Be sure to have such files if needed. If files are not found, the user is typically prompted for input. There can be at most 10,000 lines of such descriptions. There is no provision for comments. Reading in a file automatically replaces all previous interaction values.
Commands have precedence in the same order - local over home over data directory.
Lines which can not be interpreted as comments or commands are written to the textport as errors. It may be edited by the user to include more specific radii assignments, such as different radii for different carbons, or to alter the radius values therein, for example setting hydrogen radii to zero. The format of these specifications is described in Appendix A. v3.dat is an unformatted file which contains information necessary to the program to perform marching cubes surface construction. This is a default charge set for most proteins. Note that because of the variability of atom names in pdb files few guarantees can be made that the protein or DNA will correctly charge.