Write routine and metods how to keep a webservers php and javascript components safe

For our iso13486 quality system we need to document a routine on how we make a webservers PHP and javascript components safe. By , for example, mailinglists, opensource software etc
-How we detect vulnerabilities that are found by the comunity.
-How we test for vulnerabilities ourselvs
-How we mitigate any trouble that is found
-How we document this