Write a single columned file containing the <tt>color_ind</tt> array
for all atoms.  The file name is specified by <tt>finalcnfile</tt>.

<p>
The content of the <tt>color_ind</tt> array depends on the value of <tt>plot_color_axis</tt>.
When <tt>plot_color_axis = 0</tt> or 1, <tt>color_ind</tt> is the same as the potential energy
contribution from each atom (<tt>EPOT_IND</tt>).  When <tt>plot_color_axis = 2</tt>, 
<tt>color_ind</tt> is the same as the central symmetry deviation parameter (<tt>TOPOL</tt>).



