Fixed setup.py modules
Working mostly

Edge cases and behaviour for neighbourhood density function in general
need some work.
Updated neighden tests

Currently not passing
Clean up
Neigh den working again (tests pass)
Merge pull request #207 from kchall/nd-gui

Nd gui
make existing command line scripts installable
fix pointers to pct.py
add relative functional load
minor minor bug fix
update Word.transcription to use getattr in functional load and its CL
rename `tier` in FL to `sequence_type`
fix sequence_type bug
allow any analysis to be run on any tier by renaming/creating `sequence_type`
fix neighdens args bug
Merge in from master