mandos.search.pubchem.ctd_gene_search.CtdGeneSearch.find() - Code Metrics - Inspection of "Bump flake8-bugbear from 20.11.1 to 21.3.2" - dmyersturnbull/mandos - Measure and Improve Code Quality continuously with Scrutinizer

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created 2021-03-24 04:54 UTC

CtdGeneSearch.find() A

↳ Parent: mandos.search.pubchem.ctd_gene_search

Complexity

Conditions

Size

Total Lines	19
Code Lines	18

Duplication

Lines	0
Ratio	0 %

Importance

Changes

Metric	Value
cc	1
eloc	18
nop	2
dl	0
loc	19
rs	9.5
c	0
b	0
f	0

from dataclasses import dataclass

from typing import Sequence, Optional

from mandos.search.pubchem import PubchemHit, PubchemSearch


@dataclass(frozen=True, order=True, repr=True)

class CtdGeneHit(PubchemHit):
    """"""

    taxon_id: Optional[int]
    taxon_name: Optional[str]


class CtdGeneSearch(PubchemSearch[CtdGeneHit]):

    """"""

    @property
    def data_source(self) -> str:

        return "Comparative Toxicogenomics Database (CTD)"

    def find(self, inchikey: str) -> Sequence[CtdGeneHit]:

        data = self.api.fetch_data(inchikey)
        return [
            CtdGeneHit(
                record_id=None,
                origin_inchikey=inchikey,
                matched_inchikey=data.names_and_identifiers.inchikey,
                compound_id=str(data.cid),
                compound_name=data.name,
                predicate="gene interaction",
                object_id=dd.gene_name,
                object_name=dd.gene_name,
                search_key=self.key,
                search_class=self.search_class,
                data_source=self.data_source,
                taxon_id=dd.tax_id,
                taxon_name=dd.tax_name,
            )
            for dd in data.biomolecular_interactions_and_pathways.compound_gene_interactions
        ]


__all__ = ["CtdGeneHit", "CtdGeneSearch"]


1			from dataclasses import dataclass
			0 ignored issues – show introduced 2021-03-24 04:52 UTC by Report Bug Copy Issue Report Missing module docstring Loading history...
2			from typing import Sequence, Optional
3
4			from mandos.search.pubchem import PubchemHit, PubchemSearch
5
6
7			@dataclass(frozen=True, order=True, repr=True)
			0 ignored issues – show Documentation introduced 2021-03-10 02:41 UTC by Report Bug Copy Issue Report Empty class docstring Loading history...
8			class CtdGeneHit(PubchemHit):
9			""""""
10
11			taxon_id: Optional[int]
12			taxon_name: Optional[str]
13
14
15			class CtdGeneSearch(PubchemSearch[CtdGeneHit]):
			0 ignored issues – show Documentation introduced 2021-03-24 04:52 UTC by Report Bug Copy Issue Report Empty class docstring Loading history...
16			""""""
17
18			@property
19			def data_source(self) -> str:
			0 ignored issues – show introduced 2021-03-24 04:52 UTC by Report Bug Copy Issue Report Missing function or method docstring Loading history...
20			return "Comparative Toxicogenomics Database (CTD)"
21
22			def find(self, inchikey: str) -> Sequence[CtdGeneHit]:
			0 ignored issues – show introduced 2021-03-21 02:08 UTC by Report Bug Copy Issue Report Missing function or method docstring Loading history...
23			data = self.api.fetch_data(inchikey)
24			return [
25			CtdGeneHit(
26			record_id=None,
27			origin_inchikey=inchikey,
28			matched_inchikey=data.names_and_identifiers.inchikey,
29			compound_id=str(data.cid),
30			compound_name=data.name,
31			predicate="gene interaction",
32			object_id=dd.gene_name,
33			object_name=dd.gene_name,
34			search_key=self.key,
35			search_class=self.search_class,
36			data_source=self.data_source,
37			taxon_id=dd.tax_id,
38			taxon_name=dd.tax_name,
39			)
40			for dd in data.biomolecular_interactions_and_pathways.compound_gene_interactions
41			]
42
43
44			__all__ = ["CtdGeneHit", "CtdGeneSearch"]
45

dmyersturnbull / mandos

Push — dependabot/pip/flake8-bugbear-... ( 82a4d5...16d864 )

CtdGeneSearch.find() A

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