The mask used to compute the global mean does not have any voxels in it because the field of view is so small. Try running mkbrainmask-sess -s session -nero 1 -fsd bold Then run selxavg again. The above mkbrainmask command tells it to only erode the mask by one voxel (the default in preproc-sess is 3 which is removing all of them).
doug Meryem Ayse Yucel wrote: > Hi, > > Now it seems to be working with the par file but I am getting this error. > Any help will be appreciated. Thanks, > > Meryem > > > Computing compensation for resdual AR1 bias > 1 -0.5 -0.473129 (t=0.192235) > 2 -0.25 -0.238292 (t=1.09283) > 3 0 -0.00411884 (t=1.27811) > 4 0.25 0.228971 (t=2.16243) > 5 0.5 0.459511 (t=2.33787) > AR1 Correction M: 0.00580007 1.07178 > Computing contrast matrices > OLS Beta Pass > run 1 t= 0.0 > Global Mean Global In-Mask Mean = ??? Error using ==> mrdivide > Matrix dimensions must agree. > > Error in ==> fast_selxavg3 at 399 > RescaleFactor = flac0.inorm/gmean; > > > > > >> Hi, >> >> >> I am trying to use selxavg3-sess function and getting this error. Below is >> the error I get. I actually have this fingertap.par file but freesurfer >> somehow does not see it. Any help would be >> appreciated. >> >> Thanks! >> >> Meryem Yucel >> PMI Lab >> >> >> >> Extension format = nii.gz >> ERROR: opening >> /autofs/space/moe_002/users/mayucel/PROJECT/Subject20/bold/001/fingertap >> No such file or directory >> ??? Output argument "partype" (and maybe others) not assigned during call >> to "/usr/local/freesurfer/stable5_1_0/fsfast/toolbox/fast_ldpar4.m >> (fast_ldpar4)". >> >> Error in ==> fast_ldpar4 at 45 >> par4 = []; >> >> Error in ==> flac_customize at 121 >> [par partype] = fast_ldpar4(parpath); >> >> Error in ==> fast_selxavg3 at 65 >> flac0 = flac_customize(flac0); >> >> >> > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
