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You can decompose any equirectangular image into 6 pinhole like cameras using the Utilities -> Decompose equirectangular panoramas. The images then will be treated normally.
It's worth pointing out that zephyr does not do any optimization for equirectangular panormas (as it could potentially infer some data from them) so if recommend having a lot of overlap in between scans if you are going to use that type of camera. Also, remember to mask out the tripod if the floor is something you need =) for that, remember that masquerade has ha "copy mask to all images" option
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