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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
import pytest
@pytest.mark.unit_test
def test_fill_csv():
test_input = """
Strain Name,Value,SE,Count
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"))
@pytest.mark.unit_test
def test_remove_insignificant_data():
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():
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():
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():
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():
assert(extract_strain_name(csv_header="Strain Name,Value,SE,Count",
data="BXD1,18,x,0") ==
"BXD1")
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