Saving and loading surfaces

In this notebook we will save a surface to disk and reload it from there using vedo.

See also

• https://vedo.embl.es/docs/vedo/io.html#write

• https://vedo.embl.es/docs/vedo/io.html#load

import napari_process_points_and_surfaces as nppas
import vedo

from branchoid import branchoid

Starting point is again the surface of the simulated branchoid.

binary_image = branchoid()
surface = nppas.all_labels_to_surface(binary_image)
surface

nppas.SurfaceTuple origin (z/y/x) [0. 0. 0.] center of mass(z/y/x) 50.000,46.575,42.589 scale(z/y/x) 1.000,1.000,1.000 bounds (z/y/x) 25.500...74.500 2.500...88.500 2.500...83.500 average size 31.277 number of vertices 19040 number of faces 38076

Saving surfaces to disk

The vedo library functions for saving and loading surfaces meshes. To convert them from/to napari-compatible surface-tuples, we use napari-process-points-and-surfaces (nppas).

mesh = nppas.to_vedo_mesh(surface)

filename = "../../data/branchoid.ply"

_ = vedo.write(mesh, filename)

Loading meshes from disk

new_mesh = vedo.load(filename)
new_mesh

vedo.mesh.Mesh (../../data/branchoid.ply) bounds (x/y/z) 25.50 ... 74.50 2.500 ... 88.50 2.500 ... 83.50 center of mass (50.0, 46.6, 42.6) average size 31.277 nr. points / faces 19040 / 38076

new_surface = nppas.to_napari_surface_data(new_mesh)
new_surface

nppas.SurfaceTuple origin (z/y/x) [0. 0. 0.] center of mass(z/y/x) 50.000,46.575,42.589 scale(z/y/x) 1.000,1.000,1.000 bounds (z/y/x) 25.500...74.500 2.500...88.500 2.500...83.500 average size 31.277 number of vertices 19040 number of faces 38076