%% ===== BEC-Droplets Settings =====
options = struct();

% File / paths
options.folderPath     = "//DyLabNAS/Data/StructuralPhaseTransition/2025/08/13/0062";
options.savefileName   = 'BECToDroplets';
options.saveDirectory  = "Z:/Users/Karthik/Data-Analyzer/+Scripts";

% Camera / imaging
options.cam            = 5;
options.angle          = 0;
options.center         = [1420, 2050];
options.span           = [200, 200];
options.fraction       = [0.1, 0.1];
options.pixel_size     = 5.86e-6;       % in meters
options.magnification  = 23.94;
options.removeFringes  = false;
options.ImagingMode    = 'HighIntensity';
options.PulseDuration  = 5e-6;          % in s

% Fourier analysis settings
% Radial Spectral Distribution
options.theta_min         = deg2rad(0);
options.theta_max         = deg2rad(180);
options.N_radial_bins     = 500;
options.Radial_Sigma      = 2;
options.Radial_WindowSize = 5;          % odd number for centered moving avg

% Angular Spectral Distribution
options.k_min              = 1.2771;    % in μm⁻¹
options.k_max              = 2.5541;    % in μm⁻¹
options.N_angular_bins     = 180;
options.Angular_Threshold  = 75;
options.Angular_Sigma      = 2;
options.Angular_WindowSize = 5;
options.zoom_size          = 50;        % zoomed-in region around center

% Scan parameter
options.scan_parameter = 'rot_mag_field';

if strcmp(options.savefileName, 'BECToDroplets')
    options.scan_reference_values = [2.40, 2.39, 2.38, 2.37, 2.35, 2.34, 2.32, 2.30, 2.28, 2.26, 2.24, 2.22, 2.2, 2.15, 2.10, 2.05, 2, 1.95, 1.90, 1.85, 1.8];
    options.titleString           = 'BEC to Droplets';
elseif strcmp(options.savefileName, 'BECToStripes')
    options.scan_reference_values = [2.45, 2.44, 2.43, 2.42, 2.4, 2.39, 2.38, 2.37, 2.36, 2.35, 2.34, 2.32, 2.3, 2.28, 2.25, 2.2, 2.15, 2.10, 2.0, 1.90, 1.8];
    options.titleString           = 'BEC to Stripes';
elseif strcmp(options.savefileName, 'DropletsToStripes')
    options.scan_reference_values = [0, 5, 10, 12, 14, 16, 18, 20, 22, 24, 26, 28, 30, 35, 40];
    options.titleString           = 'Droplets to Stripes';
elseif strcmp(options.savefileName, 'StripesToDroplets')
    options.scan_reference_values = fliplr([0, 5, 10, 12, 14, 16, 18, 20, 22, 24, 26, 28, 30, 35, 40]);
    options.titleString           = 'Stripes to Droplets';
end

% Flags
options.skipNormalization         = true;
options.skipUnshuffling           = false;
options.skipPreprocessing         = true;
options.skipMasking               = true;
options.skipIntensityThresholding = true;
options.skipBinarization          = true;
options.skipMovieRender           = true;
options.skipSaveFigures           = true;
options.skipSaveOD                = true;
options.skipLivePlot              = false;  
options.showProgressBar           = true;

% Optional extras
options.font = 'Bahnschrift';

%%
[od_imgs, scan_parameter_values, file_list] = Helper.collectODImages(options);

%%
Analyzer.runInteractiveODImageViewer(od_imgs, scan_parameter_values, file_list, options);