The problem is in the surf2surf step implemented inside vol2surf. You'll need to do it in two steps. First, vol2surf to the native surface, then surf2surf to fsaverage but specifying --mapmethod nnf
doug ythomas wrote: > Hi, > > I am trying to sample a volume of integers in subject's anatomical > space to fsaverage surf. However, the output does not seem to be > integer valued anymore even though I specify nearest neighbor for > interpolation type. > > I tried both stable4 and the dev version and used the following command: > > mri_vol2surf --regheader 090425_QF86JB_FS --mov /autofs/cluster/ > con_003/users/ythomas/test_mri_vol2surf/090425_QF86JB_FS/data/ > 090425_QF86JB_vol2vol.nii.gz --hemi lh --projfrac .5 --trgsubject > fsaverage --o /autofs/cluster/con_003/users/ythomas/test_mri_vol2surf/ > 090425_QF86JB_FS/data/lh.090425_QF86JB_vol2surf.nii.gz --reshape -- > interp nearest > > You can replicate the results, by going to > > /autofs/cluster/con_003/users/ythomas/test_mri_vol2surf/ > > and running "test_script.csh" > > Interestingly, if I replace "fsaverage" in the trgsubject with the > subject as the trgsubject (projection onto the same subject's > surface), the output remained integer valued. I am not sure how > mri_vol2surf works, but perhaps the step from the subject's surface to > the fsaverage's surface is messed up? > > Thanks, > Thomas > _______________________________________________ > 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.
