`nipoppy doughnut`¶

Note

This command calls the nipoppy.workflows.doughnut.DoughnutWorkflow class from the Python API internally.

Logfiles for this command can be found in {{dpath_logs}}/doughnut.

nipoppy doughnut¶

Create or update a dataset’s doughnut file.

nipoppy doughnut [OPTIONS] [DATASET_ARGUMENT]

Options

--dataset <dpath_root>¶

Path to the root of the dataset (default is current working directory).

Default:: PosixPath('/home/docs/checkouts/readthedocs.org/user_builds/nipoppy/checkouts/0.3.4/docs/source')

--empty¶: Set all statuses to False in newly added records (regardless of what is on disk). May be useful to reduce runtime.

-f, --regenerate, --force¶: Regenerate the doughnut file even if it already exists (default: only append rows for new records)

--layout <fpath_layout>¶: Path to a custom layout specification file, to be used instead of the default layout.

Arguments