Hello all, Again, I tried to modify the white matter surface by adding voxels to the wm.mgz file, and performed the reconstruction by doing the following.
-Opened brainmask.mgz for reference -Opened wm.mgz on top of that -Click the voxel edit button -Check the recon editing checkbox -Fill in voxels where I want to extend the whitematter surface -Save wm.mgz -At terminal, from the appropriate subject directory, run: recon-all -autorecon2-wm -autorecon3 -subjid my_subject -sd `pwd` Once this is finished, I examine the surfaces, but they have not changed. lh/rh.white should be changed to include the voxels I painted in, correct? I have no problem removing voxels from the pial surface, but extending the white matter is for some reason not working for me, so I am really stumped as to why these wm.mgz edits aren't making any difference. Any help with this is vastly appreciated. I have tried this several times on different subjects with no luck. Here are links to some relevant files. 001.mgz: https://1drv.ms/u/s!AoOsIIayCH7qlxLBNvCT4JCvM1Kc recon-all.logs.tar.gz: https://1drv.ms/u/s!AoOsIIayCH7qlxRGOWpUCttk5Zji brainmask+surf+wm.tar.gz https://1drv.ms/u/s!AoOsIIayCH7qlxbDSS54gfHkq2M3 Thanks, Eli Houston Methodist. Leading Medicine. U.S. News & World Report has recognized Houston Methodist as one of the nation’s top 20 hospitals, placing it for the second time on the magazine’s prestigious Honor Roll. It is also designated as a Magnet hospital for excellence in nursing. Visit us at houstonmethodist.org. Follow us at twitter.com/MethodistHosp and www.facebook.com/HoustonMethodist. ***CONFIDENTIALITY NOTICE*** This e-mail is the property of Houston Methodist Hospital and/or its relevant affiliates and may contain restricted and privileged material for the sole use of the intended recipient(s). Any review, use, distribution or disclosure by others is strictly prohibited. If you are not the intended recipient (or authorized to receive for the recipient), please contact the sender and delete all copies of the message. 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.
