clinicaltrials_2017_trec-pm-2017.py

"""
""" # TODO
try:
    import ir_datasets
except ImportError as e:
    raise ImportError('ir-datasets package missing; `pip install ir-datasets`')
import datasets

IRDS_ID = 'clinicaltrials/2017/trec-pm-2017'
IRDS_ENTITY_TYPES = {'queries': {'query_id': 'string', 'disease': 'string', 'gene': 'string', 'demographic': 'string', 'other': 'string'}, 'qrels': {'query_id': 'string', 'doc_id': 'string', 'relevance': 'int64', 'iteration': 'string'}}

_CITATION = '@inproceedings{Roberts2017TrecPm,\n  title={Overview of the TREC 2017 Precision Medicine Track},\n  author={Kirk Roberts and Dina Demner-Fushman and Ellen M. Voorhees and William R. Hersh and Steven Bedrick and Alexander J. Lazar and Shubham Pant},\n  booktitle={TREC},\n  year={2017}\n}'

_DESCRIPTION = "" # TODO

class clinicaltrials_2017_trec_pm_2017(datasets.GeneratorBasedBuilder):
    BUILDER_CONFIGS = [datasets.BuilderConfig(name=e) for e in IRDS_ENTITY_TYPES]

    def _info(self):
        return datasets.DatasetInfo(
            description=_DESCRIPTION,
            features=datasets.Features({k: datasets.Value(v) for k, v in IRDS_ENTITY_TYPES[self.config.name].items()}),
            homepage=f"https://ir-datasets.com/clinicaltrials#clinicaltrials/2017/trec-pm-2017",
            citation=_CITATION,
        )

    def _split_generators(self, dl_manager):
        return [datasets.SplitGenerator(name=self.config.name)]

    def _generate_examples(self):
        dataset = ir_datasets.load(IRDS_ID)
        for i, item in enumerate(getattr(dataset, self.config.name)):
            key = i
            if self.config.name == 'docs':
                key = item.doc_id
            elif self.config.name == 'queries':
                key = item.query_id
            yield key, item._asdict()

    def as_dataset(self, split=None, *args, **kwargs):
        split = self.config.name # always return split corresponding with this config to avid returning a redundant DatasetDict layer
        return super().as_dataset(split, *args, **kwargs)