def test_insert_double_edge_in(self):
with self.g.session_scope() as s:
case = md.Case('case_id_1')
sample1 = md.Sample('sample_id_1')
sample2 = md.Sample('sample_id_2')
case.samples = [sample1, sample2]
s.merge(case)
def test_delete_dst_association_proxy(self):
with self.g.session_scope() as s:
case = md.Case('case_id_1')
aliquot = md.Aliquot('aliquot_id_1')
sample = md.Sample('sample_id_1')
aliquot.samples = [sample]
sample.cases = [case]
s.merge(case)
def test_insert_update_children(self):
with self.g.session_scope() as s:
aliquot = s.merge(md.Aliquot('aliquot_id_1'))
sample = s.merge(md.Sample('sample_id_1'))
aliquot.samples = [sample]
s.merge(md.Case('case_id_1'))
with self.g.session_scope() as s:
case = self.g.nodes(md.Case).one()
sample = self.g.nodes(md.Sample).one()
sample.cases = [case]
def test_insert_double_edge_out(self):
with self.g.session_scope() as s:
case1 = md.Case('case_id_1')
case2 = md.Case('case_id_2')
sample = md.Sample('sample_id_1')
sample.cases = [case1, case2]
s.merge(sample)
with self.g.session_scope() as s:
sample = self.g.nodes(md.Sample).subq_path('cases').one()
assert {c.node_id for c in sample._related_cases} == \
{c.node_id for c in [case1, case2]}
def test_no_datetime_update_for_new_edge(self):
"""Verify new inbound edges do not affect a node's updated datetime."""
with self.g.session_scope() as s:
s.merge(md.Case('case1'))
with self.g.session_scope() as s:
case = self.g.nodes(md.Case).one()
old_created_datetime = case.created_datetime
old_updated_datetime = case.updated_datetime
sample = s.merge(md.Sample('sample1'))
case.samples.append(sample)
def test_preserve_timestamps(self):
"""Confirm cache changes do not affect the case's timestamps."""
with self.g.session_scope() as s:
s.merge(md.Case('case_id_1'))
with self.g.session_scope():
case = self.g.nodes(md.Case).one()
old_created_datetime = case.created_datetime
old_updated_datetime = case.updated_datetime
# Test addition of cache edges.
sample = md.Sample('sample_id_1')
portion = md.Portion('portion_id_1')
analyte = md.Analyte('analyte_id_1')
aliquot = md.Aliquot('aliquot_id_1')
sample.cases = [case]
portion.samples = [sample]
analyte.portions = [portion]
aliquot.analytes = [analyte]
sample2 = md.Sample('sample_id_2')
sample2.cases = [case]
def test_insert_multiple_edges(self):
with self.g.session_scope() as s:
case = md.Case('case_id_1')
sample = md.Sample('sample_id_1')
portion = md.Portion('portion_id_1')
analyte = md.Analyte('analyte_id_1')
aliquot = md.Aliquot('aliquot_id_1')
general_file = md.File('file_id_1')
sample.cases = [case]
portion.samples = [sample]
analyte.portions = [portion]
aliquot.analytes = [analyte]
general_file.aliquots = [aliquot]
s.merge(case)
def test_delete_one_parent(self):
with self.g.session_scope() as s:
case1 = md.Case('case_id_1')
case2 = md.Case('case_id_2')
sample = md.Sample('sample_id_1')
sample.cases = [case1, case2]
s.merge(sample)
with self.g.session_scope() as s:
case1 = self.g.nodes(md.Case).ids('case_id_1').one()
s.delete(case1)
with self.g.session_scope() as s:
sample = self.g.nodes(md.Sample).one()
assert sample._related_cases == [case2]
def test_type_validation(self):
f = md.File()
with self.assertRaises(ValidationError):
f.file_size = '0'
f.file_size = 0
f = md.File()
with self.assertRaises(ValidationError):
f.file_name = 0
f.file_name = '0'
s = md.Sample()
with self.assertRaises(ValidationError):
s.is_ffpe = 'false'
s.is_ffpe = False
s = md.Slide()
with self.assertRaises(ValidationError):
s.percent_necrosis = '0.0'
s.percent_necrosis = 0.0
def test_insert_single_association_proxy(self):
with self.g.session_scope() as s:
case = md.Case('case_id_1')
sample = md.Sample('sample_id_1')
sample.cases = [case]
s.merge(sample)
def test_insert_single_edge(self):
with self.g.session_scope() as s:
case = s.merge(md.Case('case_id_1'))
sample = s.merge(md.Sample('sample_id_1'))
edge = md.SampleDerivedFromCase(sample.node_id, case.node_id)
s.merge(edge)
def test_delete_parent(self):
with self.g.session_scope() as s:
case = md.Case('case_id_1')
sample = md.Sample('sample_id_1')
sample.cases = [case]
s.merge(case)
