I think it might have to do with the format of your output file - perhaps try .mgz? This is what I used.
Then open the surface and use the "overlay" option to overlay your ROI as a surface overlay. Trisanna -- Ph.D. Candidate McGill University Integrated Program in Neuroscience Psychology On Mon, Oct 3, 2016 at 3:14 PM, Joel Bruss <bru...@healthcare.uiowa.edu> wrote: > Doug- > > I'm really sorry to keep pestering you about this but I just can't seem > to get this to work. See my replies below: > > > On 09/30/2016 02:00 PM, Douglas N Greve wrote: > > First, bring up the ROI on the volume along with the surface in the > > volume. You can do this with FreeView. Make sure that the ROI intersects > > the surface. > Yes, this looks fine > > Then run mri_vol2surf so sample the binary ROI volume onto > > the surface. > This is what I ran: > mri_vol2surf --src $SUBJECTS_DIR/subA/tmpdir/roi.mgz \ > --out $SUBJECTS_DIR/subA/tmpdir/rh.roiS.mgh \ > --regheader subA --hemi rh --surf pial > > You can view the ROI on the surface by loading it as an > > overlay. > This is a volume or a surface now? Is it just a volume resampled to the > surface space? I can't get it to load in freeview as a surface (it just > crashes), and it doesn't look like anything as an overlay. > > Then run mri_cor2label using the surface-sampled ROI as input > > and specifying --surf (see the --help) to make this a surface-based > > label. You can also view this label in the surface in freeview. Finally, > > run mri_label2label using the --regmethod surface > > > > ________________________________ > Notice: This UI Health Care e-mail (including attachments) is covered by > the Electronic Communications Privacy Act, 18 U.S.C. 2510-2521 and is > intended only for the use of the individual or entity to which it is > addressed, and may contain information that is privileged, confidential, > and exempt from disclosure under applicable law. If you are not the > intended recipient, any dissemination, distribution or copying of this > communication is strictly prohibited. If you have received this > communication in error, please notify the sender immediately and delete or > destroy all copies of the original message and attachments thereto. Email > sent to or from UI Health Care may be retained as required by law or > regulation. Thank you. > ________________________________ > > _______________________________________________ > 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. > >
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