initial commit

tomo/utils/ellipse_fit_positions.m

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+function ellipse_fit_positions(samposx,samposy,scans,lamni_fit_file,bath_path)
+
+% addpath ../
+% 
+% cf{1} = load('Claire_click_squarymcsquareface.mat');
+% samposx_all = [];
+% samposy_all = [];
+% scans_all = [];
+% for ii = 1:numel(cf)
+%     samposx_all = [samposx_all cf{ii}.samposx];
+%     samposy_all = [samposy_all cf{ii}.samposy];
+%     scans_all = [scans_all cf{ii}.scans];
+% end
+
+figure(1);
+clf
+plot(samposx,samposy,'o')
+
+%%
+if exist('lamni_fit_file')
+    [~,lamni_name,~] = fileparts(lamni_fit_file);
+    %theta = prepare.read_angles_from_position_files('~/specES1/scan_positions/scan_%05d.dat',scans);
+    theta = prepare.read_angles_from_position_files(strcat(bath_path,'/scan_positions/scan_%05d.dat'),scans);
+    
+    theta_interp = [min(theta)-1:max(theta)+1];
+    
+    samposx_interp = interp1(theta,samposx,theta_interp,'spline');
+    samposy_interp = interp1(theta,samposy,theta_interp,'spline');
+    hold on
+    plot(samposx_interp, samposy_interp,'--')
+    hold off
+    
+    corr_filename = sprintf('correction_lamni_um_S%05d_%s.txt',scans(1),lamni_name);
+    h = fopen(corr_filename,'w');
+    fprintf(h,'corr_elements = %d \n',length(theta_interp));
+    for ii = 1:length(samposx_interp)
+        fprintf(h,'%s[%d] = %.6f \n','corr_angle',ii-1,theta_interp(ii));
+        fprintf(h,'%s[%d] = %.6f \n','corr_pos_x',ii-1, samposx_interp(ii));
+        fprintf(h,'%s[%d] = %.6f \n','corr_pos_y',ii-1, samposy_interp(ii));
+    end
+    fclose(h);
+    fprintf('Wrote succesfully to %s\n',corr_filename)
+end