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[Mahdeyeh <question688993@xxxxxxxxxxxxxxxxxxxxx>]

Question #688993 on Yade changed:
https://answers.launchpad.net/yade/+question/688993

Description changed to:
Hi everyone
I run this code for some polyhedrals, they fall down with gravity, but when polyhedrals collide to facet in bottom, all of them move up with high speed and spread in space. While they should stay on the floor for a little while.  


note: Most of polyhedrals have sharp angle, does this have effect on this problem?

I would appreciate if you can help me.

ubuntu : 18.04
yade 2018.02b 

too many input data.
my codes:

from yade import export,polyhedra_utils
import os
from yade import plot
import math
from yade import utils
import pylab
import matplotlib; matplotlib.rc('axes',grid=True)
from matplotlib import pyplot
import numpy as np
from numpy import *
from yade import export as expt


# Input data:

RawVer=np.genfromtxt('ring.txt',names=True,dtype=None)
# ListVer is list of all the vertices of ring`s polygons
Ver=()
ListVer=[]
for b in RawVer:
    if b[0]=='*LWPOLYLINE':
        ListVer.append(Ver)
        Ver=()
        continue
    Cordn=b[0]
    Cordn=np.fromstring(Cordn, sep=',')
    Cordn=tuple(Cordn.tolist())
    Cordn1=Cordn+(0,)   # add z vertex to coordinates 
    Cordn2=Cordn+(0.5,)   # add z vertex to coordinates
    if not Cordn1 in Ver:
        Ver=Ver+(Cordn1,Cordn2)
ListVer.append(Ver)


# Materials type:

Dolomite = PolyhedraMat()
Dolomite.density = 2870 #kg/m^3 
Dolomite.young = 24.36e9 #Pa 
Dolomite.poisson = 0.2
Dolomite.frictionAngle = radians(55.12) #rad

Bound = PolyhedraMat()
Bound.density = 2870 #kg/m^3 
Bound.young = 60e10 #Pa 
Bound.poisson = 0.2
Bound.frictionAngle = radians(55.12) #rad

Shale = PolyhedraMat()
Shale.density = 2750 #kg/m^3 
Shale.young = 6e9 #Pa 
Shale.poisson = 0.23
Shale.frictionAngle = radians(42) #rad

for ii in ListVer:
    O.bodies.append(polyhedra_utils.polyhedra(Dolomite,v=ii,fixed=False, color=(0.1,0.5,0.2)))

for iiii in ListVer2:
    O.bodies.append(polyhedra_utils.polyhedra(Shale,v=iiii,fixed=False, color=(0.9,0.81,0.45)))

v1=((-2.4993,-0.01,2),(-2,-0.01,2),(-2.4993,-0.01,-2))
v2=((-2,-0.01,2),(-2,-0.01,-2),(-2.4993,-0.01,-2))
v3=((-1.99,-0.01,2),(-1.99,-0.01,-2),(-1,-0.01,2))
v4=((-1,-0.01,2),(-1,-0.01,-2),(-1.99,-0.01,-2))
v5=((-0.99,-0.01,2),(-0.99,-0.01,-2),(1,-0.01,2))
v6=((1,-0.01,2),(1,-0.01,-2),(-0.99,-0.01,-2))
v7=((1.01,-0.01,2),(1.01,-0.01,-2),(2,-0.01,2))
v8=((2,-0.01,2),(2,-0.01,-2),(1.01,-0.01,-2))
v9=((2.01,-0.01,2),(2.01,-0.01,-2),(3,-0.01,2))
v10=((3,-0.01,2),(3,-0.01,-2),(2.01,-0.01,-2))
v11=((3.01,-0.01,2),(3.01,-0.01,-2),(4.58,-0.01,2))
v12=((4.58,-0.01,2),(4.58,-0.01,-2),(3.01,-0.01,-2))
v13=((4.6162,0.0059,2),(5.25,0.93,2),(4.6162,0.0059,-2))
v14=((5.25,0.93,2),(5.25,0.93,-2),(4.6162,0.0059,-2))
v15=((5.25,0.94,2),(5.25,0.94,-2),(6.42,2.57,2))
v16=((6.42,2.57,2),(6.42,2.57,-2),(5.25,0.94,-2))
v17=((6.42,2.58,2),(6.42,2.58,-2),(6.7906,3.01,2))
v18=((6.7906,3.01,2),(6.7906,3.01,-2),(6.42,2.58,-2))
v19=((6.7906,3.0162,2),(6.7939,4,2),(6.7906,3.0162,-2))
v20=((6.7906,3.0162,-2),(6.7939,4,-2),(6.7939,4,2))
v21=((6.7953,4.0079,2),(7.02,5.6,2),(6.7953,4.0079,-2))
v22=((7.02,5.6,2),(7.02,5.6,-2),(6.7953,4.0079,-2))
v23=((7.02,5.61,2),(7.02,5.61,-2),(7.3,7.01,2))
v24=((7.3,7.01,2),(7.3,7.01,-2),(7.02,5.61,-2))
v25=((7.3,7.02,2),(7.3,7.02,-2),(7.54,8.51,2))
v26=((7.54,8.51,2),(7.54,8.51,-2),(7.3,7.02,-2))
v27=((7.54,8.52,2),(7.54,8.52,-2),(7.8,10,2))
v28=((7.8,10,2),(7.8,10,-2),(7.54,8.52,-2))
v29=((7.8,10.01,2),(7.8,10.01,-2),(8.14,12,2))
v30=((8.14,12,2),(8.14,12,-2),(7.8,10.01,-2))
v31=((8.14,12.01,2),(8.14,12.01,-2),(8.5,14,2))
v32=((8.5,14,2),(8.5,14,-2),(8.14,12,-2))
v33=((8.5,14.01,2),(8.5,14.01,-2),(8.75,15.5,2))
v34=((8.75,15.5,2),(8.75,15.5,-2),(8.5,14.01,-2))
v35=((8.75,15.51,2),(8.75,15.51,-2),(9.0615,16.9981,2))
v36=((9.0615,16.9981,2),(9.0615,16.9981,-2),(8.75,15.51,-2))
v37=((9.0621,17.0187,2),(9.09,19,2),(9.0621,17.087,-2))
v38=((9.09,19,2),(9.09,19,-2),(9.062,17.0187,-2))
v39=((9.09,19.01,2),(9.09,19.01,-2),(9.2006,20.9992,2))
v40=((9.2006,20.9992,2),(9.2006,20.9992,-2),(9.09,19.01,-2))
v41=((2.2009,21.0924,2),(2.2009,21.0924,-2),(2.22,19.01,2))
v42=((2.22,19.01,2),(2.22,19.01,-2),(2.2009,21.0924,-2))
v43=((2.22,19,2),(2.22,19,-2),(2.1538,17.043,2))
v44=((2.1538,17.043,2),(2.1538,17.043,-2),(2.22,19,-2))
v45=((2.0524,17.0104,2),(2.0524,17.0104,-2),(1.76,15.01,2))
v46=((1.76,15.01,2),(1.76,15.01,-2),(2.0524,17.0104,-2))
v47=((1.76,15,2),(1.76,15,-2),(1.42,13.01,2))
v48=((1.42,13.01,2),(1.42,13.01,-2),(1.76,15,-2))


O.bodies.append(utils.facet(v1,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v2,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v3,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v4,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v5,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v6,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v7,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v8,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v9,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v10,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v11,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v12,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v13,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v14,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v15,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v16,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v17,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v18,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v19,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v20,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v21,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v22,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v23,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v24,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v25,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v26,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v27,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v28,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v29,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v30,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v31,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v32,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v33,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v34,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v35,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v36,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v37,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v38,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v39,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v40,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v41,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v42,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v43,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v44,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v45,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v46,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v47,color=(1,0,1), material=Bound))
O.bodies.append(utils.facet(v48,color=(1,0,1), material=Bound))

# block z translation and block x, y, z rotations
for b in O.bodies:
    if b.material is Dolomite or b.material is Shale:
        b.state.blockedDOFs='zXY'

# function for calming particles
def calm():
    for c in O.bodies:
        c.state.vel=Vector3(0,0,0)    
        c.state.angVel=Vector3(0,0,0)

O.engines=[
   ForceResetter(),
   InsertionSortCollider([Bo1_Polyhedra_Aabb(),Bo1_Facet_Aabb()],verletDist=0.05), # We can set collider's verletDist to a fraction of the polyhedra minimum size, since it determines how much is each body enlarged to avoid collision detection at every step.
   InteractionLoop(
      [Ig2_Polyhedra_Polyhedra_PolyhedraGeom(),Ig2_Facet_Polyhedra_PolyhedraGeom()], 
      [Ip2_PolyhedraMat_PolyhedraMat_PolyhedraPhys()], # collision "physics"
      [Law2_PolyhedraGeom_PolyhedraPhys_Volumetric()]   # contact law -- apply forces
   ),
   NewtonIntegrator(gravity=(0,-9.81,0),damping=0.2),
]

utils.calm()

# the model has to calm, because there are some overlaps in particles. 
O.engines=O.engines+[PyRunner(iterPeriod=20,command='calm()',label="calmRunner")]  #  because we need to calm only on the first few steps in our model.

O.dt=10e-5

O.run(50000,True)
O.run()

ii1=O.iter
if ii1>1000000:
    calmRunner.dead=True

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