Cgi Timeout Error???

[thepip3r 0]

PHP: 5
MySQL: 5
I have a site that writes a bunch of information to a database. I had to use set_time_limit() to increase the default processing time for some of my scripts and one of them (the one that takes the longest to run) times out now with the following error:

CGI Timeout
The specified CGI application exceeded the allowed time for processing. The server has deleted the process.

There are a myriad of people who've had this problem on the net but none of them seem to be the same answer and none of them seem to be the fix-all.

If this problem did NOT occur before processing got very long, is it a safe assumption to just say that the increased amount of processing time exceeded the CGI limit like maybe for IIS or something? If that's so, is there a way to change that limit?