External Email - Use Caution Hi Bruce,
I cannot examine those files with gedit. Could you tell me how to open them? Thank you, Rosalia On Mon, Oct 22, 2018 at 9:35 PM Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > Hi Lisa > > no, likely you have to identify and correct the source of the giant > defect, > typically be either fixing the skull stripping, or editing the wm.mgz or > adding control points > > cheers > Bruce > > > On Mon, 22 Oct 2018, Lisa Crystal Krishnamurthy wrote: > > > External Email - Use Caution > > > > Hi all, > > > > I have a stroke brain with a large lesion that runs into this same > problem. Is there a way to push the process along? No white matter > segmentations are created to try and edit the surface. > > > > Best, > > -Lisa Krishnamurthy > > > > -----Original Message----- > > From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto: > freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl > > Sent: Monday, October 22, 2018 3:30 PM > > To: Freesurfer support list > > Subject: Re: [Freesurfer] Stuck in "CORRECTING DEFECT" > > > > Hi Rosaila > > > > usually when you have a defect that large (>30,000) vertices, which is > about 1/4 of the total surface more or less, something is dramatically > wrong and it is not worth waiting for it to finish (it might take days or > weeks). Examine the ?h.orig.nofix and ?h.inflated.nofix surfaces and see if > there is some big problem like skull or cerebellum attached to the surface. > > > > cheers > > Bruce > > > > > > On Mon, 22 Oct 2018, Rosalia Dacosta Aguayo wrote: > > > >> > >> External Email - Use Caution > >> > >> Dear FreeSurfer team, > >> > >> I Have run -autorecon1 in my sample and the report.log was "finished > without errors" > >> Now, running recon-all -all I have seen that a participant is stuck in > >> CORRECTING DEFECT 0 (vertices=31977, convex hull=5359, v0=0) for more > >> than an hour. I wonder if this is normal or if I should be worried > >> because recon-all takes 4.5 hours approximately for every participant > but for this one, it seems that is not moving from this step. > >> > >> Anyone could help me with this? > >> > >> Best regards, > >> Rosaila > >> > >> > >> > >> > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > >_______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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