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Refactored code layout

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Harrison Deng
2025-01-16 21:54:52 +00:00
parent bad7dfc3a8
commit a3c864b565
12 changed files with 9 additions and 30 deletions
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5
tests/automlst/engine/remote/databases/ncbi/test_genbank.py
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@@ -1,5 +0,0 @@
from automlst.engine.remote.databases.ncbi.genbank import fetch_ncbi_genbank
async def test_fetch_ncbi_genbank_with_id_works():
assert len((await fetch_ncbi_genbank("CP011448.1")).sequence) > 0

6
tests/automlst/engine/remote/databases/test_bigsdb.py
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@@ -3,10 +3,10 @@ import re
from typing import Collection, Sequence, Union
from Bio import SeqIO
import pytest
from automlst.engine.data.genomics import NamedString
from automlst.engine.data.mlst import Allele, MLSTProfile
from automlst.engine.data.structures.genomics import NamedString
from automlst.engine.data.structures.mlst import Allele, MLSTProfile
from automlst.engine.exceptions.database import NoBIGSdbExactMatchesException, NoBIGSdbMatchesException
from automlst.engine.remote.databases.bigsdb import BIGSdbIndex, BIGSdbMLSTProfiler
from automlst.engine.data.remote.databases.bigsdb import BIGSdbIndex, BIGSdbMLSTProfiler
def gene_scrambler(gene: str, mutation_site_count: Union[int, float], alphabet: Sequence[str] = ["A", "T", "C", "G"]):
rand = random.Random(gene)