ydeng/autoBIGS.engine
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Moved to a general BIGSdb implementation

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Updated tests

Removed ABIF UI for the time being

Began updating CLI
This commit is contained in:
Harrison Deng
2025-01-08 21:32:10 +00:00
parent 645357ac58
commit 42d0f56b18
20 changed files with 403 additions and 414 deletions
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8
tests/nsbdiagnosistoolkit/engine/local/test_abif.py
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@@ -1,8 +1,12 @@
import os
from automlst.engine.local.abif import read_abif
from automlst.engine.local.abif import read_abif, reference_consensus_assembly
async def test_load_sanger_sequence_has_data():
assert os.path.exists("tests/resources/1I1_F_P1815443_047.ab1")
result_data = await read_abif("tests/resources/1I1_F_P1815443_047.ab1")
assert result_data is not None
assert result_data is not None
async def test_consensus_assembly_with_ncbi():
consensus = reference_consensus_assembly("ON685494.1", [await read_abif("tests/resources/1I1_F_P1815443_047.ab1"), await read_abif("tests/resources/1I1_R_P1815443_094.ab1")])
# TODO complete implementing this