Make PyBIDS database generation optional in `PipelineRunner`

neurodatascience / nipoppy

Lightweight framework for neuroimaging-clinical data organization/processing

https://nipoppy.readthedocs.io/en/latest/

MIT License

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Make PyBIDS database generation optional in `PipelineRunner` #253

Open michellewang opened 1 month ago

michellewang commented 1 month ago

We can either add a config option inside the descriptor itself (Nipoppy custom config), or as a user-specified field under PipelineStepConfig (by default turned off), which would give more flexibility since even fMRIPrep/MRIQC don't strictly need the PyBIDS database to be generated in advance