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lammps/examples/ellipse/log.ellipse.gayberne.10Sep10.linux.4
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LAMMPS (10 Sep 2010)
# GayBerne ellipsoids in LJ background fluid
units lj
atom_style ellipsoid
dimension 2
lattice sq 0.02
Lattice spacing in x,y,z = 7.07107 7.07107 7.07107
region box block 0 20 0 20 -0.5 0.5
create_box 2 box
Created orthogonal box = (0 0 -3.53553) to (141.421 141.421 3.53553)
2 by 2 by 1 processor grid
create_atoms 1 box
Created 400 atoms
set group all type/fraction 2 0.1 95392
45 settings made for type/fraction
set group all quat/random 18238
400 settings made for quat/random
mass 1 1.0
mass 2 1.5
shape 1 1 1 1
shape 2 3 1 1
compute rot all temp/asphere
group spheroid type 1
355 atoms in group spheroid
variable dof equal count(spheroid)+2
compute_modify rot extra ${dof}
compute_modify rot extra 357
velocity all create 2.4 87287 loop geom
pair_style gayberne 1.0 3.0 1.0 4.0
pair_coeff 1 1 3.0 1.0 1 1 1 1 1 1 2.5
pair_coeff 1 2 3.0 1.0 1 1 1 0 0 0
pair_coeff 2 2 1.0 1.0 1 1 0.2 0 0 0
#pair_style resquared 4.0
#pair_coeff 1 1 3.0 1 1 1 1 1 1 1 2.5
#pair_coeff 1 2 3.0 1 1 1 1 0 0 0
#pair_coeff 2 2 1.0 1 1 1 0.2 0 0 0
neighbor 0.8 bin
thermo_style custom step c_rot epair etotal press vol
thermo 100
timestep 0.002
dump 1 all custom 100 dump.ellipse.gayberne id type x y z quatw quati quatj quatk
#dump 1 all custom 100 dump.ellipse.resquared # id type x y z quatw quati quatj quatk
fix 1 all npt/asphere temp 2.0 2.0 0.1 iso 0.0 1.0 1.0 mtk no pchain 0 tchain 1
fix 2 all enforce2d
compute_modify 1_temp extra ${dof}
compute_modify 1_temp extra 357
# equilibrate to shrink box around dilute system
run 2000
Memory usage per processor = 2.55985 Mbytes
Step rot E_pair TotEng Press Volume
0 2.2718861 0 2.394 0.04788 20000
100 1.7443002 0 1.8380563 0.03576216 20558.672
200 2.2770454 0 2.3994366 0.046545139 20620.298
300 1.8573283 0 1.9571597 0.04240689 18460.771
400 2.1709963 -0.00050890768 2.2871782 0.066789189 13689.461
500 1.987484 -0.043660052 2.0342913 0.099199049 8475.4405
600 2.088535 -0.24318266 1.8270941 0.22391583 4674.8592
700 2.2604089 -0.73325761 1.481207 0.57184109 2507.095
800 1.8731398 -1.6161576 0.22080738 1.3049285 1420.4278
900 2.1404423 -3.0146759 -0.84039269 3.3566833 922.07169
1000 1.5927835 -4.5754144 -2.9697785 2.5493591 743.19289
1100 1.8380043 -4.8820159 -3.0604394 2.2950846 708.014
1200 2.05516 -4.5701279 -2.4718822 1.466469 753.52878
1300 2.0000364 -4.0755503 -2.031995 0.35675413 842.14053
1400 2.1055032 -3.7342781 -1.6632699 0.58193577 925.51606
1500 1.9241806 -3.582658 -1.639377 0.24973032 1006.7339
1600 2.125676 -3.4733166 -1.3572836 0.72069214 1061.1355
1700 1.8811354 -3.2933821 -1.4183258 0.59272021 1119.2646
1800 2.1014782 -3.1254259 -1.0248797 0.95254771 1162.1817
1900 1.8977855 -3.1905908 -1.2727444 0.73157369 1191.4876
2000 2.0794708 -3.253147 -1.2230906 0.4949131 1187.4615
Loop time of 0.476776 on 4 procs for 2000 steps with 400 atoms
Pair time (%) = 0.238156 (49.9513)
Neigh time (%) = 0.00350028 (0.734157)
Comm time (%) = 0.0994155 (20.8516)
Outpt time (%) = 0.0352384 (7.39098)
Other time (%) = 0.100466 (21.0719)
Nlocal: 100 ave 113 max 79 min
Histogram: 1 0 0 0 0 1 0 0 1 1
Nghost: 139 ave 151 max 130 min
Histogram: 2 0 0 0 0 0 1 0 0 1
Neighs: 710.25 ave 872 max 487 min
Histogram: 1 0 0 0 0 1 0 1 0 1
Total # of neighbors = 2841
Ave neighs/atom = 7.1025
Neighbor list builds = 113
Dangerous builds = 67
# run dynamics on dense system
unfix 1
fix 1 all nve/asphere
run 2000
Memory usage per processor = 2.56129 Mbytes
Step rot E_pair TotEng Press Volume
2000 2.0794708 -3.253147 -1.2230906 0.4949131 1187.4615
2100 2.0350673 -3.2084761 -1.1823685 0.33981978 1187.4615
2200 1.9674878 -3.1385619 -1.1467435 1.1720135 1187.4615
2300 2.0160349 -3.191283 -1.1652126 0.98222386 1187.4615
2400 2.1323063 -3.3152815 -1.1669961 0.76099908 1187.4615
2500 2.0866911 -3.269205 -1.1766061 0.67971625 1187.4615
2600 2.0982809 -3.2774415 -1.1869913 0.90455071 1187.4615
2700 2.0482787 -3.2229465 -1.1928888 0.69426015 1187.4615
2800 1.9676347 -3.1400425 -1.1685847 0.75777776 1187.4615
2900 2.0421428 -3.2182336 -1.1866972 0.79380253 1187.4615
3000 2.1073761 -3.2869609 -1.2012929 0.18884178 1187.4615
3100 2.0468821 -3.2229817 -1.1821046 0.70463705 1187.4615
3200 2.1165741 -3.2984138 -1.1590941 0.51959913 1187.4615
3300 2.1521089 -3.3382737 -1.1802478 0.45166402 1187.4615
3400 2.0959885 -3.2788049 -1.1606673 0.75566585 1187.4615
3500 2.0631855 -3.2449254 -1.1408251 0.77918259 1187.4615
3600 2.0154969 -3.1915386 -1.1639525 0.51082244 1187.4615
3700 2.0119173 -3.1850271 -1.1905748 0.27307383 1187.4615
3800 1.8839806 -3.0490979 -1.1818156 0.85429563 1187.4615
3900 1.9905573 -3.1627154 -1.1658069 0.63888823 1187.4615
4000 1.9708292 -3.1384046 -1.1695619 0.86370151 1187.4615
Loop time of 0.544405 on 4 procs for 2000 steps with 400 atoms
Pair time (%) = 0.295343 (54.2506)
Neigh time (%) = 0.00209796 (0.385368)
Comm time (%) = 0.151207 (27.7748)
Outpt time (%) = 0.0353975 (6.50206)
Other time (%) = 0.0603593 (11.0872)
Nlocal: 100 ave 119 max 69 min
Histogram: 1 0 0 0 0 0 0 2 0 1
Nghost: 136.5 ave 148 max 129 min
Histogram: 2 0 0 0 0 1 0 0 0 1
Neighs: 726 ave 949 max 414 min
Histogram: 1 0 0 0 0 1 0 1 0 1
Total # of neighbors = 2904
Ave neighs/atom = 7.26
Neighbor list builds = 47
Dangerous builds = 0
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