Moved Ylmi into vertex_ts datastructure, since it is vertex related

Samo Penic

2012-06-07 621830b501728adb038b37281bd23d678a3c053d

 src/cell.c

@@ -19,19 +19,15 @@
    if(clist->cell==NULL) fatal("Error while allocating memory for cell list! ncmax too large?",101);

    for(i=0;i<nocells;i++){
        clist->cell[i]=(ts_cell *)malloc(sizeof(ts_cell));
        clist->cell[i]=(ts_cell *)calloc(1,sizeof(ts_cell));
        if(clist->cell[i]==NULL) fatal("Error while allocating memory for cell list! ncmax too large?",102);
        clist->cell[i]->idx=i+1; // We enumerate cells! Probably never required!
        clist->cell[i]->data=(ts_cell_data *)calloc(1,sizeof(ts_cell_data));
    }
    return clist;
}

ts_bool cell_free(ts_cell* cell){
    if(cell->data!=NULL){
        if(cell->data->vertex!=NULL) free(cell->data->vertex);
        free(cell->data);
    }
    if(cell->vertex!=NULL) free(cell->vertex);
    free(cell);
    return TS_SUCCESS;
}
@@ -53,9 +49,9 @@
    ts_uint cellidx;
    ts_uint ncx, ncy,ncz;
    ts_cell_list *clist=vesicle->clist;
    ncx=(ts_uint)((vtx->data->x-vesicle->cm[0])*clist->dcell+clist->shift);
    ncy=(ts_uint)((vtx->data->y-vesicle->cm[1])*clist->dcell+clist->shift);
    ncz=(ts_uint)((vtx->data->z-vesicle->cm[2])*clist->dcell+clist->shift);
    ncx=(ts_uint)((vtx->x-vesicle->cm[0])*clist->dcell+clist->shift);
    ncy=(ts_uint)((vtx->y-vesicle->cm[1])*clist->dcell+clist->shift);
    ncz=(ts_uint)((vtx->z-vesicle->cm[2])*clist->dcell+clist->shift);

    if(ncx == clist->ncmax[0]-1 || ncx == 2){
        fatal("Vesicle is positioned outside the cell covered area. Coordinate x is the problem.",1500);
@@ -74,12 +70,12 @@

//TODO: looks ok, but debug anyway in the future
ts_bool cell_add_vertex(ts_cell *cell, ts_vertex *vtx){
    cell->data->nvertex++;
   cell->data->vertex=(ts_vertex **)realloc(cell->data->vertex,cell->data->nvertex*sizeof(ts_vertex *));
      if(cell->data->vertex == NULL){
    cell->nvertex++;
   cell->vertex=(ts_vertex **)realloc(cell->vertex,cell->nvertex*sizeof(ts_vertex *));
      if(cell->vertex == NULL){
         fatal("Reallocation of memory failed during insertion of vertex in cell_add_vertex",3);
        }
    cell->data->vertex[cell->data->nvertex-1]=vtx;
    cell->vertex[cell->nvertex-1]=vtx;
    return TS_SUCCESS;
}

@@ -87,11 +83,11 @@
ts_bool cell_list_cell_occupation_clear(ts_cell_list *clist){
    ts_uint i;
    for(i=0;i<clist->cellno;i++){
        if(clist->cell[i]->data->vertex != NULL){
            free(clist->cell[i]->data->vertex);
            clist->cell[i]->data->vertex=NULL;
        if(clist->cell[i]->vertex != NULL){
            free(clist->cell[i]->vertex);
            clist->cell[i]->vertex=NULL;
        }
        clist->cell[i]->data->nvertex=0;
        clist->cell[i]->nvertex=0;
    }
    return TS_SUCCESS;
}
@@ -112,7 +108,7 @@
            for(k=ncz-1;k<=ncz+1;k++){
                neigh_cidx=k+(j-1)*clist->ncmax[2]+(i-1)*clist->ncmax[2]*clist->ncmax[1] -1;
          //      fprintf(stderr,"neigh_cell_index=%i\n",neigh_cidx);
                cell_occupation=clist->cell[neigh_cidx]->data->nvertex;
                cell_occupation=clist->cell[neigh_cidx]->nvertex;
          //      fprintf(stderr, "cell_occupation=%i\n",cell_occupation);
                if(cell_occupation>clist->max_occupancy){
                    fatal("Neighbouring cell occupation more than set max_occupancy value.",2000);
@@ -121,9 +117,9 @@
// cell!
                if(cell_occupation>1){
                    for(l=0;l<cell_occupation;l++){
                        if(clist->cell[neigh_cidx]->data->vertex[l]!=vtx){
                        if(clist->cell[neigh_cidx]->vertex[l]!=vtx){
                    //        fprintf(stderr,"calling dist on vertex %i\n",l);
                           dist=vtx_distance_sq(clist->cell[neigh_cidx]->data->vertex[l],tvtx);
                           dist=vtx_distance_sq(clist->cell[neigh_cidx]->vertex[l],tvtx);
                    //        fprintf(stderr,"dist was %f\n",dist);
                            if(dist<1) return TS_FAIL;
                        }