psylab-desktop:/media/freesurfer1/CT> tksurfer fsaverage rh inflated -annot aparc.annot -fthresh 2 -overlay lh.COMTthree.glmdir/COMTthree/sig.mgh setting fthresh to 2.0000 subject is fsaverage hemi is rh surface is inflated surfer: current subjects dir: /media/freesurfer1/CT surfer: not in "scripts" dir ==> using cwd for session root surfer: session root data dir ($session) set to: surfer: /media/freesurfer1/CT checking for nofix files in 'inflated' Reading image info (/media/freesurfer1/CT/fsaverage) Reading /media/freesurfer1/CT/fsaverage/mri/orig.mgz surfer: Reading header info from /media/freesurfer1/CT/fsaverage/mri/orig.mgz surfer: vertices=163842, faces=327680 tkmedit: Trying to open lh.COMTthree.glmdir/COMTthree/sig.dat surfer: Interpreting overlay volume lh.COMTthree.glmdir/COMTthree/sig.mgh as encoded scalar volume. surfer: curvature read: min=-0.676989 max=0.486764 reading colortable from annotation file... colortable with 36 entries read (originally /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) Found embedded color table in annotation. 13916 vertices did not have an annotation! surfer: single buffered window surfer: tkoInitWindow(fsaverage) surfer: using interface /usr/local/freesurfer/tktools/tksurfer.tcl Reading /usr/local/freesurfer/tktools/tkm_common.tcl Reading /usr/local/freesurfer/tktools/tkm_wrappers.tcl Reading /usr/local/freesurfer/lib/tcl/fsgdfPlot.tcl Reading /usr/local/freesurfer/tktools/tkUtils.tcl Successfully parsed tksurfer.tcl reading white matter vertex locations... % ----------------------------------- selected vertex 57932 out of 163842 current 40.12 -7.05 -49.24 orig 63.86 -19.65 -15.51 pial 0.00 0.00 0.00 white 64.69 -19.40 -15.31 inflated 0.00 0.00 0.00 normals 0.99 0.01 -0.16 nneighbors 6 ripflag 0 surfer: dmin=0.4857, vno=57932, x=40.1208, y=-7.0543, z=-49.2368 surfer: curv=-0.308152, fs=0.000000 surfer: val=3.228469, val2=0.000000 surfer: amp=3.228469, angle=0.000000 deg (0.000000) surfer: vertex 57932 marked (curv=-0.308152, stat=3.228469) x = (40.1, -7.1, -49.2), n = (1.0, 0.0, -0.2). ----------------------------------- selected vertex 17616 out of 163842 current 39.62 -2.00 -51.33 orig 62.97 -16.28 -16.81 pial 0.00 0.00 0.00 white 63.84 -15.82 -16.46 inflated 0.00 0.00 0.00 normals 0.98 0.05 -0.18 nneighbors 6 ripflag 0 surfer: dmin=0.3911, vno=17616, x=39.6229, y=-2.0015, z=-51.3347 surfer: curv=-0.321697, fs=0.000000 surfer: val=3.037957, val2=0.000000 surfer: amp=3.037957, angle=0.000000 deg (0.000000) surfer: vertex 17616 marked (curv=-0.321697, stat=3.037957) x = (39.6, -2.0, -51.3), n = (1.0, 0.0, -0.2). ----------------------------------- selected vertex 17616 out of 163842 current 39.62 -2.00 -51.33 orig 62.97 -16.28 -16.81 pial 0.00 0.00 0.00 white 63.84 -15.82 -16.46 inflated 0.00 0.00 0.00 normals 0.98 0.05 -0.18 nneighbors 6 ripflag 0 surfer: dmin=0.3911, vno=17616, x=39.6229, y=-2.0015, z=-51.3347 surfer: curv=-0.321697, fs=0.000000 surfer: val=3.037957, val2=0.000000 surfer: amp=3.037957, angle=0.000000 deg (0.000000) ----------------------------------- selected vertex 57937 out of 163842 current 39.67 -5.70 -51.49 orig 63.13 -18.77 -17.53 pial 0.00 0.00 0.00 white 63.95 -18.47 -17.49 inflated 0.00 0.00 0.00 normals 0.97 -0.00 -0.23 nneighbors 6 ripflag 0 surfer: dmin=0.1531, vno=57937, x=39.6731, y=-5.6965, z=-51.4914 surfer: curv=-0.157153, fs=0.000000 surfer: val=3.481167, val2=0.000000 surfer: amp=3.481167, angle=0.000000 deg (0.000000) surfer: vertex 57937 marked (curv=-0.157153, stat=3.481167) x = (39.7, -5.7, -51.5), n = (1.0, -0.0, -0.2). ----------------------------------- selected vertex 57939 out of 163842 current 39.54 -5.36 -52.05 orig 62.77 -18.73 -18.05 pial 0.00 0.00 0.00 white 63.56 -18.47 -18.09 inflated 0.00 0.00 0.00 normals 0.97 -0.01 -0.25 nneighbors 6 ripflag 0 surfer: dmin=0.2759, vno=57939, x=39.5351, y=-5.3601, z=-52.0518 surfer: curv=-0.129672, fs=0.000000 surfer: val=3.159937, val2=0.000000 surfer: amp=3.159937, angle=0.000000 deg (0.000000) surfer: vertex 57939 marked (curv=-0.129672, stat=3.159937) x = (39.5, -5.4, -52.1), n = (1.0, -0.0, -0.3). ----------------------------------- selected vertex 11634 out of 163842 current 39.74 -8.26 -51.06 orig 62.85 -20.64 -17.51 pial 0.00 0.00 0.00 white 63.51 -20.49 -17.63 inflated 0.00 0.00 0.00 normals 0.97 -0.03 -0.24 nneighbors 6 ripflag 0 surfer: dmin=0.3010, vno=11634, x=39.7392, y=-8.2621, z=-51.0574 surfer: curv=-0.097159, fs=0.000000 surfer: val=3.183451, val2=0.000000 surfer: amp=3.183451, angle=0.000000 deg (0.000000) surfer: vertex 11634 marked (curv=-0.097159, stat=3.183451) x = (39.7, -8.3, -51.1), n = (1.0, -0.0, -0.2). surfer: making path (ctrl-c to cancel)... done
At 2012-11-16 22:07:16,"Bruce Fischl" fischl@nmr.mgh.harvard.edu wrote:
can you respond to the list? Not sure what's going on... Bruce
On Fri, 16 Nov 2012, xiangbo_2010 wrote:
Thank you for my reply, when I check the button, the points have no change. Before check the button, these points are white, and have no bright colors, Thanks!
At 2012-11-16 21:58:28,"Bruce Fischl" fischl@nmr.mgh.harvard.edu wrote:
sorry, not sure I understand. After you click "make closed fill boundary" what happens? Before you click do you see the points hilighted on the surface? On Fri, 16 Nov 2012, xiangbo_2010 wrote:
Dear experts: I used the http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial
/Visualization?highligh
t=%28ROI%29 to defining a region of interest, but when I make a series of left clicks on the surface? then click the "Make Closed Fill Boundary" i
con
in the tools window. howevre, there has no connect the points my clicked, and drawing a yellow or red line between them. I hope that have experts to help me. Thanks!
Bo Xiang
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