ex37.hpp

Go to the documentation of this file.

//                  MFEM Example 37 - Serial/Parallel Shared Code

#include "mfem.hpp"
#include <fstream>
#include <iostream>
#include <functional>

namespace mfem
{

/// @brief Inverse sigmoid function
double inv_sigmoid(double x)
{
   double tol = 1e-12;
   x = std::min(std::max(tol,x),1.0-tol);
   return std::log(x/(1.0-x));
}

/// @brief Sigmoid function
double sigmoid(double x)
{
   if (x >= 0)
   {
      return 1.0/(1.0+std::exp(-x));
   }
   else
   {
      return std::exp(x)/(1.0+std::exp(x));
   }
}

/// @brief Derivative of sigmoid function
double der_sigmoid(double x)
{
   double tmp = sigmoid(-x);
   return tmp - std::pow(tmp,2);
}

/// @brief Returns f(u(x)) where u is a scalar GridFunction and f:R → R
class MappedGridFunctionCoefficient : public GridFunctionCoefficient
{
protected:
   std::function<double(const double)> fun; // f:R → R
public:
   MappedGridFunctionCoefficient()
      :GridFunctionCoefficient(),
       fun([](double x) {return x;}) {}
   MappedGridFunctionCoefficient(const GridFunction *gf,
                                 std::function<double(const double)> fun_,
                                 int comp=1)
      :GridFunctionCoefficient(gf, comp),
       fun(fun_) {}


   virtual double Eval(ElementTransformation &T,
                       const IntegrationPoint &ip)
   {
      return fun(GridFunctionCoefficient::Eval(T, ip));
   }
   void SetFunction(std::function<double(const double)> fun_) { fun = fun_; }
};


/// @brief Returns f(u(x)) - f(v(x)) where u, v are scalar GridFunctions and f:R → R
class DiffMappedGridFunctionCoefficient : public GridFunctionCoefficient
{
protected:
   const GridFunction *OtherGridF;
   GridFunctionCoefficient OtherGridF_cf;
   std::function<double(const double)> fun; // f:R → R
public:
   DiffMappedGridFunctionCoefficient()
      :GridFunctionCoefficient(),
       OtherGridF(nullptr),
       OtherGridF_cf(),
       fun([](double x) {return x;}) {}
   DiffMappedGridFunctionCoefficient(const GridFunction *gf,
                                     const GridFunction *other_gf,
                                     std::function<double(const double)> fun_,
                                     int comp=1)
      :GridFunctionCoefficient(gf, comp),
       OtherGridF(other_gf),
       OtherGridF_cf(OtherGridF),
       fun(fun_) {}

   virtual double Eval(ElementTransformation &T,
                       const IntegrationPoint &ip)
   {
      const double value1 = fun(GridFunctionCoefficient::Eval(T, ip));
      const double value2 = fun(OtherGridF_cf.Eval(T, ip));
      return value1 - value2;
   }
   void SetFunction(std::function<double(const double)> fun_) { fun = fun_; }
};

/// @brief Solid isotropic material penalization (SIMP) coefficient
class SIMPInterpolationCoefficient : public Coefficient
{
protected:
   GridFunction *rho_filter;
   double min_val;
   double max_val;
   double exponent;

public:
   SIMPInterpolationCoefficient(GridFunction *rho_filter_, double min_val_= 1e-6,
                                double max_val_ = 1.0, double exponent_ = 3)
      : rho_filter(rho_filter_), min_val(min_val_), max_val(max_val_),
        exponent(exponent_) { }

   virtual double Eval(ElementTransformation &T, const IntegrationPoint &ip)
   {
      double val = rho_filter->GetValue(T, ip);
      double coeff = min_val + pow(val,exponent)*(max_val-min_val);
      return coeff;
   }
};


/// @brief Strain energy density coefficient
class StrainEnergyDensityCoefficient : public Coefficient
{
protected:
   Coefficient * lambda=nullptr;
   Coefficient * mu=nullptr;
   GridFunction *u = nullptr; // displacement
   GridFunction *rho_filter = nullptr; // filter density
   DenseMatrix grad; // auxiliary matrix, used in Eval
   double exponent;
   double rho_min;

public:
   StrainEnergyDensityCoefficient(Coefficient *lambda_, Coefficient *mu_,
                                  GridFunction * u_, GridFunction * rho_filter_, double rho_min_=1e-6,
                                  double exponent_ = 3.0)
      : lambda(lambda_), mu(mu_),  u(u_), rho_filter(rho_filter_),
        exponent(exponent_), rho_min(rho_min_)
   {
      MFEM_ASSERT(rho_min_ >= 0.0, "rho_min must be >= 0");
      MFEM_ASSERT(rho_min_ < 1.0,  "rho_min must be > 1");
      MFEM_ASSERT(u, "displacement field is not set");
      MFEM_ASSERT(rho_filter, "density field is not set");
   }

   virtual double Eval(ElementTransformation &T, const IntegrationPoint &ip)
   {
      double L = lambda->Eval(T, ip);
      double M = mu->Eval(T, ip);
      u->GetVectorGradient(T, grad);
      double div_u = grad.Trace();
      double density = L*div_u*div_u;
      int dim = T.GetSpaceDim();
      for (int i=0; i<dim; i++)
      {
         for (int j=0; j<dim; j++)
         {
            density += M*grad(i,j)*(grad(i,j)+grad(j,i));
         }
      }
      double val = rho_filter->GetValue(T,ip);

      return -exponent * pow(val, exponent-1.0) * (1-rho_min) * density;
   }
};

/// @brief Volumetric force for linear elasticity
class VolumeForceCoefficient : public VectorCoefficient
{
private:
   double r;
   Vector center;
   Vector force;
public:
   VolumeForceCoefficient(double r_,Vector &  center_, Vector & force_) :
      VectorCoefficient(center_.Size()), r(r_), center(center_), force(force_) { }

   using VectorCoefficient::Eval;

   virtual void Eval(Vector &V, ElementTransformation &T,
                     const IntegrationPoint &ip)
   {
      Vector xx; xx.SetSize(T.GetDimension());
      T.Transform(ip,xx);
      for (int i=0; i<xx.Size(); i++)
      {
         xx[i]=xx[i]-center[i];
      }

      double cr=xx.Norml2();
      V.SetSize(T.GetDimension());
      if (cr <= r)
      {
         V = force;
      }
      else
      {
         V = 0.0;
      }
   }

   void Set(double r_,Vector & center_, Vector & force_)
   {
      r=r_;
      center = center_;
      force = force_;
   }
};

/**
 * @brief Class for solving Poisson's equation:
 *
 *       - ∇ ⋅(κ ∇ u) = f  in Ω
 *
 */
class DiffusionSolver
{
private:
   Mesh * mesh = nullptr;
   int order = 1;
   // diffusion coefficient
   Coefficient * diffcf = nullptr;
   // mass coefficient
   Coefficient * masscf = nullptr;
   Coefficient * rhscf = nullptr;
   Coefficient * essbdr_cf = nullptr;
   Coefficient * neumann_cf = nullptr;
   VectorCoefficient * gradient_cf = nullptr;

   // FEM solver
   int dim;
   FiniteElementCollection * fec = nullptr;
   FiniteElementSpace * fes = nullptr;
   Array<int> ess_bdr;
   Array<int> neumann_bdr;
   GridFunction * u = nullptr;
   LinearForm * b = nullptr;
   bool parallel;
#ifdef MFEM_USE_MPI
   ParMesh * pmesh = nullptr;
   ParFiniteElementSpace * pfes = nullptr;
#endif

public:
   DiffusionSolver() { }
   DiffusionSolver(Mesh * mesh_, int order_, Coefficient * diffcf_,
                   Coefficient * cf_);

   void SetMesh(Mesh * mesh_)
   {
      mesh = mesh_;
      parallel = false;
#ifdef MFEM_USE_MPI
      pmesh = dynamic_cast<ParMesh *>(mesh);
      if (pmesh) { parallel = true; }
#endif
   }
   void SetOrder(int order_) { order = order_ ; }
   void SetDiffusionCoefficient(Coefficient * diffcf_) { diffcf = diffcf_; }
   void SetMassCoefficient(Coefficient * masscf_) { masscf = masscf_; }
   void SetRHSCoefficient(Coefficient * rhscf_) { rhscf = rhscf_; }
   void SetEssentialBoundary(const Array<int> & ess_bdr_) { ess_bdr = ess_bdr_;};
   void SetNeumannBoundary(const Array<int> & neumann_bdr_) { neumann_bdr = neumann_bdr_;};
   void SetNeumannData(Coefficient * neumann_cf_) {neumann_cf = neumann_cf_;}
   void SetEssBdrData(Coefficient * essbdr_cf_) {essbdr_cf = essbdr_cf_;}
   void SetGradientData(VectorCoefficient * gradient_cf_) {gradient_cf = gradient_cf_;}

   void ResetFEM();
   void SetupFEM();

   void Solve();
   GridFunction * GetFEMSolution();
   LinearForm * GetLinearForm() {return b;}
#ifdef MFEM_USE_MPI
   ParGridFunction * GetParFEMSolution();
   ParLinearForm * GetParLinearForm()
   {
      if (parallel)
      {
         return dynamic_cast<ParLinearForm *>(b);
      }
      else
      {
         MFEM_ABORT("Wrong code path. Call GetLinearForm");
         return nullptr;
      }
   }
#endif

   ~DiffusionSolver();

};

/**
 * @brief Class for solving linear elasticity:
 *
 *        -∇ ⋅ σ(u) = f  in Ω  + BCs
 *
 *  where
 *
 *        σ(u) = λ ∇⋅u I + μ (∇ u + ∇uᵀ)
 *
 */
class LinearElasticitySolver
{
private:
   Mesh * mesh = nullptr;
   int order = 1;
   Coefficient * lambda_cf = nullptr;
   Coefficient * mu_cf = nullptr;
   VectorCoefficient * essbdr_cf = nullptr;
   VectorCoefficient * rhs_cf = nullptr;

   // FEM solver
   int dim;
   FiniteElementCollection * fec = nullptr;
   FiniteElementSpace * fes = nullptr;
   Array<int> ess_bdr;
   Array<int> neumann_bdr;
   GridFunction * u = nullptr;
   LinearForm * b = nullptr;
   bool parallel;
#ifdef MFEM_USE_MPI
   ParMesh * pmesh = nullptr;
   ParFiniteElementSpace * pfes = nullptr;
#endif

public:
   LinearElasticitySolver() { }
   LinearElasticitySolver(Mesh * mesh_, int order_,
                          Coefficient * lambda_cf_, Coefficient * mu_cf_);

   void SetMesh(Mesh * mesh_)
   {
      mesh = mesh_;
      parallel = false;
#ifdef MFEM_USE_MPI
      pmesh = dynamic_cast<ParMesh *>(mesh);
      if (pmesh) { parallel = true; }
#endif
   }
   void SetOrder(int order_) { order = order_ ; }
   void SetLameCoefficients(Coefficient * lambda_cf_, Coefficient * mu_cf_) { lambda_cf = lambda_cf_; mu_cf = mu_cf_;  }
   void SetRHSCoefficient(VectorCoefficient * rhs_cf_) { rhs_cf = rhs_cf_; }
   void SetEssentialBoundary(const Array<int> & ess_bdr_) { ess_bdr = ess_bdr_;};
   void SetNeumannBoundary(const Array<int> & neumann_bdr_) { neumann_bdr = neumann_bdr_;};
   void SetEssBdrData(VectorCoefficient * essbdr_cf_) {essbdr_cf = essbdr_cf_;}

   void ResetFEM();
   void SetupFEM();

   void Solve();
   GridFunction * GetFEMSolution();
   LinearForm * GetLinearForm() {return b;}
#ifdef MFEM_USE_MPI
   ParGridFunction * GetParFEMSolution();
   ParLinearForm * GetParLinearForm()
   {
      if (parallel)
      {
         return dynamic_cast<ParLinearForm *>(b);
      }
      else
      {
         MFEM_ABORT("Wrong code path. Call GetLinearForm");
         return nullptr;
      }
   }
#endif

   ~LinearElasticitySolver();

};


// Poisson solver

DiffusionSolver::DiffusionSolver(Mesh * mesh_, int order_,
                                 Coefficient * diffcf_, Coefficient * rhscf_)
   : mesh(mesh_), order(order_), diffcf(diffcf_), rhscf(rhscf_)
{

#ifdef MFEM_USE_MPI
   pmesh = dynamic_cast<ParMesh *>(mesh);
   if (pmesh) { parallel = true; }
#endif

   SetupFEM();
}

void DiffusionSolver::SetupFEM()
{
   dim = mesh->Dimension();
   fec = new H1_FECollection(order, dim);

#ifdef MFEM_USE_MPI
   if (parallel)
   {
      pfes = new ParFiniteElementSpace(pmesh, fec);
      u = new ParGridFunction(pfes);
      b = new ParLinearForm(pfes);
   }
   else
   {
      fes = new FiniteElementSpace(mesh, fec);
      u = new GridFunction(fes);
      b = new LinearForm(fes);
   }
#else
   fes = new FiniteElementSpace(mesh, fec);
   u = new GridFunction(fes);
   b = new LinearForm(fes);
#endif
   *u=0.0;

   if (!ess_bdr.Size())
   {
      if (mesh->bdr_attributes.Size())
      {
         ess_bdr.SetSize(mesh->bdr_attributes.Max());
         ess_bdr = 1;
      }
   }
}

void DiffusionSolver::Solve()
{
   OperatorPtr A;
   Vector B, X;
   Array<int> ess_tdof_list;

#ifdef MFEM_USE_MPI
   if (parallel)
   {
      pfes->GetEssentialTrueDofs(ess_bdr,ess_tdof_list);
   }
   else
   {
      fes->GetEssentialTrueDofs(ess_bdr,ess_tdof_list);
   }
#else
   fes->GetEssentialTrueDofs(ess_bdr,ess_tdof_list);
#endif
   *u=0.0;
   if (b)
   {
      delete b;
#ifdef MFEM_USE_MPI
      if (parallel)
      {
         b = new ParLinearForm(pfes);
      }
      else
      {
         b = new LinearForm(fes);
      }
#else
      b = new LinearForm(fes);
#endif
   }
   if (rhscf)
   {
      b->AddDomainIntegrator(new DomainLFIntegrator(*rhscf));
   }
   if (neumann_cf)
   {
      MFEM_VERIFY(neumann_bdr.Size(), "neumann_bdr attributes not provided");
      b->AddBoundaryIntegrator(new BoundaryLFIntegrator(*neumann_cf),neumann_bdr);
   }
   else if (gradient_cf)
   {
      MFEM_VERIFY(neumann_bdr.Size(), "neumann_bdr attributes not provided");
      b->AddBoundaryIntegrator(new BoundaryNormalLFIntegrator(*gradient_cf),
                               neumann_bdr);
   }

   b->Assemble();

   BilinearForm * a = nullptr;

#ifdef MFEM_USE_MPI
   if (parallel)
   {
      a = new ParBilinearForm(pfes);
   }
   else
   {
      a = new BilinearForm(fes);
   }
#else
   a = new BilinearForm(fes);
#endif
   a->AddDomainIntegrator(new DiffusionIntegrator(*diffcf));
   if (masscf)
   {
      a->AddDomainIntegrator(new MassIntegrator(*masscf));
   }
   a->Assemble();
   if (essbdr_cf)
   {
      u->ProjectBdrCoefficient(*essbdr_cf,ess_bdr);
   }
   a->FormLinearSystem(ess_tdof_list, *u, *b, A, X, B);

   CGSolver * cg = nullptr;
   Solver * M = nullptr;
#ifdef MFEM_USE_MPI
   if (parallel)
   {
      M = new HypreBoomerAMG;
      dynamic_cast<HypreBoomerAMG*>(M)->SetPrintLevel(0);
      cg = new CGSolver(pmesh->GetComm());
   }
   else
   {
      M = new GSSmoother((SparseMatrix&)(*A));
      cg = new CGSolver;
   }
#else
   M = new GSSmoother((SparseMatrix&)(*A));
   cg = new CGSolver;
#endif
   cg->SetRelTol(1e-12);
   cg->SetMaxIter(10000);
   cg->SetPrintLevel(0);
   cg->SetPreconditioner(*M);
   cg->SetOperator(*A);
   cg->Mult(B, X);
   delete M;
   delete cg;
   a->RecoverFEMSolution(X, *b, *u);
   delete a;
}

GridFunction * DiffusionSolver::GetFEMSolution()
{
   return u;
}

#ifdef MFEM_USE_MPI
ParGridFunction * DiffusionSolver::GetParFEMSolution()
{
   if (parallel)
   {
      return dynamic_cast<ParGridFunction*>(u);
   }
   else
   {
      MFEM_ABORT("Wrong code path. Call GetFEMSolution");
      return nullptr;
   }
}
#endif

DiffusionSolver::~DiffusionSolver()
{
   delete u; u = nullptr;
   delete fes; fes = nullptr;
#ifdef MFEM_USE_MPI
   delete pfes; pfes=nullptr;
#endif
   delete fec; fec = nullptr;
   delete b;
}


// Elasticity solver

LinearElasticitySolver::LinearElasticitySolver(Mesh * mesh_, int order_,
                                               Coefficient * lambda_cf_, Coefficient * mu_cf_)
   : mesh(mesh_), order(order_), lambda_cf(lambda_cf_), mu_cf(mu_cf_)
{
#ifdef MFEM_USE_MPI
   pmesh = dynamic_cast<ParMesh *>(mesh);
   if (pmesh) { parallel = true; }
#endif
   SetupFEM();
}

void LinearElasticitySolver::SetupFEM()
{
   dim = mesh->Dimension();
   fec = new H1_FECollection(order, dim,BasisType::Positive);

#ifdef MFEM_USE_MPI
   if (parallel)
   {
      pfes = new ParFiniteElementSpace(pmesh, fec, dim);
      u = new ParGridFunction(pfes);
      b = new ParLinearForm(pfes);
   }
   else
   {
      fes = new FiniteElementSpace(mesh, fec,dim);
      u = new GridFunction(fes);
      b = new LinearForm(fes);
   }
#else
   fes = new FiniteElementSpace(mesh, fec, dim);
   u = new GridFunction(fes);
   b = new LinearForm(fes);
#endif
   *u=0.0;

   if (!ess_bdr.Size())
   {
      if (mesh->bdr_attributes.Size())
      {
         ess_bdr.SetSize(mesh->bdr_attributes.Max());
         ess_bdr = 1;
      }
   }
}

void LinearElasticitySolver::Solve()
{
   GridFunction * x = nullptr;
   OperatorPtr A;
   Vector B, X;
   Array<int> ess_tdof_list;

#ifdef MFEM_USE_MPI
   if (parallel)
   {
      x = new ParGridFunction(pfes);
      pfes->GetEssentialTrueDofs(ess_bdr,ess_tdof_list);
   }
   else
   {
      x = new GridFunction(fes);
      fes->GetEssentialTrueDofs(ess_bdr,ess_tdof_list);
   }
#else
   x = new GridFunction(fes);
   fes->GetEssentialTrueDofs(ess_bdr,ess_tdof_list);
#endif
   *u=0.0;
   if (b)
   {
      delete b;
#ifdef MFEM_USE_MPI
      if (parallel)
      {
         b = new ParLinearForm(pfes);
      }
      else
      {
         b = new LinearForm(fes);
      }
#else
      b = new LinearForm(fes);
#endif
   }
   if (rhs_cf)
   {
      b->AddDomainIntegrator(new VectorDomainLFIntegrator(*rhs_cf));
   }

   b->Assemble();

   *x = 0.0;

   BilinearForm * a = nullptr;

#ifdef MFEM_USE_MPI
   if (parallel)
   {
      a = new ParBilinearForm(pfes);
   }
   else
   {
      a = new BilinearForm(fes);
   }
#else
   a = new BilinearForm(fes);
#endif
   a->AddDomainIntegrator(new ElasticityIntegrator(*lambda_cf, *mu_cf));
   a->Assemble();
   if (essbdr_cf)
   {
      u->ProjectBdrCoefficient(*essbdr_cf,ess_bdr);
   }
   a->FormLinearSystem(ess_tdof_list, *x, *b, A, X, B);

   CGSolver * cg = nullptr;
   Solver * M = nullptr;
#ifdef MFEM_USE_MPI
   if (parallel)
   {
      M = new HypreBoomerAMG;
      dynamic_cast<HypreBoomerAMG*>(M)->SetPrintLevel(0);
      cg = new CGSolver(pmesh->GetComm());
   }
   else
   {
      M = new GSSmoother((SparseMatrix&)(*A));
      cg = new CGSolver;
   }
#else
   M = new GSSmoother((SparseMatrix&)(*A));
   cg = new CGSolver;
#endif
   cg->SetRelTol(1e-10);
   cg->SetMaxIter(10000);
   cg->SetPrintLevel(0);
   cg->SetPreconditioner(*M);
   cg->SetOperator(*A);
   cg->Mult(B, X);
   delete M;
   delete cg;
   a->RecoverFEMSolution(X, *b, *x);
   *u+=*x;
   delete a;
   delete x;
}

GridFunction * LinearElasticitySolver::GetFEMSolution()
{
   return u;
}

#ifdef MFEM_USE_MPI
ParGridFunction * LinearElasticitySolver::GetParFEMSolution()
{
   if (parallel)
   {
      return dynamic_cast<ParGridFunction*>(u);
   }
   else
   {
      MFEM_ABORT("Wrong code path. Call GetFEMSolution");
      return nullptr;
   }
}
#endif

LinearElasticitySolver::~LinearElasticitySolver()
{
   delete u; u = nullptr;
   delete fes; fes = nullptr;
#ifdef MFEM_USE_MPI
   delete pfes; pfes=nullptr;
#endif
   delete fec; fec = nullptr;
   delete b;
}

} // namespace mfem