AFNI version info (afni -ver
): Version AFNI_24.2.07 'Macrinus'
Hello!
I have a set of spin echo fieldmaps for every 2 runs and am using afni_procpy. From what I have gathered I can only use one set of fieldmaps in the type of script I am using. I would rather process all my fieldmaps within this one script rather than align my fieldmaps independently and integrate those after in the script to avoid extra steps.
1- Is it possible to use several sets using the blip-reverse/forward and assign them to specific runs?
2- If so, how should I script for afni tounderstand which set applies ot which run?
3- In afni_proc.py script are spin echo fieldmaps treated the same as epi fieldmaps? Mine are spin echo with 3 volumes.
My current script is the following in afni_proc.py:
-blip_forward_dset $epi_dir/AP1+orig.BRIK'[0..2]' \
-blip_reverse_dset $epi_dir/PA1+orig.BRIK'[0..2]' \
-dsets \
$epi_dir/SPARSE1+orig.HEAD \
$epi_dir/SPARSE2+orig.HEAD \
$epi_dir/SPARSE3+orig.HEAD \
$epi_dir/SPARSE4+orig.HEAD \
$epi_dir/SPARSE5+orig.HEAD \
$epi_dir/SPARSE6+orig.HEAD \
I look forward to your response. Thank you!
Best,
Aude.