I've just installed a SSL certificate on my web site, but when I view it in my browser (Chrome), the browser warns me that it's not totally secure:
What am I doing wrong, and how do I correct it?
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Anything with a reference to non-https links will invalidate the site.
This includes all css, images, js etc.
For Google Analytics see - http://support.google.com/googleanalytics/bin/answer.py?hl=en&answer=55483 for secure tracking
Also see similar post - https://stackoverflow.com/questions/5028785/what-can-invalidate-ssl-php-jquery
Because you reference objects that are not fetched over https, or are served via a server with a self-signed or expired certificate. Usually googles analytics.js or similar.
Use firebug or something similar to determine what the objects are.