Dear Bruce, Command for the patch: label2patch wh lh lh.G_temp_sup-G_T_trans.label PAC
Then I loaded tksurfer with: tksurfer wh lh inflated (pial) Then I loaded the patch in tksufer with the GUI, but it doesn't show up, respectively everything vanished to black. Thanks, Holger 2012/2/16 Bruce Fischl <fis...@nmr.mgh.harvard.edu> > what is your command line? That isn't an error - it just detects that the > patch isn't flattened and so will show it in the original space. Does it > show up? > > > On Thu, 16 Feb 2012, Klein, Holger wrote: > > Dear Bruce, >> The patch (only 16 kb ???) was successfully created via label2patch. But >> loading it in tksurfer after having loaded a surface the following error >> occured: >> >> % surface not flattened - disabling 2d code... >> >> What am I doing wrong? Isn't there a way via the command mri_vol2surf? >> What >> output format should I use for the surface I create with this command? >> >> Thanks, Holger >> >> >> >> 2012/2/16 Bruce Fischl <fis...@nmr.mgh.harvard.edu> >> p.s. could you cc the list on your replies so others can learn >> (I did on mine) >> >> On Thu, 16 Feb 2012, Klein, Holger wrote: >> >> Dear Bruce, >> Thanks for your help. I did what you advised me to >> do in freeview. It works, >> but the problem is that an overlay does not >> ameliorate my view on the Heschl >> Gyrus. Thus I am looking for a solution to only view >> the pial surface of >> this certain label without the rest of the brain, >> i.e. just the surface of >> the volume that I created with mri_label2vol. >> >> Do you have a clue to do that? >> >> Thanks, Holger >> >> 2012/2/16 Bruce Fischl <fis...@nmr.mgh.harvard.edu> >> Hi Holger >> >> the file you are outputing isn't a surface, >> it's a surface >> overlay. Try loading the inflated surface then >> load the .w file >> with tksurfer load overlay >> >> cheers >> Bruce >> >> >> On Thu, 16 Feb 2012, Klein, Holger wrote: >> >> >> Dear FreeSurfers, >> >> To get a better view on the pial surface >> of the >> Heschl' Gyri I used the >> command mri_vol2surf after having created >> the >> suitable volume with >> label2vol. My goal is to get the pial >> surface of >> this single label. >> >> My Command is: *mri_vol2surf --src >> pf_lh_vol.mgz >> --hemi lh --surf pial --sr >> creg >> register.dat --out_type paint --o >> A1surf-lh.w* >> >> The output file was created without any >> error, but >> loading the file in >> freeview or tksurfer an error occured: >> >> *command: tksurfer WH lh A1surf-lh.w >> >> *subject is WH* >> *hemi is lh* >> *surface is A1surf-lh.w* >> *surfer: current subjects dir: >> >> /Volumes/Macintosh/**Freesurfer/Kontrollen/A1_**Wilts_Heide* >> *surfer: not in "scripts" dir ==> using >> cwd for >> session root* >> *surfer: session root data dir ($session) >> set to:* >> *surfer: >> /freesurfer/Kontrollen/A1_**Wilts_Heide* >> *checking for nofix files in >> 'A1surf-lh.w'* >> *Reading image info >> >> (/Volumes/Macintosh/**Freesurfer/Kontrollen/A1_** >> Wilts_Heide/WH)* >> *Reading >> >> /Volumes/Macintosh/**Freesurfer/Kontrollen/A1_** >> Wilts_Heide/WH/mri/orig.mgz* >> *surfer: Reading header info from >> >> /Volumes/Macintosh/**Freesurfer/Kontrollen/A1_** >> Wilts_Heide/WH/mri/orig.mgz* >> *ERROR: MRISread: file >> '/Volumes/Macintosh/**Freesurfer/Kontrollen/A1_** >> Wilts_Heide/WH/surf/lh.A1surf- >> >> l >> h.w' >> has 0 vertices!* >> *Probably trying to use a scalar data >> file as a >> surface!* >> >> What am I doing wrong? >> >> Any help would be greatly appreciated. >> Thanks in >> advance >> >> Holger >> >> >> >> >> >> 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<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. >> >> >> >> >> >>
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