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