This scenario is adressed in this EQATEC forum thread:
A profiled app needs to be told when we want it to produce its profiling report. For plain apps this is simple and has therefore been automated: when Main exits. But your web-service has no similar "exit point" - it just keeps on running until you kill it.
Therefore you have to explicitly/manually tell the profiled web-service to take a snapshot. The easiest way is to simply run the profiler on the same machine as the web-service is running on: when the web-service is starting up it will automatically connect to the profiler and you can then run your tests and control/dump timing info at will using the "take snapshot" and "clear counters"-buttons.
Alternatively, you can make a reference to the supplied runtime-module from within your code and make explicit calls to the API (TakeSnapshot etc) precisely where you want in your code. The runtime-modules reside in C:\Program Files\EQATEC\EQATECProfiler\RuntimeDLL.