LAMMPS (29 May 2010-ICMS) # Ionic surfactant system: S12S units lj dimension 3 atom_style full read_data data.gauss-diel 1 = max bonds/atom 1 = max angles/atom 1 = max dihedrals/atom orthogonal box = (-35 -35 -35) to (35 35 35) 2 by 2 by 2 processor grid 4200 atoms 3600 bonds 3300 angles 3000 dihedrals 2 = max # of 1-2 neighbors 2 = max # of 1-3 neighbors 4 = max # of 1-4 neighbors 6 = max # of special neighbors pair_style hybrid/overlay lj/cut 3.5 coul/long 18.0 gauss/cut 3.4 coul/diel 2.5 pair_modify shift yes dielectric 0.4255 kspace_style pppm/cg 0.0001 kspace_modify mesh 12 12 12 order 3 bond_style harmonic angle_style harmonic dihedral_style opls pair_coeff 1 1 lj/cut 0.5 1.775 3.268 # HG HG pair_coeff 1 1 coul/long # HG HG pair_coeff 1 1 gauss/cut 0.1 2.549 0.1525 pair_coeff 1 2 lj/cut 0.31623 1.5329 1.7206 # HG CM pair_coeff 1 3 lj/cut 0.31623 1.5329 1.7206 # HG CT pair_coeff 1 4 lj/cut 0.05 1.75 4.375 # HG CI pair_coeff 1 4 coul/long # HG CI pair_coeff 1 4 gauss/cut 0.2805 1.45 0.112 pair_coeff 1 4 coul/diel 78. 1.375 0.112 pair_coeff 2 2 lj/cut 0.2000 1.2910 3.2275 # CM CM pair_coeff 2 3 lj/cut 0.2000 1.2910 3.2275 # CM CT pair_coeff 2 4 lj/cut 0.4472 1.1455 1.28585 # CM CI pair_coeff 3 3 lj/cut 1.95 1.291 3.2275 # CT CT pair_coeff 3 4 lj/cut 0.4472 1.1455 1.28585 # CT CI pair_coeff 4 4 lj/cut 1.0 10. 1.12246 # CI CI pair_coeff 4 4 coul/long # CI CI bond_coeff 1 12650.0000 0.7500 # HG CM FROM TOP bond_coeff 2 12650.0000 0.5000 # CM CM FROM TOP bond_coeff 3 12650.0000 0.5000 # CM CM FROM TOP bond_coeff 4 12650.0000 0.5000 # CM CM FROM TOP bond_coeff 5 12650.0000 0.5000 # CM CM FROM TOP bond_coeff 6 12650.0000 0.5000 # CM CM FROM TOP bond_coeff 7 12650.0000 0.5000 # CM CM FROM TOP bond_coeff 8 12650.0000 0.5000 # CM CM FROM TOP bond_coeff 9 12650.0000 0.5000 # CM CM FROM TOP bond_coeff 10 12650.0000 0.5000 # CM CM FROM TOP bond_coeff 11 12650.0000 0.5000 # CM CM FROM TOP bond_coeff 12 12650.0000 0.5000 # CM CT FROM TOP angle_coeff 1 85.7600 109.5000 # HG CM CM FROM TOP angle_coeff 2 85.7600 111.0000 # CM CM CM FROM TOP angle_coeff 3 85.7600 111.0000 # CM CM CM FROM TOP angle_coeff 4 85.7600 111.0000 # CM CM CM FROM TOP angle_coeff 5 85.7600 111.0000 # CM CM CM FROM TOP angle_coeff 6 85.7600 111.0000 # CM CM CM FROM TOP angle_coeff 7 85.7600 111.0000 # CM CM CM FROM TOP angle_coeff 8 85.7600 111.0000 # CM CM CM FROM TOP angle_coeff 9 85.7600 111.0000 # CM CM CM FROM TOP angle_coeff 10 85.7600 111.0000 # CM CM CM FROM TOP angle_coeff 11 85.7600 111.0000 # CM CM CT FROM TOP dihedral_coeff 1 5.7431 -2.53241 5.0742 0.0 # HG CM CM CM FROM TOP dihedral_coeff 2 5.7431 -2.53241 5.0742 0.0 # CM CM CM CM FROM TOP dihedral_coeff 3 5.7431 -2.53241 5.0742 0.0 # CM CM CM CM FROM TOP dihedral_coeff 4 5.7431 -2.53241 5.0742 0.0 # CM CM CM CM FROM TOP dihedral_coeff 5 5.7431 -2.53241 5.0742 0.0 # CM CM CM CM FROM TOP dihedral_coeff 6 5.7431 -2.53241 5.0742 0.0 # CM CM CM CM FROM TOP dihedral_coeff 7 5.7431 -2.53241 5.0742 0.0 # CM CM CM CM FROM TOP dihedral_coeff 8 5.7431 -2.53241 5.0742 0.0 # CM CM CM CM FROM TOP dihedral_coeff 9 5.7431 -2.53241 5.0742 0.0 # CM CM CM CM FROM TOP dihedral_coeff 10 5.7431 -2.53241 5.0742 0.0 # CM CM CM CT FROM TOP timestep 0.002 reset_timestep 0 group cions type 4 300 atoms in group cions group sds subtract all cions 3900 atoms in group sds velocity all create 1. 87287 dist gaussian neighbor 1.5 multi neigh_modify exclude molecule sds neigh_modify every 5 delay 0 check yes fix 1 all nve/limit 0.2 fix 2 all langevin 1.0 1.0 0.05 18273 thermo_style multi thermo 500 run 2000 PPPM initialization ... G vector = 0.109922 grid = 12 12 12 stencil order = 3 RMS precision = 0.000349313 brick FFT buffer size/proc = 729 288 486 Memory usage per processor = 5.99733 Mbytes ---------------- Step 0 ----- CPU = 0.0000 (sec) ---------------- TotEng = 9.9401 KinEng = 1.4996 Temp = 1.0000 PotEng = 8.4405 E_bond = 0.0036 E_angle = 0.1237 E_dihed = 0.3185 E_impro = 0.0000 E_vdwl = 8.0100 E_coul = -0.0116 E_long = -0.0036 Press = 0.4086 ---------------- Step 500 ----- CPU = 0.4101 (sec) ---------------- TotEng = 2.7881 KinEng = 1.5273 Temp = 1.0184 PotEng = 1.2608 E_bond = 0.4529 E_angle = 0.3844 E_dihed = 0.4277 E_impro = 0.0000 E_vdwl = -0.0022 E_coul = 0.0016 E_long = -0.0035 Press = -0.0027 ---------------- Step 1000 ----- CPU = 0.8034 (sec) ---------------- TotEng = 2.7685 KinEng = 1.4797 Temp = 0.9867 PotEng = 1.2888 E_bond = 0.4669 E_angle = 0.3879 E_dihed = 0.4388 E_impro = 0.0000 E_vdwl = -0.0020 E_coul = 0.0011 E_long = -0.0038 Press = -0.0003 ---------------- Step 1500 ----- CPU = 1.1954 (sec) ---------------- TotEng = 2.8092 KinEng = 1.5019 Temp = 1.0015 PotEng = 1.3073 E_bond = 0.4716 E_angle = 0.3748 E_dihed = 0.4673 E_impro = 0.0000 E_vdwl = -0.0034 E_coul = 0.0010 E_long = -0.0039 Press = -0.0056 ---------------- Step 2000 ----- CPU = 1.5852 (sec) ---------------- TotEng = 2.8481 KinEng = 1.5096 Temp = 1.0066 PotEng = 1.3386 E_bond = 0.4741 E_angle = 0.3764 E_dihed = 0.4952 E_impro = 0.0000 E_vdwl = -0.0037 E_coul = 0.0005 E_long = -0.0040 Press = 0.0018 Loop time of 1.58526 on 8 procs for 2000 steps with 4200 atoms Pair time (%) = 0.21149 (13.3411) Bond time (%) = 0.473857 (29.8915) Kspce time (%) = 0.433522 (27.3471) Neigh time (%) = 0.0441432 (2.78461) Comm time (%) = 0.305519 (19.2725) Outpt time (%) = 0.000222921 (0.0140622) Other time (%) = 0.116503 (7.34914) FFT time (% of Kspce) = 0.16619 (38.3348) FFT Gflps 3d (1d only) = 3.1005 23.9601 Nlocal: 525 ave 625 max 427 min Histogram: 1 1 0 2 0 1 0 2 0 1 Nghost: 4466 ave 4640 max 4345 min Histogram: 2 1 0 0 1 2 1 0 0 1 Neighs: 3141.38 ave 3956 max 2489 min Histogram: 1 2 1 1 0 0 0 1 0 2 Total # of neighbors = 25131 Ave neighs/atom = 5.98357 Ave special neighs/atom = 4.71429 Neighbor list builds = 14 Dangerous builds = 2