I want to ask a question about the autogenerate command.
autogen angle dihedral
generate angles and dihedrals ONLY for the atoms which are bonded by a bond command in the RTF.
For example, I am working on a metal cluster with hydrocarbon chains bonded to some of the metal atoms. Some of the metal atoms in the core of the cluster are controlled by only nonbonded forces while metal atoms bonded to other metal atoms have bond terms in the RTF.
Thus the question I have is what angles and dihedral angles be generated by use of the autogenerate command?
I hope that only atoms with the bond term in the RTF will have the corresponding angles and dihedral angles.
Thanks so much for your help with this.