Renamed Chromosome to Organism

Also renamed chr.genes in organism to chromosome, this fits better with
biological model. We still have Organism$values as organism is an
environment which holds a list of organisms. It might make more sense if
population held a list rather than an env, but that's how the full
system is setup.
Combining driver and setup

Rename to follow (git will only recognize if contains are the same)
Renamed driver to geneticAlgorithm
Removing unneeded files