doc/demo/gridrec.py
#!/usr/bin/env python
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"""
TomoPy example script to reconstruct the tomography data as
with gridrec.
"""
from __future__ import print_function
import tomopy
import dxchange
if __name__ == '__main__':
# Set path to the micro-CT data to reconstruct.
fname = '../../../source/tomopy/data/tooth.h5'
# Select the sinogram range to reconstruct.
start = 0
end = 2
# Read the APS 2-BM 0r 32-ID raw data.
proj, flat, dark, theta = dxchange.read_aps_32id(fname, sino=(start, end))
# Set data collection angles as equally spaced between 0-180 degrees.
theta = tomopy.angles(proj.shape[0])
# Set data collection angles as equally spaced between 0-180 degrees.
proj = tomopy.normalize(proj, flat, dark)
# Set data collection angles as equally spaced between 0-180 degrees.
rot_center = tomopy.find_center(proj, theta, init=290, ind=0, tol=0.5)
proj = tomopy.minus_log(proj)
# Reconstruct object using Gridrec algorithm.
recon = tomopy.recon(proj, theta, center=rot_center, algorithm='gridrec')
# Mask each reconstructed slice with a circle.
recon = tomopy.circ_mask(recon, axis=0, ratio=0.95)
# Write data as stack of TIFs.
dxchange.write_tiff_stack(recon, fname='recon_dir/recon')