Dear Free Surfer experts
I am attempting to run a functional connectivity analysis on some resting state data. However, I keep getting stuck in this final step of the online Functional Connectivity Pathway. I have made a change based on discussion boards, but it do not help. CHANGE: in the mkanalysis step, I changed the "-taskreg L_Posteriorcingulate.dat 1" to "-taskreg L_Posteriorcingulate 1². This did not solve the problem. My mkanalysis lines are as follows:
mkanalysis-sess -analysis fc.lpccseed.surf.lh -surface fsaverage lh -fwhm 5 -notask -taskreg L_Posteriorcingulate 1 -nuisreg vcsf.dat 5 -nuisreg wm.dat 5 -mcextreg -polyfit 5 -nskip 4 -fsd rest -TR TR2 -hpf .01 -force -per-run
mkanalysis-sess -analysis fc.lpccseed.surf.rh -surface fsaverage rh -fwhm 5 -notask -taskreg L_Posteriorcingulate 1 -nuisreg vcsf.dat 5 -nuisreg wm.dat 5 -mcextreg -polyfit 5 -nskip 4 -fsd rest -TR TR2 -hpf .01 -force -per-run
mkanalysis-sess -analysis fc.lpccseed.surf.mni305 -mni305 -fwhm 5 -notask -taskreg L_Posteriorcingulate 1 -nuisreg vcsf.dat 5 -nuisreg wm.dat 5 -mcextreg -polyfit 5 -nskip 4 -fsd rest -TR TR2 -hpf .01 -force -per-run
I then run the following:
selxavg3-sess -s 401 -a fc.lpccseed.surf.lh -overwrite
and the error that is produced is as follows: (what does "cannot find volume ² mean? and how might I fix this)
/Applications/freesurfer/LagStructure/413 ------------------------- $Id: fast_selxavg3.m,v 1.100.2.2 2012/11/30 18:40:38 greve Exp $ /Applications/freesurfer/fsfast/toolbox/fast_selxavg3.m /Applications/freesurfer/fsfast/toolbox/fast_ldanaflac.m /Applications/freesurfer/matlab/MRIread.m ------------------------- outtop = /Applications/freesurfer/LagStructure Extension format = nii.gz ERROR: cannot find volume matching /Applications/freesurfer/LagStructure/413/rest/001/L_Posteriorcingulate ERROR: loading nonpar reg /Applications/freesurfer/LagStructure/413/rest/001/L_Posteriorcingulate ------------------------------------------ ERROR: fast_selxavg3() failed\n