Hi Victor,
This recon was originally processed with FS5.3, but when you reran it with
autorecon2-cp -autorecon3 you used FS5.1. Could you try rerunning this
case again with the same (314) control points using FS5.3 instead and see
if the right frontal area of the wm surface is severely underestimated again?
-Louis
On Fri, 30 May 2014, Victor Kovac wrote:
Hello,
I ran recon-all on few subjects but noticed that much of the temporal lobes were
excluded from segmentation, so I added control points to missed white matter
voxels
in this area, and subsequently ran
recon-all -autorecon2-cp -autorecon3.
The control points fixed much of the segmentation errors in the temporal lobes;
however, errors in segmentation of other areas of the brain -- far from where I
had
placed control points -- were introduced.
Attached are images of the same subject and same coronal slice, before and after
running -autorecon2-cp -autorecon3, and, as you can see, much of the right
superior
frontal lobe is now missed.
Is there any way to fix this, other than by simply adding more control points
to the
newly missed areas? One note is that the cores I am running these subjects on
have a
memory limit of 3.75 GB and I see that the recommended memory per subject is at
least
4.0 GB. Could this be the problem?
Also attached is the recon-all log.
Thank you!
Victor
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