While opening tkmedit using terminal I gave following command
% crick:~/storage/labs/pbellgowan/MTBI/RASHMIANALYSIS/FreeSurfer> tkmedit AA471.T0 brainmask.mgz -aux T1.mgz -segmentation aseg.mgz -surfs $FREESURFER_HOME/FreeSurferColorLUT.txt The output was Converting main surface: 100% done. Converting main surface: 100% done. Converting pial surface: 100% done. Converting main surface: 100% done. Converting main surface: 100% done. Converting pial surface: 100% done. LoadSegmentationVolume main aseg.mgz /opt/freesurfer/FreeSurferColorLUT.txt Reading /opt/freesurfer/tktools/tkm_common.tcl Reading /opt/freesurfer/tktools/tkm_wrappers.tcl Reading /opt/freesurfer/lib/tcl/fsgdfPlot.tcl Reading /opt/freesurfer/tktools/tkUtils.tcl %
3 new windows popped up
1. The view window with the brain image ( it was similar to the one shown in you tutorial document-showed the surfaces and the segmentation in color) 2. The tool box window 3. Error message window stating the following
Error: Parsing arguments Unrecognized option: /opt/freesurfer/FreeSurferColorLUT.txt This option is not recognized by tkmedit.
Please explain what does this error message mean.
Rashmi.
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