Update manual and README (and sample files)

- Update all relevant references from jSymbolic to jSymbolic2
- Note that command line extraction of a directory now automatically extracts features from symbolic files in sub-directories as well
- Add MEI assumptions made by jMei2Midi
- Include sample graphs of melodic interval histogram, vertical interval histograms, wrapped vertical interval histogram, chord type histograms and all the instrument histograms.
- Add 2016 CIRMMT presentation content and images
- As well as any other relevant publications
- Add section on how to use extracted features with ACE, Weka and Excel
- Update Class Structure section of the manual
- Update Version History section of the manual
- Will need to update new feature numbers already added, based on numbering changes, and add new features as well.
- Substantially rewrite README
- Include an explicit link to the manual (in the file structure and on Sourceforge)
- Do complete read-through to make sure all changes are documented