Create avi with two different subplots

I have 100 files within the a folder called "test1" that I would like to create a movie from. However, each of these 100 files will either have a length of 360 or 720, and would like to plot them in different subplots while looping through the 100 files.

For example, for i = 1;

if length(file1) == 360 subplot(1,2,1)

elseif length(file1) == 720 subplot(1,2,2)

That way, I have a continuous movie that will either plot on one or the other.

The basic skeleton I have been using is this:

 path1 = path/to/data;
 dir1 = dir(path1);
 vidya = VideoWriter('test.avi')
 vidya.Framerate = 8;
 open(vidya)
 % Create initial image
 subplot(1,2,1)
 xaxis([0 360])
 yaxis([0 100])
 subplot(1,2,2)
 xaxis([0 720])
 yaxis([0 100])

 for i = 3:length(dir1)
 load(dir1(i).name)
 if length(x) == 360
 do stuff for this
 subplot(1,2,1)
 plot(x)
 xaxis([0 360])
 yaxis([0 100])
 subplot(1,2,2)
 xaxis([0 720])
 yaxis([0 100])
 frame = getframe(gcf)
 writeVideo(vidya,frame)

 clf

 elseif length(x) == 720
 do some stuff
 subplot(1,2,1)
 xaxis([0 360])
 yaxis([0 100])
 subplot(1,2,2)
 plot(x)
 xaxis([0 720])
 yaxis([0 100]) 
 frame = getframe(gcf)
 writeVideo(vidya,frame)

 clf
 end

 close(vidya)

For the sample dataset that I have, the first 80 files are such that length(x) == 360, and the data plots on the first subplot fine. However, when the 81st file has a length(x) == 720, nothing is plotted in the second subplot, and the first subplot goes blank. Any thoughts?