Sid,
Firstly, make sure it didnt crash because of bad data. That is, if you
can make the program that crashed crash again, check the input data. As
for restarting, you can either use:
recon-all -s subjid -make all
which will make just the files that are missing or out-of-date relative
to their dependencies. Or reference this chart:
https://surfer.nmr.mgh.harvard.edu/fswiki/ReconAllDevTable
and restart recon-all with just the flags used for the stages covering
the parts that have not completed.
In your case:
recon-all -autorecon2-pial -autorecon3 -subjid subj
would be appropriate, as that starts with the finalsurfs stage.
Nick
On Fri, 2008-11-21 at 15:37 -0800, Siddharth Srivastava wrote:
> Hi again, everyone,
> Apologies for another newbie question,
> but i was wondering what is the best thing
> to be done in case the program crashes in midflight, during the recon-
> all invocation. As of now, i have
> identified that the processing crashed sometime during
> mris_make_surfaces (stage 21?). Is there any way
> i can restart the process from this point? or, what is the most
> optimal strategy?
> regards,
> sid.
>
> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer