Dear FreeSurfer,
Hello, I am currently working on a project using FreeSurfer (version 5.1.0) at the Kable Labs at the University of Pennsylvania, and I have come across a problem when using control points to add incorporate more of the white matter into the white matter surface. After highlighting the parts of the white matter that have yet to be brought into the white matter surface with CPs, it will sometimes do what I intend it to but often will not. The strange part is that when it fails to incorporate more wm into the wm surfs it often actually removes a considerable amount the white matter both from the wm.mgz volume and from the white matter surface. Once it even did so on the opposite hemisphere as where I had put down control points. This problem seems to occur exclusively in the anterior end of the temporal lobe (everywhere else my use of control points has presented me with no problems), and it happens both when using control points sparingly and aggressively (I did a bit of experimenting, and the quantity of CPs that I used seemed to make no difference). Do you have any advice for how I might be able to get around this dilemma and/or why it likely is occurring? Thank you very much for your time.
Best, Peter McNally