To compile the code:
Navigate to the folder that contains the README and Makefile and type: "make"
To run the code:
From the same folder as this README file and Makefile, type:
java molecule.RunSimulation <no_hydrogens> <no_carbons>
For example:
java molecule.RunSimulation 4 1
java molecule.RunSimulation 8 2
java molecule.RunSimulation 12 3