Solution
import os
from flask_script import Manager
from flask_migrate import Migrate, MigrateCommand
from app import app, db
app.config.from_object(os.environ['APP_SETTINGS'])
migrate = Migrate(app, db)
manager = Manager(app)
manager.add_command('db', MigrateCommand)
if __name__ == '__main__':
manager.run()
$ python manage.py db init
$ python manage.py db migrate
$ python manage.py db upgrade