geometry.cpp 53.3 KB
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#include "inmost.h"
#if defined(USE_MESH)
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#include <deque>
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using namespace std;
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const std::string normal_name = "PROTECTED_GEOM_UTIL_NORMAL";
const std::string measure_name = "PROTECTED_GEOM_UTIL_MEASURE";
const std::string centroid_name = "PROTECTED_GEOM_UTIL_CENTROID";
const std::string barycenter_name = "PROTECTED_GEOM_UTIL_BARYCENTER";

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namespace INMOST
{
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	typedef struct orient_face_t
	{
		Edge bridge;
		Node first;
		Face face;
		orient_face_t(Edge _bridge, Node _first, Face _face)
		:bridge(_bridge),first(_first),face(_face)
		{
		}
	} orient_face;
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	__INLINE static void vec_diff(const Storage::real * vecin1, const Storage::real * vecin2, Storage::real * vecout, unsigned int size)
	{
		for(unsigned int i = 0; i < size; i++)
			vecout[i] = vecin1[i] - vecin2[i];
	}
	
	__INLINE static void vec_cross_product(const Storage::real * vecin1, const Storage::real * vecin2, Storage::real * vecout)
	{
		Storage::real temp[3];
		temp[0] = vecin1[1]*vecin2[2] - vecin1[2]*vecin2[1];
		temp[1] = vecin1[2]*vecin2[0] - vecin1[0]*vecin2[2];
		temp[2] = vecin1[0]*vecin2[1] - vecin1[1]*vecin2[0];
		vecout[0] = temp[0];
		vecout[1] = temp[1];
		vecout[2] = temp[2];
	}
	
	__INLINE static Storage::real vec_dot_product(const Storage::real * vecin1,const Storage::real * vecin2, unsigned int size)
	{
		Storage::real ret = 0;
		for(unsigned int i = 0; i < size; i++)
			ret += vecin1[i]*vecin2[i];
		return ret;
	}
	
	__INLINE static Storage::real vec_len2(const Storage::real * vecin, unsigned int size)
	{
		return vec_dot_product(vecin,vecin,size);
	}
	
	__INLINE static Storage::real vec_len(const Storage::real * vecin, unsigned int size)
	{
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		return ::sqrt(vec_len2(vecin,size));
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	}
	
	__INLINE static Storage::real det3d(Storage::real a, Storage::real b, Storage::real c,
	                         Storage::real d, Storage::real e, Storage::real f,
	                         Storage::real g, Storage::real h, Storage::real i ) 
	{
		return a*e*i - c*e*g + b*f*g - a*f*h + c*d*h - b*d*i;
	}
	
	__INLINE static Storage::real det3v(const Storage::real * x,const Storage::real * y,const Storage::real * z) 
	{
		return det3d(x[0], x[1], x[2],  y[0], y[1], y[2],  z[0], z[1], z[2]);
	}
	
	__INLINE static Storage::real det4v(const Storage::real * w, const Storage::real * x, const Storage::real * y, const Storage::real * z) 
	{
		return det3d(x[0]-w[0], x[1]-w[1], x[2]-w[2],  y[0]-w[0], y[1]-w[1], y[2]-w[2],  z[0]-w[0], z[1]-w[1], z[2]-w[2]);
	}	
	
	
	__INLINE static Storage::real vec_normalize(Storage::real * vecin, unsigned int size)
	{
		Storage::real len = 0;
		for(unsigned int i = 0; i < size; i++)
			len += vecin[i]*vecin[i];
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		len = ::sqrt(len);
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		for(unsigned int i = 0; i < size; i++)
			vecin[i] /= len;
		return len;
	}
	
	
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	ElementArray<Cell> Cell::NeighbouringCells() const
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	{
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		ElementArray<Cell> ret(GetMeshLink());
		ElementArray<Face> faces = getFaces();
		for(ElementArray<Face>::iterator f = faces.begin(); f != faces.end(); f++)
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		{
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			Cell c = Neighbour(f->self());
			if( c.isValid() ) ret.push_back(c);
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		}
		return ret;
	}
	
	
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	Cell Cell::Neighbour(Face f) const
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	{
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		Cell b = f->BackCell();
		if( b == self() )
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			return f->FrontCell();
		return b;
	}
	
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	bool Cell::Inside(const Storage::real * point) const//check for 2d case
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	{
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		Mesh * mesh = GetMeshLink();
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		integer dim = GetElementDimension();
		if( dim == 3 )
		{
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			/*
			tiny_map<HandleType,real,16> hits;
			real ray[3];
			ray[0] = rand()/(real)RAND_MAX;
			ray[1] = rand()/(real)RAND_MAX;
			ray[2] = rand()/(real)RAND_MAX;
			CastRay(point,ray,hits);
			if( hits.size()%2 == 0 ) return false;
			return true;
			 */
			assert(mesh->GetDimensions() == 3);
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			integer vp = 0;
			integer vm = 0;
			integer vz = 0;
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			real eps = mesh->GetEpsilon();
			real c,d, fcnt[3];
			real_array v1,v2;
			ElementArray<Face> data = getFaces();
			Face cur = data[0];
			MarkerType mrk = mesh->CreatePrivateMarker();
			MarkerType rev = mesh->CreatePrivateMarker(); //reverse orientation
			data.SetPrivateMarker(mrk); //0-th face orientation is default
			cur->RemPrivateMarker(mrk);
			Node n1,n2; //to retrive edge
			bool reverse = false; //reverse orientation in considered face
			std::deque< orient_face > stack; //edge and first node and face for visiting
			//todo: can do faster by retriving edges and going over their nodes
			//should not use FindSharedAdjacency
			ElementArray<Edge> edges = cur->getEdges();
			do
			{
				//figure out starting node order
				if( edges[0]->getBeg() == edges[1]->getBeg() ||
				   edges[0]->getBeg() == edges[1]->getEnd() )
				{
					n1 = edges[0]->getEnd();
					n2 = edges[0]->getBeg();
				}
				else
				{
					n1 = edges[0]->getBeg();
					n2 = edges[0]->getEnd();
				}
				//schedule unvisited adjacent faces
				for(unsigned j = 0; j < edges.size(); j++)
				{
					//schedule face adjacent to considered edge
					ElementArray<Face> adjacent = edges[j]->getFaces(mrk);
					assert(adjacent.size() <= 1);
					if( !adjacent.empty() && adjacent[0].GetPrivateMarker(mrk))
					{
						adjacent.RemPrivateMarker(mrk);
						stack.push_back(orient_face(edges[j],reverse ? n2 : n1,adjacent[0]));
					}
					//update edge nodes
					n1 = n2; //current end is new begin
					//find new end
					if( n2 == edges[(j+1)%edges.size()]->getBeg() )
						n2 = edges[(j+1)%edges.size()]->getEnd();
					else
						n2 = edges[(j+1)%edges.size()]->getBeg();
				}
				if( stack.empty() ) break;
				//get entry from stack
				orient_face r = stack.front();
				//remove face from stack
				stack.pop_front();
				//retrive edges for new face
				edges = r.face->getEdges();
				reverse = false;
				//figure out starting node order
				if( edges[0]->getBeg() == edges[1]->getBeg() ||
				   edges[0]->getBeg() == edges[1]->getEnd() )
				{
					n1 = edges[0]->getEnd();
					n2 = edges[0]->getBeg();
				}
				else
				{
					n1 = edges[0]->getBeg();
					n2 = edges[0]->getEnd();
				}
				//find out common edge orientation
				for(unsigned j = 0; j < edges.size(); j++)
				{
					if( edges[j] == r.bridge ) //found the edge
					{
						//reverse ordering on this face
						if( r.first == n1 )
						{
							r.face->SetPrivateMarker(rev);
							reverse = true;
						}
						break;
					}
					//update edge nodes
					n1 = n2; //current end is new begin
					//find new end
					if( n2 == edges[(j+1)%edges.size()]->getBeg() )
						n2 = edges[(j+1)%edges.size()]->getEnd();
					else
						n2 = edges[(j+1)%edges.size()]->getBeg();
				}
			} while(true);
			data.RemPrivateMarker(mrk);
			mesh->ReleasePrivateMarker(mrk);
			for(ElementArray<Face>::size_type f = 0; f < data.size(); f++)
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			{
				d = 0.0;
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				data[f]->Centroid(fcnt);
				ElementArray<Node> nodes = data[f]->getNodes();
				v1 = nodes[0].Coords();
				for (ElementArray<Node>::size_type i=0; i<nodes.size(); i++)
				{
					v2 = nodes[(i+1)%nodes.size()].Coords();
					d += c = det4v(point, fcnt, v1.data(), v2.data());
					v1.swap(v2);
				}
				//if(!data[f]->FaceOrientedOutside(self()))
				if( data[f]->GetPrivateMarker(rev) )
					c = -1.0;
				else
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					c = 1.0;
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				if(c*d > eps)
					vp++;
				else if(c*d < -eps)
					vm++;
				else
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					vz++;
			}
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			data.RemPrivateMarker(rev);
			mesh->ReleasePrivateMarker(rev);
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			if(vp*vm > 0) return false;
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			else if( vz == 0 ) return true;
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			else return true;
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		}
		else
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		{
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			int mdim = mesh->GetDimensions();
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			assert(mdim <= 3);
			Storage::real data[9][3];
			if( mdim < 3 )
			{
				memset(data,0,sizeof(Storage::real)*9*3);
			}
			Centroid(data[0]);
			ElementArray<Node> nodes = getNodes();
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			for(int i = 0; i < static_cast<int>(nodes.size()); i++)
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			{
				int j = (i+1)%nodes.size();
				nodes[i].Centroid(data[1]);
				nodes[j].Centroid(data[2]);
				vec_diff(point,data[0],data[3],mdim);
				vec_diff(point,data[1],data[4],mdim);
				vec_diff(point,data[2],data[5],mdim);
				vec_cross_product(data[3],data[4],data[6]);
				vec_cross_product(data[4],data[5],data[7]);
				vec_cross_product(data[5],data[3],data[8]);
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				if( vec_dot_product(data[6],data[7],mdim) >= 0 &&
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				   vec_dot_product(data[7],data[8],mdim) >= 0 &&
				   vec_dot_product(data[6],data[8],mdim) >= 0 )
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					return true; //inside one of the triangles
			}
			return false;
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		}
	}
	
	
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	void Face::UnitNormal(real * nrm) const
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	{
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		Mesh * m = GetMeshLink();
		m->GetGeometricData(GetHandle(),NORMAL,nrm); 
		integer dim = m->GetDimensions();
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		real    l   = ::sqrt(vec_dot_product(nrm,nrm,dim)); 
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		if(::fabs(l) > m->GetEpsilon()) 
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		{
			for(integer i = 0; i < dim; i++) 
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				nrm[i] /= l; 
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		}
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	}
	
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	void Face::OrientedNormal(Cell c, Storage::real * nrm) const
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	{
		Normal(nrm); 
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		if( !FaceOrientedOutside(c) )
		{
			integer dim = GetMeshLink()->GetDimensions();
			for(integer i = 0; i < dim; i++) 
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				nrm[i] = -nrm[i];
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		}
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	}
	
	
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	void Face::OrientedUnitNormal(Cell c, Storage::real * nrm) const
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	{
		UnitNormal(nrm); 
		if( !FaceOrientedOutside(c) ) 
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		{
			integer dim = GetMeshLink()->GetDimensions();
			for(integer i = 0; i < dim; i++) 
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				nrm[i] = -nrm[i];
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		}
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	}
	
	
	
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	bool Mesh::TestClosure(const HandleType * elements, integer num) const
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	{
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		integer i;
		tiny_map<HandleType,int,64> e_visit;
		tiny_map<HandleType,int,64>::iterator it;
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		if( !HideMarker() )
		{
			for(i = 0; i < num; i++)
			{
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				Element::adj_type const & lc = LowConn(elements[i]);
				for(Element::adj_type::size_type jt = 0; jt < lc.size(); jt++)
					e_visit[lc[jt]]++;
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			}
		}
		else
		{
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			for(i = 0; i < num; i++) if( !GetMarker(elements[i],HideMarker()) )
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			{
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				Element::adj_type const & lc = LowConn(elements[i]);
				for(Element::adj_type::size_type jt = 0; jt < lc.size(); jt++) 
				{
					if( !GetMarker(lc[jt],HideMarker()) ) 
						e_visit[lc[jt]]++;
				}
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			}
		}
		for(it = e_visit.begin(); it != e_visit.end(); it++)
			if( it->second != 2 ) return false;
		return true;
	}
	
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	Element::GeometricType Mesh::ComputeGeometricType(ElementType etype, const HandleType * lc, INMOST_DATA_ENUM_TYPE s) const
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	{
		Element::GeometricType ret = Element::Unset;
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		int dmax = -1, dmin = 4;
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		if( s == 0 && etype != NODE) return ret;
		switch(etype)
		{
			case NODE: ret = Element::Vertex; break;
			case EDGE:
				if( s == 1 )
					ret = Element::Vertex;
				else if( s == 2 )
					ret = Element::Line;
				break;
			case FACE:
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				for (INMOST_DATA_ENUM_TYPE k = 0; k < s; ++k)
				{
					int d = Element::GetGeometricDimension(GetGeometricType(lc[k]));
					if (dmax < d) dmax = d;
					if (dmin > d) dmin = d;
				}
				if (dmax != dmin)
				{
					ret = Element::MultiPolygon;
				}
				else if( dmax == 0 )
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				{ 
					ret = Element::Line;
				}
				else
				{
					if( !GetTopologyCheck(NEED_TEST_CLOSURE) || TestClosure(lc,s) )
					{
						if( s == 3 )
							ret = Element::Tri;
						else if( s == 4 )
							ret = Element::Quad;
						else
							ret = Element::Polygon;
					}
					else ret = Element::MultiLine;
				}
				break;
			case CELL:
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				for (INMOST_DATA_ENUM_TYPE k = 0; k < s; ++k)
				{
					int d = Element::GetGeometricDimension(GetGeometricType(lc[k]));
					if (dmax < d) dmax = d;
					if (dmin > d) dmin = d;
				}
				if (dmax != dmin)
				{
					ret = Element::MultiPolygon;
				}
				else if(  dmax == 1 )
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				{
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					if( !GetTopologyCheck(NEED_TEST_CLOSURE) || TestClosure(lc,s) )
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					{
						if( s == 3 )
							ret = Element::Tri;
						else if( s == 4 )
							ret = Element::Quad;
						else
							ret = Element::Polygon;
					}
					else ret = Element::MultiLine;
				}
				else 
				{
					if( !GetTopologyCheck(NEED_TEST_CLOSURE) ||  TestClosure(lc,s) )
					{
						//test c_faces closure, if no closure, set as MultiPolygon
						INMOST_DATA_ENUM_TYPE quads = 0,tris = 0,i;
						for(i = 0; i < s; i++)
						{
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							if( GetGeometricType(lc[i]) == Element::Tri )
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								tris++;
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							else if( GetGeometricType(lc[i]) == Element::Quad )
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								quads++;
						}
						if( tris == 4 && s == 4 )
							ret = Element::Tet;
						else if( quads == 6 && s == 6 )
							ret = Element::Hex;
						else if( tris == 4 && quads == 1 && s == tris+quads)
							ret = Element::Pyramid;
						else if( quads == 3 && tris == 2 && s == tris+quads)
							ret = Element::Prism;
						else
							ret = Element::Polyhedron;
					}
					else ret = Element::MultiPolygon;
				}
				break;
			case ESET: ret = Element::Set; break;
		}
		return ret;
	}

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	Storage::real Edge::Length() const 
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	{
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		Storage::real ret; 
		GetMeshLink()->GetGeometricData(GetHandle(),MEASURE,&ret); 
		return ret;
	}

	Storage::real Face::Area() const 
	{
		real ret; 
		GetMeshLink()->GetGeometricData(GetHandle(),MEASURE,&ret); 
		return ret;
	}
	void Face::Normal(real * nrm) const 
	{
		GetMeshLink()->GetGeometricData(GetHandle(),NORMAL,nrm);
	}

	Storage::real Cell::Volume() const 
	{
		real ret; 
		GetMeshLink()->GetGeometricData(GetHandle(),MEASURE,&ret); 
		return ret;
	}

	void Element::ComputeGeometricType() const
	{
		GetMeshLink()->ComputeGeometricType(GetHandle());
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	}
	
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	void Mesh::ComputeGeometricType(HandleType h) 
	{
		SetGeometricType(h,Element::Unset);
		Element::adj_type const & lc = LowConn(h);
		if( !lc.empty() )
			SetGeometricType(h,ComputeGeometricType(GetHandleElementType(h),lc.data(),static_cast<integer>(lc.size())));
	}
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	void Mesh::RecomputeGeometricData(HandleType e)
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	{
		//static std::map<Element *, int> numfixes;
		GeometricData d ;
		for(d = CENTROID; d <= NORMAL; d++) // first compute centroids and normals 
		{
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			if( HaveGeometricData(d,GetHandleElementType(e)) ) //compute centroid first
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			{
				Tag t = GetGeometricTag(d);
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				Storage::real * a = static_cast<Storage::real *>(MGetDenseLink(e,t));
				HideGeometricData(d,GetHandleElementType(e));
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				GetGeometricData(e,d,a);
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				ShowGeometricData(d,GetHandleElementType(e));
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			}
		}


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		if( GetHandleElementType(e) == CELL && HaveGeometricData(ORIENTATION,FACE)) //then correct the normal
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		{
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			Element::adj_type & lc = LowConn(e);
			for(Element::adj_type::iterator it = lc.begin(); it != lc.end(); ++it)
				if( !GetMarker(*it,HideMarker()) && HighConn(*it).size() == 1 )
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				{
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					Face(this,*it)->FixNormalOrientation();
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				}
		}
		for(d = MEASURE; d <= BARYCENTER; d++) // compute the rest
		{
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			if( HaveGeometricData(d,GetHandleElementType(e)) )
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			{
				Tag t = GetGeometricTag(d);
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				Storage::real * a = static_cast<Storage::real *>(MGetDenseLink(e,t));
				HideGeometricData(d,GetHandleElementType(e));
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				GetGeometricData(e,d,a);
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				ShowGeometricData(d,GetHandleElementType(e));
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			}
		}
	}
	
	
	void Mesh::RemoveGeometricData(GeomParam table)
	{
		for(GeomParam::iterator it = table.begin(); it != table.end(); ++it)
		{
			if( it->first == MEASURE    ) 
			{
				if(measure_tag.isValid())    
					measure_tag    = DeleteTag(measure_tag   ,it->second);
				for(ElementType etype = EDGE; etype <= CELL; etype = etype << 1) if( etype & it->second) HideGeometricData(MEASURE,etype);
			}
			if( it->first == CENTROID   ) 
			{
				if(centroid_tag.isValid())   
					centroid_tag   = DeleteTag(centroid_tag  ,it->second);
				for(ElementType etype = EDGE; etype <= CELL; etype = etype << 1) if( etype & it->second) HideGeometricData(CENTROID,etype);
			}
			if( it->first == BARYCENTER ) 
			{
				if(barycenter_tag.isValid()) 
					barycenter_tag = DeleteTag(barycenter_tag,it->second);
				for(ElementType etype = EDGE; etype <= CELL; etype = etype << 1) if( etype & it->second) HideGeometricData(BARYCENTER,etype);
			}
			if( it->first == NORMAL     ) 
			{
				if(normal_tag.isValid())
					normal_tag     = DeleteTag(normal_tag    ,it->second);
				for(ElementType etype = FACE; etype <= CELL; etype = etype << 1) if( etype & it->second) HideGeometricData(NORMAL,etype);
			}
			if( it->first == ORIENTATION) 
				if( FACE & it->second) HideGeometricData(ORIENTATION,FACE);
		}
	}
	
	void Mesh::RestoreGeometricTags()
	{
		for(GeometricData gtype = MEASURE; gtype <= NORMAL; gtype++)
		{
			bool restore = false;
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			for(ElementType etype = EDGE; etype <= CELL && !restore; etype = NextElementType(etype))
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				if( HaveGeometricData(gtype,etype) )
					restore = true;
			if( restore )
			{
				switch(gtype)
				{
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				case MEASURE:       measure_tag = GetTag(measure_name);    break;
				case CENTROID:     centroid_tag = GetTag(centroid_name);   break;
				case BARYCENTER: barycenter_tag = GetTag(barycenter_name); break;
				case NORMAL:         normal_tag = GetTag(normal_name);     break;
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				}
			}
		}
	}
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	void Mesh::RepairGeometricTags()
	{
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		if( HaveTag(measure_name) )
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		{
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			measure_tag = GetTag(measure_name);
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			for(ElementType etype = EDGE; etype <= CELL; etype = NextElementType(etype))
				if( measure_tag.isDefined(etype) && !HaveGeometricData(MEASURE,etype) )
					ShowGeometricData(MEASURE,etype);
		}
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		if( HaveTag(centroid_name) )
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		{
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			centroid_tag = GetTag(centroid_name);
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			for(ElementType etype = EDGE; etype <= CELL; etype = NextElementType(etype))
				if( centroid_tag.isDefined(etype) && !HaveGeometricData(CENTROID,etype) )
					ShowGeometricData(CENTROID,etype);
		}
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		if( HaveTag(barycenter_name) )
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		{
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			barycenter_tag = GetTag(barycenter_name);
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			for(ElementType etype = EDGE; etype <= CELL; etype = NextElementType(etype))
				if( barycenter_tag.isDefined(etype) && !HaveGeometricData(BARYCENTER,etype) )
					ShowGeometricData(BARYCENTER,etype);
		}
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		if( HaveTag(normal_name) )
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		{
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			normal_tag = GetTag(normal_name);
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			for(ElementType etype = EDGE; etype <= CELL; etype = NextElementType(etype))
				if( normal_tag.isDefined(etype) && !HaveGeometricData(NORMAL,etype) )
					ShowGeometricData(NORMAL,etype);
		}
	}
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	void Mesh::PrepareGeometricData(GeomParam table)
	{
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		std::sort(&*table.begin(),&*table.end());
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		for(GeomParam::iterator it = table.begin(); it != table.end(); ++it)
		{
			GeometricData types = it->first;
			ElementType mask = it->second;
			if( types == ORIENTATION )
			{
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				//std::cout << "ORIENTATION" << std::endl;
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				if( mask & FACE )
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				{
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#if defined(USE_OMP)
#pragma omp parallel for
#endif
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					for(integer e = 0; e < FaceLastLocalID(); ++e) 
					{
						if( isValidElement(FACE,e) )
							Face(this,ComposeHandle(FACE,e))->FixNormalOrientation();
					}
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				}
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				ShowGeometricData(ORIENTATION,FACE);
			}
			if( types == MEASURE )
			{
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				//std::cout << "MEASURE" << std::endl;
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				for(ElementType etype = EDGE; etype <= CELL; etype = NextElementType(etype))
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				{
					if( (mask & etype) && !HaveGeometricData(MEASURE,etype))
					{
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						measure_tag = CreateTag(measure_name,DATA_REAL,etype,NONE,1);
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#if defined(USE_OMP)
#pragma omp parallel for
#endif
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						for(integer e = 0; e < LastLocalID(etype); ++e) if( isValidElement(etype,e) )
						{
							HandleType h = ComposeHandle(etype,e);
							GetGeometricData(h,MEASURE,static_cast<Storage::real *>(MGetDenseLink(h,measure_tag)));
						}
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						ShowGeometricData(MEASURE,etype);
					}
				}
			}
			if( types == CENTROID )
			{
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				//std::cout << "CENTROID" << std::endl;
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				for(ElementType etype = EDGE; etype <= CELL; etype = NextElementType(etype))
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				{
					if( (mask & etype) && !HaveGeometricData(CENTROID,etype))
					{
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						centroid_tag = CreateTag(centroid_name,DATA_REAL,etype,NONE,GetDimensions());
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#if defined(USE_OMP)
#pragma omp parallel for
#endif
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						for(integer k = 0; k < LastLocalID(etype); ++k) if( isValidElement(etype,k) )
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						{
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							HandleType h = ComposeHandle(etype,k);
							GetGeometricData(h,CENTROID,static_cast<Storage::real *>(MGetDenseLink(h,centroid_tag)));
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						}
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						ShowGeometricData(CENTROID,etype);
					}
				}
			}
			if( types == BARYCENTER )
			{
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				//std::cout << "BARYCENTER" << std::endl;
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				for(ElementType etype = EDGE; etype <= CELL; etype = NextElementType(etype))
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				{
					if( (mask & etype) && !HaveGeometricData(BARYCENTER,etype))
					{
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						barycenter_tag = CreateTag(barycenter_name,DATA_REAL,etype,NONE,GetDimensions());
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#if defined(USE_OMP)
#pragma omp parallel for
#endif
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						for(integer e = 0; e < LastLocalID(etype); ++e) if( isValidElement(etype,e) )
						{
							HandleType h = ComposeHandle(etype,e);
							GetGeometricData(h,BARYCENTER,static_cast<Storage::real *>(MGetDenseLink(h,barycenter_tag)));
						}
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						ShowGeometricData(BARYCENTER,etype);
					}
				}	
			}
			if( types == NORMAL )
			{
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				//std::cout << "NORMAL" << std::endl;
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				for(ElementType etype = FACE; etype <= CELL; etype = NextElementType(etype))
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				{
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					if( (mask & etype) && !HaveGeometricData(NORMAL,etype))
					{
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						normal_tag = CreateTag(normal_name,DATA_REAL,etype,NONE,GetDimensions());
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#if defined(USE_OMP)
#pragma omp parallel for
#endif
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						for(integer e = 0; e < LastLocalID(etype); ++e) if( isValidElement(etype,e) )
						{
							HandleType h = ComposeHandle(etype,e);
							GetGeometricData(h,NORMAL,static_cast<Storage::real *>(MGetDenseLink(h,normal_tag)));
						}
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						ShowGeometricData(NORMAL,etype);
					}
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				}
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			}
		}
	}
	
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	void Mesh::GetGeometricData(HandleType e, GeometricData type, Storage::real * ret)
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	{
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		assert(e != InvalidHandle());
		assert(ret != NULL);
		assert(type == MEASURE || type == CENTROID || type == BARYCENTER || type == NORMAL);
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		ElementType etype = GetHandleElementType(e);
		integer edim = Element::GetGeometricDimension(GetGeometricType(e));
		integer mdim = GetDimensions();
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		switch(type)
		{
			case MEASURE:
			if( HaveGeometricData(MEASURE,etype) )
			{
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				*ret = static_cast<Storage::real *>(MGetDenseLink(e,measure_tag))[0];
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				//~ if( isnan(*ret) || fabs(*ret) < 1e-15  ) throw -1;
			}
			else
			{
				switch(edim)
				{
					case 0: *ret = 0; break;
					case 1: //length of edge
					{
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						ElementArray<Node> nodes = Element(this,e)->getNodes();
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						if( nodes.size() > 1 )
						{
							Storage::real c[3];
							vec_diff(nodes[0]->Coords().data(),nodes[1]->Coords().data(),c,mdim);
							*ret = vec_len(c,mdim);
						}
						else *ret = 0;
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						//~ if( isnan(*ret) || fabs(*ret) < 1e-15  ) throw -1;
						break;
					}
					case 2: //area of face
					{
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						ElementArray<Node> nodes = Element(this,e)->getNodes();
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						if( nodes.size() > 2 )
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						{
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							real x[3] = {0,0,0};
							Storage::real_array x0 = nodes[0].Coords();
							for(ElementArray<Node>::size_type i = 1; i < nodes.size()-1; i++)
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							{
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								Storage::real_array v1 = nodes[i].Coords();
								Storage::real_array v2 = nodes[i+1].Coords();
								if( mdim == 3 )
								{
									x[0] += (v1[1]-x0[1])*(v2[2]-x0[2]) - (v1[2]-x0[2])*(v2[1]-x0[1]);
									x[1] += (v1[2]-x0[2])*(v2[0]-x0[0]) - (v1[0]-x0[0])*(v2[2]-x0[2]);
								}
								x[2] += (v1[0]-x0[0])*(v2[1]-x0[1]) - (v1[1]-x0[1])*(v2[0]-x0[0]);
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							}
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							*ret = ::sqrt(x[0]*x[0]+x[1]*x[1]+x[2]*x[2])*0.5;
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						} else *ret = 0;
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						//~ if( isnan(*ret) || fabs(*ret) < 1e-15  ) throw -1;
						break;
					}
					case 3: //volume of cell
					{
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						Cell me = Cell(this,e);
						ElementArray<Face> faces = me->getFaces();
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						*ret = 0;
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						//can copy orientation-independent algorithm from
						//incident_matrix.hpp: incident_matrix::compute_measure
						//assume mdim is of size 3 at most
						dynarray<Storage::real,3> fcnt(mdim), fnrm(mdim), ccnt(mdim);
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						/*
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						me->Centroid(ccnt.data());
						for(ElementArray<Face>::size_type i = 0; i < faces.size(); i++)
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						{
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							faces[i]->Centroid(fcnt.data());
							for(int r = 0; r < mdim; ++r)
								fcnt[r] = fcnt[r]-ccnt[r];
							faces[i]->OrientedNormal(me,fnrm.data());
							*ret += vec_dot_product(fcnt.data(),fnrm.data(),mdim);
						}
						if( *ret < 0.0 ) //a robust algorithm that can handle unoriented cell
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						 */
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						if( !faces.empty() )
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						{
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							//real was = *ret/3.0;
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							*ret = 0;
							Face cur = faces[0];
							Cell c1 = me;
							Mesh * mesh = c1.GetMeshLink();
							//firstly, have to figure out orientation of each face
							//mark all faces, so that we can perform adjacency retrival
							MarkerType mrk = mesh->CreatePrivateMarker();
							MarkerType rev = mesh->CreatePrivateMarker(); //reverse orientation
							faces.SetPrivateMarker(mrk); //0-th face orientation is default
							cur->RemPrivateMarker(mrk);
							Node n1,n2; //to retrive edge
							bool reverse = false; //reverse orientation in considered face
							std::deque< orient_face > stack; //edge and first node and face for visiting
							ElementArray<Edge> edges = cur->getEdges();
							do
							{
								//figure out starting node order
								if( edges[0]->getBeg() == edges[1]->getBeg() ||
								    edges[0]->getBeg() == edges[1]->getEnd() )
								{
									n1 = edges[0]->getEnd();
									n2 = edges[0]->getBeg();
								}
								else
								{
									n1 = edges[0]->getBeg();
									n2 = edges[0]->getEnd();
								}
								//schedule unvisited adjacent faces
								for(unsigned j = 0; j < edges.size(); j++)
								{
									//schedule face adjacent to considered edge
									ElementArray<Face> adjacent = edges[j]->getFaces(mrk);
									assert(adjacent.size() <= 1);
									if( !adjacent.empty() )
									{
										adjacent.RemPrivateMarker(mrk);
										stack.push_back(orient_face(edges[j],reverse ? n2 : n1,adjacent[0]));
									}
									//update edge nodes
									n1 = n2; //current end is new begin
									//find new end
									if( n2 == edges[(j+1)%edges.size()]->getBeg() )
										n2 = edges[(j+1)%edges.size()]->getEnd();
									else
										n2 = edges[(j+1)%edges.size()]->getBeg();
								}
								if( stack.empty() ) break;
								//get entry from stack
								orient_face r = stack.front();
								//remove face from stack
								stack.pop_front();
								//retrive edges for new face
								edges = r.face->getEdges();
								reverse = false;
								//figure out starting node order
								if( edges[0]->getBeg() == edges[1]->getBeg() ||
								   edges[0]->getBeg() == edges[1]->getEnd() )
								{
									n1 = edges[0]->getEnd();
									n2 = edges[0]->getBeg();
								}
								else
								{
									n1 = edges[0]->getBeg();
									n2 = edges[0]->getEnd();
								}
								//find out common edge orientation
								for(unsigned j = 0; j < edges.size(); j++)
								{
									if( edges[j] == r.bridge ) //found the edge
									{
										//reverse ordering on this face
										if( r.first == n1 )
										{
											r.face->SetPrivateMarker(rev);
											reverse = true;
										}
										break;
									}
									//update edge nodes
									n1 = n2; //current end is new begin
									//find new end
									if( n2 == edges[(j+1)%edges.size()]->getBeg() )
										n2 = edges[(j+1)%edges.size()]->getEnd();
									else
										n2 = edges[(j+1)%edges.size()]->getBeg();
								}
							} while(true);
							faces.RemPrivateMarker(mrk);
							mesh->ReleasePrivateMarker(mrk);
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							c1->Centroid(ccnt.data());
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							for(unsigned j = 0; j < faces.size(); j++)
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							{
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								//compute normal to face
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								faces[j].Centroid(fcnt.data());
								faces[j].Normal(fnrm.data());
								for(int r = 0; r < mdim; ++r)
									fcnt[r] = fcnt[r]-ccnt[r];
								*ret += (faces[j]->GetPrivateMarker(rev) ? -1.0 : 1.0)*vec_dot_product(fcnt.data(),fnrm.data(),3);
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							}
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							*ret = fabs(*ret);
							faces.RemPrivateMarker(rev);
							mesh->ReleasePrivateMarker(rev);
							
							//std::cout << "volume is " << *ret/3.0 << " was " << was << " for " << me->LocalID() << std::endl;
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						}
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						*ret /= 3.0;
						
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						break;
					}
				}
			}
			//~ if( isnan(*ret) || fabs(*ret) < 1e-15  ) throw -1;
			break;
			case CENTROID:
			if(etype == NODE )
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				memcpy(ret,MGetDenseLink(e,CoordsTag()),sizeof(real)*mdim);
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			else if(HaveGeometricData(CENTROID,etype))
			{
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				memcpy(ret,MGetDenseLink(e,centroid_tag),sizeof(real)*mdim);
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			}
			else
			{
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				ElementArray<Node> nodes = Element(this,e)->getNodes();
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				memset(ret,0,sizeof(real)*mdim);
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				if(nodes.size() != 0)
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				{
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					Storage::real div = 1.0/nodes.size();
					for(ElementArray<Node>::size_type i = 0; i < nodes.size(); i++)
					{
						Storage::real_array c =nodes[i].Coords();
						for(integer j = 0; j < mdim; j++) ret[j] += c[j];
					}
					for(integer j = 0; j < mdim; j++) ret[j] *= div;
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				}
			}
			break;
			case BARYCENTER:
			if( etype == NODE )
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				memcpy(ret,MGetDenseLink(e,CoordsTag()),sizeof(real)*mdim);
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			else if(HaveGeometricData(BARYCENTER,etype))
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				memcpy(ret,MGetDenseLink(e,barycenter_tag),sizeof(real)*mdim);
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			else
			{
				memset(ret,0,sizeof(real)*mdim);
				if( edim == 1 )
				{
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					ElementArray<Node> n = Element(this,e)->getNodes();
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					if( n.size() == 2 )
					{
						Storage::real_array a = n[0].Coords();
						Storage::real_array b = n[1].Coords();
						for(integer j = 0; j < dim; j++) 
							ret[j] = (a[j] + b[j])*0.5;
					}
					else if( n.size() == 1 )
					{
						Storage::real_array a = n[0].Coords();
						for(integer j = 0; j < dim; j++) ret[j] = a[j];
					}
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				}
				else if( edim == 2 )
				{
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					ElementArray<Node> nodes = Element(this,e)->getNodes();
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					real s,d, x1[3] = {0,0,0},x2[3] = {0,0,0},x[3] = {0,0,0};
					//here we compute area of polygon
					//~ if( HaveGeometricData(MEASURE,etype) && HaveGeometricData(NORMAL,etype) )
					//~ {
						//~ s = e->RealDF(measure_tag);
						//~ memcpy(x,&e->RealDF(normal_tag),sizeof(Storage::real)*mdim);
					//~ }
					//~ else
					//~ {
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					if( nodes.size() > 2 )
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					{
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						Storage::real_array x0 = nodes[0].Coords();
						for(ElementArray<Node>::size_type i = 1; i < nodes.size()-1; i++)
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						{
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							Storage::real_array v1 = nodes[i].Coords();
							Storage::real_array v2 = nodes[i+1].Coords();
							if( mdim == 3 )
							{
								x[0] += (v1[1]-x0[1])*(v2[2]-x0[2]) - (v1[2]-x0[2])*(v2[1]-x0[1]);
								x[1] += (v1[2]-x0[2])*(v2[0]-x0[0]) - (v1[0]-x0[0])*(v2[2]-x0[2]);
							}
							x[2] += (v1[0]-x0[0])*(v2[1]-x0[1]) - (v1[1]-x0[1])*(v2[0]-x0[0]);
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						}
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						s = ::sqrt(x[0]*x[0]+x[1]*x[1]+x[2]*x[2]);
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						x[0] /= s; x[1] /= s; x[2] /= s; //here we obtain the unit normal
						//~ }
						//here we compute the center
						Storage::real_array v0 = nodes[0].Coords();
						for(ElementArray<Node>::size_type j = 1; j < nodes.size()-1; j++)
						{
							Storage::real_array v1 = nodes[j].Coords();
							Storage::real_array v2 = nodes[j+1].Coords();
							for(integer k = 0; k < mdim; k++)
							{
								x1[k] = v0[k] - v1[k];
								x2[k] = v0[k] - v2[k];
							}
							d = det3v(x1,x2,x); //here we use unit normal
							for(integer k = 0; k < mdim; k++) 
								ret[k] += d*(v0[k]+v1[k]+v2[k]);
						}
						for(integer k = 0; k < mdim; k++) ret[k] /= 3.0 * s;
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					}
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					else
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					{
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						for(ElementArray<Node>::size_type i = 0; i < nodes.size(); i++)
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						{
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							Storage::real_array c = nodes[i].Coords();
							for(integer k = 0; k < mdim; k++) ret[k] += c[k];
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						}
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						for(integer k = 0; k < mdim; k++) ret[k] /= static_cast<Storage::real>(nodes.size());
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					}
				}
				else if( edim == 3 )
				{
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					ElementArray<Face> faces = Element(this,e)->getFaces();
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					real d,c,vol = 0, y[3];
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					for(ElementArray<Face>::size_type i = 0; i < faces.size(); i++)
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					{
						d = y[0] = y[1] = y[2] = 0;
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						ElementArray<Node> nodes = faces[i].getNodes();
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						Storage::real_array v0 = nodes[0].Coords();
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						for(ElementArray<Node>::size_type j = 1; j < nodes.size()-1; j++)
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						{
							Storage::real_array v1 = nodes[j].Coords();
							Storage::real_array v2 = nodes[j+1].Coords();
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							c = det3v(v0.data(),v1.data(),v2.data());
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							d += c;
							y[0] += c * (v0[0] + v1[0] + v2[0]);
							y[1] += c * (v0[1] + v1[1] + v2[1]);
							y[2] += c * (v0[2] + v1[2] + v2[2]);
						}
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						c = faces[i].FaceOrientedOutside(Cell(this,e)) ? 1 : -1;
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						ret[0] += c * y[0];
						ret[1] += c * y[1];
						ret[2] += c * y[2];
						vol += c*d;
					}
					ret[0] /= vol*4;
					ret[1] /= vol*4;
					ret[2] /= vol*4;
				}
			}
			break;
			case NORMAL:
			{
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//				real sret[3];
//				bool cmp = false;
				if( HaveGeometricData(NORMAL,etype) )
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				{
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					memcpy(ret,MGetDenseLink(e,normal_tag),sizeof(real)*mdim);
//					cmp = true;
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				}
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				else
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				{
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					memset(ret,0,sizeof(real)*mdim);
					if( edim == 2 )//&& mdim == 3)
					{
						ElementArray<Node> nodes = Element(this,e)->getNodes();
						
						Storage::real_array x0 = nodes[0].Coords(), a = x0, b;
						for(ElementArray<Node>::size_type i = 0; i < nodes.size(); i++)
						{
							b = nodes[(i+1)%nodes.size()].Coords();
							ret[0] += (a[1]-x0[1])*(b[2]-x0[2]) - (a[2]-x0[2])*(b[1]-x0[1]);
							ret[1] += (a[2]-x0[2])*(b[0]-x0[0]) - (a[0]-x0[0])*(b[2]-x0[2]);
							ret[2] += (a[0]-x0[0])*(b[1]-x0[1]) - (a[1]-x0[1])*(b[0]-x0[0]);
							a.swap(b);
						}
						/*
						 for(unsigned i = 0; i < nodes.size(); i++)
						 {
						 Storage::real_array a = nodes[i].Coords();
						 Storage::real_array b = nodes[(i+1)%nodes.size()].Coords();
						 ret[0] += a[1]*b[2] - a[2]*b[1];
						 ret[1] += a[2]*b[0] - a[0]*b[2];
						 ret[2] += a[0]*b[1] - a[1]*b[0];
						 }
						 */
						ret[0] *= 0.5;
						ret[1] *= 0.5;
						ret[2] *= 0.5;
					}
					else if( edim == 1 )//&& mdim == 2 )
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					{
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						ElementArray<Node> nodes = Element(this,e)->getNodes();
						if( nodes.size() > 1 )
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						{
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							Storage::real_array a = nodes[0].Coords();
							Storage::real_array b = nodes[1].Coords();
							ret[0] = b[1] - a[1];
							ret[1] = a[0] - b[0];
							Storage::real l = ::sqrt(ret[0]*ret[0]+ret[1]*ret[1]);
							if( l )
							{
								ret[0] /= l;
								ret[1] /= l;
							}
							l = ::sqrt((a[0]-b[0])*(a[0]-b[0])+(a[1]-b[1])*(a[1]-b[1]));
							ret[0] *= l;
							ret[1] *= l;
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						}
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					}
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//					real err = 0;
//					for(int k = 0; k < 3; ++k)
//						err += (ret[0]-sret[0])*(ret[0]-sret[0]);
//					err = sqrt(err);
//					if( err > 1.0e-8 && cmp )
//					{
//						std::cout << "face " << GetHandleID(e) << " rank " << GetProcessorRank() <<  std::endl;
//						std::cout << "cn " << ret[0] << " " << ret[1] << " " << ret[2] << std::endl;
//						std::cout << "sn " << sret[0] << " " << sret[1] << " " << sret[2] << std::endl;
//					}
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				}
			}
			break;
		}
		//~ if( type == MEASURE )
		//~ {
			//~ if( isnan(*ret) || fabs(*ret) < 1e-15  ) throw -1;
		//~ }
	}
	


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	bool Element::Planarity() const
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	{
		Mesh * m = GetMeshLink();
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		integer dim = m->GetDimensions();
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		if( dim < 3 ) return true;
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		ElementArray<Node> p = getNodes();
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		if( p.size() <= 3 ) return true;
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		ElementArray<Node>::size_type i, s = p.size();
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		Storage::real v[2][3] = {{0,0,0},{0,0,0}};
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		vec_diff(p[1].Coords().data(),p[0].Coords().data(),v[0],3);
		vec_diff(p[2].Coords().data(),p[0].Coords().data(),v[1],3);
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		vec_cross_product(v[0],v[1],v[1]);
		for(i = 3; i < s; i++)
		{
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			vec_diff(p[i].Coords().data(),p[0].Coords().data(),v[0],3);
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			if( ::fabs(vec_dot_product(v[0],v[1],3)) > m->GetEpsilon() ) return false;
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		}
		return true;
	}


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	bool Cell::Closure() const
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	{
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		adj_type & lc = GetMeshLink()->LowConn(GetHandle());
		return lc.size() > 0 ? GetMeshLink()->TestClosure(lc.data(),static_cast<integer>(lc.size())) : false;
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	}

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	bool Face::Closure() const
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	{
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		adj_type & lc = GetMeshLink()->LowConn(GetHandle());
		return lc.size() > 0 ? GetMeshLink()->TestClosure(lc.data(),static_cast<integer>(lc.size())) : false;
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	}



	

	

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	bool Element::Boundary() const
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	{
		switch(GetElementType())
		{
			case FACE:
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Feature    
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				if( !getAsFace()->FrontCell().isValid() )
					return true;
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				return false;
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			case CELL:
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			case EDGE:
			case NODE:
			{
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				ElementArray<Element> faces = getAdjElements(FACE);
				for(ElementArray<Element>::iterator it = faces.begin(); it != faces.end(); it++)
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					if( it->Boundary() ) return true;
				return false;
			}
			default: return false;
		}
		return false;
	}
	
	
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	std::ostream & spaces(std::ostream & out, int print)
	{
		while(print) {out << " "; print--;}
		return out;
	}
	
	
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	bool Face::CheckNormalOrientation() const
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	{
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		Mesh * mesh = GetMeshLink();
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        //integer dim = mesh->GetDimensions();
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		Cell c1 = BackCell();
		if( c1.isValid() )
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		{
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			Storage::real measure = 0;
			ElementArray<Face> data = c1.getFaces();
			Face cur = *this;
			//firstly, have to figure out orientation of each face
			//mark all faces, so that we can perform adjacency retrival
			MarkerType mrk = mesh->CreatePrivateMarker();
			MarkerType rev = mesh->CreatePrivateMarker(); //reverse orientation
			data.SetPrivateMarker(mrk); //0-th face orientation is default
			cur->RemPrivateMarker(mrk);
			Node n1,n2; //to retrive edge
			bool reverse = false; //reverse orientation in considered face
			std::deque< orient_face > stack; //edge and first node and face for visiting
			ElementArray<Edge> edges = cur->getEdges();
			do
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			{
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				//figure out starting node order
				if( edges[0]->getBeg() == edges[1]->getBeg() ||
				    edges[0]->getBeg() == edges[1]->getEnd() )
				{
					n1 = edges[0]->getEnd();
					n2 = edges[0]->getBeg();
				}
				else
				{
					n1 = edges[0]->getBeg();
					n2 = edges[0]->getEnd();
				}
				//schedule unvisited adjacent faces
				for(unsigned j = 0; j < edges.size(); j++)
				{
					//schedule face adjacent to considered edge
					ElementArray<Face> adjacent = edges[j]->getFaces(mrk);
					assert(adjacent.size() <= 1);
					if( !adjacent.empty() )
					{
						adjacent.RemPrivateMarker(mrk);
						stack.push_back(orient_face(edges[j],reverse ? n2 : n1,adjacent[0]));
					}
					//update edge nodes
					n1 = n2; //current end is new begin
					//find new end
					if( n2 == edges[(j+1)%edges.size()]->getBeg() )
						n2 = edges[(j+1)%edges.size()]->getEnd();
					else
						n2 = edges[(j+1)%edges.size()]->getBeg();
				}
				if( stack.empty() ) break;
				//get entry from stack
				orient_face r = stack.front();
				//remove face from stack
				stack.pop_front();
				//retrive edges for new face
				edges = r.face->getEdges();
				reverse = false;
				//figure out starting node order
				if( edges[0]->getBeg() == edges[1]->getBeg() ||
				   edges[0]->getBeg() == edges[1]->getEnd() )
				{
					n1 = edges[0]->getEnd();
					n2 = edges[0]->getBeg();
				}
				else
				{
					n1 = edges[0]->getBeg();
					n2 = edges[0]->getEnd();
				}
				//find out common edge orientation
				for(unsigned j = 0; j < edges.size(); j++)
				{
					if( edges[j] == r.bridge ) //found the edge
					{
						//reverse ordering on this face
						if( r.first == n1 )
						{
							r.face->SetPrivateMarker(rev);
							reverse = true;
						}
						break;
					}
					//update edge nodes
					n1 = n2; //current end is new begin
					//find new end
					if( n2 == edges[(j+1)%edges.size()]->getBeg() )
						n2 = edges[(j+1)%edges.size()]->getEnd();
					else
						n2 = edges[(j+1)%edges.size()]->getBeg();
				}
			} while(true);
			data.RemPrivateMarker(mrk);
			mesh->ReleasePrivateMarker(mrk);
			Storage::real nrm[3], cnt[3], ccnt[3];
			c1->Centroid(ccnt);
			for(unsigned j = 0; j < data.size(); j++)
			{
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				//std::cout << (data[j].GetPrivateMarker(rev) ? 0:1);
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				//compute normal to face
				data[j].Centroid(cnt);
				data[j].Normal(nrm);
				for(int r = 0; r < 3; ++r)
					cnt[r] = cnt[r]-ccnt[r];
				measure += (data[j]->GetPrivateMarker(rev) ? -1.0 : 1.0)*vec_dot_product(cnt,nrm,3);
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			}
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			//std::cout << "cur" << (cur->GetPrivateMarker(rev) ? 0:1) << " " << measure << " ";
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            //bool have_rev = cur->GetPrivateMarker(rev);
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			data.RemPrivateMarker(rev);
			mesh->ReleasePrivateMarker(rev);
			if( (measure < 0 ))// && !have_rev) || (measure > 0 && have_rev))
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				return false;
		}
		return true;
	}