hi - I'm running into a problem using BBR registration (via epi_reg in 5.0.2) to align an EPI image (2.4 mm iso resolution) to a T1-weighted anatomy (1mm iso resolution). The wmseg file is actually obtained from freesurfer and looks good (I think), as does the wmedge file. The FLIRT pre-alignment registration (saved to blah_init.mat) also looks reasonable. However, when it gets to the BBR registration section, I see lots of messages like this:
Running BBR
ERROR::set_bbr_seg: could not find any boundary points!
ERROR::set_bbr_seg: could not find any boundary points!
ERROR::set_bbr_seg: could not find any boundary points!
ERROR::set_bbr_seg: could not find any boundary points!
WARNING:: Found NaN in BBR cost (2)
ERROR::set_bbr_seg: could not find any boundary points!
WARNING:: Found NaN in BBR cost (2)
ERROR::set_bbr_seg: could not find any boundary points!
WARNING:: Found NaN in BBR cost (2)
ERROR::set_bbr_seg: could not find any boundary points!
WARNING:: Found NaN in BBR cost (2)
ERROR::set_bbr_seg: could not find any boundary points!
WARNING:: Found NaN in BBR cost (2)
if I let it keep running it will do so for several hours, finally finishing, but the resulting output image is badly misregistered (worse than the initial pre-alignment). Any suggestions for how to address this problem would be most appreciated.
best,
russ
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