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/BrainStem/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/ > BrainStem/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). Visit us online at > http://www.clevelandclinic.org for a complete listing of our services, > staff and locations. 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. 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. > >
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