ok, let us know if we can help further
Bruce
On Sun, 18 Nov 2018, Rosalia Dacosta
Aguayo wrote:
External Email - Use Caution
Thanks for your help :)Going on with the use Free Surfer!!
Regards,
Rosalia
El dom., 18 nov. 2018 17:11, Bruce Fischl <fis...@nmr.mgh.harvard.edu> escribió:
overlay the white and pial surfaces and see if the skull is included
inside
the pial
On Sun, 18 Nov
2018, Rosalia Dacosta Aguayo wrote:
>
> External Email - Use Caution
>
> Hi Bruce,
> Thank you a lot for your reply. How could I inspect if affects the
surfaces?
>
> Yours sincerely,
> Rosalia
>
>
> El dom., 18 nov. 2018 16:58, Bruce Fischl <fis...@nmr.mgh.harvard.edu>
escribió:
> that should work ok. It only matter if it affects the surfaces
though (or
> the aseg)
> cheers
> Bruce
>
> On Sun, 18 Nov 2018, Rosalia Dacosta Aguayo wrote:
>
> >
> > External Email - Use Caution
> >
> > Hi Bruce,
> > Sorry for my intromission.
> > I am replacing the brainmask because dura mater or skull were
left behind with
> independence of the
> > WM and GM segmemtation. Does this is useless?
> >
> > Regards,
> > Rosalia
> >
> > El dom., 18 nov. 2018 16:16, Bruce Fischl
<fis...@nmr.mgh.harvard.edu>
escribió:
> > Hi yujunjie
> >
> > you need to look at the *.nofix surfaces and see where
the defect is.
> > Skull and neck being left is around isn't a problem
unless they are
> > included in the surfaces.
> >
> > cheers
> > Bruce
> > On Sun, 18 Nov 2018, 1013364183 wrote:
> >
> > >
> > > External Email - Use Caution
> > >
> > > Dear Bruce Fischl,
> > > Thank you very much for your reply. I checked the
effect of going
down the
> skull and
> > found that a
> > > large part of the skull has not been removed. The
appendix contains
images of
> skull
> > removal. I want
> > > to know how we should handle it.
> > >
> > > yours yujunjie
> > > ------------------ Original ------------------
> > > From: "Bruce Fischl"<fis...@nmr.mgh.harvard.edu>;
> > > Date: Sun, Nov 18, 2018 00:10 AM
> > > To: "Freesurfer support
list"<freesurfer@nmr.mgh.harvard.edu>;
> > > Subject: Re: [Freesurfer] Modify defect failed
> > >
> > > Hi yujunjie
> > >
> > > the last entry in the log file is:
> > >
> > > CORRECTING DEFECT 5 (vertices=53772, convex hull=1434,
v0=15308)
> > > XL defect detected...
> > >
> > >
> > > this is a giant defect - about 1/4 of your total
surface. It means
that
> > > something major went wrong - skull attached, or hemis
connected or
> > > something. You should look at the rh.orig.nofix and the
> > > rh.inflated.nofix surfaces to see what it is.
> > >
> > > cheers
> > > Bruce
> > >
> > >
> > > On Sat, 17
> > > Nov 2018, 1013364183 wrote:
> > >
> > > >
> > > > External Email - Use Caution
> > > >
> > > > Dear FS,
> > > > I ran the recon-all command and it failed to fix it
for many days
when I
> fixed the
> > defect. I have
> > > > modified the threshold of the split algorithm. I want
to know if
there are
> other
> > ways to fix the
> > > Its
> > > > log file is in the attachment.
> > > >
> > > > Thank you in advance
> > > >
> > > > yours yujunjie
> > > >
> > > >
> > > _______________________________________________
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> > >
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> > >
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> >
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> >
> >
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>
>
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