merge: Performance improvements for flow engine

This pull request applies multiple performance improvements for the flow engine and 
compute simulator.

* Optimize SimTraceWorkload (by storing fragments using several arrays)
* Skip fair-share algorithm if capacity remaining 
* Count interference for multiplexer inputs 
* Simplify FlowSink implementation 
* Do not update outputs if rate is unchanged
* Eliminate ArrayList iteration overhead 
* Optimize clock storage
* Specialize FlowEngine queues
* Eliminate clock access in hot path

**Breaking API Changes**

* `SimTraceWorkload` now accepts a `SimTrace` as parameter. This trace can be constructed using fragments or directly using builder class. Internally, the trace is now stored using several arrays.

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