Apology if this is a repeat email. I used the wrong email address in my reply. I was one of the original authors of `mris_pmake` although it's been (quite) a few years now. I do remember that at some point the CLI changed, and given the FS release cycle it took a while for this to make it into production.
Anyway, yes, the flags changed and looks like the documentation didn't. I looked at the code and sort of (rustily) remembered where things changed. Try using the flags below instead. You should be able to figure out the mapping I think. So what used to be '--surface0' is now '--surfaceFile'. Similary, the old '--surface1' is now ' --secondarySurfaceFile', etc. Please try with these new flags where appropriate and let us know if it works. It would also be useful if you posted your full CLI when you try and run a command. Best startVertex endVertex surfaceFile secondarySurfaceFile curvatureFile secondaryCurvature patchFile labelFile labelFileAuxSurface costFile b_labelFile_save b_patchFile_save b_transitionPenalties b_useAbsCurvs controlPort timeoutSec b_syslogPrepend userMessages sysMessages resultMessages stdout costCurvFile b_mpmProgUse b_mpmOverlayUse mpmProgID mpmArgs mpmOverlayArgs b_exitOnDone b_costPathSave mpmOverlayID On Mon, 2019-07-29 at 21:36 +0200, Sebastian Strauss wrote: > External Email - Use Caution > > Dear Freesurfers, > > I am trying to calculate distances using mris_pmake with Freesurfer > Version 6.0.0. When using the command line the following error > appears: > mris_pmake: unrecognized option '—surface0' > > In January the similar question ( > https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg60835.html > ) was ask but without any answers. Does anyone have the same problem > btw any suggestions? > > Thank you! > > Best wishes > > Sebastian > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
