/usr/include/liggghts/surface_mesh.h is in libliggghts-dev 2.3.8-1build1.
This file is owned by root:root, with mode 0o644.
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LIGGGHTS - LAMMPS Improved for General Granular and Granular Heat
Transfer Simulations
LIGGGHTS is part of the CFDEMproject
www.liggghts.com | www.cfdem.com
Christoph Kloss, christoph.kloss@cfdem.com
Copyright 2009-2012 JKU Linz
Copyright 2012- DCS Computing GmbH, Linz
LIGGGHTS is based on LAMMPS
LAMMPS - Large-scale Atomic/Molecular Massively Parallel Simulator
http://lammps.sandia.gov, Sandia National Laboratories
Steve Plimpton, sjplimp@sandia.gov
This software is distributed under the GNU General Public License.
See the README file in the top-level directory.
------------------------------------------------------------------------- */
/* ----------------------------------------------------------------------
Contributing authors:
Christoph Kloss (JKU Linz, DCS Computing GmbH, Linz)
Philippe Seil (JKU Linz)
------------------------------------------------------------------------- */
#ifndef LMP_SURFACE_MESH_H
#define LMP_SURFACE_MESH_H
#include "tracking_mesh.h"
#include "container.h"
#include "container.h"
#include "random_park.h"
#include "vector_liggghts.h"
#include "random_park.h"
#include "memory_ns.h"
#include "mpi_liggghts.h"
#include "comm.h"
#include <cmath>
#include "math_extra_liggghts.h"
#define EPSILON_CURVATURE 0.00001
#define MIN_ANGLE_MESH 0.5 // in degress
using namespace LAMMPS_MEMORY_NS;
namespace LAMMPS_NS{
template<int NUM_NODES, int NUM_NEIGH_MAX>
class SurfaceMesh : public TrackingMesh<NUM_NODES>
{
public:
//virtual double distToElem(int nElem, double *p) = 0;
void setCurvature(double _curvature);
bool addElement(double **nodeToAdd,int lineNumb);
bool isPlanar();
bool areCoplanar(int tag_i, int tag_j);
bool areCoplanarNodeNeighs(int tag_i, int tag_j);
bool areCoplanarNeighs(int tag_i, int tag_j);
bool isOnSurface(double *pos);
void move(double *vecTotal, double *vecIncremental);
void move(double *vecIncremental);
void scale(double factor);
virtual int generateRandomOwnedGhost(double *pos) = 0;
virtual int generateRandomOwnedGhostWithin(double *pos,double delta) = 0;
virtual int generateRandomSubbox(double *pos) = 0;
inline double edgeEdgeDist(int iSrf, int iEdge, int jSrf, int jEdge);
inline double edgeNodeDist(int iSrf, int iEdge, int jSrf, int jNode);
inline double edgePointDist(int iSrf, int iEdge, double *point);
int n_active_edges(int i);
int n_active_corners(int i);
// public inline access
// area of total mesh - all elements (all processes)
inline double areaMeshGlobal()
{ return areaMesh_(0);}
// area of owned elements
inline double areaMeshOwned()
{ return areaMesh_(1);}
// area of ghost elements
inline double areaMeshGhost()
{ return areaMesh_(2);}
inline void edgeLen(int i,double *el)
{ vectorCopy3D(edgeLen_(i),el); }
inline void edgeVec(int i,int j,double *ev)
{ vectorCopy3D(edgeVec_(i)[j],ev); }
inline void surfaceNorm(int i,double *sn)
{ vectorCopy3D(surfaceNorm(i),sn); }
inline double areaElem(int i)
{ return (area_)(i); }
inline int nNeighs(int i)
{ return nNeighs_(i); }
inline int neighFaces(int i,int j)
{ return neighFaces_(i)[j]; }
inline bool edgeActive(int i,int j)
{ return (edgeActive_)(i)[j]; }
static const int NO_OBTUSE_ANGLE = -1;
protected:
SurfaceMesh(LAMMPS *lmp);
virtual ~SurfaceMesh();
void deleteElement(int n);
void qualityCheck();
void buildNeighbours();
void parallelCorrection();
// returns true if surfaces share an edge
// called with local index
// iEdge, jEdge return indices of first shared edge
bool shareEdge(int i, int j, int &iEdge, int &jEdge);
bool edgeVecsColinear(double *v,double *w);
bool coplanarNeighsOverlap(int iSrf,int iEdge,int jSrf,int jEdge);
// mesh topology functions, called with local index
void handleSharedEdge(int iSrf, int iEdge, int jSrf, int jEdge,
bool coplanar,bool neighflag = true);
virtual int handleCorner(int iSrf, int iNode,int *idListVisited,int *idListHasNode,
double **edgeList,double **edgeEndPoint);
void checkNodeRecursive(int iSrf,double *nodeToCheck,int &nIdListVisited,
int *idListVisited,int &nIdListHasNode,int *idListHasNode,
double **edgeList,double **edgeEndPoint,bool &anyActiveEdge);
// (re) calc properties
void calcSurfPropertiesOfNewElement();
void calcSurfPropertiesOfElement(int n);
void refreshOwned(int setupFlag);
void refreshGhosts(int setupFlag);
inline void recalcLocalSurfProperties();
inline void recalcGhostSurfProperties();
virtual double calcArea(int nElem) = 0;
void calcEdgeVecLen(int nElem, double *len, double **vec);
void calcSurfaceNorm(int nElem, double *surfNorm);
void calcEdgeNormals(int nElem, double **edgeNorm);
void calcObtuseAngleIndex(int nElem, int iNode, double &dot);
virtual bool isInElement(double *pos, int i) = 0;
int randomOwnedGhostElement();
void rotate(double *totalQ, double *dQ,double *origin);
void rotate(double *dQ,double *origin);
// inline access
inline double& area(int i) {return (area_)(i);}
inline double& areaAcc(int i) {return (areaAcc_)(i);}
inline double* edgeLen(int i) {return (edgeLen_)(i);}
inline double** edgeVec(int i) {return (edgeVec_)(i);}
inline double** edgeNorm(int i) {return (edgeNorm_)(i);}
inline double* surfaceNorm(int i) {return (surfaceNorm_)(i);}
inline bool* edgeActive(int i) {return (edgeActive_)(i);}
inline bool* cornerActive(int i) {return (cornerActive_)(i);}
inline bool* hasNonCoplanarSharedNode(int i) {return (hasNonCoplanarSharedNode_)(i);}
inline int& obtuseAngleIndex(int i) {return obtuseAngleIndex_(i); }
inline int nBelowAngle() {return nBelowAngle_;}
inline double angleLimit() {return acos(minAngle_)*180./M_PI;}
inline int nTooManyNeighs() {return nTooManyNeighs_;}
inline int nOverlapping() {return nOverlapping_;}
private:
int searchElementByAreaAcc(double area,int lo, int hi);
void growSurface(int iSrf, double by = 1e-13);
// mesh properties
double curvature_;
double minAngle_;
ScalarContainer<double>& areaMesh_;
int nBelowAngle_;
int nTooManyNeighs_;
int nOverlapping_;
// per-element properties
// add more properties as they are needed, such as
// edge length, edge vectors, surface normal ....
// surface properties
ScalarContainer<double>& area_;
ScalarContainer<double>& areaAcc_; // accumulated area of owned and ghost particles
VectorContainer<double,NUM_NODES>& edgeLen_; // len of edgeVec
MultiVectorContainer<double,NUM_NODES,3>& edgeVec_; // unit vec from node0 to node1 etc
MultiVectorContainer<double,NUM_NODES,3>& edgeNorm_;
VectorContainer<double,3>& surfaceNorm_;
ScalarContainer<int>& obtuseAngleIndex_;
// neighbor topology
ScalarContainer<int>& nNeighs_;
VectorContainer<int,NUM_NEIGH_MAX>& neighFaces_;
VectorContainer<bool,NUM_NODES>& hasNonCoplanarSharedNode_;
VectorContainer<bool,NUM_NODES>& edgeActive_;
VectorContainer<bool,NUM_NODES>& cornerActive_;
};
// *************************************
#include "surface_mesh_I.h"
// *************************************
} /* LAMMPS_NS */
#endif /* SURFACEMESH_H_ */
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