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Thanks a lot!
- Markus

On 26 Sep 2022, at 13:27, Kumar, Avnish <Avnish.Kumar@MGH.HARVARD.EDU> wrote:

I am also attaching the new core.py with the bug fix. You can unzip and copy it to $FREESURFER/python/gems/subregions

Best,
Avnish
From: Kumar, Avnish <Avnish.Kumar@MGH.HARVARD.EDU>
Sent: Friday, September 23, 2022 11:47 AM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Cc: Nolan, Jackson <JNOLAN5@mgh.harvard.edu>; mdalaminbadal@gmail.com <mdalaminbadal@gmail.com>
Subject: Re: [Freesurfer] segment_subregions failed
 
Hi Markus,

This bug has been fixed in the dev branch of Freesurfer (FS). You can get the changes in your local copy of FS by either git checkout the python/gems/subregions/core.py file into the appropriate subfolder (<FS_install_dir>/python/gems/subregions) where you installed FS or you could simply edit the core.py file at that location as in the bug fix.

Best,
Avnish
From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Markus Handal Sneve <m.h.sneve@psykologi.uio.no>
Sent: Wednesday, September 21, 2022 2:35 PM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Cc: Nolan, Jackson <JNOLAN5@mgh.harvard.edu>; mdalaminbadal@gmail.com <mdalaminbadal@gmail.com>
Subject: Re: [Freesurfer] segment_subregions failed
 
        External Email - Use Caution        

Hi,

Sorry if this ends up in the wrong place, had to reactivate my FS-mailing list account.

So I get the exact same error as reported by Mamun Al-Amin when running segment_subregion (FS v7.3.2).

Fresh terminal, no other FS version running in the background, build-stamp.txt shows the correct version.

Hopefully you can see the screenshot below, sadly cannot ctrl-c text out of our cluster

<PastedGraphic-1.png>

Thanks!

Markus Handal Sneve, Ph.D.
Center for Lifespan Changes in Brain and Cognition
Department of Psychology 
University of Oslo

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