Hi Doug

Thank you very much for your reply.

I was actually using -force and It did take a reasonable amount of time.

Then I ran the selxavg command to get the first level maps, and I guess It used the last preprocessd data which was from projfrac 0.2.

Thanks

Mona

The projfrac function might not be working in the way that you think. It
might not actually be re-running anything. Did preproc-sess finish
faster than you would have expected? You can try deleting the projfrac
output and re-running. You can also run preproc-sess with -force, but
this will force it to re-run everything. If you want to use multiple
project fracs, then you should copy the functional tree to a new
location (if you use -p with cp, it will copy the modification time,
which will make preproc-sess run faster).

On 2/28/19 12:55 PM, Nasiriavanaki, Zahra wrote:
>
> Dear Freesurfers
>
>
> Hi
>
> I was trying to look at the activation in different cortical layers in
> a _single subject_.
>
> I ran my preproc-sess command three times, once without using
> -projfrac flag, once -projfrac 0.5 and lastly -projfrac 0.2
>
> The activation patterns are exactly the same.
>
> My voxel sizes are 1.1*1.1*1.1 .
>
> My question is:
>
> 1-Is it normal that the activations do not change at all the more I
> get closer to white matter?
>
> 2-when I use -projfrac 0.2 , does it mean that I am averaging the
> activation between white matter layer to 0.2 of gray matter layer? Or
> is it averaging the activation between pial surface to 0.2 gray matter?
>
>
> I hope my questions are clear.
>
>
> Thanks
>
> Mona
>
>
>
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