void STKConnManager<GO>::applyInterfaceConditions()
{  
  elmtToAssociatedElmts_.resize(elements_->size());
  for (std::size_t i = 0; i < sidesetsToAssociate_.size(); ++i) {
    std::vector<stk_classic::mesh::Entity*> sides;
    stkMeshDB_->getAllSides(sidesetsToAssociate_[i], sides);
    sidesetYieldedAssociations_[i] = ! sides.empty();
    for (std::vector<stk_classic::mesh::Entity*>::const_iterator si = sides.begin();
         si != sides.end(); ++si) {
      const stk_classic::mesh::Entity* const side = *si;
      const stk_classic::mesh::PairIterRelation
        relations = side->relations(stkMeshDB_->getElementRank());
      if (relations.size() != 2) {
        // If relations.size() != 2 for one side in the sideset, then it's true
        // for all, including the first.
        TEUCHOS_ASSERT(si == sides.begin());
        sidesetYieldedAssociations_[i] = false;
        break;
      }
      const std::size_t ea_id = getElementIdx(*elements_, relations[0].entity()),
        eb_id = getElementIdx(*elements_, relations[1].entity());
      elmtToAssociatedElmts_[ea_id].push_back(eb_id);
      elmtToAssociatedElmts_[eb_id].push_back(ea_id);
    }
  }
}
void STKConnManager<GO>::applyInterfaceConditions()
{
  std::vector<std::string> sideset_names;
  stkMeshDB_->getSidesetNames(sideset_names);
  for (std::vector<std::string>::const_iterator ssni = sideset_names.begin();
       ssni != sideset_names.end(); ++ssni) {
    std::vector<stk_classic::mesh::Entity*> sides;
    stkMeshDB_->getMySides(*ssni, sides);
    for (std::vector<stk_classic::mesh::Entity*>::const_iterator si = sides.begin();
         si != sides.end(); ++si) {
      const stk_classic::mesh::Entity* const side = *si;
      const stk_classic::mesh::PairIterRelation relations = side->relations(stkMeshDB_->getElementRank());
      if (relations.size() != 2) continue;
      const std::size_t ea_id = getElementIdx(*elements_, relations[0].entity()),
        eb_id = getElementIdx(*elements_, relations[1].entity());
      elmtToInterfaceElmt_[ea_id] = eb_id;
      elmtToInterfaceElmt_[eb_id] = ea_id;
    }
  }
}
Example #3
0
      bool helperSubDim(const stk_classic::mesh::Entity& child_element, stk_classic::mesh::FieldBase *field,  const mesh::BulkData& bulkData)
      {
        EXCEPTWATCH;

        const CellTopologyData * const child_cell_topo_data = stk_classic::percept::PerceptMesh::get_cell_topology(child_element);
        CellTopology child_cell_topo(child_cell_topo_data);
        int child_cell_dimension = child_cell_topo.getDimension();
        int meta_dimension = mesh::fem::FEMMetaData::get_meta_data(mesh::fem::FEMMetaData::get(bulkData)).get_spatial_dimension();

        // for now, only allow face (or edge)
        VERIFY_OP_ON(child_cell_dimension, ==, meta_dimension - 1, "Dimensions don't match");
        
        VectorFieldType& coord_field = *(mesh::fem::FEMMetaData::get(bulkData)).get_field<VectorFieldType>("coordinates");

        // FIXME for fields not on a Node
        unsigned nDOF = m_nDOFs;

        unsigned nCells = PerceptMesh::size1(child_element);
        m_count_elems += nCells;

        typedef IntrepidManager IM;
        unsigned cubDegree = m_cubDegree;
        const stk_classic::mesh::PairIterRelation parent_elements = child_element.relations(child_element.entity_rank() + 1);
        VERIFY_OP_ON(parent_elements.size(), ==, 1, "cant find parent");
        const stk_classic::mesh::Entity& element = *parent_elements[0].entity();
        unsigned i_face = parent_elements[0].identifier();

        const CellTopologyData * const cell_topo_data = stk_classic::percept::PerceptMesh::get_cell_topology(element);
        CellTopology cell_topo(cell_topo_data);
        int cell_dimension = cell_topo.getDimension();
        VERIFY_OP_ON(cell_dimension, ==, meta_dimension , "Dimensions don't match");

        IM im(Elements_Tag(nCells), cell_topo, cubDegree);
        IM imChild(Elements_Tag(nCells), child_cell_topo, cubDegree);
        unsigned numCubPoints_child = imChild.m_cub->getNumPoints(); 
        im.m_Cub_Points_Tag = Cub_Points_Tag(numCubPoints_child);

        if (0)
          {
            std::cout << "numCubPoints_child= " << numCubPoints_child 
                      << " parent rank= " << element.entity_rank()
                      << " parent topo= " << cell_topo.getName()
                      << std::endl;
          }

        // FIXME
        im.m_DOFs_Tag.num = m_nDOFs;
        // FIXME

        // _c suffix is for the child (face) element
        IM::Jacobian              J  (im);
        IM::FaceNormal           fn  (im);
        //IM::JacobianDet          dJ  (im);
        IM::CubaturePoints       xi  (im);
        IM::CubaturePoints       xi_c  (imChild);
        IM::CellWorkSet          cn  (im);
        IM::CubatureWeights      wt  (im);
        IM::CubatureWeights      wt_c  (imChild);
        IM::PhysicalCoords       pc  (im);
        IM::IntegrandValues      iv  (im);
        IM::IntegrandValuesDOF  ivD  (im);
        IM::Integral             Io  (im);
        IM::Bases                Nb  (im);

        IM::WeightedMeasure wXfn  (im);
        IM::FieldValues       fv  (im);

        imChild.m_cub->getCubature(xi_c, wt_c);

        unsigned spaceDim = im.m_Spatial_Dim_Tag.num;

        PerceptMesh::fillCellNodes(element,  &coord_field, cn, spaceDim);

        // get parent cell integration points
        // Map Gauss points on quad to reference face: paramGaussPoints -> refGaussPoints
        Intrepid::CellTools<double>::mapToReferenceSubcell(xi,
                                                 xi_c,
                                                 2, i_face, cell_topo);  // FIXME magic

        // get jacobian
        J(xi, cn, cell_topo);
        //dJ(J);

        //shards::ArrayVector<double, shards::NaturalOrder, Elements_Tag, Cub_Points_Tag > fn_Norm;

        // FIXME
        //fn(J, i_face, cell_topo);
        MDArray J_mda;
        J.copyTo(J_mda);
        MDArray fn_mda(im.m_Elements_Tag.num, numCubPoints_child, spaceDim);
        Intrepid::CellTools<double>::getPhysicalFaceNormals(fn_mda, J_mda, i_face, cell_topo);

        /// get norm of fn
        for (int icell = 0; icell < im.m_Elements_Tag.num; icell++)
          {
            for (int ipt = 0; ipt < (int)numCubPoints_child; ipt++)
              {
                double sum = 0.0;
                for (int i = 0; i < (int)spaceDim; i++)
                  {
                    sum += square(fn_mda(icell, ipt, i));
                  }
                wXfn(icell, ipt) = std::sqrt(sum) * wt_c(ipt);
              }
          }

        if (0)
          {
            using namespace shards;

            //std::cout << "dJ= \n" << dJ << std::endl;
            std::cout << "wXfn= \n" << wXfn << std::endl;
            std::cout << "xi= \n" << xi << std::endl;
            std::cout << "wt= \n" << wt << std::endl;
            std::cout << "cn= \n" << cn << std::endl;
            Util::setDoPause(true);
            Util::pause(true);
          }

        // get physical coordinates at integration points
        pc(cn, xi);

        // get bases
#if 1
        // FIXME
        MDArray xi_mda;
        xi.copyTo(xi_mda);
        Nb(element, xi_mda);
#else
        Nb(element, xi);
#endif

        // apply integrand (right now we have MDArray hard-coded... FIXME - templatize on its type)
        // it should look like this (one instead of multiple lines):
#if 0
        m_integrand(pc, v);
#else
        MDArray pc_mda;
        pc.copyTo(pc_mda);
        std::vector<int>  ivDims;
        ivD.dimensions( ivDims);


        /// NOTE: m_integrand requires the ranks of in/out MDArrays to be such that out_rank >= in_rank
        /// Thus, we use IntegrandValuesDOF with [DOF] = 1, and then copy the result to IntegrandValues
        /// which does not have the additional rightmost DOF index (Intrepid doesn't have the concept of
        /// DOF's, it works on scalars only for the integration routines, or at least that's how I understand
        /// it currently.

        // create an array that stk_classic::percept::Function will like to hold the results

        ivDims[ivDims.size()-1] = m_nDOFs;

        MDArray iv_mda ( Teuchos::Array<int>(ivDims.begin(), ivDims.end()));

        if (m_turboOpt == TURBO_ELEMENT || m_turboOpt == TURBO_BUCKET)
          {
            m_integrand(pc_mda, iv_mda, element, xi_mda);
          }
        else
          {
            m_integrand(pc_mda, iv_mda);
          }

        // now, copy from the results to an array that Intrepid::integrate will like

#endif

        for (unsigned iDof = 0; iDof < nDOF; iDof++)
          {
            iv.copyFrom(im, iv_mda, iDof);

            // get the integral
            if (m_accumulation_type == ACCUMULATE_SUM)
              {
                Io(iv, wXfn, Intrepid::COMP_BLAS);
              }

            //optional design:
            //
            //  Io(integrand(pc_mda, v), wXdJ(w, dJ(J(xi, c, cell_topo)), Intrepid::COMP_BLAS);

            for (unsigned iCell = 0; iCell < nCells; iCell++)
              {
                //                 if (Util::getFlag(0))
                //                   {
                //                     std::cout << "tmp Io(iCell)= " << Io(iCell) << std::endl;
                //                     Util::pause(true, "Io(iCell)");
                //                   }
                if (m_accumulation_type == ACCUMULATE_SUM)
                  {
                    m_accumulation_buffer[iDof] += Io(iCell);
                  }
                else if (m_accumulation_type == ACCUMULATE_MAX)
                  {
                    double valIo = 0.0;
                    for (int ivpts = 0; ivpts < iv.dimension(1); ivpts++)
                      {
                        valIo = std::max(valIo, iv((int)iCell, ivpts));
                      }
                    //std::cout << "m_accumulation_buffer[iDof] = " << m_accumulation_buffer[iDof] << " valIO= " << valIo  << std::endl;
                    m_accumulation_buffer[iDof] = std::max(m_accumulation_buffer[iDof], valIo);
                  }
              }
          }
        return false;
      }
Example #4
0
    void Colorer::
    color(percept::PerceptMesh& eMesh, unsigned * elementType,  stk_classic::mesh::PartVector* fromParts, stk_classic::mesh::FieldBase *element_color_field)
    {
      const unsigned MAX_COLORS=1000;
      vector< ColorerNodeSetType > node_colors(MAX_COLORS+1); 
      ColorerElementSetType all_elements; 

      mesh::Selector selector(eMesh.get_fem_meta_data()->universal_part());
      if (fromParts) 
        {
          if (0)
            {
              std::cout << "tmp Colorer::color fromParts= " << *fromParts << std::endl;
              std::cout << "tmp Colorer::color elementType= " << *elementType << std::endl;
              for (unsigned i_part = 0; i_part < fromParts->size(); i_part++)
                {
                  std::cout << "tmp Colorer::color i_part = " << i_part << " fromParts= " << (*fromParts)[i_part]->name() << std::endl;
                }
            }

          selector = mesh::selectUnion(*fromParts);
        }

      stk_classic::mesh::BulkData& bulkData = *eMesh.get_bulk_data();
      unsigned ncolor = 0;
      int nelem = 0;
      unsigned num_max_colors = MAX_COLORS;
      if (m_noColoring)
        num_max_colors = 1;
      
      m_element_colors = vector< ColorerSetType > (num_max_colors+1);

      for (unsigned icolor = 0; icolor < num_max_colors; icolor++)
        {
          int num_colored_this_pass = 0;
          for (unsigned irank = 0; irank < m_entityRanks.size(); irank++)
            {
              const vector<stk_classic::mesh::Bucket*> & buckets = bulkData.buckets( m_entityRanks[irank] );
              for ( vector<stk_classic::mesh::Bucket*>::const_iterator k = buckets.begin() ; k != buckets.end() ; ++k ) 
                {
                  if (selector(**k))  
                  {
                    stk_classic::mesh::Bucket & bucket = **k ;

                    bool doThisBucket = true;
                    const CellTopologyData * const bucket_cell_topo_data = stk_classic::percept::PerceptMesh::get_cell_topology(bucket);
                    shards::CellTopology topo(bucket_cell_topo_data);
                    if (elementType && (topo.getKey() != *elementType))
                      {
                        doThisBucket = false;
                      }

                    if (0 && doThisBucket)
                      {
                        std::cout << "tmp color = " << icolor << " bucket topo name= " << topo.getName() << " key= " << topo.getKey() 
                                  << " elementType= " << (elementType?  *elementType : 0) << " doThisBucket= " << doThisBucket << std::endl;
                      }

                    if (doThisBucket)
                      {
                        const unsigned num_elements_in_bucket = bucket.size();
                        nelem += num_elements_in_bucket;
                
                        for (unsigned iElement = 0; iElement < num_elements_in_bucket; iElement++)
                          {
                            stk_classic::mesh::Entity& element = bucket[iElement];

                            if (0)
                              std::cout << "tmp color = " << icolor << " bucket topo name= " << topo.getName() << " key= " << topo.getKey() 
                                        << " elementId = " << element.identifier() << " element = " << element << std::endl;

                            stk_classic::mesh::EntityId elem_id = element.identifier();
                            
                            if (!m_noColoring && contains(all_elements, elem_id))
                              continue;

                            bool none_in_this_color = true;
                            static std::vector<stk_classic::mesh::EntityId> node_ids(100);
                            unsigned num_node = 0;

                            if (!m_noColoring)
                              {
                                const stk_classic::mesh::PairIterRelation elem_nodes = element.relations( stk_classic::mesh::fem::FEMMetaData::NODE_RANK );  
                                num_node = elem_nodes.size(); 
                                node_ids.reserve(num_node);
                                for (unsigned inode=0; inode < num_node; inode++)
                                  {
                                    stk_classic::mesh::Entity & node = *elem_nodes[ inode ].entity();
                                    stk_classic::mesh::EntityId nid = node.identifier();
                                    node_ids[inode] = nid;
                                    if (contains(node_colors[icolor], nid))
                                      {
                                        none_in_this_color = false;
                                        break;
                                      }
                                  }
                              }
                            if (none_in_this_color)
                              {
                                ++num_colored_this_pass;
                                if (element_color_field)
                                  {
                                    double *fdata = stk_classic::mesh::field_data( *static_cast<const percept::ScalarFieldType *>(element_color_field) , element );
                                    fdata[0] = double(icolor);
                                  }
#if STK_ADAPT_COLORER_SET_TYPE_USE_VECTOR
                                m_element_colors[icolor].push_back(&element);
#else
                                m_element_colors[icolor].insert(&element);
#endif
                                if (!m_noColoring)
                                  {
                                    all_elements.insert(elem_id);
                                    for (unsigned inode=0; inode < num_node; inode++)
                                      {
                                        node_colors[icolor].insert(node_ids[inode]);
                                      }
                                  }
                              }
                          }  // elements in bucket
                      } // doThisBucket
                  } // selection
                } // buckets
            } // irank
          if (0 == num_colored_this_pass)
            {
              break;
            }
          ++ncolor;
          if (ncolor == num_max_colors-1)
            {
              throw std::runtime_error("broken algorithm in mesh colorer");
            }
        } // icolor

      //std::cout << "tmp ncolor = " << ncolor << " nelem= " << nelem << std::endl;

      m_element_colors.resize(ncolor);
    }