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In this case, maybe it’s possible to speed up the process a little (without loosing much in accuracy) with some parameter configuration for mri_ca_register ? I’ve checked the help for it. Only some arguments have description, but from the ones the have I can assume that at least tweaking -tol (convergence of registration) and -level (defines how many surrounding voxels will be used in interpolations) should have some positive effect on computation time. Maybe there is more? Thanks you, Aleksandr.
Воскресенье, 19 апреля 2020, 19:26 +03:00 от Bruce Fischl fischl@nmr.mgh.harvard.edu: yes, careg is required. In general you should run things all the way to the end of recon-all as the surfaces are used to improve the accuracy of the aseg.
cheers Bruce On Sun, 19 Apr 2020, Ерохин Александр wrote:
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Hello together, Could you please suggest the most effective way (in terms of time) for computation of statistics on segmented volumes from .nii source file? So far I went though the following steps: recon-all -autorecon1 -no-isrunning -subjid test recon-all -gcareg -no-isrunning -subjid test recon-all -canorm -no-isrunning -subjid test And seem to be stuck on -careg as transforms/talairach.m3z is needed to proceed. As far as I can tell — there is no way around recon-all -careg which seems to be the most time consuming in the chain of invocations based on Step-wise Directives (https://surfer.nmr.mgh.harvard.edu/fswiki/recon-all). But I might be wrong and hoping for your expertise here. Many thanks, Aleksandr Erokhin.
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