[Yade-users] [Question #688791]: Unable to locate NewtonIntegrator within O.engines.
New question #688791 on Yade: https://answers.launchpad.net/yade/+question/688791 Hi, I got the following error: FATAL /build/yade-fDuCoe/yade-2018.02b/core/ThreadRunner.cpp:30 run: Exception occured: InsertionSortCollider.verletDist>0, but unable to locate NewtonIntegrator within O.engines. Any idea of this error? Many thanks, Leonard -- You received this question notification because your team yade-users is an answer contact for Yade. ___ Mailing list: https://launchpad.net/~yade-users Post to : yade-users@lists.launchpad.net Unsubscribe : https://launchpad.net/~yade-users More help : https://help.launchpad.net/ListHelp
Re: [Yade-users] [Question #688791]: Unable to locate NewtonIntegrator within O.engines.
Question #688791 on Yade changed: https://answers.launchpad.net/yade/+question/688791 Status: Open => Needs information Robert Caulk requested more information: Unable to locate MWE.py :-) -- You received this question notification because your team yade-users is an answer contact for Yade. ___ Mailing list: https://launchpad.net/~yade-users Post to : yade-users@lists.launchpad.net Unsubscribe : https://launchpad.net/~yade-users More help : https://help.launchpad.net/ListHelp
Re: [Yade-users] [Question #688791]: Unable to locate NewtonIntegrator within O.engines.
Question #688791 on Yade changed: https://answers.launchpad.net/yade/+question/688791 Robert Caulk requested more information: [1]https://www.yade-dem.org/wiki/Howtoask -- You received this question notification because your team yade-users is an answer contact for Yade. ___ Mailing list: https://launchpad.net/~yade-users Post to : yade-users@lists.launchpad.net Unsubscribe : https://launchpad.net/~yade-users More help : https://help.launchpad.net/ListHelp
Re: [Yade-users] [Question #688791]: Unable to locate NewtonIntegrator within O.engines.
Question #688791 on Yade changed: https://answers.launchpad.net/yade/+question/688791 Status: Needs information => Answered Jérôme Duriez proposed the following answer: As the error says, you are using a >0 value for InsertionSortCollider.verletDist. Whereas the source code [*] requires (for an efficient approximate collision detection ?) NewtonIntegrator to belong to O.engines, which you decided against. [*] see this if-block at https://gitlab.com/yade- dev/trunk/-/blob/master/pkg/common/InsertionSortCollider.cpp#L393 --- sorry I do not warranty this version is exactly the one of your YADE 2018.02b version -- You received this question notification because your team yade-users is an answer contact for Yade. ___ Mailing list: https://launchpad.net/~yade-users Post to : yade-users@lists.launchpad.net Unsubscribe : https://launchpad.net/~yade-users More help : https://help.launchpad.net/ListHelp
Re: [Yade-users] [Question #688791]: Unable to locate NewtonIntegrator within O.engines.
Question #688791 on Yade changed:
https://answers.launchpad.net/yade/+question/688791
Status: Answered => Solved
Leonard confirmed that the question is solved:
Thanks rcaulk and jduriez,
Sorry for getting back late.
I met this problem by:
###
Firstly run script1 to generate sample and save it:
O.save('sample.yade.gz')
Then using script2 to reload the sample: O.load('sample.yade.gz'),
Then, carrying out triaxial test in script2.
In script2, when I define the O.engines as follow, it shows error:
###Following engines shows error###
O.engines=[
ForceResetter(),
InsertionSortCollider([Bo1_Sphere_Aabb(),Bo1_Box_Aabb()]),
InteractionLoop(
[Ig2_Sphere_Sphere_ScGeom6D(),Ig2_Box_Sphere_ScGeom()],
[Ip2_CohFrictMat_CohFrictMat_CohFrictPhys(),
Ip2_FrictMat_FrictMat_FrictPhys()],
[Law2_ScGeom6D_CohFrictPhys_CohesionMoment(),Law2_ScGeom_FrictPhys_CundallStrack()]
),
GlobalStiffnessTimeStepper(active=1,timeStepUpdateInterval=100,timestepSafetyCoefficient=0.8),
triax,
TriaxialStateRecorder(iterPeriod=100,file='WallStresses'),
PyRunner(command='stopIfDamaged()',iterPeriod=1000),
NewtonIntegrator(damping=0.4),
]
When I change the engines into the following one, it works well. The
difference between the error one and good one is the position of
NewtonIntegrator(damping=0.4).
##Following O.engines works well###
O.engines=[
ForceResetter(),
InsertionSortCollider([Bo1_Sphere_Aabb(),Bo1_Box_Aabb()]),
InteractionLoop(
[Ig2_Sphere_Sphere_ScGeom6D(),Ig2_Box_Sphere_ScGeom()],
[Ip2_CohFrictMat_CohFrictMat_CohFrictPhys(),
Ip2_FrictMat_FrictMat_FrictPhys()],
[Law2_ScGeom6D_CohFrictPhys_CohesionMoment(),Law2_ScGeom_FrictPhys_CundallStrack()]
),
GlobalStiffnessTimeStepper(active=1,timeStepUpdateInterval=100,timestepSafetyCoefficient=0.8),
triax,
TriaxialStateRecorder(iterPeriod=100,file='WallStresses'),
NewtonIntegrator(damping=0.4),
PyRunner(command='stopIfDamaged()',iterPeriod=1000),
]
I don't know why but it works.
Cheers,
Leonard
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Re: [Yade-users] [Question #688791]: Unable to locate NewtonIntegrator within O.engines.
Question #688791 on Yade changed: https://answers.launchpad.net/yade/+question/688791 Jan Stránský posted a new comment: > I don't know why but it works. for future reference, could you please post a complete script causing this strange problem? Thanks Jan -- You received this question notification because your team yade-users is an answer contact for Yade. ___ Mailing list: https://launchpad.net/~yade-users Post to : yade-users@lists.launchpad.net Unsubscribe : https://launchpad.net/~yade-users More help : https://help.launchpad.net/ListHelp
Re: [Yade-users] [Question #688791]: Unable to locate NewtonIntegrator within O.engines.
Question #688791 on Yade changed:
https://answers.launchpad.net/yade/+question/688791
Leonard posted a new comment:
Hi Jan,
Thanks for your suggestion.
Here are the two scripts based on Yade 2018.02b:
#
The following is the script1 which is for generating sample (takes around 30
seconds):
# -*- coding: utf-8 -*-
#*
from __future__ import division
from yade import pack, plot
import math
import numpy as np
import timeit
## this script is modified from https://gitlab.com/yade-
dev/trunk/blob/master/examples/triax-tutorial/script-session1.py#L142
utils.readParamsFromTable(lowerR=10.0,upperR=10.0)
from yade.params import table
num_spheres=2000# number of spheres
targetPorosity = 0.5 #the porosity we want for the packing
compFricDegree = 30 # initial contact friction during the confining phase (will
be decreased during the REFD compaction process)
finalFricDegree = 30 # contact friction during the deviatoric loading
rate=-0.01 # loading rate (strain rate)
damp=0.4 # damping coefficient
stabilityThreshold=0.001 # we test unbalancedForce against this value in
different loops (see below)
young=5e7 # contact stiffness
confinement=100e3
mn,mx=Vector3(0,0,0),Vector3(0.07,0.14,0.07)
## create materials for spheres and plates
MatWall=O.materials.append(FrictMat(young=young,poisson=0.5,frictionAngle=0,density=0,label='walls'))
MatSand =
O.materials.append(CohFrictMat(isCohesive=False,young=young,poisson=0.5,frictionAngle=radians(30),
density=2650.0,normalCohesion=1e6, shearCohesion=1e6,label='sand'))
## create walls around the packing
walls=aabbWalls([mn,mx],thickness=0,material='walls')
wallIds=O.bodies.append(walls)
## use a SpherePack object to generate a random loose particles packing
sp=pack.SpherePack()
sp.makeCloud(mn,mx,-1,0.,num_spheres,True, 0.95,seed=1)
O.bodies.append([sphere(center,rad,material='sand') for center,rad in
sp])
Gl1_Sphere.quality=3
triax=TriaxialStressController(
maxMultiplier=1.+6e5/young, # spheres growing factor (fast growth)
finalMaxMultiplier=1.+2e4/young, # spheres growing factor (slow growth)
thickness = 0,
stressMask = 7,
internalCompaction=True, # If true the confining pressure is generated
by growing particles
)
newton=NewtonIntegrator(damping=damp)
O.engines=[
ForceResetter(),
InsertionSortCollider([Bo1_Sphere_Aabb(),Bo1_Box_Aabb()]),
InteractionLoop(
[Ig2_Sphere_Sphere_ScGeom6D(),Ig2_Box_Sphere_ScGeom()],
[Ip2_CohFrictMat_CohFrictMat_CohFrictPhys(),
Ip2_FrictMat_FrictMat_FrictPhys()],
[Law2_ScGeom6D_CohFrictPhys_CohesionMoment(),Law2_ScGeom_FrictPhys_CundallStrack()]
),
GlobalStiffnessTimeStepper(active=1,timeStepUpdateInterval=100,timestepSafetyCoefficient=0.8),
triax,
TriaxialStateRecorder(iterPeriod=100,file='WallStresses'),
newton,
]
#Display spheres with 2 colors for seeing rotations better
Gl1_Sphere.stripes=0
#the value of (isotropic) confining stress defines the target stress to be
applied in all three directions
triax.goal1=triax.goal2=triax.goal3=-confinement
while 1:
O.run(1000, True)
unb=unbalancedForce()
print 'unbF:',unb,' meanStress:
',-triax.meanStress,'top:',-triax.stress(triax.wall_top_id)[1]
if unbtargetPorosity:
# we decrease friction value and apply it to all the bodies and contacts
compFricDegree = 0.95*compFricDegree
setContactFriction(radians(compFricDegree))
print "\r Friction: ",compFricDegree," porosity:",triax.porosity,
sys.stdout.flush()
O.run(500,1)
print "### state 2 Reach target porosity completed ###"
print 'top', -triax.stress(triax.wall_top_id)[1],
'right',-triax.stress(triax.wall_right_id)[0],'front',-triax.stress(triax.wall_front_id)[2]
triax.internalCompaction=False
triax.stressMask = 7
triax.goal1=triax.goal2=triax.goal3=-confinement
triax.max_vel=0.001
O.save('sample.yade.gz')
#
The following is script2 which is for triaxial test, it illustrates the problem.
##
# -*- coding: utf-8 -*-
#*
from yade import pack, plot
import math
import numpy as np
O.load('sample.yade.gz')
Gl1_Sphere.quality=3
confinement=100e3
triax=TriaxialStressController(
## TriaxialStressController will be used to control stress and strain.
It controls particles size and plates positions.
## this control of boundary conditions was used for instance in
http://dx.doi.org/10.1016/j.ijengsci.2008.07.002
thickness = 0,
stressMask = 5,
internalCompaction=False, # If true the confining pressure is generated
by growing particles
)
newton=NewtonIntegrator(damping=0.4)
O.engines=[
Re: [Yade-users] [Question #688791]: Unable to locate NewtonIntegrator within O.engines.
Question #688791 on Yade changed: https://answers.launchpad.net/yade/+question/688791 Jan Stránský posted a new comment: Thanks for the complete script. Next time please post it in the OP, we could save all the thread :-) > if 1: > O.engines=O.engines[0:5]+...+O.engines[5:7] just print O.engines before and after ;-) cheers Jan -- You received this question notification because your team yade-users is an answer contact for Yade. ___ Mailing list: https://launchpad.net/~yade-users Post to : yade-users@lists.launchpad.net Unsubscribe : https://launchpad.net/~yade-users More help : https://help.launchpad.net/ListHelp
Re: [Yade-users] [Question #688791]: Unable to locate NewtonIntegrator within O.engines.
Question #688791 on Yade changed: https://answers.launchpad.net/yade/+question/688791 Jan Stránský posted a new comment: One more comment. Between O.engines=[...] and this error-prone O.engines=O.engines[0:5]+...+O.engines[5:7] you have no relevant code (like running), you can put everything directly in the first O.engines=[...] Jan -- You received this question notification because your team yade-users is an answer contact for Yade. ___ Mailing list: https://launchpad.net/~yade-users Post to : yade-users@lists.launchpad.net Unsubscribe : https://launchpad.net/~yade-users More help : https://help.launchpad.net/ListHelp
Re: [Yade-users] [Question #688791]: Unable to locate NewtonIntegrator within O.engines.
Question #688791 on Yade changed: https://answers.launchpad.net/yade/+question/688791 Leonard posted a new comment: Thanks Jan for your comment. Cheers, Leonard -- You received this question notification because your team yade-users is an answer contact for Yade. ___ Mailing list: https://launchpad.net/~yade-users Post to : yade-users@lists.launchpad.net Unsubscribe : https://launchpad.net/~yade-users More help : https://help.launchpad.net/ListHelp
