If the link-clicking part is problematic, perhaps it may be enough to run the script that generates the HTML, have the output go to a file, then give the filename as an argument to the browser e.g. firefox.

In that case, you could wrap the shell script like this:

#!/bin/sh
generate-html.pl > output.html
firefox output.html
[download]

So, you'd run your wrapper script, instead of clicking a link, for each iteration.

cheers