Hi Rene,
Can you send your recon-all.log? It is in the ‘scripts’ directory.
‘lh.pial’ should be created as a link to ‘lh.pial.T1’ if you are not processing
T2/FLAIR. If you go ‘surf’ directory, do ‘ls -l lh.pial*’, what does it shows?
Best,
Yujing
From: Renew Andrade <andradere...@yahoo.com>
Sent: Tuesday, December 20, 2022 1:23 AM
To: Huang, Yujing <yhuan...@mgh.harvard.edu>; freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] lh.pial lh.pialT1n same file?
External Email - Use Caution
Dear Yujing:
I wasn’t aware that there was an answer to my email that’s the reason it took
me a while to write back. But I answer here.
Yes I mean lh.pial.T1. I don’t have any other lh.pial. The recon-all command is
properly correct like recon-all -all -i -s -openmp 8. Yes the freesurfer
version is 7.1.1.
Best,
Rene Andrade.
Hi Rene,
Do you mean lh.pial.T1? Do you have any other lh.pial* files in the directory?
What is your recon-all command line? And can you also provide the Freesurfer
version you are running?
Best,
Yujing
-----Original Message-----
From:
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
<freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
On Behalf Of Renew Andrade
Sent: Tuesday, December 13, 2022 7:24 AM
To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] lh.pial lh.pialT1n same file?
External Email - Use Caution
Dear experts:
I am wondering if lh.pial and lh.pialT1 are the same files. I don’t have
lh.pial is that an error from recon-all? Should I rerun recon-all. Or just
autorecon-pial? Would that change anything?
Best,
Rene Andrade.
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