It expects both polar and eccen. You can "fake" an eccentricity run by just copying one of the polar runs and calling it eccen
On 05/31/2016 07:35 AM, Steinmann, Iris wrote:
Dear freesurfers,
I try to run a retinotopy analysis following the instruction on
https://surfer.nmr.mgh.harvard.edu/fswiki/FsFastIndividualRetinotopyAnalysis
(using Ubuntu 14.4 and freesurfer 5.3)
My subject folder contains 4 runs (all 'positive polar'). After preprocessing I performed the following steps:
mkanalysis-sess -a retinotopy_polar_pos_rh -TR 2 -paradigm polar_pos.par -retinotopy 30 -surface self rh -per-run -fsd bold -fwhm 5 -nskip 4
selxavg3-sess -s EP_polar -a retinotopy_polar_pos_rh
The polar_pos.par file contains only the two following lines:
stimtype polar
direction pos
selxavg3-sess stops with the following error:
...
Saving X matrix to ~/PROJECTS/Retinotopy/subjects/EP_polar/bold/retinotopy_polar_pos_rh/Xtmp.mat
Error using svd
Input to SVD must not contain NaN or Inf.
Error in cond (line 35)
s = svd(A);Error in fast_selxavg3 (line 279)
XCond = cond(XtX);
ERROR: fast_selxavg3() failed\n
I found a lot of similar error reports in the mailing list, but unfortunately no explanation that fix my problem.
Is it maybe a problem when I only process 'polar positve' measurements?
I also attached the Xtmp.mat file that contains a lot of NaN.
Does someone has an idea what’s going wrong here?
Thanks in advance!
Iris
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