New subject: error: 'fast_contrastmtx' undefined near line 25 column 21

30 Oct 2012


      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.*
...
...
*There is ABSOLUTELY NO WARRANTY; not even for MERCHANTABILITY or*
...
...
*FITNESS FOR A PARTICULAR PURPOSE.  For details, type `warranty'.*
...
...
**
...
...
*Octave was configured for "i486-pc-linux-gnu".*
...
...
**
...
...
*Additional information about Octave is available at
...
http://www.octave.org.*
...
...
**
...
...
*Please contribute if you find this software useful.*
...
...
*For more information, visit http://www.octave.org/help-wanted.html*
...
...
**
...
...
*Report bugs to <bug@octave.orgmailto:bug@octave.org> (but first, please read*
...
...
*http://www.octave.org/bugs.html to learn how to write a helpful report).*
...
...
**
...
...
*For information about changes from previous versions, type `news'.*
...
...
**
...
...
*error: `fast_contrastmtx' undefined near line 25 column 21*
________________________________
The Nebraska Medical Center E-mail Confidentiality Disclaimer
The information in this e-mail may be privileged and confidential, intended only for the use of the addressee(s) above. Any unauthorized use or disclosure of this information is prohibited. If you have received this e-mail by mistake, please delete it and immediately contact the sender.