Can you get the data to us? You can follow these instructions

From the linux command line,
Create the file you want to upload, eg,
cd $SUBJECTS_DIR
tar cvfz subject.tar.gz ./subject
Now log  into our anonymous FTP site:
ftp surfer.nmr.mgh.harvard.edu
It will ask you for a user name: use "anonymous" (no quotes)
It will ask you for a password: use "anonymous" (no quotes)
cd transfer/incoming
binary
put subject.tar.gz
Send an email that the file has been and the name of the file.


On 6/24/2021 5:49 AM, Fredrik Magnussen wrote:

        External Email - Use Caution        

Dear FreeSurfer experts,

We have processed UKB data with FLAIR assisted pial segmentation using FS7.1.

The results differs quite a lot from using FLAIR assisted pial segmentation in FS6.0.

For details please see the reported issue on the freesurfer github page: MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://github.com/freesurfer/freesurfer/issues/849. Might be related to another issue reported here (though this is T2w assisted pial segmentation): MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://github.com/freesurfer/freesurfer/issues/747.

The FS pial segmentation for UKB data is prone to include dura if only T1w data is used, so assisting with FLAIR is quite detrimental.


Best regards,
Fredrik Magnussen


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