/* The matlab mex function */
void mexFunction( int nlhs, mxArray *plhs[], int nrhs, const mxArray *prhs[] )
{
/* Ox and Oy are the grid points */
/* Zo is the input image */
/* Zi is the transformed image */
/* nx and ny are the number of grid points (inside the image) */
double *Ox,*Oy,*Oz,*dxa, *dya,*dza,*Iout;
mxArray *matlabCallOut[1]={0};
mxArray *matlabCallIn[1]={0};
double *Nthreadsd;
int Nthreads;
/* double pointer array to store all needed function variables) */
double ***ThreadArgs;
double **ThreadArgs1;
/* Handles to the worker threads */
ThreadHANDLE *ThreadList;
/* ID of Threads */
double **ThreadID;
double *ThreadID1;
double nlhs_d[1]={0};
/* Size of input image */
double *Isize_d;
mwSize dims[3];
/* Size of grid */
mwSize Osizex, Osizey, Osizez;
double Osize_d[3]={0,0,0};
const mwSize *dimso;
/* B-spline variablesl */
double u,v,w;
int u_index=0;
int v_index=0;
int w_index=0;
double *Bu, *Bv, *Bw;
double *Bdu, *Bdv, *Bdw;
/* Loop variable */
int i;
/* Grid distance */
int dx,dy,dz;
/* X,Y,Z coordinates of current pixel */
int x,y,z;
/* Check for proper number of arguments. */
if(nrhs!=7) {
mexErrMsgTxt("Seven inputs are required.");
}
/* Get the sizes of the grid */
dimso = mxGetDimensions(prhs[0]);
Osizex = dimso[0];
Osizey = dimso[1];
Osizez = dimso[2];
/* Assign pointers to each input. */
Ox=(double *)mxGetData(prhs[0]);
Oy=(double *)mxGetData(prhs[1]);
Oz=(double *)mxGetData(prhs[2]);
Isize_d=(double *)mxGetData(prhs[3]);
dxa=(double *)mxGetData(prhs[4]);
dya=(double *)mxGetData(prhs[5]);
dza=(double *)mxGetData(prhs[6]);
/* Create image matrix for the return arguments with the size of input image */
dims[0]=(mwSize)Isize_d[0];
dims[1]=(mwSize)Isize_d[1];
dims[2]=(mwSize)Isize_d[2];
plhs[0] = mxCreateNumericArray(3, dims, mxDOUBLE_CLASS, mxREAL);
/* Get the spacing of the uniform b-spline grid */
dx=(int)dxa[0]; dy=(int)dya[0]; dz=(int)dza[0];
/* Get number of allowed threads */
mexCallMATLAB(1, matlabCallOut, 0, matlabCallIn, "maxNumCompThreads");
Nthreadsd=mxGetPr(matlabCallOut[0]);
Nthreads=(int)Nthreadsd[0];
/* Reserve room for handles of threads in ThreadList */
ThreadList = (ThreadHANDLE*)malloc(Nthreads* sizeof( ThreadHANDLE ));
ThreadID = (double **)malloc( Nthreads* sizeof(double *) );
ThreadArgs = (double ***)malloc( Nthreads* sizeof(double **) );
/* Assign pointer to output. */
Iout = (double *)mxGetData(plhs[0]);
/* Make polynomial look up tables */
Bu=malloc(dx*4*sizeof(double));
Bv=malloc(dy*4*sizeof(double));
Bw=malloc(dz*4*sizeof(double));
Bdu=malloc(dx*4*sizeof(double));
Bdv=malloc(dy*4*sizeof(double));
Bdw=malloc(dz*4*sizeof(double));
for (x=0; x<dx; x++)
{
u=((double)x/(double)dx)-floor((double)x/(double)dx);
Bu[mindex2(0,x,4)] = BsplineCoefficient(u,0);
Bu[mindex2(1,x,4)] = BsplineCoefficient(u,1);
Bu[mindex2(2,x,4)] = BsplineCoefficient(u,2);
Bu[mindex2(3,x,4)] = BsplineCoefficient(u,3);
Bdu[mindex2(0,x,4)] = BsplineCoefficientDerivative(u,0)/dxa[0];
Bdu[mindex2(1,x,4)] = BsplineCoefficientDerivative(u,1)/dxa[0];
Bdu[mindex2(2,x,4)] = BsplineCoefficientDerivative(u,2)/dxa[0];
Bdu[mindex2(3,x,4)] = BsplineCoefficientDerivative(u,3)/dxa[0];
}
for (y=0; y<dy; y++)
{
v=((double)y/(double)dy)-floor((double)y/(double)dy);
Bv[mindex2(0,y,4)] = BsplineCoefficient(v,0);
Bv[mindex2(1,y,4)] = BsplineCoefficient(v,1);
Bv[mindex2(2,y,4)] = BsplineCoefficient(v,2);
Bv[mindex2(3,y,4)] = BsplineCoefficient(v,3);
Bdv[mindex2(0,y,4)] = BsplineCoefficientDerivative(v,0)/dya[0];
Bdv[mindex2(1,y,4)] = BsplineCoefficientDerivative(v,1)/dya[0];
Bdv[mindex2(2,y,4)] = BsplineCoefficientDerivative(v,2)/dya[0];
Bdv[mindex2(3,y,4)] = BsplineCoefficientDerivative(v,3)/dya[0];
}
for (z=0; z<dz; z++)
{
w=((double)z/(double)dz)-floor((double)z/(double)dz);
Bw[mindex2(0,z,4)] = BsplineCoefficient(w,0);
Bw[mindex2(1,z,4)] = BsplineCoefficient(w,1);
Bw[mindex2(2,z,4)] = BsplineCoefficient(w,2);
Bw[mindex2(3,z,4)] = BsplineCoefficient(w,3);
Bdw[mindex2(0,z,4)] = BsplineCoefficientDerivative(w,0)/dza[0];
Bdw[mindex2(1,z,4)] = BsplineCoefficientDerivative(w,1)/dza[0];
Bdw[mindex2(2,z,4)] = BsplineCoefficientDerivative(w,2)/dza[0];
Bdw[mindex2(3,z,4)] = BsplineCoefficientDerivative(w,3)/dza[0];
}
Osize_d[0]=(double)Osizex; Osize_d[1]=(double)Osizey; Osize_d[2]=(double)Osizez;
nlhs_d[0]=(double)nlhs;
/* Reserve room for 16 function variables(arrays) */
for (i=0; i<Nthreads; i++)
{
/* Make Thread ID */
ThreadID1= (double *)malloc( 1* sizeof(double) );
ThreadID1[0]=(double)i;
ThreadID[i]=ThreadID1;
/* Make Thread Structure */
ThreadArgs1 = (double **)malloc( 17* sizeof( double * ) );
ThreadArgs1[0]=Bu;
ThreadArgs1[1]=Bv;
ThreadArgs1[2]=Bw;
ThreadArgs1[3]=Isize_d;
ThreadArgs1[4]=Osize_d;
ThreadArgs1[5]=Iout;
ThreadArgs1[6]=dxa;
ThreadArgs1[7]=dya;
ThreadArgs1[8]=dza;
ThreadArgs1[9]=ThreadID[i];
ThreadArgs1[10]=Ox;
ThreadArgs1[11]=Oy;
ThreadArgs1[12]=Oz;
ThreadArgs1[13]=Nthreadsd;
ThreadArgs1[14]=Bdu;
ThreadArgs1[15]=Bdv;
ThreadArgs1[16]=Bdw;
ThreadArgs[i]=ThreadArgs1;
StartThread(ThreadList[i], &transformvolume_jacobiandet, ThreadArgs[i])
}
for (i=0; i<Nthreads; i++) { WaitForThreadFinish(ThreadList[i]); }
for (i=0; i<Nthreads; i++)
{
free(ThreadArgs[i]);
free(ThreadID[i]);
}
free(ThreadArgs);
free(ThreadID );
free(ThreadList);
free(Bu);
free(Bv);
free(Bw);
free(Bdu);
free(Bdv);
free(Bdw);
}
/* The matlab mex function */
void mexFunction( int nlhs, mxArray *plhs[],
int nrhs, const mxArray *prhs[] ) {
/* Ox and Oy are the grid points */
/* Zo is the input image */
/* Zi is the transformed image */
/* dx and dy are the spacing of the b-spline knots */
double *Ox, *Oy, *dxa, *dya, *E, *Egradient;
double *ThreadErrorOut, *ThreadGradientOutX, *ThreadGradientOutY;
mxArray *matlabCallOut[1]={0};
mxArray *matlabCallIn[1]={0};
double *Nthreadsd;
int Nthreads;
/* Finite difference step size */
double step=0.001;
/* index offsets */
int offset1;
/* double pointer array to store all needed function variables) */
double ***ThreadArgs;
double **ThreadArgs1;
/* Handles to the worker threads */
ThreadHANDLE *ThreadList;
/* ID of Threads */
double **ThreadID;
double *ThreadID1;
/* Dims outputs */
const int dims_error[2]={1, 1};
int dims_error_gradient[3]={1, 1, 2};
/* Size of input image */
double *Isize_d;
/* Size of grid */
mwSize Osizex, Osizey;
int Onumel;
double Inumel;
double Osize_d[2]={0, 0};
/* B-spline variablesl */
double u, v;
int u_index=0;
int v_index=0;
double *Bu, *Bv, *Bdu, *Bdv;
/* Loop variables */
int i, j;
/* X,Y coordinates of current pixel */
int x, y;
/* Grid distance */
int dx, dy;
/* Check for proper number of arguments. */
if(nrhs!=5) {
mexErrMsgTxt("Five nputs are required.");
}
/* Get the sizes of the grid */
Osizex = (mwSize)mxGetM(prhs[0]);
Osizey = (mwSize)mxGetN(prhs[0]);
/* Assign pointers to each input. */
Ox=mxGetPr(prhs[0]);
Oy=mxGetPr(prhs[1]);
Isize_d=mxGetPr(prhs[2]);
dxa=mxGetPr(prhs[3]);
dya=mxGetPr(prhs[4]);
Onumel= Osizex*Osizey;
Inumel = Isize_d[0]*Isize_d[1];
/* Create image matrix for the Error return argument */
plhs[0] = mxCreateNumericArray(2, dims_error, mxDOUBLE_CLASS, mxREAL);
if(nlhs>1) {
dims_error_gradient[0]=Osizex;
dims_error_gradient[1]=Osizey;
/* Error Gradient needed */
plhs[1] = mxCreateNumericArray(3, dims_error_gradient, mxDOUBLE_CLASS, mxREAL);
}
/* Get the spacing of the uniform b-spline grid */
dx=(int)dxa[0]; dy=(int)dya[0];
/* Get number of allowed threads */
mexCallMATLAB(1, matlabCallOut, 0, matlabCallIn, "maxNumCompThreads");
Nthreadsd=mxGetPr(matlabCallOut[0]);
Nthreads=(int)Nthreadsd[0];
/* Reserve room for handles of threads in ThreadList */
ThreadList = (ThreadHANDLE*)malloc(Nthreads* sizeof( ThreadHANDLE ));
ThreadID = (double **)malloc( Nthreads* sizeof(double *) );
ThreadArgs = (double ***)malloc( Nthreads* sizeof(double **) );
ThreadErrorOut= (double *)malloc(Nthreads* sizeof(double) );
if(nlhs==1)
{
ThreadGradientOutX=NULL;
ThreadGradientOutY=NULL;
}
else
{
ThreadGradientOutX= (double *)malloc(Nthreads*Onumel*sizeof(double));
ThreadGradientOutY= (double *)malloc(Nthreads*Onumel*sizeof(double));
}
/* Assign pointer to output. */
E = mxGetPr(plhs[0]);
if(nlhs>1) { Egradient = mxGetPr(plhs[1]); }
/* Make polynomial look up tables */
Bu=malloc(dx*4*sizeof(double));
Bv=malloc(dy*4*sizeof(double));
Bdu=malloc(dx*4*sizeof(double));
Bdv=malloc(dy*4*sizeof(double));
for (x=0; x<dx; x++) {
u=(x/(double)dx)-floor(x/(double)dx);
Bu[mindex2(0, x, 4)] = BsplineCoefficient(u, 0);
Bu[mindex2(1, x, 4)] = BsplineCoefficient(u, 1);
Bu[mindex2(2, x, 4)] = BsplineCoefficient(u, 2);
Bu[mindex2(3, x, 4)] = BsplineCoefficient(u, 3);
Bdu[mindex2(0, x, 4)] = BsplineCoefficientDerivative(u, 0)/dxa[0];
Bdu[mindex2(1, x, 4)] = BsplineCoefficientDerivative(u, 1)/dxa[0];
Bdu[mindex2(2, x, 4)] = BsplineCoefficientDerivative(u, 2)/dxa[0];
Bdu[mindex2(3, x, 4)] = BsplineCoefficientDerivative(u, 3)/dxa[0];
}
for (y=0; y<dy; y++) {
v=(y/(double)dy)-floor(y/(double)dy);
Bv[mindex2(0, y, 4)] = BsplineCoefficient(v, 0);
Bv[mindex2(1, y, 4)] = BsplineCoefficient(v, 1);
Bv[mindex2(2, y, 4)] = BsplineCoefficient(v, 2);
Bv[mindex2(3, y, 4)] = BsplineCoefficient(v, 3);
Bdv[mindex2(0, y, 4)] = BsplineCoefficientDerivative(v, 0)/dya[0];
Bdv[mindex2(1, y, 4)] = BsplineCoefficientDerivative(v, 1)/dya[0];
Bdv[mindex2(2, y, 4)] = BsplineCoefficientDerivative(v, 2)/dya[0];
Bdv[mindex2(3, y, 4)] = BsplineCoefficientDerivative(v, 3)/dya[0];
}
Osize_d[0]=Osizex; Osize_d[1]=Osizey;
/* Reserve room for 14 function variables(arrays) */
for (i=0; i<Nthreads; i++) {
/* Make Thread ID */
ThreadID1= (double *)malloc( 1* sizeof(double) );
ThreadID1[0]=i;
ThreadID[i]=ThreadID1;
/* Make Thread Structure */
ThreadArgs1 = (double **)malloc( 15 * sizeof( double * ) );
ThreadArgs1[0]=Bu;
ThreadArgs1[1]=Bv;
ThreadArgs1[2]=Isize_d;
ThreadArgs1[3]=Osize_d;
ThreadArgs1[4]=ThreadErrorOut;
ThreadArgs1[5]=dxa;
ThreadArgs1[6]=dya;
ThreadArgs1[7]=ThreadID[i];
ThreadArgs1[8]=Ox;
ThreadArgs1[9]=Oy;
ThreadArgs1[10]=Nthreadsd;
ThreadArgs1[11]=Bdu;
ThreadArgs1[12]=Bdv;
ThreadArgs1[13]=ThreadGradientOutX;
ThreadArgs1[14]=ThreadGradientOutY;
ThreadArgs[i]=ThreadArgs1;
if(nlhs>1)
{
StartThread(ThreadList[i], &jacobian_errorgradient, ThreadArgs[i])
}
else
{
StartThread(ThreadList[i], &jacobian_error, ThreadArgs[i])
}
}
for (i=0; i<Nthreads; i++) { WaitForThreadFinish(ThreadList[i]); }
/* Add accumlated error of all threads */
E[0]=0;
for (i=0; i<Nthreads; i++)
{
E[0]+=ThreadErrorOut[i];
}
E[0]/=Inumel;
if(nlhs>1) {
for (i=0; i<Nthreads; i++) {
offset1=i*Onumel;
for(j=0; j<Onumel; j++) {
Egradient[j]+=ThreadGradientOutX[j+offset1];
Egradient[j+Onumel]+=ThreadGradientOutY[j+offset1];
}
}
for(j=0; j<Onumel; j++) {
Egradient[j]/=Inumel*step;
Egradient[j+Onumel]/=Inumel*step;
}
}
for (i=0; i<Nthreads; i++) {
free(ThreadArgs[i]);
free(ThreadID[i]);
}
free(ThreadErrorOut);
free(ThreadGradientOutX);
free(ThreadGradientOutY);
free(ThreadArgs);
free(ThreadID );
free(ThreadList);
free(Bu);
free(Bdu);
free(Bv);
free(Bdv);
}
