Added missing automake files

Samo Penic

2012-06-07 008026f5162bf79e75565548c1bbe5ca3a8fc248

 src/sh.c

@@ -3,6 +3,69 @@
#include "general.h"
#include "sh.h"



ts_spharm *sph_init(ts_vertex_list *vlist, ts_uint l){
    ts_uint j,i;
    ts_spharm *sph=(ts_spharm *)malloc(sizeof(ts_spharm));

    
    /* lets initialize Ylm for each vertex. */
    sph->Ylmi=(ts_double ***)calloc(l,sizeof(ts_double **));
    for(i=0;i<l;i++){
            sph->Ylmi[i]=(ts_double **)calloc(2*i+1,sizeof(ts_double *));
            for(j=0;j<(2*i+1);j++){
                sph->Ylmi[i][j]=(ts_double *)calloc(vlist->n,sizeof(ts_double));
            }
    }
        
    /* lets initialize ulm */
    sph->ulm=(ts_double **)calloc(l,sizeof(ts_double *));
    for(j=0;j<l;j++){
        sph->ulm[j]=(ts_double *)calloc(2*j+1,sizeof(ts_double));
    }


    /* lets initialize co */
    sph->co=(ts_double **)calloc(l,sizeof(ts_double *));
    for(j=0;j<l;j++){
        sph->co[j]=(ts_double *)calloc(2*j+1,sizeof(ts_double));
    }

    sph->l=l;   

    /* Calculate coefficients that will remain constant during all the simulation */ 
   precomputeShCoeff(sph);
    
    return sph;
}


ts_bool sph_free(ts_spharm *sph){
    int i,j;
    for(i=0;i<sph->l;i++){
        if(sph->ulm[i]!=NULL) free(sph->ulm[i]);
        if(sph->co[i]!=NULL) free(sph->co[i]);
    }
    if(sph->co != NULL) free(sph->co);
    if(sph->ulm !=NULL) free(sph->ulm);

        if(sph->Ylmi!=NULL) {
            for(i=0;i<sph->l;i++){
                if(sph->Ylmi[i]!=NULL){
                    for(j=0;j<i*2+1;j++){
                        if(sph->Ylmi[i][j]!=NULL) free (sph->Ylmi[i][j]);
                    }
                    free(sph->Ylmi[i]);
                }
            }
            free(sph->Ylmi);
        }

    free(sph);
    return TS_SUCCESS;
}

/* Gives you legendre polynomials. Taken from NR, p. 254 */
ts_double plgndr(ts_int l, ts_int m, ts_float x){
   ts_double fact, pll, pmm, pmmp1, somx2;
@@ -55,6 +118,27 @@
}



ts_bool precomputeShCoeff(ts_spharm *sph){
    ts_int i,j,al,am;
    ts_double **co=sph->co;
    for(i=0;i<sph->l;i++){
        al=i+1;
        sph->co[i][i+1]=sqrt((2.0*al+1.0)/2.0/M_PI);
        for(j=0;j<i;j++){
            am=j+1;
            sph->co[i][i+1+j]=co[i][i+j]*sqrt(1.0/(al-am+1.0)/(al+am));
            sph->co[i][i+1-j]=co[i][i+1+j];
        }
        co[i][2*i]=co[i][2*i]*sqrt(1.0/(2.0*al));
        co[i][0]=co[i][2*i+1];
        co[i][i+1]=sqrt((2.0*al+1.0)/4.0/M_PI);
    }
    return TS_SUCCESS;

}


/*Computes Y(l,m,theta,fi) (Miha's definition that is different from common definition for  factor srqt(1/(2*pi)) */
ts_double shY(ts_int l,ts_int m,ts_double theta,ts_double fi){
   ts_double fac1, fac2, K;
@@ -88,3 +172,150 @@
   
   return K*sqrt((2.0*l+1.0)/2.0*fac1/fac2)*plgndr(l,abs(m),cos(theta));   
}


/* Function transforms coordinates from cartesian to spherical coordinates
 * (r,phi, theta). */
ts_bool *cart2sph(ts_coord *coord, ts_double x, ts_double y, ts_double z){
    coord->coord_type=TS_COORD_SPHERICAL;
#ifdef TS_DOUBLE_DOUBLE
    coord->e1=sqrt(x*x+y*y+z*z);
    if(z==0) coord->e3=M_PI/2.0;
    else coord->e3=atan(sqrt(x*x+y*y)/z);
    coord->e2=atan2(y,x);
#endif
#ifdef TS_DOUBLE_FLOAT
    coord->e1=sqrtf(x*x+y*y+z*z);
    if(z==0) coord->e3=M_PI/2.0;
    else coord->e3=atanf(sqrtf(x*x+y*y)/z);
    coord->e2=atan2f(y,x);
#endif
#ifdef TS_DOUBLE_LONGDOUBLE
    coord->e1=sqrtl(x*x+y*y+z*z);
    if(z==0) coord->e3=M_PI/2.0;
    else coord->e3=atanl(sqrtl(x*x+y*y)/z);
    coord->e2=atan2l(y,x);
#endif

    return TS_SUCCESS;
}

/* Function returns radius of the sphere with the same volume as vesicle (r0) */
ts_double getR0(ts_vesicle *vesicle){
    ts_double r0;
 #ifdef TS_DOUBLE_DOUBLE
   r0=pow(vesicle->volume*3.0/4.0/M_PI,1.0/3.0);
#endif
#ifdef TS_DOUBLE_FLOAT
   r0=powf(vesicle->volume*3.0/4.0/M_PI,1.0/3.0);
#endif
#ifdef TS_DOUBLE_LONGDOUBLE
   r0=powl(vesicle->volume*3.0/4.0/M_PI,1.0/3.0);
#endif
    return r0;
}


ts_bool preparationSh(ts_vesicle *vesicle, ts_double r0){
//TODO: before calling or during the call calculate area of each triangle! Can
//be also done after vertexmove and bondflip //
    ts_uint i,j;
    ts_vertex **vtx=vesicle->vlist->vtx;
    ts_vertex *cvtx;
    ts_triangle *ctri;
    ts_double centroid[3];
    ts_double r;
    for (i=0;  i<vesicle->vlist->n; i++){
        cvtx=vtx[i];
        //cvtx->projArea=4.0*M_PI/1447.0*(cvtx->x*cvtx->x+cvtx->y*cvtx->y+cvtx->z*cvtx->z)/r0/r0;
        cvtx->projArea=0.0;

        /* go over all triangles that have a common vertex i */
        for(j=0; j<cvtx->tristar_no; j++){
            ctri=cvtx->tristar[j];
            centroid[0]=(ctri->vertex[0]->x + ctri->vertex[1]->x + ctri->vertex[2]->x)/3.0;
            centroid[1]=(ctri->vertex[0]->y + ctri->vertex[1]->y + ctri->vertex[2]->y)/3.0;
            centroid[2]=(ctri->vertex[0]->z + ctri->vertex[1]->z + ctri->vertex[2]->z)/3.0;
        /* calculating projArea+= area(triangle)*cos(theta) */
#ifdef TS_DOUBLE_DOUBLE
            cvtx->projArea = cvtx->projArea + ctri->area*(-centroid[0]*ctri->xnorm - centroid[1]*ctri->ynorm - centroid[2]*ctri->znorm)/ sqrt(centroid[0]*centroid[0]+centroid[1]*centroid[1]+centroid[2]*centroid[2]);
#endif
#ifdef TS_DOUBLE_FLOAT
            cvtx->projArea = cvtx->projArea + ctri->area*(-centroid[0]*ctri->xnorm - centroid[1]*ctri->ynorm - centroid[2]*ctri->znorm)/ sqrtf(centroid[0]*centroid[0]+centroid[1]*centroid[1]+centroid[2]*centroid[2]);
#endif
#ifdef TS_DOUBLE_LONGDOUBLE
            cvtx->projArea = cvtx->projArea + ctri->area*(-centroid[0]*ctri->xnorm - centroid[1]*ctri->ynorm - centroid[2]*ctri->znorm)/ sqrtl(centroid[0]*centroid[0]+centroid[1]*centroid[1]+centroid[2]*centroid[2]);
#endif
        }

    cvtx->projArea=cvtx->projArea/3.0;
        //we dont store spherical coordinates of vertex, so we have to calculate
        //r(i) at this point.
#ifdef TS_DOUBLE_DOUBLE
    r=sqrt(cvtx->x*cvtx->x+cvtx->y*cvtx->y+cvtx->z*cvtx->z);
#endif
#ifdef TS_DOUBLE_FLOAT
    r=sqrtf(cvtx->x*cvtx->x+cvtx->y*cvtx->y+cvtx->z*cvtx->z);
#endif
#ifdef TS_DOUBLE_LONGDOUBLE
    r=sqrtl(cvtx->x*cvtx->x+cvtx->y*cvtx->y+cvtx->z*cvtx->z);
#endif
    cvtx->relR=(r-r0)/r0;
    cvtx->solAngle=cvtx->projArea/cvtx->relR * cvtx->projArea/cvtx->relR;
    }
    return TS_SUCCESS;
}



ts_bool calculateYlmi(ts_vesicle *vesicle){
    ts_uint i,j,k;
    ts_spharm *sph=vesicle->sphHarmonics;
    ts_coord *coord=(ts_coord *)malloc(sizeof(ts_coord));
    ts_double fi, theta;
    ts_vertex *cvtx;
    for(k=0;k<vesicle->vlist->n;k++){
        cvtx=vesicle->vlist->vtx[k];
        sph->Ylmi[0][0][k]=sqrt(1.0/4.0/M_PI);
        cart2sph(coord,cvtx->x, cvtx->y, cvtx->z);
        fi=coord->e2;
        theta=coord->e3; 
        for(i=0; i<sph->l; i++){
            for(j=0;j<i;j++){
                sph->Ylmi[i][j][k]=sph->co[i][j]*cos((j-i-1)*fi)*pow(-1,j-i-1)*plgndr(i,abs(j-i-1),cos(theta));
            }
                sph->Ylmi[i][j+1][k]=sph->co[i][j+1]*plgndr(i,0,cos(theta));
            for(j=sph->l;j<2*i;j++){
                sph->Ylmi[i][j][k]=sph->co[i][j]*sin((j-i-1)*fi)*plgndr(i,j-i-1,cos(theta));
            }
        }

    }
    free(coord);
    return TS_SUCCESS;
}



ts_bool calculateUlm(ts_vesicle *vesicle){
    ts_uint i,j,k;
    ts_vertex *cvtx;
    for(i=0;i<vesicle->sphHarmonics->l;i++){
        for(j=0;j<2*i;j++) vesicle->sphHarmonics->ulm[i][j]=0.0;
    }

//TODO: call calculateYlmi !!!


    for(k=0;k<vesicle->vlist->n; k++){
        cvtx=vesicle->vlist->vtx[k];
        for(i=0;i<vesicle->sphHarmonics->l;i++){
            for(j=0;j<2*i;j++){
                vesicle->sphHarmonics->ulm[i][j]+= cvtx->solAngle*cvtx->relR*vesicle->sphHarmonics->Ylmi[i][j][k];
            }

        }
    }

    return TS_SUCCESS;
}