Hi Andrew
try running:
mri_add_xform_to_header -c \ $SUBJECTS_DIR/$subject/mri/transforms/talairach.xfm \ $SUBJECTS_DIR/$subject/mri/orig.mgz \ $SUBJECTS_DIR/$subject/mri/orig.mgz
or whatever volume (instead of orig.mgz) you were viewing in tkmedit. This gets done automatically during the recon-all process, but possibly you skipped that step.
cheers Bruce
On Sun, 1 Jul 2012, Andrew R. Dykstra wrote:
Dear Freesurfers, I am experiencing a strange issue when processing some, but not all, subjects with the recommended recon stream. After autorecon1, which includes Talairach registration step, I cannot see Talairach coordinates in the tkmedit interface ('none' appears in the text box where the coordinates usually are - attached screenshot). This is despite the registration step supposedly succeeding (I can view and adjust the reg with tkregister2). I think this may be causing further problems when trying to compute the forward solution in MNE (I get messages there about not being able to read the coordinate transformation). Has anyone experienced an issue like this?
Cheers, Andy
-- Andrew R. Dykstra, PhD Auditory Cognition Lab Neurologie und Poliklinik Universitätsklinikum Heidelberg Im Neuenheimer Feld 400 69120 Heidelberg
"How small the cosmos. How paltry and puny compared to human consciousness . . . to a single individual recollection." - Vladimir Nabokov