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TestDataPassing.py
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TestDataPassing.py
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import unittest
import DataTreatment
from DataTreatment import getData, openJson, DataType
class CopyData(unittest.TestCase):
'''Class to test how data is copied between functions.'''
expected_simple_return = [
{
"wild-type": False,
"organism": "Mus musculus",
"turnover": "0.02",
},
{
"wild-type": True,
"organism": "Caenorhabditis elegans",
"turnover": "0.052",
},
{
"wild-type": False,
"organism": "Rattus norvegicus",
"turnover": "0.243",
},
{
"wild-type": False,
"organism": "Solanum lycopersicum",
"turnover": "0.38",
},
{
"wild-type": False,
"organism": "Entamoeba histolytica",
"turnover": "0.5",
},
{
"wild-type": False,
"organism": "Entamoeba histolytica",
"turnover": "1.25",
},
{
"wild-type": False,
"organism": "Sulfolobus solfataricus",
"turnover": "1.3",
},
{
"wild-type": False,
"organism": "Escherichia coli",
"turnover": "2.38",
},
{
"wild-type": False,
"organism": "Mus musculus",
"turnover": "3.5",
},
{
"wild-type": False,
"organism": "Caenorhabditis elegans",
"turnover": "4.03",
},
{
"wild-type": False,
"organism": "Caenorhabditis elegans",
"turnover": "5.3",
},
{
"wild-type": False,
"organism": "Homo sapiens",
"turnover": "5.58",
},
{
"wild-type": False,
"organism": "Homo sapiens",
"turnover": "8.1",
},
{
"wild-type": True,
"organism": "Caenorhabditis elegans",
"turnover": "10.17",
},
{
"wild-type": False,
"organism": "Escherichia coli",
"turnover": "13.2",
},
{
"wild-type": False,
"organism": "Anopheles gambiae",
"turnover": "14.3",
},
{
"wild-type": False,
"organism": "Anopheles gambiae",
"turnover": "15.4",
},
{
"wild-type": False,
"organism": "Anopheles gambiae",
"turnover": "15.7",
},
{
"wild-type": False,
"organism": "Mus musculus",
"turnover": "19.97",
},
{
"wild-type": True,
"organism": "Escherichia coli",
"turnover": "22",
},
{
"wild-type": True,
"organism": "Escherichia coli",
"turnover": "22.8",
},
{
"wild-type": True,
"organism": "Mus musculus",
"turnover": "25",
},
{
"wild-type": True,
"organism": "Homo sapiens",
"turnover": "25.78",
},
{
"wild-type": True,
"organism": "Homo sapiens",
"turnover": "27.4",
},
{
"wild-type": True,
"organism": "Mus musculus",
"turnover": "29.5",
},
{
"wild-type": True,
"organism": "Mus musculus",
"turnover": "37",
},
{
"wild-type": True,
"organism": "Mus musculus",
"turnover": "37.88",
},
{
"wild-type": True,
"organism": "Rattus norvegicus",
"turnover": "41.7",
},
{
"wild-type": True,
"organism": "Homo sapiens",
"turnover": "46.57",
},
{
"wild-type": True,
"organism": "Rattus norvegicus",
"turnover": "50",
},
{
"wild-type": True,
"organism": "Aeropyrum pernix",
"turnover": "63.2",
},
{
"wild-type": True,
"organism": "Bos taurus",
"turnover": "1030",
},
{
"wild-type": True,
"organism": "Bos taurus",
"turnover": "1200",
},
{
"wild-type": True,
"organism": "Bos taurus",
"turnover": "1300",
} ]
expected_turnover_return = [
{
"wild-type": False,
"organism": "Mus musculus",
"turnover": "0.02",
},
{
"wild-type": True,
"organism": "Caenorhabditis elegans",
"turnover": "0.052",
},
{
"wild-type": False,
"organism": "Rattus norvegicus",
"turnover": "0.243",
},
{
"wild-type": False,
"organism": "Solanum lycopersicum",
"turnover": "0.38",
},
{
"wild-type": False,
"organism": "Entamoeba histolytica",
"turnover": "0.5",
},
{
"wild-type": False,
"organism": "Entamoeba histolytica",
"turnover": "1.25",
},
{
"wild-type": False,
"organism": "Sulfolobus solfataricus",
"turnover": "1.3",
}]
expected_specific_activity_return = [
{
"wild-type": False,
"organism": "Mus musculus",
"specific activity": "0.02",
},
{
"wild-type": True,
"organism": "Caenorhabditis elegans",
"specific activity": "0.052",
},
{
"wild-type": False,
"organism": "Rattus norvegicus",
"specific activity": "0.243",
},
{
"wild-type": False,
"organism": "Solanum lycopersicum",
"specific activity": "0.38",
},
{
"wild-type": False,
"organism": "Entamoeba histolytica",
"specific activity": "0.5",
},
{
"wild-type": False,
"organism": "Entamoeba histolytica",
"specific activity": "1.25",
},
{
"wild-type": False,
"organism": "Sulfolobus solfataricus",
"specific activity": "1.3",
}]
expected_molecular_weight_return = [
{
"wild-type": False,
"organism": "Mus musculus",
"molecular weight": "0.02",
},
{
"wild-type": True,
"organism": "Caenorhabditis elegans",
"molecular weight": "0.052",
},
{
"wild-type": False,
"organism": "Rattus norvegicus",
"molecular weight": "0.243",
},
{
"wild-type": False,
"organism": "Solanum lycopersicum",
"molecular weight": "0.38",
},
{
"wild-type": False,
"organism": "Entamoeba histolytica",
"molecular weight": "0.5",
},
{
"wild-type": False,
"organism": "Entamoeba histolytica",
"molecular weight": "1.25",
},
{
"wild-type": False,
"organism": "Sulfolobus solfataricus",
"molecular weight": "1.3",
}]
def test_getData(self):
'''Ensure getData can extract and return correct data as a list of dict'''
sample_reaction = openJson('Unit Tests/sample_brenda_reaction.json')
returned_data = getData(sample_reaction, 'thioredoxin',
DataType.turnover)
for index, entry in enumerate(returned_data):
self.assertDictEqual(returned_data[index],
CopyData.expected_simple_return[index])
def test_get_turnover_data_from_mixed(self):
'''Ensure getData can extract and return correct data as a list of dict
when the data_types are mixed.'''
sample_reaction = openJson('Unit Tests/sample_mixed_brenda_reaction.json')
returned_data = getData(sample_reaction, 'thioredoxin',
DataType.turnover)
for index, entry in enumerate(returned_data):
self.assertDictEqual(returned_data[index],
CopyData.expected_turnover_return[index])
def test_get_specific_activity_data_from_mixed(self):
'''Ensure getData can extract specific activities data as a list of dict'''
sample_reaction = openJson('Unit Tests/sample_mixed_brenda_reaction.json')
returned_data = getData(sample_reaction, 'thioredoxin',
DataType.specific_activity)
for index, entry in enumerate(returned_data):
self.assertDictEqual(returned_data[index],
CopyData.expected_specific_activity_return[index])
def test_get_molecular_weight_data_from_mixed(self):
'''Ensure getData can extract specific activities data as a list of dict'''
sample_reaction = openJson('Unit Tests/sample_mixed_brenda_reaction.json')
returned_data = getData(sample_reaction, 'thioredoxin',
DataType.molecular_weight)
for index, entry in enumerate(returned_data):
self.assertDictEqual(returned_data[index],
CopyData.expected_molecular_weight_return[index])
if __name__ == '__main__':
unittest.main()