LAMMPS (30 Apr 2019) using 1 OpenMP thread(s) per MPI task # 3d Lennard-Jones melt # # This example requires that the example models provided with # the kim-api package are installed. see the ./lib/kim/README or # ./lib/kim/Install.py files for details on how to install these # example models. # variable x index 1 variable y index 1 variable z index 1 variable xx equal 20*$x variable xx equal 20*1 variable yy equal 20*$y variable yy equal 20*1 variable zz equal 20*$z variable zz equal 20*1 units metal atom_style atomic newton on kim_style init LennardJones_Ar lattice fcc 4.4300 Lattice spacing in x,y,z = 4.43 4.43 4.43 region box block 0 ${xx} 0 ${yy} 0 ${zz} region box block 0 20 0 ${yy} 0 ${zz} region box block 0 20 0 20 0 ${zz} region box block 0 20 0 20 0 20 create_box 1 box Created orthogonal box = (0 0 0) to (88.6 88.6 88.6) 1 by 2 by 2 MPI processor grid create_atoms 1 box Created 32000 atoms create_atoms CPU = 0.0979962 secs #pair_style lj/cut 8.1500 #pair_coeff 1 1 0.0104 3.4000 kim_style define Ar pair_style kim LennardJones_Ar WARNING: KIM Model does not provide `partialParticleEnergy'; energy per atom will be zero (src/KIM/pair_kim.cpp:980) WARNING: KIM Model does not provide `partialParticleVirial'; virial per atom will be zero (src/KIM/pair_kim.cpp:985) pair_coeff * * Ar mass 1 39.95 velocity all create 200.0 232345 loop geom neighbor 0.3 bin neigh_modify delay 0 every 1 check yes fix 1 all nve #fix 1 all npt temp 1.0 1.0 1.0 iso 1.0 1.0 3.0 run 100 Neighbor list info ... update every 1 steps, delay 0 steps, check yes max neighbors/atom: 2000, page size: 100000 master list distance cutoff = 8.45 ghost atom cutoff = 8.45 binsize = 4.225, bins = 21 21 21 1 neighbor lists, perpetual/occasional/extra = 1 0 0 (1) pair kim, perpetual attributes: full, newton off, cut 8.45 pair build: full/bin/atomonly stencil: full/bin/3d bin: standard Per MPI rank memory allocation (min/avg/max) = 9.789 | 9.789 | 9.789 Mbytes Step Temp E_pair E_mol TotEng Press 0 200 6290.8194 0 7118.0584 129712.25 100 95.179725 6718.814 0 7112.496 133346.59 Loop time of 6.29539 on 4 procs for 100 steps with 32000 atoms Performance: 1.372 ns/day, 17.487 hours/ns, 15.885 timesteps/s 48.4% CPU use with 4 MPI tasks x 1 OpenMP threads MPI task timing breakdown: Section | min time | avg time | max time |%varavg| %total --------------------------------------------------------------- Pair | 1.9399 | 2.079 | 2.2181 | 9.1 | 33.02 Neigh | 0.25924 | 0.26632 | 0.2692 | 0.8 | 4.23 Comm | 2.5011 | 2.6605 | 2.751 | 5.9 | 42.26 Output | 0.069904 | 0.07097 | 0.071545 | 0.3 | 1.13 Modify | 0.011383 | 0.012206 | 0.01419 | 1.0 | 0.19 Other | | 1.206 | | | 19.16 Nlocal: 8000 ave 8018 max 7967 min Histogram: 1 0 0 0 0 0 1 0 0 2 Nghost: 9131 ave 9164 max 9113 min Histogram: 2 0 0 1 0 0 0 0 0 1 Neighs: 0 ave 0 max 0 min Histogram: 4 0 0 0 0 0 0 0 0 0 FullNghs: 1.06344e+06 ave 1.06594e+06 max 1.05881e+06 min Histogram: 1 0 0 0 0 0 1 0 0 2 Total # of neighbors = 4253750 Ave neighs/atom = 132.93 Neighbor list builds = 3 Dangerous builds = 0 Total wall time: 0:00:07