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_scope_control():
"""Serializing a nested object should be identical to individually serializing each piece."""
input_material = MaterialSpec()
process = ProcessSpec()
IngredientSpec(material=input_material, process=process)
material = MaterialSpec(process=process)
# Verify the default scope is there
default_json = GEMDJson()
default_text = default_json.dumps(material)
assert "auto" in default_text
assert "custom" not in default_text
# Clear out ids
input_material.uids = {}
process.uids = {}
process.ingredients[0].uids = {}
input_material.uids = {}
material.uids = {}
# Verify the default scope is there
custom_json = GEMDJson(scope='custom')
custom_text = custom_json.dumps(material)
assert "auto" not in custom_text
assert "custom" in custom_text
def test_process_reassignment():
"""Test that a material can be assigned to a new process."""
drying = ProcessSpec("drying")
welding = ProcessSpec("welding")
powder = MaterialSpec("Powder", process=welding)
assert powder.process == welding
assert welding.output_material == powder
powder.process = drying
assert powder.process == drying
assert drying.output_material == powder
assert welding.output_material is None
def test_material_spec():
"""Test that Process/Material Spec link survives serialization."""
# Create a ProcessSpec
proc_spec = ProcessSpec(name="a process spec", tags=["tag1", "tag2"])
# Create MaterialSpec without a ProcessSpec
prop = Property(name="The material is a solid",
value=DiscreteCategorical(probabilities="solid"))
mat_spec = MaterialSpec(name="a material spec",
properties=PropertyAndConditions(prop))
assert mat_spec.process is None, \
"MaterialSpec should be initialized with no ProcessSpec, by default"
# Assign a ProcessSpec to mat_spec, first ensuring that the type is enforced
with pytest.raises(TypeError):
mat_spec.process = 17
mat_spec.process = proc_spec
# Assert circular links
assert dumps(proc_spec.output_material.process) == dumps(proc_spec), \
"ProcessSpec should link to MaterialSpec that links back to itself"
assert dumps(mat_spec.process.output_material) == dumps(mat_spec), \
"MaterialSpec should link to ProcessSpec that links back to itself"
# Make copies of both specs
mat_spec_copy = loads(dumps(mat_spec))
proc_spec_copy = loads(dumps(proc_spec))
assert proc_spec_copy.output_material == mat_spec, \
"Serialization should preserve link from ProcessSpec to MaterialSpec"
assert mat_spec_copy.process == proc_spec, \
"Serialization should preserve link from MaterialSpec to ProcessSpec"
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_template_access():
"""A process run's template should be equal to its spec's template."""
template = ProcessTemplate("process template", uids={'id': str(uuid4())})
spec = ProcessSpec("A spec", uids={'id': str(uuid4())}, template=template)
proc = ProcessRun("A run", uids={'id': str(uuid4())}, spec=spec)
assert proc.template == template
proc.spec = LinkByUID.from_entity(spec)
assert proc.template is None
def test_dependencies():
"""Test that dependency lists make sense."""
ps = ProcessSpec(name="ps")
pr = ProcessRun(name="pr", spec=ps)
ms = MaterialSpec(name="ms", process=ps)
mr = MaterialRun(name="mr", spec=ms, process=pr)
assert ps not in mr.all_dependencies()
assert pr in mr.all_dependencies()
assert ms in mr.all_dependencies()
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 make_node(name: str,
*,
process_name: str = None,
process_template: ProcessTemplate = None,
material_template: MaterialTemplate = None) -> MaterialRun:
"""
Generate a material-process spec-run quadruple.
Parameters
----------
name: str
Name of the MaterialRun and MaterialSpec.
process_name: str
Name of the ProcessRun and ProcessSpec. Defaults to
`process_template.name` if `process_template` is defined, else `name`.
process_template: ProcessTemplate
ProcessTemplate for the quadruple.
material_template: MaterialTemplate
MaterialTemplate for the quadruple.
Returns
--------
MaterialRun
A MaterialRun with linked processes, specs and templates
"""
if process_name is None:
if process_template is None:
process_name = name
else:
process_name = process_template.name
my_process_spec = ProcessSpec(
name=process_name,
template=process_template
)
my_process_run = ProcessRun(
name=process_name,
spec=my_process_spec
)
my_mat_spec = MaterialSpec(
name=name,
process=my_process_spec,
template=material_template
)
my_mat_run = MaterialRun(
name=name,
process=my_process_run,
spec=my_mat_spec
)
return my_mat_run
def test_substitute_equivalence():
"""PLA-6423: verify that substitutions match up."""
spec = ProcessSpec(name="old spec", uids={'scope': 'spec'})
run = ProcessRun(name="old run",
uids={'scope': 'run'},
spec=LinkByUID(id='spec', scope="scope"))
# make a dictionary from ids to objects, to be used in substitute_objects
gem_index = make_index([run, spec])
substitute_objects(obj=run, index=gem_index, inplace=True)
assert spec == run.spec
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_inplace_v_not():
"""Test that client can copy a dictionary in which keys are BaseEntity objects."""
spec = ProcessSpec("A process spec", uids={'id': str(uuid4()), 'auto': str(uuid4())})
run1 = ProcessRun("A process run", spec=spec, uids={'id': str(uuid4()), 'auto': str(uuid4())})
run2 = ProcessRun("Another process run", spec=spec, uids={'id': str(uuid4())})
process_dict = {spec: [run1, run2]}
subbed = substitute_links(process_dict)
assert subbed != process_dict # This is true because the hashes change, even if objects equal
substitute_links(process_dict, inplace=True)
assert subbed == process_dict
def test_ingredient_spec():
"""Tests that a process can house an ingredient, and that pairing survives serialization."""
# Create a ProcessSpec
proc_spec = ProcessSpec(name="a process spec", tags=["tag1", "tag2"])
IngredientSpec(name='Input',
material=MaterialSpec(name='Raw'),
process=proc_spec)
# Make copies of both specs
proc_spec_copy = loads(dumps(proc_spec))
assert proc_spec_copy == proc_spec, "Full structure wasn't preserved across serialization"
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_repeated_objects():
"""Test that objects aren't double counted."""
ct = ConditionTemplate(name="color",
bounds=CategoricalBounds(categories=["black", "white"]))
pt = ProcessTemplate(name="painting", conditions=[ct])
ps = ProcessSpec(name='painting',
template=pt,
conditions=Condition(name='Paint color',
value=NominalCategorical("black"),
template=ct
)
)
assert len(recursive_flatmap(ps, lambda x: [x])) == 3
def test_template_check_generator():
"""Verify that the generator throws exceptions."""
spec1 = ProcessSpec("A spec")
with pytest.raises(ValueError): # Can't find class
spec1._generate_template_check(validate=lambda x, y: True)
with pytest.raises(ValueError): # Can't find attribute
spec1._generate_template_check(validate=ProcessSpec.name.fget)
def _make_material(*, material_name, template, process_tmpl_name,
process_kwargs, **material_kwargs):
"""Convenience method to reuse material name in creating a material's arguments."""
process_name = "{} {}".format(process_tmpl_name, material_name)
return MaterialSpec(
name=material_name,
uids={DEMO_SCOPE: material_name.lower().replace(' ', '-')},
template=template,
process=ProcessSpec(
name=process_name,
uids={DEMO_SCOPE: process_name.lower().replace(' ', '-')},
template=tmpl[process_tmpl_name],
**process_kwargs),
**material_kwargs)
def test_many_ingredients():
"""Test that ingredients remain connected to processes when round-robined through json."""
proc = ProcessRun("foo", spec=ProcessSpec("sfoo"))
expected = []
for i in range(10):
mat = MaterialRun(name=str(i), spec=MaterialSpec("s{}".format(i)))
i_spec = IngredientSpec(name="i{}".format(i), material=mat.spec, process=proc.spec)
IngredientRun(process=proc, material=mat, spec=i_spec)
expected.append("i{}".format(i))
reloaded = loads(dumps(proc))
assert len(list(reloaded.ingredients)) == 10
names = [x.name for x in reloaded.ingredients]
assert sorted(names) == sorted(expected)
def test_process_spec():
"""Tests that the Process Spec/Run connection persists when serializing."""
# Create the ProcessSpec
condition1 = Condition(name="a condition on the process in general")
spec = ProcessSpec("Spec", conditions=condition1)
# Create the ProcessRun with a link to the ProcessSpec from above
condition2 = Condition(
name="a condition on this process run in particular")
process = ProcessRun("Run", conditions=condition2, spec=spec)
copy_process = loads(dumps(process))
assert dumps(copy_process.spec) == dumps(spec), \
"Process spec should be preserved through serialization"
def test_register_classes_override():
"""Test that register_classes overrides existing entries in the class index."""
class MyProcessSpec(ProcessSpec):
pass
normal = GEMDJson()
custom = GEMDJson()
custom.register_classes({MyProcessSpec.typ: MyProcessSpec})
obj = ProcessSpec(name="foo")
assert not isinstance(normal.copy(obj), MyProcessSpec),\
"Class registration bled across GEMDJson() objects"
assert isinstance(custom.copy(obj), ProcessSpec),\
"Custom GEMDJson didn't deserialize as MyProcessSpec"
def test_object_key_substitution():
"""Test that client can copy a dictionary in which keys are BaseEntity objects."""
spec = ProcessSpec("A process spec", uids={'id': str(uuid4()), 'auto': str(uuid4())})
run1 = ProcessRun("A process run", spec=spec, uids={'id': str(uuid4()), 'auto': str(uuid4())})
run2 = ProcessRun("Another process run", spec=spec, uids={'id': str(uuid4())})
process_dict = {spec: [run1, run2]}
subbed = substitute_links(process_dict, scope='auto')
for key, value in subbed.items():
assert key == LinkByUID.from_entity(spec, scope='auto')
assert LinkByUID.from_entity(run1, scope='auto') in value
assert LinkByUID.from_entity(run2) in value
reverse_process_dict = {run2: spec}
subbed = substitute_links(reverse_process_dict, scope='auto')
for key, value in subbed.items():
assert key == LinkByUID.from_entity(run2)
assert value == LinkByUID.from_entity(spec, scope='auto')
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_make_index():
"""Test functionality of make_index method."""
ps1 = ProcessSpec(name="hello", uids={"test_scope": "test_value"})
pr1 = ProcessRun(
name="world",
spec=LinkByUID(scope="test_scope", id="test_value"),
uids={"test_scope": "another_test_value",
"other_test": "also_valid"
},
)
ms1 = MaterialSpec(
name="material",
process=LinkByUID(scope="test_scope", id="test_value"),
uids={"second_scope": "this_is_an_id"},
)
mr1 = MaterialRun(
name="material_run",
spec=LinkByUID(scope="second_scope", id="this_is_an_id"),
process=LinkByUID(scope="test_scope", id="another_test_value"),
)
pr2 = ProcessRun(
name="goodbye",
spec=LinkByUID.from_entity(ps1),
uids={"test_scope": "the_other_value"},
)
mr2 = MaterialRun(
name="cruel",
spec=LinkByUID.from_entity(ms1),
process=LinkByUID.from_entity(pr2),
)
gems = [ps1, pr1, ms1, mr1, pr2, mr2]
gem_index = make_index(gems)
for gem in gems:
for scope in gem.uids:
assert (scope, gem.uids[scope]) in gem_index
assert gem_index[(scope, gem.uids[scope])] == gem
# Make sure substitute_objects can consume the index
subbed = substitute_objects(mr1, gem_index)
assert subbed.spec.uids == ms1.uids
def test_signature():
"""Exercise various permutations of the substitute_links sig."""
spec = ProcessSpec("A process spec", uids={'my': 'spec'})
with pytest.warns(DeprecationWarning):
run1 = ProcessRun("First process run", uids={'my': 'run1'}, spec=spec)
assert isinstance(substitute_links(run1, native_uid='my').spec, LinkByUID)
run2 = ProcessRun("Second process run", uids={'my': 'run2'}, spec=spec)
assert isinstance(substitute_links(run2, scope='my').spec, LinkByUID)
run3 = ProcessRun("Third process run", uids={'my': 'run3'}, spec=spec)
assert isinstance(substitute_links(run3, 'my').spec, LinkByUID)
with pytest.raises(ValueError): # Test deprecated auto-population
run4 = ProcessRun("Fourth process run", uids={'my': 'run4'}, spec=spec)
assert isinstance(substitute_links(run4, 'other', allow_fallback=False).spec, LinkByUID)
with pytest.warns(DeprecationWarning):
with pytest.raises(ValueError): # Test deprecated auto-population
run5 = ProcessRun("Fifth process run", uids={'my': 'run4'}, spec=spec)
assert isinstance(substitute_links(run5, scope="my", native_uid="my").spec, LinkByUID)
def test_equality():
"""Test that __eq__ and _cached_equals behave as expected."""
from gemd.entity.object import ProcessSpec, IngredientSpec, MaterialSpec
from gemd.entity.link_by_uid import LinkByUID
one = ProcessSpec("Object", tags=["tags!"], uids={"scope": "id"})
assert one == LinkByUID(scope="scope", id="id"), "Objects equal their links"
assert one == ("scope", "id"), "Objects equal their equivalent tuples"
assert one != ("scope", "id", "extra"), "But not if they are too long"
assert one != ("epocs", "id"), "Or have the wrong scope"
assert one != ("scope", "di"), "Or have the wrong id"
junk = MaterialSpec("Object", tags=["tags!"], uids={"scope": "id"})
assert one != junk, "Objects don't match across types"
two = ProcessSpec("Object", tags=["tags!"], uids={"scope": "id"}, notes="Notes!")
assert one != two, "Objects don't match unless the fields do"
one.notes = "Notes!"
assert one == two, "And then they will"
# It ignores the ingredient length mismatch if the uids matched
one_ing = IngredientSpec("Ingredient", process=one)
assert one == two
assert two == one
# And a cycle is not a problem
one_mat = MaterialSpec("Material", tags=["other tags!"], process=one)
two_mat = MaterialSpec("Material", tags=["other tags!"], process=two)
one_ing.material = two_mat
IngredientSpec("Ingredient", process=two, material=one_mat) # two_ing
assert one == two
assert two == one
# Order doesn't matter for tags
one.tags = ["One", "Two", "Three", "Four"]
two.tags = ["Four", "One", "Three", "Two"]
assert one == two
assert two == one
def make_cake_spec(tmpl=None):
"""Define a recipe for making a cake."""
###############################################################################################
# Templates
if tmpl is None:
tmpl = make_cake_templates()
count = dict()
def ingredient_kwargs(material):
# Pulls the elements of a material that all ingredients consume out
count[material.name] = count.get(material.name, 0) + 1
return {
"name":
"{} input{}".format(material.name.replace('Abstract ', ''),
" (Again)" * (count[material.name] - 1)),
"tags":
list(material.tags),
"material":
material
}
###############################################################################################
# Objects
cake = MaterialSpec(
name="Abstract Cake",
template=tmpl["Dessert"],
process=ProcessSpec(
name='Icing Cake, in General',
template=tmpl["Icing"],
tags=['spreading'],
notes='The act of covering a baked output with frosting'),
properties=[
PropertyAndConditions(
Property(name="Tastiness",
value=NominalInteger(5),
template=tmpl["Tastiness"],
origin="specified"))
],
file_links=FileLink(
filename="Becky's Butter Cake",
url='https://www.landolakes.com/recipe/16730/becky-s-butter-cake/'
),
tags=['cake::butter cake', 'dessert::baked::cake', 'iced::chocolate'],
notes=
'Butter cake recipe reminiscent of the 1-2-3-4 cake that Grandma may have baked.'
)
########################
frosting = MaterialSpec(
name="Abstract Frosting",
template=tmpl["Dessert"],
process=ProcessSpec(
name='Mixing Frosting, in General',
template=tmpl["Mixing"],
tags=['mixing'],
notes='Combining ingredients to make a sweet frosting'),
tags=['frosting::chocolate', 'topping::chocolate'],
notes='Chocolate frosting')
IngredientSpec(**ingredient_kwargs(frosting),
notes='Seems like a lot of frosting',
labels=['coating'],
process=cake.process,
absolute_quantity=NominalReal(nominal=0.751, units='kg'))
baked_cake = MaterialSpec(
name="Abstract Baked Cake",
template=tmpl["Generic Material"],
process=ProcessSpec(
name='Baking, in General',
template=tmpl["Baking in an oven"],
tags=['oven::baking'],
notes='Using heat to convert batter into a solid matrix'),
tags=[],
notes='The cakey part of the cake')
IngredientSpec(**ingredient_kwargs(baked_cake),
labels=['substrate'],
process=cake.process)
########################
batter = MaterialSpec(
name="Abstract Batter",
template=tmpl["Generic Material"],
process=ProcessSpec(
name='Mixing Batter, in General',
template=tmpl["Mixing"],
tags=['mixing'],
notes='Combining ingredients to make a baking feedstock'),
tags=[],
notes='The fluid that converts to cake with heat')
IngredientSpec(**ingredient_kwargs(batter),
labels=['precursor'],
process=baked_cake.process)
########################
wetmix = MaterialSpec(
name="Abstract Wet Mix",
template=tmpl["Generic Material"],
process=ProcessSpec(
name='Mixing Wet, in General',
template=tmpl["Mixing"],
tags=['mixing'],
notes='Combining wet ingredients to make a baking feedstock'),
tags=[],
notes='The wet fraction of a batter')
IngredientSpec(**ingredient_kwargs(wetmix),
labels=['wet'],
process=batter.process)
drymix = MaterialSpec(
name="Abstract Dry Mix",
template=tmpl["Generic Material"],
process=ProcessSpec(
name='Mixing Dry, in General',
template=tmpl["Mixing"],
tags=['mixing'],
notes='Combining dry ingredients to make a baking feedstock'),
tags=[],
notes='The dry fraction of a batter')
IngredientSpec(**ingredient_kwargs(drymix),
labels=['dry'],
process=batter.process,
absolute_quantity=NominalReal(nominal=3.052, units='cups'))
########################
flour = MaterialSpec(
name="Abstract Flour",
template=tmpl["Nutritional Material"],
properties=[
PropertyAndConditions(
property=Property(name="Nutritional Information",
value=NominalComposition({
"dietary-fiber":
1,
"sugars":
1,
"other-carbohydrate":
20,
"protein":
4,
"other":
4
}),
template=tmpl["Nutritional Information"],
origin="specified"),
conditions=Condition(name="Serving Size",
value=NominalReal(30, 'g'),
template=tmpl["Sample Mass"],
origin="specified"))
],
process=ProcessSpec(name='Buying Flour, in General',
template=tmpl["Procurement"],
tags=['purchase::dry-goods'],
notes='Purchasing all purpose flour'),
tags=[],
notes='All-purpose flour')
IngredientSpec(
**ingredient_kwargs(flour),
labels=['dry'],
process=drymix.process,
volume_fraction=NominalReal(nominal=0.9829, units='') # 3 cups
)
baking_powder = MaterialSpec(name="Abstract Baking Powder",
template=tmpl["Generic Material"],
process=ProcessSpec(
name='Buying Baking Powder, in General',
template=tmpl["Procurement"],
tags=['purchase::dry-goods'],
notes='Purchasing baking powder'),
tags=[],
notes='Leavening agent for cake')
IngredientSpec(
**ingredient_kwargs(baking_powder),
labels=['leavening', 'dry'],
process=drymix.process,
volume_fraction=NominalReal(nominal=0.0137, units='') # 2 teaspoons
)
salt = MaterialSpec(name="Abstract Salt",
template=tmpl["Formulaic Material"],
process=ProcessSpec(name='Buying Salt, in General',
template=tmpl["Procurement"],
tags=['purchase::dry-goods'],
notes='Purchasing salt'),
tags=[],
notes='Plain old NaCl',
properties=[
PropertyAndConditions(
Property(name='Formula',
value=EmpiricalFormula("NaCl")))
])
IngredientSpec(
**ingredient_kwargs(salt),
labels=['dry', 'seasoning'],
process=drymix.process,
volume_fraction=NominalReal(nominal=0.0034, units='') # 1/2 teaspoon
)
sugar = MaterialSpec(
name="Abstract Sugar",
template=tmpl["Formulaic Material"],
process=ProcessSpec(name='Buying Sugar, in General',
template=tmpl["Procurement"],
tags=['purchase::dry-goods'],
notes='Purchasing all purpose flour'),
tags=[],
notes='Sugar',
properties=[
PropertyAndConditions(
Property(name="Formula", value=EmpiricalFormula("C12H22O11"))),
PropertyAndConditions(
Property(name='SMILES',
value=Smiles(
"C(C1C(C(C(C(O1)OC2(C(C(C(O2)CO)O)O)CO)O)O)O)O"),
template=tmpl["Molecular Structure"]))
])
IngredientSpec(**ingredient_kwargs(sugar),
labels=['wet', 'sweetener'],
process=wetmix.process,
absolute_quantity=NominalReal(nominal=2, units='cups'))
butter = MaterialSpec(
name="Abstract Butter",
template=tmpl["Generic Material"],
process=ProcessSpec(name='Buying Butter, in General',
template=tmpl["Procurement"],
tags=['purchase::produce'],
notes='Purchasing butter'),
tags=[],
notes='Shortening for making rich, buttery baked goods')
IngredientSpec(**ingredient_kwargs(butter),
labels=['wet', 'shortening'],
process=wetmix.process,
absolute_quantity=NominalReal(nominal=1, units='cups'))
IngredientSpec(
**ingredient_kwargs(butter),
labels=['shortening'],
process=frosting.process,
mass_fraction=NominalReal(nominal=0.1434,
units='') # 1/2 c @ 0.911 g/cc
)
eggs = MaterialSpec(name="Abstract Eggs",
template=tmpl["Generic Material"],
process=ProcessSpec(name='Buying Eggs, in General',
template=tmpl["Procurement"],
tags=['purchase::produce'],
notes='Purchasing eggs'),
tags=[],
notes='')
IngredientSpec(**ingredient_kwargs(eggs),
labels=['wet'],
absolute_quantity=NominalReal(nominal=4, units=''))
vanilla = MaterialSpec(
name="Abstract Vanilla",
template=tmpl["Generic Material"],
process=ProcessSpec(name='Buying Vanilla, in General',
template=tmpl["Procurement"],
tags=['purchase::dry-goods'],
notes='Purchasing vanilla'),
tags=[],
notes=
'Vanilla Extract is mostly alcohol but the most important component '
'is vanillin (see attached structure)',
properties=[
PropertyAndConditions(
Property(
name='Component Structure',
value=InChI(
"InChI=1S/C8H8O3/c1-11-8-4-6(5-9)2-3-7(8)10/h2-5,10H,1H3"
),
template=tmpl["Molecular Structure"]))
])
IngredientSpec(**ingredient_kwargs(vanilla),
labels=['wet', 'flavoring'],
process=wetmix.process,
absolute_quantity=NominalReal(nominal=2, units='teaspoons'))
IngredientSpec(
**ingredient_kwargs(vanilla),
labels=['flavoring'],
process=frosting.process,
mass_fraction=NominalReal(nominal=0.0231,
units='') # 2 tsp @ 0.879 g/cc
)
milk = MaterialSpec(name="Abstract Milk",
template=tmpl["Generic Material"],
process=ProcessSpec(name='Buying Milk, in General',
template=tmpl["Procurement"],
tags=['purchase::produce'],
notes='Purchasing milk'),
tags=[],
notes='')
IngredientSpec(**ingredient_kwargs(milk),
labels=['wet'],
process=batter.process,
absolute_quantity=NominalReal(nominal=1, units='cup'))
IngredientSpec(
**ingredient_kwargs(milk),
labels=[],
process=frosting.process,
mass_fraction=NominalReal(nominal=0.0816,
units='') # 1/4 c @ 1.037 g/cc
)
chocolate = MaterialSpec(name="Abstract Chocolate",
template=tmpl["Generic Material"],
process=ProcessSpec(
name='Buying Chocolate, in General',
template=tmpl["Procurement"],
tags=['purchase::dry-goods'],
notes='Purchasing chocolate'),
tags=[],
notes='')
IngredientSpec(
**ingredient_kwargs(chocolate),
labels=['flavoring'],
process=frosting.process,
mass_fraction=NominalReal(nominal=0.1132, units='') # 3 oz.
)
powder_sugar = MaterialSpec(
name="Abstract Powdered Sugar",
template=tmpl["Generic Material"],
process=ProcessSpec(name='Buying Powdered Sugar, in General',
template=tmpl["Procurement"],
tags=['purchase::dry-goods'],
notes='Purchasing powdered sugar'),
tags=[],
notes='Granulated sugar mixed with corn starch')
IngredientSpec(
**ingredient_kwargs(powder_sugar),
labels=['flavoring'],
process=frosting.process,
mass_fraction=NominalReal(nominal=0.6387,
units='') # 4 c @ 30 g/ 0.25 cups
)
# Crawl tree and annotate with uids; only add ids if there's nothing there
recursive_foreach(
cake, lambda obj: obj.uids or obj.add_uid(DEMO_SCOPE, obj.name))
return cake
def test_recursive_flatmap_maintains_order():
"""Test flatmap preserves order in lists."""
p1 = ProcessSpec(name="one")
p2 = ProcessSpec(name="two")
orig = [p1, p2]
assert [x.name for x in orig] == recursive_flatmap(orig, lambda x: [x.name])
def test_invalid_assignment():
"""Invalid assignments to `spec` throw a TypeError."""
with pytest.raises(TypeError):
ProcessRun("name", spec=[ProcessSpec("spec")])
with pytest.raises(TypeError):
ProcessRun() # Name is required
def test_invalid_assignment():
"""Omitting a name throws a TypeError."""
with pytest.raises(TypeError):
ProcessSpec() # Name is required
def make_data_island(density,
bulk_modulus,
firing_temperature,
binders,
powders,
tag=None):
"""Helper function to create a relatively involved data island."""
binder_specs = keymap(lambda x: MaterialSpec(name=x), binders)
powder_specs = keymap(lambda x: MaterialSpec(name=x), powders)
binder_runs = keymap(lambda x: MaterialRun(name=x.name, spec=x),
binder_specs)
powder_runs = keymap(lambda x: MaterialRun(name=x.name, spec=x),
powder_specs)
all_input_materials = keymap(lambda x: x.spec.name,
merge(binder_runs, powder_runs))
mixing_composition = Condition(
name="composition", value=NominalComposition(all_input_materials))
mixing_process = ProcessRun(name="Mixing",
tags=["mixing"],
conditions=[mixing_composition])
binder_ingredients = []
for run in binder_runs:
binder_ingredients.append(
IngredientRun(
material=run,
process=mixing_process,
mass_fraction=NominalReal(binders[run.spec.name], ''),
))
powder_ingredients = []
for run in powder_runs:
powder_ingredients.append(
IngredientRun(
material=run,
process=mixing_process,
mass_fraction=NominalReal(powders[run.spec.name], ''),
))
green_sample = MaterialRun("Green", process=mixing_process)
measured_firing_temperature = Condition(
name="Firing Temperature",
value=UniformReal(firing_temperature - 0.5, firing_temperature + 0.5,
'degC'),
template=firing_temperature_template)
specified_firing_setting = Parameter(name="Firing setting",
value=DiscreteCategorical("hot"))
firing_spec = ProcessSpec("Firing", template=firing_template)
firing_process = ProcessRun(name=firing_spec.name,
conditions=[measured_firing_temperature],
parameters=[specified_firing_setting],
spec=firing_spec)
IngredientRun(material=green_sample,
process=firing_process,
mass_fraction=NormalReal(1.0, 0.0, ''),
volume_fraction=NormalReal(1.0, 0.0, ''),
number_fraction=NormalReal(1.0, 0.0, ''))
measured_density = Property(name="Density",
value=NominalReal(density, ''),
template=density_template)
measured_modulus = Property(name="Bulk modulus",
value=NormalReal(bulk_modulus,
bulk_modulus / 100.0, ''))
measurement_spec = MeasurementSpec("Mechanical Properties",
template=measurement_template)
measurement = MeasurementRun(
measurement_spec.name,
properties=[measured_density, measured_modulus],
spec=measurement_spec)
tags = [tag] if tag else []
material_spec = MaterialSpec("Coupon", template=material_template)
material_run = MaterialRun(material_spec.name,
process=firing_process,
tags=tags,
spec=material_spec)
measurement.material = material_run
return material_run