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/////////////////////////////////////////////////////////////
// //
// Copyright (c) 2007-2014 by The University of Queensland //
// Centre for Geoscience Computing //
// http://earth.uq.edu.au/centre-geoscience-computing //
// //
// Primary Business: Brisbane, Queensland, Australia //
// Licensed under the Open Software License version 3.0 //
// http://www.opensource.org/licenses/osl-3.0.php //
// //
/////////////////////////////////////////////////////////////
#include "FullCircMNTable3D.h"
// --- System includes ---
#include <cmath>
// --- IO includes ---
#include <iostream>
using std::endl;
using std::floor;
FullCircMNTable3D::FullCircMNTable3D()
{}
/*!
Construct FullCircMNTable3D.
\param MinPt minimum point
\param MaxPt maximum point
\param cd cell dimension
\param ngroups initial number of particle groups
*/
FullCircMNTable3D::FullCircMNTable3D(const Vector3& MinPt,const Vector3& MaxPt,double cd,unsigned int ngroups):
CircMNTable3D(MinPt, MaxPt, cd, ngroups)
{
m_shift_y=Vector3(0.0,(m_max_pt-m_min_pt).Y(),0.0);
m_shift_z=Vector3(0.0,0.0,(m_max_pt-m_min_pt).Z());
// check if grid spacing fits size in circular directions:
double ny=(MaxPt-MinPt).Y()/m_celldim;
double nz=(MaxPt-MinPt).Z()/m_celldim;
// error message if not
if(ny!=floor(ny)){
std::cerr << "WARNING! grid spacing " << m_celldim << " doesn't fit periodic y-dimension " << (MaxPt-MinPt).Y() << std::endl;
}
if(nz!=floor(nz)){
std::cerr << "WARNING! grid spacing " << m_celldim << " doesn't fit periodic z-dimension " << (MaxPt-MinPt).Z() << std::endl;
}
}
/*!
Destruct FullCircMNTable3D.
*/
FullCircMNTable3D::~FullCircMNTable3D()
{}
/*!
set circularity of y-dimension to 1
*/
void FullCircMNTable3D::set_y_circ()
{
m_y_periodic=1;
}
/*!
set circularity of z-dimension to 1
*/
void FullCircMNTable3D::set_z_circ()
{
m_z_periodic=1;
}
/*!
get the cell index for a given position
\param Pos the position
\return the cell index if Pos is inside the table, -1 otherwise
*/
int FullCircMNTable3D::getIndex(const Vector3& Pos) const
{
int ret;
int ix=int(floor((Pos.x()-m_origin.x())/m_celldim));
int iy=int(floor((Pos.y()-m_origin.y())/m_celldim));
int iz=int(floor((Pos.z()-m_origin.z())/m_celldim));
// check if pos is in table excl. padding
if((ix>=0) && (ix<=m_nx-1) && (iy>=0) && (iy<=m_ny-1) && (iz>=0) && (iz<=m_nz-1)){
ret=idx(ix,iy,iz);
} else {
ret=-1;
}
return ret;
}
/*!
Insert sphere. Insert clone into other side of Table.
\param S the Sphere
\param gid the group id
*/
bool FullCircMNTable3D::insert(const Sphere& S,unsigned int gid)
{ bool res;
int id=getIndex(S.Center());
int xidx=getXIndex(S.Center());
int yidx=getYIndex(S.Center());
int zidx=getZIndex(S.Center());
if((id!=-1) && (xidx!=0) && (xidx!=m_nx-1) && (yidx!=0) && (yidx!=m_ny-1) && (zidx!=0) && (zidx!=m_nz-1) && (gid<m_ngroups)){ // valid index
// insert sphere
m_data[id].insert(S,gid);
res=true;
// insert x-clone
if (xidx==1){
Sphere SClone=S;
SClone.shift(m_shift_x);
int clone_id=getFullIndex(SClone.Center());
m_data[clone_id].insert(SClone,gid);
} else if (xidx==m_nx-2){
Sphere SClone=S;
SClone.shift(-1.0*m_shift_x);
int clone_id=getFullIndex(SClone.Center());
m_data[clone_id].insert(SClone,gid);
}
// insert y-clone
if (yidx==1){
Sphere SClone=S;
SClone.shift(m_shift_y);
int clone_id=getFullIndex(SClone.Center());
m_data[clone_id].insert(SClone,gid);
} else if (yidx==m_ny-2){
Sphere SClone=S;
SClone.shift(-1.0*m_shift_y);
int clone_id=getFullIndex(SClone.Center());
m_data[clone_id].insert(SClone,gid);
}
// insert z-clone
if (zidx==1){
Sphere SClone=S;
SClone.shift(m_shift_z);
int clone_id=getFullIndex(SClone.Center());
m_data[clone_id].insert(SClone,gid);
} else if (zidx==m_nz-2){
Sphere SClone=S;
SClone.shift(-1.0*m_shift_z);
int clone_id=getFullIndex(SClone.Center());
m_data[clone_id].insert(SClone,gid);
}
} else {
res=false;
}
return res;
}
/*!
Insert sphere if it doesn't collide with other spheres. Insert clone into other side of Table.
\param S the Sphere
\param gid the group id
*/
bool FullCircMNTable3D::insertChecked(const Sphere& S,unsigned int gid,double tol)
{
bool res;
int id=getIndex(S.Center());
int xidx=getXIndex(S.Center());
int yidx=getYIndex(S.Center());
int zidx=getZIndex(S.Center());
tol+=s_small_value;
if((id!=-1) && (xidx!=0) && (xidx!=m_nx-1) && (gid<m_ngroups)){
// insert original
multimap<double,const Sphere*> close_spheres=getSpheresFromGroupNear(S.Center(),S.Radius()-tol,gid);
if(close_spheres.size()==0){
m_data[id].insert(S,gid);
res=true;
} else res=false;
// insert x-clone
if (xidx==1){
Sphere SClone=S;
SClone.shift(m_shift_x);
multimap<double,const Sphere*> close_spheres=getSpheresFromGroupNear(SClone.Center(),SClone.Radius()-tol,gid);
if(close_spheres.size()==0){
int clone_id=getFullIndex(SClone.Center());
m_data[clone_id].insert(SClone,gid);
}
} else if (xidx==m_nx-2){
Sphere SClone=S;
SClone.shift(-1.0*m_shift_x);
multimap<double,const Sphere*> close_spheres=getSpheresFromGroupNear(SClone.Center(),SClone.Radius()-tol,gid);
if(close_spheres.size()==0){
int clone_id=getFullIndex(SClone.Center());
m_data[clone_id].insert(SClone,gid);
}
}
// insert y-clone
if (yidx==1){
Sphere SClone=S;
SClone.shift(m_shift_y);
multimap<double,const Sphere*> close_spheres=getSpheresFromGroupNear(SClone.Center(),SClone.Radius()-tol,gid);
if(close_spheres.size()==0){
int clone_id=getFullIndex(SClone.Center());
m_data[clone_id].insert(SClone,gid);
}
} else if (yidx==m_ny-2){
Sphere SClone=S;
SClone.shift(-1.0*m_shift_y);
multimap<double,const Sphere*> close_spheres=getSpheresFromGroupNear(SClone.Center(),SClone.Radius()-tol,gid);
if(close_spheres.size()==0){
int clone_id=getFullIndex(SClone.Center());
m_data[clone_id].insert(SClone,gid);
}
}
// insert z-clone
if (zidx==1){
Sphere SClone=S;
SClone.shift(m_shift_z);
multimap<double,const Sphere*> close_spheres=getSpheresFromGroupNear(SClone.Center(),SClone.Radius()-tol,gid);
if(close_spheres.size()==0){
int clone_id=getFullIndex(SClone.Center());
m_data[clone_id].insert(SClone,gid);
}
} else if (zidx==m_nz-2){
Sphere SClone=S;
SClone.shift(-1.0*m_shift_z);
multimap<double,const Sphere*> close_spheres=getSpheresFromGroupNear(SClone.Center(),SClone.Radius()-tol,gid);
if(close_spheres.size()==0){
int clone_id=getFullIndex(SClone.Center());
m_data[clone_id].insert(SClone,gid);
}
}
} else {
res=false;
}
return res;
}
bool FullCircMNTable3D::checkInsertable(const Sphere& S,unsigned int gid)
{
bool res;
int id=this->getIndex(S.Center());
int xidx=getXIndex(S.Center());
int yidx=getYIndex(S.Center());
int zidx=getZIndex(S.Center());
if((id!=-1) && (xidx!=0) && (xidx!=m_nx-1) && (yidx!=0) && (yidx!=m_ny-1) && (zidx!=0) && (zidx!=m_nz-1) && (gid<m_ngroups)){
multimap<double,const Sphere*> close_spheres=getSpheresFromGroupNear(S.Center(),S.Radius()-s_small_value,gid);
if(close_spheres.size()==0){
res=true;
} else {
res=false;
// for(map<double,const Sphere*>::const_iterator iter=close_spheres.begin();
// iter!=close_spheres.end();
// iter++){
// std::cerr << iter->first << " | " << *(iter->second) << std::endl;
// }
}
} else {
res=false;
}
return res;}
/*!
Generate bonds between particles of a group. Takes cloned particles into account.
\param gid the group ID
\param tol max. difference between bond length and equilibrium dist.
\param btag bond tag
*/
void FullCircMNTable3D::generateBonds(int gid,double tol,int btag)
{
std::cerr << "FullCircMNTable3D::generateBonds( " << gid << " , " << tol << " , " << btag << " )" << std::endl;
// loop over all inner cells
for(int i=0;i<m_nx-1;i++){
for(int j=0;j<m_ny-1;j++){
for(int k=0;k<m_nz-1;k++){
int id=idx(i,j,k);
// loop over "upper" neighbors of each cell
for(int ii=-1;ii<=1;ii++){
for(int jj=-1;jj<=1;jj++){
for(int kk=-1;kk<=1;kk++){
int id2=idx(i+ii,j+jj,k+kk);
vector<pair<int,int> > bonds;
if((ii+jj+kk)==0){ // intra-cell, not for boundary
// std::cerr << id << " - " << id << std::endl;
bonds=m_data[id].getBonds(gid,tol);
} else if(id2>id){ // inter-cell
//std::cerr << id << " - " << id2 << std::endl;
bonds=m_data[id].getBonds(gid,tol,m_data[id2]);
}
for(vector<pair<int,int> >::iterator iter=bonds.begin();
iter!=bonds.end();
iter++){
//std::cerr << iter->first << " | " << iter->second << " ";
if(iter->second > iter->first){
m_bonds[btag].insert(*iter);
}
}
//std::cerr << std::endl;
}
}
}
//std::cerr << std::endl;
}
}
}
}
// ostream& FullCircMNTable3D::operator << (ostream&,const FullCircMNTable3D&)
// {}
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