def test_NodeSet_toJSON(self):
j = '''
{"bio_layer45": {
"model_type": "biophysical",
"location": ["layer4", "layer5"]
},
"V1_point_prime": {
"population": "biophysical",
"model_type": "point",
"node_id": [1, 2, 3, 5, 7, 9]
},
"power_number_test": {
"numeric_attribute_gt": { "$gt": 3 },
"numeric_attribute_lt": { "$lt": 3 },
"numeric_attribute_gte": { "$gte": 3 },
"numeric_attribute_lte": { "$lte": 3 }
},
"power_regex_test": {
"string_attr": { "$regex": "^[s][o]me value$" }
},
"combined": ["bio_layer45", "V1_point_prime"]
}'''
new = NodeSets(j).toJSON()
ns1 = NodeSets(new)
self.assertEqual(new, ns1.toJSON())
ns = NodeSets.from_file(os.path.join(PATH, 'node_sets.json'))
self.assertEqual(new, ns.toJSON())
def test_path_ctor():
# make sure constructors that take file paths can use pathlib.Path
path = pathlib.Path(PATH)
NodeStorage(path / 'nodes1.h5')
EdgeStorage(path / 'edges1.h5')
SpikeReader(path / 'spikes.h5')
SomaReportReader(path / 'somas.h5')
ElementReportReader(path / 'elements.h5')
NodeSets.from_file(path / 'node_sets.json')
CircuitConfig.from_file(path / 'config/circuit_config.json')
def test_BasicScalarPopulation(self):
sel = NodeSets(
'{ "NodeSet0": { "population": "nodes-A" } }').materialize(
"NodeSet0", self.population)
self.assertEqual(sel, self.population.select_all())
sel = NodeSets('{ "NodeSet0": { "population": ["nodes-A", "FAKE"] } }'
).materialize("NodeSet0", self.population)
self.assertEqual(sel, self.population.select_all())
sel = NodeSets(
'{ "NodeSet0": { "population": "NOT_A_POP" } }').materialize(
"NodeSet0", self.population)
self.assertEqual(sel, Selection([]))
def test_BasicScalarAnded(self):
j = '''{"NodeSet0": {"E-mapping-good": "C",
"attr-Y": [21, 22]
}
}'''
sel = NodeSets(j).materialize("NodeSet0", self.population)
self.assertEqual(sel, Selection(((0, 1), )))
def test_NodeSetCompound(self):
j = '''{"NodeSet0": { "node_id": [1] },
"NodeSet1": { "node_id": [2] },
"NodeSetCompound0": ["NodeSet0", "NodeSet1"],
"NodeSetCompound1": ["NodeSetCompound0", "NodeSet2"],
"NodeSet2": { "node_id": [3] }
}'''
sel = NodeSets(j).materialize("NodeSetCompound1", self.population)
self.assertEqual(sel, Selection(((1, 4), )))
def test_BasicScalarEnum(self):
sel = NodeSets(
'{ "NodeSet0": { "E-mapping-good": "C" } }').materialize(
"NodeSet0", self.population)
self.assertEqual(sel, Selection((
(0, 1),
(2, 3),
(4, 6),
)))
def test_NodeSet_toJSON(self):
j = '''
{"bio_layer45": {
"model_type": "biophysical",
"location": ["layer4", "layer5"]
},
"V1_point_prime": {
"population": "biophysical",
"model_type": "point",
"node_id": [1, 2, 3, 5, 7, 9]
},
"combined": ["bio_layer45", "V1_point_prime"]
}'''
new = NodeSets(j).toJSON()
ns1 = NodeSets(new)
self.assertEqual(new, ns1.toJSON())
ns = NodeSets.from_file(os.path.join(PATH, 'node_sets.json'))
self.assertEqual(new, ns.toJSON())
def test_BasicScalarNodeId(self):
sel = NodeSets('{ "NodeSet0": { "node_id": [1, 3, 5] } }').materialize(
"NodeSet0", self.population)
self.assertEqual(sel, Selection(((1, 2), (3, 4), (5, 6))))
def test_BasicScalarString(self):
sel = NodeSets(
'{ "NodeSet0": { "attr-Z": ["aa", "cc"] } }').materialize(
"NodeSet0", self.population)
self.assertEqual(sel, Selection(((0, 1), (2, 3))))
def test_BasicScalarInt(self):
sel = NodeSets('{ "NodeSet0": { "attr-Y": 21 } }').materialize(
"NodeSet0", self.population)
self.assertEqual(sel, Selection(((0, 1), )))