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[Chareyre <question676382@xxxxxxxxxxxxxxxxxxxxx>]

Question #676382 on Yade changed:
https://answers.launchpad.net/yade/+question/676382

    Status: Open => Answered

Chareyre proposed the following answer:
Hi,  sorry to hear that you still have a problem. I don't understand why
you are sending another script.
Fixing the issue would need your cooperation and consistent replies to our
questions, ideally in a single thread.
At the moment it looks more like spamming - sorry.
Bruno


Le mar. 25 déc. 2018 03:08, SayedHessam <
question676382@xxxxxxxxxxxxxxxxxxxxx> a écrit :

> Question #676382 on Yade changed:
> https://answers.launchpad.net/yade/+question/676382
>
> SayedHessam posted a new comment:
> Dear Bruno,
>
> I tried to run a triaxial simulation based on the JCFpmMat with a simple
> script but still is not working properly.
>
> Please find here in my script:
>
>
> from yade import pack,plot
> from yade import export, ymport
> import random
> from yade import utils
> import numpy as np
>
> ############################################
> ### DEFINING VARIABLES AND MATERIALS ###
> ############################################
>
> # The following 5 lines will be used later for batch execution
> nRead=readParamsFromTable(
>  num_spheres=1000,# number of spheres
>  compFricDegree =30, # contact friction during the confining phase
>  key='_TriaxJ2_', # put you simulation's name here
>  unknownOk=True
> )
> from yade.params import table
>
> num_spheres=table.num_spheres# number of spheres
> key=table.key
> targetPorosity = 0.5 #the porosity we want for the packing
> frictionAngle = 30# contact friction during the deviatoric loading
> finalFricDegree = 30
> rate=-0.02 # loading rate (strain rate)
> damp=0.1 # Newton damping
> stabilityThreshold=0.01 # we test unbalancedForce against this value in
> different loops (see below)
> iterper=1000
> young=4.5e5# contact stiffness
> poisson=0.25
> cohesion=20e6
> tensileStrength = 7e6
> density = 1950
> intRadius= 1
>
>
> mn,mx=Vector3(0,0,0),Vector3(.1,.1,.1) # corners of the initial packing
>
>
> O.materials.append(JCFpmMat(young=young, cohesion=cohesion,
> density=density, frictionAngle=radians(frictionAngle),
> tensileStrength=tensileStrength, poisson=poisson,label='spheres'))
>
> #frictionless walls
>
> O.materials.append(FrictMat(young=80e9,poisson=.45,frictionAngle=radians(frictionAngle),density=7000,label='walls'))
>
> ## 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()
>
>
> ###########################
> ## DEFINING ENGINES ###
> ###########################
>
> 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
>  maxMultiplier=1.+2e4/young, # spheres growing factor (fast growth)
>  finalMaxMultiplier=1.+2e3/young, # spheres growing factor (slow growth)
>  thickness = 0,
>  stressMask = 7,
>  internalCompaction=False, # If true the confining pressure is generated
> by growing particles
> )
>
> newton=NewtonIntegrator(damping=damp, gravity=[0,0,0])
> ########################################
> #Modified engine
> ##################################
> O.engines=[
>         ForceResetter(),
>
> InsertionSortCollider([Bo1_Sphere_Aabb(aabbEnlargeFactor=intRadius),Bo1_Box_Aabb()]),
>         InteractionLoop(
>
> [Ig2_Sphere_Sphere_ScGeom(interactionDetectionFactor=intRadius),Ig2_Box_Sphere_ScGeom()],
>
> [Ip2_FrictMat_FrictMat_FrictPhys(),Ip2_JCFpmMat_JCFpmMat_JCFpmPhys(cohesiveTresholdIteration=1,
> label='jcf')],
>
> #[Ip2_CohFrictMat_CohFrictMat_CohFrictPhys(setCohesionNow=True,label="cohesiveIp")],
>
> [Law2_ScGeom_JCFpmPhys_JointedCohesiveFrictionalPM(smoothJoint=True,label='interactionLaw',
> recordCracks=True),Law2_ScGeom_FrictPhys_CundallStrack()]
>   #[Law2_ScGeom_CohFrictPhys_CohesionMoment(
>    #useIncrementalForm=True, #useIncrementalForm is turned on as we want
> plasticity on the contact moments
>    #always_use_moment_law=True, #if we want "rolling" friction even if the
> contact is not cohesive (or cohesion is broken), we will have to turn this
> true somewhere
>    #label='cohesiveLaw')]
>         ),
>         ## We will use the global stiffness of each body to determine an
> optimal timestep (see
> https://yade-dem.org/w/images/1/1b/Chareyre&Villard2005_licensed.pdf)
>
> GlobalStiffnessTimeStepper(active=1,timeStepUpdateInterval=100,timestepSafetyCoefficient=0.05),
>         triax,
>
> #VTKRecorder(iterPeriod=100,initRun=True,fileName='VTKFiles/'+'-',recorders=['all']),
>         TriaxialStateRecorder(iterPeriod=100,file='Wall stress,'+key),
>         newton
> ]
>
> ##########################################################
> #Display spheres with 2 colors for seeing rotations better
> Gl1_Sphere.stripes=0
> if nRead==0: yade.qt.Controller(), yade.qt.View()
>
> ## UNCOMMENT THE FOLLOWING SECTIONS ONE BY ONE
> ## DEPENDING ON YOUR EDITOR, IT COULD BE DONE
> ## BY SELECTING THE CODE BLOCKS BETWEEN THE SUBTITLES
> ## AND PRESSING CTRL+SHIFT+D
> #if nRead==0: yade.qt.Controller(), yade.qt.View()
> print 'Number of elements: ', len(O.bodies)
> print 'Box Volume: ', triax.boxVolume
> #######################################
> ### APPLYING CONFINING PRESSURE ###
> #######################################
>
> #the value of (isotropic) confining stress defines the target stress to be
> applied in all three directions
> triax.goal1=triax.goal2=triax.goal3=-150000
>
> ###################################################
> ### REACHING A SPECIFIED POROSITY PRECISELY ###
> ###################################################
>
> ### We will reach a prescribed value of porosity with the REFD algorithm
> ### (see http://dx.doi.org/10.2516/ogst/2012032 and
> ###
> http://www.geosyntheticssociety.org/Resources/Archive/GI/src/V9I2/GI-V9-N2-Paper1.pdf
> )
>
>
> while triax.porosity>targetPorosity:
>  ## we decrease friction value and apply it to all the bodies and contacts
>  frictionAngle = 0.95*frictionAngle
>  setContactFriction(radians(frictionAngle))
>  print "\r Friction: ",frictionAngle," porosity:",triax.porosity,
>  sys.stdout.flush()
>  ## while we run steps, triax will tend to grow particles as the packing
>  ## keeps shrinking as a consequence of decreasing friction. Consequently
>  ## porosity will decrease
>  O.run(500,1)
>
> O.save('compactedStateJ2'+key+'.yade.gz')
> print "### Compacted state saved ###"
>
> ##############################
> ### DEVIATORIC LOADING ###
> ##############################
>
> ##We move to deviatoric loading, let us turn internal compaction off to
> keep particles sizes constant
> triax.internalCompaction=False
>
> ## Change contact friction (remember that decreasing it would generate
> instantaneous instabilities)
> setContactFriction(radians(finalFricDegree))
>
> ##set stress control on x and z, we will impose strain rate on y
> triax.stressMask = 5
> ##now goal2 is the target strain rate
> triax.goal2=rate
> ## we define the lateral stresses during the test, here the same 10kPa as
> for the initial confinement.
> triax.goal1=-150000
> triax.goal3=-150000
>
> ##we can change damping here. What is the effect in your opinion?
> #newton.damping=0.1
>
> ###########
> ##############
>
> ##Save temporary state in live memory. This state will be reloaded from
> the interface with the "reload" button.
> O.saveTmp()
>
> #####################################################
> ### Example of how to record and plot data ###
> #####################################################
>
> #from yade import plot
>
> ### a function saving variables
> def history():
>    plot.addData(e11=-triax.strain[0], e22=-triax.strain[1],
> e33=-triax.strain[2],
>         ev=-triax.strain[0]-triax.strain[1]-triax.strain[2],
>       s11=-triax.stress(triax.wall_right_id)[0],
>       s22=-triax.stress(triax.wall_top_id)[1],
>       s33=-triax.stress(triax.wall_front_id)[2],
>       i=O.iter)
>
> if 1:
>   ## include a periodic engine calling that function in the simulation loop
>
> O.engines=O.engines[0:5]+[PyRunner(iterPeriod=20,command='history()',label='recorder')]+O.engines[5:7]
>
> ##O.engines.insert(4,PyRunner(iterPeriod=20,command='history()',label='recorder'))
> else:
>   ## With the line above, we are recording some variables twice. We could
> in fact replace the previous
>   ## TriaxialRecorder
>   ## by our periodic engine. Uncomment the following line:
>   O.engines[4]=PyRunner(iterPeriod=20,command='history()',label='recorder')
>
>   #NOTE, that after replacing some overlaps may occur.
> #So after replacing calm() function may be helpful:
> #if 0:
>         #print '\nPlease wait a minute ...\n'
>
> #O.engines=O.engines+[PyRunner(iterPeriod=10000,command='calm()',label='calmRunner')]
>         #O.run(1000000,True)
>         #calmRunner.dead=True
>
> O.run(100,True)
>
> ### declare what is to plot. "None" is for separating y and y2 axis
> #plot.plots={'i':('e11','e22','e33',None,'s11','s22','s33')}
> ### the traditional triaxial curves would be more like this:
> #plot.plots={'e22':('s11','s22','s33',None,'ev')}
> plot.plots={'e22':('s11','s22')}
>
> ## display on the screen (doesn't work on VMware image it seems)
> plot.plot()
>
> ##### PLAY THE SIMULATION HERE WITH "PLAY" BUTTON OR WITH THE COMMAND
> O.run(N) #####
>
> ## In that case we can still save the data to a text file at the the end
> of the simulation, with:
> plot.saveDataTxt('resultsJ2'+key)
> ##or even generate a script for gnuplot. Open another terminal and type
> "gnuplot plotScriptKEY.gnuplot:
> plot.saveGnuplot('plotScriptJ2'+key)
> rr=yade.qt.Renderer()
> rr.shape=True
> rr.intrPhys=False
>
>
> Regards
> Hessam
>
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