HI Sampada
wow, something went terribly wrong. Can you post an image of the actual
volume and maybe of the wm segmentation?
cheers
Bruce
On Thu, 24 Mar 2016, Dr Sampada Sinha
wrote:
Hello Bruce,
The recon-all -autorecon2 process exited with the error. The lh inflated no fix
image
is attached with this email. I am also, attaching the mri_info and
recon_all.log with
this email. I am basically trying to calculate the lGI of the participants. I
was
having issues with lGI but, its sorted noe. Will appreciate if I can be guided
by you
about how to fix this. I found the same kind of surface in another participants.
With thanks and regards,
Sampada
On Tue, Mar 22, 2016 at 10:41 PM, Dr Sampada Sinha <drsampadasi...@gmail.com>
wrote:
Hello Bruce,
Thanks again for your prompt response. We have an official holiday here. Will
send the info on Thursday.
Thanks and regards,
Sampada
Predoctoral student
KGMU, Lko
India
On haveay, March 2016, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote:
I see
if you have defects that large you should look at the
inflated.nofix surface to see what they are.
What is your voxel resolution?
cheers
Bruce
On Tue, 22 Mar 2016, Dr Sampada Sinha wrote:
Thanks Bruce for your reply. I did run it thru'
recon-all. It went for more than 2
days and then exited with XL defect error (convex hull
was more than 14000 and vertex
size about 54000). So today I started by running the
recon-all in parts. I did not
find anything wrong with brainmask files after running
autorecon1. I am presently
running the autorecon-2 process. Will get back with the
surf files when this process
is over.
Thank you again for your reply and support.
Kind regards,
Sampada
On Tuesday, March 22, 2016, Bruce Fischl
<fis...@nmr.mgh.harvard.edu> wrote:
sure. Have you tried running it through
recon-all? It may work fine....
On
Tue, 22 Mar 2016, Dr Sampada Sinha wrote:
> Thanks Bruce for your reply. The acquisition
was oblique and the voxel
size doesn't
> conform to the 1mm cube isotropic. I am trying
to work on it and figure
out a
> solution. However, if I am not, hope its okay
to send you the nifti
image.
> Thanks and regards,
>
> Sampada
>
>
>
> Rnday, March 20, 2016, Bruce Fischl
<fis...@nmr.mgh.harvard.edu> wrote:
> what do you mean by "adding" an oblique
angle? If you mean
acquiring the
> data obliquely you should be fine as long
as the voxels are close
to 1mm
> isotropic.
>
> cheers
> Bruce
> On Sun, 20 Mar 2016, Dr Sampada Sinha
wrote:
>
> > Dear freesurfer experts,
> > Does adding an oblique angle during
coronal or axial
acquisitions of
> T1w
> > images lead to topographical errors
during mri_fix_topology
process?
> >
> > Thanks and regards,
> >
> > Sampada
> >
> >
> >
> > --
> > Sampada Sinha
> >
> >
> >
> >
> >
> >
> >
> >
> >
> >
> >
> >
>
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> is
> addressed. If you believe this e-mail was
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and the
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> contains patient information, please
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If the e-mail was sent
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>
>
> --
> Sampada Sinha
>
>
>
>
>
>
>
>
>
>
>
>
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--
Sampada Sinha
--
Sampada Sinha
--
Sampada Sinha
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