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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:
 
>
>         External Email - Use Caution        
>
> 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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