Also we're using ubuntu 12.04 LTS. ________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of hhal5293@uni.sydney.edu.au [hhal5293@uni.sydney.edu.au] Sent: Tuesday, 18 September 2012 10:54 AM To: Bruce Fischl Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] recon-all error

Hi Bruce,

I am running on Linux-centos4-stable-pub-v5.1.0 and using bash. Though I have tried using csh and tcsh, but the same error comes up.

Cheers, Harry ________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Bruce Fischl [fischl@nmr.mgh.harvard.edu] Sent: Monday, 17 September 2012 11:41 PM To: hhal5293@uni.sydney.edu.au Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] recon-all error

Hi Harry

what system and shell are you running on?

cheers Bruce On Mon, 17 Sep 2012, hhal5293@uni.sydney.edu.au wrote:

Hello,

I am relatively new to FreeSurfer, so this may be a silly question, but when i run any of the recon-all commands such as:

recon-all -autorecon-pial -subjid SMART001bT1

OR

recon-all -s SMART001bT1 -autorecon2 -autorecon3

OR

recon-all -s SMART001bT1

I keep getting this error:

if: Expression Syntax

Anyone know what may be causing this?

Kind Regards, Harry

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