External Email - Use Caution Thanks.
My error is in tkmedit tkmeditfv subj orig.mgz -ov subj/mri/Yeo_17Net.mgz > Il 9 marzo 2019 alle 11.09 Thomas Yeo <ytho...@csail.mit.edu> ha scritto: > > > External Email - Use Caution > > > > Just to clarify, rh.Yeo2011_17Networks_N1000.annot looks fine, but > Yeo_17Net.mgz is empty? > > Your tkmedit command seems to assume Yeo_17Net.mgz is in > /Applications/freesurfer/subjects/subject_prova/. But shouldn't the output be > in the mri folder? > > > On Sat, Mar 9, 2019 at 5:47 PM < std...@virgilio.it > mailto:std...@virgilio.it > wrote: > > > > > > External Email - Use Caution > > > > > > > > I have run: > > > > mri_surf2surf --srcsubject fsaverage5 --trgsubject subj--hemi rh > > --sval-annot > > /Applications/freesurfer/1000subjects_reference/Yeo_JNeurophysiol11_SplitLabels/fsaverage5/label/rh.Yeo2011_17Networks_N1000.annot > > --tval $SUBJECTS_DIR/subj/label/rh.Yeo2011_17Networks_N1000 > > > > to check the output > > > > tksurfer subj rh inflated -annot > > $SUBJECTS_DIR/subj/label/rh.Yeo2011_17Networks_N1000.annot > > > > > > My concern is here: > > > > mri_aparc2aseg --s subj --o subj/mri/Yeo_17Net.mgz --annot > > Yeo2011_17Networks_N1000 --annot-table > > /Applications/freesurfer/1000subjects_reference/Yeo_JNeurophysiol11_SplitLabels/MNI152/17Networks_ColorLUT_freeview.txt > > --sval-annot > > yeoData_fsaverage5/rh.Yeo2011_17Networks_N1000.split_components.annot > > > > > > tkmeditfv fsaverage orig.mgz -ov > > /Applications/freesurfer/subjects/subject_prova/Yeo_17Net.mgz > > > > Yeo_17Net.mgz is empty. > > > > > > > > Stefano > > > > > > > > > > Il 7 marzo 2019 alle 23.57 "Greve, Douglas N.,Ph.D." > > > <dgr...@mgh.harvard.edu mailto:dgr...@mgh.harvard.edu > ha scritto: > > > > > > You have to convert the annotation to a volume using > > > mri_aparc2aseg > > > (look at recon-all.log for an example, but note that you'll > > > need to > > > specify the output so that it does not overwrite). You'll > > > then need to > > > look in the output segmentation and see what the segmentation > > > ids are > > > > > > On 3/7/19 4:13 PM, std...@virgilio.it > > > mailto:std...@virgilio.it wrote: > > > > > > > > > > > > > > > > > > External Email - Use Caution > > > > > > > > Hi list, > > > > > > > > I'd like to use the regions included in Yeo 17 networks > > > > > > > > (https://github.com/ThomasYeoLab/CBIG/tree/master/stable_projects/brain_parcellation/Yeo2011_fcMRI_clustering). > > > > > > > > in FS-FAST. > > > > > > > > Which is the command line to be used to create a > > > > segmentation in > > > > $SUBJECTS_DIR/$subject/mri in the same format as > > > > aseg.mgz? (I'd like > > > > to use it to run fcseed-config, specify -seg > > > > yourseg.mgz -segid). > > > > > > > > Thanks > > > > > > > > Stefano > > > > > > > > _______________________________________________ > > > > Freesurfer mailing list > > > > Freesurfer@nmr.mgh.harvard.edu > > > > mailto:Freesurfer@nmr.mgh.harvard.edu > > > > > > > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > > > > > > > > > _______________________________________________ > > > Freesurfer mailing list > > > Freesurfer@nmr.mgh.harvard.edu > > > mailto:Freesurfer@nmr.mgh.harvard.edu > > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
