Ae you trying to put a diffusion scan through recon-all? That won't work, it needs to be T1 weighted Bruce
On Apr 3, 2013, at 10:23 PM, "Cherise R. Chin Fatt" <cherise.chinf...@utdallas.edu> wrote: > Hello: > > I have been trying to use FreeSurfer on an aging population and running into > difficulties with Talairach Registration. I am able to run the demonstrate > date, but when I run my own data I am getting some very weird results. I have > attached screenshots of the different planes for one subject. I have tried > this with 5 subjects and getting the same kind of results. > > In terms of scripting: I tried to run autorecon1 first and it failed with > this error: ERROR: input(s) cannot have multiple frames! > > I changed the script and did the following (running one line at a time): > > setenv SUBJECTS_DIR test/DTI > recon-all -i DTI/00001.dcm -subjid again > > cd $SUBJECTS_DIR/again/mri/orig > mv 001.mgz multiframe.mgz > mri_convert -nth 0 multiframe.mgz 001.mgz > > recon-all -motioncor -subjid again > recon-all -talairach -subjid again > recon-all -nuintensitycor -subjid again > recon-all -normalization -subjid again > recon-all -skullstrip -subjid again > % checking registration > tkregister2 --mgz --s again --fstal > > If anyone can provide some insight in terms of what I am doing wrong or how > to fix the registration would be greatly appreciated. > > Thank you, > Cherise. > -- > Cherise R. Chin Fatt; MSc > Doctoral Student in Cognition and Neuroscience > School of Behavioral and Brain Sciences > The University of Texas at Dallas > <Screen Shot 2013-04-03 at 8.39.26 PM.png> > <Screen Shot 2013-04-03 at 8.39.40 PM.png> > <Screen Shot 2013-04-03 at 8.39.54 PM.png> > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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