API renaming #8
Description
The current name of some parameters is not clear or coherent. Some changes will include:
- replace frag by ligand
- replace prot by receptor
- replace coord by coordinates
- replace sel by selection
- replace path by region
- replace seq by sequence
- replace cut by cutoff
- replace inter by interatomic
- replace dist by distance
- put all keys in lowercase
- replace params by parameters
- replace zones by contacts
As these changes will give rise to backward incompatibilities, the major version will be bumped.