External Email - Use Caution

Thank you so much for your quick response and your solution.

I greatly appreciate it,

Alba

On Tue, Aug 11, 2020 at 5:44 PM Douglas N. Greve dgreve@mgh.harvard.edu wrote:

You have to call recon-all for each time point, eg,

recon-all -long 01_t0 01_t0t1template -all

recon-all -long 01_t1 01_t0t1template -all

On 8/11/2020 11:40 AM, Albulena Shaqiri wrote:

    External Email - Use Caution

Dear all,

I am very new to freesurfer so I might be asking an obvious question and I am sorry about that. I tried to find this in the archives but did not find a solution.

I am have done the following steps successfully for images at t0 and t1 while doing the longitudinal processing but I am stuck at the 3rd step:

*First step: *

recon-all -subject 01_t0 -i /subjectfiles/t0/sanlm_13.nii -all -qcache -notal-check

recon-all -subject 01_t1 -i /subjectfiles/t1/sanlm_13.nii -all -qcache -notal-check

*Second step**: *

recon-all -base 01_t0t1template -tp 01_t0 -tp 01_t1 -all

*Third step (Where I have an error): *

recon-all -long 01_t0 01_t1 01_t0t1template -all

ERROR: Flag 01_t0t1template unrecognized.

-long 01_t0 01_t1 01_t0t1template -all

Linux heds-s008 4.15.0-47-generic #50-Ubuntu SMP Wed Mar 13 10:44:52 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux

Thanks in advance,

Alba

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