Hey Bruce,
I've uploaded the data via ftp to:
transfer/incoming/EK_umn_052710.tar.gz
Please let me know if I can supply any further information. Thanks for
taking a look!
-Elias
On Thu, 2010-05-27 at 10:58 -0400, Bruce Fischl wrote:
> no idea. Can you tar and gzip the subject and put it on our
no idea. Can you tar and gzip the subject and put it on our filedrop?
thanks
Bruce
On
Thu, 27 May 2010, Elias Kersten wrote:
> One additional note: I had previously processed this subject through
> FreeSurfer version 4.0.2 without any problems. For some reason this
> problem only occurred upon
One additional note: I had previously processed this subject through
FreeSurfer version 4.0.2 without any problems. For some reason this
problem only occurred upon reprocessing with version 4.5.0. I batch
processed this subject with about 50 others, and the other subjects look
fine.
Any other su
I tried the recommended syntax below for looking at the surfaces and
they look fine in all three views (coronal, horizontal and sagittal).
And the surfaces seem consistent with other subjects I've processed.
Thanks,
Elias
On Tue, 2010-05-25 at 14:40 -0400, Douglas N Greve wrote:
> And all the sur
And all the surfaces look ok? Try looking at them with
tkmedit subjectname orig.mgz -seg aseg.mgz -surfs
Elias Kersten wrote:
> The subcortical structures, brainstem, thalamus, cerebellum appear to be
> labeled correctly, but the rest of the brain and background are labeled
> as Left-Cerebral-W
The subcortical structures, brainstem, thalamus, cerebellum appear to be
labeled correctly, but the rest of the brain and background are labeled
as Left-Cerebral-White-Matter.
On Tue, 2010-05-25 at 11:51 -0400, Douglas N Greve wrote:
> How does the aparc+aseg.mgz look?
>
> Bruce Fischl wrote:
>
How does the aparc+aseg.mgz look?
Bruce Fischl wrote:
> Not sure then. Krish: can you take a look?
>
> On Tue, 25 May 2010, Elias Kersten wrote:
>
>
>> I loaded in lh.white and rh.white and the white and pial surfaces look
>> fine, as does the aseg.mgz.
>>
>> Thanks,
>> Elias
>>
>> On Tue, 2010
Not sure then. Krish: can you take a look?
On Tue, 25 May 2010, Elias Kersten wrote:
> I loaded in lh.white and rh.white and the white and pial surfaces look
> fine, as does the aseg.mgz.
>
> Thanks,
> Elias
>
> On Tue, 2010-05-25 at 09:08 -0400, Bruce Fischl wrote:
>> Hi Elias,
>>
>> have you lo
I loaded in lh.white and rh.white and the white and pial surfaces look
fine, as does the aseg.mgz.
Thanks,
Elias
On Tue, 2010-05-25 at 09:08 -0400, Bruce Fischl wrote:
> Hi Elias,
>
> have you looked at the surfaces? Are they correct?
>
> Bruce
> On Mon, 24 May 2010,
> Elias Kersten wrote:
>
Hi Elias,
have you looked at the surfaces? Are they correct?
Bruce
On Mon, 24 May 2010,
Elias Kersten wrote:
> Hi,
>
> I am trying to run a subject through the entire recon-all pipeline.
> However, I noticed the second to last step, "-wmparc", was taking a very
> long time (days).
>
> Looking o
Hi,
I am trying to run a subject through the entire recon-all pipeline.
However, I noticed the second to last step, "-wmparc", was taking a very
long time (days).
Looking over the data, the aparc+aseg.mgz file is almost all labeled as
"Left-Cerebral-White-Matter", including the background. Als
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