Hi Allison,But when I run -autorecon-cp it complains that the option does not exist. I'm using FS5.1..msteenwj@lnx-rad-03 freesurfer51 % recon-all -subjid P102_corr -autorecon-cpERROR: Flag -autorecon-cp unrecognized.-subjid P102_corr -autorecon-cpLinux lnx-rad-03 2.6.18-92.1.18.el5 #1 SMP Wed Nov 5 09:00:19 EST 2008 x86_64 x86_64 x86_64 GNU/Linuxrecon-all -s P102_corr exited with ERRORS at Fri Mar 2 14:23:15 CET 2012For more details, see the log fileTo report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReportingBest,MartijnOn Fri, Mar 2, 2012 at 2:15 PM, Allison Stevens Player <astevens@nmr.mgh.harvard.edu> wrote:
Hi Martijn,autorecon-cp is correct, we start the process a bit earlier now. But even better, regardless of what edits you make, you can rerun with "recon-all -make all" and it will start at the earliest needed step. (Although running from autorecon2 after the skullstrip fix is correct as well).AllisonDear all,On http://surfer.nmr.mgh.harvard.edu/fswiki/RecommendedReconstruction it is indicated that -autorecon-cp should be added if control points are added. Shouldn't this be -autorecon2-cp?Furthermore, suppose control points are added and -autorecon2-cp has been runned. If I then correct the skull strip (as indicated in the wiki) and want to rerun, do I have to call -autorecon2-cp then, or can I just run -autorecon2 -autorecon3?Best,Martijn_______________________________________________
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