Have you looked at the help? Run with --help and look at example 4 doug On 4/4/19 9:56 PM, Larson, Kathleen E wrote: > > External Email - Use Caution > > Hello FreeSurfer developers, > > I'm having trouble running the command mri_surf2surf, and I haven't > been able to find a fix in the message archives (a similar question > has been asked, but I couldn't find the answer). I am trying to > convert the pial and white matter surfaces for a series of subjects > back to the anatomical space. I have computed the registration matrix > to transform the surfaces, but am having trouble with the > mri_surf2surf syntax. This is the command I am trying to run: > > mri_surf2surf --hemi lh --sval-xyz pial --reg register.native.dat > rawavg.mgz --tval lh.pial.native --tval-xyz --s <subjectID> > > and I get an error saying that --tval-xyz requires an input volume. > (The syntax described on the website > (https://surfer.nmr.mgh.harvard.edu/fswiki/FsAnat-to-NativeAnat) is > out of date.) I have tried to use rawavg.mgz as the input volume, but > then I get an output that can only be read as a scalar overlay, and I > need an actual surface. When I try to use a surface as the input, I > get an error saying that the file type cannot identified. > > Do you have any suggestions for what I am doing wrong? > > Thank you, > > Kathleen Larson > Department of Biomedical Engineering > Vanderbilt University > 304 Featheringill-Jacobs Hall > (425)-894-2005 > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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