Mesh.cc 28.8 KB
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#include <algorithm>
#include <set>
#include <map>

#include "time.h"

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#include "AdaptStationary.h"
#include "AdaptInstationary.h"
#include "FiniteElemSpace.h"
#include "ElementData.h"
#include "MacroElement.h"
#include "MacroReader.h"
#include "Mesh.h"
#include "Traverse.h"
#include "Parameters.h"
#include "FixVec.h"
#include "DOFVector.h"
#include "CoarseningManager.h"
#include "DOFIterator.h"
#include "VertexVector.h"
#include "MacroWriter.h"
#include "PeriodicMap.h"
#include "Projection.h"
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#include "ElInfoStack.h"
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namespace AMDiS {

#define TIME_USED(f,s) ((double)((s)-(f))/(double)CLOCKS_PER_SEC)

  //**************************************************************************
  //  flags, which information should be present in the elInfo structure     
  //**************************************************************************

  const Flag Mesh::FILL_NOTHING    = 0X00L;
  const Flag Mesh::FILL_COORDS     = 0X01L;
  const Flag Mesh::FILL_BOUND      = 0X02L;
  const Flag Mesh::FILL_NEIGH      = 0X04L;
  const Flag Mesh::FILL_OPP_COORDS = 0X08L;
  const Flag Mesh::FILL_ORIENTATION= 0X10L;
  const Flag Mesh::FILL_DET        = 0X20L;
  const Flag Mesh::FILL_GRD_LAMBDA = 0X40L;
  const Flag Mesh::FILL_ADD_ALL    = 0X80L;


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  const Flag Mesh::FILL_ANY_1D = (0X01L|0X02L|0X04L|0X08L|0x20L|0X40L|0X80L);
  const Flag Mesh::FILL_ANY_2D = (0X01L|0X02L|0X04L|0X08L|0x20L|0X40L|0X80L);
  const Flag Mesh::FILL_ANY_3D = (0X01L|0X02L|0X04L|0X08L|0X10L|0x20L|0X40L|0X80L);
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  //**************************************************************************
  //  flags for Mesh traversal                                                
  //**************************************************************************

  const Flag Mesh::CALL_EVERY_EL_PREORDER  = 0X0100L;
  const Flag Mesh::CALL_EVERY_EL_INORDER   = 0X0200L;
  const Flag Mesh::CALL_EVERY_EL_POSTORDER = 0X0400L;
  const Flag Mesh::CALL_LEAF_EL            = 0X0800L;
  const Flag Mesh::CALL_LEAF_EL_LEVEL      = 0X1000L;
  const Flag Mesh::CALL_EL_LEVEL           = 0X2000L;
  const Flag Mesh::CALL_MG_LEVEL           = 0X4000L ; // used in mg methods 


  // const Flag Mesh::USE_PARAMETRIC          = 0X8000L ; // used in mg methods 

  DOFAdmin* Mesh::compressAdmin = NULL;
  Mesh* Mesh::traversePtr = NULL;
  int Mesh::iadmin = 0;
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  std::vector<DegreeOfFreedom> Mesh::dof_used;
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  const int Mesh::MAX_DOF = 100;
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  std::map<DegreeOfFreedom, DegreeOfFreedom*> Mesh::serializedDOFs;
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  struct delmem { 
    DegreeOfFreedom* ptr;
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    int len;
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  };


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  Mesh::Mesh(const std::string& aName, int dimension) 
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    : name(aName), 
      dim(dimension), 
      nVertices(0),
      nEdges(0),
      nLeaves(0), 
      nElements(0),
      parametric(NULL), 
      preserveCoarseDOFs(false),
      nDOFEl(0),
      nDOF(dimension, DEFAULT_VALUE, 0),
      nNodeEl(0),
      node(dimension, DEFAULT_VALUE, 0),
      elementPrototype(NULL),
      elementDataPrototype(NULL),
      elementIndex(-1),
      initialized(false),
      final_lambda(dimension, DEFAULT_VALUE, 0.0)
  {

    FUNCNAME("Mesh::Mesh");

    // set default element prototype
    switch(dim) {
    case 1:
      elementPrototype = NEW Line(this);
      break;
    case 2:
      elementPrototype = NEW Triangle(this);
      break;
    case 3:
      elementPrototype = NEW Tetrahedron(this);
      break;
    default:
      ERROR_EXIT("invalid dimension\n");
    }

    elementPrototype->setIndex(-1);

    elementIndex=0;
  };

  Mesh::~Mesh()
  {
  };

  void Mesh::addMacroElement(MacroElement* m) {
    macroElements.push_back(m); 
    m->setIndex(macroElements.size());
  };




  int Mesh::traverse(int level, Flag flag, 
		     int (*el_fct)(ElInfo*))
  {
    FUNCNAME("Mesh::traverse()");
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    std::deque<MacroElement*>::iterator mel;
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    ElInfoStack elInfoStack(this);
    ElInfo* elinfo = elInfoStack.getNextElement();
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    Traverse tinfo(this, flag, level, el_fct);
    int sum = 0;
  
    elinfo->setFillFlag(flag);
  
    if (flag.isSet(Mesh::CALL_LEAF_EL_LEVEL) || 
	flag.isSet(Mesh::CALL_EL_LEVEL)      || 
	flag.isSet(Mesh::CALL_MG_LEVEL)) {
      TEST(level >= 0)("invalid level: %d\n", level);
    }
  
    for (mel = macroElements.begin(); mel != macroElements.end(); mel++) {
      elinfo->fillMacroInfo(*mel);
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      sum += tinfo.recursive(&elInfoStack);
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    }

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    elInfoStack.getBackElement();
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    return (flag.isSet(Mesh::FILL_ADD_ALL)) ? sum : 0;
  }



  void Mesh::addDOFAdmin(DOFAdmin *localAdmin)
  {    
    FUNCNAME("Mesh::addDOFAdmin()");

    int i, j, d, n;
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    std::vector<DOFAdmin*>::iterator dai;
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    localAdmin->setMesh(this);
    n = admin.size();

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    dai=std::find(admin.begin(),admin.end(),localAdmin);
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    if (dai!= admin.end()) {
      ERROR("admin %s is already associated to mesh %s\n",
	    localAdmin->getName().c_str(), this->getName().c_str());
    }

    // ===== adding dofs to already existing elements ============================ 

    if (initialized) {
      static bool pnd_1d_0[2] = {true, true};
      static bool pnd_1d_1[1] = {false};
      static bool pnd_2d_0[3] = {true, true, true};
      static bool pnd_2d_1[3] = {true, true, false};
      static bool pnd_2d_2[1] = {false};
      static bool pnd_3d_0[4] = {true, true, true, true};
      static bool pnd_3d_1[6] = {false, true, true, true, true, true};
      static bool pnd_3d_2[4] = {true, true, false, false};
      static bool pnd_3d_3[1] = {false};
      static bool *pnd_1d[2] = {pnd_1d_0, pnd_1d_1};
      static bool *pnd_2d[3] = {pnd_2d_0, pnd_2d_1, pnd_2d_2};
      static bool *pnd_3d[4] = {pnd_3d_0, pnd_3d_1, pnd_3d_2, pnd_3d_3};
      static bool **parentNeedsDOF[4] = {NULL, pnd_1d, pnd_2d, pnd_3d};

     
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      std::list<struct delmem> delList;
      std::map< std::set<DegreeOfFreedom>, DegreeOfFreedom*> dofPtrMap;
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      const DOFAdmin *vertexAdmin = getVertexAdmin();
      int vertexAdminPreDOFs = vertexAdmin->getNumberOfPreDOFs(VERTEX);

      // finding necessary node number for new admin

      int newNNode=0;
      GeoIndex geoIndex;

      for(d = 0; d < dim+1; d++) {
	geoIndex = INDEX_OF_DIM(d, dim);
      
	if (localAdmin->getNumberOfDOFs(geoIndex)>0||nDOF[geoIndex]>0)
	  newNNode+=getGeo(geoIndex);
      };

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      bool extendNodes = (newNNode>nNodeEl);
      int oldNNodes = nNodeEl;
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      nNodeEl = newNNode;
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      TraverseStack stack;
      ElInfo *elInfo = NULL;
    
      WARNING("You are using untested code (adding dofs to existing mesh). Please contact\nsoftware administrator if any errors occur in this context.\n");

      elInfo = stack.traverseFirst(this, -1, CALL_EVERY_EL_PREORDER);
      while(elInfo) {
	Element *element = elInfo->getElement();
	DegreeOfFreedom *newDOF, **oldDOF, **dof = 
	  const_cast<DegreeOfFreedom**>(element->getDOF());

	int index = 0;

	if (extendNodes) {
	  oldDOF=dof;
	  element->setDOFPtrs();
	  dof=const_cast<DegreeOfFreedom**>(element->getDOF());
	  int index=0,oldIndex=0;
	  for(d = 0; d < dim+1; d++) {
	    geoIndex = INDEX_OF_DIM(d, dim);
	    if (nDOF[geoIndex]>0) {
	      for(i=0;i<getGeo(geoIndex);++i) 
		dof[index++]=oldDOF[oldIndex++];
	    }
	    else {
	      if (localAdmin->getNumberOfDOFs(geoIndex)>0) 
		index+=getGeo(geoIndex);
	    }
	  }
	
	  FREE_MEMORY(oldDOF, DegreeOfFreedom*, oldNNodes);

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	  TEST_EXIT_DBG(index == nNodeEl)("ERROR: Number of entered nodes %f != number of nodes %f\n",index,nNodeEl);
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	}


	index=0;

	// allocate new memory at elements
	for(d = 0; d < dim+1; d++) {
	  geoIndex = INDEX_OF_DIM(d, dim);
      
	  int numberOfDOFs = localAdmin->getNumberOfDOFs(geoIndex);
	  int numberOfPreDOFs = nDOF[geoIndex];

	  if (numberOfDOFs>0||numberOfPreDOFs>0) {

	    // for all vertices/edges/...
	    for(i = 0; i < getGeo(geoIndex); i++, index++) {
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	      std::set<DegreeOfFreedom> dofSet;
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	      for(j = 0; j < d+1; j++) {
		dofSet.insert(dof[element->getVertexOfPosition(geoIndex, i, j)][vertexAdminPreDOFs]);
	      }
	    
	      if(element->isLeaf() || parentNeedsDOF[dim][d][i]) {
		if(dofPtrMap[dofSet] == NULL) {
		  if(localAdmin->getNumberOfDOFs(geoIndex)) {
		    newDOF = GET_MEMORY(DegreeOfFreedom, numberOfPreDOFs + numberOfDOFs);
		    // copy old dofs to new memory and free old memory
		    if(dof[index]) {
		      for(j = 0; j < numberOfPreDOFs; j++) {
			newDOF[j] = dof[index][j];
		      }
		      //	  FREE_MEMORY(dof[index], DegreeOfFreedom, numberOfPreDOFs);
		      // Do not free memory. The information has to be used to identify the part in other elements.
		      // The memory is only marked for freeing.
		      struct delmem fm;
		      fm.ptr=dof[index];
		      fm.len=numberOfPreDOFs;
		      delList.push_back(fm);
		    }
		    for(j = 0; j < numberOfDOFs; j++) {
		      newDOF[numberOfPreDOFs + j] = localAdmin->getDOFIndex();
		    }
		    dof[index] = newDOF;
		  }
		  dofPtrMap[dofSet] = dof[index];
		} else {
		  dof[index] = dofPtrMap[dofSet];
		}
	      }
	    }
	  }
	}
	elInfo = stack.traverseNext(elInfo);
      }
  
      // now free the old dof memory:

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      std::list<struct delmem>::iterator it=delList.begin();
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      while(it!=delList.end()) {
	FREE_MEMORY((*it).ptr, DegreeOfFreedom, (*it).len);
	it++;
      }

      delList.clear();

    }
    // ============================================================================

    admin.push_back(localAdmin);

    nDOFEl = 0;

    localAdmin->setNumberOfPreDOFs(VERTEX,nDOF[VERTEX]);
    nDOF[VERTEX]  += localAdmin->getNumberOfDOFs(VERTEX);
    nDOFEl += getGeo(VERTEX) * nDOF[VERTEX];

    if(dim > 1) {
      localAdmin->setNumberOfPreDOFs(EDGE,nDOF[EDGE]);
      nDOF[EDGE]    += localAdmin->getNumberOfDOFs(EDGE);
      nDOFEl += getGeo(EDGE) * nDOF[EDGE];
    }

    localAdmin->setNumberOfPreDOFs(CENTER,nDOF[CENTER]);
    nDOF[CENTER]  += localAdmin->getNumberOfDOFs(CENTER);
    nDOFEl += nDOF[CENTER];

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    TEST_EXIT_DBG(nDOF[VERTEX] > 0)("no vertex dofs\n");
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    node[VERTEX]  = 0;
    nNodeEl     = getGeo(VERTEX);

    if(dim > 1) {
      node[EDGE]    = nNodeEl;
      if (nDOF[EDGE] > 0) nNodeEl += getGeo(EDGE);
    }

    if (3==dim){
      localAdmin->setNumberOfPreDOFs(FACE,nDOF[FACE]);
      nDOF[FACE]  += localAdmin->getNumberOfDOFs(FACE);
      nDOFEl     += getGeo(FACE) * nDOF[FACE];
      node[FACE]    = nNodeEl;
      if (nDOF[FACE] > 0) nNodeEl +=  getGeo(FACE);
    }

    node[CENTER]    = nNodeEl;
    if (nDOF[CENTER] > 0) nNodeEl += 1;

    return;
  }


  /****************************************************************************/
  /*  dofCompress: remove holes in dof vectors                                */
  /****************************************************************************/

  void Mesh::dofCompress()
  {
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    FUNCNAME("Mesh::dofCompress()");
    int size;
    Flag fill_flag;
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    for (iadmin = 0; iadmin < static_cast<int>(admin.size()); iadmin++) {
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      compressAdmin = admin[iadmin];

      TEST_EXIT_DBG(compressAdmin)("no admin[%d] in mesh\n", iadmin);
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      if ((size = compressAdmin->getSize()) < 1) 
	continue;
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      if (compressAdmin->getUsedDOFs() < 1)    
	continue;
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      if (compressAdmin->getHoleCount() < 1)    
	continue;
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      newDOF.resize(size);
      
      compressAdmin->compress(newDOF);
      
      if (preserveCoarseDOFs) {
	fill_flag = Mesh::CALL_EVERY_EL_PREORDER | Mesh::FILL_NOTHING;
      } else {
	fill_flag = Mesh::CALL_LEAF_EL | Mesh::FILL_NOTHING;
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      }
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      traverse( -1, fill_flag, newDOFFct1);
      traverse( -1, fill_flag, newDOFFct2);
      
      newDOF.resize(0);
    }   
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  }


  DegreeOfFreedom *Mesh::getDOF(GeoIndex position)
  {
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    FUNCNAME("Mesh::getDOF()");
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    TEST_EXIT_DBG(position >= CENTER && position <= FACE)
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      ("unknown position %d\n", position);
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    int ndof = getNumberOfDOFs(position);
    if (ndof <= 0) 
      return(NULL);
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    DegreeOfFreedom *dof = GET_MEMORY(DegreeOfFreedom, ndof);
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    for (int i = 0; i < getNumberOfDOFAdmin(); i++) {
      const DOFAdmin *localAdmin = &getDOFAdmin(i);
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      TEST_EXIT_DBG(localAdmin)("no admin[%d]\n", i);
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      int n  = localAdmin->getNumberOfDOFs(position);
      int n0 = localAdmin->getNumberOfPreDOFs(position);
      
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      TEST_EXIT_DBG(n + n0 <= ndof)("n=%d, n0=%d too large: ndof=%d\n", n, n0, ndof);
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      for (int j = 0; j < n; j++) {
	dof[n0 + j] = const_cast<DOFAdmin*>(localAdmin)->getDOFIndex();
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      }
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    }
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    return(dof);
  }


  DegreeOfFreedom **Mesh::createDOFPtrs()
  {
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    FUNCNAME("Mesh::createDOFPtrs()");
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    if (nNodeEl <= 0)
      return(NULL);

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    DegreeOfFreedom **ptrs = GET_MEMORY(DegreeOfFreedom*, nNodeEl);
    for (int i = 0; i < nNodeEl; i++)
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      ptrs[i] = NULL;

    return(ptrs);
  }

  void Mesh::freeDOFPtrs(DegreeOfFreedom **ptrs)
  {
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    FUNCNAME("Mesh::freeDOFPtrs()");
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    TEST_EXIT_DBG(ptrs)("ptrs=NULL\n");
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    if (nNodeEl <= 0)
      return;
  
    FREE_MEMORY(ptrs, DegreeOfFreedom*, nNodeEl);
  }


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  const DOFAdmin *Mesh::createDOFAdmin(const std::string& lname,DimVec<int> lnDOF)
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  {
    FUNCNAME("Mesh::createDOFAdmin");

    DOFAdmin         *localAdmin;
    int              i;

    localAdmin=NEW DOFAdmin(this,lname);

    for (i = 0; i < dim+1; i++)
      localAdmin->setNumberOfDOFs(i,lnDOF[i]);

    addDOFAdmin(localAdmin);

    return(localAdmin);
  }





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  // int Mesh::macroType(const std::string& filename, const std::string& type)
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  // {
  //   const char *fn, *t;

  //   if (3==dim) return 0;
  
  //   if (filename.size() <= type.size())
  //     return(false);

  //   fn = filename.data();
  //   while (*fn) fn++;
  //   t = type.data();
  //   while (*t) t++;

  //   while (t != type  &&  *t == *fn) t--;
  
  //   return(t == type);
  // }

  const DOFAdmin* Mesh::getVertexAdmin() const
  {
    int       i;
    const DOFAdmin *localAdmin = NULL;

    for (i = 0; i < static_cast<int>(admin.size()); i++)
      {
	if (admin[i]->getNumberOfDOFs(VERTEX))
	  {
	    if (!localAdmin)  
	      localAdmin = admin[i];
	    else if (admin[i]->getSize() < localAdmin->getSize())
	      localAdmin = admin[i];
	  }
      }
    return(localAdmin);
  }

  void Mesh::freeDOF(DegreeOfFreedom* dof, GeoIndex position)
  {
    FUNCNAME("Mesh::freeDOF");
    DOFAdmin *localAdmin;
    int     i, j, n, n0, ndof;

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    TEST_EXIT_DBG(position >= CENTER && position <= FACE)
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      ("unknown position %d\n",position);

    ndof = nDOF[position];
    if (ndof) 
      {
	if (!dof)
	  {
	    MSG("dof = NULL, but ndof=%d\n", ndof);
	    return;
	  }
      }
    else
      {
	if (dof)
	  {
	    MSG("dof != NULL, but ndof=0\n");
	  }
	return;
      }

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    TEST_EXIT_DBG(ndof <= MAX_DOF)
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      ("ndof too big: ndof=%d, MAX_DOF=%d\n",ndof,MAX_DOF);

    for (i = 0; i < static_cast<int>(admin.size()); i++)
      {
	localAdmin = admin[i];

	n  = localAdmin->getNumberOfDOFs(position);
	n0 = localAdmin->getNumberOfPreDOFs(position);

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	TEST_EXIT_DBG(n+n0 <= ndof)("n=%d, n0=%d too large: ndof=%d\n", n, n0, ndof);
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	for (j = 0; j < n; j++)
	  {
	    localAdmin->freeDOFIndex(dof[n0+j]);
	  }
      }

    FREE_MEMORY(dof, DegreeOfFreedom, ndof);
    return;  
  }

  void Mesh::freeElement(Element* el)
  {
    freeDOFPtrs(const_cast<DegreeOfFreedom**>(el->getDOF()));
    DELETE el;
  }


  Element* Mesh::createNewElement(Element *parent)
  {
    FUNCNAME("Mesh::createNewElement()");
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    TEST_EXIT_DBG(elementPrototype)("no element prototype\n");
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    Element *el = parent ? parent->clone() : elementPrototype->clone();
  
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    if (!parent && elementDataPrototype) {
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      el->setElementData(elementDataPrototype->clone()); 
    } else {
      el->setElementData(NULL); // must be done in ElementData::refineElementData()
    }

    return el;
  }

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  ElInfo* Mesh::createNewElInfo()
  {
    switch(dim) {
    case 1:
      return NEW ElInfo1d(this);
      break;
    case 2:
      return NEW ElInfo2d(this);
      break;
    case 3:
      return NEW ElInfo3d(this);
      break;
    default:
      ERROR_EXIT("invalid dim\n");
      return NULL;
    };
  }



  bool Mesh::findElInfoAtPoint(const WorldVector<double>& xy,
			       ElInfo *el_info,
			       DimVec<double>&    bary,
			       const MacroElement      *start_mel,
			       const WorldVector<double> *xy0,
			       double            *sp)
  {
    static const MacroElement *mel = NULL;
    DimVec<double> lambda(dim, NO_INIT);
    ElInfo *mel_info = NULL;

    mel_info = createNewElInfo();

    if (start_mel != NULL)
      mel = start_mel;
    else
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      if ((mel == NULL) || (mel->getElement()->getMesh() != this))
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	mel = *(macroElements.begin());

    mel_info->setFillFlag(Mesh::FILL_COORDS);
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    g_xy = &xy;
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    g_xy0 = xy0;
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    g_sp = sp;
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    mel_info->fillMacroInfo(mel);

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    int k;
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    while ((k = mel_info->worldToCoord(xy, &lambda)) >= 0) {
      if (mel->getNeighbour(k)) {
	mel = mel->getNeighbour(k);
	mel_info->fillMacroInfo(mel);
	continue;
      }
      break;
    }

    /* now, descend in tree to find leaf element at point */
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    bool inside = findElementAtPointRecursive(mel_info, lambda, k, el_info);
    for (int i = 0; i <= dim; i++) {
      bary[i] = final_lambda[i];
    }
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    DELETE mel_info;

    return(inside);
  }

  bool Mesh::findElementAtPoint(const WorldVector<double>&  xy,
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				Element **elp, 
				DimVec<double>& bary,
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				const MacroElement *start_mel,
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				const WorldVector<double> *xy0,
				double *sp)
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  {
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    ElInfo *el_info = createNewElInfo();
    int val = findElInfoAtPoint(xy, el_info, bary, start_mel, xy0, sp);
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    *elp = el_info->getElement();

    DELETE el_info;

    return(val);
  }



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  bool Mesh::findElementAtPointRecursive(ElInfo *el_info,
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					 const DimVec<double>& lambda,
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					 int outside,
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					 ElInfo* final_el_info)
  {
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    FUNCNAME("Mesh::findElementAtPointRecursive()");
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    Element *el = el_info->getElement();
    DimVec<double> c_lambda(dim, NO_INIT);
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    int inside;
    int ichild, c_outside;
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    if (el->isLeaf()) {
      *final_el_info = *el_info;
      if (outside < 0) {
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	for (int i = 0; i <= dim; i++) {
	  final_lambda[i] = lambda[i];
	}

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	return(true);
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      }  else {  /* outside */
	if (g_xy0) { /* find boundary point of [xy0, xy] */
	  el_info->worldToCoord(*(g_xy0), &c_lambda);
	  double s = lambda[outside] / (lambda[outside] - c_lambda[outside]);
	  for (int i = 0; i <= dim; i++) {
	    final_lambda[i] = s * c_lambda[i] + (1.0-s) * lambda[i];
	  }
	  if (g_sp) {
	    *(g_sp) = s;
	  }
	  if (dim == 3) 
	    MSG("outside finest level on el %d: s=%.3e\n", el->getIndex(), s);
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	  return(false);  /* ??? */
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	}
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	else return(false);
      }
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    }

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    ElInfo *c_el_info = createNewElInfo();
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    if (dim == 1) {
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      if (lambda[0] >= lambda[1]) {
	c_el_info->fillElInfo(0, el_info);
	if (outside >= 0) {
	  outside = el_info->worldToCoord(*(g_xy), &c_lambda);
	  if (outside >= 0) ERROR("point outside domain\n");
	} else {
	  c_lambda[0] = lambda[0] - lambda[1];
	  c_lambda[1] = 2.0 * lambda[1];
	}
      } else {
	c_el_info->fillElInfo(1, el_info);
	if (outside >= 0)  {
	  outside = el_info->worldToCoord(*(g_xy), &c_lambda);
	  if (outside >= 0) ERROR("point outside domain\n");
	} else {
	  c_lambda[1] = lambda[1] - lambda[0];
	  c_lambda[0] = 2.0 * lambda[0];
	}
      }
    } /* DIM == 1 */

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    if (dim == 2) {
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      if (lambda[0] >= lambda[1]) {
	c_el_info->fillElInfo(0, el_info);
	if (el->isNewCoordSet()) {
	  outside = c_el_info->worldToCoord(*(g_xy), &c_lambda);
	  if (outside >= 0) {
	    ERROR("outside curved boundary child 0\n");
	  }
	} else {
	  c_lambda[0] = lambda[2];
	  c_lambda[1] = lambda[0] - lambda[1];
	  c_lambda[2] = 2.0 * lambda[1];
	}
      } else {
	c_el_info->fillElInfo(1, el_info);
	if (el->isNewCoordSet()) {
	  outside = c_el_info->worldToCoord(*(g_xy), &c_lambda);
	  if (outside >= 0) {
	    ERROR("outside curved boundary child 1\n");
	  }
	} else {
	  c_lambda[0] = lambda[1] - lambda[0];
	  c_lambda[1] = lambda[2];
	  c_lambda[2] = 2.0 * lambda[0];
	}
      }
    } /* DIM == 2 */

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    if (dim == 3) {
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      if (el->isNewCoordSet()) {
	if (lambda[0] >= lambda[1])
	  ichild = 0;
	else
	  ichild = 1;
	c_el_info->fillElInfo(ichild, el_info);
	c_outside = c_el_info->worldToCoord(*(g_xy), &c_lambda);

	if (c_outside>=0) {  /* test is other child is better... */
	  DimVec<double> c_lambda2(dim, NO_INIT);
	  int c_outside2;
	  ElInfo *c_el_info2 = createNewElInfo();

	  c_el_info2->fillElInfo(1-ichild, el_info);
	  c_outside2 = c_el_info2->worldToCoord(*(g_xy), &c_lambda2);

	  MSG("new_coord CHILD %d: outside=%d, lambda=(%.2f %.2f %.2f %.2f)\n",
	      ichild, c_outside, c_lambda[0],c_lambda[1],c_lambda[2],c_lambda[3]);
	  MSG("new_coord CHILD %d: outside=%d, lambda=(%.2f %.2f %.2f %.2f)\n",
	      1-ichild, c_outside2, c_lambda2[0],c_lambda2[1],c_lambda2[2],
	      c_lambda2[3]);

	  if ((c_outside2 < 0) || (c_lambda2[c_outside2] > c_lambda[c_outside])) {
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	    for (int i = 0; i <= dim; i++) {
	      c_lambda[i] = c_lambda2[i];
	    }
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	    c_outside = c_outside2;
	    *c_el_info = *c_el_info2;
	    ichild = 1 - ichild;
	  }
	  DELETE c_el_info2;
	}
	outside = c_outside;
      } else {  /* no new_coord */
	if (lambda[0] >= lambda[1]) {
	  c_el_info->fillElInfo(0, el_info);
	  c_lambda[0] = lambda[0] - lambda[1];
	  c_lambda[1] = lambda[Tetrahedron::childVertex[(dynamic_cast<ElInfo3d*>(el_info))->
							getType()][0][1]];
	  c_lambda[2] = lambda[Tetrahedron::childVertex[(dynamic_cast<ElInfo3d*>(el_info))->
							getType()][0][2]];
	  c_lambda[3] = 2.0 * lambda[1];
	} else {
	  c_el_info->fillElInfo(1, el_info);
	  c_lambda[0] = lambda[1] - lambda[0];
	  c_lambda[1] = lambda[Tetrahedron::childVertex[(dynamic_cast<ElInfo3d*>(el_info))->
							getType()][1][1]];
	  c_lambda[2] = lambda[Tetrahedron::childVertex[(dynamic_cast<ElInfo3d*>(el_info))->
							getType()][1][2]];
	  c_lambda[3] = 2.0 * lambda[0];
	}
      }
    }  /* DIM == 3 */

    inside = findElementAtPointRecursive(c_el_info, c_lambda, outside, 
					 final_el_info);
    DELETE c_el_info;

    return(inside); 
  }


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  void Mesh::setDiameter(const WorldVector<double>& w) 
  { 
    diam = w; 
  }
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  void Mesh::setDiameter(int i, double w) 
  { 
    diam[i] = w; 
  }
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  int Mesh::newDOFFct1(ElInfo* ei) {
    ei->getElement()->newDOFFct1(compressAdmin);
    return 0;
  }

  int Mesh::newDOFFct2(ElInfo* ei) {
    ei->getElement()->newDOFFct2(compressAdmin);
    return 0;
  }

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  void Mesh::serialize(std::ostream &out)
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  {
    serializedDOFs.clear();

    // write name
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    out << name << "\n";
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    // write dim
    out.write(reinterpret_cast<const char*>(&dim), sizeof(int));

    // write nVertices
    out.write(reinterpret_cast<const char*>(&nVertices), sizeof(int));

    // write nEdges
    out.write(reinterpret_cast<const char*>(&nEdges), sizeof(int));

    // write nLeaves
    out.write(reinterpret_cast<const char*>(&nLeaves), sizeof(int));

    // write nElements
    out.write(reinterpret_cast<const char*>(&nElements), sizeof(int));

    // write nFaces
    out.write(reinterpret_cast<const char*>(&nFaces), sizeof(int));

    // write maxEdgeNeigh
    out.write(reinterpret_cast<const char*>(&maxEdgeNeigh), sizeof(int));

    // write diam
    diam.serialize(out);

    // write preserveCoarseDOFs
    out.write(reinterpret_cast<const char*>(&preserveCoarseDOFs), sizeof(bool));

    // write nDOFEl
    out.write(reinterpret_cast<const char*>(&nDOFEl), sizeof(int));

    // write nDOF
    nDOF.serialize(out);

    // write nNodeEl
    out.write(reinterpret_cast<const char*>(&nNodeEl), sizeof(int));

    // write node
    node.serialize(out);

    // write admins
    int i, size = static_cast<int>(admin.size());
    out.write(reinterpret_cast<const char*>(&size), sizeof(int));
    for (i = 0; i < size; i++) {
      admin[i]->serialize(out);
    }

    // write macroElements
    size = static_cast<int>(macroElements.size());
    out.write(reinterpret_cast<const char*>(&size), sizeof(int));
    for (i = 0; i < size; i++) {
      macroElements[i]->serialize(out);
    }

    // write elementIndex
    out.write(reinterpret_cast<const char*>(&elementIndex), sizeof(int));

    // write initialized
    out.write(reinterpret_cast<const char*>(&initialized), sizeof(bool));

    serializedDOFs.clear();
  }

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  void Mesh::deserialize(std::istream &in)
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  {
    serializedDOFs.clear();

    // read name
    in >> name;
    in.get();

    // read dim
    int oldVal = dim;
    in.read(reinterpret_cast<char*>(&dim), sizeof(int));
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    TEST_EXIT_DBG((oldVal == 0) || (dim == oldVal))("invalid dimension\n");
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    // read nVertices
    in.read(reinterpret_cast<char*>(&nVertices), sizeof(int));

    // read nEdges
    in.read(reinterpret_cast<char*>(&nEdges), sizeof(int));

    // read nLeaves
    in.read(reinterpret_cast<char*>(&nLeaves), sizeof(int));

    // read nElements
    in.read(reinterpret_cast<char*>(&nElements), sizeof(int));

    // read nFaces
    in.read(reinterpret_cast<char*>(&nFaces), sizeof(int));

    // read maxEdgeNeigh
    in.read(reinterpret_cast<char*>(&maxEdgeNeigh), sizeof(int));

    // diam
    diam.deserialize(in);

    // read preserveCoarseDOFs
    in.read(reinterpret_cast<char*>(&preserveCoarseDOFs), sizeof(bool));

    // read nDOFEl
    oldVal = nDOFEl;
    in.read(reinterpret_cast<char*>(&nDOFEl), sizeof(int));
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    TEST_EXIT_DBG((oldVal == 0) || (nDOFEl == oldVal))("invalid nDOFEl\n");
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    // read nDOF
    nDOF.deserialize(in);

    // read nNodeEl
    oldVal = nNodeEl;
    in.read(reinterpret_cast<char*>(&nNodeEl), sizeof(int));
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    TEST_EXIT_DBG((oldVal == 0) || (nNodeEl == oldVal))("invalid nNodeEl\n");
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    // read node
    node.deserialize(in);

    // read admins
    int i, size;
    in.read(reinterpret_cast<char*>(&size), sizeof(int));
    admin.resize(size, NULL);
    for (i = 0; i < size; i++) {
      if (!admin[i]) {
	admin[i] = NEW DOFAdmin(this);
      }
      admin[i]->deserialize(in);
    }

    // read macroElements
    in.read(reinterpret_cast<char*>(&size), sizeof(int));

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    std::vector< std::vector<int> > neighbourIndices(size);
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    for (i = 0; i < static_cast<int>(macroElements.size()); i++) {
      if (macroElements[i]) {
	DELETE macroElements[i];
      }
    }
    macroElements.resize(size);
    for(i = 0; i < size; i++) {
      macroElements[i] = NEW MacroElement(dim);
      macroElements[i]->writeNeighboursTo(&(neighbourIndices[i]));
      macroElements[i]->deserialize(in);
    }

    // read elementIndex
    in.read(reinterpret_cast<char*>(&elementIndex), sizeof(int));

    // read initialized
    in.read(reinterpret_cast<char*>(&initialized), sizeof(bool));

    // set neighbour pointer in macro elements
    int j, neighs = getGeo(NEIGH);
    for(i = 0; i < static_cast<int>(macroElements.size()); i++) {
      for(j = 0; j < neighs; j++) {
	int index = neighbourIndices[i][j];
	if(index != -1) {
	  macroElements[i]->setNeighbour(j, macroElements[index]);
	} else {
	  macroElements[i]->setNeighbour(j, NULL);
	}
      }
    }

    // set mesh pointer in elements
    TraverseStack stack;
    ElInfo *elInfo = stack.traverseFirst(this, -1, CALL_EVERY_EL_PREORDER);
    while(elInfo) {
      elInfo->getElement()->setMesh(this);
      elInfo = stack.traverseNext(elInfo);
    }

    serializedDOFs.clear();
  }

  void Mesh::initialize() 
  {
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    std::string macroFilename("");
    std::string valueFilename("");
    std::string periodicFile("");
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    int check = 1;

    GET_PARAMETER(0, name + "->macro file name",  &macroFilename);
    GET_PARAMETER(0, name + "->value file name",  &valueFilename);
    GET_PARAMETER(0, name + "->periodic file", &periodicFile);
    GET_PARAMETER(0, name + "->check", "%d", &check);
    GET_PARAMETER(0, name + "->preserve coarse dofs", "%d", &preserveCoarseDOFs);

    if (macroFilename.length()) {
      macroFileInfo_ = MacroReader::readMacro(macroFilename.c_str(), 
					      this,
					      periodicFile == "" ? NULL : periodicFile.c_str(),
					      check);

      // If there is no value file which should be written, we can delete
      // the information of the macro file.
      if (!valueFilename.length()) {
	clearMacroFileInfo();
      }
    }

    initialized = true;
  }

  bool Mesh::associated(DegreeOfFreedom dof1, DegreeOfFreedom dof2) {
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    std::map<BoundaryType, VertexVector*>::iterator it;
    std::map<BoundaryType, VertexVector*>::iterator end = periodicAssociations.end();
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    for (it = periodicAssociations.begin(); it != end; ++it) {
      if ((*(it->second))[dof1] == dof2)
	return true;
    }
    return false;
  }

  bool Mesh::indirectlyAssociated(DegreeOfFreedom dof1, DegreeOfFreedom dof2) {
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    std::vector<DegreeOfFreedom> associatedToDOF1;
    std::map<BoundaryType, VertexVector*>::iterator it;
    std::map<BoundaryType, VertexVector*>::iterator end = periodicAssociations.end();
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    DegreeOfFreedom dof, assDOF;

    associatedToDOF1.push_back(dof1);
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    for (it = periodicAssociations.begin(); it != end; ++it) {
      int size = static_cast<int>(associatedToDOF1.size());
      for (int i = 0; i < size; i++) {
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	dof = associatedToDOF1[i];
	assDOF = (*(it->second))[dof];
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	if (assDOF == dof2) {
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	  return true;
	} else {
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	  if (assDOF != dof) 
	    associatedToDOF1.push_back(assDOF);
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	}
      }
    }
    return false;
  }

  void Mesh::clearMacroFileInfo()
  {
    macroFileInfo_->clear(getNumberOfEdges(),
			  getNumberOfVertices());
    DELETE macroFileInfo_;
  }
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  int Mesh::calcMemoryUsage()
  {
    int result = 0;

    result += sizeof(Mesh);
    for (int i = 0; i < static_cast<int>(macroElements.size()); i++) {
      result += macroElements[i]->calcMemoryUsage();
    }
    
    return result;
  }
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}