Open a terminal and run matlab
On 07/01/2013 01:29 PM, O'Shea,Andrew wrote:
> I have matlab installed. I have the following lines in my
> ~/matlab/startup.m file
>
> %------------ FreeSurfer FAST ------------------------%
>
> fsfasthome = getenv('FSFAST_HOME');
>
> fsfasttoolbox = sprintf('%s/toolbox',fsfasthome);
>
> if (exist(fsfasttoolbox) == 7)
>
> path(path,fsfasttoolbox);
>
> end
>
> clear fsfasthome fsfasttoolbox;
>
> %-----------------------------------------------------%
>
>
> Is there a way check to see if the path is set correctly?
>
>
>
>
> Message: 9
> Date: Mon, 01 Jul 2013 09:46:39 -0400
> From: Douglas N Greve <gr...@nmr.mgh.harvard.edu
> <mailto:gr...@nmr.mgh.harvard.edu>>
> Subject: Re: [Freesurfer] Problem with FS-FAST, mkcontrast
> To: freesurfer@nmr.mgh.harvard.edu <mailto:freesurfer@nmr.mgh.harvard.edu>
> Message-ID: <51d1883f.5050...@nmr.mgh.harvard.edu
> <mailto:51d1883f.5050...@nmr.mgh.harvard.edu>>
> Content-Type: text/plain; charset=ISO-8859-1; format=flowed
>
> doyou have matlab installed and in your path?
> doug
>
>
> On 07/01/2013 08:55 AM, O'Shea,Andrew wrote:
>
> Hello,
> I am trying to work through the FS-FAST tutorial on my data. I am
> using OSX 10.6.8 with Freesurfer v. 5.1 When I get to the make
> contrast command which I run
> ' mkcontrast-sess -analysis test -contrast pain-v-rest -a 1 -c 0 '
>
> I get the following output error:
> " phhp-jcraggs-mb:Project aoshea$ mkcontrast-sess -analysis test
> -contrast pain-v-rest -a 1 -c 0
> INFO: Found 1 Non-Null Conditions
> INFO: Found 1 Delays
> Condition Weights: 1.00000000000000000000
> mkcontrast -anadir test -wcond 1.00000000000000000000 -sumconds -o
> test/pain-v-rest.mat -wdelay 1 -no-octave
> $Id: mkcontrast,v 1.10 2010/07/16 16:20:10 greve Exp $
> cmtxfile test/pain-v-rest.mat
> nconds 1, wcond 1.00000000000000000000
> ndelays 1, wdelay 1
> ndelays 1, wpsa
> sumconds 1
> sumdelays 0
> nircorr 0
> TER 0.050000
> rdelta
> rtau
> ERROR running mkcontrast
> mkcontrast -anadir test -wcond 1.00000000000000000000 -sumconds -o
> test/pain-v-rest.mat -wdelay 1 -no-octave
> Mon Jul 1 08:51:02 EDT 2013
> "
>
> It is not creating a .mat file in the analysis directory. Any
> suggestions would be greatly appreciated. Thanks!
> -Andrew
>
>
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>
> --
> Douglas N. Greve, Ph.D.
> MGH-NMR Center
> gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>
> Phone Number: 617-724-2358
> Fax: 617-726-7422
>
> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
> www.nmr.mgh.harvard.edu/facility/filedrop/index.html
> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
>
>
>
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--
Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
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