Hi Duke,

It seems that the problem is in this line, which will make the rest of the nuisance removal spit out erros.

Not enough data in /Users/Duke/scripts/test/01626306/func/nuisance/csf.1D

You get this error when there is a problem with your csf mask. It does not include any voxels, making it unable to extract signal from it to remove. I can think of a couple of problems that might have caused this:

- The skullstripping of the anatomical scan removed the values in CSF as if they were skull, we've seen this happen a couple of times. You could resolve this by using bet (FSL) instead of 3dskullstrip. Play with the values abit to get the optimal result.
- The segmentation of the anatomical did not run properly, leaving you with a bad CSF image. Rerunning the segmentation might do it for you.

Hope this helps!
Maarten