SilbertPeriodic.h

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// This file is part of the MercuryDPM project (https://www.mercurydpm.org).
// Copyright (c), The MercuryDPM Developers Team. All rights reserved.
// License: BSD 3-Clause License; see the LICENSE file in the root directory.
 
#include <iomanip>
#include <string.h>
 
#include "Chute.h"
#include "Boundaries/PeriodicBoundary.h"
#include "Walls/InfiniteWall.h"
#include "Species/LinearViscoelasticFrictionSpecies.h"
 
class SilbertPeriodic : public Chute
{
public:
 
    SilbertPeriodic() {
        // Problem parameters
        setName("silbert");
        
        //time stepping
        setTimeStep(1e-4);
        setTimeMax(2000);
 
        //output parameters
        setSaveCount(50e4);
     
        //particle radii
        setInflowParticleRadius(.5);
        setFixedParticleRadius(.5);//getInflowParticleRadius());
        setRoughBottomType(MULTILAYER);
 
 
        //particle properties
        baseSpecies = nullptr;
        species = speciesHandler.copyAndAddObject(LinearViscoelasticFrictionSpecies());
        species->setDensity(6/constants::pi);
        species->setStiffness(2e5);
        species->setSlidingStiffness(2.0/7.0* species->getStiffness());
        species->setDissipation(25.0);
        //setSlidingDissipation(2.0/7.0*getDissipation());
        species->setSlidingDissipation(species->getDissipation());
        species->setSlidingFrictionCoefficient(0.5);
        inflowParticle_.setSpecies(species);
        
        //chute properties
        setChuteAngleAndMagnitudeOfGravity(24.0, 1.0);
        setChuteLength(20);
        setChuteWidth(10);
        setInflowVelocity(0);
        set_H(20);
        
        randomiseSpecies=false;
        nCreated_=0;
        
        restartFile.setFileType(FileType::MULTIPLE_FILES_PADDED);
        dataFile.setFileType(FileType::NO_FILE);
        fStatFile.setFileType(FileType::NO_FILE);
        eneFile.setFileType(FileType::ONE_FILE);
    }
    
    //void fix_hgrid() {
        //assume 1-2 levels are optimal (which is the case for mono and bidispersed) and set the cell size to min and max 
        // !this is not optimal for polydispersed
    //  Mdouble minCell = 2.*min(getFixedParticleRadius(),getMinInflowParticleRadius());
    //  Mdouble maxCell = 2.*max(getFixedParticleRadius(),getMaxInflowParticleRadius());
    //  if ((minCell==maxCell)|(minCell==0.)) set_HGRID_max_levels(1);
    //  else set_HGRID_max_levels(2);
    //  set_HGRID_cell_to_cell_ratio (1.0000001*maxCell/minCell);
    //}
 
    Mdouble getSlidingFrictionCoefficientBottom() {
        if (baseSpecies!= nullptr)
            return baseSpecies->getSlidingFrictionCoefficient();
        else return species->getSlidingFrictionCoefficient();
    }
    void setSlidingFrictionCoefficientBottom(Mdouble new_) {
        createBaseSpecies();
        baseSpecies->setSlidingFrictionCoefficient(new_);
    }
    virtual void createBaseSpecies() {
        //only create once
        static bool created=false;
        if (!created) {
            auto species1 = speciesHandler.copyAndAddObject(species);
            baseSpecies = speciesHandler.getMixedObject(species, species1);
            for (unsigned int i=0; i<particleHandler.getNumberOfObjects(); i++) {
                if (particleHandler.getObject(i)->isFixed())
                    particleHandler.getObject(i)->setSpecies(speciesHandler.getObject(1));
            }
        }
    }
 
    void set_study() {
      std::stringstream name;
        name << "H" << getInflowHeight() 
             << "A" << getChuteAngleDegrees() 
             << "L" << round(100.*getFixedParticleRadius()*2.)/100.
             << "M" << species->getSlidingFrictionCoefficient()
             << "B" << getSlidingFrictionCoefficientBottom();
        setName(name.str().c_str());
        //set_data_filename();
    }
 
    void set_study(int study_num) {
        //S=0-5: lambda = 0, 3./6., 4./6., 5./6., 1, 2
        //S=6-8: mu = 0, 1, inf
        //S=9-13: mub = 0,1,inf,1/4,1/8
        //S=14-15: mu = 1/4, 1/8
        //S=16-19: lambda = 1./6., 2./6., 1.5, 4
        //S=21-25: mub=1/16,1/32,1/64,1/128,1/1024
        //S=26-28: lambda=1/2, mub=1/16,1/128,1/1024
        //S=29-32: lambda=0, mub=1/16,1/128,1/1024,0
        //Case 37 set getSlidingDissipation()=0
        //Case 38 set eps=0.97
        //Case 39 set hertzian = true
        //Case 40, 41, 42: set Foerster glass, Lorenz steel, Lorenz glassv
        //Case 43, 44, 45, 46: set Silbert, Foerster glass, Lorenz steel, Lorenz glass with rolling friction
      logger(INFO, "Study %", study_num);
        
        if (study_num < 6) {
            // set mu_all = 0.5, vary lambda
            Mdouble Lambdas[] = {0, 3./6., 4./6., 5./6., 1, 2};
            setFixedParticleRadius(Lambdas[study_num]/2.);
            species->setSlidingFrictionCoefficient(0.5);
        } else if (study_num < 9) { //Case 6,7,8
            // set lambda = 1, vary mu_all
            Mdouble MuAll[] = {0, 1., 1e20};
            species->setSlidingFrictionCoefficient(MuAll[study_num-6]);
            setFixedParticleRadius(0.5);
        } else if (study_num < 12) { //Case 9,10,11
            // set lambda = 1, mu_all = 0.5, vary mu_bottom
            Mdouble MuBottom[] = {0, 1., 1e20};
            species->setSlidingFrictionCoefficient(0.5);
            setSlidingFrictionCoefficientBottom(MuBottom[study_num-9]);
            setFixedParticleRadius(0.5);
        } else if (study_num < 14) { //Case 12,13
            // set lambda = 1, mu_all = 0.5, vary mu_bottom
            Mdouble MuBottom[] = {0.25, 0.125};
            species->setSlidingFrictionCoefficient(0.5);
            setSlidingFrictionCoefficientBottom(MuBottom[study_num-12]);
            setFixedParticleRadius(0.5);
        } else if (study_num < 16) { //Case 14,15
            // set lambda = 1, vary mu_all
            Mdouble MuAll[] = {0.25, 0.125};
            species->setSlidingFrictionCoefficient(MuAll[study_num-14]);
            setFixedParticleRadius(0.5);
        } else if (study_num < 21) { //Case 16,17,18,19,20
            // set mu_all = 0.5, vary lambda
            Mdouble Lambdas[] = {1./6., 2./6., 1.5, 4, 1./12};
            setFixedParticleRadius(Lambdas[study_num-16]/2.);
            species->setSlidingFrictionCoefficient(0.5);
        } else if (study_num < 26) { //Case 21 22 23 24 25
            // set lambda = 1, mu_all = 0.5, vary mu_bottom
            Mdouble MuBottom[] = {1./16.,1./32.,1./64.,1./128.,1./1024.};
            species->setSlidingFrictionCoefficient(0.5);
            setSlidingFrictionCoefficientBottom(MuBottom[study_num-21]);
            setFixedParticleRadius(0.5);
        } else if (study_num < 29) { //Case 26 27 28
            // set lambda = 1/2, mu_all = 0.5, vary mu_bottom
            Mdouble MuBottom[] = {1./16.,1./128.,1./1024.};
            species->setSlidingFrictionCoefficient(0.5);
            setSlidingFrictionCoefficientBottom(MuBottom[study_num-26]);
            setFixedParticleRadius(0.25);
        } else if (study_num < 33) { //Case 29 30 31 32
            // set lambda = 0, mu_all = 0.5, vary mu_bottom
            Mdouble MuBottom[] = {1./16.,1./128.,1./1024.,0};
            species->setSlidingFrictionCoefficient(0.5);
            setSlidingFrictionCoefficientBottom(MuBottom[study_num-29]);
            setFixedParticleRadius(0);
        } else if (study_num < 37) { //Case 33-36
            logger(INFO, "S %", study_num);
            // set lambda = 1, mu_b = 0.5, vary mu
            Mdouble Mu[] = {1e20,1,1./64,0};
            species->setSlidingFrictionCoefficient(Mu[study_num-33]);
            setSlidingFrictionCoefficientBottom(0.5);
            setFixedParticleRadius(1);
        } else if (study_num < 38) { //Case 37
            // set getSlidingDissipation()=0
          species->setSlidingDissipation(0);            
        } else if (study_num < 39) { //Case 38
            // set eps=0.97
            Mdouble eps = 0.97;
            species->setStiffnessAndRestitutionCoefficient(species->getStiffness(), eps, 1);
            species->setSlidingDissipation(species->getDissipation());          
        } else if (study_num < 40)
        { //Case 39
            // set hertzian = true
            logger(INFO, "Hertzian implementation has been changed");
            exit(-1);
            //set_Hertzian(true);
        } else if (study_num < 43) { //Case 40, 41, 42
            // set Foerster glass, Lorenz steel, Lorenz glass
            Mdouble eps[] = {0.97 , 0.95 , 0.972};
            Mdouble beta[]= {0.44 , 0.32 , 0.25 };
            Mdouble mu[]  = {0.092, 0.099, 0.177};
            species->setSlidingFrictionCoefficient(mu[study_num-40]);
            species->setCollisionTimeAndNormalAndTangentialRestitutionCoefficient
                (50.*getTimeStep(), eps[study_num-40], beta[study_num-40], 1);
        } else if (study_num < 47) { //Case 43, 44, 45, 46
            // set Silbert, Foerster glass, Lorenz steel, Lorenz glass with rolling friction
            Mdouble eps[] = {0.97 , 0.95 , 0.972};
            Mdouble beta[]= {0.44 , 0.32 , 0.25 };
            Mdouble mu[]  = {0.092, 0.099, 0.177};
            if (study_num!=43) {
              species->setSlidingFrictionCoefficient(mu[study_num-44]);
              species->setCollisionTimeAndNormalAndTangentialRestitutionCoefficient
                    (50.*getTimeStep(), eps[study_num-44], beta[study_num-44], 1);
            }
            species->setRollingStiffness(0.4*species->getStiffness());
            species->setRollingFrictionCoefficient(0.05);
        } else if (study_num < 48) { //Case 47
            // set lambda = 1, mu_all = 0.5, vary mu_half
            Mdouble MuHalf[] = {0};
            species->setSlidingFrictionCoefficient(MuHalf[study_num-47]);
            setSlidingFrictionCoefficientBottom(0.5);
            setFixedParticleRadius(0.5);
            randomiseSpecies = true;
        } else if (study_num < 52) { //Case 48, 49, 50, 51
            // set vary eps
            Mdouble eps[] = {0.001, 0.01, 0.1, 1};
            species->setCollisionTimeAndNormalAndTangentialRestitutionCoefficient
                    (50.*getTimeStep(), eps[study_num-48], eps[study_num-48], 1);
            species->setSlidingFrictionCoefficient(0.0);
        } else if (study_num < 53) { //Case 52
        } else if (study_num < 54) { //Case 53
            logger(INFO, "using mu=0.3, r=0.1");
            species->setSlidingFrictionCoefficient(0.3);
            species->setCollisionTimeAndNormalAndTangentialRestitutionCoefficient
                     (50.*getTimeStep(),0.1,0.1,1);
        } else if (study_num < 55) { //Case 54
            logger(INFO, "using mu=0.3, r=0.88");
            species->setSlidingFrictionCoefficient(0.3);
            species->setCollisionTimeAndNormalAndTangentialRestitutionCoefficient
                     (50.*getTimeStep(),0.88,0.88,1);
        } else
        {
            //If study_num is complete quit
            logger(VERBOSE, "Study is complete ");
            exit(0);
        }
        //Note make sure h and a is defined
        if (study_num < 37 || (study_num>=53&&study_num<=55)) 
        {
            set_study(); 
        }
        else 
        {
          std::stringstream name;
            name << "S" << study_num; 
            dataFile.setName(name.str().c_str());
            //set_data_filename();
        }
 
    }
 
    //Do not add or remove particles
    virtual void actionsBeforeTimeStep() override { };
        
    //Set up periodic walls, rough bottom, add flow particles
    void setupInitialConditions() override
    {
        //fix_hgrid();
        particleHandler.setStorageCapacity(particleHandler.getNumberOfObjects()+getChuteLength()*getChuteWidth()*getZMax());//why is this line needed?
        
        createBottom();
        //~ write(std::cout,false);
        //cout << "correct fixed" << endl;
        if (speciesHandler.getNumberOfObjects()>1) {
            for (unsigned int i=0; i<particleHandler.getNumberOfObjects(); i++)
                if (particleHandler.getObject(i)->isFixed()) 
                    particleHandler.getObject(i)->setSpecies(speciesHandler.getObject(1));
        }
 
        wallHandler.clear();
        InfiniteWall w0;
        w0.setSpecies(speciesHandler.getObject(0));
        if (getFixedParticleRadius()) {
            w0.set(Vec3D(0,0,-1), Vec3D(0,0,-3.4* getMaxInflowParticleRadius()));
        } else {
            w0.set(Vec3D(0,0,-1), Vec3D(0,0,0));
        }
        wallHandler.copyAndAddObject(w0);
        
        PeriodicBoundary b0;
        b0.set(Vec3D(1.0, 0.0, 0.0), getXMin(), getXMax());
        boundaryHandler.copyAndAddObject(b0);
        b0.set(Vec3D(0.0, 1.0, 0.0), getYMin(), getYMax());
        boundaryHandler.copyAndAddObject(b0);
        
        add_flow_particles();
        
        logger(INFO, "\nStatus before solve:");
//      std::cout
//          << "tc=" << getCollisionTime()
//          << ", eps=" << getRestitutionCoefficient()
//          << ", vmax=" << getInflowParticle()->calculateMaximumVelocity(getSpecies())
//          << ", inflowHeight/zMax=" << getInflowHeight()/getZMax()
//          << std::endl << std::endl;
        //~ timer.set(t,tmax);
        
        //optimize number of buckets
        logger(INFO, "Nmax %", particleHandler.getStorageCapacity());
        //setHGridNumberOfBucketsToPower(particleHandler.getNumberOfObjects()*1.5);
    }
 
    //add flow particles
    void add_flow_particles() 
    {
        //setHGridNumberOfBucketsToPower(particleHandler.getStorageCapacity());
        hGridActionsBeforeTimeLoop();
        checkAndDuplicatePeriodicParticles();
        hGridActionsBeforeTimeStep();
        unsigned int N=getChuteLength()*getChuteWidth()* getInflowHeight();
        particleHandler.setStorageCapacity(particleHandler.getNumberOfObjects()+1.5*N);
        Mdouble H = getInflowHeight();
        setZMax(1.0*getInflowHeight());
        //uncomment the following line to achieve a high packing fraction
        setInflowHeight(getZMin()+inflowParticle_.getRadius());
 
        writeRestartFile();
        //try to find new insertable particles
        while (getNCreated()<N){
            create_inflow_particle();
            if (checkParticleForInteraction(inflowParticle_)) {
                BaseParticle* p = particleHandler.copyAndAddObject(inflowParticle_);
                //duplicate particle
                for (BaseBoundary* it : boundaryHandler)
                    it->createPeriodicParticle(p, particleHandler);
                p = particleHandler.getLastObject();
                //duplicate duplicate particles (this is a hack which is needed as there are two boundaries, so the doubly periodic images are needed)
                for (BaseBoundary* it : boundaryHandler)
                    it->createPeriodicParticle(p, particleHandler);
                //hGridActionsBeforeTimeStep();
                increaseNCreated();
            } else setInflowHeight(getInflowHeight() + .0001* getMaxInflowParticleRadius());
        }
        for (unsigned int i = particleHandler.getNumberOfObjects(); i >= 1; i--)
        if (particleHandler.getObject(i - 1)->getPeriodicFromParticle() != nullptr)
        {
            while (particleHandler.getObject(i - 1)->getInteractions().size() > 0)
            {
                interactionHandler.removeObjectKeepingPeriodics(particleHandler.getObject(i - 1)->getInteractions().front()->getIndex());
            }
            particleHandler.removeObject(i - 1);
        }
        setInflowHeight(H);
        //setHGridNumberOfBucketsToPower();
        write(std::cout,false);
    }
    
    //defines type of flow particles    
    void create_inflow_particle()
    {
        inflowParticle_.setRadius(random.getRandomNumber(getMinInflowParticleRadius(), getMaxInflowParticleRadius()));
        //inflowParticle_.computeMass();
        
        //The position components are first stored in a Vec3D, because if you pass them directly into setPosition the compiler is allowed to change the order in which the numbers are generated
        Vec3D position;
        position.X = random.getRandomNumber(getXMin(), getXMax());
        position.Y = random.getRandomNumber(getYMin(), getYMax());
        position.Z = random.getRandomNumber(getZMin() + inflowParticle_.getRadius(), getInflowHeight());
        inflowParticle_.setPosition(position);
        inflowParticle_.setVelocity(Vec3D(getInflowVelocity(), 0.0, 0.0));
        if (randomiseSpecies)
        {
            int indSpecies = floor(random.getRandomNumber(0, speciesHandler.getNumberOfObjects() - 1e-200));
            inflowParticle_.setSpecies(speciesHandler.getObject(indSpecies));
        }
    }
    
    //set approximate height of flow
    void set_H(Mdouble new_)
    {
        setInflowHeight(new_);
        setZMax(getInflowHeight());
    }
    
    Mdouble get_H()
    { return getInflowHeight(); }
    
    void printTime() const override
    {
        logger(INFO, "t=%3.6"
                     ", tmax=%3.6"
                     ", N=%3.6"
                     ", theta=%3.6",
               getTime(), getTimeMax(), particleHandler.getNumberOfObjects(), getChuteAngleDegrees());
        //<< ", time left=" << setprecision(3) << left << setw(6) << timer.getTime2Finish(t)
        //~ << ", finish by " << setprecision(3) << left << setw(6) << timer.getFinishTime(t)
    }
    
    bool readNextArgument(int& i, int argc, char* argv[]) override
    {
        if (!strcmp(argv[i], "-muBottom"))
        {
            setSlidingFrictionCoefficientBottom(atof(argv[i + 1]));
            logger(INFO, "muB=%", getSlidingFrictionCoefficientBottom());
        }
        else if (!strcmp(argv[i], "-oldValues"))
        {
            species->setSlidingDissipation(species->getDissipation());
            logger(INFO, "getSlidingDissipation()=%", species->getSlidingDissipation());
        }
        else return Chute::readNextArgument(i, argc, argv); //if argv[i] is not found, check the commands in Chute
        return true; //returns true if argv[i] is found
    }
    
    int getNCreated() const
    {
        return nCreated_;
    }
    
    void increaseNCreated()
    {
        nCreated_++;
    }
 
    int nCreated_;
    bool randomiseSpecies;
    SphericalParticle inflowParticle_;
 
    LinearViscoelasticFrictionSpecies* species;
    LinearViscoelasticFrictionMixedSpecies* baseSpecies;
};