Hi Corey

usually that means you recreated one of the surfaces without regenerating the other. Try running recon-all -make all -s CL and see if it rebuilds some files On Thu, 22 Jul 2010, Corey Keller wrote:

Hi Freesurfers,

I am trying to check the spherical alignment of an individual subject registered to fsaverage via lh.sphere.reg. I am using the following command in tksurfer:

tksurfer CL lh sphere

and get the error code below. Could someone let me know what I am missing here? Should I be using tkregister2 instead? And if so, what is the correct command to use? Also, it says it can't find the talairach file but talairach.xfm is in the subject's transform folder. Thanks in advance.

Best, Corey

Resting_State/subjects> tksurfer CL lh sphere surfer: current subjects dir: /media/SW_Preload/Users/Corey/ckeller/Research/Resting_State/subjects surfer: not in "scripts" dir ==> using cwd for session root surfer: session root data dir ($session) set to: surfer: /media/SW_Preload/Users/Corey/ckeller/Research/Resting_State/subjects surfer: Reading header info from /media/SW_Preload/Users/Corey/ckeller/Research/Resting_State/subjects/CL/mri/T1.mgz surfer: vertices=118989, faces=237974 can't find talairach file '/media/SW_Preload/Users/Corey/ckeller/Research/Resting_State/subjects/CL/surf/../mri/orig/COR-.info/../transforms/talairach.xfm' mrisReadTriangleFile(/media/SW_Preload/Users/Corey/ckeller/Research/Resting_State/subjects/CL/surf/lh.orig): surface doesn't match /media/SW_Preload/Users/Corey/ckeller/Research/Resting_State/subjects/CL/surf/lh.sphere

No such file or directory mrisReadTriangleFile failed.

No such file or directory MRISreadOriginalProperties: could not read surface file /media/SW_Preload/Users/Corey/ckeller/Research/Resting_State/subjects/CL/surf/lh.orig No such file or directory

WARNING: No colortable found!

surfer: double buffered window surfer: tkoInitWindow(CL) 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(/media/SW_Preload/Users/Corey/ckeller/Research/Resting_State/subjects/CL/surf/lh.white): surface doesn't match /media/SW_Preload/Users/Corey/ckeller/Research/Resting_State/subjects/CL/surf/lh.sphere

mrisReadTriangleFile failed. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer