You can change the software you use to create your site anytime you like. While looking into this for you, I noticed a couple of things:
Since you have not published any files from the builder and your builder account is actually located on a separate server, you will not have to remove any files in order to change to a different software application for building your site. You can install Zen Cart through Fantastico De Luxe in your cPanel.
Since your domain is not yet pointed to us and Zen Cart (like many programs) relies on your site's URL, you will want to modify your hosts file on your local computer so that you can in essence "trick" your local computer. This way, when you navigate to your domain, you will actually be taken to the Web Hosting Hub server your account is on instead of where the domain is currently pointed to. For step-by-step instructions on editing your local computer's hosts file, please see:
How to modify your hosts file on a Mac
Please let us know if you have any questions or need any additional assistance.
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