Re: [Freesurfer] Disastrous Soft Error

2017-02-25 Thread Bruce Fischl
Glad to hear it worked out Bruce > On Feb 24, 2017, at 5:01 PM, Rockers, Elijah D. > wrote: > > OK, sorry for spamming the list. I fixed the the faulty skullstrip by using > > recon-all -skullstrip -clean-bm -no-wsgcaatlas -subjid > > Currently redoing the

Re: [Freesurfer] Disastrous Soft Error

2017-02-24 Thread Rockers, Elijah D.
OK, sorry for spamming the list. I fixed the the faulty skullstrip by using recon-all -skullstrip -clean-bm -no-wsgcaatlas -subjid Currently redoing the surface reconstructions, but it should be OK now. Thanks for the nice documentation. Eli On Fri, 2017-02-24 at 15:30 -0600, Elijah Rockers

Re: [Freesurfer] Disastrous Soft Error

2017-02-24 Thread Rockers, Elijah D.
As far as I can tell, everything looks OK up until brainmask.mgz. The skullstrip step seems to have cropped out the brain and left the neck... On Fri, 2017-02-24 at 12:58 -0600, Elijah Rockers wrote: > Hello all, > > I recon-all'd ~40 different subjects. I have been going through all the >