Hi, thank you. I am using Linux. I not sure where to change path, ie which
file this should be done in and where this file is located. This the error
message I recieve, and as I said It is launching the wrong matlab and I
don't know how change this.
Launching Matlab7p13
Warning: Unable to open display 'iconic'. You will not be able to display
graphics on the screen.
< M A T L A B (R) >
Copyright 1984-2011 The MathWorks, Inc.
R2011b (7.13.0.564) 32-bit (glnx86)
August 13, 2011
To get started, type one of these: helpwin, helpdesk, or demo.
For product information, visit www.mathworks.com.
>> reading filled volume...
closing volume...
Undefined function 'fspecial' for input arguments of type 'char'.
Error in make_outer_surface (line 31)
Gaussian = fspecial('gaussian',[2 2],1);
>>
ERROR: make_outer_surface did not create output file
'/x/x/x/x/2/x/x/x/surf/tmp-mris_compute_lgi-lh.pial/lh.pial-outer'!
Linux 2.6.32-358.2.1.el6.x86_64 #1 SMP Tue Mar 12 14:18:09 CDT 2013 x86_64
x86_64 x86_64 GNU/Linux
recon-all -s subj exited with ERRORS at Wed Oct 23 08:20:58 BST 2013
Thank you very much for your time and help,
Kind Regards,Linn
On Tue, Oct 22, 2013 at 10:50 PM, Marie Schaer <marie.sch...@unige.ch>wrote:
>
> Hi Linn,
>
> Sorry for the delay in answering. The path has to be set directly in
> your environment variable (the variable $PATH has to point to the correct
> version). I need a few more details about what you tried and which OS you
> are using to be able to help you.
>
> If you are using mac, here is an example on how you can set the path in
> the .shrc file:
> setenv PATH $PATH":/Applications/MATLAB_R2013b.app/bin"
>
> You can also have a look at the following posts:
> http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg07283.html
> http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg25017.html
> http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg26909.html
> http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg27290.html
>
> Let me know how it goes,
>
> Marie
>
>
> On Oct 22, 2013, at 2:41 AM, Linn Mittlestein <linnmit...@gmail.com>
> wrote:
>
> Hi,
>
> I am trying to compute lgi measures, and I think my problem lies in the
> fact that the matlab path is not set correctly; it is calling an older
> version of matlab however I need it to point to matlab2013b. I have tried
> numerous things like changing the startup.m file, the .bashrc file and
> exporting the matlab path, however It keeps calling another version of
> Matlab. Can someone please tell me how exactly the path is set and where?
>
> Best Wishes and thank you,
>
> Linn
>
> ---------- Forwarded message ----------
> From: Linn Mittlestein <linnmit...@gmail.com>
> Date: Mon, Oct 21, 2013 at 9:33 AM
> Subject: Fwd: LGI path problem
> To: freesurfer@nmr.mgh.harvard.edu
>
>
>
> From: Linn Mittlestein <linnmit...@gmail.com>Date: Fri, Oct 18, 2013 at
> 1:30 PM
> Subject: LGI path problem
> To: freesurfer@nmr.mgh.harvard.edu
>
>
>
> Hi,
>
> I am trying to compute lgi measures, and I think my problem lies in the
> fact that the matlab path is not set correctly; it is calling an older
> version of matlab however I need it to point to matlab2013b. I have tried
> numerous things like changing the startup.m file, the .bashrc file and
> exporting the matlab path, however It keeps calling another version of
> Matlab. Can someone please tell me how exactly the path is set and where?
>
> Best Wishes and thank you,
>
> Linn
>
>
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