I'm conducting a relaxation calculation on a monolayer of MoS2 with a 3x3x1 supercell, where one Molybdenum (Mo) atom is substituted with a Palladium (Pd) atom. However, the calculation is not converging. I suspect that the doping of the Pd atom may be causing the structure to become non-physical...
How can one determine the bond length of a diatomic or tri-atomic molecule(rot. state J=3 and vib. state v=2) from its ground state bond length (x angstrom) using computational tools or programming code?