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Hi,

This error is almost always due to the fact that the segmentation of the structural image has failed.  It might have just completely failed for some reason (including the job dying for various IT reasons like lack of disk space, or incorrect filename, as well as problems with the image such as strong artefact) or it could be caused if the image initially contained NaN values (Not a Number) due to it having been processed by some other package (e.g. matlab often inserts these).  So check the structural image, check its segmentation, and check the structural image for NaN values (you can use the -nan or -nanm flag in fslmaths to fix/identify these).

FYI: BBR is Boundary-Based Registration, and is the cost function used inside the registration method for EPI to structural registrations.

All the best,

Mark