Phinx (https://phinx.org/) makes it ridiculously easy to manage the database migrations for your PHP app. In less than 5 minutes you can install Phinx and create your first database migration. Phinx is just about migrations without all the bloat of a database ORM system or framework.
For Debian, Ubuntu & friends please use repo:
wget -O - http://v.s.cz/info@vitexsoftware.cz.gpg.key|sudo apt-key add -
echo deb http://v.s.cz/ stable main > /etc/apt/sources.list.d/ease.list
aptitude update
aptitude install php-phinx
simply run phinx in /usr/bin
To build package simply run deb-package.sh (cli/php.ini: phar.readonly = Off)
Happy coding!