Sorry - always helps to read the whole question :D So, you are trying to create an inflated white surface? As far as I know this doesn't exist. Freesurfer creates white surfaces, pial surfaces, and inflated surfaces that are the pial pushed outwards.
Also, "mri_vol2surf" creates surface overlays on surfaces that already exist. Trisanna -- Ph.D. Candidate McGill University Integrated Program in Neuroscience Psychology On Fri, Sep 30, 2016 at 10:44 AM, Crawford, Anna <crawf...@ccf.org> wrote: > I already ran recall-all. I am trying to create a different surface not > created using recon-all. > > Anna > ------------------------------ > *From:* freesurfer-boun...@nmr.mgh.harvard.edu [ > freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Trisanna Sprung-Much > [trisanna.sprung-m...@mail.mcgill.ca] > *Sent:* Friday, September 30, 2016 10:40 AM > *To:* Freesurfer support list > *Subject:* Re: [Freesurfer] Volume to Surface > > You have to run recon-all to get the surfaces of a volume. > > Trisanna > > -- > Ph.D. Candidate > McGill University > Integrated Program in Neuroscience > Psychology > > > On Fri, Sep 30, 2016 at 9:47 AM, Crawford, Anna <crawf...@ccf.org> wrote: > >> Hello, >> >> I am trying to take nay volume that is registered and create an inflated >> surface. I am trying to use mri_vol2surf. I am having problems with the >> registration source. From the examples I could fine, it should be --srcreg >> *.dat. The only *.dat file I have is segment.dat which does not work. I >> also tried using the white matter volume which also didn't work. My input >> and output is below. Could you offer some guidance on the registration file? >> >> Thank you, >> Anna >> >> mri_vol2surf --src /mnt/netScratch/crawforda/Brai >> nStem/study11074/S2sdt/segfs/mri/wmparc.mgz --out >> /mnt/netScratch/crawforda/BrainStem/study11074/S2sdt/segfs/surf/wmparcSlh >> --srcreg >> /mnt/netScratch/crawforda/BrainStem/study11074/S2sdt/segfs/mri/segment.dat >> --hemi lh --surf white --out_type paint >> INFO: output format is paint >> srcvol = /mnt/netScratch/crawforda/BrainStem/study11074/S2sdt/segfs/ >> mri/wmparc.mgz >> srcreg = /mnt/netScratch/crawforda/BrainStem/study11074/S2sdt/segfs/ >> mri/segment.dat >> srcregold = 0 >> srcwarp unspecified >> surf = white >> hemi = lh >> reshape = 0 >> interp = nearest >> float2int = round >> GetProjMax = 0 >> INFO: float2int code = 0 >> INFO: changing type to float >> Done loading volume >> regio_read_register(): Success >> Error reading betplaneres from /mnt/netScratch/crawforda/Brai >> nStem/study11074/S2sdt/segfs/mri/segment.dat >> >> =================================== >> >> Please consider the environment before printing this e-mail >> Cleveland Clinic is ranked as one of the top hospitals in America by >> U.S.News & World Report (2015). 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Confidentiality Note: This message is intended for use > only by the individual or entity to which it is addressed and may contain > information that is privileged, confidential, and exempt from disclosure > under applicable law. If the reader of this message is not the intended > recipient or the employee or agent responsible for delivering the message > to the intended recipient, you are hereby notified that any dissemination, > distribution or copying of this communication is strictly prohibited. If > you have received this communication in error, please contact the sender > immediately and destroy the material in its entirety, whether electronic or > hard copy. Thank you. > > > _______________________________________________ > Freesurfer mailing list > 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. 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