yes, I have the /Applications/freesurfer/lib/gcc directory.(actually, ‘had’ as I reinstalled 5.3) I installed 6.0 on top of 5.3 without uninstalling 5.3 first, so it was not a clean install. I will try a clean re-install with the tar file with the steps you suggest. Thanks.
Date: Sun, 5 Mar 2017 22:22:01 -0500 (EST)
From: zkaufman@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] mri_vol2surf error in FS6
To: "Freesurfer support list" <freesurfer@nmr.mgh.harvard.edu >
Cc: freesurfer@nmr.mgh.harvard.edu
Message-ID:
<62233.174.63.82.222.1488770521.squirrel@mail.nmr. >mgh.harvard.edu
Content-Type: text/plain;charset=iso-8859-1
Hello Fred,
Do you have the /Applications/freesurfer/lib/gcc directory? Also, out of > replicate by just entering ???mri_vol2surf??? on the command line:
curiosity, did freesurfer 5.3 exist on your system before installed 6.0?
That error shouldnt happen if FS6 is cleanly installed and definitely
shouldnt happen of SIPS is disabled.
I suppose as a last resort could you just completely remove FS from your
machine and just install it directly from the tar file (save the
license.txt file):
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0/ freesurfer-Darwin-OSX-stable- pub-v6.0.0.tar.gz
$> cp /Applications/freesurfer/license.txt ~
$> sudo rm -rf /Applications/freesurfer
$> sudo tar -C /Applications -xzvf
freesurfer-Darwin-OSX-stable-pub-v6.0.0.tar.gz
$> sudo mv ~/license.txt /Applications/freesurfer/
> Dear FreeSurfer Experts,
> I just installed FS6 and encountered the following error, which I can
>
> /Users/fred 3> mri_vol2surf
> dyld: lazy symbol binding failed: Symbol not found: ___emutls_get_address
> Referenced from:
> /Applications/freesurfer/bin/../lib/gcc/lib/libgomp.1.dylib
> Expected in: /usr/lib/libSystem.B.dylib
>
> dyld: Symbol not found: ___emutls_get_address
> Referenced from:
> /Applications/freesurfer/bin/../lib/gcc/lib/libgomp.1.dylib
> Expected in: /usr/lib/libSystem.B.dylib
>
> I am running Mac OS X El Capital 10.11.6, after searching the archives I
> also tried turning off SIP, which did not help. Any other advice?
>
> Thanks,
> Fred
>
>
> Fred Lado, MD PhD
> Director, Epilepsy - Central and Eastern Regions
> Northwell Health
> 917-608-1881 (mobile)
> 516-325-7000 (practice)
> 516-325-7001 (fax)
> flado@northwell.edu
>
>
>
>
>
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