Dont' know about the first question.

On the 2nd Q, there is (or was) a mismatch between the painted overlay (.w file) and the surface that you are trying to display it on. Is it possible that you ran paint-sess once, then edited the surface, then ran surf-sess? Then painted again with projfrac then ran surf-sess again? If so, then the 2nd paint would have resynched the painted overlay, and the better results would have nothing to do with projfrac.

projfrac allows you to sample the functional volume a fraction between the white and the pial.

doug

Sebastian Moeller wrote:

Dear fellow FreeSurfers,

I got two small questions, I would be delighted to recieve some guidance on. The first one is for the monkey experts, I want to flatten the full hemispheres of my processed monkey brains, and I got around to cut away the medial wall to exclude those non-cortex areas from the map; where I am stuck now is making "tension relieve" cuts. Mainly my question is, what are the "canonical" cuts people make on monkey brains to flatten them fully (ideally I would like to see them on an inflated monkey hemisphre, but good landmarks would be also very welcome). Second question is about paint-sess/surf-sess. While trying to display my paint-sess created overlays on the inflated surfaces using surf-sess one out of three monkeys (total so far) gives real bad surface maps (they do not match the expected areas of activation from a tkmedit comparison run) and "spams" the surf-sess log with "MRISreadValues: vertex index out of range". If I set -projfrac from 0.5 to 1 I get acceptable maps for this monkey as well and no more errors. So to get to the point, what is the story behind -projfrac and what is it for? I would be really happy to learn more about this variable.

Ahoi & Thanks in Advance Sebastian