Dear Doug,
Sorry to bother you with this. When I type “which fast_contrastmtx” after starting Octave from the command line, it simply clears to the next line – no output.
I also looked at the fast_contrastmtx.m file and noted that line 25 (as are the first 30 some lines) appear to be commented out by %, for documentation purposes. I did note, however, that the word fast_contrastmtx.m is listed on line 25.
Also, I ran the same command on a machine with Matlab and Octave. The Matlab command continues to run well, and after setting up the Octave paths, Octave continues to give me the same error.
Best,
Matthew
____________________________________________________________________________
Hi Matthew, I'm not sure what the issue could be. If you start octave
from the command line and type "which fast_contrastmtx" does it say it
is not found?
doug
____________________________________________________________________________
On 10/29/12 12:38 PM, Garlinghouse, Matthew wrote:
>
> Dear Surfers,
>
> I was running mkcontrast-sess with Matlab and having good success.
> Then wanted to try Octave for ease of use on a cluster I have access
> to, and after browsing the listserv set the following:
>
> export FS_USE_OCTAVE=1
>
> export FS_OCTAVE_LIB=/usr/lib64/octave
>
> export FS_OCTAVE_BIN=/usr/bin/octave
>
> However when I run mkcontrast-sess now (on the cluster and a VB ubuntu
> machine, both without Matlab), it runs through launching Octave and
> then errors out as noted below. I'm new to using Octave and wasn't
> sure what else I might need to set up for it to run properly? Any
> thoughts would be much appreciated.
>
> Best Regards,
>
> Matthew
>
> *brain@neurodebian:/usr/local/freesurfer/subjects$ mkcontrast-sess
> -analysis test.08.lh -contrast faces_gt_objects -a 2 -c 3*
>
> **
>
> *INFO: Found 3 Non-Null Conditions*
>
> *INFO: Found 1 Delays*
>
> *Condition Weights: 0 1.00000000000000000000 -1.00000000000000000000*
>
> *mkcontrast -anadir test.08.lh -wcond 0 1.00000000000000000000
> -1.00000000000000000000 -sumconds -o test.08.lh/faces_gt_objects.mat
> -wdelay 1 -octave*
>
> * $Id: mkcontrast,v 1.10 2010/07/16 16:20:10 greve Exp $*
>
> *cmtxfile test.08.lh/faces_gt_objects.mat*
>
> *nconds 3, wcond 0 1.00000000000000000000 -1.00000000000000000000*
>
> *ndelays 1, wdelay 1*
>
> *ndelays 1, wpsa *
>
> *sumconds 1*
>
> *sumdelays 0*
>
> *nircorr 0*
>
> *TER 0.050000*
>
> *rdelta *
>
> *rtau *
>
> *GNU Octave, version 3.2.4*
>
> *Copyright (C) 2009 John W. Eaton and others.*
>
> *This is free software; see the source code for copying conditions.*
>
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>
> *FITNESS FOR A PARTICULAR PURPOSE. For details, type `warranty'.*
>
> **
>
> *Octave was configured for "i486-pc-linux-gnu".*
>
> **
>
> *Additional information about Octave is available at
>
> **
>
> *Please contribute if you find this software useful.*
>
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>
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>
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>
> *For information about changes from previous versions, type `news'.*
>
> **
>
> *error: `fast_contrastmtx' undefined near line 25 column 21*