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from dataclasses import dataclass |
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from typing import Sequence |
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from mandos.model.pubchem_api import PubchemApi |
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from mandos.search.pubchem import PubchemHit, PubchemSearch |
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@dataclass(frozen=True, order=True, repr=True) |
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class DgiHit(PubchemHit): |
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"""""" |
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@dataclass(frozen=True, order=True, repr=True) |
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class CgiHit(PubchemHit): |
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"""""" |
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View Code Duplication |
class DgiSearch(PubchemSearch[DgiHit]): |
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"""""" |
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def __init__(self, key: str, api: PubchemApi): |
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super().__init__(key, api) |
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@property |
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def data_source(self) -> str: |
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return "The Drug Gene Interaction Database (DGIdb)" |
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def find(self, inchikey: str) -> Sequence[DgiHit]: |
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data = self.api.fetch_data(inchikey) |
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return [ |
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DgiHit( |
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record_id=None, |
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origin_inchikey=inchikey, |
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matched_inchikey=data.names_and_identifiers.inchikey, |
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compound_id=str(data.cid), |
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compound_name=data.name, |
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predicate=f"interacts with gene (drug)", |
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object_id=dd.gene_claim_id, |
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object_name=dd.gene_name, |
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search_key=self.key, |
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search_class=self.search_class, |
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data_source=self.data_source, |
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) |
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for dd in data.biomolecular_interactions_and_pathways.drug_gene_interactions |
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] |
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View Code Duplication |
class CgiSearch(PubchemSearch[CgiHit]): |
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"""""" |
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def __init__(self, key: str, api: PubchemApi): |
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super().__init__(key, api) |
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@property |
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def data_source(self) -> str: |
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return "The Drug Gene Interaction Database (DGIdb)" |
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def find(self, inchikey: str) -> Sequence[DgiHit]: |
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data = self.api.fetch_data(inchikey) |
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return [ |
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DgiHit( |
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record_id=None, |
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origin_inchikey=inchikey, |
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matched_inchikey=data.names_and_identifiers.inchikey, |
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compound_id=str(data.cid), |
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compound_name=data.name, |
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predicate=f"interacts with gene (compound)", |
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object_id=dd.gene_name, |
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object_name=dd.gene_name, |
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search_key=self.key, |
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search_class=self.search_class, |
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data_source=self.data_source, |
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) |
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for dd in data.biomolecular_interactions_and_pathways.compound_gene_interactions |
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] |
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__all__ = ["DgiHit", "DgiSearch", "CgiHit", "CgiSearch"] |
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dmyersturnbull /
mandos
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