mirror of
https://github.com/c-sooyoung/fold_slice.git
synced 2026-09-18 00:49:09 +09:00
182 lines
7.5 KiB
Matlab
182 lines
7.5 KiB
Matlab
% multislice_dof_summary.m
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% summarize depth of focus reported in x-ray multislice ptycho literature
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addpath(fullfile(pwd,'utils'))
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dof = [];
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pixel_size = [];
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thickness = [];
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dz = [];
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Nlayer = [];
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label = {};
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alpha = 4; % additional scaling coefficient
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%% 1.1 Multi‐slice ptychography enables high‐resolution measurements in extended chemical reactors
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% https://doi.org/10.1038/s41598-020-80926-6
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energy = 9.1; %kev
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det_pixel = 75e-6; %detector pixel size (m)
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det_N = 512; % number of pixels in the detector
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distance = 4.16; % # sample to detector distance (m)
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[dof(1),pixel_size(1)] = DOF_calculator(energy, det_pixel, det_N, distance, alpha);
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thickness(1) = 100e-6;
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dz(1) = 100e-6; % layer distance used in multi-slice reconstruction
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Nlayer(1) = 2; % number of layers used in multi-slice reconstruction
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label{1} = 'PETRA III-polyimide foil';
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%% 1.2 Multi‐slice ptychography enables high‐resolution measurements in extended chemical reactors
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% https://doi.org/10.1038/s41598-020-80926-6
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energy = 15.25; %kev
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det_pixel = 75e-6; %detector pixel size (m)
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det_N = 512; % number of pixels in the detector
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distance = 3.435; % # sample to detector distance (m)
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[dof(end+1),pixel_size(end+1)] = DOF_calculator(energy, det_pixel, det_N, distance, alpha);
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thickness(end+1) = 650e-6;
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dz(end+1) = 650e-6; % layer distance used in multi-slice reconstruction
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Nlayer(end+1) = 2; % number of layers used in multi-slice reconstruction
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label{end+1} = 'PETRA III-chemical reactor';
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%% 2. Multi-slice ptychography with large numerical aperture multilayer Laue lenses
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% https://doi.org/10.1364/OPTICA.5.000601
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energy = 12; %kev
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det_pixel = 55e-6; %detector pixel size (m)
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det_N = 128; % number of pixels in the detector
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distance = 0.5; % # sample to detector distance (m)
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[dof(end+1),pixel_size(end+1)] = DOF_calculator(energy, det_pixel, det_N, distance, alpha);
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thickness(end+1) = 10e-6;
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dz(end+1) = 10e-6; % layer distance used in multi-slice reconstruction
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Nlayer(end+1) = 2; % number of layers used in multi-slice reconstruction
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label{end+1} = 'BNL';
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%% 3.1 X-ray ptychography with extended depth of field - real data
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% https://doi.org/10.1364/OE.24.029089
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energy = 6.2; %kev
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det_pixel = 172e-6; %detector pixel size (m)
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det_N = 192; % number of pixels in the detector
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distance = 7.2; % # sample to detector distance (m)
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[dof(end+1),pixel_size(end+1)] = DOF_calculator(energy, det_pixel, det_N, distance, alpha);
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thickness(end+1) = 200e-6;
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dz(end+1) = 200e-6; % layer distance used in multi-slice reconstruction
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Nlayer(end+1) = 2; % number of layers used in multi-slice reconstruction
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label{end+1} = 'PSI';
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%% 3.2 X-ray ptychography with extended depth of field - simulation
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% https://doi.org/10.1364/OE.24.029089
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energy = 6.2; %kev
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det_pixel = 172e-6; %detector pixel size (m)
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det_N = 512; % number of pixels in the detector
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distance = 7.2; % # sample to detector distance (m)
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[dof(end+1),pixel_size(end+1)] = DOF_calculator(energy, det_pixel, det_N, distance, alpha);
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thickness(end+1) = [40e-6];
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dz(end+1) = [20e-6]; % layer distance used in multi-slice reconstruction
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Nlayer(end+1) = 3; % number of layers used in multi-slice reconstruction
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label{end+1} = 'PSI-sim';
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%% 4. High-Resolution Multislice X-Ray Ptychography of Extended Thick Objects
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% https://doi.org/10.1103/PhysRevLett.112.053903
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energy = 7; %kev
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dx = 20e-9;
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det_pixel = 75e-6; %detector pixel size (m). Not given in the paper
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det_N = 606; % number of pixels in the detector
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distance = dx*det_pixel*det_N/(1.23984193e-9/energy); % # sample to detector distance (m)
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[dof(end+1),pixel_size(end+1)] = DOF_calculator(energy, det_pixel, det_N, distance, alpha);
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thickness(end+1) = 105e-6;
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dz(end+1) = 1e-9; % layer distance used in multi-slice reconstruction
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Nlayer(end+1) = 1; % number of layers used in multi-slice reconstruction
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label{end+1} = 'SPring 8';
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%% 5. Resolving 500 nm axial separation by multi-slice X-ray ptychography
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% https://doi.org/10.1107/S2053273318017229
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energy = 12; %kev
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det_pixel = 55e-6; %detector pixel size (m)
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det_N = 300; % number of pixels in the detector
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distance = 0.35; % # sample to detector distance (m)
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[dof(end+1),pixel_size(end+1)] = DOF_calculator(energy, det_pixel, det_N, distance, alpha);
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thickness(end+1) = 500e-9;
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dz(end+1:end+1) = 500e-9; % layer distance used in multi-slice reconstruction
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Nlayer(end+1) = 2; % number of layers used in multi-slice reconstruction
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label{end+1} = 'BNL-XRF';
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%% 6. 3D x-ray imaging of continuous objects beyond the depth of focus limit - simulation, tomography
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% https://doi.org/10.1364/OE.24.029089
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energy = 5; %kev
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dx = 1e-9;
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det_pixel = 75e-6; %detector pixel size (m). Not given in the paper
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det_N = 72; % number of pixels in the detector
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distance = dx*det_pixel*det_N/(1.23984193e-9/energy); % # sample to detector distance (m)
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[dof(end+1),pixel_size(end+1)] = DOF_calculator(energy, det_pixel, det_N, distance, alpha);
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thickness(end+1) = 160e-9;
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dz(end+1:end+1) = 1e-9; % layer distance used in multi-slice reconstruction
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Nlayer(end+1) = 1; % number of layers used in multi-slice reconstruction
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label{end+1} = 'sim-tomo';
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%% 7. Adorym: A multi-platform generic x-ray image reconstruction framework based on automatic differentiation
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%%%%%%% I'm not sure if they really used multi-slice...
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%{
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% https://arxiv.org/abs/2012.12686
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energy = 5.5; %kev
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det_pixel = 172e-6; %detector pixel size (m). Not given in the paper
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det_N = 64; % number of pixels in the detector
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distance = 2; % # sample to detector distance (m)
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[dof(end+1),pixel_size(end+1)] = DOF_calculator(energy, det_pixel, det_N, distance, alpha);
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thickness(end+1) = 8e-6;
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dz(end+1:end+1) = 1e-9; % layer distance used in multi-slice reconstruction
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Nlayer(end+1) = 1; % number of layers used in multi-slice reconstruction
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label{end+1} = 'APS-bnp-algae???';
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%}
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%% LCO
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%
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energy = 9.3; %kev
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det_pixel = 75e-6; %detector pixel size (m)
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det_N = 64; % number of pixels in the detector
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distance = 1.92; % # sample to detector distance (m)
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alpha = 4; % additional scaling coefficient
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[dof(end+1),pixel_size(end+1)] = DOF_calculator(energy, det_pixel, det_N, distance, alpha);
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thickness(end+1) = 25e-6;
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dz(end+1) = 8e-6; % layer distance used in multi-slice reconstruction
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Nlayer(end+1) = 5; % number of layers used in multi-slice reconstruction
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label{end+1} = 'APS-velo-LCO';
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%% IC Pillar
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%
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energy = 8.8; %kev
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det_pixel = 75e-6; %detector pixel size (m)
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det_N = 64; % number of pixels in the detector
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distance = 1.92; % # sample to detector distance (m)
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alpha = 4; % additional scaling coefficient
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[dof(end+1),pixel_size(end+1)] = DOF_calculator(energy, det_pixel, det_N, distance, alpha);
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thickness(end+1) = 20e-6;
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dz(end+1) = 8e-6; % layer distance used in multi-slice reconstruction
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Nlayer(end+1) = 5; % number of layers used in multi-slice reconstruction
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label{end+1} = 'APS-velo-IC-pillar';
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%% CIGS
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%
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energy = 9.3; %kev
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det_pixel = 75e-6; %detector pixel size (m)
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det_N = 64; % number of pixels in the detector
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distance = 1.92; % # sample to detector distance (m)
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alpha = 4; % additional scaling coefficient
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[dof(end+1),pixel_size(end+1)] = DOF_calculator(energy, det_pixel, det_N, distance, alpha);
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thickness(end+1) = 30e-6;
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dz(end+1) = 8e-6; % layer distance used in multi-slice reconstruction
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Nlayer(end+1) = 5; % number of layers used in multi-slice reconstruction
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label{end+1} = 'APS-velo-CIGS';
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%%
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close all
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figure1 = figure;
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% Create axes
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axes1 = axes('Parent',figure1);
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hold(axes1,'on');
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for i=1:length(thickness)
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plot(i,thickness(i)./dof(i),'.','MarkerSize',15, 'DisplayName',label{i})
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end
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%hold on
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line([1 length(dof)],[1 1],'LineWidth',1,'LineStyle','--','Color','r', 'DisplayName', 'DOF')
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legend
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set(axes1,'YMinorTick','on','YScale','log');
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