Code added to template not working after publishing

We want to track the usage and see who is hitting the pages and where they are hitting them from. A developer at our company who wrote some code for us to be able to do this using an includes file. When we place the code directly into the HTM page using notepad (after publishing) it works fine. When we put the code into the template (.HTT) and then publish it, that code does not appear in the published page.
Is there a setting in the template that would not let us throw a line of code for a server side include in the RoboHelp WYSIWYG editor? Or how do you add such code to the template and have it pull into every page it displays?
Using RH8, publishing WebHelp and not using RH Server.
Thanks.

This question is related to webhelp, not Microsoft HTML Help (CHMs) so I have moved it.
See www.grainge.org for RoboHelp and Authoring tips
Follow me @petergrainge

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