coccus command

Syntax

fix ID group-ID nufeb/division/coccus diameter seed keyword value ...

ID = user-assigned name for the fix
group-ID = ID of the group atoms to apply the fix to
diameter = threshold diameter to trigger division
seed = random # seed (positive integer)
zero keyword/value pair may be appended

keyword = eps_den

eps_den value = EPS density (default: 30 kg/m3)

Examples

#--- examples/biofilm-heterotroph ---#

 fix f_div all nufeb/division/coccus 1.36e-6 1234

Description

Perform microbial division to the coccus style atoms (atom_style coccus) defined in group-ID. Division occurs when the diameter reaches the threshold diameter value. The cell then divides into two daughter cells. The total mass of the two daughter cells is always conserved from the parent cell. One daughter cell is randomly assigned 40% - 60% of the parent cell’s mass, and the other gets the rest. Moreover, one daughter cell retains the position of the mother cell, whereas the other cell is placed on a spherical trajectory around it.

The random seed is used for the stochastic operations, and the random numbers generated by each processor are different. This means the coordinates of individual atoms will be different when running on different numbers of processors. eps_den represents the density of EPS shell and is used to update the outer_mass and outer_diameter coccus style atoms.

Restrictions

This fix is not compatible with the following commands:

atom_style bacillus