# periodic boundary conditions along all three dimensions boundary p p p # Set neighbor skin variable neigh_skin equal 2.0*${_u_distance} variable neigh_skin equal 2.0*1 neighbor ${neigh_skin} bin neighbor 2 bin # create a supercell with cubic lattice (fcc, bcc, sc, or diamond) # using 10*10*10 conventional (orthogonal) unit cells variable latticeconst_converted equal 6.581419467926026*${_u_distance} variable latticeconst_converted equal 6.581419467926026*1 lattice diamond ${latticeconst_converted} lattice diamond 6.58141946792603 Lattice spacing in x,y,z = 6.5814195 6.5814195 6.5814195 region simbox block 0 10 0 10 0 10 units lattice create_box 1 simbox Created orthogonal box = (0.0000000 0.0000000 0.0000000) to (65.814195 65.814195 65.814195) 1 by 1 by 1 MPI processor grid create_atoms 1 box Created 8000 atoms create_atoms CPU = 0.001 seconds variable mass_converted equal 118.71*${_u_mass} variable mass_converted equal 118.71*1 kim_interactions Sn #=== BEGIN kim_interactions ================================== pair_style kim MEAM_LAMMPS_KimKoLee_2020_NaSn__MO_329881861557_000 pair_coeff * * Sn #=== END kim_interactions ==================================== mass 1 ${mass_converted} mass 1 118.71 # initial volume variable v equal vol # assign formula variable V0 equal ${v} # evaluate initial value variable V0 equal 285074.72533011 variable V0_metal equal ${V0}/(${_u_distance}*${_u_distance}*${_u_distance}) variable V0_metal equal 285074.72533011/(${_u_distance}*${_u_distance}*${_u_distance}) variable V0_metal equal 285074.72533011/(1*${_u_distance}*${_u_distance}) variable V0_metal equal 285074.72533011/(1*1*${_u_distance}) variable V0_metal equal 285074.72533011/(1*1*1) variable V0_metal_times1000 equal ${V0_metal}*1000 variable V0_metal_times1000 equal 285074.72533011*1000 print "Initial system volume: ${V0_metal} Angstroms^3" Initial system volume: 285074.72533011 Angstroms^3 # set the time step to 0.001 picoseconds variable timestep_converted equal 0.001*${_u_time} variable timestep_converted equal 0.001*1 timestep ${timestep_converted} timestep 0.001 variable temp_converted equal 273.15*${_u_temperature} variable temp_converted equal 273.15*1 variable Tdamp_converted equal 0.1*${_u_time} variable Tdamp_converted equal 0.1*1 variable press_converted equal 0.0*${_u_pressure} variable press_converted equal 0.0*1 variable Pdamp_converted equal 1*${_u_time} variable Pdamp_converted equal 1*1 # create initial velocities consistent with the chosen temperature velocity all create ${temp_converted} 17 mom yes rot yes velocity all create 273.15 17 mom yes rot yes # set NPT ensemble for all atoms fix ensemble all npt temp ${temp_converted} ${temp_converted} ${Tdamp_converted} iso ${press_converted} ${press_converted} ${Pdamp_converted} fix ensemble all npt temp 273.15 ${temp_converted} ${Tdamp_converted} iso ${press_converted} ${press_converted} ${Pdamp_converted} fix ensemble all npt temp 273.15 273.15 ${Tdamp_converted} iso ${press_converted} ${press_converted} ${Pdamp_converted} fix ensemble all npt temp 273.15 273.15 0.1 iso ${press_converted} ${press_converted} ${Pdamp_converted} fix ensemble all npt temp 273.15 273.15 0.1 iso 0 ${press_converted} ${Pdamp_converted} fix ensemble all npt temp 273.15 273.15 0.1 iso 0 0 ${Pdamp_converted} fix ensemble all npt temp 273.15 273.15 0.1 iso 0 0 1 # compute the time averages of pressure, temperature, and volume, respectively # ignore the first 5000 timesteps variable etotal_metal equal etotal/${_u_energy} variable etotal_metal equal etotal/1 variable pe_metal equal pe/${_u_energy} variable pe_metal equal pe/1 variable T_metal equal temp/${_u_temperature} variable T_metal equal temp/1 variable V_metal equal vol/(${_u_distance}*${_u_distance}*${_u_distance}) variable V_metal equal vol/(1*${_u_distance}*${_u_distance}) variable V_metal equal vol/(1*1*${_u_distance}) variable V_metal equal vol/(1*1*1) variable P_metal equal press/${_u_pressure} variable P_metal equal press/1 fix avgmyTemp all ave/time 5 20 100 v_T_metal ave running start 5000 fix avgmyPress all ave/time 5 20 100 v_P_metal ave running start 5000 fix avgmyVol all ave/time 5 20 100 v_V_metal ave running start 5000 # extract fix quantities into variables so they can be used in if-else logic later. variable T equal f_avgmyTemp variable P equal f_avgmyPress variable V equal f_avgmyVol # set error bounds for temperature and pressure in original metal units (K and bar) variable T_low equal "273.15 - 0.2" variable T_up equal "273.15 + 0.2" variable P_low equal "0.0 - 0.2" variable P_up equal "0.0 + 0.2" # print to logfile every 1000 timesteps thermo_style custom step etotal v_etotal_metal pe v_pe_metal temp v_T_metal vol v_V_metal press v_P_metal thermo 1000 # Run a simulation for at most 2000*1000 timesteps. At each 1000th time step, check # whether the temperature and pressure have converged. If yes, break. label top variable a loop 2000 run 1000 Neighbor list info ... update every 1 steps, delay 10 steps, check yes max neighbors/atom: 2000, page size: 100000 master list distance cutoff = 6.8 ghost atom cutoff = 6.8 binsize = 3.4, bins = 20 20 20 1 neighbor lists, perpetual/occasional/extra = 1 0 0 (1) pair kim, perpetual attributes: full, newton off, cut 6.8 pair build: full/bin/atomonly stencil: full/bin/3d bin: standard Per MPI rank memory allocation (min/avg/max) = 4.314 | 4.314 | 4.314 Mbytes Step TotEng v_etotal_metal PotEng v_pe_metal Temp v_T_metal Volume v_V_metal Press v_P_metal 0 -24795.081 -24795.081 -25077.505 -25077.505 273.15 273.15 285074.73 285074.73 1058.1799 1058.1799 1000 -24491.434 -24491.434 -24797.006 -24797.006 295.53842 295.53842 287702.55 287702.55 -786.8027 -786.8027 Loop time of 36.6733 on 1 procs for 1000 steps with 8000 atoms Performance: 2.356 ns/day, 10.187 hours/ns, 27.268 timesteps/s 73.6% CPU use with 1 MPI tasks x 1 OpenMP threads MPI task timing breakdown: Section | min time | avg time | max time |%varavg| %total --------------------------------------------------------------- Pair | 36.045 | 36.045 | 36.045 | 0.0 | 98.29 Neigh | 0 | 0 | 0 | 0.0 | 0.00 Comm | 0.092889 | 0.092889 | 0.092889 | 0.0 | 0.25 Output | 9.7e-05 | 9.7e-05 | 9.7e-05 | 0.0 | 0.00 Modify | 0.47096 | 0.47096 | 0.47096 | 0.0 | 1.28 Other | | 0.06464 | | | 0.18 Nlocal: 8000.00 ave 8000 max 8000 min Histogram: 1 0 0 0 0 0 0 0 0 0 Nghost: 6725.00 ave 6725 max 6725 min Histogram: 1 0 0 0 0 0 0 0 0 0 Neighs: 0.00000 ave 0 max 0 min Histogram: 1 0 0 0 0 0 0 0 0 0 FullNghs: 272000.0 ave 272000 max 272000 min Histogram: 1 0 0 0 0 0 0 0 0 0 Total # of neighbors = 272000 Ave neighs/atom = 34.000000 Neighbor list builds = 0 Dangerous builds = 0 if "${V_metal}>${V0_metal_times1000}" then "jump SELF unstable" if "${T}>${T_low} && ${T}<${T_up} && ${P}>${P_low} && ${P}<${P_up}" then "jump SELF break" print "flag: Temp = ${T}, Press = ${P}" flag: Temp = 0, Press = 0 next a jump SELF top variable a loop 2000 run 1000 Per MPI rank memory allocation (min/avg/max) = 4.316 | 4.316 | 4.316 Mbytes Step TotEng v_etotal_metal PotEng v_pe_metal Temp v_T_metal Volume v_V_metal Press v_P_metal 1000 -24491.434 -24491.434 -24797.006 -24797.006 295.53842 295.53842 287702.55 287702.55 -786.8027 -786.8027 2000 -24502.943 -24502.943 -24776.557 -24776.557 264.63001 264.63001 287345.75 287345.75 314.40542 314.40542 Loop time of 36.0673 on 1 procs for 1000 steps with 8000 atoms Performance: 2.396 ns/day, 10.019 hours/ns, 27.726 timesteps/s 75.6% CPU use with 1 MPI tasks x 1 OpenMP threads MPI task timing breakdown: Section | min time | avg time | max time |%varavg| %total --------------------------------------------------------------- Pair | 35.433 | 35.433 | 35.433 | 0.0 | 98.24 Neigh | 0.098059 | 0.098059 | 0.098059 | 0.0 | 0.27 Comm | 0.093839 | 0.093839 | 0.093839 | 0.0 | 0.26 Output | 8.06e-05 | 8.06e-05 | 8.06e-05 | 0.0 | 0.00 Modify | 0.40672 | 0.40672 | 0.40672 | 0.0 | 1.13 Other | | 0.03508 | | | 0.10 Nlocal: 8000.00 ave 8000 max 8000 min Histogram: 1 0 0 0 0 0 0 0 0 0 Nghost: 6573.00 ave 6573 max 6573 min Histogram: 1 0 0 0 0 0 0 0 0 0 Neighs: 0.00000 ave 0 max 0 min Histogram: 1 0 0 0 0 0 0 0 0 0 FullNghs: 266490.0 ave 266490 max 266490 min Histogram: 1 0 0 0 0 0 0 0 0 0 Total # of neighbors = 266490 Ave neighs/atom = 33.311250 Neighbor list builds = 3 Dangerous builds = 0 if "${V_metal}>${V0_metal_times1000}" then "jump SELF unstable" if "${T}>${T_low} && ${T}<${T_up} && ${P}>${P_low} && ${P}<${P_up}" then "jump SELF break" print "flag: Temp = ${T}, Press = ${P}" flag: Temp = 0, Press = 0 next a jump SELF top variable a loop 2000 run 1000 Per MPI rank memory allocation (min/avg/max) = 4.316 | 4.316 | 4.316 Mbytes Step TotEng v_etotal_metal PotEng v_pe_metal Temp v_T_metal Volume v_V_metal Press v_P_metal 2000 -24502.943 -24502.943 -24776.557 -24776.557 264.63001 264.63001 287345.75 287345.75 314.40542 314.40542 3000 -24492.65 -24492.65 -24781.502 -24781.502 279.36705 279.36705 287377.39 287377.39 76.108448 76.108448 Loop time of 37.6304 on 1 procs for 1000 steps with 8000 atoms Performance: 2.296 ns/day, 10.453 hours/ns, 26.574 timesteps/s 72.6% CPU use with 1 MPI tasks x 1 OpenMP threads MPI task timing breakdown: Section | min time | avg time | max time |%varavg| %total --------------------------------------------------------------- Pair | 36.96 | 36.96 | 36.96 | 0.0 | 98.22 Neigh | 0.045229 | 0.045229 | 0.045229 | 0.0 | 0.12 Comm | 0.11344 | 0.11344 | 0.11344 | 0.0 | 0.30 Output | 8.49e-05 | 8.49e-05 | 8.49e-05 | 0.0 | 0.00 Modify | 0.47778 | 0.47778 | 0.47778 | 0.0 | 1.27 Other | | 0.034 | | | 0.09 Nlocal: 8000.00 ave 8000 max 8000 min Histogram: 1 0 0 0 0 0 0 0 0 0 Nghost: 6645.00 ave 6645 max 6645 min Histogram: 1 0 0 0 0 0 0 0 0 0 Neighs: 0.00000 ave 0 max 0 min Histogram: 1 0 0 0 0 0 0 0 0 0 FullNghs: 266356.0 ave 266356 max 266356 min Histogram: 1 0 0 0 0 0 0 0 0 0 Total # of neighbors = 266356 Ave neighs/atom = 33.294500 Neighbor list builds = 2 Dangerous builds = 0 if "${V_metal}>${V0_metal_times1000}" then "jump SELF unstable" if "${T}>${T_low} && ${T}<${T_up} && ${P}>${P_low} && ${P}<${P_up}" then "jump SELF break" print "flag: Temp = ${T}, Press = ${P}" flag: Temp = 0, Press = 0 next a jump SELF top variable a loop 2000 run 1000 Per MPI rank memory allocation (min/avg/max) = 4.316 | 4.316 | 4.316 Mbytes Step TotEng v_etotal_metal PotEng v_pe_metal Temp v_T_metal Volume v_V_metal Press v_P_metal 3000 -24492.65 -24492.65 -24781.502 -24781.502 279.36705 279.36705 287377.39 287377.39 76.108448 76.108448 4000 -24487.824 -24487.824 -24788.613 -24788.613 290.9113 290.9113 287830.95 287830.95 -93.076634 -93.076634 Loop time of 36.6134 on 1 procs for 1000 steps with 8000 atoms Performance: 2.360 ns/day, 10.170 hours/ns, 27.312 timesteps/s 74.8% CPU use with 1 MPI tasks x 1 OpenMP threads MPI task timing breakdown: Section | min time | avg time | max time |%varavg| %total --------------------------------------------------------------- Pair | 36.048 | 36.048 | 36.048 | 0.0 | 98.46 Neigh | 0.023644 | 0.023644 | 0.023644 | 0.0 | 0.06 Comm | 0.076163 | 0.076163 | 0.076163 | 0.0 | 0.21 Output | 5.99e-05 | 5.99e-05 | 5.99e-05 | 0.0 | 0.00 Modify | 0.42805 | 0.42805 | 0.42805 | 0.0 | 1.17 Other | | 0.0373 | | | 0.10 Nlocal: 8000.00 ave 8000 max 8000 min Histogram: 1 0 0 0 0 0 0 0 0 0 Nghost: 6600.00 ave 6600 max 6600 min Histogram: 1 0 0 0 0 0 0 0 0 0 Neighs: 0.00000 ave 0 max 0 min Histogram: 1 0 0 0 0 0 0 0 0 0 FullNghs: 266134.0 ave 266134 max 266134 min Histogram: 1 0 0 0 0 0 0 0 0 0 Total # of neighbors = 266134 Ave neighs/atom = 33.266750 Neighbor list builds = 2 Dangerous builds = 0 if "${V_metal}>${V0_metal_times1000}" then "jump SELF unstable" if "${T}>${T_low} && ${T}<${T_up} && ${P}>${P_low} && ${P}<${P_up}" then "jump SELF break" print "flag: Temp = ${T}, Press = ${P}" flag: Temp = 0, Press = 0 next a jump SELF top variable a loop 2000 run 1000 Per MPI rank memory allocation (min/avg/max) = 4.316 | 4.316 | 4.316 Mbytes Step TotEng v_etotal_metal PotEng v_pe_metal Temp v_T_metal Volume v_V_metal Press v_P_metal 4000 -24487.824 -24487.824 -24788.613 -24788.613 290.9113 290.9113 287830.95 287830.95 -93.076634 -93.076634 5000 -24511.558 -24511.558 -24791.238 -24791.238 270.49594 270.49594 287525.06 287525.06 -47.920252 -47.920252 Loop time of 35.7697 on 1 procs for 1000 steps with 8000 atoms Performance: 2.415 ns/day, 9.936 hours/ns, 27.957 timesteps/s 76.6% CPU use with 1 MPI tasks x 1 OpenMP threads MPI task timing breakdown: Section | min time | avg time | max time |%varavg| %total --------------------------------------------------------------- Pair | 35.206 | 35.206 | 35.206 | 0.0 | 98.42 Neigh | 0.039999 | 0.039999 | 0.039999 | 0.0 | 0.11 Comm | 0.053355 | 0.053355 | 0.053355 | 0.0 | 0.15 Output | 4.72e-05 | 4.72e-05 | 4.72e-05 | 0.0 | 0.00 Modify | 0.41496 | 0.41496 | 0.41496 | 0.0 | 1.16 Other | | 0.0557 | | | 0.16 Nlocal: 8000.00 ave 8000 max 8000 min Histogram: 1 0 0 0 0 0 0 0 0 0 Nghost: 6634.00 ave 6634 max 6634 min Histogram: 1 0 0 0 0 0 0 0 0 0 Neighs: 0.00000 ave 0 max 0 min Histogram: 1 0 0 0 0 0 0 0 0 0 FullNghs: 266856.0 ave 266856 max 266856 min Histogram: 1 0 0 0 0 0 0 0 0 0 Total # of neighbors = 266856 Ave neighs/atom = 33.357000 Neighbor list builds = 3 Dangerous builds = 0 if "${V_metal}>${V0_metal_times1000}" then "jump SELF unstable" if "${T}>${T_low} && ${T}<${T_up} && ${P}>${P_low} && ${P}<${P_up}" then "jump SELF break" print "flag: Temp = ${T}, Press = ${P}" flag: Temp = 267.475302238651, Press = -61.093530616766 next a jump SELF top variable a loop 2000 run 1000 Per MPI rank memory allocation (min/avg/max) = 4.316 | 4.316 | 4.316 Mbytes Step TotEng v_etotal_metal PotEng v_pe_metal Temp v_T_metal Volume v_V_metal Press v_P_metal 5000 -24511.558 -24511.558 -24791.238 -24791.238 270.49594 270.49594 287525.06 287525.06 -47.920252 -47.920252 6000 -24496.972 -24496.972 -24779.52 -24779.52 273.26961 273.26961 287387.39 287387.39 92.87285 92.87285 Loop time of 36.6717 on 1 procs for 1000 steps with 8000 atoms Performance: 2.356 ns/day, 10.187 hours/ns, 27.269 timesteps/s 74.6% CPU use with 1 MPI tasks x 1 OpenMP threads MPI task timing breakdown: Section | min time | avg time | max time |%varavg| %total --------------------------------------------------------------- Pair | 35.971 | 35.971 | 35.971 | 0.0 | 98.09 Neigh | 0.086848 | 0.086848 | 0.086848 | 0.0 | 0.24 Comm | 0.074619 | 0.074619 | 0.074619 | 0.0 | 0.20 Output | 4.82e-05 | 4.82e-05 | 4.82e-05 | 0.0 | 0.00 Modify | 0.46517 | 0.46517 | 0.46517 | 0.0 | 1.27 Other | | 0.07392 | | | 0.20 Nlocal: 8000.00 ave 8000 max 8000 min Histogram: 1 0 0 0 0 0 0 0 0 0 Nghost: 6601.00 ave 6601 max 6601 min Histogram: 1 0 0 0 0 0 0 0 0 0 Neighs: 0.00000 ave 0 max 0 min Histogram: 1 0 0 0 0 0 0 0 0 0 FullNghs: 266094.0 ave 266094 max 266094 min Histogram: 1 0 0 0 0 0 0 0 0 0 Total # of neighbors = 266094 Ave neighs/atom = 33.261750 Neighbor list builds = 3 Dangerous builds = 0 if "${V_metal}>${V0_metal_times1000}" then "jump SELF unstable" if "${T}>${T_low} && ${T}<${T_up} && ${P}>${P_low} && ${P}<${P_up}" then "jump SELF break" print "flag: Temp = ${T}, Press = ${P}" flag: Temp = 271.921563225291, Press = -5.94467228282801 next a jump SELF top variable a loop 2000 run 1000 Per MPI rank memory allocation (min/avg/max) = 4.316 | 4.316 | 4.316 Mbytes Step TotEng v_etotal_metal PotEng v_pe_metal Temp v_T_metal Volume v_V_metal Press v_P_metal 6000 -24496.972 -24496.972 -24779.52 -24779.52 273.26961 273.26961 287387.39 287387.39 92.87285 92.87285 7000 -24509.433 -24509.433 -24787.749 -24787.749 269.17766 269.17766 287273.38 287273.38 228.29835 228.29835 Loop time of 37.68 on 1 procs for 1000 steps with 8000 atoms Performance: 2.293 ns/day, 10.467 hours/ns, 26.539 timesteps/s 72.9% CPU use with 1 MPI tasks x 1 OpenMP threads MPI task timing breakdown: Section | min time | avg time | max time |%varavg| %total --------------------------------------------------------------- Pair | 37.139 | 37.139 | 37.139 | 0.0 | 98.57 Neigh | 0.025142 | 0.025142 | 0.025142 | 0.0 | 0.07 Comm | 0.054718 | 0.054718 | 0.054718 | 0.0 | 0.15 Output | 4.66e-05 | 4.66e-05 | 4.66e-05 | 0.0 | 0.00 Modify | 0.40835 | 0.40835 | 0.40835 | 0.0 | 1.08 Other | | 0.05228 | | | 0.14 Nlocal: 8000.00 ave 8000 max 8000 min Histogram: 1 0 0 0 0 0 0 0 0 0 Nghost: 6575.00 ave 6575 max 6575 min Histogram: 1 0 0 0 0 0 0 0 0 0 Neighs: 0.00000 ave 0 max 0 min Histogram: 1 0 0 0 0 0 0 0 0 0 FullNghs: 266298.0 ave 266298 max 266298 min Histogram: 1 0 0 0 0 0 0 0 0 0 Total # of neighbors = 266298 Ave neighs/atom = 33.287250 Neighbor list builds = 2 Dangerous builds = 0 if "${V_metal}>${V0_metal_times1000}" then "jump SELF unstable" if "${T}>${T_low} && ${T}<${T_up} && ${P}>${P_low} && ${P}<${P_up}" then "jump SELF break" print "flag: Temp = ${T}, Press = ${P}" flag: Temp = 272.845205210449, Press = 4.62853187658316 next a jump SELF top variable a loop 2000 run 1000 Per MPI rank memory allocation (min/avg/max) = 4.316 | 4.316 | 4.316 Mbytes Step TotEng v_etotal_metal PotEng v_pe_metal Temp v_T_metal Volume v_V_metal Press v_P_metal 7000 -24509.433 -24509.433 -24787.749 -24787.749 269.17766 269.17766 287273.38 287273.38 228.29835 228.29835 8000 -24507.058 -24507.058 -24788.033 -24788.033 271.74891 271.74891 287723.8 287723.8 -259.58873 -259.58873 Loop time of 37.2666 on 1 procs for 1000 steps with 8000 atoms Performance: 2.318 ns/day, 10.352 hours/ns, 26.834 timesteps/s 73.2% CPU use with 1 MPI tasks x 1 OpenMP threads MPI task timing breakdown: Section | min time | avg time | max time |%varavg| %total --------------------------------------------------------------- Pair | 36.646 | 36.646 | 36.646 | 0.0 | 98.33 Neigh | 0.037598 | 0.037598 | 0.037598 | 0.0 | 0.10 Comm | 0.054579 | 0.054579 | 0.054579 | 0.0 | 0.15 Output | 3.39e-05 | 3.39e-05 | 3.39e-05 | 0.0 | 0.00 Modify | 0.45501 | 0.45501 | 0.45501 | 0.0 | 1.22 Other | | 0.07368 | | | 0.20 Nlocal: 8000.00 ave 8000 max 8000 min Histogram: 1 0 0 0 0 0 0 0 0 0 Nghost: 6633.00 ave 6633 max 6633 min Histogram: 1 0 0 0 0 0 0 0 0 0 Neighs: 0.00000 ave 0 max 0 min Histogram: 1 0 0 0 0 0 0 0 0 0 FullNghs: 266912.0 ave 266912 max 266912 min Histogram: 1 0 0 0 0 0 0 0 0 0 Total # of neighbors = 266912 Ave neighs/atom = 33.364000 Neighbor list builds = 3 Dangerous builds = 0 if "${V_metal}>${V0_metal_times1000}" then "jump SELF unstable" if "${T}>${T_low} && ${T}<${T_up} && ${P}>${P_low} && ${P}<${P_up}" then "jump SELF break" print "flag: Temp = ${T}, Press = ${P}" flag: Temp = 273.079895034339, Press = -1.78770276775668 next a jump SELF top variable a loop 2000 run 1000 Per MPI rank memory allocation (min/avg/max) = 4.316 | 4.316 | 4.316 Mbytes Step TotEng v_etotal_metal PotEng v_pe_metal Temp v_T_metal Volume v_V_metal Press v_P_metal 8000 -24507.058 -24507.058 -24788.033 -24788.033 271.74891 271.74891 287723.8 287723.8 -259.58873 -259.58873 9000 -24497.328 -24497.328 -24779.643 -24779.643 273.0445 273.0445 287452.8 287452.8 100.38736 100.38736 Loop time of 35.2763 on 1 procs for 1000 steps with 8000 atoms Performance: 2.449 ns/day, 9.799 hours/ns, 28.348 timesteps/s 76.6% CPU use with 1 MPI tasks x 1 OpenMP threads MPI task timing breakdown: Section | min time | avg time | max time |%varavg| %total --------------------------------------------------------------- Pair | 34.683 | 34.683 | 34.683 | 0.0 | 98.32 Neigh | 0.03508 | 0.03508 | 0.03508 | 0.0 | 0.10 Comm | 0.052716 | 0.052716 | 0.052716 | 0.0 | 0.15 Output | 4.64e-05 | 4.64e-05 | 4.64e-05 | 0.0 | 0.00 Modify | 0.47171 | 0.47171 | 0.47171 | 0.0 | 1.34 Other | | 0.03355 | | | 0.10 Nlocal: 8000.00 ave 8000 max 8000 min Histogram: 1 0 0 0 0 0 0 0 0 0 Nghost: 6603.00 ave 6603 max 6603 min Histogram: 1 0 0 0 0 0 0 0 0 0 Neighs: 0.00000 ave 0 max 0 min Histogram: 1 0 0 0 0 0 0 0 0 0 FullNghs: 266494.0 ave 266494 max 266494 min Histogram: 1 0 0 0 0 0 0 0 0 0 Total # of neighbors = 266494 Ave neighs/atom = 33.311750 Neighbor list builds = 2 Dangerous builds = 0 if "${V_metal}>${V0_metal_times1000}" then "jump SELF unstable" if "${T}>${T_low} && ${T}<${T_up} && ${P}>${P_low} && ${P}<${P_up}" then "jump SELF break" print "flag: Temp = ${T}, Press = ${P}" flag: Temp = 272.907148814905, Press = -1.17293987273239 next a jump SELF top variable a loop 2000 run 1000 Per MPI rank memory allocation (min/avg/max) = 4.316 | 4.316 | 4.316 Mbytes Step TotEng v_etotal_metal PotEng v_pe_metal Temp v_T_metal Volume v_V_metal Press v_P_metal 9000 -24497.328 -24497.328 -24779.643 -24779.643 273.0445 273.0445 287452.8 287452.8 100.38736 100.38736 10000 -24508.176 -24508.176 -24788.224 -24788.224 270.85208 270.85208 287250.63 287250.63 161.12435 161.12435 Loop time of 33.3726 on 1 procs for 1000 steps with 8000 atoms Performance: 2.589 ns/day, 9.270 hours/ns, 29.965 timesteps/s 81.7% CPU use with 1 MPI tasks x 1 OpenMP threads MPI task timing breakdown: Section | min time | avg time | max time |%varavg| %total --------------------------------------------------------------- Pair | 32.873 | 32.873 | 32.873 | 0.0 | 98.50 Neigh | 0.024635 | 0.024635 | 0.024635 | 0.0 | 0.07 Comm | 0.05329 | 0.05329 | 0.05329 | 0.0 | 0.16 Output | 4.53e-05 | 4.53e-05 | 4.53e-05 | 0.0 | 0.00 Modify | 0.36724 | 0.36724 | 0.36724 | 0.0 | 1.10 Other | | 0.05416 | | | 0.16 Nlocal: 8000.00 ave 8000 max 8000 min Histogram: 1 0 0 0 0 0 0 0 0 0 Nghost: 6609.00 ave 6609 max 6609 min Histogram: 1 0 0 0 0 0 0 0 0 0 Neighs: 0.00000 ave 0 max 0 min Histogram: 1 0 0 0 0 0 0 0 0 0 FullNghs: 266296.0 ave 266296 max 266296 min Histogram: 1 0 0 0 0 0 0 0 0 0 Total # of neighbors = 266296 Ave neighs/atom = 33.287000 Neighbor list builds = 2 Dangerous builds = 0 if "${V_metal}>${V0_metal_times1000}" then "jump SELF unstable" if "${T}>${T_low} && ${T}<${T_up} && ${P}>${P_low} && ${P}<${P_up}" then "jump SELF break" print "flag: Temp = ${T}, Press = ${P}" flag: Temp = 273.087210755144, Press = -1.78642036943802 next a jump SELF top variable a loop 2000 run 1000 Per MPI rank memory allocation (min/avg/max) = 4.316 | 4.316 | 4.316 Mbytes Step TotEng v_etotal_metal PotEng v_pe_metal Temp v_T_metal Volume v_V_metal Press v_P_metal 10000 -24508.176 -24508.176 -24788.224 -24788.224 270.85208 270.85208 287250.63 287250.63 161.12435 161.12435 11000 -24509.419 -24509.419 -24793.349 -24793.349 274.60617 274.60617 287359.74 287359.74 301.95323 301.95323 Loop time of 32.6173 on 1 procs for 1000 steps with 8000 atoms Performance: 2.649 ns/day, 9.060 hours/ns, 30.659 timesteps/s 83.8% CPU use with 1 MPI tasks x 1 OpenMP threads MPI task timing breakdown: Section | min time | avg time | max time |%varavg| %total --------------------------------------------------------------- Pair | 32.042 | 32.042 | 32.042 | 0.0 | 98.24 Neigh | 0.044836 | 0.044836 | 0.044836 | 0.0 | 0.14 Comm | 0.054116 | 0.054116 | 0.054116 | 0.0 | 0.17 Output | 4.25e-05 | 4.25e-05 | 4.25e-05 | 0.0 | 0.00 Modify | 0.44247 | 0.44247 | 0.44247 | 0.0 | 1.36 Other | | 0.03419 | | | 0.10 Nlocal: 8000.00 ave 8000 max 8000 min Histogram: 1 0 0 0 0 0 0 0 0 0 Nghost: 6623.00 ave 6623 max 6623 min Histogram: 1 0 0 0 0 0 0 0 0 0 Neighs: 0.00000 ave 0 max 0 min Histogram: 1 0 0 0 0 0 0 0 0 0 FullNghs: 266916.0 ave 266916 max 266916 min Histogram: 1 0 0 0 0 0 0 0 0 0 Total # of neighbors = 266916 Ave neighs/atom = 33.364500 Neighbor list builds = 3 Dangerous builds = 0 if "${V_metal}>${V0_metal_times1000}" then "jump SELF unstable" if "${T}>${T_low} && ${T}<${T_up} && ${P}>${P_low} && ${P}<${P_up}" then "jump SELF break" print "flag: Temp = ${T}, Press = ${P}" flag: Temp = 273.170198738663, Press = 1.1786802737912 next a jump SELF top variable a loop 2000 run 1000 Per MPI rank memory allocation (min/avg/max) = 4.316 | 4.316 | 4.316 Mbytes Step TotEng v_etotal_metal PotEng v_pe_metal Temp v_T_metal Volume v_V_metal Press v_P_metal 11000 -24509.419 -24509.419 -24793.349 -24793.349 274.60617 274.60617 287359.74 287359.74 301.95323 301.95323 12000 -24507.672 -24507.672 -24785.698 -24785.698 268.89625 268.89625 287790.47 287790.47 -340.18009 -340.18009 Loop time of 30.5844 on 1 procs for 1000 steps with 8000 atoms Performance: 2.825 ns/day, 8.496 hours/ns, 32.696 timesteps/s 89.4% CPU use with 1 MPI tasks x 1 OpenMP threads MPI task timing breakdown: Section | min time | avg time | max time |%varavg| %total --------------------------------------------------------------- Pair | 30.132 | 30.132 | 30.132 | 0.0 | 98.52 Neigh | 0.03743 | 0.03743 | 0.03743 | 0.0 | 0.12 Comm | 0.053915 | 0.053915 | 0.053915 | 0.0 | 0.18 Output | 4.73e-05 | 4.73e-05 | 4.73e-05 | 0.0 | 0.00 Modify | 0.32557 | 0.32557 | 0.32557 | 0.0 | 1.06 Other | | 0.03566 | | | 0.12 Nlocal: 8000.00 ave 8000 max 8000 min Histogram: 1 0 0 0 0 0 0 0 0 0 Nghost: 6591.00 ave 6591 max 6591 min Histogram: 1 0 0 0 0 0 0 0 0 0 Neighs: 0.00000 ave 0 max 0 min Histogram: 1 0 0 0 0 0 0 0 0 0 FullNghs: 266520.0 ave 266520 max 266520 min Histogram: 1 0 0 0 0 0 0 0 0 0 Total # of neighbors = 266520 Ave neighs/atom = 33.315000 Neighbor list builds = 3 Dangerous builds = 0 if "${V_metal}>${V0_metal_times1000}" then "jump SELF unstable" if "${T}>${T_low} && ${T}<${T_up} && ${P}>${P_low} && ${P}<${P_up}" then "jump SELF break" jump SELF break # Write final averaged volume to file if temperature and volume have converged; otherwise wirte a # flag to indicate non-convergence. variable myStep equal step if "${myStep} < 2000000" then "print '${V}' file output/vol_T273.15.out" else "print 'not_converged' file output/vol_T273.15.out" print '${V}' file output/vol_T273.15.out 287503.452661967 print "LAMMPS calculation completed" LAMMPS calculation completed quit 0