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Copy pathcourtship_algo.m
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courtship_algo.m
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function [courtship_index, courtship_frame_num, mark_courtship, mark_courtship_zero_dist_max, is_intersecting_over_time, cos_theta_over_time] = courtship_algo(fly_1_coords_over_time, fly_2_coords_over_time, dist_over_time, output_folder, window_length, window_limit_for_dist_condition, step_size, thresold_pixel_distance, stationary_pixel_distance)
% WINDOWS
if strcmp(computer, 'GLNXA64')
files = dir([output_folder '/*.png']);
else
files = dir([output_folder '\*.png']);
end
is_intersecting_over_time = [];
cos_theta_over_time = [];
mark_courtship = zeros(length(dist_over_time),1);
mark_courtship_zero_dist_max = zeros(length(dist_over_time),1);
window_num = 0;
total_num_windows = length(1:step_size:length(files')-window_length);
progress_bar = waitbar(0,'Starting courtship algorithm - I...');
for f = 1:step_size:length(files')-window_length
window_num = window_num + 1;
waitbar(window_num/total_num_windows, progress_bar, sprintf('Find Courtship Frames: %d %%', floor(window_num/total_num_windows*100)));
start_idx = 1 + (window_num - 1)*step_size;
end_idx = start_idx + window_length - 1;
% ---- 1. Dot Product ---------
dx1 = fly_1_coords_over_time(f+window_length-1,1) - fly_1_coords_over_time(f,1);
dy1 = fly_1_coords_over_time(f+window_length-1,2) - fly_1_coords_over_time(f,2);
dx2 = fly_2_coords_over_time(f+window_length-1,1) - fly_2_coords_over_time(f,1);
dy2 = fly_2_coords_over_time(f+window_length-1,2) - fly_2_coords_over_time(f,2);
dotProduct = dx1 * dx2 + dy1 * dy2;
mag1 = sqrt(dx1^2 + dy1^2);
mag2 = sqrt(dx2^2 + dy2^2);
cosTheta = dotProduct / (mag1 * mag2); % positive for acute, negative for obtuse
cos_theta_over_time = [cos_theta_over_time cosTheta];
% -------------2. Intersection of 2 vectors ----------------------
% Define the vectors and points
P1 = [fly_1_coords_over_time(f,1), fly_1_coords_over_time(f,2)];
P2 = [fly_2_coords_over_time(f,1), fly_2_coords_over_time(f,2)];
v1 = [dx1, dy1];
v2 = [dx2, dy2];
% Determine intersection
A = [v1', -v2'];
b = P2 - P1;
is_intersecting = 0;
% if rank(A) < 2
% disp('Lines are parallel or coincident.');
% else
if rank(A) >= 2
ts = A\b';
% t and s are ts(1) and ts(2) respectively
if 0 <= ts(1) && ts(1) <= 1 && 0 <= ts(2) && ts(2) <= 1
is_intersecting = 1;
% intersectionPoint = P1 + ts(1) * v1;
% disp(['The lines intersect at point (', num2str(intersectionPoint(1)), ', ', num2str(intersectionPoint(2)), ').']);
end
end
is_intersecting_over_time = [is_intersecting_over_time is_intersecting];
if cosTheta > 0 && is_intersecting == 1
mark_courtship(start_idx:end_idx) = 1;
elseif sum(dist_over_time(start_idx:end_idx) < thresold_pixel_distance) == length(dist_over_time(start_idx:end_idx))
fly1_start_pt = fly_1_coords_over_time(start_idx, :);
fly1_end_pt = fly_1_coords_over_time(end_idx, :);
fly1_dist_travelled = pdist([fly1_start_pt; fly1_end_pt]);
fly2_start_pt = fly_2_coords_over_time(start_idx, :);
fly2_end_pt = fly_2_coords_over_time(end_idx, :);
fly2_dist_travelled = pdist([fly2_start_pt; fly2_end_pt]);
if (fly1_dist_travelled <= stationary_pixel_distance) + (fly2_dist_travelled <= stationary_pixel_distance) == 1 % exactly one of them is stationary
% disp('At least one fly is stationary')
mark_courtship(start_idx:end_idx) = 0;
mark_courtship_zero_dist_max(start_idx:end_idx) = 0;
else
mark_courtship(start_idx:end_idx) = 1;
mark_courtship_zero_dist_max(start_idx:end_idx) = 1;
end
end
end
close(progress_bar)
progress_bar1 = waitbar(0,'Starting courtship algorithm - II...');
% less than threshold pixels for 15 seconds, then remove courtship
window_length = window_limit_for_dist_condition; % 15/10 seconds, each second is 5 frames
window_num = 0;
removal_start_stop_pairs = [];
for f = 1:step_size:length(files')-window_length
window_num = window_num + 1;
waitbar(window_num/total_num_windows, progress_bar1, sprintf('Remove windows where flies stay still for long: %d %%', floor(window_num/total_num_windows*100)));
start_idx = 1 + (window_num - 1)*step_size;
end_idx = start_idx + window_length - 1;
if sum(mark_courtship_zero_dist_max(start_idx:end_idx)) == length(mark_courtship_zero_dist_max(start_idx:end_idx))
% disp(['Removed window_num is ' num2str(window_num)])
fly1_start_pt = fly_1_coords_over_time(start_idx, :);
fly1_end_pt = fly_1_coords_over_time(end_idx, :);
fly1_dist_travelled = pdist([fly1_start_pt; fly1_end_pt]);
fly2_start_pt = fly_2_coords_over_time(start_idx, :);
fly2_end_pt = fly_2_coords_over_time(end_idx, :);
fly2_dist_travelled = pdist([fly2_start_pt; fly2_end_pt]);
if fly1_dist_travelled < thresold_pixel_distance && fly2_dist_travelled < thresold_pixel_distance
removal_start_stop_pairs = [removal_start_stop_pairs; [start_idx end_idx]];
end
end
end
for ri = 1:size(removal_start_stop_pairs,1)
start_idx = removal_start_stop_pairs(ri,1);
end_idx = removal_start_stop_pairs(ri,2);
mark_courtship(start_idx:end_idx) = 0;
mark_courtship_zero_dist_max(start_idx:end_idx) = 0;
% disp(['Removed because both flies did not move, start idx = ' num2str(start_idx/5) ' end idx = ' num2str(end_idx/5)])
end
close(progress_bar1)
courtship_index = num2str(sum(mark_courtship)/length(mark_courtship));
courtship_frame_num = num2str(sum(mark_courtship));
% disp(['frame of courtsip ' courtship_frame_num ' Index = ' courtship_index ])
end