Pipeline.run

Pipeline.run(short_name=None, catch=True, overwrite=True, overwrite_dependencies=False, method='single', values=None)

Generates all files matching the short_name and variables

Parameters

• short_name – sequence of short names to produce

• catch – If True catches any errors incurred while running scripts

• overwrite – overwrites the requested output files even if they already exist

• overwrite_dependencies – overwrites the dependencies of the requested output files even if they already exist

• method – Method to submit job. One of ‘single’ (runs job in sequence), ‘dask’ (runs job in parallel on single machine), or ‘submit’ (submits job using fsl_sub)

• values – Limits the variables to the options listed in this dictionary (overwrites any values set in all_values)