Final cleanup and documentation

[proycon]

I have done some cleanup of forced alignment so it does better error catching, separation of scripts and data, upgrade to Python 3. There are still various clean up issues that should be resolved, I'll aggregate them in this issue, more or less in order of priority:

• - Add a license for the code (there is none currently)
• - Add specific licenses for the data (especially if it concerns restricted data, there is no license information currently!)
• - Add some documentation to the README (description of what the software does, how it can be installed etc).
• - Define more output templates in the webservice. The webservice outputs files that are not formally defined in the webservice configuration. It's recommended to define everything that
• - Do not pollute the input directory: currently the input/ seems to be uses as working directly and temporary/output files are accumulated there. Ideally, this should not happen (nothing should be written there except for the input).
• - The status information that is relayed to the user (via $STATUSFILE) could perhaps be more informative.
• - Remove debug lines from scripts (there are non-informative debug lines like PPPPPPPPP that clutter the output, verbose output is fine and recommended but it should be informative)