thanks Zeke,

I have created the symbolic link.  


ln -s /Users/wieser/Dropbox\ \(UWM\ BraIN\ Lab\)/ImagingSuite/Blackbird/MJMRI   
 DROPBOX_MJMRI



I question is , when I cd into the symbolic link directory "DROPBOX_MJMRI"  
(which contains all to my subjects),   and use qdec and recon-all to create new 
files and subdirectories in the linked directory,  will those new files and 
directories be present in the original directory   "/Users/wieser/Dropbox\ 
\(UWM\ BraIN\ Lab\)/ImagingSuite/Blackbird/MJMRI".        the actual file, not 
just symbloic links.  because dropbox is backing up the directory and dropbox 
does not like symbolic links

thanks!


________________________________________
From: freesurfer-boun...@nmr.mgh.harvard.edu 
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Z K 
<zkauf...@nmr.mgh.harvard.edu>
Sent: Friday, November 14, 2014 2:13 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] qdec and recon-all crashes

The trick in the situation is to create a symbolic link. For example:

$> cd /Users/wieser/
$> ln -s /Users/wieser/Dropbox\ (UWM\ BraIN\
Lab)/ImagingSuite/Blackbird/MJMRI/MJ0001 MJ0001
$> recon-all -s  MJ0001  -qcache


-Zeke


On 11/14/2014 02:53 PM, Jon Alan Wieser wrote:
> hi freesurfer folks,
>
>
>   when I try to run qdec or recon-all, they crash
>
>
>
> recon-all -s  MJ0001  -qcache
>
> if: Expression Syntax.
>
>
>
>
> qdec
> cd: Too many arguments.
>
>
>
> we have determined that because the subjects_directory  name has spaces
> and ()'s in it, it is causing the two programs to crash
>
>   echo $SUBJECTS_DIR
> /Users/wieser/Dropbox (UWM BraIN Lab)/ImagingSuite/Blackbird/MJMRI/MJ0001
>
>
> I know that linux doesn't like spaces and ()'s in the directory  name,
> and I usually avoid them,  but we have recently started using dropbox to
> backup our data, in Dropbox is causing the spaces and ()'s to be in the
> directory name.  Is there any way to make recon-all and qdec run in
> directories that have these characters in the directory name
>
> thanks
>
> Jon
>
>
>
>
> _______________________________________________
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> Freesurfer@nmr.mgh.harvard.edu
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>
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