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%--------------------------------------------------------------------------
% This file is part of the ASTRA Toolbox
%
% Copyright: 2010-2021, imec Vision Lab, University of Antwerp
% 2014-2021, CWI, Amsterdam
% License: Open Source under GPLv3
% Contact: astra@astra-toolbox.com
% Website: http://www.astra-toolbox.com/
%--------------------------------------------------------------------------
addpath('../');
%% Example 2: 3D parallel beam, cuda
% configuration
proj_count = 20;
dart_iterations = 20;
outdir = './';
prefix = 'example2';
rho = [0, 0.5, 1];
tau = [0.25, 0.75];
gpu_core = 0;
% load phantom
load('phantom3d');
% create projection and volume geometries
det_count = size(I, 1);
slice_count = size(I,3);
angles = linspace2(0, pi, proj_count);
proj_geom = astra_create_proj_geom('parallel3d', 1, 1, slice_count, det_count, angles);
vol_geom = astra_create_vol_geom(size(I));
% create sinogram
[sinogram_id, sinogram] = astra_create_sino3d_cuda(I, proj_geom, vol_geom);
astra_mex_data3d('delete', sinogram_id);
% DART
D = DARTalgorithm(sinogram, proj_geom);
D.t0 = 100;
D.t = 10;
D.tomography = IterativeTomography3D();
D.tomography.method = 'SIRT3D_CUDA';
D.tomography.gpu_core = gpu_core;
D.tomography.use_minc = 'yes';
D.segmentation.rho = rho;
D.segmentation.tau = tau;
D.smoothing.b = 0.1;
D.smoothing.full3d = 'yes';
D.smoothing.gpu_core = gpu_core;
D.masking.random = 0.1;
D.masking.conn = 4;
D.masking.gpu_core = gpu_core;
D.output.directory = outdir;
D.output.pre = [prefix '_'];
D.output.save_images = 'no';
D.output.save_results = {'stats', 'settings', 'S', 'V'};
D.output.save_interval = dart_iterations;
D.output.verbose = 'yes';
D.statistics.proj_diff = 'no';
D.initialize();
D.iterate(dart_iterations);
% save the central slice of the reconstruction and the segmentation to file
imwritesc(D.S(:,:,64), [outdir '/' prefix '_S_slice_64.png']);
imwritesc(D.V(:,:,64), [outdir '/' prefix '_V_slice_64.png']);
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