')
F.write('nb_embedding_dims = '+str(self.nb_embedding_dims)+'\n')
F.write('model_dir = '+str(self.model_dir)+'\n')
F.write('postcorrect = '+str(self.postcorrect)+'\n')
F.write('nb_filters = '+str(self.nb_filters)+'\n')
F.write('filter_length = '+str(self.filter_length)+'\n')
F.write('focus_repr = '+str(self.focus_repr)+'\n')
F.write('dropout_level = '+str(self.dropout_level)+'\n')
F.write('include_token = '+str(self.include_context)+'\n')
F.write('include_context = '+str(self.include_context)+'\n')
F.write('include_lemma = '+str(self.include_lemma)+'\n')
F.write('include_pos = '+str(self.include_pos)+'\n')
F.write('include_morph = '+str(self.include_morph)+'\n')
F.write('include_dev = '+str(self.include_dev)+'\n')
F.write('include_test = '+str(self.include_test)+'\n')
F.write('nb_epochs = '+str(self.nb_epochs)+'\n')
F.write('halve_lr_at = '+str(self.halve_lr_at)+'\n')
F.write('max_token_len = '+str(self.max_token_len)+'\n')
F.write('min_token_freq_emb = '+str(self.min_token_freq_emb)+'\n')
F.write('min_lem_cnt = '+str(self.min_lem_cnt)+'\n')
# plot current embeddings:
if self.include_context:
layer_dict = dict([(layer.name, layer) for layer in self.model.layers])
weights = layer_dict['context_embedding'].get_weights()[0]
X = np.array([weights[self.pretrainer.train_token_vocab.index(w), :] \
for w in self.pretrainer.mfi \
if w in self.pretrainer.train_token_vocab], dtype='float32')
# dimension reduction:
tsne = TSNE(n_components=2)
coor = tsne.fit_transform(X) # unsparsify
plt.clf(); sns.set_style('dark')
sns.plt.rcParams['axes.linewidth'] = 0.4
fig, ax1 = sns.plt.subplots()
labels = self.pretrainer.mfi
# first plot slices:
x1, x2 = coor[:,0], coor[:,1]
ax1.scatter(x1, x2, 100, edgecolors='none', facecolors='none')
# clustering on top (add some colouring):
clustering = AgglomerativeClustering(linkage='ward',
affinity='euclidean', n_clusters=8)
clustering.fit(coor)
# add names:
for x, y, name, cluster_label in zip(x1, x2, labels, clustering.labels_):
ax1.text(x, y, name, ha='center', va="center",
color=plt.cm.spectral(cluster_label / 10.),
fontdict={'family': 'Arial', 'size': 8})
# control aesthetics:
ax1.set_xlabel(''); ax1.set_ylabel('')
ax1.set_xticklabels([]); ax1.set_xticks([])
ax1.set_yticklabels([]); ax1.set_yticks([])
sns.plt.savefig(os.sep.join((self.model_dir, 'embed_after.pdf')),
bbox_inches=0)
def epoch(self, autosave=True):
if not self.setup:
raise ValueError('Not set up yet... Call Tagger.setup_() first.')
# update nb of epochs ran so far:
self.curr_nb_epochs += 1
print("-> epoch ", self.curr_nb_epochs, "...")
if self.curr_nb_epochs and self.halve_lr_at:
# update learning rate at specific points:
if self.curr_nb_epochs % self.halve_lr_at == 0:
old_lr = self.model.optimizer.lr.get_value()
new_lr = np.float32(old_lr * 0.5)
self.model.optimizer.lr.set_value(new_lr)
print('\t- Lowering learning rate > was:', old_lr, ', now:', new_lr)
# get inputs and outputs straight:
train_in, train_out = {}, {}
if self.include_token:
train_in['focus_in'] = self.train_X_focus
if self.include_context:
train_in['context_in'] = self.train_contexts
if self.include_lemma:
train_out['lemma_out'] = self.train_X_lemma
if self.include_pos:
train_out['pos_out'] = self.train_X_pos
if self.include_morph:
train_out['morph_out'] = self.train_X_morph
self.model.fit(train_in, train_out,
nb_epoch = 1,
shuffle = True,
batch_size = self.batch_size)
# get train preds:
train_preds = self.model.predict(train_in,
batch_size=self.batch_size)
if isinstance(train_preds, np.ndarray):
train_preds = [train_preds]
if self.include_dev:
dev_in = {}
if self.include_token:
dev_in['focus_in'] = self.dev_X_focus
if self.include_context:
dev_in['context_in'] = self.dev_contexts
dev_preds = self.model.predict(dev_in,
batch_size=self.batch_size)
if isinstance(dev_preds, np.ndarray):
dev_preds = [dev_preds]
score_dict = {}
if self.include_lemma:
print('::: Train scores (lemmas) :::')
pred_lemmas = self.preprocessor.inverse_transform_lemmas(predictions=train_preds[self.lemma_out_idx])
score_dict['train_lemma'] = evaluation.single_label_accuracies(gold=self.train_lemmas,
silver=pred_lemmas,
test_tokens=self.train_tokens,
known_tokens=self.preprocessor.known_tokens)
if self.include_dev:
print('::: Dev scores (lemmas) :::')
pred_lemmas = self.preprocessor.inverse_transform_lemmas(predictions=dev_preds[self.lemma_out_idx])
score_dict['dev_lemma'] = evaluation.single_label_accuracies(gold=self.dev_lemmas,
silver=pred_lemmas,
test_tokens=self.dev_tokens,
known_tokens=self.preprocessor.known_tokens)
if self.postcorrect:
print('::: Dev scores (lemmas) -> postcorrected :::')
for i in range(len(pred_lemmas)):
if pred_lemmas[i] not in self.known_lemmas:
pred_lemmas[i] = min(self.known_lemmas,
key=lambda x: editdistance.eval(x, pred_lemmas[i]))
score_dict['dev_lemma_postcorrect'] = evaluation.single_label_accuracies(gold=self.dev_lemmas,
silver=pred_lemmas,
test_tokens=self.dev_tokens,
known_tokens=self.preprocessor.known_tokens)
if self.include_pos:
print('::: Train scores (pos) :::')
pred_pos = self.preprocessor.inverse_transform_pos(predictions=train_preds[self.pos_out_idx])
score_dict['train_pos'] = evaluation.single_label_accuracies(gold=self.train_pos,
silver=pred_pos,
test_tokens=self.train_tokens,
known_tokens=self.preprocessor.known_tokens)
if self.include_dev:
print('::: Dev scores (pos) :::')
pred_pos = self.preprocessor.inverse_transform_pos(predictions=dev_preds[self.pos_out_idx])
score_dict['dev_pos'] = evaluation.single_label_accuracies(gold=self.dev_pos,
silver=pred_pos,
test_tokens=self.dev_tokens,
known_tokens=self.preprocessor.known_tokens)
if self.include_morph:
print('::: Train scores (morph) :::')
pred_morph = self.preprocessor.inverse_transform_morph(predictions=train_preds[self.morph_out_idx])
if self.include_morph == 'label':
score_dict['train_morph'] = evaluation.single_label_accuracies(gold=self.train_morph,
silver=pred_morph,
test_tokens=self.train_tokens,
known_tokens=self.preprocessor.known_tokens)
elif self.include_morph == 'multilabel':
score_dict['train_morph'] = evaluation.multilabel_accuracies(gold=self.train_morph,
silver=pred_morph,
test_tokens=self.train_tokens,
known_tokens=self.preprocessor.known_tokens)
if self.include_dev:
print('::: Dev scores (morph) :::')
pred_morph = self.preprocessor.inverse_transform_morph(predictions=dev_preds[self.morph_out_idx])
if self.include_morph == 'label':
score_dict['dev_morph'] = evaluation.single_label_accuracies(gold=self.train_morph,
silver=pred_morph,
test_tokens=self.dev_tokens,
known_tokens=self.preprocessor.known_tokens)
elif self.include_morph == 'multilabel':
score_dict['dev_morph'] = evaluation.multilabel_accuracies(gold=self.train_morph,
silver=pred_morph,
test_tokens=self.dev_tokens,
known_tokens=self.preprocessor.known_tokens)
if autosave:
self.save()
return score_dict
def annotate(self, tokens):
X_focus = self.preprocessor.transform(tokens=tokens)['X_focus']
X_context = self.pretrainer.transform(tokens=tokens)
# get predictions:
new_in = {}
if self.include_token:
new_in['focus_in'] = X_focus
if self.include_context:
new_in['context_in'] = X_context
preds = self.model.predict(new_in)
if isinstance(preds, np.ndarray):
preds = [preds]
annotation_dict = {'tokens': tokens}
if self.include_lemma:
pred_lemmas = self.preprocessor.inverse_transform_lemmas(predictions=preds[self.lemma_out_idx])
annotation_dict['lemmas'] = pred_lemmas
if self.postcorrect:
for i in range(len(pred_lemmas)):
if pred_lemmas[i] not in self.known_lemmas:
pred_lemmas[i] = min(self.known_lemmas,
key=lambda x: editdistance.eval(x, pred_lemmas[i]))
annotation_dict['postcorrect_lemmas'] = pred_lemmas
if self.include_pos:
pred_pos = self.preprocessor.inverse_transform_pos(predictions=preds[self.pos_out_idx])
annotation_dict['pos'] = pred_pos
if self.include_morph:
pred_morph = self.preprocessor.inverse_transform_morph(predictions=preds[self.morph_out_idx])
annotation_dict['morph'] = pred_morph
return annotation_dict
def setup_to_train(self, train_data=None, dev_data=None, test_data=None):
# create a model directory:
if os.path.isdir(self.model_dir):
shutil.rmtree(self.model_dir)
os.mkdir(self.model_dir)
self.train_tokens = train_data['token']
if self.include_test:
self.test_tokens = test_data['token']
if self.include_dev:
self.dev_tokens = dev_data['token']
idx_cnt = 0
if self.include_lemma:
self.lemma_out_idx = idx_cnt
idx_cnt += 1
self.train_lemmas = train_data['lemma']
self.known_lemmas = set(self.train_lemmas)
if self.include_dev:
self.dev_lemmas = dev_data['lemma']
if self.include_test:
self.test_lemmas = test_data['lemma']
if self.include_pos:
self.pos_out_idx = idx_cnt
idx_cnt += 1
self.train_pos = train_data['pos']
if self.include_dev:
self.dev_pos = dev_data['pos']
if self.include_test:
self.test_pos = test_data['pos']
if self.include_morph:
self.morph_out_idx = idx_cnt
self.train_morph = train_data['morph']
if self.include_dev:
self.dev_morph = dev_data['morph']
if self.include_test:
self.test_morph = test_data['morph']
self.preprocessor = Preprocessor().fit(tokens=self.train_tokens,
lemmas=self.train_lemmas,
pos=self.train_pos,
morph=self.train_morph,
include_lemma=self.include_lemma,
include_morph=self.include_morph,
max_token_len=self.max_token_len,
focus_repr=self.focus_repr,
min_lem_cnt=self.min_lem_cnt,
)
self.pretrainer = Pretrainer(nb_left_tokens=self.nb_left_tokens,
nb_right_tokens=self.nb_right_tokens,
size=self.nb_embedding_dims,
minimum_count=self.min_token_freq_emb)
self.pretrainer.fit(tokens=self.train_tokens)
train_transformed = self.preprocessor.transform(tokens=self.train_tokens,
lemmas=self.train_lemmas,
pos=self.train_pos,
morph=self.train_morph)
if self.include_dev:
dev_transformed = self.preprocessor.transform(tokens=self.dev_tokens,
lemmas=self.dev_lemmas,
pos=self.dev_pos,
morph=self.dev_morph)
if self.include_test:
test_transformed = self.preprocessor.transform(tokens=self.test_tokens,
lemmas=self.test_lemmas,
pos=self.test_pos,
morph=self.test_morph)
self.train_X_focus = train_transformed['X_focus']
if self.include_dev:
self.dev_X_focus = dev_transformed['X_focus']
if self.include_test:
self.test_X_focus = test_transformed['X_focus']
if self.include_lemma:
self.train_X_lemma = train_transformed['X_lemma']
if self.include_dev:
self.dev_X_lemma = dev_transformed['X_lemma']
if self.include_test:
self.test_X_lemma = test_transformed['X_lemma']
if self.include_pos:
self.train_X_pos = train_transformed['X_pos']
if self.include_dev:
self.dev_X_pos = dev_transformed['X_pos']
if self.include_test:
self.test_X_pos = test_transformed['X_pos']
if self.include_morph:
self.train_X_morph = train_transformed['X_morph']
if self.include_dev:
self.dev_X_morph = dev_transformed['X_morph']
if self.include_test:
self.test_X_morph = test_transformed['X_morph']
self.train_contexts = self.pretrainer.transform(tokens=self.train_tokens)
if self.include_dev:
self.dev_contexts = self.pretrainer.transform(tokens=self.dev_tokens)
if self.include_test:
self.test_contexts = self.pretrainer.transform(tokens=self.test_tokens)
print('Building model...')
nb_tags = None
try:
nb_tags = len(self.preprocessor.pos_encoder.classes_)
except AttributeError:
pass
nb_morph_cats = None
try:
nb_morph_cats = self.preprocessor.nb_morph_cats
except AttributeError:
pass
max_token_len, token_char_dict = None, None
try:
max_token_len = self.preprocessor.max_token_len
token_char_dict = self.preprocessor.token_char_dict
except AttributeError:
pass
max_lemma_len, lemma_char_dict = None, None
try:
max_lemma_len = self.preprocessor.max_lemma_len
lemma_char_dict = self.preprocessor.lemma_char_dict
except AttributeError:
pass
nb_lemmas = None
try:
nb_lemmas = len(self.preprocessor.lemma_encoder.classes_)
except AttributeError:
pass
self.model = build_model(token_len=max_token_len,
token_char_vector_dict=token_char_dict,
lemma_len=max_lemma_len,
nb_tags=nb_tags,
nb_morph_cats=nb_morph_cats,
lemma_char_vector_dict=lemma_char_dict,
nb_encoding_layers=self.nb_encoding_layers,
nb_dense_dims=self.nb_dense_dims,
nb_embedding_dims=self.nb_embedding_dims,
nb_train_tokens=len(self.pretrainer.train_token_vocab),
nb_context_tokens=self.nb_context_tokens,
pretrained_embeddings=self.pretrainer.pretrained_embeddings,
include_token=self.include_token,
include_context=self.include_context,
include_lemma=self.include_lemma,
include_pos=self.include_pos,
include_morph=self.include_morph,
nb_filters = self.nb_filters,
filter_length = self.filter_length,
focus_repr = self.focus_repr,
dropout_level = self.dropout_level,
nb_lemmas = nb_lemmas,
)
self.save()
self.setup = True
plot = False
# Init variables
print("Init all variables")
coords = np.loadtxt("patch_coordinates.txt", delimiter="\t", skiprows=1)
coords = np.multiply(coords, scale_factor)
patches = {'white':coords[:,0:2],
'brown':coords[:,2:4],
'gray':coords[:,4:6],
'green':coords[:,6:8]}
box_size *= scale_factor
# Load Preprocessor
print("Preprocessing")
p = Preprocessor("../images/slum_image.jpg")
p.scale_image(scale_factor)
p.save_current_as("normal")
p.exposure_equalization(method="contrast")
p.convert_color("RGB","RGB CIE")
p.save_current_as("contrast_rgb_cie")
p.reset()
p.scale_image(scale_factor)
p.exposure_equalization(method="equal")
p.convert_color("RGB","HSV")
p.save_current_as("structure")
# ========== Plot img & patches =========
if plot:
def plot_intervals(output_folder):
from parsers import CVOutputParser
from preprocessing import Preprocessor
from utils import avg
import os
import math
"""
Given a cross validation ouput. Certain triple intervals can be plottet
to compare the error for extrapolation, max ent and the heurestic.
The algorithm runs through each triple interval, and then for each sampled estiamte output
the triples in the interval are looked up in each sample and the MAPE error is
recorded and the average errors are added. And the average of these averages
are then plottet for each interval.
"""
if not output_folder[-1] == '/':
output_folder += '/'
intervals = 30
triple_intervals = Preprocessor.triple_intervals(output_folder + 'observed_frequent_items.out', intervals=intervals)
avg_max_ent_errors = []
avg_ext_errors = []
avg_heu_errors = []
pair_triple_ratios = [i/10. for i in range(11)] # binned ratios [0.0 to 1.0]
max_ent_ratio_error = [0 for i in range(11)]
ext_ratio_error = [0 for i in range(11)]
for index, triple_interval in enumerate(triple_intervals):
print 'Triple interval {} of {}'.format(index, intervals)
iteration = 0
MAPE_avg_errors = []
MAPE_avg_errors_ext = []
# MAPE_avg_errors_heu = []
while True:
max_ent_est_file = output_folder + str(iteration) + '_data.tsv'
ext_est_file = output_folder + str(iteration) + '_data_extrapolation.tsv'
# heu_est_file = output_folder + str(iteration) + '_data_heurestic.tsv'
# read baseline also?
# Read until we do not find an output file
if not os.path.exists(max_ent_est_file):
break
max_ent_est = CVOutputParser.read_est_obs_file(max_ent_est_file)
ext_est = CVOutputParser.read_est_obs_file(ext_est_file)
# heu_est = CVOutputParser.read_est_obs_file(heu_est_file)
MAPE_errors = []
MAPE_errors_ext = []
# MAPE_errors_heu = []
for triple in triple_interval:
# Check that the triple has been estimated
if triple in max_ent_est:
# Index 1 should hold the observed value parsed from the file
# is the same mapped to every estimate, so hust read it once.
obs = max_ent_est[triple][1]
# maxent estimate
est = max_ent_est[triple][0]
# extrapolation estimate
est2 = ext_est[triple][0]
# # independence estimat?
# heurestic, use max_ent for 0 triple in sample
# est4 = heu_est[triple][0]
# Index 2 should hold the pair triple ratio.
# is the sam for every estimat
ratio = max_ent_est[triple][2]
# bin the ratio to one decimal
ratio_binned = round(ratio, 1)
# add errors to the ratio
max_ent_ratio_error[pair_triple_ratios.index(ratio_binned)] += abs(est-obs) / float(obs)
ext_ratio_error[pair_triple_ratios.index(ratio_binned)] += abs(est2-obs) / float(obs)
# MAPE error max ent
# error = abs(obs-est) #/ float(obs) * 100
# MAPE_errors.append(error)
# # MAPE error extrapolation
# error2 = abs(obs-est2) #/ float(obs) * 100
# MAPE_errors_ext.append(error2)
# MAPE error independence?
# MAPE error heurestic
# error4 = abs(obs-est4) #/ float(obs) * 100
# MAPE_errors_heu.append(error4)
# MAPE baseline error?
MAPE_avg_errors.append(avg(MAPE_errors))
MAPE_avg_errors_ext.append(avg(MAPE_errors_ext))
# MAPE_avg_errors_heu.append(avg(MAPE_errors_heu))
iteration += 1
avg_max_ent_errors.append(avg(MAPE_avg_errors))
avg_ext_errors.append(avg(MAPE_avg_errors_ext))
# avg_heu_errors.append(avg(MAPE_avg_errors_heu))
plot(range(len(avg_max_ent_errors)), avg_max_ent_errors, color='blue')
plot(range(len(avg_ext_errors)), avg_ext_errors, color='red')