From c9d41178d8593d1404681fb13132badf766f1271 Mon Sep 17 00:00:00 2001
From: Axel Kohlmeyer <akohlmey@gmail.com>
Date: Thu, 3 May 2018 23:37:01 -0400
Subject: [PATCH] update logfiles and adjust some example inputs to be
consistent
---
.../{in.rigid-atomfile => in.rigid.atomfile} | 0
.../{in.rigid-atomvar => in.rigid.atomvar} | 0
examples/rigid/in.rigid.nve | 81 +++++
.../{in.rigid-property => in.rigid.property} | 0
.../rigid/log.20Apr18.rigid.atomfile.g++.1 | 338 +++++++++++++++++
.../rigid/log.20Apr18.rigid.atomfile.g++.4 | 338 +++++++++++++++++
.../rigid/log.20Apr18.rigid.atomvar.g++.1 | 338 +++++++++++++++++
.../rigid/log.20Apr18.rigid.atomvar.g++.4 | 338 +++++++++++++++++
...16.rigid.g++.4 => log.20Apr18.rigid.g++.1} | 62 ++--
...16.rigid.g++.1 => log.20Apr18.rigid.g++.4} | 72 ++--
examples/rigid/log.20Apr18.rigid.nve.g++.1 | 335 +++++++++++++++++
examples/rigid/log.20Apr18.rigid.nve.g++.4 | 335 +++++++++++++++++
.../rigid/log.20Apr18.rigid.property.g++.1 | 340 ++++++++++++++++++
.../rigid/log.20Apr18.rigid.property.g++.4 | 340 ++++++++++++++++++
14 files changed, 2856 insertions(+), 61 deletions(-)
rename examples/rigid/{in.rigid-atomfile => in.rigid.atomfile} (100%)
rename examples/rigid/{in.rigid-atomvar => in.rigid.atomvar} (100%)
create mode 100644 examples/rigid/in.rigid.nve
rename examples/rigid/{in.rigid-property => in.rigid.property} (100%)
create mode 100644 examples/rigid/log.20Apr18.rigid.atomfile.g++.1
create mode 100644 examples/rigid/log.20Apr18.rigid.atomfile.g++.4
create mode 100644 examples/rigid/log.20Apr18.rigid.atomvar.g++.1
create mode 100644 examples/rigid/log.20Apr18.rigid.atomvar.g++.4
rename examples/rigid/{log.5Oct16.rigid.g++.4 => log.20Apr18.rigid.g++.1} (91%)
rename examples/rigid/{log.5Oct16.rigid.g++.1 => log.20Apr18.rigid.g++.4} (89%)
create mode 100644 examples/rigid/log.20Apr18.rigid.nve.g++.1
create mode 100644 examples/rigid/log.20Apr18.rigid.nve.g++.4
create mode 100644 examples/rigid/log.20Apr18.rigid.property.g++.1
create mode 100644 examples/rigid/log.20Apr18.rigid.property.g++.4
diff --git a/examples/rigid/in.rigid-atomfile b/examples/rigid/in.rigid.atomfile
similarity index 100%
rename from examples/rigid/in.rigid-atomfile
rename to examples/rigid/in.rigid.atomfile
diff --git a/examples/rigid/in.rigid-atomvar b/examples/rigid/in.rigid.atomvar
similarity index 100%
rename from examples/rigid/in.rigid-atomvar
rename to examples/rigid/in.rigid.atomvar
diff --git a/examples/rigid/in.rigid.nve b/examples/rigid/in.rigid.nve
new file mode 100644
index 0000000000..d61cdecfe8
--- /dev/null
+++ b/examples/rigid/in.rigid.nve
@@ -0,0 +1,81 @@
+# Simple rigid body system
+
+units lj
+atom_style atomic
+
+pair_style lj/cut 2.5
+
+read_data data.rigid
+
+velocity all create 100.0 4928459
+
+# unconnected bodies
+
+group clump1 id <> 1 9
+group clump2 id <> 10 18
+group clump3 id <> 19 27
+group clump4 id <> 28 36
+group clump5 id <> 37 45
+group clump6 id <> 46 54
+group clump7 id <> 55 63
+group clump8 id <> 64 72
+group clump9 id <> 73 81
+
+fix 1 all rigid/nve group 9 clump1 clump2 clump3 clump4 clump5 &
+ clump6 clump7 clump8 clump9
+
+# 1 chain of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 36 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4 clump5 &
+# clump6 clump7 clump8 clump9
+
+# 2 chains of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 37 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4
+#fix 2 all poems group clump5 clump6 clump7 clump8 clump9
+
+neigh_modify exclude group clump1 clump1
+neigh_modify exclude group clump2 clump2
+neigh_modify exclude group clump3 clump3
+neigh_modify exclude group clump4 clump4
+neigh_modify exclude group clump5 clump5
+neigh_modify exclude group clump6 clump6
+neigh_modify exclude group clump7 clump7
+neigh_modify exclude group clump8 clump8
+neigh_modify exclude group clump9 clump9
+
+thermo 100
+
+#dump 1 all atom 50 dump.rigid
+
+#dump 2 all image 100 image.*.jpg type type &
+# axes yes 0.8 0.02 view 60 -30
+#dump_modify 2 pad 5
+
+#dump 3 all movie 100 movie.mpg type type &
+# axes yes 0.8 0.02 view 60 -30
+#dump_modify 3 pad 5
+
+timestep 0.0001
+thermo 50
+run 10000
diff --git a/examples/rigid/in.rigid-property b/examples/rigid/in.rigid.property
similarity index 100%
rename from examples/rigid/in.rigid-property
rename to examples/rigid/in.rigid.property
diff --git a/examples/rigid/log.20Apr18.rigid.atomfile.g++.1 b/examples/rigid/log.20Apr18.rigid.atomfile.g++.1
new file mode 100644
index 0000000000..3d5eadbeb3
--- /dev/null
+++ b/examples/rigid/log.20Apr18.rigid.atomfile.g++.1
@@ -0,0 +1,338 @@
+LAMMPS (20 Apr 2018)
+ using 1 OpenMP thread(s) per MPI task
+# Simple rigid body system
+
+units lj
+atom_style atomic
+atom_modify map array
+
+pair_style lj/cut 2.5
+
+read_data data.rigid
+ orthogonal box = (-12 -12 -12) to (12 12 12)
+ 1 by 1 by 1 MPI processor grid
+ reading atoms ...
+ 81 atoms
+
+velocity all create 100.0 4928459
+
+
+# unconnected bodies
+
+group clump1 id <> 1 9
+9 atoms in group clump1
+group clump2 id <> 10 18
+9 atoms in group clump2
+group clump3 id <> 19 27
+9 atoms in group clump3
+group clump4 id <> 28 36
+9 atoms in group clump4
+group clump5 id <> 37 45
+9 atoms in group clump5
+group clump6 id <> 46 54
+9 atoms in group clump6
+group clump7 id <> 55 63
+9 atoms in group clump7
+group clump8 id <> 64 72
+9 atoms in group clump8
+group clump9 id <> 73 81
+9 atoms in group clump9
+
+variable bodies atomfile bodies.txt
+fix 1 all rigid custom v_bodies
+9 rigid bodies with 81 atoms
+
+# 1 chain of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 36 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4 clump5 # clump6 clump7 clump8 clump9
+
+# 2 chains of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 37 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4
+#fix 2 all poems group clump5 clump6 clump7 clump8 clump9
+
+neigh_modify exclude group clump1 clump1
+neigh_modify exclude group clump2 clump2
+neigh_modify exclude group clump3 clump3
+neigh_modify exclude group clump4 clump4
+neigh_modify exclude group clump5 clump5
+neigh_modify exclude group clump6 clump6
+neigh_modify exclude group clump7 clump7
+neigh_modify exclude group clump8 clump8
+neigh_modify exclude group clump9 clump9
+
+thermo 100
+
+#dump 1 all atom 50 dump.rigid
+
+#dump 2 all image 100 image.*.jpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 2 pad 5
+
+#dump 3 all movie 100 movie.mpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 3 pad 5
+
+timestep 0.0001
+thermo 50
+run 10000
+Neighbor list info ...
+ update every 1 steps, delay 10 steps, check yes
+ max neighbors/atom: 2000, page size: 100000
+ master list distance cutoff = 2.8
+ ghost atom cutoff = 2.8
+ binsize = 1.4, bins = 18 18 18
+ 1 neighbor lists, perpetual/occasional/extra = 1 0 0
+ (1) pair lj/cut, perpetual
+ attributes: half, newton on
+ pair build: half/bin/atomonly/newton
+ stencil: half/bin/3d/newton
+ bin: standard
+Per MPI rank memory allocation (min/avg/max) = 4.109 | 4.109 | 4.109 Mbytes
+Step Temp E_pair E_mol TotEng Press
+ 0 115.29439 5235.9179 0 5272.2142 -2.7403788
+ 50 14910.685 571.71558 0 5265.82 32.006171
+ 100 16298.442 136.66184 0 5267.653 16.444229
+ 150 16682.606 17.490511 0 5269.4219 14.900344
+ 200 16733.929 1.372872 0 5269.4617 14.569267
+ 250 16738.853 -0.15252816 0 5269.4864 14.496404
+ 300 16738.588 -0.055171335 0 5269.5002 14.496025
+ 350 16738.492 -0.017444677 0 5269.5077 14.496446
+ 400 16738.464 -0.0060102023 0 5269.5104 14.496618
+ 450 16738.455 -0.0012713351 0 5269.5124 14.496701
+ 500 16738.455 -0.00081068621 0 5269.5128 14.496709
+ 550 16738.455 -0.00083203497 0 5269.5129 14.496707
+ 600 16738.455 -0.00058355356 0 5269.5131 14.496709
+ 650 16738.455 -0.00047226704 0 5269.5131 14.496708
+ 700 16738.455 0 0 5269.5136 14.496713
+ 750 16738.455 0 0 5269.5136 14.49671
+ 800 16738.455 0 0 5269.5137 14.496709
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+ 1050 16737.358 0.32995057 0 5269.4981 14.525763
+ 1100 16737.892 0.16210246 0 5269.4984 14.531983
+ 1150 16738.703 -0.089235095 0 5269.5025 14.509899
+ 1200 16738.466 -0.0075446243 0 5269.5096 14.510615
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+ 2250 16738.515 -0.023709918 0 5269.5088 14.510539
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+ 2600 16738.427 -7.9722839e-05 0 5269.5046 14.510657
+ 2650 16733.017 1.705148 0 5269.5067 14.596295
+ 2700 16738.761 -0.10614946 0 5269.5038 14.499584
+ 2750 16733.973 1.4038179 0 5269.5064 14.598107
+ 2800 16738.585 -0.046813448 0 5269.5076 14.511073
+ 2850 16738.487 -0.012558719 0 5269.5111 14.510111
+ 2900 16738.465 -0.0026252725 0 5269.514 14.510277
+ 2950 16738.476 -0.0082220764 0 5269.512 14.510223
+ 3000 16738.66 -0.071284779 0 5269.507 14.509758
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+ 3100 16653.226 26.818761 0 5269.5009 14.496764
+ 3150 16739.351 -0.30690375 0 5269.4886 13.643904
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+ 9900 16738.489 -0.00024984561 0 5269.5242 11.395085
+ 9950 16738.49 0 0 5269.5245 11.395076
+ 10000 16738.49 0 0 5269.5246 11.395075
+Loop time of 0.13941 on 1 procs for 10000 steps with 81 atoms
+
+Performance: 619755.656 tau/day, 71730.979 timesteps/s
+99.6% CPU use with 1 MPI tasks x 1 OpenMP threads
+
+MPI task timing breakdown:
+Section | min time | avg time | max time |%varavg| %total
+---------------------------------------------------------------
+Pair | 0.010763 | 0.010763 | 0.010763 | 0.0 | 7.72
+Neigh | 0.037528 | 0.037528 | 0.037528 | 0.0 | 26.92
+Comm | 0.0093656 | 0.0093656 | 0.0093656 | 0.0 | 6.72
+Output | 0.0024004 | 0.0024004 | 0.0024004 | 0.0 | 1.72
+Modify | 0.073635 | 0.073635 | 0.073635 | 0.0 | 52.82
+Other | | 0.005718 | | | 4.10
+
+Nlocal: 81 ave 81 max 81 min
+Histogram: 1 0 0 0 0 0 0 0 0 0
+Nghost: 84 ave 84 max 84 min
+Histogram: 1 0 0 0 0 0 0 0 0 0
+Neighs: 0 ave 0 max 0 min
+Histogram: 1 0 0 0 0 0 0 0 0 0
+
+Total # of neighbors = 0
+Ave neighs/atom = 0
+Neighbor list builds = 998
+Dangerous builds = 997
+Total wall time: 0:00:00
diff --git a/examples/rigid/log.20Apr18.rigid.atomfile.g++.4 b/examples/rigid/log.20Apr18.rigid.atomfile.g++.4
new file mode 100644
index 0000000000..ac1cc79959
--- /dev/null
+++ b/examples/rigid/log.20Apr18.rigid.atomfile.g++.4
@@ -0,0 +1,338 @@
+LAMMPS (20 Apr 2018)
+ using 1 OpenMP thread(s) per MPI task
+# Simple rigid body system
+
+units lj
+atom_style atomic
+atom_modify map array
+
+pair_style lj/cut 2.5
+
+read_data data.rigid
+ orthogonal box = (-12 -12 -12) to (12 12 12)
+ 1 by 2 by 2 MPI processor grid
+ reading atoms ...
+ 81 atoms
+
+velocity all create 100.0 4928459
+
+
+# unconnected bodies
+
+group clump1 id <> 1 9
+9 atoms in group clump1
+group clump2 id <> 10 18
+9 atoms in group clump2
+group clump3 id <> 19 27
+9 atoms in group clump3
+group clump4 id <> 28 36
+9 atoms in group clump4
+group clump5 id <> 37 45
+9 atoms in group clump5
+group clump6 id <> 46 54
+9 atoms in group clump6
+group clump7 id <> 55 63
+9 atoms in group clump7
+group clump8 id <> 64 72
+9 atoms in group clump8
+group clump9 id <> 73 81
+9 atoms in group clump9
+
+variable bodies atomfile bodies.txt
+fix 1 all rigid custom v_bodies
+9 rigid bodies with 81 atoms
+
+# 1 chain of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 36 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4 clump5 # clump6 clump7 clump8 clump9
+
+# 2 chains of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 37 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4
+#fix 2 all poems group clump5 clump6 clump7 clump8 clump9
+
+neigh_modify exclude group clump1 clump1
+neigh_modify exclude group clump2 clump2
+neigh_modify exclude group clump3 clump3
+neigh_modify exclude group clump4 clump4
+neigh_modify exclude group clump5 clump5
+neigh_modify exclude group clump6 clump6
+neigh_modify exclude group clump7 clump7
+neigh_modify exclude group clump8 clump8
+neigh_modify exclude group clump9 clump9
+
+thermo 100
+
+#dump 1 all atom 50 dump.rigid
+
+#dump 2 all image 100 image.*.jpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 2 pad 5
+
+#dump 3 all movie 100 movie.mpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 3 pad 5
+
+timestep 0.0001
+thermo 50
+run 10000
+Neighbor list info ...
+ update every 1 steps, delay 10 steps, check yes
+ max neighbors/atom: 2000, page size: 100000
+ master list distance cutoff = 2.8
+ ghost atom cutoff = 2.8
+ binsize = 1.4, bins = 18 18 18
+ 1 neighbor lists, perpetual/occasional/extra = 1 0 0
+ (1) pair lj/cut, perpetual
+ attributes: half, newton on
+ pair build: half/bin/atomonly/newton
+ stencil: half/bin/3d/newton
+ bin: standard
+Per MPI rank memory allocation (min/avg/max) = 4.08 | 4.174 | 4.455 Mbytes
+Step Temp E_pair E_mol TotEng Press
+ 0 115.29439 5235.9179 0 5272.2142 -2.7403788
+ 50 14910.685 571.71558 0 5265.82 32.006171
+ 100 16298.442 136.66184 0 5267.653 16.444229
+ 150 16682.606 17.490511 0 5269.4219 14.900344
+ 200 16733.929 1.372872 0 5269.4617 14.569267
+ 250 16738.853 -0.15252816 0 5269.4864 14.496404
+ 300 16738.588 -0.055171335 0 5269.5002 14.496025
+ 350 16738.492 -0.017444677 0 5269.5077 14.496446
+ 400 16738.464 -0.0060102023 0 5269.5104 14.496618
+ 450 16738.455 -0.0012713351 0 5269.5124 14.496701
+ 500 16738.455 -0.00081068621 0 5269.5128 14.496709
+ 550 16738.455 -0.00083203497 0 5269.5129 14.496707
+ 600 16738.455 -0.00058355356 0 5269.5131 14.496709
+ 650 16738.455 -0.00047226704 0 5269.5131 14.496708
+ 700 16738.455 0 0 5269.5136 14.496713
+ 750 16738.455 0 0 5269.5136 14.49671
+ 800 16738.455 0 0 5269.5137 14.496709
+ 850 16738.455 0 0 5269.5137 14.49671
+ 900 16738.456 0 0 5269.5138 14.496713
+ 950 16738.462 -0.0035323872 0 5269.5122 14.496671
+ 1000 16738.586 -0.051135144 0 5269.5036 14.496229
+ 1050 16737.358 0.32995057 0 5269.4981 14.525763
+ 1100 16737.892 0.16210246 0 5269.4984 14.531983
+ 1150 16738.703 -0.089235095 0 5269.5025 14.509899
+ 1200 16738.466 -0.0075446243 0 5269.5096 14.510615
+ 1250 16738.456 0 0 5269.514 14.510704
+ 1300 16738.457 0 0 5269.5141 14.510701
+ 1350 16738.457 0 0 5269.5141 14.510699
+ 1400 16738.457 -0.00044736511 0 5269.5138 14.510693
+ 1450 16738.458 -0.0010971179 0 5269.5134 14.510687
+ 1500 16738.458 -0.00057885428 0 5269.5139 14.510698
+ 1550 16738.457 0 0 5269.5143 14.51071
+ 1600 16738.457 0 0 5269.5144 14.510712
+ 1650 16738.457 0 0 5269.5144 14.510712
+ 1700 16738.458 0 0 5269.5144 14.51071
+ 1750 16738.458 0 0 5269.5145 14.510708
+ 1800 16738.458 0 0 5269.5145 14.510706
+ 1850 16738.458 0 0 5269.5146 14.510705
+ 1900 16738.458 0 0 5269.5146 14.510706
+ 1950 16738.465 -0.0031733615 0 5269.5134 14.510659
+ 2000 16738.491 -0.013255268 0 5269.5117 14.510532
+ 2050 16738.556 -0.0365811 0 5269.5087 14.51029
+ 2100 16738.633 -0.063209659 0 5269.5065 14.510219
+ 2150 16738.607 -0.05601761 0 5269.5055 14.510231
+ 2200 16738.557 -0.038423032 0 5269.5072 14.510404
+ 2250 16738.515 -0.023709918 0 5269.5088 14.510539
+ 2300 16738.489 -0.013249035 0 5269.5111 14.510621
+ 2350 16738.468 -0.0045563719 0 5269.5131 14.510714
+ 2400 16738.46 -0.00052194273 0 5269.5146 14.510771
+ 2450 16738.464 -0.0023259756 0 5269.514 14.510746
+ 2500 16738.468 -0.0051929186 0 5269.5127 14.510731
+ 2550 16738.581 -0.044940117 0 5269.5085 14.510315
+ 2600 16738.427 -7.9722854e-05 0 5269.5046 14.510657
+ 2650 16733.017 1.705148 0 5269.5067 14.596295
+ 2700 16738.761 -0.10614946 0 5269.5038 14.499584
+ 2750 16733.973 1.4038179 0 5269.5064 14.598107
+ 2800 16738.585 -0.046813448 0 5269.5076 14.511073
+ 2850 16738.487 -0.012558719 0 5269.5111 14.510111
+ 2900 16738.465 -0.0026252725 0 5269.514 14.510277
+ 2950 16738.476 -0.0082220764 0 5269.512 14.510223
+ 3000 16738.66 -0.071284779 0 5269.507 14.509758
+ 3050 16715.332 7.2419351 0 5269.476 14.870305
+ 3100 16653.226 26.818761 0 5269.5009 14.496764
+ 3150 16739.351 -0.30690375 0 5269.4886 13.643904
+ 3200 16733.238 1.6025328 0 5269.4737 12.016934
+ 3250 16734.374 1.2554429 0 5269.4841 11.963561
+ 3300 16732.156 1.9585967 0 5269.4893 12.234024
+ 3350 16738.655 -0.079693236 0 5269.497 12.092757
+ 3400 16738.543 -0.042215005 0 5269.4991 12.092809
+ 3450 16738.591 -0.059327511 0 5269.4972 12.092536
+ 3500 16738.759 -0.11761245 0 5269.4918 12.09203
+ 3550 16713.405 7.846062 0 5269.4737 12.389816
+ 3600 16734.939 1.0821936 0 5269.4891 12.173591
+ 3650 16738.808 -0.13663194 0 5269.4882 12.027009
+ 3700 16738.602 -0.070934368 0 5269.4889 12.025288
+ 3750 16737.731 0.20706558 0 5269.4927 12.061948
+ 3800 16738.578 -0.05582043 0 5269.4965 12.035665
+ 3850 16738.471 -0.016307928 0 5269.5024 12.035302
+ 3900 16738.449 -0.0058182199 0 5269.5059 12.035401
+ 3950 16738.439 -0.0012027325 0 5269.5074 12.035461
+ 4000 16738.436 -0.00020698452 0 5269.5075 12.035469
+ 4050 16738.437 0 0 5269.5078 12.035454
+ 4100 16738.437 0 0 5269.508 12.035435
+ 4150 16738.438 0 0 5269.5081 12.035426
+ 4200 16738.438 0 0 5269.5083 12.035432
+ 4250 16738.439 0 0 5269.5085 12.035447
+ 4300 16738.439 0 0 5269.5086 12.035463
+ 4350 16738.44 0 0 5269.5087 12.035474
+ 4400 16738.44 0 0 5269.5088 12.035478
+ 4450 16738.44 0 0 5269.5089 12.035474
+ 4500 16738.44 0 0 5269.509 12.035462
+ 4550 16738.441 0 0 5269.5092 12.035449
+ 4600 16738.441 0 0 5269.5093 12.035445
+ 4650 16738.442 0 0 5269.5095 12.035451
+ 4700 16738.442 0 0 5269.5096 12.03546
+ 4750 16738.443 0 0 5269.5097 12.035465
+ 4800 16738.443 0 0 5269.5098 12.035466
+ 4850 16738.443 0 0 5269.51 12.035463
+ 4900 16738.444 0 0 5269.5101 12.035456
+ 4950 16738.444 0 0 5269.5102 12.035447
+ 5000 16738.445 0 0 5269.5104 12.03544
+ 5050 16738.445 0 0 5269.5105 12.035442
+ 5100 16738.446 0 0 5269.5107 12.035455
+ 5150 16738.446 0 0 5269.5108 12.03547
+ 5200 16738.446 0 0 5269.5109 12.035479
+ 5250 16738.447 0 0 5269.511 12.035479
+ 5300 16738.447 0 0 5269.5111 12.03547
+ 5350 16738.447 0 0 5269.5112 12.035454
+ 5400 16738.448 0 0 5269.5113 12.035434
+ 5450 16738.448 0 0 5269.5115 12.03542
+ 5500 16738.449 0 0 5269.5117 12.035422
+ 5550 16738.457 -0.0030919234 0 5269.5111 12.035383
+ 5600 16738.51 -0.021618357 0 5269.5092 12.035106
+ 5650 16738.622 -0.059214788 0 5269.507 12.035694
+ 5700 16395.28 108.06942 0 5269.5463 24.369038
+ 5750 16738.544 -0.033973429 0 5269.5077 12.011261
+ 5800 16738.456 -0.0037013529 0 5269.5102 12.011675
+ 5850 16738.451 0 0 5269.5123 12.011709
+ 5900 16738.451 -0.0002211587 0 5269.5122 12.011687
+ 5950 16738.452 -0.00024253349 0 5269.5124 12.011678
+ 6000 16738.452 0 0 5269.5128 12.011688
+ 6050 16738.453 0 0 5269.513 12.011702
+ 6100 16738.453 0 0 5269.5131 12.011716
+ 6150 16738.454 0 0 5269.5132 12.011725
+ 6200 16738.454 0 0 5269.5133 12.011728
+ 6250 16738.454 0 0 5269.5134 12.011723
+ 6300 16738.455 0 0 5269.5135 12.011712
+ 6350 16738.455 0 0 5269.5137 12.0117
+ 6400 16738.456 0 0 5269.5138 12.011697
+ 6450 16738.456 0 0 5269.514 12.011704
+ 6500 16738.456 0 0 5269.5141 12.011714
+ 6550 16738.457 0 0 5269.5142 12.011719
+ 6600 16738.457 0 0 5269.5143 12.011718
+ 6650 16738.458 0 0 5269.5144 12.011713
+ 6700 16738.458 0 0 5269.5146 12.011705
+ 6750 16738.459 0 0 5269.5147 12.011696
+ 6800 16738.459 0 0 5269.5149 12.01169
+ 6850 16738.46 0 0 5269.515 12.011695
+ 6900 16738.46 0 0 5269.5152 12.01171
+ 6950 16738.46 0 0 5269.5153 12.011726
+ 7000 16738.461 0 0 5269.5154 12.011736
+ 7050 16738.461 0 0 5269.5155 12.011737
+ 7100 16738.461 0 0 5269.5155 12.011728
+ 7150 16738.461 0 0 5269.5156 12.011712
+ 7200 16738.462 0 0 5269.5158 12.011691
+ 7250 16738.463 0 0 5269.516 12.011676
+ 7300 16738.463 0 0 5269.5162 12.011677
+ 7350 16738.464 0 0 5269.5164 12.011693
+ 7400 16738.464 0 0 5269.5165 12.011713
+ 7450 16738.465 0 0 5269.5166 12.011729
+ 7500 16738.465 0 0 5269.5167 12.011736
+ 7550 16738.465 0 0 5269.5168 12.011734
+ 7600 16738.465 0 0 5269.5168 12.011722
+ 7650 16738.466 0 0 5269.517 12.011704
+ 7700 16738.466 0 0 5269.5171 12.011687
+ 7750 16738.467 0 0 5269.5173 12.011681
+ 7800 16738.467 0 0 5269.5175 12.011687
+ 7850 16738.468 0 0 5269.5176 12.0117
+ 7900 16738.468 0 0 5269.5178 12.011712
+ 7950 16738.469 0 0 5269.5179 12.011721
+ 8000 16738.469 0 0 5269.518 12.011724
+ 8050 16738.469 0 0 5269.5181 12.01172
+ 8100 16738.47 0 0 5269.5182 12.011709
+ 8150 16738.47 0 0 5269.5183 12.0117
+ 8200 16738.47 0 0 5269.5185 12.0117
+ 8250 16738.471 0 0 5269.5186 12.011709
+ 8300 16738.471 0 0 5269.5187 12.011719
+ 8350 16738.472 0 0 5269.5189 12.011723
+ 8400 16738.472 0 0 5269.519 12.01172
+ 8450 16738.473 -0.00039690664 0 5269.5189 12.011706
+ 8500 16738.481 -0.0034646803 0 5269.5182 12.011643
+ 8550 16738.483 -0.0045307409 0 5269.5178 12.011621
+ 8600 16738.474 -0.00076532811 0 5269.5189 12.011681
+ 8650 16738.474 0 0 5269.5197 12.011699
+ 8700 16738.475 0 0 5269.5199 12.011715
+ 8750 16738.475 0 0 5269.52 12.011732
+ 8800 16738.475 0 0 5269.52 12.011743
+ 8850 16738.476 0 0 5269.5201 12.011744
+ 8900 16738.476 0 0 5269.5202 12.011735
+ 8950 16738.476 0 0 5269.5203 12.011719
+ 9000 16738.477 0 0 5269.5205 12.011698
+ 9050 16738.477 0 0 5269.5206 12.011683
+ 9100 16738.478 0 0 5269.5208 12.011684
+ 9150 16738.479 0 0 5269.521 12.011701
+ 9200 16738.479 0 0 5269.5212 12.011722
+ 9250 16738.479 0 0 5269.5213 12.011738
+ 9300 16738.48 0 0 5269.5214 12.011746
+ 9350 16738.48 0 0 5269.5214 12.011744
+ 9400 16738.48 0 0 5269.5215 12.011732
+ 9450 16738.48 0 0 5269.5216 12.011715
+ 9500 16738.481 -0.00037652437 0 5269.5216 12.011692
+ 9550 16738.493 -0.0053156159 0 5269.5203 12.011611
+ 9600 16738.549 -0.026814369 0 5269.5163 12.011415
+ 9650 16738.765 -0.10191523 0 5269.5092 12.011013
+ 9700 16735.041 1.0589887 0 5269.4979 12.062708
+ 9750 16738.013 0.135501 0 5269.5101 11.407245
+ 9800 16738.512 -0.011620329 0 5269.5201 11.394973
+ 9850 16738.489 -0.00067270548 0 5269.5237 11.395098
+ 9900 16738.489 -0.00024984569 0 5269.5242 11.395084
+ 9950 16738.49 0 0 5269.5245 11.395076
+ 10000 16738.49 0 0 5269.5246 11.395075
+Loop time of 0.202573 on 4 procs for 10000 steps with 81 atoms
+
+Performance: 426512.281 tau/day, 49364.847 timesteps/s
+97.1% CPU use with 4 MPI tasks x 1 OpenMP threads
+
+MPI task timing breakdown:
+Section | min time | avg time | max time |%varavg| %total
+---------------------------------------------------------------
+Pair | 0.0024269 | 0.0037646 | 0.0050037 | 1.5 | 1.86
+Neigh | 0.011164 | 0.012023 | 0.014231 | 1.2 | 5.94
+Comm | 0.08759 | 0.090238 | 0.091749 | 0.5 | 44.55
+Output | 0.004354 | 0.0046349 | 0.0054095 | 0.7 | 2.29
+Modify | 0.080237 | 0.081892 | 0.083034 | 0.4 | 40.43
+Other | | 0.01002 | | | 4.95
+
+Nlocal: 20.25 ave 38 max 3 min
+Histogram: 1 0 1 0 0 0 1 0 0 1
+Nghost: 27.25 ave 48 max 13 min
+Histogram: 1 0 1 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
+
+Total # of neighbors = 0
+Ave neighs/atom = 0
+Neighbor list builds = 998
+Dangerous builds = 997
+Total wall time: 0:00:00
diff --git a/examples/rigid/log.20Apr18.rigid.atomvar.g++.1 b/examples/rigid/log.20Apr18.rigid.atomvar.g++.1
new file mode 100644
index 0000000000..8fb76ec660
--- /dev/null
+++ b/examples/rigid/log.20Apr18.rigid.atomvar.g++.1
@@ -0,0 +1,338 @@
+LAMMPS (20 Apr 2018)
+ using 1 OpenMP thread(s) per MPI task
+# Simple rigid body system
+
+units lj
+atom_style atomic
+atom_modify map array
+
+pair_style lj/cut 2.5
+
+read_data data.rigid
+ orthogonal box = (-12 -12 -12) to (12 12 12)
+ 1 by 1 by 1 MPI processor grid
+ reading atoms ...
+ 81 atoms
+
+velocity all create 100.0 4928459
+
+
+# unconnected bodies
+
+group clump1 id <> 1 9
+9 atoms in group clump1
+group clump2 id <> 10 18
+9 atoms in group clump2
+group clump3 id <> 19 27
+9 atoms in group clump3
+group clump4 id <> 28 36
+9 atoms in group clump4
+group clump5 id <> 37 45
+9 atoms in group clump5
+group clump6 id <> 46 54
+9 atoms in group clump6
+group clump7 id <> 55 63
+9 atoms in group clump7
+group clump8 id <> 64 72
+9 atoms in group clump8
+group clump9 id <> 73 81
+9 atoms in group clump9
+
+variable bodies atom 1.0*gmask(clump1)+2.0*gmask(clump2)+3.0*gmask(clump3)+4.0*gmask(clump4)+5.0*gmask(clump5)+6.0*gmask(clump6)+7.0*gmask(clump7)+8.0*gmask(clump8)+9.0*gmask(clump9)
+fix 1 all rigid custom v_bodies
+9 rigid bodies with 81 atoms
+
+# 1 chain of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 36 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4 clump5 # clump6 clump7 clump8 clump9
+
+# 2 chains of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 37 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4
+#fix 2 all poems group clump5 clump6 clump7 clump8 clump9
+
+neigh_modify exclude group clump1 clump1
+neigh_modify exclude group clump2 clump2
+neigh_modify exclude group clump3 clump3
+neigh_modify exclude group clump4 clump4
+neigh_modify exclude group clump5 clump5
+neigh_modify exclude group clump6 clump6
+neigh_modify exclude group clump7 clump7
+neigh_modify exclude group clump8 clump8
+neigh_modify exclude group clump9 clump9
+
+thermo 100
+
+#dump 1 all atom 50 dump.rigid
+
+#dump 2 all image 100 image.*.jpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 2 pad 5
+
+#dump 3 all movie 100 movie.mpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 3 pad 5
+
+timestep 0.0001
+thermo 50
+run 10000
+Neighbor list info ...
+ update every 1 steps, delay 10 steps, check yes
+ max neighbors/atom: 2000, page size: 100000
+ master list distance cutoff = 2.8
+ ghost atom cutoff = 2.8
+ binsize = 1.4, bins = 18 18 18
+ 1 neighbor lists, perpetual/occasional/extra = 1 0 0
+ (1) pair lj/cut, perpetual
+ attributes: half, newton on
+ pair build: half/bin/atomonly/newton
+ stencil: half/bin/3d/newton
+ bin: standard
+Per MPI rank memory allocation (min/avg/max) = 3.984 | 3.984 | 3.984 Mbytes
+Step Temp E_pair E_mol TotEng Press
+ 0 115.29439 5235.9179 0 5272.2142 -2.7403788
+ 50 14910.685 571.71558 0 5265.82 32.006171
+ 100 16298.442 136.66184 0 5267.653 16.444229
+ 150 16682.606 17.490511 0 5269.4219 14.900344
+ 200 16733.929 1.372872 0 5269.4617 14.569267
+ 250 16738.853 -0.15252816 0 5269.4864 14.496404
+ 300 16738.588 -0.055171335 0 5269.5002 14.496025
+ 350 16738.492 -0.017444677 0 5269.5077 14.496446
+ 400 16738.464 -0.0060102023 0 5269.5104 14.496618
+ 450 16738.455 -0.0012713351 0 5269.5124 14.496701
+ 500 16738.455 -0.00081068621 0 5269.5128 14.496709
+ 550 16738.455 -0.00083203497 0 5269.5129 14.496707
+ 600 16738.455 -0.00058355356 0 5269.5131 14.496709
+ 650 16738.455 -0.00047226704 0 5269.5131 14.496708
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+ 9900 16738.489 -0.00024984561 0 5269.5242 11.395085
+ 9950 16738.49 0 0 5269.5245 11.395076
+ 10000 16738.49 0 0 5269.5246 11.395075
+Loop time of 0.139487 on 1 procs for 10000 steps with 81 atoms
+
+Performance: 619413.496 tau/day, 71691.377 timesteps/s
+98.8% CPU use with 1 MPI tasks x 1 OpenMP threads
+
+MPI task timing breakdown:
+Section | min time | avg time | max time |%varavg| %total
+---------------------------------------------------------------
+Pair | 0.010553 | 0.010553 | 0.010553 | 0.0 | 7.57
+Neigh | 0.036803 | 0.036803 | 0.036803 | 0.0 | 26.38
+Comm | 0.0091739 | 0.0091739 | 0.0091739 | 0.0 | 6.58
+Output | 0.0023518 | 0.0023518 | 0.0023518 | 0.0 | 1.69
+Modify | 0.074784 | 0.074784 | 0.074784 | 0.0 | 53.61
+Other | | 0.005822 | | | 4.17
+
+Nlocal: 81 ave 81 max 81 min
+Histogram: 1 0 0 0 0 0 0 0 0 0
+Nghost: 84 ave 84 max 84 min
+Histogram: 1 0 0 0 0 0 0 0 0 0
+Neighs: 0 ave 0 max 0 min
+Histogram: 1 0 0 0 0 0 0 0 0 0
+
+Total # of neighbors = 0
+Ave neighs/atom = 0
+Neighbor list builds = 998
+Dangerous builds = 997
+Total wall time: 0:00:00
diff --git a/examples/rigid/log.20Apr18.rigid.atomvar.g++.4 b/examples/rigid/log.20Apr18.rigid.atomvar.g++.4
new file mode 100644
index 0000000000..716bd8aedc
--- /dev/null
+++ b/examples/rigid/log.20Apr18.rigid.atomvar.g++.4
@@ -0,0 +1,338 @@
+LAMMPS (20 Apr 2018)
+ using 1 OpenMP thread(s) per MPI task
+# Simple rigid body system
+
+units lj
+atom_style atomic
+atom_modify map array
+
+pair_style lj/cut 2.5
+
+read_data data.rigid
+ orthogonal box = (-12 -12 -12) to (12 12 12)
+ 1 by 2 by 2 MPI processor grid
+ reading atoms ...
+ 81 atoms
+
+velocity all create 100.0 4928459
+
+
+# unconnected bodies
+
+group clump1 id <> 1 9
+9 atoms in group clump1
+group clump2 id <> 10 18
+9 atoms in group clump2
+group clump3 id <> 19 27
+9 atoms in group clump3
+group clump4 id <> 28 36
+9 atoms in group clump4
+group clump5 id <> 37 45
+9 atoms in group clump5
+group clump6 id <> 46 54
+9 atoms in group clump6
+group clump7 id <> 55 63
+9 atoms in group clump7
+group clump8 id <> 64 72
+9 atoms in group clump8
+group clump9 id <> 73 81
+9 atoms in group clump9
+
+variable bodies atom 1.0*gmask(clump1)+2.0*gmask(clump2)+3.0*gmask(clump3)+4.0*gmask(clump4)+5.0*gmask(clump5)+6.0*gmask(clump6)+7.0*gmask(clump7)+8.0*gmask(clump8)+9.0*gmask(clump9)
+fix 1 all rigid custom v_bodies
+9 rigid bodies with 81 atoms
+
+# 1 chain of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 36 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4 clump5 # clump6 clump7 clump8 clump9
+
+# 2 chains of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 37 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4
+#fix 2 all poems group clump5 clump6 clump7 clump8 clump9
+
+neigh_modify exclude group clump1 clump1
+neigh_modify exclude group clump2 clump2
+neigh_modify exclude group clump3 clump3
+neigh_modify exclude group clump4 clump4
+neigh_modify exclude group clump5 clump5
+neigh_modify exclude group clump6 clump6
+neigh_modify exclude group clump7 clump7
+neigh_modify exclude group clump8 clump8
+neigh_modify exclude group clump9 clump9
+
+thermo 100
+
+#dump 1 all atom 50 dump.rigid
+
+#dump 2 all image 100 image.*.jpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 2 pad 5
+
+#dump 3 all movie 100 movie.mpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 3 pad 5
+
+timestep 0.0001
+thermo 50
+run 10000
+Neighbor list info ...
+ update every 1 steps, delay 10 steps, check yes
+ max neighbors/atom: 2000, page size: 100000
+ master list distance cutoff = 2.8
+ ghost atom cutoff = 2.8
+ binsize = 1.4, bins = 18 18 18
+ 1 neighbor lists, perpetual/occasional/extra = 1 0 0
+ (1) pair lj/cut, perpetual
+ attributes: half, newton on
+ pair build: half/bin/atomonly/newton
+ stencil: half/bin/3d/newton
+ bin: standard
+Per MPI rank memory allocation (min/avg/max) = 3.955 | 4.049 | 4.33 Mbytes
+Step Temp E_pair E_mol TotEng Press
+ 0 115.29439 5235.9179 0 5272.2142 -2.7403788
+ 50 14910.685 571.71558 0 5265.82 32.006171
+ 100 16298.442 136.66184 0 5267.653 16.444229
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+ 4450 16738.44 0 0 5269.5089 12.035474
+ 4500 16738.44 0 0 5269.509 12.035462
+ 4550 16738.441 0 0 5269.5092 12.035449
+ 4600 16738.441 0 0 5269.5093 12.035445
+ 4650 16738.442 0 0 5269.5095 12.035451
+ 4700 16738.442 0 0 5269.5096 12.03546
+ 4750 16738.443 0 0 5269.5097 12.035465
+ 4800 16738.443 0 0 5269.5098 12.035466
+ 4850 16738.443 0 0 5269.51 12.035463
+ 4900 16738.444 0 0 5269.5101 12.035456
+ 4950 16738.444 0 0 5269.5102 12.035447
+ 5000 16738.445 0 0 5269.5104 12.03544
+ 5050 16738.445 0 0 5269.5105 12.035442
+ 5100 16738.446 0 0 5269.5107 12.035455
+ 5150 16738.446 0 0 5269.5108 12.03547
+ 5200 16738.446 0 0 5269.5109 12.035479
+ 5250 16738.447 0 0 5269.511 12.035479
+ 5300 16738.447 0 0 5269.5111 12.03547
+ 5350 16738.447 0 0 5269.5112 12.035454
+ 5400 16738.448 0 0 5269.5113 12.035434
+ 5450 16738.448 0 0 5269.5115 12.03542
+ 5500 16738.449 0 0 5269.5117 12.035422
+ 5550 16738.457 -0.0030919234 0 5269.5111 12.035383
+ 5600 16738.51 -0.021618357 0 5269.5092 12.035106
+ 5650 16738.622 -0.059214788 0 5269.507 12.035694
+ 5700 16395.28 108.06942 0 5269.5463 24.369038
+ 5750 16738.544 -0.033973429 0 5269.5077 12.011261
+ 5800 16738.456 -0.0037013529 0 5269.5102 12.011675
+ 5850 16738.451 0 0 5269.5123 12.011709
+ 5900 16738.451 -0.0002211587 0 5269.5122 12.011687
+ 5950 16738.452 -0.00024253349 0 5269.5124 12.011678
+ 6000 16738.452 0 0 5269.5128 12.011688
+ 6050 16738.453 0 0 5269.513 12.011702
+ 6100 16738.453 0 0 5269.5131 12.011716
+ 6150 16738.454 0 0 5269.5132 12.011725
+ 6200 16738.454 0 0 5269.5133 12.011728
+ 6250 16738.454 0 0 5269.5134 12.011723
+ 6300 16738.455 0 0 5269.5135 12.011712
+ 6350 16738.455 0 0 5269.5137 12.0117
+ 6400 16738.456 0 0 5269.5138 12.011697
+ 6450 16738.456 0 0 5269.514 12.011704
+ 6500 16738.456 0 0 5269.5141 12.011714
+ 6550 16738.457 0 0 5269.5142 12.011719
+ 6600 16738.457 0 0 5269.5143 12.011718
+ 6650 16738.458 0 0 5269.5144 12.011713
+ 6700 16738.458 0 0 5269.5146 12.011705
+ 6750 16738.459 0 0 5269.5147 12.011696
+ 6800 16738.459 0 0 5269.5149 12.01169
+ 6850 16738.46 0 0 5269.515 12.011695
+ 6900 16738.46 0 0 5269.5152 12.01171
+ 6950 16738.46 0 0 5269.5153 12.011726
+ 7000 16738.461 0 0 5269.5154 12.011736
+ 7050 16738.461 0 0 5269.5155 12.011737
+ 7100 16738.461 0 0 5269.5155 12.011728
+ 7150 16738.461 0 0 5269.5156 12.011712
+ 7200 16738.462 0 0 5269.5158 12.011691
+ 7250 16738.463 0 0 5269.516 12.011676
+ 7300 16738.463 0 0 5269.5162 12.011677
+ 7350 16738.464 0 0 5269.5164 12.011693
+ 7400 16738.464 0 0 5269.5165 12.011713
+ 7450 16738.465 0 0 5269.5166 12.011729
+ 7500 16738.465 0 0 5269.5167 12.011736
+ 7550 16738.465 0 0 5269.5168 12.011734
+ 7600 16738.465 0 0 5269.5168 12.011722
+ 7650 16738.466 0 0 5269.517 12.011704
+ 7700 16738.466 0 0 5269.5171 12.011687
+ 7750 16738.467 0 0 5269.5173 12.011681
+ 7800 16738.467 0 0 5269.5175 12.011687
+ 7850 16738.468 0 0 5269.5176 12.0117
+ 7900 16738.468 0 0 5269.5178 12.011712
+ 7950 16738.469 0 0 5269.5179 12.011721
+ 8000 16738.469 0 0 5269.518 12.011724
+ 8050 16738.469 0 0 5269.5181 12.01172
+ 8100 16738.47 0 0 5269.5182 12.011709
+ 8150 16738.47 0 0 5269.5183 12.0117
+ 8200 16738.47 0 0 5269.5185 12.0117
+ 8250 16738.471 0 0 5269.5186 12.011709
+ 8300 16738.471 0 0 5269.5187 12.011719
+ 8350 16738.472 0 0 5269.5189 12.011723
+ 8400 16738.472 0 0 5269.519 12.01172
+ 8450 16738.473 -0.00039690664 0 5269.5189 12.011706
+ 8500 16738.481 -0.0034646803 0 5269.5182 12.011643
+ 8550 16738.483 -0.0045307409 0 5269.5178 12.011621
+ 8600 16738.474 -0.00076532811 0 5269.5189 12.011681
+ 8650 16738.474 0 0 5269.5197 12.011699
+ 8700 16738.475 0 0 5269.5199 12.011715
+ 8750 16738.475 0 0 5269.52 12.011732
+ 8800 16738.475 0 0 5269.52 12.011743
+ 8850 16738.476 0 0 5269.5201 12.011744
+ 8900 16738.476 0 0 5269.5202 12.011735
+ 8950 16738.476 0 0 5269.5203 12.011719
+ 9000 16738.477 0 0 5269.5205 12.011698
+ 9050 16738.477 0 0 5269.5206 12.011683
+ 9100 16738.478 0 0 5269.5208 12.011684
+ 9150 16738.479 0 0 5269.521 12.011701
+ 9200 16738.479 0 0 5269.5212 12.011722
+ 9250 16738.479 0 0 5269.5213 12.011738
+ 9300 16738.48 0 0 5269.5214 12.011746
+ 9350 16738.48 0 0 5269.5214 12.011744
+ 9400 16738.48 0 0 5269.5215 12.011732
+ 9450 16738.48 0 0 5269.5216 12.011715
+ 9500 16738.481 -0.00037652437 0 5269.5216 12.011692
+ 9550 16738.493 -0.0053156159 0 5269.5203 12.011611
+ 9600 16738.549 -0.026814369 0 5269.5163 12.011415
+ 9650 16738.765 -0.10191523 0 5269.5092 12.011013
+ 9700 16735.041 1.0589887 0 5269.4979 12.062708
+ 9750 16738.013 0.135501 0 5269.5101 11.407245
+ 9800 16738.512 -0.011620329 0 5269.5201 11.394973
+ 9850 16738.489 -0.00067270548 0 5269.5237 11.395098
+ 9900 16738.489 -0.00024984569 0 5269.5242 11.395084
+ 9950 16738.49 0 0 5269.5245 11.395076
+ 10000 16738.49 0 0 5269.5246 11.395075
+Loop time of 0.21818 on 4 procs for 10000 steps with 81 atoms
+
+Performance: 396003.948 tau/day, 45833.790 timesteps/s
+96.5% CPU use with 4 MPI tasks x 1 OpenMP threads
+
+MPI task timing breakdown:
+Section | min time | avg time | max time |%varavg| %total
+---------------------------------------------------------------
+Pair | 0.0023963 | 0.0039355 | 0.0049276 | 1.5 | 1.80
+Neigh | 0.011369 | 0.011972 | 0.012855 | 0.5 | 5.49
+Comm | 0.097981 | 0.10044 | 0.10334 | 0.6 | 46.04
+Output | 0.0046875 | 0.004998 | 0.0058138 | 0.7 | 2.29
+Modify | 0.084133 | 0.08661 | 0.089015 | 0.6 | 39.70
+Other | | 0.01022 | | | 4.69
+
+Nlocal: 20.25 ave 38 max 3 min
+Histogram: 1 0 1 0 0 0 1 0 0 1
+Nghost: 27.25 ave 48 max 13 min
+Histogram: 1 0 1 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
+
+Total # of neighbors = 0
+Ave neighs/atom = 0
+Neighbor list builds = 998
+Dangerous builds = 997
+Total wall time: 0:00:00
diff --git a/examples/rigid/log.5Oct16.rigid.g++.4 b/examples/rigid/log.20Apr18.rigid.g++.1
similarity index 91%
rename from examples/rigid/log.5Oct16.rigid.g++.4
rename to examples/rigid/log.20Apr18.rigid.g++.1
index 968f3a2d99..3612810119 100644
--- a/examples/rigid/log.5Oct16.rigid.g++.4
+++ b/examples/rigid/log.20Apr18.rigid.g++.1
@@ -1,4 +1,5 @@
-LAMMPS (5 Oct 2016)
+LAMMPS (20 Apr 2018)
+ using 1 OpenMP thread(s) per MPI task
# Simple rigid body system
units lj
@@ -8,7 +9,7 @@ pair_style lj/cut 2.5
read_data data.rigid
orthogonal box = (-12 -12 -12) to (12 12 12)
- 1 by 2 by 2 MPI processor grid
+ 1 by 1 by 1 MPI processor grid
reading atoms ...
81 atoms
@@ -91,13 +92,18 @@ timestep 0.0001
thermo 50
run 10000
Neighbor list info ...
- 1 neighbor list requests
update every 1 steps, delay 10 steps, check yes
max neighbors/atom: 2000, page size: 100000
master list distance cutoff = 2.8
ghost atom cutoff = 2.8
- binsize = 1.4 -> bins = 18 18 18
-Memory usage per processor = 3.62803 Mbytes
+ binsize = 1.4, bins = 18 18 18
+ 1 neighbor lists, perpetual/occasional/extra = 1 0 0
+ (1) pair lj/cut, perpetual
+ attributes: half, newton on
+ pair build: half/bin/atomonly/newton
+ stencil: half/bin/3d/newton
+ bin: standard
+Per MPI rank memory allocation (min/avg/max) = 3.979 | 3.979 | 3.979 Mbytes
Step Temp E_pair E_mol TotEng Press
0 115.29439 5235.9179 0 5272.2142 -2.7403788
50 14910.685 571.71558 0 5265.82 32.006171
@@ -151,7 +157,7 @@ Step Temp E_pair E_mol TotEng Press
2450 16738.464 -0.0023259756 0 5269.514 14.510746
2500 16738.468 -0.0051929186 0 5269.5127 14.510731
2550 16738.581 -0.044940117 0 5269.5085 14.510315
- 2600 16738.427 -7.9722832e-05 0 5269.5046 14.510657
+ 2600 16738.427 -7.9722839e-05 0 5269.5046 14.510657
2650 16733.017 1.705148 0 5269.5067 14.596295
2700 16738.761 -0.10614946 0 5269.5038 14.499584
2750 16733.973 1.4038179 0 5269.5064 14.598107
@@ -173,7 +179,7 @@ Step Temp E_pair E_mol TotEng Press
3550 16713.405 7.846062 0 5269.4737 12.389816
3600 16734.939 1.0821936 0 5269.4891 12.173591
3650 16738.808 -0.13663194 0 5269.4882 12.027009
- 3700 16738.602 -0.070934368 0 5269.4889 12.025288
+ 3700 16738.602 -0.070934367 0 5269.4889 12.025288
3750 16737.731 0.20706557 0 5269.4927 12.061948
3800 16738.578 -0.05582043 0 5269.4965 12.035665
3850 16738.471 -0.016307928 0 5269.5024 12.035302
@@ -269,7 +275,7 @@ Step Temp E_pair E_mol TotEng Press
8350 16738.472 0 0 5269.5189 12.011723
8400 16738.472 0 0 5269.519 12.01172
8450 16738.473 -0.00039690663 0 5269.5189 12.011706
- 8500 16738.481 -0.0034646803 0 5269.5182 12.011643
+ 8500 16738.481 -0.0034646802 0 5269.5182 12.011643
8550 16738.483 -0.0045307409 0 5269.5178 12.011621
8600 16738.474 -0.00076532813 0 5269.5189 12.011681
8650 16738.474 0 0 5269.5197 12.011699
@@ -290,37 +296,37 @@ Step Temp E_pair E_mol TotEng Press
9400 16738.48 0 0 5269.5215 12.011732
9450 16738.48 0 0 5269.5216 12.011715
9500 16738.481 -0.00037652438 0 5269.5216 12.011692
- 9550 16738.493 -0.0053156163 0 5269.5203 12.011611
+ 9550 16738.493 -0.0053156162 0 5269.5203 12.011611
9600 16738.549 -0.026814371 0 5269.5163 12.011415
9650 16738.765 -0.10191523 0 5269.5092 12.011013
- 9700 16735.041 1.0589894 0 5269.4979 12.062708
- 9750 16738.013 0.13550109 0 5269.5101 11.407246
- 9800 16738.512 -0.011620327 0 5269.5201 11.394974
- 9850 16738.489 -0.00067270507 0 5269.5237 11.395098
- 9900 16738.489 -0.00024984555 0 5269.5242 11.395085
+ 9700 16735.041 1.0589893 0 5269.4979 12.062708
+ 9750 16738.013 0.13550102 0 5269.5101 11.407246
+ 9800 16738.512 -0.011620328 0 5269.5201 11.394974
+ 9850 16738.489 -0.00067270521 0 5269.5237 11.395098
+ 9900 16738.489 -0.00024984561 0 5269.5242 11.395085
9950 16738.49 0 0 5269.5245 11.395076
10000 16738.49 0 0 5269.5246 11.395075
-Loop time of 0.169479 on 4 procs for 10000 steps with 81 atoms
+Loop time of 0.139615 on 1 procs for 10000 steps with 81 atoms
-Performance: 509796.561 tau/day, 59004.232 timesteps/s
-98.1% CPU use with 4 MPI tasks x no OpenMP threads
+Performance: 618845.476 tau/day, 71625.634 timesteps/s
+98.8% CPU use with 1 MPI tasks x 1 OpenMP threads
MPI task timing breakdown:
Section | min time | avg time | max time |%varavg| %total
---------------------------------------------------------------
-Pair | 0.0024633 | 0.0031875 | 0.0039403 | 0.9 | 1.88
-Neigh | 0.010975 | 0.011817 | 0.013459 | 0.9 | 6.97
-Comm | 0.072126 | 0.074024 | 0.076456 | 0.7 | 43.68
-Output | 0.0034711 | 0.0036327 | 0.0040615 | 0.4 | 2.14
-Modify | 0.069286 | 0.070574 | 0.073233 | 0.6 | 41.64
-Other | | 0.006244 | | | 3.68
+Pair | 0.010352 | 0.010352 | 0.010352 | 0.0 | 7.41
+Neigh | 0.036875 | 0.036875 | 0.036875 | 0.0 | 26.41
+Comm | 0.008925 | 0.008925 | 0.008925 | 0.0 | 6.39
+Output | 0.0024204 | 0.0024204 | 0.0024204 | 0.0 | 1.73
+Modify | 0.075421 | 0.075421 | 0.075421 | 0.0 | 54.02
+Other | | 0.005621 | | | 4.03
-Nlocal: 20.25 ave 38 max 3 min
-Histogram: 1 0 1 0 0 0 1 0 0 1
-Nghost: 27.25 ave 48 max 13 min
-Histogram: 1 0 1 1 0 0 0 0 0 1
+Nlocal: 81 ave 81 max 81 min
+Histogram: 1 0 0 0 0 0 0 0 0 0
+Nghost: 84 ave 84 max 84 min
+Histogram: 1 0 0 0 0 0 0 0 0 0
Neighs: 0 ave 0 max 0 min
-Histogram: 4 0 0 0 0 0 0 0 0 0
+Histogram: 1 0 0 0 0 0 0 0 0 0
Total # of neighbors = 0
Ave neighs/atom = 0
diff --git a/examples/rigid/log.5Oct16.rigid.g++.1 b/examples/rigid/log.20Apr18.rigid.g++.4
similarity index 89%
rename from examples/rigid/log.5Oct16.rigid.g++.1
rename to examples/rigid/log.20Apr18.rigid.g++.4
index 9b84f89c95..bf213d17f1 100644
--- a/examples/rigid/log.5Oct16.rigid.g++.1
+++ b/examples/rigid/log.20Apr18.rigid.g++.4
@@ -1,4 +1,5 @@
-LAMMPS (5 Oct 2016)
+LAMMPS (20 Apr 2018)
+ using 1 OpenMP thread(s) per MPI task
# Simple rigid body system
units lj
@@ -8,7 +9,7 @@ pair_style lj/cut 2.5
read_data data.rigid
orthogonal box = (-12 -12 -12) to (12 12 12)
- 1 by 1 by 1 MPI processor grid
+ 1 by 2 by 2 MPI processor grid
reading atoms ...
81 atoms
@@ -91,13 +92,18 @@ timestep 0.0001
thermo 50
run 10000
Neighbor list info ...
- 1 neighbor list requests
update every 1 steps, delay 10 steps, check yes
max neighbors/atom: 2000, page size: 100000
master list distance cutoff = 2.8
ghost atom cutoff = 2.8
- binsize = 1.4 -> bins = 18 18 18
-Memory usage per processor = 3.65531 Mbytes
+ binsize = 1.4, bins = 18 18 18
+ 1 neighbor lists, perpetual/occasional/extra = 1 0 0
+ (1) pair lj/cut, perpetual
+ attributes: half, newton on
+ pair build: half/bin/atomonly/newton
+ stencil: half/bin/3d/newton
+ bin: standard
+Per MPI rank memory allocation (min/avg/max) = 3.95 | 4.044 | 4.326 Mbytes
Step Temp E_pair E_mol TotEng Press
0 115.29439 5235.9179 0 5272.2142 -2.7403788
50 14910.685 571.71558 0 5265.82 32.006171
@@ -151,8 +157,8 @@ Step Temp E_pair E_mol TotEng Press
2450 16738.464 -0.0023259756 0 5269.514 14.510746
2500 16738.468 -0.0051929186 0 5269.5127 14.510731
2550 16738.581 -0.044940117 0 5269.5085 14.510315
- 2600 16738.427 -7.972284e-05 0 5269.5046 14.510657
- 2650 16733.017 1.7051479 0 5269.5067 14.596295
+ 2600 16738.427 -7.9722854e-05 0 5269.5046 14.510657
+ 2650 16733.017 1.705148 0 5269.5067 14.596295
2700 16738.761 -0.10614946 0 5269.5038 14.499584
2750 16733.973 1.4038179 0 5269.5064 14.598107
2800 16738.585 -0.046813448 0 5269.5076 14.511073
@@ -160,7 +166,7 @@ Step Temp E_pair E_mol TotEng Press
2900 16738.465 -0.0026252725 0 5269.514 14.510277
2950 16738.476 -0.0082220764 0 5269.512 14.510223
3000 16738.66 -0.071284779 0 5269.507 14.509758
- 3050 16715.332 7.2419352 0 5269.476 14.870305
+ 3050 16715.332 7.2419351 0 5269.476 14.870305
3100 16653.226 26.818761 0 5269.5009 14.496764
3150 16739.351 -0.30690375 0 5269.4886 13.643904
3200 16733.238 1.6025328 0 5269.4737 12.016934
@@ -170,7 +176,7 @@ Step Temp E_pair E_mol TotEng Press
3400 16738.543 -0.042215005 0 5269.4991 12.092809
3450 16738.591 -0.059327511 0 5269.4972 12.092536
3500 16738.759 -0.11761245 0 5269.4918 12.09203
- 3550 16713.405 7.8460621 0 5269.4737 12.389816
+ 3550 16713.405 7.846062 0 5269.4737 12.389816
3600 16734.939 1.0821936 0 5269.4891 12.173591
3650 16738.808 -0.13663194 0 5269.4882 12.027009
3700 16738.602 -0.070934368 0 5269.4889 12.025288
@@ -268,8 +274,8 @@ Step Temp E_pair E_mol TotEng Press
8300 16738.471 0 0 5269.5187 12.011719
8350 16738.472 0 0 5269.5189 12.011723
8400 16738.472 0 0 5269.519 12.01172
- 8450 16738.473 -0.00039690666 0 5269.5189 12.011706
- 8500 16738.481 -0.0034646804 0 5269.5182 12.011643
+ 8450 16738.473 -0.00039690664 0 5269.5189 12.011706
+ 8500 16738.481 -0.0034646803 0 5269.5182 12.011643
8550 16738.483 -0.0045307409 0 5269.5178 12.011621
8600 16738.474 -0.00076532811 0 5269.5189 12.011681
8650 16738.474 0 0 5269.5197 12.011699
@@ -289,38 +295,38 @@ Step Temp E_pair E_mol TotEng Press
9350 16738.48 0 0 5269.5214 12.011744
9400 16738.48 0 0 5269.5215 12.011732
9450 16738.48 0 0 5269.5216 12.011715
- 9500 16738.481 -0.00037652434 0 5269.5216 12.011692
- 9550 16738.493 -0.005315616 0 5269.5203 12.011611
- 9600 16738.549 -0.026814368 0 5269.5163 12.011415
+ 9500 16738.481 -0.00037652437 0 5269.5216 12.011692
+ 9550 16738.493 -0.0053156159 0 5269.5203 12.011611
+ 9600 16738.549 -0.026814369 0 5269.5163 12.011415
9650 16738.765 -0.10191523 0 5269.5092 12.011013
- 9700 16735.041 1.0589885 0 5269.4979 12.062708
- 9750 16738.013 0.13550123 0 5269.5101 11.407245
- 9800 16738.512 -0.011620328 0 5269.5201 11.394974
- 9850 16738.489 -0.00067270523 0 5269.5237 11.395098
- 9900 16738.489 -0.00024984554 0 5269.5242 11.395085
+ 9700 16735.041 1.0589887 0 5269.4979 12.062708
+ 9750 16738.013 0.135501 0 5269.5101 11.407245
+ 9800 16738.512 -0.011620329 0 5269.5201 11.394973
+ 9850 16738.489 -0.00067270548 0 5269.5237 11.395098
+ 9900 16738.489 -0.00024984569 0 5269.5242 11.395084
9950 16738.49 0 0 5269.5245 11.395076
10000 16738.49 0 0 5269.5246 11.395075
-Loop time of 0.125672 on 1 procs for 10000 steps with 81 atoms
+Loop time of 0.2002 on 4 procs for 10000 steps with 81 atoms
-Performance: 687503.421 tau/day, 79572.155 timesteps/s
-100.2% CPU use with 1 MPI tasks x no OpenMP threads
+Performance: 431567.743 tau/day, 49949.970 timesteps/s
+97.1% CPU use with 4 MPI tasks x 1 OpenMP threads
MPI task timing breakdown:
Section | min time | avg time | max time |%varavg| %total
---------------------------------------------------------------
-Pair | 0.0097554 | 0.0097554 | 0.0097554 | 0.0 | 7.76
-Neigh | 0.038657 | 0.038657 | 0.038657 | 0.0 | 30.76
-Comm | 0.0074 | 0.0074 | 0.0074 | 0.0 | 5.89
-Output | 0.0010791 | 0.0010791 | 0.0010791 | 0.0 | 0.86
-Modify | 0.064604 | 0.064604 | 0.064604 | 0.0 | 51.41
-Other | | 0.004176 | | | 3.32
+Pair | 0.0024362 | 0.0033384 | 0.003999 | 1.0 | 1.67
+Neigh | 0.010847 | 0.011388 | 0.012662 | 0.7 | 5.69
+Comm | 0.0868 | 0.089339 | 0.090493 | 0.5 | 44.62
+Output | 0.0047204 | 0.0049811 | 0.0056612 | 0.6 | 2.49
+Modify | 0.078237 | 0.082033 | 0.085066 | 0.9 | 40.98
+Other | | 0.009121 | | | 4.56
-Nlocal: 81 ave 81 max 81 min
-Histogram: 1 0 0 0 0 0 0 0 0 0
-Nghost: 84 ave 84 max 84 min
-Histogram: 1 0 0 0 0 0 0 0 0 0
+Nlocal: 20.25 ave 38 max 3 min
+Histogram: 1 0 1 0 0 0 1 0 0 1
+Nghost: 27.25 ave 48 max 13 min
+Histogram: 1 0 1 1 0 0 0 0 0 1
Neighs: 0 ave 0 max 0 min
-Histogram: 1 0 0 0 0 0 0 0 0 0
+Histogram: 4 0 0 0 0 0 0 0 0 0
Total # of neighbors = 0
Ave neighs/atom = 0
diff --git a/examples/rigid/log.20Apr18.rigid.nve.g++.1 b/examples/rigid/log.20Apr18.rigid.nve.g++.1
new file mode 100644
index 0000000000..43795d7824
--- /dev/null
+++ b/examples/rigid/log.20Apr18.rigid.nve.g++.1
@@ -0,0 +1,335 @@
+LAMMPS (20 Apr 2018)
+ using 1 OpenMP thread(s) per MPI task
+# Simple rigid body system
+
+units lj
+atom_style atomic
+
+pair_style lj/cut 2.5
+
+read_data data.rigid
+ orthogonal box = (-12 -12 -12) to (12 12 12)
+ 1 by 1 by 1 MPI processor grid
+ reading atoms ...
+ 81 atoms
+
+velocity all create 100.0 4928459
+
+# unconnected bodies
+
+group clump1 id <> 1 9
+9 atoms in group clump1
+group clump2 id <> 10 18
+9 atoms in group clump2
+group clump3 id <> 19 27
+9 atoms in group clump3
+group clump4 id <> 28 36
+9 atoms in group clump4
+group clump5 id <> 37 45
+9 atoms in group clump5
+group clump6 id <> 46 54
+9 atoms in group clump6
+group clump7 id <> 55 63
+9 atoms in group clump7
+group clump8 id <> 64 72
+9 atoms in group clump8
+group clump9 id <> 73 81
+9 atoms in group clump9
+
+fix 1 all rigid/nve group 9 clump1 clump2 clump3 clump4 clump5 clump6 clump7 clump8 clump9
+9 rigid bodies with 81 atoms
+
+# 1 chain of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 36 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4 clump5 # clump6 clump7 clump8 clump9
+
+# 2 chains of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 37 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4
+#fix 2 all poems group clump5 clump6 clump7 clump8 clump9
+
+neigh_modify exclude group clump1 clump1
+neigh_modify exclude group clump2 clump2
+neigh_modify exclude group clump3 clump3
+neigh_modify exclude group clump4 clump4
+neigh_modify exclude group clump5 clump5
+neigh_modify exclude group clump6 clump6
+neigh_modify exclude group clump7 clump7
+neigh_modify exclude group clump8 clump8
+neigh_modify exclude group clump9 clump9
+
+thermo 100
+
+#dump 1 all atom 50 dump.rigid
+
+#dump 2 all image 100 image.*.jpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 2 pad 5
+
+#dump 3 all movie 100 movie.mpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 3 pad 5
+
+timestep 0.0001
+thermo 50
+run 10000
+Neighbor list info ...
+ update every 1 steps, delay 10 steps, check yes
+ max neighbors/atom: 2000, page size: 100000
+ master list distance cutoff = 2.8
+ ghost atom cutoff = 2.8
+ binsize = 1.4, bins = 18 18 18
+ 1 neighbor lists, perpetual/occasional/extra = 1 0 0
+ (1) pair lj/cut, perpetual
+ attributes: half, newton on
+ pair build: half/bin/atomonly/newton
+ stencil: half/bin/3d/newton
+ bin: standard
+Per MPI rank memory allocation (min/avg/max) = 3.979 | 3.979 | 3.979 Mbytes
+Step Temp E_pair E_mol TotEng Press
+ 0 115.29439 5235.9179 0 5272.2142 -2.7403788
+ 50 14910.69 571.70921 0 5265.8153 32.005816
+ 100 16298.128 136.75661 0 5267.6488 16.449029
+ 150 16682.532 17.504156 0 5269.4124 14.901186
+ 200 16733.906 1.3755079 0 5269.4571 14.571305
+ 250 16738.861 -0.15272039 0 5269.4886 14.498342
+ 300 16738.608 -0.055216883 0 5269.5066 14.498
+ 350 16738.5 -0.017457072 0 5269.5104 14.498392
+ 400 16738.451 -0.0060161309 0 5269.5063 14.49851
+ 450 16738.435 -0.001271965 0 5269.5059 14.498571
+ 500 16738.443 -0.00081074175 0 5269.509 14.498598
+ 550 16738.452 -0.00083208965 0 5269.5118 14.498618
+ 600 16738.45 -0.00058358431 0 5269.5116 14.498617
+ 650 16738.443 -0.00047228525 0 5269.5093 14.4986
+ 700 16738.444 0 0 5269.5102 14.498612
+ 750 16738.461 0 0 5269.5157 14.498654
+ 800 16738.479 0 0 5269.521 14.498697
+ 850 16738.473 0 0 5269.5192 14.498683
+ 900 16738.449 0 0 5269.5116 14.498624
+ 950 16738.438 -0.0035324203 0 5269.5046 14.498537
+ 1000 16738.562 -0.051134242 0 5269.4963 14.498093
+ 1050 16737.343 0.32970192 0 5269.4934 14.527634
+ 1100 16737.878 0.16213235 0 5269.4941 14.533864
+ 1150 16738.682 -0.089236256 0 5269.4959 14.511765
+ 1200 16738.444 -0.0075446558 0 5269.5025 14.512479
+ 1250 16738.45 0 0 5269.5119 14.512611
+ 1300 16738.475 0 0 5269.5199 14.512673
+ 1350 16738.484 0 0 5269.5228 14.512696
+ 1400 16738.469 -0.00044683992 0 5269.5175 14.512651
+ 1450 16738.45 -0.0010933363 0 5269.511 14.512595
+ 1500 16738.445 -0.00057484239 0 5269.51 14.512591
+ 1550 16738.451 0 0 5269.5123 14.512615
+ 1600 16738.452 0 0 5269.5127 14.512618
+ 1650 16738.443 0 0 5269.5099 14.512596
+ 1700 16738.433 0 0 5269.5068 14.512572
+ 1750 16738.438 0 0 5269.5084 14.512584
+ 1800 16738.459 0 0 5269.5149 14.512635
+ 1850 16738.473 0 0 5269.5193 14.51267
+ 1900 16738.462 0 0 5269.5159 14.512644
+ 1950 16738.446 -0.0032069962 0 5269.5076 14.512539
+ 2000 16738.463 -0.013425408 0 5269.5027 14.512382
+ 2050 16738.535 -0.036964311 0 5269.5017 14.512152
+ 2100 16738.621 -0.063490509 0 5269.5023 14.512108
+ 2150 16738.594 -0.056143934 0 5269.5012 14.512117
+ 2200 16738.536 -0.038486645 0 5269.5007 14.512277
+ 2250 16738.496 -0.023712406 0 5269.503 14.51242
+ 2300 16738.488 -0.013209094 0 5269.5109 14.51255
+ 2350 16738.486 -0.0045244524 0 5269.519 14.512693
+ 2400 16738.475 -0.00051678325 0 5269.5194 14.512743
+ 2450 16738.456 -0.0023209272 0 5269.5115 14.512659
+ 2500 16738.442 -0.0052101787 0 5269.5042 14.512594
+ 2550 16738.552 -0.04420046 0 5269.4998 14.512177
+ 2600 16738.42 -0.004347531 0 5269.4982 14.512783
+ 2650 16734.241 1.3131302 0 5269.5 14.577195
+ 2700 16738.737 -0.10612056 0 5269.4961 14.503874
+ 2750 16732.705 1.7939719 0 5269.4974 14.629294
+ 2800 16738.558 -0.042867033 0 5269.5032 14.519893
+ 2850 16738.499 -0.01271227 0 5269.5146 14.518524
+ 2900 16738.486 -0.0032778045 0 5269.52 14.518712
+ 2950 16738.482 -0.0089544631 0 5269.5133 14.518629
+ 3000 16738.647 -0.070862542 0 5269.5031 14.51803
+ 3050 16678.313 18.829038 0 5269.409 15.533426
+ 3100 16632.312 33.399217 0 5269.4975 14.588597
+ 3150 16739.318 -0.31388148 0 5269.4715 13.520782
+ 3200 16727.951 3.26736 0 5269.4741 12.288358
+ 3250 16686.364 16.353793 0 5269.4682 14.152517
+ 3300 16738.532 -0.031574462 0 5269.5064 13.310615
+ 3350 16738.454 -0.0062292918 0 5269.5071 13.308187
+ 3400 16738.445 -0.0049349125 0 5269.5055 13.308178
+ 3450 16738.489 -0.021623738 0 5269.5026 13.308001
+ 3500 16737.78 0.19719043 0 5269.4983 13.325999
+ 3550 16658.578 25.116206 0 5269.4834 13.778249
+ 3600 16738.51 -0.032864725 0 5269.4981 12.392389
+ 3650 16738.899 -0.15952703 0 5269.4938 12.383503
+ 3700 16738.879 -0.16025994 0 5269.487 12.382575
+ 3750 16738.878 -0.16608251 0 5269.4806 12.382765
+ 3800 16738.591 -0.078679341 0 5269.4776 12.383227
+ 3850 16738.429 -0.024729409 0 5269.4807 12.382942
+ 3900 16738.399 -0.0062729967 0 5269.4897 12.383192
+ 3950 16738.428 -0.002521266 0 5269.5027 12.383324
+ 4000 16738.467 -0.0002068506 0 5269.5173 12.383474
+ 4050 16738.488 0 0 5269.5241 12.383531
+ 4100 16738.468 0 0 5269.5178 12.383482
+ 4150 16738.422 0 0 5269.5033 12.383369
+ 4200 16738.387 0 0 5269.4921 12.383281
+ 4250 16738.383 0 0 5269.4908 12.38327
+ 4300 16738.4 0 0 5269.4964 12.383314
+ 4350 16738.423 0 0 5269.5036 12.38337
+ 4400 16738.441 0 0 5269.5092 12.383414
+ 4450 16738.45 0 0 5269.5121 12.383437
+ 4500 16738.45 0 0 5269.5122 12.383438
+ 4550 16738.442 0 0 5269.5095 12.383417
+ 4600 16738.425 0 0 5269.5042 12.383376
+ 4650 16738.404 -0.0014438316 0 5269.4961 12.383299
+ 4700 16738.444 -0.024020551 0 5269.4862 12.382975
+ 4750 16738.49 -0.048521421 0 5269.4761 12.385777
+ 4800 16735.057 1.0347219 0 5269.4786 12.43543
+ 4850 16735.441 0.92650928 0 5269.4913 12.418653
+ 4900 16723.839 4.5908971 0 5269.5033 13.410103
+ 4950 16738.531 -0.021537669 0 5269.5159 13.089982
+ 5000 16738.45 -0.0042589693 0 5269.5077 13.090062
+ 5050 16738.409 -0.00024692474 0 5269.4987 13.090038
+ 5100 16738.404 0 0 5269.4976 13.090032
+ 5150 16738.421 0 0 5269.5029 13.090073
+ 5200 16738.44 0 0 5269.5087 13.090119
+ 5250 16738.448 -0.0012793921 0 5269.5102 13.090114
+ 5300 16738.456 -0.0064376397 0 5269.5075 13.090026
+ 5350 16738.479 -0.020383842 0 5269.5007 13.089898
+ 5400 16735.845 0.79889481 0 5269.4909 13.136244
+ 5450 16735.558 0.87619898 0 5269.4778 12.324482
+ 5500 16711.494 8.47243 0 5269.4984 12.65658
+ 5550 16454.525 89.074845 0 5269.2031 16.996503
+ 5600 16713.084 7.9801091 0 5269.5065 13.774971
+ 5650 16738.676 -0.079987812 0 5269.5033 13.168292
+ 5700 16446.281 91.866085 0 5269.399 23.764658
+ 5750 16738.549 -0.039869082 0 5269.5034 13.378117
+ 5800 16738.487 -0.014994464 0 5269.5086 13.378394
+ 5850 16738.466 -0.0051267378 0 5269.512 13.378555
+ 5900 16738.462 -0.0043689966 0 5269.5113 13.378568
+ 5950 16738.528 -0.032727396 0 5269.5039 13.378192
+ 6000 16702.774 10.969422 0 5269.2502 13.788847
+ 6050 16682.271 17.483217 0 5269.3092 13.353098
+ 6100 16738.508 -0.028838289 0 5269.5016 12.521077
+ 6150 16738.425 -0.0067595568 0 5269.4974 12.521216
+ 6200 16738.401 -0.0011499904 0 5269.4955 12.521247
+ 6250 16738.455 0 0 5269.5136 12.521403
+ 6300 16738.523 0 0 5269.5352 12.521573
+ 6350 16738.503 0 0 5269.5287 12.521525
+ 6400 16738.427 0 0 5269.5047 12.521337
+ 6450 16738.399 0 0 5269.496 12.521268
+ 6500 16738.425 0 0 5269.5042 12.521331
+ 6550 16738.441 0 0 5269.5093 12.521372
+ 6600 16738.42 0 0 5269.5025 12.521319
+ 6650 16738.398 0 0 5269.4957 12.521266
+ 6700 16738.435 0 0 5269.5074 12.521355
+ 6750 16738.505 0 0 5269.5293 12.521527
+ 6800 16738.508 0 0 5269.5303 12.521536
+ 6850 16738.446 0 0 5269.5108 12.521384
+ 6900 16738.414 0 0 5269.5009 12.521306
+ 6950 16738.432 0 0 5269.5063 12.521348
+ 7000 16738.444 0 0 5269.5102 12.521378
+ 7050 16738.421 0 0 5269.5029 12.521322
+ 7100 16738.393 0 0 5269.4941 12.521253
+ 7150 16738.419 0 0 5269.5022 12.521315
+ 7200 16738.489 0 0 5269.5244 12.521489
+ 7250 16738.505 0 0 5269.5293 12.521528
+ 7300 16738.443 0 0 5269.5098 12.521376
+ 7350 16738.404 0 0 5269.4976 12.521281
+ 7400 16738.43 0 0 5269.5058 12.521343
+ 7450 16738.461 0 0 5269.5156 12.521421
+ 7500 16738.447 0 0 5269.5109 12.521385
+ 7550 16738.407 0 0 5269.4986 12.521288
+ 7600 16738.412 0 0 5269.5002 12.5213
+ 7650 16738.478 0 0 5269.5208 12.52146
+ 7700 16738.51 0 0 5269.5309 12.521541
+ 7750 16738.454 0 0 5269.5135 12.521405
+ 7800 16738.398 0 0 5269.4958 12.521267
+ 7850 16738.407 -0.0002118068 0 5269.4982 12.521283
+ 7900 16738.441 -0.00021679441 0 5269.509 12.521366
+ 7950 16738.446 -0.00023847865 0 5269.5107 12.52138
+ 8000 16738.423 0 0 5269.5035 12.521326
+ 8050 16738.423 0 0 5269.5034 12.521325
+ 8100 16738.478 -0.00069624411 0 5269.52 12.521447
+ 8150 16738.523 -0.0040058094 0 5269.531 12.521494
+ 8200 16738.486 -0.0092298399 0 5269.5142 12.521327
+ 8250 16738.458 -0.023189572 0 5269.4914 12.521008
+ 8300 16738.513 -0.045847775 0 5269.4861 12.520773
+ 8350 16723.734 4.5722877 0 5269.4516 12.849562
+ 8400 16738.466 -0.020202622 0 5269.497 12.835807
+ 8450 16738.437 -0.012822209 0 5269.4952 12.829975
+ 8500 16738.408 -0.001683355 0 5269.4972 12.8301
+ 8550 16738.464 -0.00097382251 0 5269.5155 12.830254
+ 8600 16738.669 -0.050581166 0 5269.5304 12.829973
+ 8650 15918.256 250.07455 0 5261.3774 24.539208
+ 8700 16738.446 0.00084613367 0 5269.5116 10.591358
+ 8750 16738.472 -0.010145611 0 5269.5089 10.590277
+ 8800 16738.468 0 0 5269.5176 10.590497
+ 8850 16738.508 0 0 5269.5303 10.590596
+ 8900 16738.509 0 0 5269.5306 10.590599
+ 8950 16738.496 0 0 5269.5266 10.590568
+ 9000 16738.477 0 0 5269.5204 10.59052
+ 9050 16738.455 0 0 5269.5135 10.590465
+ 9100 16738.477 0 0 5269.5205 10.590519
+ 9150 16738.512 0 0 5269.5315 10.590606
+ 9200 16738.502 0 0 5269.5285 10.590583
+ 9250 16738.493 0 0 5269.5254 10.590559
+ 9300 16738.482 0 0 5269.522 10.590532
+ 9350 16738.46 0 0 5269.5151 10.590478
+ 9400 16738.48 0 0 5269.5216 10.590528
+ 9450 16738.509 0 0 5269.5306 10.590599
+ 9500 16738.49 0 0 5269.5247 10.590554
+ 9550 16738.484 0 0 5269.5226 10.590536
+ 9600 16738.483 0 0 5269.5223 10.590534
+ 9650 16738.464 0 0 5269.5165 10.590489
+ 9700 16738.484 0 0 5269.5228 10.590537
+ 9750 16738.507 0 0 5269.53 10.590595
+ 9800 16738.482 0 0 5269.522 10.590532
+ 9850 16738.478 0 0 5269.5207 10.590521
+ 9900 16738.487 -0.00030979882 0 5269.5233 10.590538
+ 9950 16738.476 -0.00095967357 0 5269.5193 10.590496
+ 10000 16738.494 -0.00062714625 0 5269.5253 10.590548
+Loop time of 0.164107 on 1 procs for 10000 steps with 81 atoms
+
+Performance: 526485.498 tau/day, 60935.822 timesteps/s
+98.5% CPU use with 1 MPI tasks x 1 OpenMP threads
+
+MPI task timing breakdown:
+Section | min time | avg time | max time |%varavg| %total
+---------------------------------------------------------------
+Pair | 0.011662 | 0.011662 | 0.011662 | 0.0 | 7.11
+Neigh | 0.038184 | 0.038184 | 0.038184 | 0.0 | 23.27
+Comm | 0.0085709 | 0.0085709 | 0.0085709 | 0.0 | 5.22
+Output | 0.0024281 | 0.0024281 | 0.0024281 | 0.0 | 1.48
+Modify | 0.097581 | 0.097581 | 0.097581 | 0.0 | 59.46
+Other | | 0.005681 | | | 3.46
+
+Nlocal: 81 ave 81 max 81 min
+Histogram: 1 0 0 0 0 0 0 0 0 0
+Nghost: 49 ave 49 max 49 min
+Histogram: 1 0 0 0 0 0 0 0 0 0
+Neighs: 3 ave 3 max 3 min
+Histogram: 1 0 0 0 0 0 0 0 0 0
+
+Total # of neighbors = 3
+Ave neighs/atom = 0.037037
+Neighbor list builds = 998
+Dangerous builds = 997
+Total wall time: 0:00:00
diff --git a/examples/rigid/log.20Apr18.rigid.nve.g++.4 b/examples/rigid/log.20Apr18.rigid.nve.g++.4
new file mode 100644
index 0000000000..a063ee4a03
--- /dev/null
+++ b/examples/rigid/log.20Apr18.rigid.nve.g++.4
@@ -0,0 +1,335 @@
+LAMMPS (20 Apr 2018)
+ using 1 OpenMP thread(s) per MPI task
+# Simple rigid body system
+
+units lj
+atom_style atomic
+
+pair_style lj/cut 2.5
+
+read_data data.rigid
+ orthogonal box = (-12 -12 -12) to (12 12 12)
+ 1 by 2 by 2 MPI processor grid
+ reading atoms ...
+ 81 atoms
+
+velocity all create 100.0 4928459
+
+# unconnected bodies
+
+group clump1 id <> 1 9
+9 atoms in group clump1
+group clump2 id <> 10 18
+9 atoms in group clump2
+group clump3 id <> 19 27
+9 atoms in group clump3
+group clump4 id <> 28 36
+9 atoms in group clump4
+group clump5 id <> 37 45
+9 atoms in group clump5
+group clump6 id <> 46 54
+9 atoms in group clump6
+group clump7 id <> 55 63
+9 atoms in group clump7
+group clump8 id <> 64 72
+9 atoms in group clump8
+group clump9 id <> 73 81
+9 atoms in group clump9
+
+fix 1 all rigid/nve group 9 clump1 clump2 clump3 clump4 clump5 clump6 clump7 clump8 clump9
+9 rigid bodies with 81 atoms
+
+# 1 chain of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 36 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4 clump5 # clump6 clump7 clump8 clump9
+
+# 2 chains of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 37 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4
+#fix 2 all poems group clump5 clump6 clump7 clump8 clump9
+
+neigh_modify exclude group clump1 clump1
+neigh_modify exclude group clump2 clump2
+neigh_modify exclude group clump3 clump3
+neigh_modify exclude group clump4 clump4
+neigh_modify exclude group clump5 clump5
+neigh_modify exclude group clump6 clump6
+neigh_modify exclude group clump7 clump7
+neigh_modify exclude group clump8 clump8
+neigh_modify exclude group clump9 clump9
+
+thermo 100
+
+#dump 1 all atom 50 dump.rigid
+
+#dump 2 all image 100 image.*.jpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 2 pad 5
+
+#dump 3 all movie 100 movie.mpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 3 pad 5
+
+timestep 0.0001
+thermo 50
+run 10000
+Neighbor list info ...
+ update every 1 steps, delay 10 steps, check yes
+ max neighbors/atom: 2000, page size: 100000
+ master list distance cutoff = 2.8
+ ghost atom cutoff = 2.8
+ binsize = 1.4, bins = 18 18 18
+ 1 neighbor lists, perpetual/occasional/extra = 1 0 0
+ (1) pair lj/cut, perpetual
+ attributes: half, newton on
+ pair build: half/bin/atomonly/newton
+ stencil: half/bin/3d/newton
+ bin: standard
+Per MPI rank memory allocation (min/avg/max) = 3.95 | 4.044 | 4.326 Mbytes
+Step Temp E_pair E_mol TotEng Press
+ 0 115.29439 5235.9179 0 5272.2142 -2.7403788
+ 50 14910.69 571.70921 0 5265.8153 32.005816
+ 100 16298.128 136.75661 0 5267.6488 16.449029
+ 150 16682.532 17.504156 0 5269.4124 14.901186
+ 200 16733.906 1.3755079 0 5269.4571 14.571305
+ 250 16738.861 -0.15272039 0 5269.4886 14.498342
+ 300 16738.608 -0.055216883 0 5269.5066 14.498
+ 350 16738.5 -0.017457072 0 5269.5104 14.498392
+ 400 16738.451 -0.0060161309 0 5269.5063 14.49851
+ 450 16738.435 -0.001271965 0 5269.5059 14.498571
+ 500 16738.443 -0.00081074175 0 5269.509 14.498598
+ 550 16738.452 -0.00083208965 0 5269.5118 14.498618
+ 600 16738.45 -0.00058358431 0 5269.5116 14.498617
+ 650 16738.443 -0.00047228525 0 5269.5093 14.4986
+ 700 16738.444 0 0 5269.5102 14.498612
+ 750 16738.461 0 0 5269.5157 14.498654
+ 800 16738.479 0 0 5269.521 14.498697
+ 850 16738.473 0 0 5269.5192 14.498683
+ 900 16738.449 0 0 5269.5116 14.498624
+ 950 16738.438 -0.0035324203 0 5269.5046 14.498537
+ 1000 16738.562 -0.051134242 0 5269.4963 14.498093
+ 1050 16737.343 0.32970192 0 5269.4934 14.527634
+ 1100 16737.878 0.16213235 0 5269.4941 14.533864
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+ 9800 16738.482 0 0 5269.522 10.590314
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+ 9900 16738.487 -0.00030979874 0 5269.5233 10.59032
+ 9950 16738.476 -0.00095967134 0 5269.5192 10.590278
+ 10000 16738.494 -0.00062714318 0 5269.5253 10.590329
+Loop time of 0.229326 on 4 procs for 10000 steps with 81 atoms
+
+Performance: 376756.903 tau/day, 43606.123 timesteps/s
+97.1% CPU use with 4 MPI tasks x 1 OpenMP threads
+
+MPI task timing breakdown:
+Section | min time | avg time | max time |%varavg| %total
+---------------------------------------------------------------
+Pair | 0.003273 | 0.0043935 | 0.0052235 | 1.1 | 1.92
+Neigh | 0.011258 | 0.012805 | 0.015637 | 1.5 | 5.58
+Comm | 0.086959 | 0.091051 | 0.099018 | 1.6 | 39.70
+Output | 0.0044641 | 0.0048054 | 0.0055933 | 0.7 | 2.10
+Modify | 0.10085 | 0.10594 | 0.11123 | 1.4 | 46.19
+Other | | 0.01034 | | | 4.51
+
+Nlocal: 20.25 ave 34 max 9 min
+Histogram: 2 0 0 0 0 0 0 1 0 1
+Nghost: 38.5 ave 43 max 26 min
+Histogram: 1 0 0 0 0 0 0 0 0 3
+Neighs: 0.75 ave 2 max 0 min
+Histogram: 2 0 0 0 0 1 0 0 0 1
+
+Total # of neighbors = 3
+Ave neighs/atom = 0.037037
+Neighbor list builds = 998
+Dangerous builds = 997
+Total wall time: 0:00:00
diff --git a/examples/rigid/log.20Apr18.rigid.property.g++.1 b/examples/rigid/log.20Apr18.rigid.property.g++.1
new file mode 100644
index 0000000000..ad3b2e2913
--- /dev/null
+++ b/examples/rigid/log.20Apr18.rigid.property.g++.1
@@ -0,0 +1,340 @@
+LAMMPS (20 Apr 2018)
+ using 1 OpenMP thread(s) per MPI task
+# Simple rigid body system
+
+units lj
+atom_style atomic
+atom_modify map array
+
+pair_style lj/cut 2.5
+
+fix 0 all property/atom i_bodies
+
+read_data data.rigid-property fix 0 NULL Bodies
+ orthogonal box = (-12 -12 -12) to (12 12 12)
+ 1 by 1 by 1 MPI processor grid
+ reading atoms ...
+ 81 atoms
+
+velocity all create 100.0 4928459
+
+
+# unconnected bodies
+
+group clump1 id <> 1 9
+9 atoms in group clump1
+group clump2 id <> 10 18
+9 atoms in group clump2
+group clump3 id <> 19 27
+9 atoms in group clump3
+group clump4 id <> 28 36
+9 atoms in group clump4
+group clump5 id <> 37 45
+9 atoms in group clump5
+group clump6 id <> 46 54
+9 atoms in group clump6
+group clump7 id <> 55 63
+9 atoms in group clump7
+group clump8 id <> 64 72
+9 atoms in group clump8
+group clump9 id <> 73 81
+9 atoms in group clump9
+
+# assemble bodies from per-atom custom integer property bodies
+fix 1 all rigid custom i_bodies
+9 rigid bodies with 81 atoms
+
+# 1 chain of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 36 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4 clump5 # clump6 clump7 clump8 clump9
+
+# 2 chains of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 37 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4
+#fix 2 all poems group clump5 clump6 clump7 clump8 clump9
+
+neigh_modify exclude group clump1 clump1
+neigh_modify exclude group clump2 clump2
+neigh_modify exclude group clump3 clump3
+neigh_modify exclude group clump4 clump4
+neigh_modify exclude group clump5 clump5
+neigh_modify exclude group clump6 clump6
+neigh_modify exclude group clump7 clump7
+neigh_modify exclude group clump8 clump8
+neigh_modify exclude group clump9 clump9
+
+thermo 100
+
+#dump 1 all atom 50 dump.rigid
+
+#dump 2 all image 100 image.*.jpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 2 pad 5
+
+#dump 3 all movie 100 movie.mpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 3 pad 5
+
+timestep 0.0001
+thermo 50
+run 10000
+Neighbor list info ...
+ update every 1 steps, delay 10 steps, check yes
+ max neighbors/atom: 2000, page size: 100000
+ master list distance cutoff = 2.8
+ ghost atom cutoff = 2.8
+ binsize = 1.4, bins = 18 18 18
+ 1 neighbor lists, perpetual/occasional/extra = 1 0 0
+ (1) pair lj/cut, perpetual
+ attributes: half, newton on
+ pair build: half/bin/atomonly/newton
+ stencil: half/bin/3d/newton
+ bin: standard
+Per MPI rank memory allocation (min/avg/max) = 4.046 | 4.046 | 4.046 Mbytes
+Step Temp E_pair E_mol TotEng Press
+ 0 115.29439 5235.9179 0 5272.2142 -2.7403788
+ 50 14910.685 571.71558 0 5265.82 32.006171
+ 100 16298.442 136.66184 0 5267.653 16.444229
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+ 200 16733.929 1.372872 0 5269.4617 14.569267
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+ 10000 16738.49 0 0 5269.5246 11.395075
+Loop time of 0.147063 on 1 procs for 10000 steps with 81 atoms
+
+Performance: 587503.247 tau/day, 67998.061 timesteps/s
+99.6% CPU use with 1 MPI tasks x 1 OpenMP threads
+
+MPI task timing breakdown:
+Section | min time | avg time | max time |%varavg| %total
+---------------------------------------------------------------
+Pair | 0.011234 | 0.011234 | 0.011234 | 0.0 | 7.64
+Neigh | 0.038835 | 0.038835 | 0.038835 | 0.0 | 26.41
+Comm | 0.0099175 | 0.0099175 | 0.0099175 | 0.0 | 6.74
+Output | 0.002502 | 0.002502 | 0.002502 | 0.0 | 1.70
+Modify | 0.078281 | 0.078281 | 0.078281 | 0.0 | 53.23
+Other | | 0.006294 | | | 4.28
+
+Nlocal: 81 ave 81 max 81 min
+Histogram: 1 0 0 0 0 0 0 0 0 0
+Nghost: 84 ave 84 max 84 min
+Histogram: 1 0 0 0 0 0 0 0 0 0
+Neighs: 0 ave 0 max 0 min
+Histogram: 1 0 0 0 0 0 0 0 0 0
+
+Total # of neighbors = 0
+Ave neighs/atom = 0
+Neighbor list builds = 998
+Dangerous builds = 997
+Total wall time: 0:00:00
diff --git a/examples/rigid/log.20Apr18.rigid.property.g++.4 b/examples/rigid/log.20Apr18.rigid.property.g++.4
new file mode 100644
index 0000000000..7365b40ea5
--- /dev/null
+++ b/examples/rigid/log.20Apr18.rigid.property.g++.4
@@ -0,0 +1,340 @@
+LAMMPS (20 Apr 2018)
+ using 1 OpenMP thread(s) per MPI task
+# Simple rigid body system
+
+units lj
+atom_style atomic
+atom_modify map array
+
+pair_style lj/cut 2.5
+
+fix 0 all property/atom i_bodies
+
+read_data data.rigid-property fix 0 NULL Bodies
+ orthogonal box = (-12 -12 -12) to (12 12 12)
+ 1 by 2 by 2 MPI processor grid
+ reading atoms ...
+ 81 atoms
+
+velocity all create 100.0 4928459
+
+
+# unconnected bodies
+
+group clump1 id <> 1 9
+9 atoms in group clump1
+group clump2 id <> 10 18
+9 atoms in group clump2
+group clump3 id <> 19 27
+9 atoms in group clump3
+group clump4 id <> 28 36
+9 atoms in group clump4
+group clump5 id <> 37 45
+9 atoms in group clump5
+group clump6 id <> 46 54
+9 atoms in group clump6
+group clump7 id <> 55 63
+9 atoms in group clump7
+group clump8 id <> 64 72
+9 atoms in group clump8
+group clump9 id <> 73 81
+9 atoms in group clump9
+
+# assemble bodies from per-atom custom integer property bodies
+fix 1 all rigid custom i_bodies
+9 rigid bodies with 81 atoms
+
+# 1 chain of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 36 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4 clump5 # clump6 clump7 clump8 clump9
+
+# 2 chains of connected bodies
+
+#group clump1 id <> 1 9
+#group clump2 id <> 9 18
+#group clump3 id <> 18 27
+#group clump4 id <> 27 36
+#group clump5 id <> 37 45
+#group clump6 id <> 45 54
+#group clump7 id <> 54 63
+#group clump8 id <> 63 72
+#group clump9 id <> 72 81
+
+#fix 1 all poems group clump1 clump2 clump3 clump4
+#fix 2 all poems group clump5 clump6 clump7 clump8 clump9
+
+neigh_modify exclude group clump1 clump1
+neigh_modify exclude group clump2 clump2
+neigh_modify exclude group clump3 clump3
+neigh_modify exclude group clump4 clump4
+neigh_modify exclude group clump5 clump5
+neigh_modify exclude group clump6 clump6
+neigh_modify exclude group clump7 clump7
+neigh_modify exclude group clump8 clump8
+neigh_modify exclude group clump9 clump9
+
+thermo 100
+
+#dump 1 all atom 50 dump.rigid
+
+#dump 2 all image 100 image.*.jpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 2 pad 5
+
+#dump 3 all movie 100 movie.mpg type type # axes yes 0.8 0.02 view 60 -30
+#dump_modify 3 pad 5
+
+timestep 0.0001
+thermo 50
+run 10000
+Neighbor list info ...
+ update every 1 steps, delay 10 steps, check yes
+ max neighbors/atom: 2000, page size: 100000
+ master list distance cutoff = 2.8
+ ghost atom cutoff = 2.8
+ binsize = 1.4, bins = 18 18 18
+ 1 neighbor lists, perpetual/occasional/extra = 1 0 0
+ (1) pair lj/cut, perpetual
+ attributes: half, newton on
+ pair build: half/bin/atomonly/newton
+ stencil: half/bin/3d/newton
+ bin: standard
+Per MPI rank memory allocation (min/avg/max) = 4.017 | 4.111 | 4.392 Mbytes
+Step Temp E_pair E_mol TotEng Press
+ 0 115.29439 5235.9179 0 5272.2142 -2.7403788
+ 50 14910.685 571.71558 0 5265.82 32.006171
+ 100 16298.442 136.66184 0 5267.653 16.444229
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+ 9000 16738.477 0 0 5269.5205 12.011698
+ 9050 16738.477 0 0 5269.5206 12.011683
+ 9100 16738.478 0 0 5269.5208 12.011684
+ 9150 16738.479 0 0 5269.521 12.011701
+ 9200 16738.479 0 0 5269.5212 12.011722
+ 9250 16738.479 0 0 5269.5213 12.011738
+ 9300 16738.48 0 0 5269.5214 12.011746
+ 9350 16738.48 0 0 5269.5214 12.011744
+ 9400 16738.48 0 0 5269.5215 12.011732
+ 9450 16738.48 0 0 5269.5216 12.011715
+ 9500 16738.481 -0.00037652437 0 5269.5216 12.011692
+ 9550 16738.493 -0.0053156159 0 5269.5203 12.011611
+ 9600 16738.549 -0.026814369 0 5269.5163 12.011415
+ 9650 16738.765 -0.10191523 0 5269.5092 12.011013
+ 9700 16735.041 1.0589887 0 5269.4979 12.062708
+ 9750 16738.013 0.135501 0 5269.5101 11.407245
+ 9800 16738.512 -0.011620329 0 5269.5201 11.394973
+ 9850 16738.489 -0.00067270548 0 5269.5237 11.395098
+ 9900 16738.489 -0.00024984569 0 5269.5242 11.395084
+ 9950 16738.49 0 0 5269.5245 11.395076
+ 10000 16738.49 0 0 5269.5246 11.395075
+Loop time of 0.198144 on 4 procs for 10000 steps with 81 atoms
+
+Performance: 436047.258 tau/day, 50468.433 timesteps/s
+96.3% CPU use with 4 MPI tasks x 1 OpenMP threads
+
+MPI task timing breakdown:
+Section | min time | avg time | max time |%varavg| %total
+---------------------------------------------------------------
+Pair | 0.0023599 | 0.0036138 | 0.004488 | 1.3 | 1.82
+Neigh | 0.011142 | 0.01173 | 0.01336 | 0.9 | 5.92
+Comm | 0.085794 | 0.087198 | 0.089059 | 0.4 | 44.01
+Output | 0.0044518 | 0.0047111 | 0.0054488 | 0.6 | 2.38
+Modify | 0.078396 | 0.08157 | 0.083827 | 0.8 | 41.17
+Other | | 0.009321 | | | 4.70
+
+Nlocal: 20.25 ave 38 max 3 min
+Histogram: 1 0 1 0 0 0 1 0 0 1
+Nghost: 27.25 ave 48 max 13 min
+Histogram: 1 0 1 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
+
+Total # of neighbors = 0
+Ave neighs/atom = 0
+Neighbor list builds = 998
+Dangerous builds = 997
+Total wall time: 0:00:00
--
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