def test_has_identifing_fields(self):
ent = data_entity.MetadataEntity(name='SAMPLE22')
self.assertTrue(ent.has_identifing_fields())
ent = data_entity.MetadataEntity(name=None)
self.assertFalse(ent.has_identifing_fields())
ent = data_entity.MetadataEntity(name=None, accession_number='EGAS222')
self.assertTrue(ent.has_identifing_fields())
def test_get_all_missing_fields(self):
ent = data_entity.MetadataEntity(name='SAMPLE22')
self.assertDictEqual(
{
'optional_fields': ['accession_number', 'internal_id'],
'mandatory_fields': []
}, ent.get_all_missing_fields())
ent = data_entity.MetadataEntity(name='SAM1', internal_id=1)
self.assertDictEqual(
{
'optional_fields': ['accession_number'],
'mandatory_fields': []
}, ent.get_all_missing_fields())
def test_get_optional_fields_missing(self):
ent = data_entity.MetadataEntity(name='SAMPLE22',
accession_number='EGA12',
internal_id=12)
self.assertListEqual([], ent.get_optional_fields_missing())
ent = data_entity.MetadataEntity(name='SAMPLE22',
accession_number='EGA12')
self.assertListEqual(['internal_id'],
ent.get_optional_fields_missing())
ent = data_entity.MetadataEntity(name='SAMPLE22')
self.assertSetEqual(set(['internal_id', 'accession_number']),
set(ent.get_optional_fields_missing()))
def test_has_enough_metadata(self):
ent = data_entity.MetadataEntity(name=None, accession_number='EGA123')
self.assertFalse(ent.has_enough_metadata())
ent = data_entity.MetadataEntity(name='SAMPL1')
self.assertTrue(ent.has_enough_metadata())
# ent = data_entities.MetadataEntity(internal_id=123)
# self.assertFalse(ent.has_enough_metadata())
ent = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA123',
internal_id=22)
self.assertTrue(ent.has_enough_metadata())
def test_get_mandatory_fields_missing(self):
# @unittest.skip('Skipped because it is impossible to create an entity without name, to be tested on other entities.')
# ent = data_entities.MetadataEntity(accession_number='EGA12', internal_id=12)
# self.assertListEqual(['name'], ent.get_mandatory_fields_missing())
ent = data_entity.MetadataEntity(name='SAMPLE22',
accession_number='EGA12',
internal_id=12)
self.assertListEqual([], ent.get_mandatory_fields_missing())
def test_eq(self):
ent1 = data_entity.MetadataEntity("ent1", "EGA1")
ent2 = data_entity.MetadataEntity("ent2", "EGA2")
self.assertFalse(ent1 == ent2)
ent1 = data_entity.MetadataEntity("ent1", "EGA1")
ent2 = data_entity.MetadataEntity("ent1", "EGA2")
self.assertFalse(ent1 == ent2)
ent1 = data_entity.MetadataEntity("ent1", "EGA1")
ent2 = data_entity.MetadataEntity("ent2", "EGA1")
self.assertTrue(ent1 == ent2)
ent1 = data_entity.MetadataEntity("ent1", "EGA1")
ent2 = data_entity.MetadataEntity("ent1", "EGA1")
self.assertTrue(ent1 == ent2)
ent1 = data_entity.MetadataEntity("ent1", "EGA1", 123)
ent2 = data_entity.MetadataEntity("ent1", "EGA1", 234)
self.assertTrue(ent1 == ent2)
ent1 = data_entity.MetadataEntity("ent1")
ent2 = data_entity.MetadataEntity("ent1", "EGA1")
self.assertTrue(ent1 == ent2)
ent1 = data_entity.MetadataEntity("ent1")
ent2 = data_entity.MetadataEntity("ent1")
self.assertTrue(ent1 == ent2)
ent1 = data_entity.MetadataEntity("ent1", "EGA1", 1)
ent2 = data_entity.MetadataEntity("ent1", "EGA1", 2)
self.assertTrue(ent1 == ent2)
ent1 = data_entity.MetadataEntity(name='SAM1', accession_number="EGA1")
ent2 = data_entity.MetadataEntity(name='SAM2', accession_number="EGA1")
self.assertTrue(ent1 == ent2)
def test_is_field_empty(self):
entity = data_entity.MetadataEntity(name=None)
self.assertTrue(entity.is_field_empty('internal_id'))
entity = data_entity.MetadataEntity(name='JoAnne')
self.assertFalse(entity.is_field_empty('name'))
def test_merge(self):
ent1 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA123')
ent2 = data_entity.MetadataEntity(name='SAMPLE2',
accession_number='EGA123')
self.assertRaises(exceptions.InformationConflictException,
ent1.merge_other, ent2)
ent1 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA123')
ent2 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA123')
ent1.merge_other(ent2)
expected = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA123')
self.assertEqual(ent1, expected)
ent1 = data_entity.MetadataEntity(name='SAMPLE1')
ent2 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA123')
ent1.merge_other(ent2)
expected = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA123')
self.assertEqual(ent1, expected)
ent1 = data_entity.MetadataEntity(name='SAMPLE1')
ent2 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA123',
internal_id=1)
ent1.merge_other(ent2)
expected = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA123',
internal_id=1)
self.assertEqual(ent1, expected)
ent1 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA123',
internal_id=1)
ent2 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA123',
internal_id=1)
ent1.merge_other(ent2)
expected = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA123',
internal_id=1)
self.assertEqual(ent1, expected)
def test_test_if_conflicting_entities(self):
ent1 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA123')
ent2 = data_entity.MetadataEntity(name='SAMPLE2',
accession_number='EGA123')
self.assertRaises(exceptions.InformationConflictException,
ent1.check_if_conflicting_entities, ent2)
ent1 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA1')
ent2 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA2')
self.assertRaises(exceptions.InformationConflictException,
ent1.check_if_conflicting_entities, ent2)
ent1 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA1',
internal_id=1)
ent2 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA1',
internal_id=2)
self.assertRaises(exceptions.InformationConflictException,
ent1.check_if_conflicting_entities, ent2)
ent1 = data_entity.MetadataEntity(name='SAMPLE1', internal_id=1)
ent2 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA1')
self.assertFalse(ent1.check_if_conflicting_entities(ent2))
ent1 = data_entity.MetadataEntity(name=None, internal_id=1)
ent2 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA1',
internal_id=1)
self.assertFalse(ent1.check_if_conflicting_entities(ent2))
ent1 = data_entity.MetadataEntity(name=None, internal_id=1)
ent2 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA1')
self.assertFalse(ent1.check_if_conflicting_entities(ent2))
ent1 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA1',
internal_id=1)
ent2 = data_entity.MetadataEntity(name='SAMPLE1',
accession_number='EGA1',
internal_id=2)
self.assertRaises(exceptions.InformationConflictException,
ent1.check_if_conflicting_entities, ent2)