def process(model_file, sequence_file, window_size):
model = json.loads(model_file.read())
model_file.close()
header, sequence = utils.load(sequence_file)
sequence_file.close()
print(header)
hmm = HMM(**model['model'])
subsequences = utils.prepare_subsequences(sequence, window_size)
decoded = ''
for seq in subsequences:
decoded += ''.join(hmm.decode(seq)[1])
print('{} / {}'.format(len(decoded), 3 * len(sequence)), file=sys.stderr)
lines = utils.prepare_subsequences(decoded, 80)
for l in lines:
print(l)