Philipp,
Those warnings can be ignored.
Nick
On Tue, 2009-09-08 at 11:07 +0200, Philipp Klein wrote:
Hello,
I installed version 4.50 of freesurfer on a Ubuntu 8.10 system, the tests listed in the wiki all run well. Starting tksurfer with other data a warning is shown in the terminal (the talairach.xfm can't be found), but the program starts after that. As far as we can judge after a quick examination, everything is working fine, it's just the warning.
Another issue is the warning concerning the missing colortable.
Hope anyone can help.
Greetings
Philipp
ps: the terminal output:
/usr/local/freesurfer/subjects/FS_spm_CanonicalBrain/mri/T1$ tksurfer FS_spm_CanonicalBrain rh pial 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/subjects/FS_spm_CanonicalBrain/mri/T1 can't find talairach file '/usr/local/freesurfer/subjects/FS_spm_CanonicalBrain/mri/T1/COR-.info/../transforms/talairach.xfm' surfer: Reading header info from /usr/local/freesurfer/subjects/FS_spm_CanonicalBrain/mri/T1/COR-.info surfer: vertices=171090, faces=342176 can't find talairach file '/usr/local/freesurfer/subjects/FS_spm_CanonicalBrain/surf/../mri/orig/COR-.info/../transforms/talairach.xfm'
WARNING: No colortable found!
surfer: single buffered window surfer: tkoInitWindow(FS_spm_CanonicalBrain) 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... % surfer: dmin=0.1820, vno=121693, x=60.0832, y=26.3634, z=-18.3935 % surfer: curv=0.000000, fs=0.000000 % surfer: val=0.000000, val2=0.000000 % surfer: amp=0.000000, angle=0.000000 deg (0.000000) % surfer: vertex 121693 marked (curv=0.000000, stat=0.000000) x = (60.1, 26.4, -18.4), n = (0.7, -0.1, -0.8). surfer: dmin=0.8543, vno=79701, x=72.6551, y=-6.2425, z=-27.2842 % surfer: curv=0.000000, fs=0.000000 <<<
It has to be added, that COR-.info isn't a folder at all, so the path can't be correct.
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