I ran the command again with the suggested options removed and it gave the same error:
#Script is running (command trimmed):
3dSkullStrip -orig_vol -input ./__tt_pb01.302a.r04.tshift_ts_rs+orig -prefix ./__tt_pb01.302a.r04.tshift_ts_rs_ns
**ERROR: normalization fails!?
** ERROR: Could not strip skull
** ERROR - script failed
@auto_tlrc -base TT_N27+tlrc -input 302a_anat_strip+orig -no_ss -suffix NONE
Suffix not used.
output of afni --version is:
Version AFNI_2011_12_21_1014
[[Precompiled binary linux_openmp_64: Apr 1 2013]]
Is there something else that could be going on? Thanks again.