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"""Tests for gn3.csvcmp"""
import pytest
from gn3.csvcmp import csv_diff
from gn3.csvcmp import fill_csv
from gn3.csvcmp import remove_insignificant_edits
from gn3.csvcmp import extract_strain_name
@pytest.mark.unit_test
def test_fill_csv():
"""Test that filling a csv works properly"""
test_input = """
Strain Name,Value,SE,Count,Sex
BXD1,18,x,0,
BXD12,16,x,x,
BXD14,15,x,x,
BXD15,14,x,x
"""
expected_output = """Strain Name,Value,SE,Count,Sex
BXD1,18,x,0,x
BXD12,16,x,x,x
BXD14,15,x,x,x
BXD15,14,x,x,x"""
assert fill_csv(test_input, width=5, value="x") == expected_output
@pytest.mark.unit_test
def test_remove_insignificant_data():
"""Test that values outside ε are removed/ ignored"""
diff_data = {
"Additions": [],
"Deletions": [],
"Modifications": [
{"Current": "1.000001,3", "Original": "1,3"},
{"Current": "1,3", "Original": "1.000001,3"},
{"Current": "2.000001,3", "Original": "2,2"},
{"Current": "1.01,3", "Original": "1,2"},
],
}
expected_json = {
"Additions": [],
"Deletions": [],
"Modifications": [
{"Current": "2,3", "Original": "2,2"},
{"Current": "1.01,3", "Original": "1,2"},
],
}
assert remove_insignificant_edits(diff_data) == expected_json
@pytest.mark.unit_test
def test_csv_diff_same_columns():
"""Test csv diffing on data with the same number of columns"""
assert csv_diff(base_csv="a,b\n1,2\n", delta_csv="a,b\n1,3") == {
"Additions": [],
"Deletions": [],
"Columns": "",
"Modifications": [{"Current": "1,3", "Original": "1,2"}],
}
@pytest.mark.unit_test
def test_csv_diff_different_columns():
"""Test csv diffing on data with different columns"""
base_csv = """
Strain Name,Value,SE,Count
BXD1,18,x,0
BXD12,16,x,x
BXD14,15,x,x
BXD15,14,x,x
"""
delta_csv = """Strain Name,Value,SE,Count,Sex
BXD1,18,x,0
BXD12,16,x,x,1
BXD14,15,x,x
BXD15,14,x,x"""
assert csv_diff(base_csv=base_csv, delta_csv=delta_csv) == {
"Additions": [],
"Columns": "Strain Name,Value,SE,Count,Sex",
"Deletions": [],
"Modifications": [{"Current": "BXD12,16,x,x,1", "Original": "BXD12,16,x,x,x"}],
}
@pytest.mark.unit_test
def test_csv_diff_only_column_change():
"""Test csv diffing when only the column header change"""
base_csv = """
Strain Name,Value,SE,Count
BXD1,18,x,0
BXD12,16,x,x
BXD14,15,x,x
BXD15,14,x,x
"""
delta_csv = """Strain Name,Value,SE,Count,Sex
BXD1,18,x,0
BXD12,16,x,x
BXD14,15,x,x
BXD15,14,x,x
"""
assert csv_diff(base_csv=base_csv, delta_csv=delta_csv) == {
"Additions": [],
"Deletions": [],
"Modifications": [],
}
@pytest.mark.unit_test
def test_extract_strain_name():
"""Test that the strain's name is extracted given a csv header"""
assert (
extract_strain_name(csv_header="Strain Name,Value,SE,Count", data="BXD1,18,x,0")
== "BXD1"
)
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