External Email - Use Caution Hello freesurfer experts
I am using freesurfer to run recon-all, recon-all -i T1_MPRAGE image -t2 T2-FLAIR-Image It takes about 5 days to finish the process. I find that the most time consuming process is topology fix, it almost takes 4 days for L and R side of hemisphere. I checked the manual, it is supposed to take 1-9h to finish. Do you know why? I think my data set may have a relatively large ventricles ( of course, it is not so large). I put the flags --bigventricles and --parallel, it still takes about 3 days to finish. but if I use recon-all -i T1_MPRAGE image rather than recon-all -i T1_MPRAGE image -t2 T2-FLAIR-Image. It will take about 15h, why this make such big difference? Many thanks. Frank
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