tests.search.chembl.test_indication_search

Complexity

Total Complexity

2

Size/Duplication

Total Lines	49
Duplicated Lines	0 %

Importance

Changes

0

2 Methods

Rating	Name	Duplication	Size	Complexity
A	TestIndicationSearch.test_cocaine_hcl()	0	10	1
A	TestIndicationSearch.test_find()	0	22	1

import pytest

Unable to import 'pytest'

Missing module docstring

from mandos.cli import Commands, Searcher
from mandos.model.chembl_api import ChemblApi
from chembl_webresource_client.new_client import new_client as Chembl

Unable to import 'chembl_webresource_client.new_client'

from mandos.search.chembl.indication_search import IndicationSearch

Imports from package mandos are not grouped

from .. import get_test_resource


class TestIndicationSearch:

Missing class docstring

    def test_find(self):

This method could be written as a function/class method.

Missing function or method docstring

        df, triples = Commands.trials(get_test_resource("inchis.txt"))

Variable name "df" doesn't conform to snake_case naming style ('([^\\W\\dA-Z][^\\WA-Z]2,|_[^\\WA-Z]*|__[^\\WA-Z\\d_][^\\WA-Z]+__)$' pattern)

        assert len(df) == 6
        assert len(triples) == 6
        assert {t.compound_name.lower() for t in triples} == {"alprazolam"}
        assert {t.object_id for t in triples} == {
            "D012559",
            "D016584",
            "D003704",
            "D001008",
            "D001007",
            "D003866",
        }
        assert {t.object_name.lower() for t in triples} == {
            "schizophrenia",
            "panic disorder",
            "dementia",
            "anxiety",
            "depressive disorder",
            "anxiety disorders",
        }
        assert {t.predicate for t in triples} == {"phase-4 indication", "phase-3 indication"}

    def test_cocaine_hcl(self):

Missing function or method docstring

This method could be written as a function/class method.

        api = ChemblApi.wrap(Chembl)
        df, triples = Searcher(IndicationSearch(api, min_phase=3)).search_for(["CHEMBL529437"])

Variable name "df" doesn't conform to snake_case naming style ('([^\\W\\dA-Z][^\\WA-Z]2,|_[^\\WA-Z]*|__[^\\WA-Z\\d_][^\\WA-Z]+__)$' pattern)

        assert len(df) == 1
        assert len(triples) == 1
        assert triples[0].compound_name.lower() == "cocaine"
        assert triples[0].compound_id == "CHEMBL370805"
        assert triples[0].object_id == "D000758"
        assert triples[0].object_name == "Anesthesia"
        assert triples[0].predicate == "phase-4 indication"


if __name__ == "__main__":
    pytest.main()