Hello-

I apologize as I see this is a variation on a common problem, but I have tried to follow the related threads and have not had any sucess yet. I am scanning on a Siemens scanner for the first time and have acquired three runs of functional epi data (runs 4, 5 and 6) and one anatomic scan. Each of the EPI runs has 114 volumes collected. When I try to use to3d, the axial slices appear OK but the sagittal and coronal are all stacked on top of each other in one window. For the anatomical image, every 11th slice is out of order and the slices start at the center, go up, and then jump to the bottom half of the brain. I have tried the suggestions given to prior users with similiar problems, including settting the env variable AFNI_SIEMENS_INTERLEVE to yes and trying -sinter with to3d, and the Dimon to reorder the slices. I am using the version of AFNI dowloaded Dec 2007. I am not very familiar with the commands, and may have put in some parameter incorrectly. If you are able to take a look at the data and make specific recommendations, I would really appreciate it.

Thanks,
Elizabeth