Reorganisation & optimisation

Made some things more robust and added some documentation.

Changelog:

• allow suppressed setups
• checks if a setup has operations in it
• moved fusion api code into src folder
• added some log statements to make it more obvious what is happening when using the .exe
• updated readme to describe non-planar properly
• updated readme to clarify some missing points
• formatted all code to conform to flake8
• added doc strings to all functions in ASMBL_parser.py