Hello FreeSurfers,
I am trying to run recon-all -s <subjID> -localGI on a longitudinal dataset but I get this error:
ERROR: Are you trying to run or re-run a longitudinal time point? If so, please specify the following parameters:
' -long <tpNid> <templateid> '
where <tpNid> is the time point id (SAME as cross sectional ID) and <templateid> is the ID created in the -base run. The directory <tpNid>.long.<templateid> will be created automatically or used for output, if it already exists.
Do I really need these if I want to run -localGI or for some reason recon-all thinks that I am trying to re-run the longitudinal pipeline? I renamed the folder replacing "long" (e.g. *OAS2_0001_MR1.new.OAS2_0001 instead of **OAS2_0001_MR1.long.OAS2_0001* ) and recon-all -localGI seems to work.
Is there a better way to do this?
Thanks! Mihaela