External Email - Use Caution
I use this on our HPC:
apptainer run --cleanenv --bind ${MRIS}/data:/data:ro --bind ${MRIS}/derivatives/fmriprep:/outputs --bind ${MRIS}/fmriprep_work:/work ${APP} /data /outputs participant --participant_label ${Subject} --fs-license-file ${HOME}/license.txt -w /work --stop-on-first-crash --ignore slicetiming --cifti-output --output-spaces fsnative fsaverage MNI152NLin6Asym:res-2
This assumes license.txt is in my home directory.
-Dianne
Dianne Patterson, Ph.Dhttps://profiles.arizona.edu/person/dkp dkp@arizona.edu Office: BSRL, Room 235 RII Neuroimaging Staff Scientist Program Coordinator Neuroimaging Methods Certificatehttps://cogsci.arizona.edu/programs/certificate Cognitive Science GIDP affiliate member Faculty Lead OpenClass.aihttps://openclass.ai Mastodon: @dpat@scicomm.xyz