There is no obvious error in the recon-all file, but it does terminate just after creating a symbolic link. Are sym links possible in the CentOS virtual machine in windows?

On 5/4/2020 5:14 AM, Frank Chau wrote:

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Dear Freesurfer experts,

I ran recon-all on a batch of subjects on the Linux CentOS virtual machine base on Windows 10. I found all files which should be generated in the "*recon-all https://surfer.nmr.mgh.harvard.edu/fswiki/recon-all -autorecon3" are all missing in this batch of subjects. (*

*"*recon-all https://surfer.nmr.mgh.harvard.edu/fswiki/recon-all -autorecon3"*refer to the page of FreeSurfer Tutorial: Process Flow:*

*https://surfer.nmr.mgh.harvard.edu/fswiki/ReconAllTableStableV5.1). https://surfer.nmr.mgh.harvard.edu/fswiki/ReconAllTableStableV5.1

*However, this problem did not appear on the MAC platform*. I wonder that why this problem only appear on Linux platform*. I attached the recon-all.log of a subject which the "*recon-all https://surfer.nmr.mgh.harvard.edu/fswiki/recon-all -autorecon3" * files were missing. Could you kindly help me to speculate the cause of this problem. Thank you. *

Regards

Frank

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*FRANK  C Y CHAU*

Research assistant

Division of Neurology

Department of Medicine

Tel: +852 6340 2553

Fax: 2872 5828

E-mail : cyfrank@hku.hk mailto:cyfrank@hku.hk

Rm 304, 3/F, New Clinical building, Queen Mary Hospital, 102 Pokfulam Road, Hong Kong

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