Hi All,
I recently tried to visualise the result of 10 mprage runs in one animal. Using the 20050921dev version of freesurfer (centos4_x86_64) mri_motion_correct2 went through smoothly. Since I scanned at 0.5mm^3 voxel size I unpacked the anatomicals into MGH instead of COR, trying to look at the result of the average result of the 10 scans at magnification of 2 resulted in funny looking artifacts. In the attached tiff file one can see two dorso-ventral edgers running through the slice, were the display seems to be off by some slices. Very prominent over the cerebellum where the blood vessels simply stop. I redid the unpacking and mri_motion_correct2 based averaging to produce SPM format output. This output produces the same artzefacts when view with tkmedit but looks okay when viewed with mricro. Please let me know, whether I can be of any help in this issue.
Best Regards Sebastian