Hoffman2:Software Tools:dmriprep: Difference between revisions
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Created page with "===dmriprep=== module load apptainer singularity exec /u/project/CCN/apps/dmriprep/dfmriprep.sif dmriprep -h #will list program arguments singularity exec /u/project/CCN/apps/dmriprep/dfmriprep.sif data/bids_root/ out/ participant -w work/ Comprehensive documentation on dmriprep can be found at: https://www.nipreps.org/dmriprep/usage.html#usage" |
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===dmriprep=== | ===dmriprep=== | ||
Use singularity exec to execute a specific command within the container. | |||
module load apptainer | module load apptainer | ||
apptainer exec /u/project/CCN/apps/dmriprep/dfmriprep.sif dmriprep -h | |||
apptainer exec /u/project/CCN/apps/dmriprep/dfmriprep.sif data/bids_root/ out/ participant -w work/ | |||
Use apptainer shell to interact with the container's environment through a shell interface. | |||
module load apptainer | |||
apptainer 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 | Comprehensive documentation on dmriprep can be found at: https://www.nipreps.org/dmriprep/usage.html#usage | ||
Latest revision as of 23:17, 13 May 2026
dmriprep
Use singularity exec to execute a specific command within the container.
module load apptainer apptainer exec /u/project/CCN/apps/dmriprep/dfmriprep.sif dmriprep -h apptainer exec /u/project/CCN/apps/dmriprep/dfmriprep.sif data/bids_root/ out/ participant -w work/
Use apptainer shell to interact with the container's environment through a shell interface.
module load apptainer apptainer 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