It is fairly standard, at least in the programs I write. It sometimes appears with a single dash (-help) doug
On 09/03/2013 10:59 AM, David Romano wrote: > > Thanks, Doug; I'd only gone through the information I could find > online and didn't see there was a --help flag available. I'll try that > now. And out of curiosity in case something similar happens with > other freesurfer commands, is the --help flag standard in freesurfer? > > Thanks again, > David > > > On Tue, Sep 3, 2013 at 7:32 AM, Douglas N Greve > <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>> wrote: > > Hi David, did you check the help within mri_surf2surf? Run > mri_surf2surf > --help. I think it has an example of what you want to do. > doug > > On 08/30/2013 06:57 PM, David Romano wrote: > > Hi everyone, > > > > In an earlier post, I had asked how to transform the white > surface of > > one subject to the white surface of another subject, and Bruce > Fischl > > suggested mri_surf2surf should be able to do this. After looking > > over the website material related to mri_surf2surf, I find I'm not > > sure how mri_surf2surf works, and so am still not sure how to > proceed. > > > > As a starting point, suppose we have the file lh.sphere.reg for each > > of two subjects, A and B, and consider, say, vertex 1 of subject A. > > Here is what I understand: This vertex maps to a point P on the > sphere > > that has coordinates given in subjects A's lh.sphere.reg file. The > > point P is contained in some closed triangle T from B's mesh, as > that > > mesh appears in B's lh.sphere.reg file. This triangle is formed > from > > three points on the sphere that correspond to three vertices that > > appear in B's lh.white file. These three vertices thus form a > > triangle T' in B's native volume space, and thus the point P > contained > > in T corresponds to a point P' in B's native volume space that is > > contained in T'. > > > > So here is my question: How would I used mri_surf2surf to find the > > coordinates (in B's native volume space) of the point P'? > > > > Thanks in advance for you help in clarifying this for me. > > > > Best regards, > > David Romano > > > > > > > > > > > > _______________________________________________ > > 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 <tel:617-724-2358> > Fax: 617-726-7422 <tel:617-726-7422> > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > <http://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. > > -- 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
