trim_small_clusters

trim_small_clusters function is a filter that removes isolated voxels or clusters of a given size or smaller.

import numpy as np
import porespy as ps
import scipy.ndimage as spim
import matplotlib.pyplot as plt
import skimage
ps.visualization.set_mpl_style()

/opt/hostedtoolcache/Python/3.8.16/x64/lib/python3.8/site-packages/openpnm/algorithms/_invasion_percolation.py:358: NumbaDeprecationWarning: The 'nopython' keyword argument was not supplied to the 'numba.jit' decorator. The implicit default value for this argument is currently False, but it will be changed to True in Numba 0.59.0. See https://numba.readthedocs.io/en/stable/reference/deprecation.html#deprecation-of-object-mode-fall-back-behaviour-when-using-jit for details.
  def _find_trapped_pores(inv_seq, indices, indptr, outlets):  # pragma: no cover

im

This function works on 2D and 3D images.

im = ps.generators.blobs(shape=[500, 500], blobiness=5, porosity = 0.5)

plt.figure(figsize=[6,6]);
plt.imshow(im);
plt.axis(False);

size

The maximum size of a cluster to trim is varied trying 10, 100, and 500 voxels.

x1 = ps.filters.trim_small_clusters(im, size=10)
x2 = ps.filters.trim_small_clusters(im, size=100)
x3 = ps.filters.trim_small_clusters(im, size=500)

fig, ax = plt.subplots(1, 3, figsize=[18, 18]);
ax[0].imshow(x1);
ax[0].axis(False);
ax[0].set_title('size = 10', fontdict={'fontsize': 18});
ax[1].imshow(x2);
ax[1].axis(False);
ax[1].set_title('size = 100', fontdict={'fontsize': 18});
ax[2].imshow(x3);
ax[2].axis(False);
ax[2].set_title('size = 500', fontdict={'fontsize': 18});