You don't need the -legacy flag. Just make a copy of your v6 data and then run recon-all -all -s subject
It will see and apply your previous edits.


On 9/22/2021 2:14 AM, Amanda Boyes wrote:

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Hi FreeSurfer experts,

 

Just checking whether anyone has any advice on my query below?

 

I would greatly appreciate any advice regarding how to incorporate masks/pial edited in v6 into the v7 pipeline.

 

Thanks and best wishes,

Amanda

 

From: Amanda Boyes
Sent: Thursday, 16 September 2021 4:37 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Migrating data from v6 to v7

 

Hi fellow FreeSurfer users,

 

I am part of a longitudinal project and have a large dataset that has been processed in v6.

 

I have now upgraded to v7 and would like to update my processed data, retaining the existing manual masks and pial edits.

 

I found an old ReconAllChanges page (January 27, 2006, last updated 2012) referring to this as a “legacy data set” MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://freesurfer.net/fswiki/ReconAllChanges

 

I have also found a recon-all wiki page (MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://surfer.nmr.mgh.harvard.edu/fswiki/recon-all last updated 2017) suggesting the use of the following command for legacy datasets: recon-all -subject subjectname -all -legacy

 

Unfortunately, the -legacy flag is not recognised in v7.

 

I would be grateful for any advice on how to update my existing data from v6.0.0 to v7.2.

 

Thank you in advance,

Amanda

 

Amanda Boyes

My pronouns are she/her/hers

PhD Candidate and Research Assistant (Youth Mental Health)
Thompson Institute

USC


Tel: +61 7 5456 3886

amanda.boyes@usc.edu.au  |  usc.edu.au

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