Hoffman2:Software Tools:dmriprep

dmriprep

Use singularity exec to execute a specific command within the container.

module load apptainer
singularity exec /u/project/CCN/apps/dmriprep/dfmriprep.sif dmriprep -h  
singularity exec /u/project/CCN/apps/dmriprep/dfmriprep.sif data/bids_root/ out/ participant -w work/

Use singularity shell to interact with the container's environment through a shell interface.

module load apptainer
singularity shell --userns /u/project/CCN/apps/dmriprep/dfmriprep.sif 
dmriprep -h

Comprehensive documentation on dmriprep can be found at: https://www.nipreps.org/dmriprep/usage.html#usage