22 Oct
2018
22 Oct
'18
3:48 p.m.
with freeview On Mon, 22 Oct 2018, Rosalia Dacosta Aguayo wrote:
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 fischl@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-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@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