bond_style quartic command

bond_style quartic/omp command

Syntax

bond_style quartic

Examples

bond_style quartic
bond_coeff 2 1200 -0.55 0.25 1.3 34.6878

Description

The quartic bond style uses the potential

_images/bond_quartic.jpg

to define a bond that can be broken as the simulation proceeds (e.g. due to a polymer being stretched). The sigma and epsilon used in the LJ portion of the formula are both set equal to 1.0 by LAMMPS.

The following coefficients must be defined for each bond type via the bond_coeff command as in the example above, or in the data file or restart files read by the read_data or read_restart commands:

  • K (energy/distance^4)
  • B1 (distance)
  • B2 (distance)
  • Rc (distance)
  • U0 (energy)

This potential was constructed to mimic the FENE bond potential for coarse-grained polymer chains. When monomers with sigma = epsilon = 1.0 are used, the following choice of parameters gives a quartic potential that looks nearly like the FENE potential: K = 1200, B1 = -0.55, B2 = 0.25, Rc = 1.3, and U0 = 34.6878. Different parameters can be specified using the bond_coeff command, but you will need to choose them carefully so they form a suitable bond potential.

Rc is the cutoff length at which the bond potential goes smoothly to a local maximum. If a bond length ever becomes > Rc, LAMMPS “breaks” the bond, which means two things. First, the bond potential is turned off by setting its type to 0, and is no longer computed. Second, a pairwise interaction between the two atoms is turned on, since they are no longer bonded.

LAMMPS does the second task via a computational sleight-of-hand. It subtracts the pairwise interaction as part of the bond computation. When the bond breaks, the subtraction stops. For this to work, the pairwise interaction must always be computed by the pair_style command, whether the bond is broken or not. This means that special_bonds must be set to 1,1,1, as indicated as a restriction below.

Note that when bonds are dumped to a file via the dump local command, bonds with type 0 are not included. The delete_bonds command can also be used to query the status of broken bonds or permanently delete them, e.g.:

delete_bonds all stats
delete_bonds all bond 0 remove

Styles with a gpu, intel, kk, omp, or opt suffix are functionally the same as the corresponding style without the suffix. They have been optimized to run faster, depending on your available hardware, as discussed in Section 5 of the manual. The accelerated styles take the same arguments and should produce the same results, except for round-off and precision issues.

These accelerated styles are part of the GPU, USER-INTEL, KOKKOS, USER-OMP and OPT packages, respectively. They are only enabled if LAMMPS was built with those packages. See the Making LAMMPS section for more info.

You can specify the accelerated styles explicitly in your input script by including their suffix, or you can use the -suffix command-line switch when you invoke LAMMPS, or you can use the suffix command in your input script.

See Section 5 of the manual for more instructions on how to use the accelerated styles effectively.


Restrictions

This bond style can only be used if LAMMPS was built with the MOLECULE package. See the Making LAMMPS section for more info on packages.

The quartic style requires that special_bonds parameters be set to 1,1,1. Three- and four-body interactions (angle, dihedral, etc) cannot be used with quartic bonds.