Your stitching problems are almost certainly due to parallax. While you 
would normally set up the camera such that it rotated about the entrance 
pupil of the lens to avoid the effects of parallax, it's a sad fact that 
for a fisheye lens the apparent position of the entrance pupil varies 
according to the varying angles of the light rays entering the lens.  Light 
rays from the nadir area are entering at angles approaching 90 degrees to 
the lens axis. For these rays, the entrance pupil is close to the front 
surface of the lens, whereas for rays coming from the horizontal level, the 
entrance pupil is much further back into the lens.  The optimum position 
for the camera must therefore be a compromise. You might try shifting the 
camera back a little so as to give priority to the nadir area which is 
nearest to the camera and therefore more likely to be visibly affected by 
parallax errors.

Another possible cause of trouble with the zenith and nadir images is that 
they might be in different orientations to that of the horizontal row 
images. You should have all the images in the same orientation: all in 
landscape or all in portrait. But more than this, images can be in one of 4 
possible orientations obtained by rotating the image in increments of 90 
degrees. The zenith and/or the nadir images might be upside down relative 
to the other images owing to the orientation sensor in the camera giving 
arbitrary data when the camera points directly up or down due to gravity 
acting at right angles to the image sensor. It's important that all the 
images are in exactly the same orientation because of the way the global 
lens shift parameters are applied to correct for the lens axis not being 
exactly aligned with the centre of the image sensor.

If you can make available the set of images (half size jpegs of the ev0 set 
would be good enough), more specific help might be possible.

John

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