Thanks Bruce. I'll give that a try. But it seems strange to me that after
processing different subjects with autorecon1 that the transform info would
be missing from the header of some subjects but not others. Can you think
of any reason why this might happen?
Cheers,
Andy
On Sun, Jul 1, 2012 at 4:16 PM, Bruce Fischl <fis...@nmr.mgh.harvard.edu>wrote:
> 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
> >
> >
> >
>
>
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--
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
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