Have you tried using mri_annotation2label with the --seg output option? doug
Michael Waskom wrote: > If you know Python, you can likely do this pretty easily with tools > from the PySurfer package: http://pysurfer.github.com/ > > (Check out surfer.io.read_annotation). > > If you're just using the io routines, you won't need the somewhat > heavy Mayavi visualization dependencies. You should be able to read > in and manipulate surfaces/annotations just with numpy. > > Best, > Michael > > 2011/10/8 Bruce Fischl <fis...@nmr.mgh.harvard.edu > <mailto:fis...@nmr.mgh.harvard.edu>> > > it wouldn't be that hard to put something together if you want to > avoid matlab. Spec out what you need and send me a sample, maybe > on Bert > > Bruce > > On Sat, 8 Oct 2011, Pedro Paulo de Magalhães Oliveira Junior wrote: > > Thanks. > > I suppose I can't do this without matlab. Right? > > -- iOS 5.0 > > Em 08/10/2011, às 19:29, Bruce Fischl > <fis...@nmr.mgh.harvard.edu > <mailto:fis...@nmr.mgh.harvard.edu>> escreveu: > > there is a write_annotation.m file you can use > On Sat, 8 Oct 2011, Anderson Winkler wrote: > > ops, it seems the comments inside the dpxwrite.m no > longer reflect what it does. You probably don't need > this, but anyway, the version attached is more up-to-date. > Anderson > On 08/10/11 17:28, Anderson Winkler wrote: > Hi Pedro, > > There is probably a way to do that using FS tools > from the command line, but the attached script should > do the same. The result is a "data-per-vertex" file, which > is the same as the .asc files from mris_convert. > There is no geometry input, hence the vertex > coordinates are all set to (0,0,0). > > Hope it helps! > > All the best, > > Anderson > > On 08/10/11 17:17, Pedro Paulo de Magalh�es > Oliveira Junior wrote: > I need to create a file where I have the > parcellation value (structure name) per vertex. > I've tried�mris_convert --annot > /Applications/freesurfer/ > subjects/bert/label/lh.aparc. annot > /Applications/freesurfer/ subjects/bert/surf/lh.pial > parc.asc > But I get the error:�ERROR: unknown file annot file > type specified for output: saida.asc > Has someone done this before? > Thanks > ------------------------------ > ------------------------------ --------- > Pedro Paulo de Magalh�es Oliveira Junior > Netfilter & SpeedComm Telecom -- www.netfilter.com.br > <http://www.netfilter.com.br> > -- For mobile:�http://itunes.apple. > com/br/artist/netfilter/ id365306441 > <http://itunes.apple.com/br/artist/netfilter/id365306441> > ______________________________ _________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard. edu/mailman/listinfo/ > freesurfer > <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 > <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 > <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard. edu/mailman/listinfo/ > freesurfer > <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 > <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 > <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard. edu/mailman/listinfo/ > freesurfer > <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 > <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 <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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
