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cell.h
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#ifndef CELL_H
#define CELL_H
//#include <thrust/host_vector.h>
//#include <thrust/device_vector.h>
//#include <thrust/generate.h>
//#include <thrust/sort.h>
//#include <thrust/copy.h>
#include <stdlib.h>
#include <stdio.h>
#include <math.h>
#include "types.h"
#include "particle.h"
#include "cell_double.h"
#include "cell_base.h"
#include <iostream>
#include <vector>
#include "particle_target.h"
#include "mpi_shortcut.h"
using namespace std;
#define PARTICLE_MASS_TOLERANCE 1e-15
#define WRONG_PARTICLE_TYPE -13333
#define PARTICLES_FLYING_ONE_DIRECTION 50
#define TOO_MANY_PARTICLES -513131313
/*double d_sign(double a,double b)
{
if(b < 0.0) return -a;
else return a;
}*/
#ifdef GPU_PARTICLE
#ifdef __CUDACC__
__global__
#endif
#endif
void MoveParticle(void *,int,double);
typedef double* double_pointer;
//typedef struct CellDouble {
// double M[CellExtent][CellExtent][CellExtent];
//} CellDouble;
const int MAX_particles_per_cell = 5000;
#define DiagExtent 2
typedef struct DiagCell {
double M[DiagExtent][DiagExtent];
} DiagCell;
//surface<void, 2> particle_surface;
#ifdef __CUDACC__
__shared__
#endif
CellDouble fd[9];
#ifdef __CUDACC__
#ifdef __CUDACC__
__host__ __device__
#endif
#endif
int isNan(double t)
{
if(t > 0)
{
//int i = 0;
}
else
{
if(t <= 0)
{
//int i = 0;
}
else
{
return 1;
}
}
return 0;
}
template<class Particle,int dims>
class Cell
{
public:
// int i,l,k;
Point<int,DIMENSIONS,0> cnum;
double tau;
Point<double,DIMENSIONS,1> hstep;
Point<double,DIMENSIONS,0> xmin,xmax;
ParticleTarget<Particle,DIMENSIONS> *tgt;
double beam_boundary;
double beam_boundary_counter;
// double xmin.x;//z0;
// double xmax.x; //,ym;//,zm;
// int Nx,Ny;//,Nz;
Point<int,DIMENSIONS,1> mesh;
int jmp;
double *d_ctrlParticles;
int flag_wrong_current_cell;
double *d_wrong_current_particle_attributes,*h_wrong_current_particle_attributes;
CellDouble *Jx, *Ex, *Hx,*Jy, *Ey, *Hy,*Jz, *Ez, *Hz,*Rho;
#ifdef GPU_PARTICLE
double *doubParticleArray;
int number_of_particles;
int busyParticleArray;
int arrival[3][3][3],departure[3][3][3];
int departureListLength;
Particle departureList[3][3][3][PARTICLES_FLYING_ONE_DIRECTION];
double *doubArrivalArray;
//get position in arrival matrix of a cell for the particles for cell "c"
#ifdef __CUDACC__
__host__ __device__
#endif
int getArrivalMatrixPosition(Cell *c,int *ix,int *iy,int *iz)
{
int ci = c->cnum.x,cl = c->cnum.y,ck = c->cnum.z();
getGlobalCellNumberTriplet(&ci,&cl,&ck);
int dx = abs(cnum.x -ci),
dy = abs(cnum.y -cl),
dz = abs(cnum.z()-ck);
if((dx == 1 || dy == 1 || dz == 1) && (dx < 2 && dy < 2 && dz < 2)) return 1;
*ix = 1 + ci - cnum.x;
*iy = 1 + cl - cnum.y;
*iz = 1 + ck - cnum.z();
return 0;
}
#else
thrust::host_vector<Particle> all_particles;
#endif
double *getParticles() { return doubParticleArray; }
#ifdef __CUDACC__
__host__ __device__
#endif
virtual
int ClearCell()
{
free(Jx);
free(Ex);
free(Hx);
free(Jy);
free(Ey);
free(Hy);
free(Jz);
free(Ez);
free(Hz);
free(Rho);
free(doubParticleArray);
return 0;
}
#ifdef __CUDACC__
__host__ __device__
#endif
int AllocParticles()
{
int size = sizeof(Particle)/sizeof(double);
doubParticleArray = new double[size*MAX_particles_per_cell];
number_of_particles = 0;
busyParticleArray = 0;
return 0;
}
#ifdef __CUDACC__
__host__ __device__
#endif
double ParticleArrayRead(int n_particle,int attribute)
{
return doubParticleArray[attribute + n_particle*sizeof(Particle)/sizeof(double)];
}
#ifdef __CUDACC__
__host__ __device__
#endif
void ParticleArrayWrite(int n_particle,int attribute,double t)
{
doubParticleArray[attribute + n_particle*sizeof(Particle)/sizeof(double)] = t;
}
double
#ifdef __CUDACC__
__host__ __device__
#endif
int2double(int a,int b)
{
unsigned long long u;
double *d;
u = a;
u = u << 32 | b;
d = (double*)&u;
return *d;
}
void
#ifdef __CUDACC__
__host__ __device__
#endif
double2int(double d,int *a,int *b)
{
unsigned long long *u,uu;
u = (unsigned long long *)&d;
uu = *u;
*a = (int)(uu >>32);
*b = (int)(uu & 0xffffffff);
}
#ifdef __CUDACC__
__host__ __device__
#endif
void writeParticleToSurface(int n,Particle *p)
{
int size_p = sizeof(Particle);
double *pos;
union Data
{
int a,b;
double d;
} data;
ParticleArrayWrite(n,0,p->m);
ParticleArrayWrite(n,1,p->X.x);
ParticleArrayWrite(n,2,p->X.y);
ParticleArrayWrite(n,3,p->X.z());
ParticleArrayWrite(n,4,p->pu);
ParticleArrayWrite(n,5,p->pv);
ParticleArrayWrite(n,6,p->pw);
ParticleArrayWrite(n,7,p->q_m);
#ifdef DEBUG_PLASMA
data.a = p->fortran_number;
data.b = (int)p->sort;
double d = int2double(p->fortran_number, (int)p->sort);
ParticleArrayWrite(n,8,d);
#endif
int i;
}
#ifdef __CUDACC__
__host__ __device__
#endif
void addParticleToSurface(Particle *p,int *number_of_particles)
{
writeParticleToSurface(*number_of_particles,p);
(*number_of_particles)++;
//busyParticleArray = 0;
}
#ifdef __CUDACC__
__host__ __device__
#endif
void readParticleFromSurfaceDevice(int n,Particle *p)
{
p->m = ParticleArrayRead(n,0);
p->X.x = ParticleArrayRead(n,1);
p->X.y = ParticleArrayRead(n,2);
p->X.setZ(ParticleArrayRead(n,3));
p->pu = ParticleArrayRead(n,4);
p->pv = ParticleArrayRead(n,5);
p->pw = ParticleArrayRead(n,6);
p->q_m = ParticleArrayRead(n,7);
#ifdef DEBUG_PLASMA
double d;
int a,b;
d = ParticleArrayRead(n,8);
double2int(d,&a,&b);
p->fortran_number = a;
p->sort = (particle_sorts)b;
#endif
int i;
/*
surf2Dread(&(x.x),particle_surface,1*8,n);
surf2Dread(&(x.y),particle_surface,2*8,n);
surf2Dread(&(x.z),particle_surface,3*8,n);
*/
}
public:
#ifdef __CUDACC__
__host__ __device__
#endif
void removeParticleFromSurfaceDevice(int n,Particle *p,int *number_of_particles)
{
int i,k;
double b;
readParticleFromSurfaceDevice(n,p);
i = *number_of_particles-1;
if(this->cnum.x == 1 && this->cnum.y == 0 && this->cnum.z() == 0)
{
#ifdef STRAY_DEBUG_PRINTS
printf("deleteLAST FN %10d n %d i %d num %d \n",p->fortran_number,n,i,*number_of_particles);
#endif
}
if(n < i)
{
for(k = 0;k < sizeof(Particle)/sizeof(double);k++)
{
b = ParticleArrayRead(i,k);
ParticleArrayWrite(n,k,b);
}
}
(*number_of_particles)--;
//atomicAdd(number_of_particles, -1);
if(this->cnum.x == 1 && this->cnum.y == 0 && this->cnum.z() == 0)
{
#ifdef STRAY_DEBUG_PRINTS
printf("deleteLAST FN %10d n %d i %d num %d \n",p->fortran_number,n,i,*number_of_particles);
#endif
}
//busyParticleArray = 0;
}
#ifdef __CUDACC__
__host__ __device__
#endif
void printCellParticles(char *where,int nt)
{
Particle p;
for(int i = 0;i < number_of_particles;i++)
{
readParticleFromSurfaceDevice(i,&p);
printf("%s step %d i %5d sort %d FN %10d c ( %d %d %d ) pointInCell %d x %15.5e y %15.5e z %15.5e m %15.5e q_m %15.5e px %15.5e %15.5e %15.5e \n",where,nt,
i,(int)p.sort,p.fortran_number,this->i,this->l,this->k,isPointInCell(p.GetX()),p.x,p.y,p.z, p.m,p.q_m, p.pu,p.pv,p.pw);
}
}
#ifdef __CUDACC__
__host__ __device__
#endif
double get_hx(){return hstep.x;}
#ifdef __CUDACC__
__host__ __device__
#endif
double get_hy(){return hstep.y;}
#ifdef __CUDACC__
__host__ __device__
#endif
double get_hz(){return hstep.z();}
#ifdef __CUDACC__
__host__ __device__
#endif
int get_i(){return cnum.x;}
#ifdef __CUDACC__
__host__ __device__
#endif
int get_l(){return cnum.y;}
#ifdef __CUDACC__
__host__ __device__
#endif
int get_k(){return cnum.z();}
#ifdef __CUDACC__
__host__ __device__
#endif
CellDouble& getJx(){return (*Jx);}
#ifdef __CUDACC__
__host__ __device__
#endif
CellDouble& getJy(){return (*Jy);}
#ifdef __CUDACC__
__host__ __device__
#endif
CellDouble& getJz(){return (*Jz);}
#ifdef __CUDACC__
__host__ __device__
#endif
CellDouble& getRho(){return (*Rho);}
#ifdef GPU_PARTICLE
double *GetParticles(){return doubParticleArray;}
#else
thrust::host_vector<Particle>& GetParticles(){return all_particles;}
#endif
void writeToArray(double *E);
#ifdef __CUDACC__
__host__ __device__
#endif
double getCellFraction(double x,double x0,double hx){ double t = (x - x0)/hx;
return t;}
#ifdef __CUDACC__
__host__ __device__
#endif
int getCellNumber(double x,double x0,double hx){ return ((int) (getCellFraction(x,x0,hx) + 1.0) +1);}
#ifdef __CUDACC__
__host__ __device__
#endif
int getCellNumberCenter(double x,double x0,double hx)
{
double t = ((getCellFraction(x,x0,hx) + 1.0) + 1.5); // Fortran-style numbering used for particle shift computation
return (int)(t);}
#ifdef __CUDACC__
__host__ __device__
#endif
int getCellNumberCenterY(double x,double x0,double hx){double t = (x-x0)/hx + 1.5; // Fortran-style numbering used for particle shift computation
return (int)(t);}
#ifdef __CUDACC__
__host__ __device__
#endif
int getCellNumberCenterCurrent(double x,double x0,double hx){double t = (getCellFraction(x,x0,hx) + 1.5); // Fortran-style numbering used for particle shift computation
return (int)(t+1);}
#ifdef __CUDACC__
__host__ __device__
#endif
int getPointPosition(double x,double x0,double hx){return (int)getCellFraction(x,x0,hx);}
#ifdef __CUDACC__
__host__ __device__
#endif
int getPointCell(double3 x){ // for Particle to Cell distribution:
int i = getPointPosition(x.x,0.0,hstep.x);
int l = getPointPosition(x.y,0.0,hstep.y);
int k = getPointPosition(x.z,0.0,hstep.z());
return getGlobalCellNumber(i,l,k);
}
#ifdef __CUDACC__
__host__ __device__
#endif
double getNodeX(int i){return (((double)i-0.5)*hstep.x);}
#ifdef __CUDACC__
__host__ __device__
#endif
double getNodeY(int i){return (((double)i-0.5)*hstep.y);}
#ifdef __CUDACC__
__host__ __device__
#endif
double getNodeZ(int i){return (((double)i-0.5)*hstep.z());}
#ifdef __CUDACC__
__host__ __device__
#endif
double getCoreCell(int code,int i,int l, int k)
{
switch(code)
{
case 0: return (*Ex).M[i][l][k];
case 1: return (*Ey).M[i][l][k];
case 2: return (*Ez).M[i][l][k];
case 3: return (*Hx).M[i][l][k];
case 4: return (*Hy).M[i][l][k];
case 5: return (*Hz).M[i][l][k];
case 6: return (*Jx).M[i][l][k];
case 7: return (*Jy).M[i][l][k];
case 8: return (*Jz).M[i][l][k];
case 9: return (*Rho).M[i][l][k];
default: return 0.0;
}
}
#ifdef __CUDACC__
__host__ __device__
#endif
double getCellReminder(double x,double x0,double hx) {return (getCellNumber(x,x0,hx)- getCellFraction(x,x0,hx)) - 1.0;}
#ifdef __CUDACC__
__host__ __device__
#endif
double getCellCenterReminder(double x,double x0,double hx)
{
double t = getCellNumberCenter(x,x0,hx);
double tf = getCellFraction(x,x0,hx);
//double q = t - tf - 1.0;
return (t - 0.5 - tf - 1.0);
}
#ifdef __CUDACC__
__host__ __device__
#endif
double getCellTransitAverage(double hz,int i1, int i2,double x0){return (hz * (((double)i1 + (double)i2) * 0.5 - 2.0) + x0);}
#ifdef __CUDACC__
__host__ __device__
#endif
double getCellTransitRatio(double z1,double z,double z2){return (z2 - z) / (z1 - z);}
#ifdef __CUDACC__
__host__ __device__
#endif
double getCellTransitProduct(double z1,double z,double z2){return (z2 - z) * (z1 - z);}
#ifdef __CUDACC__
__host__ __device__
#endif
double getRatioBasedX(double x1,double x,double s){ return (x + (x1 - x) * s);}
#ifdef __CUDACC__
__host__ __device__
#endif
double getCenterRelatedShift(double x,double x1,int i,double hx,double x0){ //double t = 0.50*(x+x1);
// double t1 = hx*((double)i-2.50);
return (0.50*(x+x1)-hx*((double)i-2.50) -x0);}
#ifdef __CUDACC__
__host__ __device__
#endif
void flyDirection(Particle *p,int *dx,int *dy,int *dz)
{
*dx = (((p->X.x > xmin.x + hstep.x) && (p->X.x < xmin.x + 2*hstep.x)) || ((p->X.x < hstep.x) && (cnum.x == mesh.x - 1))) ? 2 : ( ((p->X.x < xmin.x) || ((p->X.x > xmax.x-hstep.x) && (cnum.x == 0))) ? 0 : 1);
*dy = (((p->X.y > xmin.y + hstep.y) && (p->X.y < xmin.y + 2*hstep.y)) || ((p->X.y < hstep.y) && (cnum.y == mesh.y - 1))) ? 2 : ( ((p->X.y < xmin.y) || ((p->X.y > xmax.y-hstep.y) && (cnum.y == 0))) ? 0 : 1);
*dz = (DIMENSIONS != 3) ? 0 :
(((p->X.z() > xmin.z() + hstep.z()) && (p->X.z() < xmin.z() + 2*hstep.z()))
|| ((p->X.z() < hstep.z()) && (cnum.z() == mesh.z() - 1))) ? 2 : ( ((p->X.z() < xmin.z())
|| ((p->X.z() > xmax.z()-hstep.z()) && (cnum.z() == 0))) ? 0 : 1);
}
#ifdef __CUDACC__
__host__ __device__
#endif
void inverseDirection(int *dx,int *dy,int *dz)
{
*dx = (*dx == 2) ? 0 : ( *dx == 0 ? 2 : 1);
*dy = (*dy == 2) ? 0 : ( *dy == 0 ? 2 : 1);
*dz = (*dz == 2) ? 0 : ( *dz == 0 ? 2 : 1);
}
#ifdef __CUDACC__
__host__ __device__
#endif
bool isPointInCell(double3 x)
{
return ((xmin.x <= x.x) && (x.x < xmin.x + hstep.x) &&
(xmin.y <= x.y) && (x.y < xmin.y + hstep.y) &&
(xmin.z() <= x.z) && (x.z < xmin.z() + hstep.z()));
}
//public:
#ifdef __CUDACC__
__host__ __device__
#endif
Cell(){}
#ifdef __CUDACC__
__host__ __device__
#endif
~Cell(){}
#ifdef __CUDACC__
__host__ __device__
#endif
Cell(int i1,int l1,int k1,double Lx,double Ly, double Lz,int Nx1, int Ny1, int Nz1,double tau1)
{
Cell();
mesh.x = Nx1;
mesh.y = Ny1;
mesh.setZ(Nz1);
cnum.x = i1;
cnum.y = l1;
cnum.setZ(k1);
hstep.x = Lx/((double)mesh.x);
hstep.y = Ly/((double)mesh.y);
hstep.setZ(Lz/((double)mesh.z()));
xmax.x = Lx;
xmax.y = Ly;
xmax.setZ(Lz);
xmin.x = (double)(cnum.x) *hstep.x;
xmin.y = (double)(cnum.y) *hstep.y;
xmin.setZ((double)(cnum.z())*hstep.z());
tau = tau1;
}
#ifdef __CUDACC__
__host__ __device__
#endif
#ifdef VIRTUAL_FUNCTIONS
virtual
#endif
double3 GetElectricField(
int i,int l,int k,int i1,int l1,int k1,
double& s1,double& s2,double& s3,double& s4,double& s5,double& s6,
double& s11,double& s21,double& s31,double& s41,double& s51,double& s61,
Particle *p,CellDouble *Ex1,CellDouble *Ey1,CellDouble *Ez1
)
{
double3 E;
int3 cell_num;
cell_num.x = i;
cell_num.y = l1;
cell_num.z = k1;
E.x = Interpolate3D(Ex1,&cell_num,s1,s11,s4,s41,s6,s61,p,0);
cell_num.x = i1;
cell_num.y = l;
cell_num.z = k1;
E.y = Interpolate3D(Ey1,&cell_num,s2,s21,s3,s31,s6,s61,p,1);
cell_num.x = i1;
cell_num.y = l1;
cell_num.z = k;
E.z = Interpolate3D(Ez1,&cell_num,s2,s21,s4,s41,s5,s51,p,2);
return E;
}
#ifdef __CUDACC__
__host__ __device__
#endif
int3 getCellTripletNumber(int n){int3 i; i.z = n % mesh.dimz2();
i.y = ((n -i.z)/mesh.dimz2())%(mesh.y + 2);
i.x = (n - i.z - i.y*mesh.dimz2())/((mesh.y+2)*mesh.dimz2());
return i;}
#ifdef __CUDACC__
__host__ __device__
#endif
int getGlobalCellNumberTriplet(int *i,int *l,int *k){
if(*i >= mesh.x+2) *i -= mesh.x+2;
if(*l >= mesh.y+2) *l -= mesh.y+2;
if(*k >= mesh.dimz2()) *k -= mesh.dimz2();
return 0;
}
#ifdef __CUDACC__
__host__ __device__
#endif
int getGlobalCellNumber (int i,int l,int k){
getGlobalCellNumberTriplet(&i,&l,&k);
return (i*(mesh.y+2)*mesh.dimz2() + l*mesh.dimz2() + k*mesh.dim3D());
}
#ifdef __CUDACC__
__host__ __device__
#endif
int getWrapCellNumberTriplet(int *i,int *l,int *k){
if(*i >= mesh.x)
{
*i -= mesh.x;
}
else
{
if(*i < 0)
{
*i += mesh.x;
}
}
if(*l >= mesh.y)
{
*l -= mesh.y;
}
else
{
if(*l < 0)
{
*l += mesh.y;
}
}
if(*k >= mesh.z())
{
*k -= mesh.z();
}
else
{
if(*k < 0)
{
*k += mesh.z();
}
}
return 0;
}
#ifdef __CUDACC__
__host__ __device__
#endif
int getWrapCellNumber (int i,int l,int k){
getWrapCellNumberTriplet(&i,&l,&k);
return (i*(mesh.y+2)*mesh.dimz2() + l*mesh.dimz2() + k*mesh.dim3D());
}
#ifdef __CUDACC__
__host__ __device__
#endif
int getFortranCellNumber (int i,int l,int k)
{
return getGlobalCellNumber(i-1,l-1,k-1);}
#ifdef __CUDACC__
__host__ __device__
#endif
void getFortranCellTriplet (int n,int *i,int *l,int *k)
{
*i = n/((mesh.y+2)*mesh.dimz2());
*l = (n - (*i)*(mesh.y+2)*mesh.dimz2())/mesh.z();
*k = n - (*i)*(mesh.y+2)*mesh.dimz2() - (*l)*mesh.dimz2();
(*i) += 1;
(*l) += 1;
(*k) += 1;
}
#ifdef __CUDACC__
__host__ __device__
#endif
int getGlobalBoundaryCellNumber(int i,int k,int dir,int N){ int i1 = (dir==0)*N + (dir == 1)*i + (dir == 2)*i;
int l1 = (dir==0)*i + (dir == 1)*N + (dir == 2)*k;
int k1 = (dir==0)*k + (dir == 1)*k + (dir == 2)*N;
return getGlobalCellNumber(i1,l1,k1);
}
#ifdef __CUDACC__
__host__ __device__
#endif
int getPeriodicShift(int dir,int i,int Nx)
{
return ((i == -1)*(Nx-1) + (i == Nx)*0 + (i >= 0 && i < Nx)*i);
}
#ifdef __CUDACC__
__host__ __device__
#endif
int getDirectedPeriodicShift(int dir,int i)
{
return (dir == 0)*getPeriodicShift(dir,i,mesh.x)+(dir == 1)*getPeriodicShift(dir,i,mesh.y) + (dir == 2)*getPeriodicShift(dir,i,mesh.z());
}
#ifdef __CUDACC__
__host__ __device__
#endif
int3 getFlyout(Particle p)
{
int3 n3;
n3.x = (xmin.x > p.x)*getDirectedPeriodicShift(0,cnum.x -1) + (xmin.x + hstep.x < p.x)*getDirectedPeriodicShift(0,cnum.x +1) + ((xmin.x < p.x) && (xmin.x + hstep.x > p.x))*cnum.x;
n3.y = (xmin.y > p.y)*getDirectedPeriodicShift(1,cnum.y -1) + (xmin.y + hstep.y < p.y)*getDirectedPeriodicShift(1,cnum.y +1) + ((xmin.y < p.y) && (xmin.y + hstep.y > p.y))*cnum.y;
n3.z = (xmin.z() > p.z)*getDirectedPeriodicShift(2,cnum.z()-1) + (xmin.z() + hstep.z() < p.z)*getDirectedPeriodicShift(2,cnum.z()+1) + ((xmin.z() < p.z) && (xmin.z() + hstep.z() > p.z))*cnum.z();
return n3;
}
#ifdef __CUDACC__
__host__ __device__
#endif
void ClearParticles(){number_of_particles = 0;}
#ifdef __CUDACC__
__host__ __device__
#endif
void Init()
{
Jx = new CellDouble;
Jy = new CellDouble;
Jz = new CellDouble;
Ex = new CellDouble;
Ey = new CellDouble;
Ez = new CellDouble;
Hx = new CellDouble;
Hy = new CellDouble;
Hz = new CellDouble;
Rho = new CellDouble;
AllocParticles();
/*#endif*/
}
#ifdef __CUDACC__
__host__ __device__
#endif
void SetZero()
{