*To:* Freesurfer support list
*Subject:* Re: [Freesurfer] mris_fix_topology taking ages
*External Email - Use Caution *
Dear Douglas and Bruce,
my name is Diana, I am encountering the same issue as Ellen with
Fix-topology taking too long. Once we make sense of the origin of the
issue
Subject: Re: [Freesurfer] mris_fix_topology taking ages
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Dear Douglas and Bruce,
my name is Diana, I am encountering the same issue as Ellen with Fix-topology
taking too long. Once we make sense of the origin of the issue (for example, I
confirmed that my
freesurfer-boun...@nmr.mgh.harvard.edu <
> freesurfer-boun...@nmr.mgh.harvard.edu> *On Behalf Of *Douglas N. Greve
> *Sent:* Tuesday, June 1, 2021 5:57 PM
> *To:* freesurfer@nmr.mgh.harvard.edu
> *Subject:* Re: [Freesurfer] mris_fix_topology taking ages
>
>
>
&
Or the ?h.inflated.nofix can be helpful as well
From: freesurfer-boun...@nmr.mgh.harvard.edu
On Behalf Of Douglas N. Greve
Sent: Tuesday, June 1, 2021 5:57 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] mris_fix_topology taking ages
I mean mris_fix_topology. Try loading the
I mean mris_fix_topology. Try loading the ?h.smoothwm.nofix in surface
viewing (not in the volume). You can often see defects better on this
surface (they look likes holes or handles; you should at least see some)
On 6/1/2021 4:55 PM, Ellen Ji wrote:
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Hi D
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Hi Doug, when you say it did not finish, could you clarify what process
"it" refers to?
I loaded the files you suggested and nothing popped out to me aside from
the fact that the wm.mgz didn't seem to cover all the white matter.
Is it possible that top
The topology error labels might be be created if it did not finish. YOu
can try just loading the brain.mgz, the wm.mgz, and the orig.nofix and
see if you can find a big topo error
On 5/31/2021 11:16 AM, Ellen Ji wrote:
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Dear experts,
mris_fix_topology has been runn
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Dear experts,
mris_fix_topology has been running for several hours now and the log
suggests many more defects than normal. I tried to follow Bruce's advice
from the thread here
https://secure-web.cisco.com/11N_pSFTUOEZsMU7wtMNfIhMmRNWqmvsxTQeTGxdl-E
