Hi
I have completed autorecon1 and autorecon2 successfully. When I try to overlay lh.curv on lh.sphere in tksurfer, it gives the following output/error. Any suggestions anybody?
tksurfer bert lh sphere surfer: current subjects dir: /usr/local/freesurfer/subjects surfer: not in "scripts" dir ==> using cwd for session root surfer: session root data dir ($session) set to: surfer: /usr/local/freesurfer surfer: Reading header info from /usr/local/freesurfer/subjects/bert/mri/T1.mgz surfer: vertices=131870, faces=263736 mrisReadTriangleFile(/usr/local/freesurfer/subjects/bert/surf/lh.orig): surface doesn't match /usr/local/freesurfer/subjects/bert/surf/lh.sphere
mrisReadTriangleFile failed.
MRISreadOriginalProperties: could not read surface file /usr/local/freesurfer/subjects/bert/surf/lh.orig Loading /usr/local/freesurfer/surface_labels.txt surfer: ### redraw failed: no gl window open surfer: single buffered window surfer: tkoInitWindow(bert) surfer: using interface /usr/local/freesurfer/lib/tcl/tksurfer.tcl Reading /usr/local/freesurfer/lib/tcl/tkm_common.tcl Reading /usr/local/freesurfer/lib/tcl/tkm_wrappers.tcl Reading /usr/local/freesurfer/lib/tcl/fsgdfPlot.tcl Reading /usr/local/freesurfer/lib/tcl/tkUtils.tcl Successfully parsed tksurfer.tcl reading white matter vertex locations... mrisReadTriangleFile(/usr/local/freesurfer/subjects/bert/surf/lh.white): surface doesn't match /usr/local/freesurfer/subjects/bert/surf/lh.sphere
mrisReadTriangleFile failed.
% ERROR: number of vertices in /usr/local/freesurfer/subjects/bert/surf/lh.curv does not match surface (146926,131870)surfer: error reading curvature file
Thanks
Barnali,
This will happen if the stage which created the orig surface was run after the sphere generation. Run:
recon-all -s subjid -make all
and it will rebuild all files where the dependency chain is wrong.
Nick
On Tue, 2009-02-24 at 16:54 -0800, Barnali Basu wrote:
Hi
I have completed autorecon1 and autorecon2 successfully. When I try to overlay lh.curv on lh.sphere in tksurfer, it gives the following output/error. Any suggestions anybody?
tksurfer bert lh sphere surfer: current subjects dir: /usr/local/freesurfer/subjects surfer: not in "scripts" dir ==> using cwd for session root surfer: session root data dir ($session) set to: surfer: /usr/local/freesurfer surfer: Reading header info from /usr/local/freesurfer/subjects/bert/mri/T1.mgz surfer: vertices=131870, faces=263736 mrisReadTriangleFile (/usr/local/freesurfer/subjects/bert/surf/lh.orig): surface doesn't match /usr/local/freesurfer/subjects/bert/surf/lh.sphere
mrisReadTriangleFile failed.
MRISreadOriginalProperties: could not read surface file /usr/local/freesurfer/subjects/bert/surf/lh.orig Loading /usr/local/freesurfer/surface_labels.txt surfer: ### redraw failed: no gl window open surfer: single buffered window surfer: tkoInitWindow(bert) surfer: using interface /usr/local/freesurfer/lib/tcl/tksurfer.tcl Reading /usr/local/freesurfer/lib/tcl/tkm_common.tcl Reading /usr/local/freesurfer/lib/tcl/tkm_wrappers.tcl Reading /usr/local/freesurfer/lib/tcl/fsgdfPlot.tcl Reading /usr/local/freesurfer/lib/tcl/tkUtils.tcl Successfully parsed tksurfer.tcl reading white matter vertex locations... mrisReadTriangleFile (/usr/local/freesurfer/subjects/bert/surf/lh.white): surface doesn't match /usr/local/freesurfer/subjects/bert/surf/lh.sphere
mrisReadTriangleFile failed.
% ERROR: number of vertices in /usr/local/freesurfer/subjects/bert/surf/lh.curv does not match surface (146926,131870)surfer: error reading curvature file
Thanks
-- Barnali Basu
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
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Barnali Basu -
Nick Schmansky