Using Flask-Script

from flask import Flask
from flask_sqlalchemy import SQLAlchemy
from flask_script import Manager
from flask_migrate import Migrate, MigrateCommand
from urllib import parse
app = Flask(__name__)
app.config['SQLALCHEMY_DATABASE_URI'] = 'mysql+pymysql://zhuby:%s@192.168.0.43/EmployeeDB' % parse.unquote_plus('somIUpass#98')

db = SQLAlchemy(app)
migrate = Migrate(app, db)

manager = Manager(app)
manager.add_command('db', MigrateCommand)

class User(db.Model):
    id = db.Column(db.Integer, primary_key=True)
    name = db.Column(db.String(128))

if __name__ == '__main__':
    manager.run()

Assuming the above script is stored in a file named manage.py, all the database migration commands can be accessed by running the script:

$ python manage.py db init
$ python manage.py db migrate
$ python manage.py db upgrade
$ python manage.py db --help