Files
lammps-gran-kokkos/examples/ASPHERE/tri/log.15Aug23.tri.srd.g++.8
2023-08-15 23:50:53 -04:00

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LAMMPS (2 Aug 2023 - Development - patch_2Aug2023-114-gdad8081d55-modified)
WARNING: Using I/O redirection is unreliable with parallel runs. Better to use the -in switch to read input files. (../lammps.cpp:537)
# Aspherical shear demo - 3d triangle boxes, solvated by SRD particles
units lj
atom_style tri
atom_modify first big map yes
read_data data.tri.srd
Reading data file ...
orthogonal box = (-8.4373405 -8.4373405 -8.4373405) to (8.4373405 8.4373405 8.4373405)
2 by 2 by 2 MPI processor grid
reading atoms ...
1500 atoms
1500 triangles
read_data CPU = 0.007 seconds
# add small particles as hi density lattice
lattice sc 0.4
Lattice spacing in x,y,z = 1.3572088 1.3572088 1.3572088
region box block INF INF INF INF INF INF
lattice sc 20.0
Lattice spacing in x,y,z = 0.36840315 0.36840315 0.36840315
create_atoms 2 region box
Created 91125 atoms
using lattice units in orthogonal box = (-8.4373405 -8.4373405 -8.4373405) to (8.4373405 8.4373405 8.4373405)
create_atoms CPU = 0.002 seconds
group big type 1
1500 atoms in group big
group small type 2
91125 atoms in group small
set group small mass 0.01
Setting atom values ...
91125 settings made for mass
# delete overlaps
# must set 1-2 cutoff to non-zero value
pair_style lj/cut 1.5
pair_coeff 1 1 1.0 1.0
pair_coeff 2 2 0.0 1.0 0.0
pair_coeff 1 2 0.0 1.0
delete_atoms overlap 1.5 small big
System init for delete_atoms ...
Generated 0 of 1 mixed pair_coeff terms from geometric mixing rule
Neighbor list info ...
update: every = 1 steps, delay = 0 steps, check = yes
max neighbors/atom: 2000, page size: 100000
master list distance cutoff = 1.8
ghost atom cutoff = 1.8
binsize = 0.9, bins = 19 19 19
2 neighbor lists, perpetual/occasional/extra = 1 1 0
(1) command delete_atoms, occasional
attributes: full, newton on
pair build: full/bin/atomonly
stencil: full/bin/3d
bin: standard
(2) pair lj/cut, perpetual
attributes: half, newton on
pair build: half/bin/atomonly/newton
stencil: half/bin/3d
bin: standard
WARNING: Delete_atoms cutoff > minimum neighbor cutoff (../delete_atoms.cpp:312)
Deleted 76354 atoms, new total = 16271
# SRD run
reset_timestep 0
velocity small create 1.44 87287 loop geom
neighbor 0.3 multi
neigh_modify delay 0 every 1 check yes
neigh_modify exclude molecule/intra big include big
comm_modify mode multi group big vel yes
neigh_modify include big
# no pairwise interactions with small particles
pair_style tri/lj 3.5
pair_coeff 1 1 0.1 1.0
pair_coeff 2 2 0.0 1.0 0.0
pair_coeff 1 2 0.0 1.0 0.0
# use fix SRD to push small particles out from inside big ones
# if comment out, big particles won't see SRD particles
timestep 0.001
fix 1 big rigid/small molecule #langevin 1.0 1.0 0.1 12398
create bodies CPU = 0.000 seconds
125 rigid bodies with 1500 atoms
1.8601881 = max distance from body owner to body atom
fix 2 small srd 20 big 1.0 1.0 49894 search 0.2 cubic warn 0.0001 shift yes 49829 overlap yes collision noslip inside ignore
fix 3 all deform 1 x scale 0.8 y scale 0.8 z scale 0.8
# diagnostics
compute tsmall small temp/deform
compute tbig big temp
variable pebig equal pe*atoms/count(big)
variable ebig equal etotal*atoms/count(big)
compute_modify tbig extra/dof -4500
compute 1 big erotate/asphere
compute 2 all ke
compute 3 all pe
variable toteng equal (c_1+c_2+c_3)/atoms
thermo 100
thermo_style custom step f_1 c_tsmall temp press f_2[9] f_2[4]
thermo_modify temp tbig
WARNING: Temperature for thermo pressure is not for group all (../thermo.cpp:527)
compute 10 all property/atom corner1x corner1y corner1z corner2x corner2y corner2z corner3x corner3y corner3z
#dump 1 all custom 500 dump1.atom.srd id type x y z ix iy iz
#dump 2 all custom 500 dump1.tri.srd id type # c_10[1] c_10[2] c_10[3] c_10[4] c_10[5] c_10[6] # c_10[7] c_10[8] c_10[9]
run 10000
CITE-CITE-CITE-CITE-CITE-CITE-CITE-CITE-CITE-CITE-CITE-CITE-CITE
Your simulation uses code contributions which should be cited:
- neighbor multi command: doi:10.1016/j.cpc.2008.03.005, doi:10.1007/s40571-020-00361-2
@Article{Intveld08,
author = {in 't Veld, P. J. and S. J.~Plimpton and G. S. Grest},
title = {Accurate and Efficient Methods for Modeling Colloidal
Mixtures in an Explicit Solvent using Molecular Dynamics},
journal = {Comput.\ Phys.\ Commut.},
year = 2008,
volume = 179,
pages = {320--329}
}
@article{Shire2020,
author = {Shire, Tom and Hanley, Kevin J. and Stratford, Kevin},
title = {{DEM} Simulations of Polydisperse Media: Efficient Contact
Detection Applied to Investigate the Quasi-Static Limit},
journal = {Computational Particle Mechanics},
year = {2020}
@article{Monti2022,
author = {Monti, Joseph M. and Clemmer, Joel T. and Srivastava,
Ishan and Silbert, Leonardo E. and Grest, Gary S.
and Lechman, Jeremy B.},
title = {Large-scale frictionless jamming with power-law particle
size distributions},
journal = {Phys. Rev. E},
volume = {106}
issue = {3}
year = {2022}
}
- fix srd command: doi:10.1063/1.3419070
@Article{Petersen10,
author = {M. K. Petersen and J. B. Lechman and S. J. Plimpton and
G. S. Grest and in 't Veld, P. J. and P. R. Schunk},
title = {Mesoscale Hydrodynamics via Stochastic Rotation
Dynamics: Comparison with {L}ennard-{J}ones Fluid},
journal = {J.~Chem.\ Phys.},
year = 2010,
volume = 132,
pages = 174106
}
CITE-CITE-CITE-CITE-CITE-CITE-CITE-CITE-CITE-CITE-CITE-CITE-CITE
Generated 0 of 1 mixed pair_coeff terms from geometric mixing rule
WARNING: Using compute temp/deform with inconsistent fix deform remap option (../compute_temp_deform.cpp:71)
WARNING: Using fix srd with box deformation but no SRD thermostat (../fix_srd.cpp:405)
SRD info:
SRD/big particles = 14771 1500
big particle diameter max/min = 2.9202881 0.87320391
SRD temperature & lamda = 1 0.2
SRD max distance & max velocity = 0.8 40
SRD grid counts: 17 17 17
SRD grid size: request, actual (xyz) = 1, 0.99262829 0.99262829 0.99262829
SRD per actual grid cell = -3.9971745
SRD viscosity = -34.162587
big/SRD mass density ratio = -3.3753691
WARNING: SRD bin size for fix srd differs from user request (../fix_srd.cpp:2805)
WARNING: Fix srd grid size > 1/4 of big particle diameter (../fix_srd.cpp:2826)
WARNING: Fix srd viscosity < 0.0 due to low SRD density (../fix_srd.cpp:2828)
# of rescaled SRD velocities = 0
ave/max small velocity = 19.970837 35.150443
ave/max big velocity = 0 0
Neighbor list info ...
update: every = 1 steps, delay = 0 steps, check = yes
max neighbors/atom: 2000, page size: 100000
master list distance cutoff = 3.8
ghost atom cutoff = 3.8
binsize = 16.874681, bins = 1 1 1
1 neighbor lists, perpetual/occasional/extra = 1 0 0
(1) pair tri/lj, perpetual
attributes: half, newton on
pair build: half/multi/newton
stencil: half/multi/3d
bin: multi
Per MPI rank memory allocation (min/avg/max) = 125.9 | 126.4 | 126.7 Mbytes
Step f_1 c_tsmall Temp Press f_2[9] f_2[4]
0 0 1.4401779 0 -0.15917996 0 0
100 0.36662911 1.1475389 0.24585067 1.0290503 1.1382325 18
200 0.73133134 1.0558153 0.49986673 0.73932383 1.049638 34
300 1.1229361 1.0218621 0.82641583 0.7589689 1.0205369 40
400 1.5826262 0.99541508 1.2201293 0.69171726 0.99190857 52
500 1.8834563 0.99351667 1.4778822 1.0147794 1.0005581 63
600 2.4225372 0.98954834 1.8740966 1.1362893 0.99760042 61
700 3.0172772 0.99153625 2.3351502 1.3284877 0.98731355 39
800 3.5307913 1.0012521 2.6477224 1.1404922 0.9846605 52
900 3.757064 0.99743944 2.7220653 1.4078087 0.97538456 55
1000 4.3165268 1.002214 3.055501 1.2252972 0.99123745 63
1100 4.2796945 1.0075233 3.1022956 1.1893685 1.0139864 69
1200 4.3719315 1.0037271 3.0054509 1.3886162 1.002661 64
1300 4.5628012 0.99368316 3.2690604 1.3621012 0.9810568 56
1400 4.6954389 0.99365088 3.1940001 1.8485712 0.99571089 71
1500 5.0270163 0.99455258 3.4120396 1.5992539 0.98294263 77
1600 5.5897797 1.0021621 3.647347 1.7796904 0.98967622 66
1700 5.5330194 1.0130853 3.6407996 1.8005429 1.0068955 62
1800 5.3606928 1.0090284 3.5863618 1.3308757 1.0214092 59
1900 5.6086195 1.0071865 3.7427101 1.5296314 0.99886937 55
2000 5.3726474 1.0064207 3.603621 1.9473142 0.99999816 54
2100 5.836183 1.0124553 3.7321841 1.7889397 1.0188986 59
2200 5.5090061 1.0113832 3.5884963 1.6617781 1.0071583 59
2300 5.4011211 1.0095947 3.520406 1.8937582 0.99689983 61
2400 5.2219281 1.0053246 3.3699458 1.7231672 0.99899754 59
2500 5.7695275 1.0141459 3.6211469 1.7767598 1.0143133 65
2600 5.4206253 1.0182828 3.521774 2.0800518 1.0081603 70
2700 5.1401099 1.0085209 3.4200563 2.4019836 1.0107652 59
2800 6.5420721 1.0159876 4.1996904 1.863842 1.0160738 61
2900 5.9082962 1.0106921 3.7223419 2.0586998 1.0073885 67
3000 5.6556123 1.0099021 3.6768976 1.921987 1.0068962 76
3100 5.2913762 1.0008567 3.4103831 1.9831969 0.99187526 80
3200 5.1032361 0.99756662 3.1967156 2.2448433 0.99743574 93
3300 5.2622386 1.0024934 3.3325614 2.0078097 1.0047789 86
3400 5.1247527 0.99810102 3.1363556 1.8907269 0.98936508 82
3500 4.9424333 1.0009344 3.2153968 1.9002728 0.99161849 71
3600 5.1243735 1.0037377 3.3117313 2.1267438 1.0078943 65
3700 5.5045819 1.0006119 3.5686193 2.3466538 0.99876164 68
3800 5.5355384 1.0022639 3.6701457 2.0383269 1.0008683 76
3900 6.4915796 1.0137733 4.3225864 2.6996933 1.0064787 79
4000 6.6631737 1.0236248 4.3057163 2.6352666 1.0255232 75
4100 6.2999507 1.0263876 4.0101385 2.5479077 1.0168303 79
4200 6.7902489 1.0247392 4.4616158 2.4926177 1.0191403 91
4300 6.505908 1.0182073 4.0675428 2.168754 1.0177101 74
4400 5.9554283 1.0115938 3.5787297 2.9258144 1.0133896 72
4500 6.2276609 1.0202416 3.8211204 2.5308249 1.0174385 74
4600 6.0485727 1.0195757 3.8217434 2.6421797 1.0201441 78
4700 6.511063 1.0220764 3.933486 2.8591093 1.0147269 83
4800 6.9478172 1.0106414 4.345402 3.3257663 1.00469 85
4900 6.7547045 1.0211842 4.1874576 3.6503845 1.022873 94
5000 7.2603949 1.0234313 4.5393985 3.4667806 1.0222306 105
5100 7.1899652 1.0256566 4.5421834 3.8137207 1.0317242 99
5200 7.1960739 1.026746 4.4288606 3.5523675 1.0242269 97
5300 7.1294458 1.017883 4.5799808 3.3917274 1.0145317 99
5400 6.2810892 1.0291953 4.0109229 2.8604571 1.0289438 97
5500 6.15246 1.0288734 3.8714587 3.2760394 1.0210757 89
5600 6.5860526 1.0192882 4.0272883 3.3124298 1.0096258 93
5700 7.0296116 1.0097293 4.2652722 3.6049788 1.012463 82
5800 6.8372302 1.0140065 4.2205065 4.3686183 1.0088542 93
5900 7.8887098 1.0090612 4.9724078 4.457317 1.0045137 92
6000 10.120663 1.0312443 6.3025192 4.72018 1.0374722 91
6100 9.1318265 1.0304199 5.7084296 4.244548 1.0259056 97
6200 8.9758903 1.0295285 5.1842704 4.870955 1.0178851 95
6300 9.0088218 1.022484 5.3742805 5.1554352 1.0138365 101
6400 10.470322 1.0287848 6.4602103 4.5461489 1.0335978 105
6500 11.100779 1.0347405 6.9630121 4.9840664 1.0339044 99
6600 10.139333 1.0476079 6.4284839 4.5523893 1.0433517 104
6700 8.9706766 1.0386262 5.8387485 4.247024 1.0408151 101
6800 7.7799532 1.0362651 4.9946283 4.6093924 1.0274763 102
6900 8.0866551 1.0337743 4.9942769 4.1679939 1.0454805 102
7000 8.0224277 1.0193598 4.9380527 3.9173115 1.0185001 109
7100 7.8361001 1.0211143 4.872673 5.3471479 1.024779 110
7200 7.8542147 1.0057183 4.8666653 4.668317 0.99980296 122
7300 7.9313852 1.0159181 5.0062527 4.1410294 1.0195705 114
7400 7.2769846 1.0155245 4.6349779 4.9138895 1.0005886 119
7500 7.5974523 1.0196295 4.7918247 4.2525935 1.0211412 124
7600 6.7835063 1.0203187 4.2674694 4.9251624 1.0218296 113
7700 6.4039017 1.0119494 4.1086667 5.5240525 1.0078246 118
7800 7.0715134 1.0149015 4.2450776 4.8796778 1.0164737 125
7900 6.3626535 1.02294 4.202778 4.482164 1.0235878 136
8000 6.2423869 1.0212553 4.0460303 5.2753307 1.0124884 132
8100 6.550891 1.0223318 4.2993545 5.2634985 1.0163244 143
8200 6.9122202 1.008347 4.3551124 5.4108909 1.0084913 142
8300 6.9104634 1.0103936 4.4622206 5.6762373 0.99559355 143
8400 6.4918879 1.0084381 4.1050732 5.8389788 1.0036021 135
8500 7.4377218 1.0216662 4.5229841 5.5431311 1.0260799 123
8600 7.572198 1.0228381 4.9058913 7.1028185 1.0015164 116
8700 8.204675 1.03457 5.2231696 6.4790244 1.0214635 132
8800 8.3118914 1.0381333 5.1795799 6.7437722 1.0290086 132
8900 8.2559198 1.0268665 5.218352 7.2191395 1.019804 138
9000 8.0403128 1.0339414 4.9310394 6.4942331 1.041527 156
9100 7.1773079 1.0397062 4.4993688 7.0272109 1.0388012 167
9200 7.1793935 1.0373589 4.3481663 7.4894459 1.0078785 157
9300 8.3705146 1.0248112 5.1036971 8.2173072 1.010168 156
9400 9.4935002 1.0252907 5.7846951 9.7466018 1.028941 170
9500 9.5208037 1.0371093 5.9635099 7.6444933 1.022673 165
9600 8.9992217 1.0292895 5.6224192 8.8071452 1.0101362 169
9700 8.682661 1.0422224 5.3997636 8.6827834 1.0337928 149
9800 7.6191562 1.0350948 4.7198842 8.6125595 1.0300395 151
9900 8.0910913 1.0319432 4.8843183 7.9013334 1.0272495 167
10000 7.4438347 1.0186098 4.7184985 8.999795 0.99762661 177
Loop time of 162.325 on 8 procs for 10000 steps with 16271 atoms
Performance: 5322.658 tau/day, 61.605 timesteps/s, 1.002 Matom-step/s
99.3% CPU use with 8 MPI tasks x no OpenMP threads
MPI task timing breakdown:
Section | min time | avg time | max time |%varavg| %total
---------------------------------------------------------------
Pair | 33.647 | 64.106 | 79.639 | 169.5 | 39.49
Neigh | 0.30808 | 0.44033 | 0.50863 | 9.8 | 0.27
Comm | 26.611 | 43.438 | 74.998 | 215.7 | 26.76
Output | 0.0072573 | 0.0087791 | 0.0097993 | 0.9 | 0.01
Modify | 53.171 | 54.121 | 55.362 | 12.3 | 33.34
Other | | 0.2104 | | | 0.13
Nlocal: 2033.88 ave 2601 max 1413 min
Histogram: 1 2 0 0 0 0 2 1 1 1
Nghost: 1647.25 ave 1714 max 1617 min
Histogram: 4 0 1 0 0 1 1 0 0 1
Neighs: 12482.8 ave 17009 max 8679 min
Histogram: 1 1 1 0 1 1 2 0 0 1
Total # of neighbors = 99862
Ave neighs/atom = 6.1374224
Neighbor list builds = 562
Dangerous builds = 0
#undump 1
#undump 2
unfix 3
change_box all triclinic
Changing box ...
triclinic box = (-6.7498724 -6.7498724 -6.7498724) to (6.7498724 6.7498724 6.7498724) with tilt (0 0 0)
fix 2 small srd 20 big 1.0 1.0 49894 search 0.2 cubic warn 0.0001 shift yes 49829 overlap yes collision noslip tstat yes inside ignore
#dump 1 all custom 500 dump2.atom.srd id type x y z ix iy iz
#dump 2 all custom 500 dump2.tri.srd id type # c_10[1] c_10[2] c_10[3] c_10[4] c_10[5] c_10[6] # c_10[7] c_10[8] c_10[9]
fix 3 all deform 1 xy erate 0.05 units box remap v
run 40000
Generated 0 of 1 mixed pair_coeff terms from geometric mixing rule
SRD info:
SRD/big particles = 14771 1500
big particle diameter max/min = 2.9202881 0.87320391
SRD temperature & lamda = 1 0.2
SRD max distance & max velocity = 0.8 40
SRD grid counts: 13 13 13
SRD grid size: request, actual (xyz) = 1, 1.0384419 1.0384419 1.0384419
SRD per actual grid cell = -2.775698
SRD viscosity = -12.180602
big/SRD mass density ratio = -5.5653033
WARNING: SRD bin size for fix srd differs from user request (../fix_srd.cpp:2805)
WARNING: Fix srd grid size > 1/4 of big particle diameter (../fix_srd.cpp:2826)
WARNING: Fix srd viscosity < 0.0 due to low SRD density (../fix_srd.cpp:2828)
# of rescaled SRD velocities = 1
ave/max small velocity = 16.14994 40
ave/max big velocity = 1.6952661 5.2200074
Neighbor list info ...
update: every = 1 steps, delay = 0 steps, check = yes
max neighbors/atom: 2000, page size: 100000
master list distance cutoff = 3.8
ghost atom cutoff = 3.8
binsize = 13.499745, bins = 1 1 1
1 neighbor lists, perpetual/occasional/extra = 1 0 0
(1) pair tri/lj, perpetual
attributes: half, newton on
pair build: half/multi/newton/tri
stencil: half/multi/3d/tri
bin: multi
Per MPI rank memory allocation (min/avg/max) = 106.9 | 107.5 | 107.7 Mbytes
Step f_1 c_tsmall Temp Press f_2[9] f_2[4]
10000 7.4438347 1.0189789 4.7184481 7.9505614 0 0
10100 7.0770142 1.0021471 4.4491455 6.606701 1 141
10200 6.7628072 1.002308 4.152988 8.5190386 1 125
10300 6.5333319 1.0007472 4.1295404 8.2341747 1 109
10400 6.3237519 1.0024029 3.8636034 9.4058128 1 95
10500 6.6411054 1.0026261 4.2975997 7.6122304 1 82
10600 5.7470775 1.0004827 3.7959947 7.3091777 1 67
10700 5.9744919 1.0014977 3.6885649 7.5517197 1 59
10800 5.8028731 1.0029627 3.7553961 6.2787087 1 49
10900 5.3755286 1.0019318 3.5334739 7.1318348 1 41
11000 5.3915962 1.001463 3.483172 7.6362496 1 40
11100 5.8683672 1.0022459 3.6697589 6.9711866 1 33
11200 5.4351801 0.99956703 3.4548447 7.0745257 1 29
11300 4.9397513 1.0008287 3.1990325 6.0917337 1 27
11400 4.9159845 1.0017862 3.0005677 7.653817 1 26
11500 4.9243103 1.0013135 3.1799841 7.744414 1 23
11600 5.2036357 1.0017984 3.2963749 7.540477 1 22
11700 4.8991892 1.0020757 3.1773032 8.7218471 1 27
11800 4.9489399 1.003438 3.1679764 7.1605486 1 26
11900 4.82398 1.0019946 3.1939566 7.1397869 1 21
12000 4.3531411 1.000532 2.8321416 7.6672501 1 23
12100 4.8226081 1.0018898 3.0382137 6.8343432 1 25
12200 4.7456418 1.0032116 2.9186038 7.3067818 1 20
12300 4.4280468 1.0005857 2.734593 8.0365684 1 22
12400 4.7311239 1.0000982 2.8898839 7.9231831 1 22
12500 4.7261054 1.0016127 2.9090517 7.6085854 1 24
12600 4.7719025 1.0016702 2.9736761 7.6101796 1 26
12700 4.386248 1.001394 2.8508378 6.4765102 1 28
12800 4.3313538 1.0019737 2.6258221 6.3164681 1 19
12900 4.2219861 1.0007469 2.5345699 7.0901077 1 22
13000 4.1775643 1.0011891 2.5807017 7.3579938 1 25
13100 4.3060837 1.0008671 2.5974066 6.9301328 1 22
13200 4.3529062 0.99996469 2.7571632 6.7806287 1 21
13300 4.2178709 1.000673 2.7819091 7.6449064 1 18
13400 4.2714169 1.0021294 2.7280794 8.0986691 1 18
13500 4.3430969 1.0037732 2.6768429 8.1267941 1 18
13600 4.3664374 1.0016083 2.6470186 6.2797727 1 20
13700 4.4904769 1.0008993 2.7885718 7.7410193 1 22
13800 4.2966193 1.001532 2.73862 7.9651302 1 21
13900 4.4003185 1.0009984 2.7484129 8.7160439 1 24
14000 4.5948292 1.0011748 2.9051777 7.842121 1 22
14100 4.6901122 1.0001265 2.9404111 8.9953816 1 20
14200 4.8517518 0.99998743 2.9647625 6.6450509 1 22
14300 4.889628 1.0018051 3.0891097 7.2671824 1 20
14400 4.578862 1.0010629 2.8239776 6.1317183 1 23
14500 4.0865406 1.0013917 2.5119661 6.864665 1 19
14600 4.30688 1.0009041 2.6817814 6.9007433 1 18
14700 4.1295726 1.002342 2.6032093 7.1441648 1 15
14800 4.2176021 1.0015157 2.7332903 6.8394683 1 16
14900 4.2012664 0.99986345 2.6498409 7.4568241 1 15
15000 4.6124269 1.0014751 2.9584178 7.9341875 1 16
15100 4.947327 1.0010615 3.0784409 7.6241305 1 21
15200 5.253281 1.002095 3.3093754 8.1872718 1 25
15300 5.2642369 1.0017799 3.1511136 7.4668389 1 25
15400 5.1967916 1.0029407 3.247548 8.0840111 1 23
15500 5.7465412 1.001896 3.468834 9.5990471 1 15
15600 6.2245772 1.0021086 3.6127689 7.8242016 1 19
15700 5.5626191 0.99984979 3.3893723 7.8124588 1 20
15800 5.5945727 1.0010291 3.3442448 7.0116922 1 17
15900 5.4450219 1.0006248 3.3132381 8.4803413 1 15
16000 5.7800459 1.001449 3.5002534 8.7989456 1 19
16100 6.1168718 1.0008109 3.8081142 8.0119729 1 18
16200 5.4901649 1.0020643 3.3673653 7.3483134 1 17
16300 5.4051694 1.0015652 3.3560012 7.4641983 1 19
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16800 5.956937 1.0005959 3.7630589 8.7417987 1 13
16900 5.469721 1.0016219 3.5531223 8.6721994 1 13
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17100 5.9226035 0.99918238 4.0244287 6.5172028 1 16
17200 5.4897042 0.99981565 3.4350691 5.6840394 1 20
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17400 5.5559131 1.0013807 3.4951403 6.874191 1 24
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17600 4.9283792 1.0007628 3.1736308 7.3098058 1 20
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17800 4.6842391 1.00037 2.9602433 7.4116352 1 17
17900 4.7714682 1.0009332 2.9666778 7.5925131 1 17
18000 4.7233188 1.0035687 3.0991778 7.1636357 1 10
18100 4.6487958 1.0020255 3.10781 6.8468658 1 12
18200 4.6284129 1.0012617 3.089724 6.3082275 1 13
18300 4.7136404 0.99962415 3.1261978 7.3359556 1 15
18400 5.0367681 1.0011016 3.2413493 8.3910633 1 14
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18800 4.9415788 1.0012406 3.1661907 7.5544034 1 18
18900 5.3930915 1.000138 3.2557456 7.350955 1 21
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19900 5.4071193 0.99961357 3.4977894 6.1068438 1 20
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20100 5.6551271 1.0025852 3.5672369 7.8242273 1 20
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20900 5.3245034 1.0014504 3.3354615 6.7030716 1 17
21000 5.2071731 1.0020459 3.3881369 5.8616999 1 20
21100 5.3187535 1.0010762 3.2845672 8.1422146 1 21
21200 5.5298545 0.99942313 3.4393978 7.1183144 1 22
21300 5.8430744 1.0008652 3.719408 7.8522038 1 20
21400 5.8190457 1.0017046 3.5624252 7.8150165 1 20
21500 6.004585 1.0035276 3.9161914 7.7719377 1 21
21600 6.7202635 0.99970072 3.9642141 8.7934294 1 18
21700 6.8590346 1.0007883 4.4285217 8.9014638 1 20
21800 6.627638 1.0012117 4.1154082 8.3153026 1 22
21900 7.8281047 1.0008299 4.8842343 8.4016227 1 20
22000 7.200038 1.0014681 4.4141419 9.4091956 1 18
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22300 8.1080801 1.0000019 5.2725185 9.2314625 1 14
22400 7.8068311 1.0020672 4.9055683 8.4064748 1 12
22500 7.4594636 1.0008427 4.6586396 8.5102986 1 11
22600 6.9380609 1.0024634 4.2435619 10.395118 1 16
22700 6.9338066 1.001056 4.3436179 7.9126284 1 18
22800 6.8049493 1.0020052 4.1443407 7.8228868 1 18
22900 6.2280158 1.0021474 3.7695343 7.3179647 1 20
23000 5.649403 1.0017128 3.5941976 7.2964709 1 19
23100 5.3203116 1.001912 3.3807399 6.6454551 1 15
23200 5.8172882 1.0005742 3.6625896 8.4256312 1 15
23300 5.9647182 1.0015466 3.9106019 8.3303303 1 14
23400 5.9784055 1.0034542 3.7229235 7.7934273 1 14
23500 5.377627 1.00192 3.5481778 6.8195124 1 17
23600 5.4807136 1.0014662 3.563123 7.6356376 1 18
23700 5.8896329 1.0013553 3.7990694 8.5513408 1 13
23800 6.3463707 0.9999403 3.9609397 8.5741923 1 11
23900 6.656669 1.0014998 4.1993183 9.0862996 1 13
24000 7.583723 1.0025057 4.7628652 7.5007245 1 20
24100 6.9868359 1.0014089 4.4369841 7.692833 1 25
24200 7.1966062 1.0013149 4.4384528 9.5264821 1 18
24300 6.7765706 1.0007065 4.3500477 9.4974154 1 16
24400 7.0853466 1.0013246 4.409163 9.2215823 1 17
24500 6.9603823 1.0004247 4.4866051 7.7870058 1 20
24600 6.9208291 0.99953329 4.2298144 6.5732392 1 21
24700 6.5005518 1.0026848 4.0003505 7.8094715 1 22
24800 5.8421948 1.0012055 3.6686768 7.6078157 1 26
24900 5.8410604 1.0023428 3.746177 6.8971309 1 22
25000 5.8728511 1.0001747 3.7170134 7.4456816 1 19
25100 6.0217168 1.000624 3.7756108 6.6542452 1 20
25200 6.1939015 1.0017861 3.8943084 9.395821 1 25
25300 6.161998 1.0010373 3.9255122 6.2228884 1 28
25400 5.5850406 1.0018505 3.5129832 7.2551309 1 24
25500 6.0286276 1.0009028 3.8580887 6.8065265 1 24
25600 5.6262228 1.0005097 3.4574446 7.5061246 1 21
25700 6.1348187 1.0009828 3.8073512 7.4818375 1 17
25800 6.09781 1.0026426 3.9585383 9.0915939 1 21
25900 6.2673667 1.0002269 3.8182813 9.2134822 1 21
26000 6.6001776 1.0020444 4.041386 8.0403555 1 18
26100 6.3063025 1.0016633 3.8649839 8.8149734 1 19
26200 6.0046983 1.002332 3.5380766 8.6145656 1 17
26300 5.9627788 1.0005401 3.56864 6.7821213 1 15
26400 5.0547314 0.9998295 3.2106781 9.2935351 1 15
26500 5.256781 1.0013131 3.2946631 8.8590275 1 15
26600 5.6250355 1.0023929 3.5243033 8.8985058 1 17
26700 6.0197165 1.0018323 3.7973947 7.3093402 1 17
26800 5.4556541 1.0015309 3.4295107 8.2342049 1 18
26900 5.420428 1.0024996 3.4374201 7.1444636 1 16
27000 6.165624 1.0019174 3.8726016 8.6588275 1 20
27100 6.7131697 1.0006541 4.266264 8.7063389 1 24
27200 6.4855163 1.0016139 4.2029778 7.667611 1 29
27300 6.0525608 1.000478 3.9169723 7.4515279 1 25
27400 6.1426194 1.0014522 3.9176108 6.8689671 1 24
27500 6.5981349 1.0001143 4.0620686 8.6804552 1 27
27600 6.7827138 1.0016694 4.2764286 9.3912843 1 21
27700 6.6368902 1.0025149 4.1452128 9.1814523 1 24
27800 6.9791025 1.0019486 4.3989933 7.9446882 1 24
27900 6.617142 1.0015736 4.360571 9.3732108 1 26
28000 7.2818263 1.0014101 4.6041512 8.2398587 1 28
28100 7.2543709 1.0007625 4.5724787 7.7373488 1 22
28200 7.0631847 1.0023922 4.4021705 8.3290554 1 29
28300 7.2999952 1.0012593 4.4655563 8.612666 1 27
28400 7.4124538 1.0014043 4.5011335 8.379391 1 29
28500 7.0350937 1.0011392 4.3528091 7.8167375 1 24
28600 7.9659642 1.0031684 4.8732467 8.0661929 1 30
28700 7.2865919 1.0010958 4.6650146 8.0325989 1 32
28800 7.7039529 1.0027912 4.8299888 9.5471747 1 30
28900 8.3288847 1.0012438 5.0785288 8.8964877 1 31
29000 7.9348665 1.0021794 4.9393968 9.5531767 1 31
29100 8.2473389 1.0013795 4.9890359 9.7697184 1 29
29200 8.6383362 1.0018356 4.9856954 7.6402719 1 25
29300 8.2504592 1.0011048 4.9631793 7.9466724 1 24
29400 8.0502922 1.0010516 5.2521065 8.4515028 1 26
29500 7.9475896 1.0012951 4.8584644 9.1225463 1 19
29600 8.5641641 1.0016228 5.4361335 9.2045399 1 23
29700 8.9932021 1.0011848 5.5727205 8.6045729 1 23
29800 8.0320178 1.0019073 5.2837013 8.9335413 1 22
29900 8.2676522 1.0012734 5.2213798 8.8966896 1 24
30000 9.1848984 1.001747 5.9147628 12.096129 1 27
30100 10.184519 0.99977427 6.4260136 11.140491 1 27
30200 9.271472 1.0023983 6.0252189 9.6954338 1 30
30300 9.0751572 1.000851 5.6010295 9.734426 1 28
30400 9.4581261 1.0018449 5.6987258 9.70456 1 34
30500 9.1574751 0.99944001 5.582217 9.300318 1 27
30600 8.619312 1.001388 5.3503985 8.2759155 1 26
30700 7.9370031 1.0026674 5.0702831 8.5368014 1 28
30800 7.9221619 1.0019077 5.1278637 11.046922 1 26
30900 9.9722884 1.0025903 6.4055506 10.167311 1 25
31000 8.8648667 0.99962676 5.4777514 10.142102 1 21
31100 8.576344 1.000906 5.3216342 8.7984921 1 18
31200 7.8480974 1.0010341 4.9584917 9.0696437 1 16
31300 8.3536183 1.0005758 5.208516 9.7971514 1 15
31400 8.5301933 1.0007603 5.2241536 9.0257241 1 17
31500 8.5196226 1.0018215 5.0576064 8.8847294 1 19
31600 8.1470823 1.0023147 4.9182956 9.0205413 1 20
31700 8.1475888 1.0005764 5.1814113 9.0603162 1 16
31800 7.8629717 1.0014194 4.9221218 9.366291 1 16
31900 7.7206559 1.0021082 4.9167636 7.4136735 1 16
32000 7.5152809 1.0004752 4.6330638 8.830959 1 16
32100 8.2693974 1.0011751 4.9094804 9.427636 1 13
32200 8.3067661 0.9997006 4.9036865 9.0374633 1 17
32300 7.2068514 1.0007866 4.3580755 8.6445065 1 17
32400 6.885063 1.0011887 4.1528011 8.1199454 1 16
32500 6.9147014 1.0020825 4.160405 7.5398034 1 19
32600 6.8809668 1.000971 4.3312782 8.2157688 1 16
32700 6.4818892 1.0000885 3.9433899 7.309605 1 22
32800 6.6875555 1.0018674 4.1017504 7.2327183 1 22
32900 7.6118502 0.99975736 4.4498951 8.5072395 1 19
33000 7.7576909 1.0022061 4.7239551 9.2132467 1 22
33100 7.8616235 1.000482 5.0031322 9.349805 1 20
33200 8.2620563 1.0015059 5.2482188 10.286446 1 17
33300 8.0217099 1.0015466 5.1166876 9.1381844 1 20
33400 7.6565746 1.0024855 4.7594208 9.2646824 1 22
33500 7.9633887 1.0010334 4.6754116 9.1085184 1 23
33600 7.9566834 1.0024542 4.6712679 9.2046594 1 25
33700 8.2639384 1.0003021 5.1326892 8.0930215 1 24
33800 8.5648917 1.0000947 5.2099387 8.8127486 1 21
33900 8.3593557 1.0002488 5.1291354 8.5938391 1 25
34000 8.1922068 1.0030011 5.1441189 7.1529563 1 24
34100 8.4260308 1.0004639 5.5876122 9.0450303 1 28
34200 8.3014654 1.0002204 5.1964772 8.4920822 1 33
34300 7.4736545 1.0010306 4.7932244 7.8442244 1 30
34400 7.0023126 1.0024002 4.5665168 8.4702188 1 29
34500 7.3797703 1.000813 4.7224014 8.4098954 1 30
34600 7.7158761 0.99973161 4.7441628 8.5818592 1 29
34700 7.6135895 1.0015768 4.6612844 7.2195952 1 28
34800 7.0458078 0.99992638 4.2805357 7.4162305 1 32
34900 7.6190708 1.0007146 4.8064968 8.2709405 1 27
35000 7.4614294 1.0006051 4.7807207 7.7137359 1 28
35100 7.7008336 1.0008263 4.6823621 7.0208513 1 26
35200 8.1510766 1.000271 5.1781834 7.3231692 1 24
35300 7.5106275 1.0010438 4.6988185 8.9418343 1 25
35400 7.8116652 1.0009688 4.8622216 7.4624002 1 17
35500 7.2159785 1.0027484 4.543984 8.3177043 1 21
35600 7.6978875 1.0004834 4.7021203 8.3706905 1 20
35700 7.7827655 1.0019919 4.775879 8.6083292 1 15
35800 7.8433537 1.001844 4.7506574 7.3250009 1 15
35900 7.9456497 1.0004336 4.7925775 7.9824359 1 18
36000 8.1044513 1.0022261 5.1213755 9.211699 1 16
36100 7.6657532 1.0025661 4.751804 8.9770412 1 19
36200 7.909323 1.0035462 4.8435293 10.232493 1 21
36300 8.4188244 1.0016775 5.4337725 9.2060079 1 24
36400 8.7352689 1.0011274 5.6313351 8.6202832 1 24
36500 8.3459273 1.0005659 5.187336 6.9333716 1 21
36600 7.7118105 1.0018769 4.9293347 8.2789615 1 14
36700 7.8069879 1.0014021 4.7782709 8.4841233 1 15
36800 7.862085 1.0005342 4.8680692 8.1055023 1 16
36900 7.9469362 1.0027815 4.9339095 9.157722 1 16
37000 7.9085375 1.0024851 5.0921374 8.9374239 1 16
37100 8.9464869 1.0005734 5.6837772 8.806998 1 16
37200 8.1482632 1.0021175 5.1266453 8.5772094 1 18
37300 7.7958072 1.0026336 4.788431 8.3233372 1 19
37400 7.3647655 1.0015482 4.4786134 9.6606112 1 23
37500 7.3071882 1.0003912 4.681549 8.6319438 1 17
37600 7.8672509 1.0000478 4.7981944 8.3051478 1 14
37700 7.9306696 0.99923102 4.9316544 9.3672856 1 15
37800 7.7397949 0.99948557 5.1168552 8.5978047 1 17
37900 7.9121039 1.0020122 4.9866234 7.640888 1 14
38000 7.433451 1.0007901 4.6254894 8.0853539 1 14
38100 7.4636908 1.0021552 4.8472833 8.1975615 1 10
38200 7.4453077 1.0010305 4.6910943 7.8192603 1 13
38300 7.0488536 1.0012587 4.5490462 8.190036 1 16
38400 8.0686748 1.0016782 5.0747029 7.7242015 1 15
38500 7.9575875 1.0007137 4.8361776 8.05268 1 15
38600 7.6690498 1.0027522 4.8823286 9.1926516 1 20
38700 7.1567 1.002374 4.5600354 10.098089 1 19
38800 6.9100518 1.0008695 4.4101446 7.8832032 1 19
38900 6.8021882 1.0017647 4.1844125 8.1858761 1 21
39000 8.3996464 1.0010263 4.8183813 8.0997387 1 16
39100 8.4533834 1.0021643 5.074254 11.291904 1 19
39200 8.2406701 1.002062 5.0117425 8.778159 1 24
39300 8.3134114 1.0008218 5.0067136 7.9871787 1 22
39400 7.4307571 1.0014205 4.5858283 8.8596594 1 25
39500 7.1146821 1.0016367 4.5021057 7.4890018 1 22
39600 8.0048978 0.99992107 4.9235747 7.8770845 1 24
39700 8.070853 1.0029024 5.0842957 9.020664 1 21
39800 7.6939108 1.0012543 4.8986595 8.3306129 1 20
39900 7.2915444 1.00267 4.5038291 8.3844384 1 20
40000 7.3023994 1.0020441 4.4960911 8.1023709 1 18
40100 7.0221648 1.0033695 4.6374149 8.3756822 1 24
40200 7.4114756 1.0019246 4.6733475 7.6547258 1 23
40300 7.5323108 1.0005472 4.8284493 8.2820085 1 26
40400 7.3890772 1.0010491 4.6599273 8.9203575 1 19
40500 7.5786764 1.0016114 4.8166885 8.6760107 1 25
40600 8.165763 1.0006961 5.1488995 7.9321524 1 22
40700 8.1277597 0.99933464 5.0441567 10.069551 1 16
40800 8.1050904 1.0024705 5.4408599 8.3244459 1 21
40900 7.805318 1.0022992 4.9965408 9.7193723 1 21
41000 9.0130932 1.0006842 5.7931112 6.1646073 1 20
41100 8.0387975 1.0017359 5.3355655 9.6123191 1 21
41200 8.4484723 1.0014151 5.4461007 8.5146504 1 27
41300 8.6181909 1.0007562 5.2963876 9.1122306 1 30
41400 9.6762899 1.0010931 5.950456 9.2851025 1 25
41500 9.9414226 1.0016186 6.1433384 10.741453 1 24
41600 9.3348435 1.0003483 5.9291766 11.460717 1 20
41700 9.6125587 1.0013661 5.8530052 9.2105722 1 19
41800 11.383056 1.0032034 7.1988684 10.312945 1 22
41900 10.884524 1.0034888 6.9126707 10.775457 1 20
42000 11.071218 1.0026753 7.0004189 10.740627 1 20
42100 11.054304 1.0008347 6.9602414 8.9885498 1 22
42200 22.478691 1.0020466 14.997099 12.72513 1 19
42300 18.303508 1.0027626 11.336523 12.638769 1 18
42400 15.998712 1.0030312 9.4092725 11.070501 1 24
42500 15.034488 1.0024472 9.3543751 11.48052 1 28
42600 14.538257 1.0033153 9.2523745 10.909576 1 27
42700 13.986613 1.001458 8.5544184 10.765136 1 29
42800 13.240256 1.0027899 8.2014429 10.506497 1 32
42900 12.784336 1.0001406 8.0823431 12.258209 1 33
43000 13.374145 1.0012996 8.4207155 10.32817 1 31
43100 13.142334 1.0022503 8.5908808 10.152205 1 32
43200 12.669284 1.0018944 7.8511966 10.580104 1 32
43300 13.155032 1.001144 8.0337768 10.6652 1 39
43400 12.155928 1.0019472 7.5886584 11.234772 1 35
43500 12.385603 1.0007639 7.8865245 9.3868914 1 32
43600 12.236179 1.0027456 7.7521353 10.456701 1 42
43700 11.49535 1.0008758 7.3633144 8.8490079 1 40
43800 11.469157 1.0015845 7.0035577 10.594522 1 41
43900 11.228266 1.0013014 7.0137223 8.0653711 1 38
44000 10.56742 1.0016631 6.6908938 8.1094154 1 35
44100 9.8964699 1.0008351 6.3550438 8.6578181 1 36
44200 9.041539 1.0019541 5.6721401 8.6518043 1 38
44300 9.0767434 1.0034191 5.7446596 8.3838528 1 38
44400 9.2299608 1.0019526 5.7117964 8.3106491 1 37
44500 9.458981 1.0030409 5.7612138 7.7679755 1 37
44600 8.9611997 1.0014848 5.6490756 6.9224078 1 37
44700 8.0853184 1.0018894 5.2288749 8.0910912 1 32
44800 7.9999755 1.0015853 4.8088312 7.1854304 1 30
44900 7.6598023 1.0009751 4.6690664 7.1999858 1 28
45000 7.4939315 1.0010307 4.8119666 7.9615769 1 26
45100 7.4690079 0.99913423 4.9704428 7.6026835 1 32
45200 7.7001199 1.001626 4.9315953 7.4926686 1 25
45300 7.8794405 1.0011648 4.8624857 8.0804457 1 26
45400 7.493909 1.0016257 4.7631808 8.0330626 1 26
45500 7.5963141 1.0005825 4.7220659 7.0971298 1 23
45600 7.9028612 1.0017008 4.9561022 8.440428 1 23
45700 7.2285584 1.0006033 4.5521456 9.385579 1 23
45800 7.5687284 1.0024318 4.8557498 8.3052658 1 23
45900 7.8938604 1.0013937 5.1393944 5.5323667 1 26
46000 8.318466 1.0020803 5.4761811 8.2227801 1 25
46100 7.9169512 1.0024598 5.0406355 8.64365 1 27
46200 7.5535458 1.0016318 4.8010133 9.370726 1 26
46300 7.8926896 1.0001525 5.18463 7.9830196 1 27
46400 7.487145 1.002671 4.7718312 8.300134 1 29
46500 7.3564658 1.0006114 4.6762189 7.34947 1 26
46600 7.2261291 1.0005569 4.4751221 6.5847138 1 27
46700 7.2943203 1.0020164 4.3335327 7.7296507 1 25
46800 8.5849411 1.0014634 5.4501531 9.0933014 1 25
46900 10.176752 1.0023799 6.0456779 9.4050423 1 16
47000 9.1913098 1.0029076 5.7577256 9.1826215 1 22
47100 9.5479771 1.0022102 6.1100973 8.9440056 1 28
47200 9.9944172 1.0004924 6.3649417 9.1507264 1 25
47300 9.3543283 1.0013246 6.0873147 10.41657 1 24
47400 8.594101 1.0020068 5.6864295 9.2388304 1 24
47500 9.3191964 1.002411 6.0537511 9.3506828 1 23
47600 8.1615734 1.001364 5.3757905 10.303962 1 30
47700 8.3615046 1.0003075 5.2727936 9.3162209 1 32
47800 8.3566467 1.0026031 5.4379524 7.7644422 1 33
47900 8.4062556 1.0006471 5.3098736 8.0181121 1 33
48000 8.2233307 1.0012304 4.9650027 9.2644288 1 34
48100 8.4495256 1.000088 4.9940422 10.01023 1 27
48200 8.8068097 1.0014275 5.4732649 8.410093 1 31
48300 8.0008187 1.0017459 4.7732764 9.25726 1 27
48400 7.7242529 1.0026909 4.9084505 8.7147295 1 30
48500 8.3752816 1.001333 5.1071228 8.2267308 1 32
48600 9.0777805 1.0019328 5.7331841 9.6679383 1 29
48700 9.3623061 1.0001767 5.7117062 8.396895 1 25
48800 8.1186637 1.0013185 5.2697427 8.6058372 1 27
48900 7.3685497 1.0007173 4.6097553 7.8047228 1 24
49000 7.1661421 1.0023152 4.5389038 8.8759552 1 22
49100 6.9857144 1.0016394 4.6489319 8.2022359 1 24
49200 6.7160336 1.0018413 4.2488082 8.3393245 1 25
49300 7.9703755 1.0010628 5.2328567 7.968278 1 28
49400 8.2628465 1.0010877 5.2292977 8.0196533 1 27
49500 8.1436558 1.0015175 5.0344712 8.0712037 1 30
49600 8.5182498 1.0021589 5.1029028 8.6869789 1 28
49700 8.3604444 1.0015016 5.0333696 9.4861656 1 25
49800 7.336335 1.0020055 4.6365173 8.7210022 1 30
49900 7.432996 1.0016415 4.7090587 8.7033033 1 29
50000 7.4937053 1.001014 4.7212573 9.0890363 1 29
Loop time of 999.576 on 8 procs for 40000 steps with 16271 atoms
Performance: 3457.466 tau/day, 40.017 timesteps/s, 651.116 katom-step/s
99.3% CPU use with 8 MPI tasks x no OpenMP threads
MPI task timing breakdown:
Section | min time | avg time | max time |%varavg| %total
---------------------------------------------------------------
Pair | 293.48 | 403.7 | 545.29 | 357.5 | 40.39
Neigh | 2.4176 | 3.2721 | 3.8303 | 25.2 | 0.33
Comm | 163.58 | 305.88 | 419.83 | 416.7 | 30.60
Output | 0.032483 | 0.034794 | 0.040514 | 1.2 | 0.00
Modify | 281.15 | 285.67 | 293.8 | 24.3 | 28.58
Other | | 1.023 | | | 0.10
Nlocal: 2033.88 ave 2657 max 1198 min
Histogram: 2 0 0 0 0 2 1 0 1 2
Nghost: 1628.12 ave 1719 max 1569 min
Histogram: 2 0 1 1 2 1 0 0 0 1
Neighs: 13566 ave 18212 max 8488 min
Histogram: 1 0 0 1 2 1 2 0 0 1
Total # of neighbors = 108528
Ave neighs/atom = 6.6700264
Neighbor list builds = 2447
Dangerous builds = 2
Total wall time: 0:19:22