flirt -in $frame$slice -ref $frame"1"$slice -out $frame"_xenc"$slice
-omat $tempmat -2D
$tempmat:
0.989301 -0.145891 0 3.07181
0.145891 0.9893 0 -5.26495
0 0 1 6.10647e-07
0 0 0 1
When running a slice by slice flirt -2D registration, the output mat
sometimes (seems randomly) contains a small z translation (e.g.
6.10647e-07, see above). The output $frame"_xenc"$slice is fine though.
This z translation causes trouble when one tries to concatenate
transformations later on. I currently use the following line to reset
the z-trans value back to 0.
awk 'NR==3 {$4=0}1' $tempmat > $mat
I don't think it's of a high priority to be investigated or fixed, but
thought it's good to point it out for people going down the same route.
Regards
Gordon
