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[Chareyre <question670889@xxxxxxxxxxxxxxxxxxxxx>]

Question #670889 on Yade changed:
https://answers.launchpad.net/yade/+question/670889

    Status: Open => Answered

Chareyre proposed the following answer:
Hi, if i read correctly you are adding one more engine to O.engines every
100 iterations. Memory has to grow then, this in not a memory leak. The
question is more: does it make sense to accumulate engines? The answer is:
no. :)


Le dim. 15 juil. 2018 14:47, Zhang Wenyue <
question670889@xxxxxxxxxxxxxxxxxxxxx> a écrit :

> New question #670889 on Yade:
> https://answers.launchpad.net/yade/+question/670889
>
> Hi,
>
> I'm also doing some work related to the removal of particles, and I have a
> problem similar to Question #452277.
> https://answers.launchpad.net/yade/+question/452277
>
>  I tried to set the flowEngine.dead=1 and then set it to 0 after few
> steps, which didn't work. I tried to slice the list of engines to
> instantiate the flowEngine, which led to memory leak. Do anyone have a way
> to release the memory effectively?
>
> Can anyone give me some suggestion? Thanks a lot.
> I'm running Yade 2018.02b, Ubuntu 18.04.
>
> My code is shown as follow:
> =============================================
>
> from yade import pack,qt,plot
>
> num_spheres=1000# number of spheres
> young=1e6
> compFricDegree = 3 # initial contact friction during the confining phase
> finalFricDegree = 30 # contact friction during the deviatoric loading
> mn,mx=Vector3(0,0,0),Vector3(2,2,6) # corners of the initial packing
> flag=1
> flag2=0
>
>
> O.materials.append(FrictMat(young=young,poisson=0.5,frictionAngle=radians(compFricDegree),density=2600,label='spheres'))
>
> O.materials.append(FrictMat(young=young,poisson=0.5,frictionAngle=0,density=0,label='walls'))
> walls=aabbWalls([mn,mx],thickness=0,material='walls')
> wallIds=O.bodies.append(walls)
>
> sp=pack.SpherePack()
> sp.makeCloud(mn,mx,rMean=0.3,rRelFuzz=0,num=50,periodic=False)
> sp.makeCloud(mn,mx,rMean=0.03,rRelFuzz=0,num=1000,periodic=False)
> sp.toSimulation(material='spheres')
>
> triax=TriaxialStressController(
>         thickness = 0,
>         stressMask = 7,
>         max_vel = 0.005,
>         internalCompaction=0, # If true the confining pressure is
> generated by growing particles
> #    wall_bottom_activated=False
> )
>
> newton=NewtonIntegrator(damping=0.2)
>
> O.engines=[
>         ForceResetter(),
>         InsertionSortCollider([Bo1_Sphere_Aabb(),Bo1_Box_Aabb()]),
>         InteractionLoop(
>                 [Ig2_Sphere_Sphere_ScGeom(),Ig2_Box_Sphere_ScGeom()],
>                 [Ip2_FrictMat_FrictMat_FrictPhys()],
>                 [Law2_ScGeom_FrictPhys_CundallStrack()],label="iloop"
>         ),
>         FlowEngine(dead=1,label="flow"),#introduced as a dead engine for
> the moment, see 2nd section
>
> GlobalStiffnessTimeStepper(active=1,timeStepUpdateInterval=100,timestepSafetyCoefficient=0.8),
>         triax,
>         newton,
> ]
>
> triax.goal1=triax.goal2=triax.goal3=-10000
>
> while 1:
>   O.run(1000,1)
>   unb=unbalancedForce()
>   if unb<0.001 and abs(-10000-triax.meanStress)/10000<0.001:
>     break
>
> setContactFriction(radians(finalFricDegree))
>
> ## ______________   Oedometer section   _________________
>
> triax.stressMask=7
> triax.goal1=triax.goal2=triax.goal3=-10000
>
> #B. Activate flow engine and set boundary conditions in order to get
> permeability
>
> flow.dead=0
> flow.defTolerance=0.3
> flow.meshUpdateInterval=100
> flow.useSolver=3
> flow.permeabilityFactor=1
> flow.viscosity=10
> flow.bndCondIsPressure=[0,0,0,0,1,1]
> flow.bndCondValue=[0,0,0,0,100,0]
> flow.boundaryUseMaxMin=[0,0,0,0,0,0]
> O.dt=0.1e-4
> O.dynDt=False
>
> newton.damping=0
> triax.wall_back_activated=0
> O.engines=O.engines+[PyRunner(command='addPlotData()',iterPeriod=100),]
> O.engines=O.engines+[PyRunner(command='erosion()',iterPeriod=100),]
>
> def erosion():
>     global flag
>     global flag2
>     k=0
>     if flag:
>         for i in O.interactions:
>             if i.id1==5:
>                 if i.id2>5 and O.bodies[i.id2].shape.radius<0.1:
>                     k=i.id2
>                     O.interactions.erase(i.id1, i.id2)
>                     O.bodies.erase(k)
>                     flag2=1
>             if i.id2==5:
>                 if i.id1>5 and O.bodies[i.id1].shape.radius<0.1:
>                     k=i.id1
>                     O.interactions.erase(i.id1, i.id2)
>                     O.bodies.erase(k)
>                     flag2=1
>         if flag2:
>             flag=0
>             O.pause()
>             O.engines=O.engines[0:3]+O.engines[4:]
>             O.step()
>             O.step()
>
> O.engines=O.engines[0:3]+[FlowEngine(dead=0,label="flow"),]+O.engines[3:]
>             flow.defTolerance = 0.3
>             flow.meshUpdateInterval = 100
>             flow.useSolver = 3
>             flow.permeabilityFactor = 1
>             flow.viscosity = 10
>             flow.bndCondIsPressure = [0, 0, 0, 0, 1, 1]
>             flow.bndCondValue = [0, 0, 0, 0, 100, 0]
>             flow.boundaryUseMaxMin = [0, 0, 0, 0, 0, 0]
>             O.dt = 0.1e-4
>             O.dynDt = False
>             O.step()
>             O.step()
>             O.step()
>             flag=1
>             O.run()
> =============================================
>
> Best,
> Zhang Wenyue
>
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