So, backing up a step: when you say align_image_stack doesn't work, what
do you mean exactly? I assumed you meant that it did a poor job aligning
the images, but I don't think the command lines you list there would
even work to start the program, so I'm wondering now if you meant that
it doesn't even run?
"-a" requires a prefix following it, and "-g" requires a number.
E.g.:
align_image_stack -a someprefix -g 8 *.tif
Documentation is here: http://wiki.panotools.org/Align_image_stack
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