def test_sasformat_type(self):
attrs = {
"OID": "ODM.CL.LBTESTCD",
"Name": "Laboratory Test Code",
"DataType": "text",
"SASFormatName": "$AETERM"
}
cl = ODM.CodeList(**attrs)
self.assertEqual(cl.SASFormatName, "$AETERM")
# start with an underscore
attrs["SASFormatName"] = "_AETERM"
cl = ODM.CodeList(**attrs)
self.assertEqual(cl.SASFormatName, "_AETERM")
# start with a number
attrs["SASFormatName"] = "9AETERM"
with self.assertRaises(ValueError):
cl = ODM.CodeList(**attrs)
# end with a symbol
attrs["SASFormatName"] = "AETERM%"
with self.assertRaises(ValueError):
cl = ODM.CodeList(**attrs)
# test with none - does not throw an error when value is None
attrs["SASFormatName"] = None
cl = ODM.CodeList(**attrs)
self.assertIsNone(cl.SASFormatName)
def test_to_dict(self):
attrs = self._set_attributes()
cl = ODM.CodeList(**attrs)
eni = ODM.EnumeratedItem(CodedValue="HGB", OrderNumber=1)
eni.Alias = [ODM.Alias(Context="nci:ExtCodeID", Name="C64848")]
cl.EnumeratedItem.append(eni)
eni.Alias.append(ODM.Alias(Context="nci:ExtCodeID", Name="C65047"))
cl_dict = cl.to_dict()
self.assertDictEqual(cl_dict, self.expected_json_dict())
def test_to_xml(self):
attrs = self._set_attributes()
cl = ODM.CodeList(**attrs)
eni = ODM.EnumeratedItem(CodedValue="HGB", OrderNumber=1)
eni.Alias = [ODM.Alias(Context="nci:ExtCodeID", Name="C64848")]
cl.EnumeratedItem.append(eni)
eni.Alias.append(ODM.Alias(Context="nci:ExtCodeID", Name="C65047"))
cl_xml = cl.to_xml()
self.assertEqual(cl_xml.attrib["OID"], "ODM.CL.LBTESTCD")
ei = cl_xml.find("EnumeratedItem")
self.assertEqual(ei.attrib["CodedValue"], "HGB")
def test_to_xml_external_code_list(self):
attrs = self._set_attributes()
cl = ODM.CodeList(**attrs)
excl = ODM.ExternalCodeList(Dictionary="MedDRA",
Version="23.0",
href="https://www.meddra.org/")
cl.ExternalCodeList = excl
cl_xml = cl.to_xml()
self.assertEqual(cl_xml.attrib["OID"], "ODM.CL.LBTESTCD")
ecl = cl_xml.find("ExternalCodeList")
self.assertEqual(ecl.attrib["Dictionary"], "MedDRA")
def test_ExternalCodeList(self):
attrs = {
"OID": "ODM.CL.LBTESTCD",
"Name": "Laboratory Test Code",
"DataType": "text"
}
cl = ODM.CodeList(**attrs)
excl = ODM.ExternalCodeList(Dictionary="MedDRA",
Version="23.0",
href="https://www.meddra.org/")
cl.ExternalCodeList = excl
cl_dict = cl.to_dict()
is_valid = self.validator.verify_conformance(cl_dict, "CodeList")
self.assertTrue(is_valid)
def test_CodeList(self):
attrs = {
"OID": "ODM.CL.LBTESTCD",
"Name": "Laboratory Test Code",
"DataType": "text"
}
cl = ODM.CodeList(**attrs)
eni = ODM.EnumeratedItem(CodedValue="HGB", OrderNumber=1)
eni.Alias = [ODM.Alias(Context="nci:ExtCodeID", Name="C64848")]
cl.EnumeratedItem.append(eni)
eni.Alias.append(ODM.Alias(Context="nci:ExtCodeID", Name="C65047"))
cl_dict = cl.to_dict()
print(cl_dict)
is_valid = self.validator.verify_conformance(cl_dict, "CodeList")
self.assertTrue(is_valid)
def add_CL(self):
tt1 = ODM.TranslatedText(_content="No", lang="en")
dc1 = ODM.Decode()
dc1.TranslatedText = [tt1]
cli1 = ODM.CodeListItem(CodedValue="N")
cli1.Decode = dc1
tt2 = ODM.TranslatedText(_content="Yes", lang="en")
dc2 = ODM.Decode()
dc2.TranslatedText = [tt2]
cli2 = ODM.CodeListItem(CodedValue="Y")
cli2.Decode = dc2
cl = ODM.CodeList(OID="ODM.CL.NY_SUB_Y_N",
Name="No Yes Response",
DataType="text")
cl.CodeListItem = [cli1, cli2]
return [cl]
def test_to_xml_code_list_item(self):
attrs = self._set_attributes()
cl = ODM.CodeList(**attrs)
cli1 = ODM.CodeListItem(CodedValue="HGB", OrderNumber=1)
cli1.Alias = [ODM.Alias(Context="nci:ExtCodeID", Name="C64848")]
cl.CodeListItem.append(cli1)
cli2 = ODM.CodeListItem(CodedValue="VITB12", OrderNumber=2)
cli2.Alias.append(ODM.Alias(Context="nci:ExtCodeID", Name="C64817"))
cl.CodeListItem.append(cli2)
cli3 = ODM.CodeListItem(CodedValue="GLUC", OrderNumber=3)
cli3.Alias.append(ODM.Alias(Context="nci:ExtCodeID", Name="C41376"))
cl.CodeListItem.append(cli3)
cl_xml = cl.to_xml()
self.assertEqual(cl_xml.attrib["OID"], "ODM.CL.LBTESTCD")
ei = cl_xml.findall("CodeListItem")
self.assertEqual(ei[0].attrib["CodedValue"], "HGB")
def setUp(self) -> None:
attrs = self._set_attributes()
self.cl = ODM.CodeList(**attrs)
