Update amdOneFile (amd-combined) output mode
Cleanup some old unused variables
Update the AMD output mode: wrup amd -r test.js -o dir
Adding the --output option for all output modes
Add all options back, and fix the source field in the loc object of the AST
Change // @sourceMappingURL to // #sourceMappingURL

See https://docs.google.com/document/d/1U1RGAehQwRypUTovF1KRlpiOFze0b-_2gc6fAH0KY0k/edit#heading=h.lmz475t4mvbx
Make wrapup and output emitters
Better logging and error handling
Remove old files
Make lib/main a factory function
Fix typo in namespace
Make sure the order of the deps and the requires array are in sync.
Fix all other tests with some new API changes
Use setTimeout in the notresolved test because the event emitter is async as well.
Rename some files