works

MPFM.m

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+function [ output_args ] = MPFM(out_avifile)
+% make a fun movie of our mouse and his placefields
+%   Detailed explanation goes here
+
+close all;
+
+load PlaceMaps.mat;
+load PFstats.mat;
+
+NumFrames = length(x);
+NumNeurons = length(NeuronImage);
+
+figure;
+set(gcf,'Position',[534 72 1171 921]);
+
+aviobj = VideoWriter(out_avifile);
+aviobj.FrameRate = 20;
+open(aviobj);
+
+% assign each neuron a color
+colors = rand(NumNeurons,3);
+
+for i = 1:NumFrames
+
+    set(gcf,'Position',[534 72 1171 921]);
+    % plot trajectory, hold on
+    plot(Xbin,Ybin,'-','Color',[0.2 0.2 0.2]);hold on;axis tight;
+    Xa = get(gca,'XLim');
+    Ya = get(gca,'YLim');
+
+    % plot mouse marker
+    plot(Xbin(i),Ybin(i),'ok','MarkerSize',30,'MarkerFaceColor','k');
+
+    % find active neurons
+    an = find(FT(:,i));
+
+    % for each active neuron
+    for j = an'
+        % get PF outline (if avail)
+        WhichField = MaxPF(j);
+        temp = zeros(size(TMap{1}));
+        tp = PFpixels{j,WhichField};
+        try
+        temp(tp) = 1;
+        catch
+            keyboard;
+        end
+        % plot PF outline (using correct color)
+        b = bwboundaries(temp,4);
+        if (~isempty(b))
+
+            yt = b{1}(:,2);
+            xt = b{1}(:,1);
+            xt= xt+(rand(size(xt))-0.5)/2;
+            yt= yt+(rand(size(yt))-0.5)/2;
+            %colors(j,:)
+            plot(xt,yt,'Color',colors(j,:),'LineWidth',5);
+
+
+        end
+    end
+    set(gca,'XLim',Xa,'YLim',Ya);
+    % getframe
+    F = getframe(gcf);
+    % write to avi
+    writeVideo(aviobj,F);
+    hold off;
+    gcf;
+end