Hi Julia,

The -tp flags for the base creation require a subject ID as input, but you supplied a nifty file. That’s why it can’t find any subject files. See https://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalProcessing.

Best,

Andrew

From: <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Julia Lam <julia.lam@mau.se>
Reply-To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Date: Monday, October 26, 2020 at 7:29 PM
To: FS Help <freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] Exited with errors, segmentation fault

        External Email - Use Caution        

Hi,
Thank you for your email. Sorry about that. Here they are.
Best regards,
Julia

> 27 okt. 2020 kl. 00:17 skrev Hoopes, Andrew <AHOOPES@MGH.HARVARD.EDU>:
>
> Hi Julia,
> I think you might have forgotten to attach the logs :)
> Andrew
>
> On 10/25/20, 11:55 AM, "freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Julia Lam" <freesurfer-bounces@nmr.mgh.harvard.edu on behalf of julia.lam@mau.se> wrote:
>
>            External Email - Use Caution       
>
>    Hi Andrew,
>    Thank you for your reply. Updating freesurfer solved the problem. However, when I ran step 2 in the longitudinal processing three subjects exited with errors. I’ve attached the recon-all.log and recon-all.error. What can I do to solve this problem?
>
>    Thank you in advance.
>
>    Kind regards,
>    Julia Lam
>
>> 20 okt. 2020 kl. 00:17 skrev Hoopes, Andrew <AHOOPES@MGH.HARVARD.EDU>:
>>
>> Hi Julia,
>>
>> This is a small bug that's been fixed in the 7.1.1 patch release. I would recommend updating freesurfer versions (there will be no differences in recon-all results).
>>
>> Best,
>> Andrew
>>
>> On 10/13/20, 8:44 AM, "freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Julia Lam" <freesurfer-bounces@nmr.mgh.harvard.edu on behalf of julia.lam@mau.se> wrote:
>>
>>           External Email - Use Caution       
>>
>>   Hi,
>>   In one of 56 volumes, recon-all exited with errors (segmentation fault). I tried to rerun but received the same result. How can this be solved?
>>
>>   I’ve attached the recon-all.log and recon-all.error.      
>>
>>   I am looking forward to your reply.
>>
>>   Kind regards,
>>   Julia Lam
>>
>>
>>
>>
>>
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