119 lines
3.2 KiB
Matlab
119 lines
3.2 KiB
Matlab
%% Parameters
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% === Define folders and settings ===
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% === Define folders and settings ===
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baseFolder = '//DyLabNAS/Data/TwoDGas/2025/04/';
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dates = ["01", "02"]; % Example: three folders
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runs = {
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["0059", "0060", "0061"],
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["0007", "0008", "0009", "0010", "0011"]
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};
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options.scan_parameter = 'rot_mag_fin_pol_angle';
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options.scan_groups = 0:10:50;
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options.cam = 5;
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% Image cropping and alignment
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options.angle = 0;
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options.center = [1285, 2100];
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options.span = [200, 200];
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options.fraction = [0.1, 0.1];
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% Imaging and calibration parameters
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options.pixel_size = 5.86e-6; % in meters
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options.magnification = 23.94;
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options.removeFringes = false;
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options.ImagingMode = 'HighIntensity';
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options.PulseDuration = 5e-6;
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% Fourier analysis: Radial
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options.theta_min = deg2rad(0);
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options.theta_max = deg2rad(180);
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options.N_radial_bins = 500;
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options.Radial_Sigma = 2;
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options.Radial_WindowSize = 5; % Must be odd
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% Fourier analysis: Angular
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options.r_min = 10;
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options.r_max = 20;
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options.k_min = 1.2; % in μm⁻¹
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options.k_max = 2.2; % in μm⁻¹
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options.N_angular_bins = 180;
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options.Angular_Threshold = 75;
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options.Angular_Sigma = 2;
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options.Angular_WindowSize = 5;
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% Optional visualization / zooming
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options.zoom_size = 50;
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% Optional flags or settings struct
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options.skipUnshuffling = false;
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options.skipPreprocessing = true;
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options.skipMasking = true;
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options.skipIntensityThresholding = true;
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options.skipBinarization = true;
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% === Loop through folders and collect results ===
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results_all = [];
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assert(length(dates) == length(runs), ...
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'Each entry in `dates` must correspond to a cell in `runs`.');
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for i = 1:length(dates)
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currentDate = dates(i);
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currentRuns = runs{i};
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for j = 1:length(currentRuns)
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runID = currentRuns(j);
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folderPath = fullfile(baseFolder, currentDate, runID);
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if ~endsWith(folderPath, filesep)
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options.folderPath = [char(folderPath) filesep];
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else
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options.folderPath = char(folderPath);
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end
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try
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% Unpack options struct into name-value pairs
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args = [fieldnames(options), struct2cell(options)]';
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args = args(:)';
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results = analyzeFolder(args{:});
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results_all = [results_all; results];
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catch ME
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warning("Error processing %s/%s: %s", currentDate, runID, ME.message);
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end
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end
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end
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%% Plotting heatmap of mean_max_g2_values
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N_x = length(options.scan_groups);
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N_y = length(results_all) / N_x;
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% Preallocate
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g2_matrix = zeros(N_y, N_x);
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angle_matrix = zeros(N_y, N_x);
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for i = 1:length(results_all)
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row = ceil(i / N_x); % outer parameter (e.g., date)
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col = mod(i-1, N_x) + 1; % inner scan parameter
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g2_matrix(row, col) = results_all(i).mean_max_g2_values(col);
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angle_matrix(row, col) = results_all(i).mean_max_g2_angle(col);
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end
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% Plot heatmap
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figure;
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imagesc(options.scan_groups, 1:N_y, g2_matrix);
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xlabel('Scan Parameter (e.g. Angle)');
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ylabel('Scan Set Index');
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title('Mean g_2 Value Heatmap');
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colorbar;
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