If imageL.xxx is the left image (image 1), the frames generated will be named frame1.xxx, frame2.xxx, etc. The last frame corresponds to the right image. Animated gifs or lenticular prints (see Lenticular Printing - Interlacing with SuperFlip) can be made with imageL.xxx, frame1.xxx, frame2.xxx, etc (don't use the actual right image). The program automatically creates an animated gif of those images after generating and saving the frames.
The disparity/depth map should be a grayscale image where white indicates closest foreground object and black indicates furthest background object. The darkest value in the depthmap corresponds to the minimum disparity and the brightest value corresponds to the maximum disparity. The disparity/depth map doesn't need to come from any of my programs.
Here's an example:
Disoccluded areas ("holes") which result from the shifting of the reference image (left image) to get the "right" image (which you get when you ask to generate just 1 frame).
The windows executable (guaranteed to be virus free) is available for free via the 3D Software Page. Please, refer to the 'Help->About' page in the actual program for how to use it.