Merge with paraview's branch. Added triangles as cells for visualization

Samo Penic

2016-06-22 9447bd5e078944df080b75e054cd4dc95c6c9303

Merge with paraview's branch. Added triangles as cells for visualization

 src/io.c

@@ -861,7 +861,7 @@
    fprintf(fh, "<?xml version=\"1.0\"?>\n<VTKFile type=\"UnstructuredGrid\" version=\"0.1\" byte_order=\"LittleEndian\" compressor=\"vtkZLibDataCompressor\">\n");
    xml_trisurf_data(fh,vesicle);
    fprintf(fh, " <UnstructuredGrid>\n");
    fprintf(fh, "<Piece NumberOfPoints=\"%u\" NumberOfCells=\"%u\">\n",vlist->n+monono*polyno+fonono*filno, blist->n+monono*polyno+filno*(fonono-1));
    fprintf(fh, "<Piece NumberOfPoints=\"%u\" NumberOfCells=\"%u\">\n",vlist->n+monono*polyno+fonono*filno, blist->n+monono*polyno+filno*(fonono-1)+vesicle->tlist->n);
    fprintf(fh,"<PointData Scalars=\"vertices_idx\">\n<DataArray type=\"Int64\" Name=\"vertices_idx\" format=\"ascii\">");
       for(i=0;i<vlist->n;i++){
        fprintf(fh,"%u ",vtx[i]->idx);
@@ -941,7 +941,6 @@
    fprintf(fh,"</DataArray>\n");



    
    fprintf(fh,"</PointData>\n<CellData>\n</CellData>\n<Points>\n<DataArray type=\"Float64\" Name=\"Koordinate tock\" NumberOfComponents=\"3\" format=\"ascii\">\n");
    for(i=0;i<vlist->n;i++){
@@ -994,17 +993,24 @@
        }

    }

    for(i=0;i<vesicle->tlist->n;i++){
        fprintf(fh,"%u %u %u\n", vesicle->tlist->tria[i]->vertex[0]->idx, vesicle->tlist->tria[i]->vertex[1]->idx, vesicle->tlist->tria[i]->vertex[2]->idx);
    }
    fprintf(fh,"</DataArray>\n<DataArray type=\"Int64\" Name=\"offsets\" format=\"ascii\">");
    for (i=2;i<(blist->n+monono*polyno+(fonono-1)*filno)*2+1;i+=2){
    fprintf(fh,"%u ",i);
    }
    for(j=i+1;j<i+3*(vesicle->tlist->n);j+=3){ //let's continue counting from where we left of
        fprintf(fh,"%u ", j);
    }
    fprintf(fh,"\n");
    fprintf(fh,"</DataArray>\n<DataArray type=\"UInt8\" Name=\"types\" format=\"ascii\">\n");
     for (i=0;i<blist->n+monono*polyno+fonono*filno;i++){
     for (i=0;i<blist->n+monono*polyno+(fonono-1)*filno;i++){
        fprintf(fh,"3 ");
    }

    for(i=0;i<vesicle->tlist->n;i++){
        fprintf(fh,"5 ");
    }
    fprintf(fh,"</DataArray>\n</Cells>\n</Piece>\n</UnstructuredGrid>\n</VTKFile>\n");
    fclose(fh);
    return TS_SUCCESS;

 src/tape

@@ -25,26 +25,26 @@

####### Polymer (brush) definitions ###########
# npoly is a number of polymers attached to npoly distinct vertices on vesicle
npoly=3
npoly=0
# nmono is a number of monomers in each polymer
nmono=10
nmono=2
# Spring constant between monomers of the polymer
k_spring=800

####### Filament (inside the vesicle) definitions ###########
# nfil is a number of filaments inside the vesicle
nfil=2
nfil=0
# nfono is a number of monomers in each filament
nfono=300
nfono=3
# Persistence lenght of the filaments (in units l_min)
xi=100

####### Nucleus (inside the vesicle) ###########
# Radius of an impenetrable hard sphere inside the vesicle
R_nucleus=0
R_nucleusX=6.0
R_nucleusY=12.0
R_nucleusZ=6.0
R_nucleusX=0
R_nucleusY=0
R_nucleusZ=0
#######  Cell definitions ############
nxmax=60
nymax=60