Re: [Freesurfer] How to complete gracefully

Hi Bruce,

On Tuesday 12 May 2009 13:28:36 Bruce Fischl wrote:

Hi Martin,

there are probably some files it wants to see early in the stream that didn't exist in 2006. I think the only cure is to string together the individual commands you want to run (you can find them in the recon-all help).

Your are right. Since it is very close towards the end of the pipeline, I am trying recon-all -cortribbon -aparc2aseg -wmparc, which seems to be running fine so far.

On the other hand I am finding that for some subjects atlas_icv (eTIV) = 2593116 mm^3 (det: 0.75126)

2.5 liters ICV :o ? Is that something I should be worried about? It is pretty high, if it is what I suppose it represents.

Thanks,

Martin