Re: [Freesurfer] Chunks of missing WM

I think Emily is talking about this one:

ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/misc/allplatforms/

a.

Le 14/12/2012 12:59 PM, Jonathan Holt a écrit :

Emily,

This is good news, can I find or download this revised version somewhere?

jon On Dec 14, 2012, at 11:37 AM, Emily Rogalski wrote:

...

We ran into this issue frequently and found that it was resolved by using the revised recon -all script that alters the stage where control points are considered.

Emily

On Wed, Dec 12, 2012 at 10:42 AM, Jonathan Holt <whatsdac@umich.edu mailto:whatsdac@umich.edu> wrote:

OK will do... I'll upload both versions, before and after
recon-all ran. I am beginning to think it's an issue with the
script that I am running... I'm looking at another brain and
there are areas I did not touch at all where white matter voxels
are being added or removed...


On Dec 12, 2012, at 11:33 AM, Bruce Fischl wrote:

> Hi Jon
>
> if you upload this subject we'll take a look
> Bruce
>
>
> On Wed, 12 Dec 2012, Jonathan Holt wrote:
>
>> I've had this happen a handful of times and I'm wondering what
I can do about it. For reference using Freesurfer 5.0.0.
>>
>> Edited a brain and ran "recon-all -autorecon2 -autorecon3 -s
subj_id" which completed without error. The resulting brain had
chunks of missing auxiliary volume in areas that I had not
touched at all. This is bizarre and I am not sure what to do
about it. Images of said issue attached of both main and
auxiliary volumes.
>>
>>
>