If you installed the Aptana Jaxer package, you'll find a folder called "public" in the top folder containing your Jaxer installation, and that's where the Apache included in Aptana Jaxer will expect your files and folders.

If you're using Jaxer within Studio, you can put Jaxer content in any project, and by default Jaxer will process any web pages in that project if it's running. Note that if a web page contains no Jaxer-specific code or markup, Jaxer will not alter the web page sent to the browser.

In either case, if you'd like Jaxer to pull in the contents of an HTML file when processing some page, you should put that included HTML file inside a folder called "jaxer-include" to ensure that Jaxer doesn't process that file before it includes it in the page. Click here for more information.