I ran into the same issue and in case you don’t want to change your PATH (like me), another option is to edit aparcstats2table script and simply replace the shebang from “#!/usr/bin/env python” to e.g. “#!/usr/bin/env python2” (please make sure “which python2” returns something in a terminal).

Antonin

On 19 Jan 2020, at 20:35, Hoopes, Andrew <AHOOPES@mgh.harvard.edu> wrote:

Hi Devika, the python scripts (like aparcstats2table) in 6.0 unfortunately must be run with python2. Your error implies that the python in your PATH points to python3. You should make sure python points to a python2 version before running freesurfer. Sorry for the inconvenience.

Andrew

From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Devika K <devikakuttala@gmail.com>
Reply-To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Date: Sunday, January 19, 2020 at 9:09 AM
To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] aparcstats2table error

External Email - Use Caution

I tried doing cortical parcellation using Destrieux atlas. I ran the aparcstats2table command from the SUBJECTS_DIR directory containing all of the output from recon-all.

But I got an error, PFA. Do I need to run any other commands before running aparcstats2table command, I would be grateful if anyone could help me to resolve this issue.

Many thanks in advance.

Regards

Devika K

Research Scholar, Dept of EEE

e: k_devika@cb.students.amrita.edu

Amrita Vishwa Vidyapeetham

Coimbatore, India