I am trying to see how the structure evolves in time, and monitor where some bond rotation occurs. The long story short, I
could pack all relevant molecules in a box. I was doing some search for parameters for gromacs/namd/... but I found it
not straightforward, also the mixing of force fields is something I am not completely sure about. Then, I thought that pure
CP2K simulation could work, and it is doing a great deal in the minimisation process. But I don't know how long it could
take to converge completely.
As I wrote before, the goal of this simulation would be to see if some bond rotation occurs in the long term some spectra
would be great but at this point just the dynamics. That's why I asked here if there is some standard/accepted criteria
for using a structure as the initial frame for an AI MD simulation regarding the energies/forces. Thanks for you comments.