Re: [Freesurfer] error with fast_selxavg3

There are a bunch of columns in the design matrix that are 0, meaning that it expects some kind of stimulus to be there but it was not in the parfile. Do you only have eccen for this or do you also have polar? doug

On 11/08/2014 11:25 AM, Francesca Strappini wrote:

Hi, I attached the file, thank you!

Best Francesca

2014-11-06 18:58 GMT+02:00 Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu>:

Can you send me
/usr/local/freesurfer/fsfast/MeytalRetinotopySmoothed/SUBJ09/bold/rtopy.HS.rh/Xtmp.mat

On 11/06/2014 09:53 AM, Francesca Strappini wrote:
> Dear all,
>
> I'm trying to run a retinotopy analysis in several subjects but it
> crashed with an error in one subject. I ran this command line:
>
> selxavg3-sess -a rtopy.HS.rh -s SUBJ09
>
>
> and this is the last part of the output with the error message.
> Any help would be much appreciated.
>
> Best
> Francesca
>
>
>                             < M A T L A B (R) >
>                   Copyright 1984-2013 The MathWorks, Inc.
>                     R2013b (8.2.0.701) 64-bit (glnxa64)
>                               August 13, 2013
>
>  ----------------------------------------------------
>     Your MATLAB license will expire in 56 days.
>     Please contact your system administrator or
>     MathWorks to renew this license.
>  ----------------------------------------------------
>
> To get started, type one of these: helpwin, helpdesk, or demo.
> For product information, visit www.mathworks.com
<http://www.mathworks.com>
> <http://www.mathworks.com>.
>
> >> >> >> >> >> >> >>
> sxa3pwd =
>
> /usr/local/freesurfer/fsfast/MeytalRetinotopySmoothed
>
> >>
> sxa3cmd =
>
> /usr/local/freesurfer/fsfast/bin/selxavg3-sess -a rtopy.HS.rh -s
SUBJ09
>
> >> /usr/local/freesurfer/fsfast/toolbox/fast_selxavg3.m
> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >> >>
>
> #@# SUBJ09 ###############################
> /usr/local/freesurfer/fsfast/MeytalRetinotopySmoothed/SUBJ09
> -------------------------
> $Id: fast_selxavg3.m,v 1.100.2.2 2012/11/30 18:40:38 greve Exp $
> /usr/local/freesurfer/fsfast/toolbox/fast_selxavg3.m
> /usr/local/freesurfer/fsfast/toolbox/fast_ldanaflac.m
> /usr/local/freesurfer/matlab/MRIread.m
> -------------------------
> outtop = /usr/local/freesurfer/fsfast/MeytalRetinotopySmoothed
> Extension format = nii.gz
> nruns = 4
> autostimdur =
>
>
> outanadir =
>
/usr/local/freesurfer/fsfast/MeytalRetinotopySmoothed/SUBJ09/bold/rtopy.HS.rh
> Found 110059/126364 (87.1) voxels in mask
> Creating Design Matrix
>  ... creation time =  0.005 sec
> DoMCFit = 1
> ntptot = 960, nX = 36, DOF = 924
> Saving X matrix to
>
/usr/local/freesurfer/fsfast/MeytalRetinotopySmoothed/SUBJ09/bold/rtopy.HS.rh/Xtmp.mat
> Error using svd
> Input to SVD must not contain NaN or Inf.
>
> Error in cond (line 36)
>     s = svd(A);
>
> Error in fast_selxavg3 (line 279)
>   XCond = cond(XtX);
>
>
> --
> Francesca Strappini, Ph.D.
> Neurobiology Department
> Weizmann Institute of Science
> 234 Herzl Street, Rehovot 7610001 Israel
> Tel.: +972 58 444 2584
> E-mail: francesca.strappini@weizmann.ac.il
<mailto:francesca.strappini@weizmann.ac.il>
> <mailto:francesca.strappini@weizmann.ac.il
<mailto:francesca.strappini@weizmann.ac.il>>
>
>
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--
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>
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-- Francesca Strappini, Ph.D. Neurobiology Department Weizmann Institute of Science 234 Herzl Street, Rehovot 7610001 Israel Tel.: +972 58 444 2584 E-mail: francesca.strappini@weizmann.ac.il mailto:francesca.strappini@weizmann.ac.il

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