apply_chords_3D#

Adds chords to the void space in all three principle directions. The chords are seprated by 1 voxel plus the provided spacing. Chords in the X, Y and Z directions are labelled 1, 2 and 3 resepctively.

import numpy as np
import porespy as ps
import scipy.ndimage as spim
import matplotlib.pyplot as plt
ps.visualization.set_mpl_style()
import inspect
print(inspect.signature(ps.filters.apply_chords_3D))
(im, spacing=0, trim_edges=True)

im#

The function takes a boolean image with True values indicating the void space, or phase of interest.

im = ps.generators.blobs(shape=[50, 50, 50])
chords = ps.filters.apply_chords_3D(im)

fig, ax = plt.subplots(1, 2, figsize=[12, 6])
ax[0].imshow(chords[20, ...] + ~im[20, ...]*4)
ax[0].axis(False)
ax[1].imshow(chords[22, ...] + ~im[22, ...]*4)
ax[1].axis(False);
../../../_images/c9eb4fd029ad45946ea46af694860f65b894e4caf48157026aba267b251c470a.png

The chords in each direction are given different integer values so they can isolated by thresholding.

fig, ax = plt.subplots(1, 1, figsize=[6, 6])
ax.imshow(chords[20, ...] ==2)
ax.axis(False);
../../../_images/587f72530d067d79498cc4b166a47458a667782afcb86cfbaf4465131954efcc.png

spacing#

By default the chords are drown with a spacing of 1 voxel between each orientation to provide the maximum number of chords. This can be adjusted to create few chords if the image is very large if needed.

c1 = ps.filters.apply_chords_3D(im, spacing=1)
c3 = ps.filters.apply_chords_3D(im, spacing=3)

fig, ax = plt.subplots(1, 2, figsize=[12, 6])
ax[0].imshow(c1[20, ...] + ~im[20, ...]*4)
ax[0].axis(False)
ax[1].imshow(c3[30, ...] + ~im[30, ...]*4)
ax[1].axis(False);
../../../_images/0da5caa4e553337d21e34755f396bc23fa036fa61fd88f7f6cb29fa958320566.png

trim_edges#

c1 = ps.filters.apply_chords_3D(im, trim_edges=False)
c2 = ps.filters.apply_chords_3D(im, trim_edges=True)

fig, ax = plt.subplots(1, 2, figsize=[12, 6])
ax[0].imshow(c1[20, ...] + ~im[20, ...]*4)
ax[0].axis(False)
ax[0].set_title('trim_edges = False')
ax[1].imshow(c2[20, ...] + ~im[20, ...]*4)
ax[1].axis(False)
ax[1].set_title('trim_edges = True');
../../../_images/bd397426df395047b26e14dfc89d0dfe04940742204370fd51aace4f6631d973.png