Logging: Add runtime to moduleDone

Add runtime to moduleDone
Minor cleanup of other logging runtime

Fixes #645
`assert.ok( logContext.runtime >= 0, "log context: runtime" );` would solve both assertions above regarding the `NaN` case.

and to keep the reasonable value we should consider something more reasonable, like 50 or 15ms (regarding slow envs as mobile devices), my results shows we're never getting it close to 1000ms.

![screen shot 2014-09-03 at 17 18 42](https://cloud.githubusercontent.com/assets/301201/4140703/a745f354-33a7-11e4-8ca9-939ca22c11da.png)