Problem in tutorials run

Submitted by shahab.zaman on Fri, 04/06/2018 - 14:03

I am newer of CFDEM, there is a mistake when I run Tutorials. I always get this line:
rm: cannot remove '/home/administrator/CFDEM/administrator-PUBLIC-5.0/run/fillCylinder/CFD/0.*': No such file or directory

and that is the whole running process:
mesh was built before - using old mesh

// run_liggghts_fillCylinder_DEM //

/home/administrator/CFDEM/administrator-PUBLIC-5.0/run/fillCylinder/DEM

LIGGGHTS (Version LIGGGHTS-PUBLIC 3.8.0, compiled 2018-04-05-17:47:21 by administrator, git commit 28301df8853491784b1d8b90533ea89b8c6af1e8)
atom_style granular
atom_modify map array
communicate single vel yes

boundary m m m
newton off

units si

region reg block -0.015 0.015 -0.015 0.015 -0.001 0.0554 units box
create_box 2 reg
Created orthogonal box = (-0.015 -0.015 -0.001) to (0.015 0.015 0.0554)
1 by 1 by 1 MPI processor grid

neighbor 0.001 bin
neigh_modify delay 0

#Material properties required for new pair styles

fix m1 all property/global youngsModulus peratomtype 5.e6 5.e6
fix m2 all property/global poissonsRatio peratomtype 0.45 0.45
fix m3 all property/global coefficientRestitution peratomtypepair 2 0.3 0.3 0.3 0.3
fix m4 all property/global coefficientFriction peratomtypepair 2 0.5 0.5 0.5 0.5

#pair style
pair_style gran model hertz tangential history
pair_coeff * *

#timestep, gravity
timestep 0.00001
fix gravi all gravity 9.81 vector 0.0 0.0 -1.0

#walls
fix zwalls1 all wall/gran model hertz tangential history primitive type 1 zplane 0.0
fix zwalls2 all wall/gran model hertz tangential history primitive type 1 zplane 0.0553
fix cylwalls all wall/gran model hertz tangential history primitive type 1 zcylinder 0.0138 0. 0.

#cfd coupling
#fix cfd all couple/cfd

#particle insertion
region bc cylinder z 0.0 0.0 0.012 0.02 0.03 units box
region bc2 cylinder z 0.0 0.0 0.012 0.01 0.02 units box
fix pts1 all particletemplate/sphere 49979687 atom_type 1 density constant 200 radius constant 0.001
fix pts2 all particletemplate/sphere 49979693 atom_type 2 density constant 200 radius constant 0.001
fix pdd1 all particledistribution/discrete 15485863 1 pts1 1.0
Fix particledistribution/discrete (id pdd1): distribution based on mass%:
pts1: d=2.000000e-03 (max. bounding sphere) mass%=100.000000%
Fix particledistribution/discrete (id pdd1): distribution based on number%:
pts1: d=2.000000e-03 (max. bounding sphere) number%=100.000000%
fix pdd2 all particledistribution/discrete 15485867 1 pts2 1.0
Fix particledistribution/discrete (id pdd2): distribution based on mass%:
pts2: d=2.000000e-03 (max. bounding sphere) mass%=100.000000%
Fix particledistribution/discrete (id pdd2): distribution based on number%:
pts2: d=2.000000e-03 (max. bounding sphere) number%=100.000000%

fix ins all insert/pack seed 32452843 distributiontemplate pdd1 vel constant 0. 0. -1. insert_every once overlapcheck yes all_in yes particles_in_region 1000 region bc
fix ins2 all insert/pack seed 32452867 distributiontemplate pdd2 vel constant 0. 0. -1. insert_every once overlapcheck yes all_in yes particles_in_region 1000 region bc2

#apply nve integration to all particles that are inserted as single particles
fix integr all nve/sphere

#screen output
compute 1 all erotate/sphere
thermo_style custom step atoms ke c_1 vol
thermo 1000
thermo_modify lost ignore norm no
compute_modify thermo_temp dynamic yes
WARNING: Changing thermo_temp compute object. This object is deprecated and will be removed in the future. (../compute.cpp:161)

#insert the first particles so that dump is not empty
run 1
Setting up run at Fri Apr 6 13:57:45 2018

INFO: Resetting random generator for region bc
INFO: Particle insertion ins: inserting every 0 steps
INFO: Resetting random generator for region bc2
INFO: Particle insertion ins2: inserting every 0 steps
Memory usage per processor = 4.32251 Mbytes
Step Atoms KinEng 1 Volume
0 0 0 0 5.076e-05
insertion: proc 0 at 0 %
insertion: proc 0 at 10 %
insertion: proc 0 at 20 %
insertion: proc 0 at 30 %
INFO: Particle insertion ins: inserted 312 particle templates (mass 2.613805e-04) at step 1
- a total of 312 particle templates (mass 2.613805e-04) inserted so far.
WARNING: Particle insertion: Less insertions than requested (../fix_insert.cpp:814)
insertion: proc 0 at 0 %
insertion: proc 0 at 10 %
insertion: proc 0 at 20 %
insertion: proc 0 at 30 %
INFO: Particle insertion ins2: inserted 310 particle templates (mass 2.597050e-04) at step 1
- a total of 310 particle templates (mass 2.597050e-04) inserted so far.
WARNING: Particle insertion: Less insertions than requested (../fix_insert.cpp:814)
1 622 0.00026056831 0 5.076e-05
Loop time of 0.0276701 on 1 procs for 1 steps with 622 atoms, finish time Fri Apr 6 13:57:45 2018

Pair time (%) = 3.50475e-05 (0.126662)
Neigh time (%) = 0.000547171 (1.97748)
Comm time (%) = 2.86102e-06 (0.0103397)
Outpt time (%) = 8.10623e-06 (0.0292959)
Other time (%) = 0.027077 (97.8562)

Nlocal: 622 ave 622 max 622 min
Histogram: 1 0 0 0 0 0 0 0 0 0
Nghost: 0 ave 0 max 0 min
Histogram: 1 0 0 0 0 0 0 0 0 0
Neighs: 2205 ave 2205 max 2205 min
Histogram: 1 0 0 0 0 0 0 0 0 0

Total # of neighbors = 2205
Ave neighs/atom = 3.54502
Neighbor list builds = 1
Dangerous builds = 0
dump dmp all custom/vtk 1000 post/liggghts_init*.vtk id type type x y z ix iy iz vx vy vz fx fy fz omegax omegay omegaz radius

run 3000 upto
Setting up run at Fri Apr 6 13:57:45 2018

Memory usage per processor = 7.99319 Mbytes
Step Atoms KinEng 1 Volume
1 622 0.00026056831 0 5.076e-05
1000 622 0.00028439741 1.3344982e-06 5.076e-05
2000 622 1.0367323e-05 5.4297602e-06 5.076e-05
3000 622 1.0863057e-06 1.0389306e-06 5.076e-05
Loop time of 0.262038 on 1 procs for 2999 steps with 622 atoms, finish time Fri Apr 6 13:57:46 2018

Pair time (%) = 0.172546 (65.8476)
Neigh time (%) = 0.0227807 (8.69365)
Comm time (%) = 0.000374079 (0.142757)
Outpt time (%) = 0.0083251 (3.17706)
Other time (%) = 0.0580125 (22.139)

Nlocal: 622 ave 622 max 622 min
Histogram: 1 0 0 0 0 0 0 0 0 0
Nghost: 0 ave 0 max 0 min
Histogram: 1 0 0 0 0 0 0 0 0 0
Neighs: 3262 ave 3262 max 3262 min
Histogram: 1 0 0 0 0 0 0 0 0 0

Total # of neighbors = 3262
Ave neighs/atom = 5.24437
Neighbor list builds = 51
Dangerous builds = 0
#write_restart liggghts.restart
rm: cannot remove '/home/administrator/CFDEM/administrator-PUBLIC-5.0/run/fillCylinder/CFD/0.*': No such file or directory

// run_cfdemPostproc_fillCylinder_CFD //

/home/administrator/CFDEM/administrator-PUBLIC-5.0/run/fillCylinder/CFD

/home/administrator/CFDEM/CFDEMcoupling-PUBLIC-5.0/src/lagrangian/cfdemParticle/etc/functions.sh: line 687: cfdemPostproc: command not found

trying to start paraview...

Thanks in advance
Best regards
Shahab