Changed allele CSV output to non-lists
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@ -1,7 +1,6 @@
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import csv
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from io import TextIOWrapper
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from os import PathLike
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from typing import AsyncIterable, Iterable, Mapping, Sequence, Union
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from typing import AsyncIterable, Mapping, Sequence, Union
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from automlst.engine.data.structures.mlst import Allele, MLSTProfile
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@ -11,6 +10,7 @@ def dict_loci_alleles_variants_from_loci(alleles_map: Mapping[str, Sequence[Alle
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for loci, alleles in alleles_map.items():
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if len(alleles) == 1:
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result_dict[loci] = alleles[0].allele_variant
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else:
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for allele in alleles:
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result_locis = list()
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result_locis.append(allele.allele_variant)
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12
tests/automlst/engine/data/local/test_csv.py
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12
tests/automlst/engine/data/local/test_csv.py
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@ -0,0 +1,12 @@
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from automlst.engine.data.local.csv import dict_loci_alleles_variants_from_loci
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from automlst.engine.data.structures.mlst import Allele
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def test_dict_loci_alleles_variants_from_loci_single_loci_not_list():
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alleles_map = {
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"adk": [Allele("adk", "1", None)]
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}
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results = dict_loci_alleles_variants_from_loci(alleles_map)
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for loci, variant in results.items():
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assert isinstance(variant, str)
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assert variant == "1"
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