My system consists a cylinder constraint in which 40
polymers and 4400 ions are located. This cylinder is located
in a larger box, but all the particles are within the cylinder
and no particle is out of it.The length of the cylinder is the
same as the length of my box. I want to make my system
periodic in only one direction ( along the cylinder's axis).
The question is which electrostatic algorithm is appropriate
for my system?
Should I use the MMM1D algorithm or something else?
I would appreciate if some one can help me.