def config_marge(user_data, marge_output_dir):
user_path = user_data['user_path']
marge_input_dir = os.path.join(user_path, 'upload')
# back up the original config.json
config_file = os.path.join(marge_output_dir, 'config.json')
config_file_bak = os.path.join(marge_output_dir, 'config.json.bak')
shutil.copyfile(config_file, config_file_bak)
with open(config_file) as data_file:
data = json.load(data_file)
# tools path in MARGE/config.json
data["tools"]["MACS2"] = MACS2_path
data["tools"]["bedClip"] = bedClip_path
data["tools"]["bedGraphToBigWig"] = bedGraphToBigWig_path
data["tools"]["bigWigAverageOverBed"] = bigWigAverageOverBed_path
data["tools"]["bigWigSummary"] = bigWigSummary_path
data["ASSEMBLY"] = user_data["assembly"]
data["MARGEdir"] = os.path.join(MARGE_DIR, "marge")
data["REFdir"] = os.path.join(MARGE_LIB_DIR,
data["ASSEMBLY"] + "_all_reference")
if user_data['dataType'] == "ChIP-seq":
data["EXPSDIR"] = ""
data["EXPS"] = ""
data["EXPTYPE"] = ""
data["ID"] = ""
data["SAMPLESDIR"] = marge_input_dir
data["SAMPLES"] = utils.get_files_in_dir("ChIP", data["SAMPLESDIR"])
elif user_data['dataType'] == "Geneset":
data["SAMPLESDIR"] = ""
data["SAMPLES"] = ""
data["EXPSDIR"] = marge_input_dir
data["EXPS"] = utils.get_files_in_dir("GeneList", data["EXPSDIR"])
# Gene_Only & Gene_Response
data["EXPTYPE"] = user_data["gene_exp_type"]
# GeneSymbol & RefSeq
data["ID"] = user_data["gene_id_type"]
elif user_data['dataType'] == "Both":
data["SAMPLESDIR"] = marge_input_dir
data["EXPSDIR"] = marge_input_dir
data["SAMPLES"] = utils.get_files_in_dir("ChIP", data["SAMPLESDIR"])
data["EXPS"] = utils.get_files_in_dir("GeneList", data["EXPSDIR"])
# Gene_Only & Gene_Response
data["EXPTYPE"] = user_data["gene_exp_type"]
# GeneSymbol & RefSeq
data["ID"] = user_data["gene_id_type"]
with open(config_file, 'w') as data_file:
json.dump(data, data_file)
def retrieve_tweets(dataset_path,
log_path,
index_path,
apis,
from_main=False,
main_index=""):
if from_main:
Split_Index_Per_Day(main_index, index_path)
files = get_files_in_dir(index_path)
api = apis[0]
num = len(apis)
n = len(files)
for i in range(0, n):
file = random.choice(files)
files.remove(file)
if (api == apis[-1]):
print("Wait for a while")
time.sleep(240)
api = apis[i % num]
else:
api = apis[i % num]
print("----------------\n", join(index_path, file))
build_dataset_file(join(index_path, file), log_path, dataset_path, api)
def evaluate(train=False):
dataset_path = 'datasets/dataset'
model_path = 'models/model_expectation_bd'
test = '2012-10-29.txt'
dataset_files = get_files_in_dir(dataset_path)
dataset_files.remove(test)
features_burst = [
'Storm', 'Episode', 'Obama', 'Hurricane', 'Sandy', 'Game', 'Football',
'Giants', 'Cowboys', 'Romney', 'Debat', 'Frankenstorm', 'Halloween',
'TheWalkingDead', 'WalkingDead', 'Walking', 'Dead', '#Sandy',
'#Hurricanesandy'
]
if train:
for file in dataset_files:
print("Training on file: " + file + "...")
run_burst_detection(join(dataset_path, file), model_path)
get_and_evaluate(join(dataset_path, test), model_path, features_burst)
#run_burst_detection(join(dataset_path, test), model_path,train = False)
#evaluate()
def diagnosis_by_fuzzing_entropy(program, fuzzing_dir, entropy_threshold, ratio_min, ratio_max,
fuzzed_files_per_iter=10, stop_iter=500, pre_fuzz_count=0):
seedfiles_dir = os.path.join(fuzzing_dir, consts.SEEDFILES)
matrix_file = None
for granularity in [DLL_GRANULARITY, FUNCTION_GRANULARITY, DOMINATOR_GRANULARITY, XREF_GRANULARITY]:
instances_dir = utils.clear_dir(os.path.join(fuzzing_dir, consts.INSTANCES, granularity, str(entropy_threshold)))
current_entropy = float('inf')
previous_entropy = float('-inf')
tracing_data = generate_tracing_data(granularity, matrix_file)
matrix_file = os.path.join(fuzzing_dir, consts.FUZZING_MATRIX.format("{0}_{1}".format(granularity, str(entropy_threshold))))
if os.path.exists(matrix_file):
os.remove(matrix_file)
working_dir = utils.clear_dir(os.path.join(fuzzing_dir, consts.WORKING_DIR, granularity, str(entropy_threshold)))
diagnosis_result = os.path.join(fuzzing_dir,consts.DLL_DIAGNOSIS_RESULT if granularity == DLL_GRANULARITY else consts.FUNCTION_DIAGNOSIS_RESULT)
for seed_example in utils.get_files_in_dir(seedfiles_dir):
shutil.copy2(seed_example, instances_dir)
instance_path = os.path.join(instances_dir, os.path.basename(seed_example))
run_debugger_on_files(program, [instance_path], working_dir, config, granularity, tracing_data)
fuzzed_files = fuzz_project_dir(seedfiles_dir, instances_dir, pre_fuzz_count, ratio_min, ratio_max)
run_debugger_on_files(program, fuzzed_files, working_dir, config, granularity, tracing_data)
iter_ind = 0
while abs(current_entropy - previous_entropy) > entropy_threshold:
fuzzed_files = fuzz_project_dir(seedfiles_dir, instances_dir, fuzzed_files_per_iter, ratio_min, ratio_max)
run_debugger_on_files(program, fuzzed_files, working_dir, config, granularity, tracing_data)
diagnoser.campaign_matrix.create_matrix_for_dir(working_dir, diagnosis_result, matrix_file)
sfl_matrix = readPlanningFile(matrix_file)
sfl_matrix.diagnose()
results = Diagnosis_Results(sfl_matrix.diagnoses, sfl_matrix.initial_tests, sfl_matrix.error)
previous_entropy = current_entropy
current_entropy = results.component_entropy
iter_ind = iter_ind + 1
if iter_ind > stop_iter:
break
def fuzz_project_dir(seedfiles_dir, output_dir, iterations, ratio_min=0.0, ratio_max=1.0):
fuzzed_files = []
if not os.path.exists(output_dir):
os.mkdir(output_dir)
for seed_example in utils.get_files_in_dir(seedfiles_dir):
fuzzed_files.extend(fuzz_seed_file(seed_example, output_dir, iterations, ratio_min, ratio_max))
return fuzzed_files
def extract_MusicalFeatures(folder, descriptors, filename):
file_count = 0
segment_files = get_files_in_dir(folder)
print(segment_files)
data_file = os.path.join(folder, filename)
with open(data_file, 'w') as writer:
#adding column names as the first line in csv
line2write = ','.join(descriptors + ['instrument']).replace(
'lowlevel.', '') + '\n'
writer.write(line2write)
for file in segment_files:
if '.wav' in file:
file_count += 1
if file_count % 20 == 0: #print name of a file every 20 files
print(file_count, "files processed, current file: ", file)
features, features_frames = ess.MusicExtractor(
lowlevelSilentFrames='drop',
lowlevelFrameSize=2048,
lowlevelHopSize=1024,
lowlevelStats=['mean', 'stdev'])(file)
selected_features = [
features[descriptor] for descriptor in descriptors
]
instrument = file.split('/')[-1].split(
'_')[1].lower()[:-4] #class information
line2write = str(
selected_features)[1:-1] + ',' + instrument + '\n'
writer.write(line2write)
print("A total of ", file_count, "files processed")
def process_song_file(cur, dirpath):
"""Process song file to process song and artist data"""
filepaths = get_files_in_dir('data/song_data')
df = pd.concat([pd.read_json(f, lines=True) for f in filepaths],
ignore_index=True)
insert_songs(cur, df)
insert_artists(cur, df)
def count_tweets(dataset_path, log_path):
files = get_files_in_dir(dataset_path)
N_tweets = 0
for file in files:
file_ds = open(join(dataset_path, file), mode='r')
ds = json.load(file_ds)
N_tweets += len(ds)
file_ds.close()
print('Collected: ' + str(N_tweets))
files = get_files_in_dir(log_path)
N_tweets = 0
for file in files:
file_ds = open(join(log_path, file), mode='r')
ds = json.load(file_ds)
N_tweets += ds
file_ds.close()
print('Listed: ' + str(N_tweets))
def process_log_file(cur, dirpath):
"""Process log file to process time, user and songplay data"""
filepaths = get_files_in_dir('data/log_data')
df = pd.concat([pd.read_json(f, lines=True) for f in filepaths],
ignore_index=True)
df = df[df['page'] == 'NextSong']
insert_time(cur, df)
insert_user(cur, df)
insert_songplay(cur, df)
parser = argparse.ArgumentParser(
description=
'Collect randomply sampling photos as dataset used for CrowdFlower.')
parser.add_argument('-d', help='The image data path.')
parser.add_argument('-o', help='The output file.')
parser.add_argument('-n', help='The number of sampled photos.')
parser.add_argument('-m', help='The output mode.')
parser.add_argument('-u', help='The URL prefix.')
args = parser.parse_args()
def write_file(filename, files, prefix, mode='a'):
f = open(filename, mode)
if mode == 'a':
f.write("\n" + prefix)
if mode == 'w':
f.write(prefix)
files.tofile(f, sep="\n" + prefix)
f.close()
(files, fullpath_files) = utils.get_files_in_dir(args.d, True)
if args.n != None:
files = files[0:min(len(files), int(args.n))]
if args.m == None:
args.m = 'a'
write_file(args.o, files, args.u, args.m)
def run_do_rest(do_convert_fits, do_photometry, do_match, do_compstars_flag,
do_aperture_search, do_lightcurve_flag, do_pos, do_ml,
do_lightcurve_plot, do_phase_diagram, do_field_charting,
do_reporting, args):
if do_convert_fits:
logging.info("Converting fits...")
write_convert_fits()
# either read the previous reference frame or calculate a new one
_, _, reference_frame_index = do_calibration.get_reference_frame(
100, do_calibration.select_reference_frame_jpeg)
logging.info(f"reference header is {settings.reference_header}")
# get wcs model from the reference header. Used in writing world positions and field charts
wcs = do_calibration.get_wcs(settings.reference_header)
apertures = None
aperture = None
apertureidx = None
if do_photometry:
logging.info(
f"Writing photometry with config file {settings.conf_phot}...")
write_photometry(config_file=settings.conf_phot)
if do_match:
logging.info("Performing matching...")
pool = mp.Pool(init.nr_threads, maxtasksperchild=100)
ref_frame = do_calibration.find_reference_photometry(
reference_frame_index)
file_list = utils.get_files_in_dir(settings.photometrydir)
file_list.sort()
func = partial(write_match, base_photometry_file=ref_frame)
logging.info(
f"Writing matches for {len(file_list)} stars with reference frame {ref_frame}"
)
trash_and_recreate_dir(settings.matchedphotometrydir)
for _ in tqdm.tqdm(pool.imap_unordered(func, file_list, 10),
total=len(file_list)):
pass
if do_aperture_search:
logging.info("Searching best aperture...")
# getting aperture
stddevs = None
counts = None
# stddevs, _, apertures, apertureidx, _, _, counts = do_aperture.main(the_dir=settings.matchedphotometrydir, percentage=init.aperture_find_percentage)
apertures = [x for x in do_aperture.get_apertures()]
apertureidx = np.abs(np.array(apertures) - init.aperture).argmin()
aperture = apertures[apertureidx]
# saving all calculated data
np.savetxt(settings.basedir + "apertures.txt",
apertures,
fmt='%.2f',
delimiter=';')
np.savetxt(settings.basedir + "apertureidx_best.txt", [apertureidx],
fmt='%d')
logging.debug("Done writing aperture search results")
else:
logging.info("Loading best aperture...")
apertures, apertureidx, aperture = reading.read_aperture()
logging.info(f"aperture: {aperture}, apertures:{apertures}")
if do_pos:
logging.info(
"Writing positions of all stars on the reference image...")
reference_matched = do_calibration.find_reference_matched(
reference_frame_index)
logging.info(f"reference match is {reference_matched}")
do_write_pos(init.star_list,
aperture,
reference_matched,
is_resume=False)
do_world_pos(wcs, init.star_list, reference_frame_index)
if do_ml:
logging.info("Doing ML detection of variable stars...")
import do_upsilon # do it here because it takes some time at startup
do_upsilon.run(init.star_list)
if (do_lightcurve_flag or do_field_charting):
logging.info("Loading photometry...")
jd, fwhm, nrstars, star_result = read_photometry.read_photometry(
init.star_list, apertureidx)
# costruction of the star descriptions list
comparison_stars_1, comparison_stars_1_desc, star_descriptions = construct_star_descriptions(
args, do_compstars_flag)
if do_lightcurve_flag:
logging.info(f"Writing lightcurves...")
chosen_stars = [x.local_id for x in star_descriptions]
do_lightcurve.write_lightcurves(chosen_stars, comparison_stars_1,
aperture, int(apertureidx), jd, fwhm,
star_result)
if do_lightcurve_plot or do_phase_diagram:
logging.info("starting charting / phase diagrams...")
do_charts.run(star_descriptions, comparison_stars_1_desc,
do_lightcurve_plot, do_phase_diagram)
if do_field_charting:
logging.info("Starting field chart plotting...")
vsx_stars = list(filter(vsx_filter, star_descriptions))
do_charts_field.run_standard_field_charts(vsx_stars, wcs)
# do_charts_stats.main(fwhm)
# import code
# code.InteractiveConsole(locals=dict(globals(), **locals())).interact()
if do_reporting:
# star_descriptions_ucac4 = do_calibration.add_ucac4_to_star_descriptions(star_descriptions)
vsx_stars = list(filter(vsx_filter, star_descriptions))
logging.info(f"AAVSO Reporting with: {len(vsx_stars)} stars")
trash_and_recreate_dir(settings.aavsoreportsdir)
for star in vsx_stars:
do_aavso_report.report(settings.aavsoreportsdir, star,
comparison_stars_1_desc[0])
from utils import get_file_read, update_file, get_files_in_dir, split_path, clear_path, add_and_get_file
if __name__ == '__main__':
test = int(sys.argv[1])
if test == 0:
test_path = SRC_PATH + '/FS_3'
print(get_file_read("D1/1.1", test_path))
if test == 1:
test_path = SRC_PATH + '/' + 'cache'
file_name = 'D1/1.1'
file_content = 'Hello test'
print(update_file(file_name, test_path, file_content))
if test == 2:
test_path = SRC_PATH + '/' + 'FS_1/D1'
print(get_files_in_dir(test_path))
elif test == 3:
path = 'D1/1.1'
print(split_path(path)[1])
elif test == 4:
test_path = SRC_PATH + '/' + 'temp'
print(clear_path(test_path))
elif test == 5:
test_path = SRC_PATH + '/' + 'temp'
file_name = 'D1/1.1'
f = add_and_get_file(file_name, test_path)
print(f.read())
def hierarchical_diagnosis(program, fuzzing_dir, is_continuous):
"""
diagnose the program in few hierarchical steps:
1) dll diagnoses
1.1*) dll entry points diagnoses
2) function diagnoses
3) xref diagnoses
:param program: program to diagnose
:param fuzzing_dir: working dir
:param is_continuous: whether to use known bugs or use the bugs from previous step
:return:
"""
init_dirs(fuzzing_dir)
seedfiles_dir = os.path.join(fuzzing_dir, consts.SEEDFILES)
exploit_dir = os.path.join(fuzzing_dir, consts.EXPLOIT_DIR)
utils.copy_files_to_dir(exploit_dir, seedfiles_dir)
instances_dir = os.path.join(fuzzing_dir, consts.INSTANCES)
config = yaml.load(open(os.path.join(fuzzing_dir, "config.yaml")))
dll_working_dir = utils.mkdir_if_not_exists(os.path.join(fuzzing_dir, consts.DLL_WORKING_DIR))
dll_matrix_file = os.path.join(fuzzing_dir, consts.DLL_MATRIX)
function_matrix_file = os.path.join(fuzzing_dir, consts.FUNCTION_MATRIX)
dominator_matrix_file = os.path.join(fuzzing_dir, consts.DOMINATOR_MATRIX)
# entry_points_file = os.path.join(fuzzing_dir, consts.ENTRY_POINTS_MATRIX)
utils.copy_files_to_dir(seedfiles_dir, instances_dir)
utils.copy_files_to_dir(consts.EXAMPLES_DIR, instances_dir)
fuzz_project_dir(seedfiles_dir, instances_dir, consts.FUZZ_ITERATIONS)
# dll diagnoses
run_debugger_on_files(program, utils.get_files_in_dir(instances_dir), dll_working_dir, config, DLL_GRANULARITY,
None, None)
diagnoser.campaign_matrix.create_matrix_for_dir(dll_working_dir, os.path.join(fuzzing_dir, consts.DLL_DIAGNOSIS_RESULT),
dll_matrix_file)
dll_instance = readPlanningFile(dll_matrix_file)
dll_instance.diagnose()
# # #
# # # # # entry points diagnoses
# # # # named_diagnoses = filter(lambda diag: diag.probability > consts.DLL_DIAGNOSIS_THRESHOLD or True,
# # # # dll_instance.get_named_diagnoses())
# # # # entry_points_working_dir = utils.mkdir_if_not_exists(os.path.join(fuzzing_dir, consts.ENTRY_POINTS_WORKING_DIR))
# # # # run_debugger_on_files(program, utils.get_files_in_dir(instances_dir), entry_points_working_dir, config,
# # # # ENTRY_POINTS_GRANULARITY,
# # # # get_binaries_to_diagnose(named_diagnoses, config), None)
# # # # diagnoser.campaign_matrix.create_matrix_for_dir(entry_points_working_dir,
# # # # os.path.join(fuzzing_dir, consts.ENTRY_POINTS_DIAGNOSIS_RESULT),
# # # # entry_points_file)
# # # # entry_points_instance = readPlanningFile(entry_points_file)
# # # # entry_points_instance.diagnose()
# # #
# # # # function diagnosis
named_diagnoses = filter(lambda diag: diag.probability > consts.DLL_DIAGNOSIS_THRESHOLD,dll_instance.get_named_diagnoses())
binaries_to_diagnose = get_binaries_to_diagnose(named_diagnoses, config)
function_working_dir = utils.mkdir_if_not_exists(os.path.join(fuzzing_dir, consts.FUNCTION_WORKING_DIR))
run_debugger_on_files(program, utils.get_files_in_dir(instances_dir), function_working_dir, config, FUNCTION_GRANULARITY,
binaries_to_diagnose, None)
diagnoser.campaign_matrix.create_matrix_for_dir(function_working_dir, os.path.join(fuzzing_dir,
consts.FUNCTION_DIAGNOSIS_RESULT),
function_matrix_file)
function_instance = readPlanningFile(function_matrix_file)
function_instance.diagnose()
# dominators diagnosis
diagnosed_components = filter(lambda x: '&' in x and "crt" not in x and "sub_" not in x and "asan" not in x
,map(lambda x: x[0], function_instance.get_components_probabilities_by_name()))
tracing_data = {}
for comp in diagnosed_components:
dll = comp.split('#')[1]
address = comp.split('&')[0]
tracing_data.setdefault(dll, []).append(address)
dominator_working_dir = utils.mkdir_if_not_exists(os.path.join(fuzzing_dir, consts.DOMINATOR_WORKING_DIR))
run_debugger_on_files(program, utils.get_files_in_dir(instances_dir), dominator_working_dir , config, DOMINATOR_GRANULARITY, binaries_to_diagnose, tracing_data)
diagnoser.campaign_matrix.create_matrix_for_dir(dominator_working_dir, os.path.join(fuzzing_dir,
consts.FUNCTION_DIAGNOSIS_RESULT),
dominator_matrix_file)
dominator_instance = readPlanningFile(dominator_matrix_file)
dominator_instance.diagnose()
# xref diagnosis
diagnosed_components = map(lambda x: x[0],
filter(lambda x: '&' in x[0] and x[1] > 0.01,
dominator_instance.get_components_probabilities_by_name()))
diagnosed_components = map(lambda x: x[0], filter(lambda x: '&' in x[0],
sorted(dominator_instance.get_components_probabilities_by_name(), key=lambda x: x[1],reverse=True))[:20])
tracing_data = {}
for comp in diagnosed_components:
address, function_dll = comp.split('&')
print function_dll
tracing_data.setdefault(function_dll, []).extend(address.split("+"))
xref_working_dir = utils.mkdir_if_not_exists(os.path.join(fuzzing_dir, consts.XREF_WORKING_DIR))
run_debugger_on_files(program, utils.get_files_in_dir(instances_dir), xref_working_dir, config, XREF_GRANULARITY, binaries_to_diagnose, tracing_data)
diagnoser.campaign_matrix.create_matrix_for_dir(xref_working_dir, os.path.join(fuzzing_dir,
consts.FUNCTION_DIAGNOSIS_RESULT),
os.path.join(fuzzing_dir, consts.XREF_MATRIX))
def train(args):
X = []
y = []
train_dir = args.traindir
detector = dlib.get_frontal_face_detector()
sp = dlib.shape_predictor("models/shape_predictor_5_face_landmarks.dat")
facerec = dlib.face_recognition_model_v1(
"models/dlib_face_recognition_resnet_model_v1.dat")
if len(utils.get_files_in_dir(train_dir, '.csv')) != 0:
# train using csv files
print('Training using .csv files.')
preds_per_person = utils.load_faces_from_csv(train_dir)
for p in preds_per_person:
if p != 'unknown':
for l in preds_per_person[p]:
X.append(l[2])
y.append(p)
if len(X) == 0:
print('No faces found in database {}'.format(train_dir))
return
elif len(os.listdir(train_dir)) != 0:
# train using train folder
# Loop through each person in the training set
print('Training using faces in subfolders.')
for class_dir in os.listdir(train_dir):
if not os.path.isdir(os.path.join(train_dir, class_dir)):
continue
images = utils.get_images_in_dir(os.path.join(
train_dir, class_dir))
if len(images) == 0:
continue
print('adding {} to training data'.format(class_dir))
# Loop through each training image for the current person
for img_path in images:
locations, descriptors = utils.detect_faces_in_image(
img_path, detector, facerec, sp, use_entire_image=True)
# Add face descriptor for current image to the training set
X.append(descriptors[0])
y.append(class_dir)
print('{} faces used for training'.format(len(images)))
else:
print('Training directory does not contain valid training data.')
return
# Determine how many neighbors to use for weighting in the KNN classifier
n_neighbors = int(round(math.sqrt(len(X))))
print("Chose n_neighbors automatically:", n_neighbors)
# Create and train the KNN classifier
print("Training model with KNN ...")
knn_clf = neighbors.KNeighborsClassifier(n_neighbors=n_neighbors,
algorithm='ball_tree',
weights='distance')
knn_clf.fit(X, y)
# Save the trained KNN classifier
with open(os.path.join(args.outdir, 'knn.clf'), 'wb') as f:
pickle.dump(knn_clf, f)
# train the svm
print("Training model with an SVM ...")
recognizer = SVC(C=1.0, kernel="linear", probability=True)
recognizer.fit(X, y)
# Save the trained SVM
with open(os.path.join(args.outdir, 'svm.clf'), 'wb') as f:
pickle.dump(recognizer, f)
print('Trained models with {} faces'.format(len(X)))
def run_and_diagnose(program, instances_dir, working_dir, diagnosis_result, diagnosis_matrix,
granularity, config, binaries_to_diagnose, tracing_data):
run_debugger_on_files(program, utils.get_files_in_dir(instances_dir), working_dir, config, granularity, binaries_to_diagnose, tracing_data)
diagnoser.campaign_matrix.create_matrix_for_dir(working_dir, diagnosis_result, diagnosis_matrix)
# add page number
text = "{}".format(pdf.page_no())
pdf.set_xy(cover.left, cover.top)
pdf.multi_cell(cover.width, cover.height, text, align="C")
else:
text = "{}".format(pdf.page_no())
pdf.set_xy(pdf.w - 1, pdf.h - 1)
pdf.cell(0, 0, text, align="C")
return pdf
from PIL import Image
if __name__ == "__main__":
files = list(
get_files_in_dir("C:/Users/andris/Desktop/00066_stabilized_adjusted"))
step = int(len(files) / 20)
files = files[::step]
n = len(files)
print("create pdf...")
pdf = PDF(orientation='P', unit='in', format='A4')
pdf.line_width = 0
print("create rectangles...")
image = Image.open(files[0])
image_rect = Rectangle(0, 0, image.height, image.width)
page_rect = Rectangle(0, 0, pdf.h, pdf.w)
print_rect = page_rect.shrink(0.5)
rect = image_rect.fitIn(print_rect)
rectangles = [persp(rect, k=400, distance=i * step) for i in range(n)]
import utils
parser = argparse.ArgumentParser(description = 'Collect randomply sampling photos as dataset used for CrowdFlower.')
parser.add_argument('-d', help = 'The image data path.')
parser.add_argument('-o', help = 'The output file.')
parser.add_argument('-n', help = 'The number of sampled photos.')
parser.add_argument('-m', help = 'The output mode.')
parser.add_argument('-u', help = 'The URL prefix.')
args = parser.parse_args()
def write_file(filename, files, prefix, mode = 'a'):
f = open(filename, mode)
if mode == 'a':
f.write("\n" + prefix)
if mode == 'w':
f.write(prefix)
files.tofile(f, sep = "\n" + prefix)
f.close()
(files, fullpath_files) = utils.get_files_in_dir(args.d, True)
if args.n != None:
files = files[0:min(len(files), int(args.n))]
if args.m == None:
args.m = 'a'
write_file(args.o, files, args.u, args.m)
def load_training_batch(load_path):
batch_size = 1 # batch_size always 1, feed one gif
"""
Get gif array: [batch_size, pic_in_gif, 240, 240, 3]
coreesponding action: [batch_size, pic_in_gif, 2]
"""
print('in load_training_batch')
all_gif_names = get_files_in_dir(root_path=load_path, suffix='.gif')
# print(all_gif_names)
print('len(all_gif_names) = ' + str(len(all_gif_names)))
for start in range(0, len(all_gif_names), batch_size):
end = min(start + batch_size, len(all_gif_names))
# print('Batch start(%3d) -> end(%3d)' %(start,end))
batch_gif_names = all_gif_names[start:end]
# get batch_gifs [batch_size, pic_in_gif, 240, 240, 3]
gifs_dict = {}
gifs_dict = {
gif_name: imageio.mimread(gif_name)
for gif_name in batch_gif_names
}
# gifs = [imageio.mimread(gif_name) for gif_name in batch_gif_names]
che10000ck_all_gif_shape = True
gifs_rgb = []
# for g in gifs:
for name, g in gifs_dict.items():
g_ary = np.array(g, dtype='f')
check_all_gif_shape = True
# print('g_ary.shape', g_ary.shape)
if len(g_ary.shape) < 4:
# print('Strange g_ary shape')
print(
'Strange g_ary shape, name = {}, g_ary.shape = {}'.format(
name, g_ary.shape))
check_all_gif_shape = False
continue
try:
g_ary = g_ary[:, :, :, :3]
g_ary[:, :, :, 0] -= 103.939
g_ary[:, :, :, 1] -= 116.779
g_ary[:, :, :, 2] -= 123.68
# g_ary.astype(float32)
gifs_rgb.append(g_ary)
except Exception as e:
# double check, maybe no need
print('g_ary = g_ary[:3] Exception is ' + str(e))
print('g_ary.shape = ' + str(g_ary.shape))
# print(batch_gif_names)
print('name = ' + name)
check_all_gif_shape = False
#abandon this batch
if not check_all_gif_shape:
print('Abandon this batch from start(%3d) -> end(%3d)' %
(start, end))
continue
batch_gifs_normal = np.array(gifs_rgb)
# print('batch_gifs_normal.shape = %s ' % str(batch_gifs_normal.shape))
# get batch_actions [batch_size, pic_in_gif, 2]
batch_actions = [
np.loadtxt(
join(load_path,
'{}.csv'.format(gif_name.split('/')[-1].split('.')[0])))
for gif_name in batch_gif_names
]
batch_actions = np.array(batch_actions)
# print('batch_actions.shape = %s ' % str(batch_actions.shape))
# [[1,2]]
# batch_gifs_normal.shape = 1,20, 100,100,3
if batch_size == 1:
batch_gifs_normal = np.squeeze(batch_gifs_normal)
batch_actions = np.squeeze(batch_actions)
yield batch_gifs_normal, batch_actions
data = {'dir_port': SERVER_PORT}
requests.post(server_init_url,
data=json.dumps(data),
headers=cf.JSON_HEADER)
except:
print('Registry server not ready')
sys.exit(1)
#Get dir server port
try:
dir_port_url = format_registry_req('dir_server',
cf.REGISTRY_SERVER_PORT)
response = json.loads(requests.get(dir_port_url).content.decode())
dir_server_port = response['dir_port']
if str(dir_server_port) == str(-1):
sys.exit()
except:
print('No directory port up yet')
sys.exit()
#Get files supported by file server
file_names = get_files_in_dir(FILE_SERVER_PATH)
data = {'file_names': file_names}
#Send batch of files
url = format_node_req(SERVER_PORT, dir_server_port)
requests.post(url, data=json.dumps(data), headers=cf.JSON_HEADER)
app.run(host='0.0.0.0', port=SERVER_PORT, debug=False)
print("File server node running on port: ", SERVER_PORT)
