Sooooooo, oddly enough it ran fine for me, and the results look pretty good overall (see attached image).

I just ran essentially the same exact command as you did:

@SSwarper \
    -input ./Sub_004_01_anat+orig. \
   -odir TEST1 \
   -base ~/REF_TEMPLATES/MNI152_2009_template_SSW.nii.gz \
   -subid TEST1

I wonder if there was a memory thing, possibly depending on how many CPUs you were using or other things running on your computer system? My OMP_NUM_THREADS = 6. I just ran this on my Ubuntu laptop, which is not particularly powerful, and my "afni -ver" output is:

Precompiled binary linux_ubuntu_12_64: Jun  3 2020 (Version AFNI_20.1.13 'Otho')

... which is also quite similar to yours.

Maybe you could try running it again, and perhaps grab the stdout/stderr output, in case things break again? The easiest way is if you are running some COMMAND (which can have one or more options, or even better be the execution of a script file running all your commands), then:

# in bash terminal
COMMAND 2>&1 | tee o.output_text.txt
# in tcsh terminal
COMMAND |& tee o.output_text.txt

--pt