pumapy.segmentation

pumapy.segmentation.ccl

Functions to relying on Connected Component Labeling (CCL)

pumapy.segmentation.ccl.fill_closed_pores(workspace, solid_cutoff, fill_value, return_pores=False)[source]

Identify the porespace and fill closed porosity

Parameters

  • workspace (pumapy.Workspace) – domain

  • solid_cutoff ((int, int)) – specify the solid range to discard from pores identification

  • fill_value (int) – value to fill closed porosity with

  • return_pores (bool) – specifies whether to return identified pores

Returns

filled workspace with IDs set as: 0 for void, 1 for solid, fill_value for added filler material. In addition, if return_pores==True, then it also returns the porespace marked as: 0 solid, 1 largest pore (likely open porosity), >1 other pores

Return type

pumapy.Workspace

Example

>>> import pumapy as puma
>>> ws = puma.generate_random_spheres((100, 100, 100), diameter=20, porosity=0.8, allow_intersect=True, segmented=False)
Approximately ... spheres to be generated...
>>> # puma.render_volume(ws[:ws.matrix.shape[0] // 2])  # to visualize workspace
>>> ws.binarize_range((1, 250))
>>> # puma.render_volume(ws[:ws.matrix.shape[0] // 2])
>>> filled_ws, pores = puma.fill_closed_pores(ws, (1, 1), fill_value=2, return_pores=True)
>>> # puma.render_volume(pores, cutoff=(0, pores.max()), cmap='jet')  # to visualize pores
pumapy.segmentation.ccl.identify_porespace(workspace, solid_cutoff, connectivity=None)[source]

Identify the porespace

Parameters

  • workspace (pumapy.Workspace) – domain

  • solid_cutoff ((int, int)) – specify the solid range to discard from pores identification

  • connectivity (int or None) – Maximum number of orthogonal hops to consider a pixel/voxel as a neighbor (None automatically gives full connectivity of input.ndim, which for 3D domain is 3, for 2D is 2)

Returns

porespace marked as: 0 solid, 1 largest pore (likely open porosity), >1 other pores

Return type

np.ndarray

Example

>>> import pumapy as puma
>>> ws = puma.generate_sphere((100, 100, 100), (50, 50, 50), 40, segmented=False)
Generated in...
>>> ws.binarize_range((1, 253))
>>> # puma.render_volume(ws[:ws.matrix.shape[0] // 2], cutoff=(0, 255))  # to visualize workspace
>>> pores = puma.identify_porespace(ws, (1, 1))
>>> # puma.render_volume(pores[:pores.shape[0] // 2], cutoff=(0, pores.max()))  # to visualize pores