You can try adding a number in the statistic field (the 5th column) On 11/10/2015 02:24 PM, Razlighi, Qolamreza R. wrote: > Thanks Doug, > Now with —norevmap option gives 191 vertices. See below. > I’m completely confused here. I have 217 vertices that I want to map > them into a another subject surface. I have no problem if multiple > vertices are mapping into one vertex or one vertex in source surface > maps onto multiple vertices on the target surface but there should a > correspondence between these two files. Is there any way we can output > that correspond ace? For example I know vertex "129756 -13.048 > 63.016 -1.943” maps into one or multiple vertices in the output > vertices listed below, I just don’t know which one. Is there any way > we can find the link between these two label files? > > Best > > > #!ascii label , from subject FreeSurferClean2 vox2ras=TkReg > 191 > 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 > > -- > Ray Razlighi, Ph.D. > Assistant Professor > Quantitative Neuroimaging Laboratory > Division of Cognitive Neuroscience > Department of Neurology > Columbia University > > Alt: razli...@gmail.com <mailto:razli...@gmail.com> > Office Phone: 212-342-1352 > Office Fax: 212-342-1838 > Website: http://www.columbia.edu/cu/qnl/ > > On Nov 10, 2015, at 2:07 PM, Douglas N Greve > <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> wrote: > >> To get the same number of vertices, use --norevmap. I think it should >> give them to you in the same order, but I can't guarantee it. Try it on >> a few vertices in isolation to verify. >> >> On 11/10/2015 01:46 PM, Ray Razlighi wrote: >>> 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 >>> >>> -------------------------------------------------------------------------------------------------------------------------------- >>> 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 >>> -------------------------------------------------------------------------------------------------------------------------------- >>> >>> 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 >>> >>> -------------------------------------------------------------------------------------------------------------------------------- >>> 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 >>> ---------------------------------------------------------------------------------------------------------------------- >>> >>> >>> -- >>> >>> Sincerely, >>> Ray >>> >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> -- >> Douglas N. Greve, Ph.D. >> MGH-NMR Center >> gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu> >> Phone Number: 617-724-2358 >> Fax: 617-726-7422 >> >> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> FileDrop:https://gate.nmr.mgh.harvard.edu/filedrop2 >> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> >> Outgoing:ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> The information in this e-mail is intended only for the person to >> whom it is >> addressed. If you believe this e-mail was sent to you in error and >> the e-mail >> contains patient information, please contact the Partners Compliance >> HelpLine at >> http://www.partners.org/complianceline . If the e-mail was sent to >> you in error >> but does not contain patient information, please contact the sender >> and properly >> dispose of the e-mail. > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
