womersley_elements.cc

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//LIC// ====================================================================
//LIC// This file forms part of oomph-lib, the object-oriented, 
//LIC// multi-physics finite-element library, available 
//LIC// at http://www.oomph-lib.org.
//LIC// 
//LIC//    Version 1.0; svn revision $LastChangedRevision$
//LIC//
//LIC// $LastChangedDate$
//LIC// 
//LIC// Copyright (C) 2006-2016 Matthias Heil and Andrew Hazel
//LIC// 
//LIC// This library is free software; you can redistribute it and/or
//LIC// modify it under the terms of the GNU Lesser General Public
//LIC// License as published by the Free Software Foundation; either
//LIC// version 2.1 of the License, or (at your option) any later version.
//LIC// 
//LIC// This library is distributed in the hope that it will be useful,
//LIC// but WITHOUT ANY WARRANTY; without even the implied warranty of
//LIC// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the GNU
//LIC// Lesser General Public License for more details.
//LIC// 
//LIC// You should have received a copy of the GNU Lesser General Public
//LIC// License along with this library; if not, write to the Free Software
//LIC// Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA
//LIC// 02110-1301  USA.
//LIC// 
//LIC// The authors may be contacted at oomph-lib@maths.man.ac.uk.
//LIC// 
//LIC//====================================================================

//Non-inline functions for Womersley elements
#include "womersley_elements.h"


namespace oomph
{


/// Default Womersley number
template<unsigned DIM>
double WomersleyEquations<DIM>::Default_ReSt_value = 0.0;


//========================================================================
/// Instantiation of static bool to suppress warning; initialise to false.
//========================================================================
 bool TemplateFreeWomersleyMeshBase::Suppress_warning_about_unpinned_nst_dofs=
  false;


//========================================================================
/// Zero!
//========================================================================
double TemplateFreeWomersleyImpedanceTubeBase::Zero=0.0;




//======================================================================
// Set the data for the number of Variables at each node
//======================================================================
template<unsigned DIM, unsigned NNODE_1D>
const unsigned QWomersleyElement<DIM,NNODE_1D>::Initial_Nvalue = 1;


//======================================================================
/// Compute element residual Vector and/or element Jacobian matrix 
/// 
/// flag=1: compute both
/// flag=0: compute only residual Vector
///
/// Pure version without hanging nodes
//======================================================================
template <unsigned DIM>
void  WomersleyEquations<DIM>::
fill_in_generic_residual_contribution_womersley(Vector<double> &residuals, 
                                               DenseMatrix<double> &jacobian, 
                                               unsigned flag) 
{
 //Find out how many nodes there are
 unsigned n_node = nnode();
  
 //Find the index at which the variable is stored
 unsigned u_nodal_index = u_index_womersley();

 //Set up memory for the shape and test functions
 Shape psi(n_node), test(n_node);
 DShape dpsidx(n_node,DIM), dtestdx(n_node,DIM);
 
 //Set the value of n_intpt
 unsigned n_intpt = integral_pt()->nweight();
   
 //Set the Vector to hold local coordinates
 Vector<double> s(DIM);

 //Integers to hold the local equation and unknowns
 int local_eqn=0, local_unknown=0;

 //Loop over the integration points
 for(unsigned ipt=0;ipt<n_intpt;ipt++)
  {

   //Assign values of s
   for(unsigned i=0;i<DIM;i++) s[i] = integral_pt()->knot(ipt,i);

   //Get the integral weight
   double w = integral_pt()->weight(ipt);

   //Call the derivatives of the shape and test functions
   double J = 
    dshape_and_dtest_eulerian_at_knot_womersley(ipt,psi,dpsidx,test,dtestdx);

   //Premultiply the weights and the Jacobian
   double W = w*J;

   //Allocate memory for local quantities and initialise to zero
   double interpolated_u=0.0;
   double dudt=0.0;
   Vector<double> interpolated_x(DIM,0.0);
   Vector<double> interpolated_dudx(DIM,0.0);

   //Calculate function value and derivatives:
   // Loop over nodes
   for(unsigned l=0;l<n_node;l++) 
    {
     //Calculate the value at the nodes
     double u_value = raw_nodal_value(l,u_nodal_index);
     interpolated_u += u_value*psi(l);
     dudt +=       du_dt_womersley(l)*psi(l);
     // Loop over directions
     for(unsigned j=0;j<DIM;j++)
      {
       interpolated_x[j] += raw_nodal_position(l,j)*psi(l);
       interpolated_dudx[j] += u_value*dpsidx(l,j);
      }
    }

   //Get pressure gradient
   //---------------------
   double dpdz;

   //If no pressure gradient has been set, use zero
   if(Pressure_gradient_data_pt==0)
    {
     dpdz = 0.0;
    }
   else
    {
     // Get gressure gradient
     dpdz=Pressure_gradient_data_pt->value(0);
    }


   // Assemble residuals and Jacobian
   //--------------------------------
       
   // Loop over the test functions
   for(unsigned l=0;l<n_node;l++)
    {
     local_eqn = nodal_local_eqn(l,u_nodal_index);
     /*IF it's not a boundary condition*/
     if(local_eqn >= 0)
      {

       // Add dpdz term and time derivative
       residuals[local_eqn] += (re_st()*dudt+dpdz)*test(l)*W;
           
       // Laplace operator
       for(unsigned k=0;k<DIM;k++)
        {
         residuals[local_eqn] += 
          interpolated_dudx[k]*dtestdx(l,k)*W;
        }


       // Calculate the jacobian
       //-----------------------
       if(flag)
        {
         //Loop over the velocity shape functions again
         for(unsigned l2=0;l2<n_node;l2++)
          { 
           local_unknown = nodal_local_eqn(l2,u_nodal_index);
           //If at a non-zero degree of freedom add in the entry
           if(local_unknown >= 0)
            {
             // Mass matrix
             jacobian(local_eqn,local_unknown) 
              += re_st()*test(l)*psi(l2)*
              node_pt(l2)->time_stepper_pt()->weight(1,0)*W;

             // Laplace operator & mesh velocity bit
             for(unsigned i=0;i<DIM;i++)
              {
               double tmp=dtestdx(l,i);
               jacobian(local_eqn,local_unknown) += dpsidx(l2,i)*tmp*W;
              }
            }
          }

         // Derivative w.r.t. pressure gradient data (if it's 
         // an unknown)
         if ((Pressure_gradient_data_pt!=0)&&
             (!Pressure_gradient_data_pt->is_pinned(0)))
          {
           local_unknown=external_local_eqn(0,0);
           if (local_unknown>=0)
            {
             jacobian(local_eqn,local_unknown) += test(l)*W;
            }

           // Derivatives of the final eqn (volume flux constraint
           // w.r.t. to this unknown)
           unsigned final_local_eqn=external_local_eqn(0,0);
           unsigned local_unknown=local_eqn; //  [from above just renaming
           //                                //   for clarity(!?)]
           jacobian(final_local_eqn,local_unknown)+=psi(l)*W;
          }

        }
      }
    }


  } // End of loop over integration points
}   





//======================================================================
/// Compute volume flux through element
//======================================================================
template <unsigned DIM>
double WomersleyEquations<DIM>::get_volume_flux()
{
 //Find out how many nodes there are
 unsigned n_node = nnode();
  
 //Find the index at which the variable is stored
 unsigned u_nodal_index = u_index_womersley();

 //Set up memory for the shape fcs
 Shape psi(n_node);
 DShape dpsidx(n_node,DIM);
 
 //Set the value of n_intpt
 unsigned n_intpt = integral_pt()->nweight();
   
 //Set the Vector to hold local coordinates
 Vector<double> s(DIM);

 // Initialise flux
 double flux=0.0;

 //Loop over the integration points
 for(unsigned ipt=0;ipt<n_intpt;ipt++)
  {

   //Assign values of s
   for(unsigned i=0;i<DIM;i++) s[i] = integral_pt()->knot(ipt,i);

   //Get the integral weight
   double w = integral_pt()->weight(ipt);

   //Call the derivatives of the shape and test functions
   double J = dshape_eulerian_at_knot(ipt,psi,dpsidx);

   //Premultiply the weights and the Jacobian
   double W = w*J;

   //Allocate memory for local quantities and initialise to zero
   double interpolated_u=0.0;

   //Calculate function value
   
   // Loop over nodes
   for(unsigned l=0;l<n_node;l++) 
    {
     // Calculate the value at the nodes (takes hanging node status
     // into account
     interpolated_u += nodal_value(l,u_nodal_index)*psi(l);
    }
   
   // Add to flux
   flux+=interpolated_u*W;
   
  } // End of loop over integration points

 return flux;

}

 




//======================================================================
/// Self-test:  Return 0 for OK
//======================================================================
template <unsigned DIM>
unsigned  WomersleyEquations<DIM>::self_test() 
{

 bool passed=true;

 // Check lower-level stuff
 if (FiniteElement::self_test()!=0)
  {
   passed=false;
  }

 // Return verdict
 if (passed)
  {
   return 0;
  }
 else
  {
   return 1;
  }
   
}




//======================================================================
/// Output function:  x,y,z_out,0,0,u,0 to allow comparison
/// against full Navier Stokes at n_nplot x n_plot points (2D)
//======================================================================
template <unsigned DIM>
void  WomersleyEquations<DIM>::output_3d(std::ostream &outfile, 
                                         const unsigned &nplot,
                                         const double& z_out)
{
 //Vector of local coordinates
 Vector<double> s(DIM);
 
 // Tecplot header info
 outfile << tecplot_zone_string(nplot);
 
 // Loop over plot points
 unsigned num_plot_points=nplot_points(nplot);
 for (unsigned iplot=0;iplot<num_plot_points;iplot++)
  {
   // Get local coordinates of plot point
   get_s_plot(iplot,nplot,s);
   
   for(unsigned i=0;i<DIM;i++) 
    {
     outfile << interpolated_x(s,i) << " ";
    }
   outfile << z_out << " 0.0 0.0 " ;
   outfile << interpolated_u_womersley(s);
   outfile << " 0.0 " << std::endl;
  }

 // Write tecplot footer (e.g. FE connectivity lists)
 write_tecplot_zone_footer(outfile,nplot);

}

//======================================================================
/// Output function:
///
///   x,y,u   or    x,y,z,u
///
/// nplot points in each coordinate direction
//======================================================================
template <unsigned DIM>
void  WomersleyEquations<DIM>::output(std::ostream &outfile, 
                                      const unsigned &nplot)
{

 //Vector of local coordinates
 Vector<double> s(DIM);
 
 // Tecplot header info
 outfile << tecplot_zone_string(nplot);
 
 // Loop over plot points
 unsigned num_plot_points=nplot_points(nplot);
 for (unsigned iplot=0;iplot<num_plot_points;iplot++)
  {
   // Get local coordinates of plot point
   get_s_plot(iplot,nplot,s);
   
   for(unsigned i=0;i<DIM;i++) 
    {
     outfile << interpolated_x(s,i) << " ";
    }
   outfile << interpolated_u_womersley(s) << std::endl;   
  }

 // Write tecplot footer (e.g. FE connectivity lists)
 write_tecplot_zone_footer(outfile,nplot);

}



//======================================================================
/// C-style output function:
///
///   x,y,u   or    x,y,z,u
///
/// nplot points in each coordinate direction
//======================================================================
template <unsigned DIM>
void  WomersleyEquations<DIM>::output(FILE* file_pt,
                                         const unsigned &nplot)
{
 //Vector of local coordinates
 Vector<double> s(DIM);
 
 // Tecplot header info
 fprintf(file_pt,"%s",tecplot_zone_string(nplot).c_str());
 
 // Loop over plot points
 unsigned num_plot_points=nplot_points(nplot);
 for (unsigned iplot=0;iplot<num_plot_points;iplot++)
  {
   
   // Get local coordinates of plot point
   get_s_plot(iplot,nplot,s);
   
   for(unsigned i=0;i<DIM;i++) 
    {
     fprintf(file_pt,"%g ",interpolated_x(s,i));

    }
    fprintf(file_pt,"%g \n",interpolated_u_womersley(s));
  }

 // Write tecplot footer (e.g. FE connectivity lists)
 write_tecplot_zone_footer(file_pt,nplot);

}



//======================================================================
 /// Output exact solution
 /// 
 /// Solution is provided via function pointer.
 /// Plot at a given number of plot points.
 ///
 ///   x,y,u_exact    or    x,y,z,u_exact
//======================================================================
template <unsigned DIM>
void WomersleyEquations<DIM>::output_fct(std::ostream &outfile, 
                                            const unsigned &nplot, 
                        FiniteElement::SteadyExactSolutionFctPt exact_soln_pt)
{
 
 //Vector of local coordinates
 Vector<double> s(DIM);
 
 // Vector for coordintes
 Vector<double> x(DIM);
 
 // Tecplot header info
 outfile << tecplot_zone_string(nplot);
 
 // Exact solution Vector (here a scalar)
 Vector<double> exact_soln(1);
 
 // Loop over plot points
 unsigned num_plot_points=nplot_points(nplot);
 for (unsigned iplot=0;iplot<num_plot_points;iplot++)
  {
   
   // Get local coordinates of plot point
   get_s_plot(iplot,nplot,s);
   
   // Get x position as Vector
   interpolated_x(s,x);
   
   // Get exact solution at this point
   (*exact_soln_pt)(x,exact_soln);
   
   //Output x,y,...,u_exact
   for(unsigned i=0;i<DIM;i++)
    {
     outfile << x[i] << " ";
    }
   outfile << exact_soln[0] << std::endl;  
   
  }
 
 // Write tecplot footer (e.g. FE connectivity lists)
 write_tecplot_zone_footer(outfile,nplot);
 
}



//======================================================================
/// Output exact solution at time t
/// 
/// Solution is provided via function pointer.
/// Plot at a given number of plot points.
///
///   x,y,u_exact    or    x,y,z,u_exact
//======================================================================
template <unsigned DIM>
void WomersleyEquations<DIM>::output_fct(std::ostream &outfile, 
                                            const unsigned &nplot,
                                            const double& time, 
                         FiniteElement::UnsteadyExactSolutionFctPt exact_soln_pt)

{
 
 //Vector of local coordinates
 Vector<double> s(DIM);
 
 // Vector for coordintes
 Vector<double> x(DIM);
 
 
 // Tecplot header info
 outfile << tecplot_zone_string(nplot);
 
 // Exact solution Vector (here a scalar)
 Vector<double> exact_soln(1);
 
 // Loop over plot points
 unsigned num_plot_points=nplot_points(nplot);
 for (unsigned iplot=0;iplot<num_plot_points;iplot++)
  {
   
   // Get local coordinates of plot point
   get_s_plot(iplot,nplot,s);
   
   // Get x position as Vector
   interpolated_x(s,x);
   
   // Get exact solution at this point
   (*exact_soln_pt)(time,x,exact_soln);
   
   //Output x,y,...,u_exact
   for(unsigned i=0;i<DIM;i++)
    {
     outfile << x[i] << " ";
    }
   outfile << exact_soln[0] << std::endl;  
   
  }
 
 // Write tecplot footer (e.g. FE connectivity lists)
 write_tecplot_zone_footer(outfile,nplot);
 
}



//======================================================================
 /// Validate against exact solution
 /// 
 /// Solution is provided via function pointer.
 /// Plot error at a given number of plot points.
 ///
//======================================================================
template <unsigned DIM>
void WomersleyEquations<DIM>::
compute_error(std::ostream &outfile, 
              FiniteElement::SteadyExactSolutionFctPt exact_soln_pt,
              double& error, double& norm)
{ 
 
 // Initialise
 error=0.0;
 norm=0.0;
 
 //Vector of local coordinates
 Vector<double> s(DIM);
 
 // Vector for coordintes
 Vector<double> x(DIM);
 
 //Find out how many nodes there are in the element
 unsigned n_node = nnode();
 
 Shape psi(n_node);
 
 //Set the value of n_intpt
 unsigned n_intpt = integral_pt()->nweight();
  
 // Tecplot header info
 outfile << "ZONE" << std::endl;
 
 // Exact solution Vector (here a scalar)
 Vector<double> exact_soln(1);
 
 //Loop over the integration points
 for(unsigned ipt=0;ipt<n_intpt;ipt++)
  {
   
   //Assign values of s
   for(unsigned i=0;i<DIM;i++)
    {
     s[i] = integral_pt()->knot(ipt,i);
    }
   
   //Get the integral weight
   double w = integral_pt()->weight(ipt);
   
   // Get jacobian of mapping
   double J=J_eulerian(s);
   
   //Premultiply the weights and the Jacobian
   double W = w*J;
   
   // Get x position as Vector
   interpolated_x(s,x);
   
   // Get FE function value
   double u_fe = interpolated_u_womersley(s);
   
   // Get exact solution at this point
   (*exact_soln_pt)(x,exact_soln);
   
   //Output x,y,...,error
   for(unsigned i=0;i<DIM;i++)
    {
     outfile << x[i] << " ";
    }
   outfile << exact_soln[0] << " " << exact_soln[0]-u_fe << std::endl;  
   
   // Add to error and norm
   norm+=exact_soln[0]*exact_soln[0]*W;
   error+=(exact_soln[0]-u_fe)*(exact_soln[0]-u_fe)*W;  
  }
}




//======================================================================
/// Validate against exact solution at time t.
/// 
/// Solution is provided via function pointer.
/// Plot error at a given number of plot points.
///
//======================================================================
template<unsigned DIM>
void WomersleyEquations<DIM>::compute_error(std::ostream &outfile, 
                    FiniteElement::UnsteadyExactSolutionFctPt exact_soln_pt,
                    const double& time, double& error, double& norm)

{ 

 // Initialise
 error=0.0;
 norm=0.0;

 //Vector of local coordinates
 Vector<double> s(DIM);

 // Vector for coordintes
 Vector<double> x(DIM);


 //Find out how many nodes there are in the element
 unsigned n_node = nnode();

 Shape psi(n_node);

 //Set the value of n_intpt
 unsigned n_intpt = integral_pt()->nweight();
        
 // Tecplot 
 outfile << "ZONE" << std::endl;
   
 // Exact solution Vector (here a scalar)
 Vector<double> exact_soln(1);

 //Loop over the integration points
 for(unsigned ipt=0;ipt<n_intpt;ipt++)
  {

   //Assign values of s
   for(unsigned i=0;i<DIM;i++)
    {
     s[i] = integral_pt()->knot(ipt,i);
    }

   //Get the integral weight
   double w = integral_pt()->weight(ipt);

   // Get jacobian of mapping
   double J=J_eulerian(s);

   //Premultiply the weights and the Jacobian
   double W = w*J;

   // Get x position as Vector
   interpolated_x(s,x);

   // Get FE function value
   double u_fe = interpolated_u_womersley(s);

   // Get exact solution at this point
   (*exact_soln_pt)(time,x,exact_soln);

   //Output x,y,...,error
   for(unsigned i=0;i<DIM;i++)
    {
     outfile << x[i] << " ";
    }
   outfile << exact_soln[0] << " " << exact_soln[0]-u_fe << std::endl;  

   // Add to error and norm
   norm+=exact_soln[0]*exact_soln[0]*W;
   error+=(exact_soln[0]-u_fe)*(exact_soln[0]-u_fe)*W;

  }
}




//====================================================================
// Force build of templates
//====================================================================

template class WomersleyEquations<1>;

template class QWomersleyElement<1,2>;
template class QWomersleyElement<1,3>;
template class QWomersleyElement<1,4>;

template class WomersleyEquations<2>;

template class QWomersleyElement<2,2>;
template class QWomersleyElement<2,3>;
template class QWomersleyElement<2,4>;

//template class QWomersleyElement<3,2>;
//template class QWomersleyElement<3,3>;
//template class QWomersleyElement<3,4>;

}