Re: [Yade-users] [Question #680662]: Small density sphere in micron size makes segment fault (core dumped)
Question #680662 on Yade changed: https://answers.launchpad.net/yade/+question/680662 gaoxuesong confirmed that the question is solved: Thanks Jan Stránský, that solved my question. -- 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 #680662]: Small density sphere in micron size makes segment fault (core dumped)
Question #680662 on Yade changed: https://answers.launchpad.net/yade/+question/680662 Status: Answered => Solved gaoxuesong confirmed that the question is solved: Thanks. Jan. The adapted code runs well. I think the problem is the increasing length of O.engines. -- 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 #680662]: Small density sphere in micron size makes segment fault (core dumped)
Question #680662 on Yade changed: https://answers.launchpad.net/yade/+question/680662 Status: Needs information => Answered Jan Stránský proposed the following answer: Hello, just running your code and waiting for the result. However, the changeValues() function should not be used in this form (!) You are adding new TranslationEngine every 100 iterations. Now I have O.iter=288300 and if I print len(O.engines), I got 2893.. Furthermore, what is the meaning of the TranslationEngine with velocity=0.0? A proper way could be something like: ### O.engines = [ ... TranslationEngine(...,dead=False,label='transEngine'), # just one engine HarmonicMotionEngine(...,dead=True,label='harmEngine'), # just one engine NewtonIntegrator(...), # consider pacing it after kinematic engines [1] PyRunner(iterPeriod=100,command='changeValues()'), ] def changeValues(): if O.time < 0.2: pass # probably initialized above elif O.time < 0.4: # no need of 0.2 <= O.time, because if so, it would have finished in above branch transEngine.dead = True harmEngine.dead = False harmEngine.A = ... harmEngine.f = ... elif ... ### could you modify your code and test if it works? cheers Jan [1] https://yade-dev.gitlab.io/trunk/user.html#base-engines -- 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 #680662]: Small density sphere in micron size makes segment fault (core dumped)
Question #680662 on Yade changed: https://answers.launchpad.net/yade/+question/680662 gaoxuesong posted a new comment: Sorry to add the ubuntu and yade version used. The ubuntu is Ubuntu 18.04.1 LTS, and the yade is 2018.02b. Much thanks. -- 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 #680662]: Small density sphere in micron size makes segment fault (core dumped)
Question #680662 on Yade changed:
https://answers.launchpad.net/yade/+question/680662
gaoxuesong posted a new comment:
Hi, Jan. Yes, you are right. I have tried the above code and no segment fault
occurred. Then I add some lines which i thought were unimportant in the past
and the problems happened at about 341300 iteration. As you suggested, i leave
the snap and VTK code out. Also, to make the crash easy to happen, i amplify
the density by a small factor as 1e3.
The following is the code,
from yade import geom,pack
import math
from yade import qt
import os
#os.system('rm -rf plt;mkdir ./plt/')
#os.system('rm -rf out;mkdir ./out/')
# PhysicalParameters
muS = 0.57735 # Friction coefficient (30 degree)
muLB = 0.0001 # Friction coefficient
muF = 0.17632 # Friction coefficient (10 degree)
FricAngleS = math.atan(muS)
FricAngleLB = math.atan(muLB)
FricAngleF = math.atan(muF)
### mass amplification factor ###
masscof = 1e3
# PhysicalParameters
matSph = CohFrictMat(
density = 7990*masscof,
young = 193e9,
poisson = 0.3,
frictionAngle = FricAngleS,
momentRotationLaw = True)
SMat = O.materials.append(matSph)
# create empty sphere packing
sp = pack.SpherePack()
# generate spheres1 with a certain diameter distribution
sp.makeCloud((0,0,0.35e-3), (1.0e-3,1.0e-3,1.4e-3),
psdSizes=[0.012e-3,0.0186e-3,0.0312e-3,0.0484e-3,0.053e-3],
psdCumm=[0,0.1,0.5,0.9,1.0])
# add the sphere pack to the simulation
sp.toSimulation(material=SMat)
# create rectangular box1(Left) from facets
O.bodies.append(geom.facetBox((0.5e-3,0.5e-3,0.5e-3),(0.5e-3,0.5e-3,0.5e-3),
wallMask=31, material=SMat))
Cylinder1IDs=O.bodies.append(geom.facetBox((0.5e-3,0.5e-3,0.15e-3),(0.5e-3,0.5e-3,0.2e-3),
wallMask=63, color=(0,1,0), wire=False, material=SMat))
## add these lines, problem happens #
## add these lines, problem happens #
def changeValues():
# Standstill for stabilization
if O.time < 0.2:
O.engines = O.engines + [
TranslationEngine(dead=False, translationAxis= [0,0,1],
velocity=0.0, ids=Cylinder1IDs)
]
# Vibrate Piston1
elif 0.2 <= O.time < 0.4:
O.engines = O.engines + [
HarmonicMotionEngine(A=(0.0,0.0,1.5e-5), f=(0.0,0.0,3600/60.0),
ids=Cylinder1IDs)
]
# Vibrate Stop
elif 0.4 <= O.time < 0.5129:
O.engines = O.engines + [
HarmonicMotionEngine(A=(0.0,0.0,0.0), f=(0.0,0.0,0.0),
ids=Cylinder1IDs)
]
O.dt = 0.85*utils.PWaveTimeStep()
## add these lines, problem happens #
## add these lines, problem happens #
def print_ite():
print("ite is %d" % O.iter)
O.engines=[
ForceResetter(),
InsertionSortCollider([Bo1_Sphere_Aabb(),Bo1_Facet_Aabb()]),
InteractionLoop(
# handle sphere+sphere and facet+sphere collisions
[Ig2_Sphere_Sphere_ScGeom6D(),Ig2_Facet_Sphere_ScGeom6D()],
[Ip2_CohFrictMat_CohFrictMat_CohFrictPhys()],
[Law2_ScGeom6D_CohFrictPhys_CohesionMoment()]
),
NewtonIntegrator(damping=0.75, exactAsphericalRot=True,
gravity=(0,0,-9.81)),
PyRunner(iterPeriod=100,command='changeValues()'),
PyRunner(iterPeriod=100,command='print_ite()'),
#qt.SnapshotEngine(fileBase="./plt/",iterPeriod=200,label='snapshot'),
# VTKRecorder(iterPeriod=200, recorders=['spheres','colors'],
fileName='./out/'),
]
#show geometry:
qtr = qt.Renderer()
qtr.bgColor = [1,1,1]
qt.Controller()
v = qt.View()
#v.center()
v.axes=False
v.viewDir=Vector3(0,1,0)
v.eyePosition=Vector3(1.8e-3,-5.2e-3,1.0e-3)
O.run()
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Re: [Yade-users] [Question #680662]: Small density sphere in micron size makes segment fault (core dumped)
Question #680662 on Yade changed: https://answers.launchpad.net/yade/+question/680662 Status: Open => Needs information Jan Stránský requested more information: Hello, thanks for the code. I have tried the script for a while without any problem. Please provide more info: - At which iteration the problem occur? - is the SnapshotEngine and VTKRecorder needed to reproduce the problem? If no, please remove them to make the script a true MWE [1] - please use a 'seed' parameter to sp.makeCloud thanks Jan [1] https://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
