dihedral_style class2 command

Accelerator Variants: class2/omp, class2/kk

Syntax

dihedral_style class2

Examples

dihedral_style class2
dihedral_coeff 1 100 75 100 70 80 60
dihedral_coeff * mbt 3.5945 0.1704 -0.5490 1.5228
dihedral_coeff * ebt 0.3417 0.3264 -0.9036 0.1368 0.0 -0.8080 1.0119 1.1010
dihedral_coeff 2 at 0.0 -0.1850 -0.7963 -2.0220 0.0 -0.3991 110.2453 105.1270
dihedral_coeff * aat -13.5271 110.2453 105.1270
dihedral_coeff * bb13 0.0 1.0119 1.1010

Description

The class2 dihedral style uses the potential

\[\begin{split}E = & E_d + E_{mbt} + E_{ebt} + E_{at} + E_{aat} + E_{bb13} \\ E_d = & \sum_{n=1}^{3} K_n [ 1 - \cos (n \phi - \phi_n) ] \\ E_{mbt} = & (r_{jk} - r_2) [ A_1 \cos (\phi) + A_2 \cos (2\phi) + A_3 \cos (3\phi) ] \\ E_{ebt} = & (r_{ij} - r_1) [ B_1 \cos (\phi) + B_2 \cos (2\phi) + B_3 \cos (3\phi) ] + \\ & (r_{kl} - r_3) [ C_1 \cos (\phi) + C_2 \cos (2\phi) + C_3 \cos (3\phi) ] \\ E_{at} = & (\theta_{ijk} - \theta_1) [ D_1 \cos (\phi) + D_2 \cos (2\phi) + D_3 \cos (3\phi) ] + \\ & (\theta_{jkl} - \theta_2) [ E_1 \cos (\phi) + E_2 \cos (2\phi) + E_3 \cos (3\phi) ] \\ E_{aat} = & M (\theta_{ijk} - \theta_1) (\theta_{jkl} - \theta_2) \cos (\phi) \\ E_{bb13} = & N (r_{ij} - r_1) (r_{kl} - r_3)\end{split}\]

where \(E_d\) is the dihedral term, \(E_{mbt}\) is a middle-bond-torsion term, \(E_{ebt}\) is an end-bond-torsion term, \(E_{at}\) is an angle-torsion term, \(E_{aat}\) is an angle-angle-torsion term, and \(E_{bb13}\) is a bond-bond-13 term.

\(\theta_1\) and \(\theta_2\) are equilibrium angles and \(r_1\), \(r_2\), and \(r_3\) are equilibrium bond lengths.

See (Sun) for a description of the COMPASS class2 force field.

Coefficients for the \(E_d\), \(E_{mbt}\), \(E_{ebt}\), \(E_{at}\), \(E_{aat}\), and \(E_{bb13}\) formulas must be defined for each dihedral type via the dihedral_coeff command as in the example above, or in the data file or restart files read by the read_data or read_restart commands.

These are the 6 coefficients for the \(E_d\) formula:

  • \(K_1\) (energy)

  • \(\phi_1\) (degrees)

  • \(K_2\) (energy)

  • \(\phi_2\) (degrees)

  • \(K_3\) (energy)

  • \(phi_3\) (degrees)

For the \(E_{mbt}\) formula, each line in a dihedral_coeff command in the input script lists 5 coefficients, the first of which is mbt to indicate they are MiddleBondTorsion coefficients. In a data file, these coefficients should be listed under a MiddleBondTorsion Coeffs heading and you must leave out the mbt, i.e. only list 4 coefficients after the dihedral type.

  • mbt

  • \(A_1\) (energy/distance)

  • \(A_2\) (energy/distance)

  • \(A_3\) (energy/distance)

  • \(r_2\) (distance)

For the \(E_{ebt}\) formula, each line in a dihedral_coeff command in the input script lists 9 coefficients, the first of which is ebt to indicate they are EndBondTorsion coefficients. In a data file, these coefficients should be listed under a EndBondTorsion Coeffs heading and you must leave out the ebt, i.e. only list 8 coefficients after the dihedral type.

  • ebt

  • \(B_1\) (energy/distance)

  • \(B_2\) (energy/distance)

  • \(B_3\) (energy/distance)

  • \(C_1\) (energy/distance)

  • \(C_2\) (energy/distance)

  • \(C_3\) (energy/distance)

  • \(r_1\) (distance)

  • \(r_3\) (distance)

For the \(E_{at}\) formula, each line in a dihedral_coeff command in the input script lists 9 coefficients, the first of which is at to indicate they are AngleTorsion coefficients. In a data file, these coefficients should be listed under a AngleTorsion Coeffs heading and you must leave out the at, i.e. only list 8 coefficients after the dihedral type.

  • at

  • \(D_1\) (energy)

  • \(D_2\) (energy)

  • \(D_3\) (energy)

  • \(E_1\) (energy)

  • \(E_2\) (energy)

  • \(E_3\) (energy)

  • \(\theta_1\) (degrees)

  • \(\theta_2\) (degrees)

\(\theta_1\) and \(\theta_2\) are specified in degrees, but LAMMPS converts them to radians internally; hence the various \(D\) and \(E\) are effectively energy per radian.

For the \(E_{aat}\) formula, each line in a dihedral_coeff command in the input script lists 4 coefficients, the first of which is aat to indicate they are AngleAngleTorsion coefficients. In a data file, these coefficients should be listed under a AngleAngleTorsion Coeffs heading and you must leave out the aat, i.e. only list 3 coefficients after the dihedral type.

  • aat

  • \(M\) (energy)

  • \(\theta_1\) (degrees)

  • \(\theta_2\) (degrees)

\(\theta_1\) and \(\theta_2\) are specified in degrees, but LAMMPS converts them to radians internally; hence \(M\) is effectively energy per radian^2.

For the \(E_{bb13}\) formula, each line in a dihedral_coeff command in the input script lists 4 coefficients, the first of which is bb13 to indicate they are BondBond13 coefficients. In a data file, these coefficients should be listed under a BondBond13 Coeffs heading and you must leave out the bb13, i.e. only list 3 coefficients after the dihedral type.

  • bb13

  • \(N\) (energy/distance^2)

  • \(r_1\) (distance)

  • \(r_3\) (distance)

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 on the Speed packages doc page. 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, INTEL, KOKKOS, OPENMP and OPT packages, respectively. They are only enabled if LAMMPS was built with those packages. See the Build package page 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 the Speed packages page for more instructions on how to use the accelerated styles effectively.

Restrictions

This dihedral style can only be used if LAMMPS was built with the CLASS2 package. See the Build package doc page for more info.

Default

none

(Sun) Sun, J Phys Chem B 102, 7338-7364 (1998).