torchcell.datasets.scerevisiae.auesukaree2009.EnvChemgenAuesukaree2009Dataset

class EnvChemgenAuesukaree2009Dataset(root: str = 'data/torchcell/env_chemgen_auesukaree2009', io_workers: int = 0, transform: Callable[[...], Any] | None = None, pre_transform: Callable[[...], Any] | None = None, **kwargs: Any)

Bases: ExperimentDataset

Auesukaree 2009 six-stress env x geno -> categorical sensitivity dataset.

organism: ClassVar[Organism] = 'scerevisiae'

each loader declares its own, the build’s organism switch reads it off the class (dataset_organism), and a loader that forgot it is refused by name instead of inheriting an organism it may not have.

Type:

The host organism every record describes. Annotated here WITHOUT a value

property experiment_class: type[Experiment]

Experiment schema class produced by this dataset.

property reference_class: type[ExperimentReference]

Experiment-reference schema class produced by this dataset.

property raw_file_names: list[str]

The mirrored publisher PDF (born-digital source of the sensitive-gene tables).

download() → None

Copy the pinned PDF from the raw mirror into raw_dir; verify its sha256.

process() → None

Parse the six stress tables into categorical records; write LMDB + drop log.

preprocess_raw(df: Any, preprocess: dict[str, Any] | None = None) → Any

Preprocessing is handled inside process() for this dataset.

create_experiment() → None

Experiment construction is handled inline in process() for this dataset.