Hi Guys,

I'm trying to map the vertices of temporal pole in one subject into the space of another subject using mri_label2label. When I do it, the output doesn't have the same number of vertices and the other of the vertex are completely messed up. See below as the first few lines in the source and transferred labels along with the command execution.

What I need to know is that where for example vertex number 129756 mapped to in the target surface space. I can't extract those information from these two files.

Thanks a lot

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Source Label file: aparc-lh-032.label

#!ascii label , from subject FreeSurferClean vox2ras=TkReg

217

129756 -13.048 63.016 -1.943 0.0000000000

129757 -13.268 63.132 -1.961 0.0000000000

129767 -13.120 63.091 -2.173 0.0000000000

129768 -13.470 63.274 -2.293 0.0000000000

129870 -7.339 63.337 5.869 0.0000000000

129879 -7.347 63.505 5.024 0.0000000000

129888 -7.731 63.526 4.092 0.0000000000

129889 -8.111 63.407 3.205 0.0000000000

129893 -8.317 63.382 2.401 0.0000000000

129896 -7.864 64.313 1.332 0.0000000000

129897 -8.180 63.672 1.427 0.0000000000

129898 -12.359 64.295 1.105 0.0000000000

129899 -12.777 64.061 1.152 0.0000000000

129902 -7.780 64.251 0.861 0.0000000000

129903 -7.979 63.500 0.404 0.0000000000

129904 -11.492 64.276 0.155 0.0000000000

129905 -12.091 63.982 0.540 0.0000000000

129906 -13.264 63.628 0.557 0.0000000000

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Transfered Label file: aparc-lh-032-reg3.label

#!ascii label , from subject FreeSurferClean2 vox2ras=TkReg
333
132988 -7.268 83.361 -2.195 0.0000000000
132714 -7.766 83.079 -2.603 0.0000000000
132259 -4.885 81.451 7.416 0.0000000000
132260 -5.354 81.986 6.795 0.0000000000
132609 -5.461 82.480 5.323 0.0000000000
132904 -5.190 83.525 4.692 0.0000000000
132903 -4.503 83.934 4.047 0.0000000000
133205 -3.592 84.944 3.299 0.0000000000
132913 -3.623 84.596 3.095 0.0000000000
133222 -6.863 84.768 1.300 0.0000000000
133223 -7.284 84.611 1.941 0.0000000000
133204 -3.445 84.969 2.831 0.0000000000
133211 -3.895 84.688 2.151 0.0000000000
133250 -6.409 84.885 -0.260 0.0000000000
133236 -6.568 84.963 0.611 0.0000000000
132934 -7.418 83.679 1.113 0.0000000000
133456 -3.481 85.560 2.366 0.0000000000
133470 -3.739 85.730 0.320 0.0000000000

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ray@athens-b8-e8-56-47-e6-54:~/Data/P00001613\> mri_label2label --srclabel FreeSurferClean/label/aparc-lh-032.label --srcsubject FreeSurferClean --trglabel FreeSurferClean2/label/aparc-lh-032-reg3.label --trgsubject FreeSurferClean2 --regmethod surface --hemi lh
srclabel = FreeSurferClean/label/aparc-lh-032.label
srcsubject = FreeSurferClean
trgsubject = FreeSurferClean2
trglabel = FreeSurferClean2/label/aparc-lh-032-reg3.label
regmethod = surface
srchemi = lh
trghemi = lh
trgsurface = white
srcsurfreg = sphere.reg
trgsurfreg = sphere.reg
usehash = 1
Use ProjAbs = 0, 0
Use ProjFrac = 0, 0
DoPaint 0
SUBJECTS_DIR /Users/ray/Data/P00001613
FREESURFER_HOME /Applications/freesurfer
Loading source label.
Found 217 points in source label.
Starting surface-based mapping
Reading source registration
/Users/ray/Data/P00001613/FreeSurferClean/surf/lh.sphere.reg
Rescaling ... original radius = 100
Reading target surface
/Users/ray/Data/P00001613/FreeSurferClean2/surf/lh.white
Reading target registration
/Users/ray/Data/P00001613/FreeSurferClean2/surf/lh.sphere.reg
Rescaling ... original radius = 100
Building target registration hash (res=16).
Building source registration hash (res=16).
INFO: found 217 nlabel points
Performing mapping from target back to the source label 134519
Number of reverse mapping hits = 142
Checking for and removing duplicates
Writing label file FreeSurferClean2/label/aparc-lh-032-reg3.label 359
mri_label2label: Done
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Sincerely,
Ray