Cycle test fix 2 (#158)

* Updating to keep up with Direction mega PR
Fix several classes to use ActualDirection/DataMirror.directionOf API
Fixed up Flip and UInt literal api references in several tests

* Fix problem with --no-check-comb-loops and verilator
annotation was not being passed down
requires [Firrtl PR #619](https://github.com/freechipsproject/firrtl/pull/619) to be merged

* Fix problem with --no-check-comb-loops and firrtl-interpreter
annotation was not being passed down to the interpreter's lowering pass.

> This is built on top of the PR #157.  And needs to be merged at the same time as [Interpreter fixes PR #87](https://github.com/freechipsproject/firrtl-interpreter/pull/87)

* A bit of cleanup to HasCycleTest