Thanks Brian, Does that mean csurf interface is useless for "creating surfaces" to implement the editting of major topological defects?
Nam.
"Brian T. Quinn" btquinn@nmr.mgh.harvard.edu 01/14/05 3:22 PM >>>
hi Nam-
please refrain from using the csurf interface to create surfaces. instead, run through the command line: recon-all -stage2 -subjid <subject_name>
this will create a log file($SUBJECTS_DIR/subject_name/scripts/recon-all.log)
include this with your email so we can better assist you with your difficulties.
thanks, brian
On Fri, 14 Jan 2005, Joongnam Yang wrote:
Hi,
I did manual editting for lateral ventricles, fornix, basal ganglia, optic nerve, as illustrated in the cortical reconstruction tutorial, for both left and right hemispheres, and DID save them in the "wm" volume. Then I ran "create surface", but nothing is changed.
What could have been wrong?
Comments are appreciated. Nam. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
It isn't useless but being a GUI it is less stable, and the command line outputs a recon-all.log, at least the tail line of which you should include with any enquiries to the freesurfer list, otherwise it is sometimes difficult to say what caused an undesirable freesurfer result.
On Fri, 14 Jan 2005, Joongnam Yang wrote:
Thanks Brian, Does that mean csurf interface is useless for "creating surfaces" to implement the editting of major topological defects?
Nam.
"Brian T. Quinn" btquinn@nmr.mgh.harvard.edu 01/14/05 3:22 PM >>>
hi Nam-
please refrain from using the csurf interface to create surfaces. instead, run through the command line: recon-all -stage2 -subjid <subject_name>
this will create a log file($SUBJECTS_DIR/subject_name/scripts/recon-all.log)
include this with your email so we can better assist you with your difficulties.
thanks, brian
On Fri, 14 Jan 2005, Joongnam Yang wrote:
Hi,
I did manual editting for lateral ventricles, fornix, basal ganglia, optic nerve, as illustrated in the cortical reconstruction tutorial, for both left and right hemispheres, and DID save them in the "wm" volume. Then I ran "create surface", but nothing is changed.
What could have been wrong?
Comments are appreciated. Nam. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
use csurf only to make edits to the wm volume. then exit. and use the command line as i described to "create surfaces".
that does not mean csurf is useless, but since you have many questions, this is the way i recommend you process your data until you are self-sufficient.
thanks, brian
On Fri, 14 Jan 2005, Joongnam Yang wrote:
Thanks Brian, Does that mean csurf interface is useless for "creating surfaces" to implement the editting of major topological defects?
Nam.
"Brian T. Quinn" btquinn@nmr.mgh.harvard.edu 01/14/05 3:22 PM >>>
hi Nam-
please refrain from using the csurf interface to create surfaces. instead, run through the command line: recon-all -stage2 -subjid <subject_name>
this will create a log file($SUBJECTS_DIR/subject_name/scripts/recon-all.log)
include this with your email so we can better assist you with your difficulties.
thanks, brian
On Fri, 14 Jan 2005, Joongnam Yang wrote:
Hi,
I did manual editting for lateral ventricles, fornix, basal ganglia, optic nerve, as illustrated in the cortical reconstruction tutorial, for both left and right hemispheres, and DID save them in the "wm" volume. Then I ran "create surface", but nothing is changed.
What could have been wrong?
Comments are appreciated. Nam. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- brian t. quinn
freesurfer@nmr.mgh.harvard.edu
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Brian T. Quinn -
Evelina Busa -
Joongnam Yang