pyalfe.tasks.initialization

class pyalfe.tasks.initialization.Initialization(pipeline_dir: PipelineDataDir, modalities: list[Modality], overwrite: bool = True)

Bases: Task

This task creates the output directories and links to the original images in the input directory for each modality.

pipeline_dir

The pipeline data directory object.

Type:

PipelineDataDir

modalities

All the modalities for which output directories should be generated.

Type:

list[Modality]

overwrite

Whether to overwrite any existing output image. Default is True.

Type:

bool

logger = <Logger Initialization (DEBUG)>

run(accession: str) → None

Runs the task for an accession.