A circuit emulator includes emulation resources programmed to emulate a circuit, a clocking system for clocking logic implemented by the emulation resources, a resource interface circuit, a logic analyzer, and a debugger. The resource interface circuit supplies input signals to the emulation resources, stores data representing behavior of signals generated by the emulation resources produces in response to the input signals and configures operating characteristics of the clocking system. Upon detecting a specified event in the selected signals of the emulation resources, the logic analyzer asserts a trigger signal telling the clocking system to stop clocking the emulation resources. Communicating with the resource interface circuit and the logic analyzer via a packet routing network, the debugger acquires and processes the data stored by the resource interface circuit and transmits commands to the resource interface circuit and the logic analyzer specifying clocking system operating characteristics, controlling signal data transfer to the debugger, and defining the signal events the logic analyzer is to detect.