in reply to Perl UI?
There is no need to involve PHP if you don't want to. Your first step probably should be to look into simple CGI driven pages (mod_perl is one place to start). Once you understand the concept it will take you no time to create an interface that calls your tools and spits back result into HTML instead of STDOUT. If you need inline code in HTML like PHP, JSP, ASP does you can look for embPerl and similar solutions.
In Section
Seekers of Perl Wisdom