Modular code

Make the code modular so plotting can be done separately from simulating and plots from multiple simulations can be combined.

config/Fe10Cr20Al_normal_200_short.in

+[Job parameters]
+job_name = Fe10Cr20Al_normal_200_short
+report_file = True
+
+[Simulation parameters]
+sim_type = ase_sim
+kT = 200
+n_exchanges = 200000
+n_frames = 20
+rand_ox = True
+
+[Lattice parameters]
+bounds_scale = 25
+x_scale = 1
+y_scale = 1
+z_scale = 1
+basis = Fe
+empty_space = 0.5
+pot_filename = potentials_normal.txt
+
+[Bulk dopants]
+Cr = 0.10
+Al = 0.20
+
+[Figure parameters]
+profile_mean_range = True
+profile_anim_range = False
+energy_range = True
+diff_const = True
+Fe = s,#e06633
+Cr = o,#8a99c7
+Al = ^,#bfa6a6
+O = D,#ff0d0d
+X = x,#000000