Hi Lesley,

I think you need to specify the concat file via:

-concat 00_Data/concat.1D

As far as the polort goes, what matters is not exactly the nubmer
of TRs, but the duration of a run. That begs the question, what
is your TR?

By default, 3dDeconvolve and afni_proc.py will give a polort of
1+floor(run_time/150). If your TR is 1 second, then polort of 2
does seem appropriate (for either run length):
1 + floor(222/150) = 2, and also equals 1+floor(235/150)

If your TR is 2 seconds, then it seems small for either:
1 + floor(444/150) = 3, while equals 1+floor(470/150) = 4

You are presumably somewhere in the middle. The programs should
base the default on the first run (meaning they would suggest 3),
but as a borderline case, it would be fine for you to specify 4.

---

Consider some of the message in the following thread, which is
similar to this one. Note especially the last few messages,
which discuss polorts, starting with:

[afni.nimh.nih.gov]
[afni.nimh.nih.gov]

- rick