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Brian - I attempted the command to no avail: *Here is an ls on the directory:* 14-L_Hipp_first.bvars first.e26463.6 first_post.o20367.1 14-L_Hipp_first.vtk first.e26463.7 first_post.o22072.1 14-L_Late_first.bvars first.e26463.8 first_post.o24892.1 14-L_Late_first.vtk first.e26463.9 first_post.o27806.1 14-L_Pall_first.bvars first.e29362.1 first_post.o28227.1 14-L_Pall_first.vtk first.e29362.10 first_post.o30580.1 14-L_Puta_first.bvars first.e29362.11 first_post.o32433.1 14-L_Puta_first.vtk first.e29362.12 first_post.o3246.1 14-L_Thal_first.bvars first.e29362.13 first_post.o3826.1 14-L_Thal_first.vtk first.e29362.14 first_post.o6493.1 14.nii.gz first.e29362.15 first_post.o6699.1 14-R_Accu_first.bvars first.e29362.16 first_post.o939.1 14-R_Accu_first.vtk first.e29362.17 first_post.o9452.1 14-R_Amyg_first.bvars first.e29362.2 first_post.o9547.1 14-R_Amyg_first.vtk first.e29362.3 scalar.sh 14-R_Caud_first.bvars first.e29362.4 scalar.sh~ 14-R_Caud_first.vtk first.e29362.5 slicesdir patze003@joy:tricam/IDEMS/analysis/miscellaneous/mesh 21% sed -n '1,3p' < 13-L_Accu_first.vtk > Missing name for redirect. patze003@joy:tricam/IDEMS/analysis/miscellaneous/mesh 22% sed -n '1,3p' < 14-L_Accu_first.vtk > Missing name for redirect. patze003@joy:tricam/IDEMS/analysis/miscellaneous/mesh 23% patze003@joy:tricam/IDEMS/analysis/miscellaneous/mesh 23% bash bash-3.00$ sed -n '1,3p' <14-L_Accu_first> bash: syntax error near unexpected token `newline' bash-3.00$ sed -n '1,3p' <14-L_Accu_first.vtk> bash: syntax error near unexpected token `newline' bash-3.00$ *In response to your first question it is just gray, and I believe it is the surface output from the FIRST directory. Each subject has their own subcortical regions as shown above.* * * -Edward On Wed, Oct 20, 2010 at 11:18 AM, Brian Patenaude <[log in to unmask]>wrote: > Hi, > > > 1. I cannot get my 3d vtk mesh objects to show color in fslview 3d > > viewer. Even with the options it won't let me. It won't let me select > > different mesh objects, it always says "none" and when I click "surface > > coloured from cell data" nothing changes. > > Does the surface load, but it is just gray (is this the surface output > directory from FIRST? or from the shape analysis? > > In addition, what is the output of: > > sed -n '1,3p' <vtkfile> > > > 2. Is there a way to show GLM Feat results in a vtk mesh object in the > 3d > > viewer. i.e. we have results in the amygdala and would like to create a > > 3d mesh object from the resulting activation. Or overlay this activation > > in 3d on top of a vtk mesh object. > > I believe there is a function to sample the nearest non-zero voxel onto a > surface (within a neighbourhood). Mark has this been released yet? > > Cheers, > > Brian >