def dumps(self, obj, **kwargs):
"""
Serialize a gemd object, or container of them, into a json-formatting string.
Parameters
----------
obj: DictSerializable or List[DictSerializable]
The object(s) to serialize to a string.
**kwargs: keyword args, optional
Optional keyword arguments to pass to `json.dumps()`.
Returns
-------
str
A string version of the serialized objects.
"""
# create a top level list of [flattened_objects, link-i-fied return value]
res = {"object": obj}
additional = flatten(res)
res = substitute_links(res)
res["context"] = additional
return json_builtin.dumps(res,
cls=GEMDEncoder,
sort_keys=True,
**kwargs)
def test_complex_substitutions():
"""Make sure accounting works for realistic objects."""
root = MaterialRun("root",
process=ProcessRun("root", spec=ProcessSpec("root")),
spec=MaterialSpec("root"))
root.spec.process = root.process.spec
input = MaterialRun("input",
process=ProcessRun("input", spec=ProcessSpec("input")),
spec=MaterialSpec("input"))
input.spec.process = input.process.spec
IngredientRun(process=root.process,
material=input,
spec=IngredientSpec("ingredient",
process=root.process.spec,
material=input.spec))
param = ParameterTemplate("Param", bounds=RealBounds(-1, 1, "m"))
root.process.spec.template = ProcessTemplate("Proc", parameters=[param])
root.process.parameters.append(
Parameter("Param", value=NormalReal(0, 1, 'm'), template=param))
links = flatten(root, scope="test-scope")
index = make_index(links)
rebuild = substitute_objects(links, index, inplace=True)
rebuilt_root = next(x for x in rebuild
if x.name == root.name and x.typ == root.typ)
all_objs = recursive_flatmap(rebuilt_root,
func=lambda x: [x],
unidirectional=False)
unique = [x for i, x in enumerate(all_objs) if i == all_objs.index(x)]
assert not any(isinstance(x, LinkByUID) for x in unique), "All are objects"
assert len(links) == len(unique), "Objects are missing"
def test_flatten_bounds():
"""Test that flatten works when the objects contain other objects."""
bounds = CategoricalBounds(categories=["foo", "bar"])
template = ProcessTemplate(
"spam",
conditions=[(ConditionTemplate(name="eggs", bounds=bounds), bounds)]
)
spec = ProcessSpec(name="spec", template=template)
flat = flatten(spec, 'test-scope')
assert len(flat) == 2, "Expected 2 flattened objects"
def test_flatten():
"""Test that gemd utility methods can be applied to citrine-python objects.
Citrine-python resources extend the gemd data model, so the gemd operations
should work on them.
"""
bounds = CategoricalBounds(categories=["foo", "bar"])
template = ProcessTemplate(
"spam",
conditions=[(ConditionTemplate(name="eggs", bounds=bounds), bounds)]
)
spec = ProcessSpec(name="spec", template=template)
flat = flatten(spec, scope='testing')
assert len(flat) == 3, "Expected 3 flattened objects"
def test_equality():
"""Test that equality check works as expected."""
spec = ProcessSpec("A spec", tags=["a tag"])
run1 = ProcessRun("A process", spec=spec)
run2 = deepcopy(run1)
assert run1 == run2, "Copy somehow failed"
IngredientRun(process=run2)
assert run1 != run2
run3 = deepcopy(run2)
assert run3 == run2, "Copy somehow failed"
run3.ingredients[0].tags.append('A tag')
assert run3 != run2
run4 = next(x for x in flatten(run3, 'test-scope')
if isinstance(x, ProcessRun))
assert run4 == run3, "Flattening removes measurement references, but that's okay"
def test_flatten_empty_history():
"""Test that flatten works when the objects are empty and go through a whole history."""
procured = ProcessSpec(name="procured")
input = MaterialSpec(name="foo", process=procured)
transform = ProcessSpec(name="transformed")
ingredient = IngredientSpec(name="input", material=input, process=transform)
procured_run = ProcessRun(name="procured", spec=procured)
input_run = MaterialRun(name="foo", process=procured_run, spec=input)
transform_run = ProcessRun(name="transformed", spec=transform)
ingredient_run = IngredientRun(material=input_run, process=transform_run, spec=ingredient)
assert len(flatten(procured)) == 1
assert len(flatten(input)) == 1
assert len(flatten(ingredient)) == 3
assert len(flatten(transform)) == 3
assert len(flatten(procured_run)) == 3
assert len(flatten(input_run)) == 3
assert len(flatten(ingredient_run)) == 7
assert len(flatten(transform_run)) == 7
def test_equality():
"""Test that equality check works as expected."""
spec1 = ProcessSpec("A spec")
spec2 = ProcessSpec("A spec", tags=["a tag"])
assert spec1 != spec2
spec3 = deepcopy(spec1)
assert spec1 == spec3, "Copy somehow failed"
IngredientSpec("An ingredient", process=spec3)
assert spec1 != spec3
spec4 = deepcopy(spec3)
assert spec4 == spec3, "Copy somehow failed"
spec4.ingredients[0].tags.append('A tag')
assert spec4 != spec3
spec5 = next(x for x in flatten(spec4, 'test-scope')
if isinstance(x, ProcessSpec))
assert spec5 == spec4, "Flattening removes measurement references, but that's okay"
def test_default_scope():
"""Test flatten exceptions around providing a scope."""
ps_one = ProcessSpec(name="one")
with pytest.raises(ValueError):
flatten(ps_one)
pr_one = ProcessRun(name="one", uids={'my': 'outer'}, spec=ps_one)
with pytest.raises(ValueError):
flatten(pr_one)
ps_one.uids['my'] = 'id'
assert len(flatten(pr_one)) == 2
two = ProcessRun(name="two", spec=ProcessSpec(name="two"))
assert len(flatten(two, scope="my")) == 2
def test_equality():
"""Test that equality check works as expected."""
spec = MaterialSpec("A spec",
properties=PropertyAndConditions(
property=Property("a property", value=NominalReal(3, ''))),
tags=["a tag"])
mat1 = MaterialRun("A material", spec=spec)
mat2 = MaterialRun("A material", spec=spec, tags=["A tag"])
assert mat1 == deepcopy(mat1)
assert mat1 != mat2
assert mat1 != "A material"
mat3 = deepcopy(mat1)
assert mat1 == mat3, "Copy somehow failed"
MeasurementRun("A measurement", material=mat3)
assert mat1 != mat3
mat4 = deepcopy(mat3)
assert mat4 == mat3, "Copy somehow failed"
mat4.measurements[0].tags.append('A tag')
assert mat4 != mat3
mat5 = next(x for x in flatten(mat4, 'test-scope') if isinstance(x, MaterialRun))
assert mat5 == mat4, "Flattening removes measurement references, but that's okay"
