class CSVDataSource(Serializable['CSVDataSource'], DataSource):
"""A data source based on a CSV file stored on the data platform.
Parameters
----------
file_link: FileLink
link to the CSV file to read the data from
column_definitions: Mapping[str, Descriptor]
Map the column headers to the descriptors that will be used to interpret the cell contents
identifiers: Optional[List[str]]
List of one or more column headers whose values uniquely identify a row. These may overlap
with ``column_definitions`` if a column should be used as data and as an identifier,
but this is not necessary. Identifiers must be unique within a dataset. No two rows can
contain the same value.
"""
typ = properties.String('type', default='csv_data_source', deserializable=False)
file_link = properties.Object(FileLink, "file_link")
column_definitions = properties.Mapping(
properties.String, properties.Object(Descriptor), "column_definitions")
identifiers = properties.Optional(properties.List(properties.String), "identifiers")
def _attrs(self) -> List[str]:
return ["file_link", "column_definitions", "identifiers", "typ"]
def __init__(self,
file_link: FileLink,
column_definitions: Mapping[str, Descriptor],
identifiers: Optional[List[str]] = None):
self.file_link = file_link
self.column_definitions = column_definitions
self.identifiers = identifiers
class SimpleMixturePredictor(Resource['SimpleMixturePredictor'], Predictor,
AIResourceMetadata):
"""A predictor interface that flattens a formulation into a simple mixture.
Parameters
----------
name: str
name of the configuration
description: str
description of the predictor
input_descriptor: FormulationDescriptor
input descriptor for the hierarchical (un-mixed) formulation
output_descriptor: FormulationDescriptor
output descriptor for the flat (mixed) formulation
training_data: Optional[List[DataSource]]
Sources of training data. Each can be either a CSV or an GEM Table. Candidates from
multiple data sources will be combined into a flattened list and de-duplicated by uid and
identifiers. De-duplication is performed if a uid or identifier is shared between two or
more rows. The content of a de-duplicated row will contain the union of data across all
rows that share the same uid or at least 1 identifier. Training data is unnecessary if the
predictor is part of a graph that includes all training data required by this predictor.
"""
_resource_type = ResourceTypeEnum.MODULE
input_descriptor = _properties.Object(FormulationDescriptor,
'config.input')
output_descriptor = _properties.Object(FormulationDescriptor,
'config.output')
training_data = _properties.List(_properties.Object(DataSource),
'config.training_data')
typ = _properties.String('config.type',
default='SimpleMixture',
deserializable=False)
module_type = _properties.String('module_type', default='PREDICTOR')
def __init__(self,
name: str,
description: str,
input_descriptor: FormulationDescriptor,
output_descriptor: FormulationDescriptor,
training_data: Optional[List[DataSource]] = None,
archived: bool = False):
self.name: str = name
self.description: str = description
self.input_descriptor: FormulationDescriptor = input_descriptor
self.output_descriptor: FormulationDescriptor = output_descriptor
self.training_data: List[DataSource] = self._wrap_training_data(
training_data)
self.archived: bool = archived
def _post_dump(self, data: dict) -> dict:
data['display_name'] = data['config']['name']
return data
def __str__(self):
return '<SimpleMixturePredictor {!r}>'.format(self.name)
class ExpressionPredictor(Resource['ExpressionPredictor'], Predictor,
AIResourceMetadata):
"""A predictor that computes an output from an expression and set of bounded inputs.
For a discussion of expression syntax and a list of allowed symbols,
please see the :ref:`documentation<Expression Predictor>`.
.. seealso::
If you are using the deprecated predictor please see
:class:`~citrine.informatics.predictors.DeprecatedExpressionPredictor` for an example that
shows how to migrate to the new format.
Parameters
----------
name: str
name of the configuration
description: str
the description of the predictor
expression: str
expression that computes an output from aliased inputs
output: RealDescriptor
descriptor that represents the output of the expression
aliases: Mapping[str, RealDescriptor]
a mapping from each unknown argument to its descriptor.
All unknown arguments must have an associated descriptor.
"""
expression = _properties.String('config.expression')
output = _properties.Object(RealDescriptor, 'config.output')
aliases = _properties.Mapping(_properties.String,
_properties.Object(RealDescriptor),
'config.aliases')
typ = _properties.String('config.type',
default='AnalyticExpression',
deserializable=False)
module_type = _properties.String('module_type', default='PREDICTOR')
def __init__(self,
name: str,
description: str,
expression: str,
output: RealDescriptor,
aliases: Mapping[str, RealDescriptor],
archived: bool = False):
self.name: str = name
self.description: str = description
self.expression: str = expression
self.output: RealDescriptor = output
self.aliases: Mapping[str, RealDescriptor] = aliases
self.archived: bool = archived
def _post_dump(self, data: dict) -> dict:
data['display_name'] = data['config']['name']
return data
def __str__(self):
return '<ExpressionPredictor {!r}>'.format(self.name)
class AttributeByTemplateAndObjectTemplate(
Serializable['AttributeByTemplateAndObjectTemplate'], Variable):
"""[ALPHA] Attribute marked by an attribute template and an object template.
For example, one property may be measured by two different measurement techniques. In this
case, that property would have the same attribute template. Filtering by measurement
templates, which identify the measurement techniques, disambiguates the technique used to
measure that otherwise ambiguous property.
Parameters
---------
name: str
a short human-readable name to use when referencing the variable
headers: list[str]
sequence of column headers
attribute_template: LinkByUID
attribute template that identifies the attribute to assign to the variable
object_template: LinkByUID
template that identifies the associated object
attribute_constraints: list[(LinkByUID, Bounds)]
constraints on object attributes in the target object that must be satisfied. Constraints
are expressed as Bounds. Attributes are expressed with links. The attribute that the
variable is being set to may be the target of a constraint as well.
type_selector: DataObjectTypeSelector
strategy for selecting data object types to consider when matching, defaults to PREFER_RUN
"""
name = properties.String('name')
headers = properties.List(properties.String, 'headers')
attribute_template = properties.Object(LinkByUID, 'attribute_template')
object_template = properties.Object(LinkByUID, 'object_template')
attribute_constraints = properties.Optional(
properties.List(
properties.SpecifiedMixedList(
[properties.Object(LinkByUID), properties.Object(BaseBounds)]
)
), 'attribute_constraints')
type_selector = properties.Enumeration(DataObjectTypeSelector, "type_selector")
typ = properties.String('type', default="attribute_by_object", deserializable=False)
def _attrs(self) -> List[str]:
return ["name", "headers", "attribute_template", "object_template",
"attribute_constraints", "type_selector", "typ"]
def __init__(self, *,
name: str,
headers: List[str],
attribute_template: LinkByUID,
object_template: LinkByUID,
attribute_constraints: List[List[Union[LinkByUID, BaseBounds]]] = None,
type_selector: DataObjectTypeSelector = DataObjectTypeSelector.PREFER_RUN):
self.name = name
self.headers = headers
self.attribute_template = attribute_template
self.object_template = object_template
self.attribute_constraints = attribute_constraints
self.type_selector = type_selector
class AttributeByTemplate(Serializable['AttributeByTemplate'], Variable):
"""[ALPHA] Attribute marked by an attribute template.
Parameters
----------
name: str
a short human-readable name to use when referencing the variable
headers: list[str]
sequence of column headers
template: LinkByUID
attribute template that identifies the attribute to assign to the variable
attribute_constraints: list[list[LinkByUID, Bounds]]
constraints on object attributes in the target object that must be satisfied. Constraints
are expressed as Bounds. Attributes are expressed with links. The attribute that the
variable is being set to may be the target of a constraint as well.
type_selector: DataObjectTypeSelector
strategy for selecting data object types to consider when matching, defaults to PREFER_RUN
"""
name = properties.String('name')
headers = properties.List(properties.String, 'headers')
template = properties.Object(LinkByUID, 'template')
attribute_constraints = properties.Optional(
properties.List(
properties.SpecifiedMixedList(
[properties.Object(LinkByUID),
properties.Object(BaseBounds)])), 'attribute_constraints')
type_selector = properties.Enumeration(DataObjectTypeSelector,
"type_selector")
typ = properties.String('type',
default="attribute_by_template",
deserializable=False)
def _attrs(self) -> List[str]:
return [
"name", "headers", "template", "attribute_constraints",
"type_selector", "typ"
]
def __init__(
self,
*,
name: str,
headers: List[str],
template: LinkByUID,
attribute_constraints: Optional[List[List[Union[LinkByUID,
BaseBounds]]]] = None,
type_selector: DataObjectTypeSelector = DataObjectTypeSelector.
PREFER_RUN):
self.name = name
self.headers = headers
self.template = template
self.attribute_constraints = attribute_constraints
self.type_selector = type_selector
class IngredientsToFormulationPredictor(
Resource['IngredientsToFormulationPredictor'], Predictor, AIResourceMetadata):
"""[ALPHA] A predictor interface that constructs a formulation from ingredient quantities.
Parameters
----------
name: str
name of the configuration
description: str
description of the predictor
output: FormulationDescriptor
descriptor that represents the output formulation
id_to_quantity: Mapping[str, RealDescriptor]
Map from ingredient identifier to the descriptor that represents its quantity,
e.g., ``{'water': RealDescriptor('water quantity', 0, 1, "")}``
labels: Mapping[str, Set[str]]
Map from each label to all ingredients assigned that label, when present in a mixture,
e.g., ``{'solvent': {'water'}}``
"""
_resource_type = ResourceTypeEnum.MODULE
output = _properties.Object(FormulationDescriptor, 'config.output')
id_to_quantity = _properties.Mapping(_properties.String, _properties.Object(RealDescriptor),
'config.id_to_quantity')
labels = _properties.Mapping(_properties.String, _properties.Set(_properties.String),
'config.labels')
typ = _properties.String('config.type', default='IngredientsToSimpleMixture',
deserializable=False)
module_type = _properties.String('module_type', default='PREDICTOR')
def __init__(self,
name: str,
description: str,
output: FormulationDescriptor,
id_to_quantity: Mapping[str, RealDescriptor],
labels: Mapping[str, Set[str]],
archived: bool = False):
self.name: str = name
self.description: str = description
self.output: FormulationDescriptor = output
self.id_to_quantity: Mapping[str, RealDescriptor] = id_to_quantity
self.labels: Mapping[str, Set[str]] = labels
self.archived: bool = archived
def _post_dump(self, data: dict) -> dict:
data['display_name'] = data['config']['name']
return data
def __str__(self):
return '<IngredientsToFormulationPredictor {!r}>'.format(self.name)
class ModelSummary(Serializable['ModelSummary']):
"""[ALPHA] Summary of information about a single model in a predictor.
ModelSummary objects are constructed from saved models and should not be user-instantiated.
"""
name = properties.String('name')
""":str: the name of the model"""
type_ = properties.String('type')
""":str: the type of the model (e.g., "ML Model", "Featurizer", etc.)"""
inputs = properties.List(
properties.Union([properties.Object(Descriptor),
properties.String()]), 'inputs')
""":List[Descriptor]: list of input descriptors"""
outputs = properties.List(
properties.Union([properties.Object(Descriptor),
properties.String()]), 'outputs')
""":List[Descriptor]: list of output descriptors"""
model_settings = properties.Raw('model_settings')
""":dict: model settings, as a dictionary (keys depend on the model type)"""
feature_importances = properties.List(
properties.Object(FeatureImportanceReport), 'feature_importances')
""":List[FeatureImportanceReport]: feature importance reports for each output"""
predictor_name = properties.String('predictor_configuration_name',
default='')
""":str: the name of the predictor that created this model"""
predictor_uid = properties.Optional(properties.UUID(),
'predictor_configuration_uid')
""":Optional[UUID]: the unique Citrine id of the predictor that created this model"""
training_data_count = properties.Optional(properties.Integer,
"training_data_count")
""":int: Number of rows in the training data for the model, if applicable."""
def __init__(self,
name: str,
type_: str,
inputs: List[Descriptor],
outputs: List[Descriptor],
model_settings: Dict[str, Any],
feature_importances: List[FeatureImportanceReport],
predictor_name: str,
predictor_uid: Optional[UUID] = None):
self.name = name
self.type_ = type_
self.inputs = inputs
self.outputs = outputs
self.model_settings = model_settings
self.feature_importances = feature_importances
self.predictor_name = predictor_name
self.predictor_uid = predictor_uid
def __str__(self):
return '<ModelSummary {!r}>'.format(self.name)
class LIScore(Serializable['LIScore'], Score):
"""Evaluates the likelihood of scoring better than some baselines for given objectives.
Parameters
----------
objectives: list[Objective]
objectives (e.g., maximize, minimize, tune, etc.)
If multiple objectives are specified they are evaluated independently, and ranked by the
highest likelihood of exceeding a baseline. This should therefore *not* be used to
simultaneously optimize multiple objectives.
baselines: list[float]
best-so-far values for the various objectives (there must be one for each objective)
constraints: list[Constraint]
constraints limiting the allowed values that material instances can have
"""
baselines = properties.List(properties.Float, 'baselines')
objectives = properties.List(properties.Object(Objective), 'objectives')
constraints = properties.List(properties.Object(Constraint), 'constraints')
typ = properties.String('type', default='MLI')
def __init__(self,
*,
name: Optional[str] = None,
description: Optional[str] = None,
objectives: List[Objective],
baselines: List[float],
constraints: Optional[List[Constraint]] = None,
session: Optional[Session] = None):
self.objectives: List[Objective] = objectives
self.baselines: List[float] = baselines
self.constraints: List[Constraint] = constraints or []
self.session: Optional[Session] = session
if name is not None:
msg = "Naming of Scores is deprecated. Please do not define the name."
warnings.warn(msg, category=DeprecationWarning)
self._name = name
else:
self._name = "Likelihood of Improvement"
if description is not None:
msg = "Describing Scores is deprecated. Please do not define the description."
warnings.warn(msg, category=DeprecationWarning)
self._description: str = description
else:
self._description = ""
def __str__(self):
return '<LIScore>'
class EIScore(Serializable['EIScore'], Score):
"""
Evaluates the expected magnitude of improvement beyond baselines for a given objective.
Parameters
----------
objectives: list[Objective]
objectives (e.g., maximize, minimize, tune, etc.)
EIScore does not support more than 1 objective at this time.
baselines: list[float]
best-so-far values for the various objectives (there must be one for each objective)
constraints: list[Constraint]
constraints limiting the allowed values that material instances can have
"""
baselines = properties.List(properties.Float, 'baselines')
objectives = properties.List(properties.Object(Objective), 'objectives')
constraints = properties.List(properties.Object(Constraint), 'constraints')
typ = properties.String('type', default='MEI')
def __init__(self,
*,
name: Optional[str] = None,
description: Optional[str] = None,
objectives: List[Objective],
baselines: List[float],
constraints: Optional[List[Constraint]] = None,
session: Optional[Session] = None):
self.objectives: List[Objective] = objectives
self.baselines: List[float] = baselines
self.constraints: List[Constraint] = constraints or []
self.session: Optional[Session] = session
if name is not None:
msg = "Naming of Scores is deprecated. Please do not define the name."
warnings.warn(msg, category=DeprecationWarning)
self._name = name
else:
self._name = "Expected Improvement"
if description is not None:
msg = "Describing Scores is deprecated. Please do not define the description."
warnings.warn(msg, category=DeprecationWarning)
self._description: str = description
else:
self._description = ""
def __str__(self):
return '<EIScore>'
class EnumeratedDimension(Serializable['EnumeratedDimension'], Dimension):
"""A finite, enumerated dimension.
Parameters
----------
descriptor: Descriptor
a descriptor of the single dimension
template_id: UUID
UUID that corresponds to the template in DC
values: list[str]
list of values that can be parsed by the descriptor
"""
descriptor = properties.Object(Descriptor, 'descriptor')
values = properties.List(properties.String(), 'list')
typ = properties.String('type', default='EnumeratedDimension', deserializable=False)
template_id = properties.Optional(properties.UUID, 'template_id', default=uuid4())
def __init__(self,
descriptor: Descriptor,
values: List[str],
template_id: Optional[UUID] = None):
self.descriptor: Descriptor = descriptor
self.values: List[str] = values
self.template_id: Optional[UUID] = template_id
def test_object_property_serde(sub_prop, sub_value, sub_serialized):
klass = make_class_with_property(sub_prop, 'some_property_name')
prop = properties.Object(klass)
instance = klass(sub_value)
serialized = {'some_property_name': sub_serialized}
assert prop.deserialize(serialized) == instance
assert prop.serialize(instance) == serialized
class GemTableDataSource(Serializable['GemTableDataSource'], DataSource):
"""[ALPHA] A data source based on a GEM Table hosted on the data platform.
Parameters
----------
table_id: UUID
Unique identifier for the GEM Table
table_version: Union[str,int]
Version number for the GEM Table, which starts at 1 rather than 0.
Strings are cast to ints.
formulation_descriptor: Optional[FormulationDescriptor]
Optional descriptor used to store formulations emitted by the data source.
"""
typ = properties.String('type',
default='hosted_table_data_source',
deserializable=False)
table_id = properties.UUID("table_id")
table_version = properties.Integer("table_version")
formulation_descriptor = properties.Optional(
properties.Object(FormulationDescriptor), "formulation_descriptor")
def _attrs(self) -> List[str]:
return ["table_id", "table_version", "typ"]
def __init__(
self,
table_id: UUID,
table_version: Union[int, str],
formulation_descriptor: Optional[FormulationDescriptor] = None):
self.table_id: UUID = table_id
self.table_version: Union[int, str] = table_version
self.formulation_descriptor: Optional[
FormulationDescriptor] = formulation_descriptor
class ContinuousDimension(Serializable['ContinuousDimension'], Dimension):
"""Continuous dimension that is defined by a template ID, material descriptor, lower bound, and upper bound.
Parameters
----------
descriptor: RealDescriptor
a descriptor of the single dimension
lower_bound: float
inclusive lower bound
upper_bound: float
inclusive upper bound
template_id: UUID
UUID that corresponds to the template in DC
"""
descriptor = properties.Object(RealDescriptor, 'descriptor')
lower_bound = properties.Float('lower_bound')
upper_bound = properties.Float('upper_bound')
typ = properties.String('type', default='ContinuousDimension', deserializable=False)
template_id = properties.UUID('template_id', default=uuid4())
def __init__(self,
descriptor: RealDescriptor,
lower_bound: Optional[float] = None,
upper_bound: Optional[float] = None,
template_id: Optional[UUID] = None):
self.descriptor: RealDescriptor = descriptor
self.lower_bound: float = lower_bound or descriptor.lower_bound
self.upper_bound: float = upper_bound or descriptor.upper_bound
self.template_id: UUID = template_id or uuid4()
class ResponseMetrics(Serializable["ResponseMetrics"]):
"""Set of metrics computed by a Predictor Evaluator for a single response.
Results computed for a metric can be accessed by the metric's ``__repr__`` or
by the metric itself.
"""
metrics = properties.Mapping(properties.String,
properties.Object(MetricValue), "metrics")
""":Dict[str, MetricValue]: Metrics computed for a single response, keyed by the
metric's ``__repr__``."""
def __init__(self):
pass # pragma: no cover
def __iter__(self):
return iter(self.metrics)
def __getitem__(self, item):
if isinstance(item, str):
return self.metrics[item]
elif isinstance(item, PredictorEvaluationMetric):
return self.metrics[repr(item)]
else:
raise TypeError("Cannot index ResponseMetrics with a {}".format(
type(item)))
class ConcatColumn(Serializable['ConcatColumn'], Column):
"""[ALPHA] Column that concatenates multiple values produced by a list- or set-valued variable.
The input subcolumn need not exist elsewhere in the table config, and its parameters have
no bearing on how the table is constructed. Only the type of column is relevant. That a
complete Column object is required is simply a limitation of the current API.
Parameters
----------
data_source: str
name of the variable to use when populating the column
subcolumn: Column
a column of the type of the individual values to be concatenated
"""
data_source = properties.String('data_source')
subcolumn = properties.Object(Column, 'subcolumn')
typ = properties.String('type',
default="concat_column",
deserializable=False)
def _attrs(self) -> List[str]:
return ["data_source", "typ"]
def __init__(self, *, data_source: str, subcolumn: Column):
self.data_source = data_source
self.subcolumn = subcolumn
class IngredientLabelByProcessAndName(
Serializable['IngredientLabelByProcessAndName'], Variable):
"""[ALPHA] A boolean variable indicating whether a given label is applied.
Matches by process template, ingredient name, and the label string to check.
For example, a column might indicate whether or not the ingredient "ethanol" is labeled as a
"solvent" in the "second mixing" process. Many such columns would then support the
downstream analysis "get the volumetric average density of the solvents".
Parameters
---------
name: str
a short human-readable name to use when referencing the variable
headers: list[str]
sequence of column headers
process_template: LinkByUID
process template associated with this ingredient identifier
ingredient_name: str
name of ingredient
label: str
label to test
type_selector: DataObjectTypeSelector
strategy for selecting data object types to consider when matching, defaults to PREFER_RUN
"""
name = properties.String('name')
headers = properties.List(properties.String, 'headers')
process_template = properties.Object(LinkByUID, 'process_template')
ingredient_name = properties.String('ingredient_name')
label = properties.String('label')
type_selector = properties.Enumeration(DataObjectTypeSelector,
"type_selector")
typ = properties.String('type',
default="ing_label_by_process_and_name",
deserializable=False)
def _attrs(self) -> List[str]:
return [
"name", "headers", "process_template", "ingredient_name", "label",
"type_selector", "typ"
]
def __init__(
self,
*,
name: str,
headers: List[str],
process_template: LinkByUID,
ingredient_name: str,
label: str,
type_selector: DataObjectTypeSelector = DataObjectTypeSelector.
PREFER_RUN):
self.name = name
self.headers = headers
self.process_template = process_template
self.ingredient_name = ingredient_name
self.label = label
self.type_selector = type_selector
class EVScore(Serializable['EVScore'], Score):
"""
Evaluates the expected value for given objectives.
Parameters
----------
objectives: list[Objective]
objectives (e.g., maximize, minimize, tune, etc.)
If multiple objectives are specified, their scores are summed together. This allows
for simultaneous optimization of multiple objectives, although the weighting of the
various objectives cannot be directly specified.
constraints: list[Constraint]
constraints limiting the allowed values that material instances can have
"""
objectives = properties.List(properties.Object(Objective), 'objectives')
constraints = properties.List(properties.Object(Constraint), 'constraints')
typ = properties.String('type', default='MEV')
def __init__(self,
*,
name: Optional[str] = None,
description: Optional[str] = None,
objectives: List[Objective],
constraints: Optional[List[Constraint]] = None,
session: Optional[Session] = None):
self.objectives: List[Objective] = objectives
self.constraints: List[Constraint] = constraints or []
self.session: Optional[Session] = session
if name is not None:
msg = "Naming of Scores is deprecated. Please do not define the name."
warnings.warn(msg, category=DeprecationWarning)
self._name = name
else:
self._name = "Expected Value"
if description is not None:
msg = "Describing Scores is deprecated. Please do not define the description."
warnings.warn(msg, category=DeprecationWarning)
self._description: str = description
else:
self._description = ""
def __str__(self):
return '<EVScore>'
class DesignMaterial(Serializable["DesignMaterial"]):
"""Description of the material that was designed, as a set of DesignVariables."""
values = properties.Mapping(properties.String, properties.Object(DesignVariable), 'vars')
""":Dict[str, DesignVariable]: mapping from descriptor keys to the value for this material"""
def __init__(self):
pass # pragma: no cover
class PredictedVsActualRealPoint(Serializable["PredictedVsActualRealPoint"]):
"""Predicted vs. actual data for a single real-valued data point."""
uuid = properties.UUID("uuid")
""":UUID: Unique Citrine id given to the candidate"""
identifiers = properties.Set(properties.String, "identifiers")
""":Set[str]: Set of globally unique identifiers given to the candidate"""
trial = properties.Integer("trial")
""":int: 1-based index of the trial this candidate belonged to"""
fold = properties.Integer("fold")
""":int: 1-based index of the fold this candidate belonged to"""
predicted = properties.Object(RealMetricValue, "predicted")
""":RealMetricValue: Predicted value"""
actual = properties.Object(RealMetricValue, "actual")
""":RealMetricValue: Actual value"""
def __init__(self):
pass # pragma: no cover
class EnumeratedDesignSpace(Resource['EnumeratedDesignSpace'], DesignSpace):
"""Design space composed of an explicit enumeration of candidate materials to score. Note that every candidate must have exactly the descriptors in the list populated (no more, no less) to be included.
Parameters
----------
name:str
the name of the design space
description:str
the description of the design space
descriptors: list[Descriptor]
the list of descriptors included in the candidates of the design space
data: list[dict]
list of dicts of the shape `{<descriptor_key>: <descriptor_value>}` where each dict corresponds to a candidate
in the design space
"""
_response_key = None
uid = properties.Optional(properties.UUID, 'id', serializable=False)
name = properties.String('config.name')
description = properties.Optional(properties.String(),
'config.description')
descriptors = properties.List(properties.Object(Descriptor),
'config.descriptors')
data = properties.List(
properties.Mapping(properties.String, properties.Raw), 'config.data')
typ = properties.String('config.type',
default='EnumeratedDesignSpace',
deserializable=False)
status = properties.String('status', serializable=False)
status_info = properties.Optional(properties.List(properties.String()),
'status_info',
serializable=False)
# NOTE: These could go here or in _post_dump - it's unclear which is better right now
module_type = properties.String('module_type', default='DESIGN_SPACE')
schema_id = properties.UUID(
'schema_id', default=UUID('f3907a58-aa46-462c-8837-a5aa9605e79e'))
def __init__(self,
name: str,
description: str,
descriptors: List[Descriptor],
data: List[Mapping[str, Any]],
session: Session = Session()):
self.name: str = name
self.description: str = description
self.descriptors: List[Descriptor] = descriptors
self.data: List[Mapping[str, Any]] = data
self.session: Session = session
def _post_dump(self, data: dict) -> dict:
data['display_name'] = data['config']['name']
return data
def __str__(self):
return '<EnumeratedDesignSpace {!r}>'.format(self.name)
def dump(self) -> dict:
"""Override dump to replace on-platform subspaces with their uids."""
model_copy = deepcopy(self)
for i, subspace in enumerate(model_copy.subspaces):
if isinstance(subspace, DesignSpace) and subspace.uid is not None:
model_copy.subspaces[i] = subspace.uid
serialized = properties.Object(ProductDesignSpace).serialize(
model_copy)
return self._post_dump(serialized)
class ModelSummary(Serializable['ModelSummary']):
"""[ALPHA] Summary of information about a single model in a predictor.
ModelSummary objects are constructed from saved models and should not be user-instantiated.
Parameters
----------
name: str
the name of the model
type_: str
the type of the model (e.g., "ML Model", "Featurizer", etc.)
inputs: List[Descriptor]
list of input descriptors
outputs: List[Descriptor]
list of output descriptors
model_settings: dict
settings of the model, as a dictionary (details depend on model type)
feature_importances: List[FeatureImportanceReport]
list of feature importance reports, one for each output
predictor_name: str
the name of the predictor that created this model
predictor_uid: Optional[uuid]
the uid of the predictor that created this model
"""
name = properties.String('name')
type_ = properties.String('type')
inputs = properties.List(properties.String(), 'inputs')
outputs = properties.List(properties.String(), 'outputs')
model_settings = properties.Raw('model_settings')
feature_importances = properties.List(
properties.Object(FeatureImportanceReport), 'feature_importances')
predictor_name = properties.String('predictor_configuration_name', default='')
predictor_uid = properties.Optional(properties.UUID(), 'predictor_configuration_uid')
def __init__(self,
name: str,
type_: str,
inputs: List[Descriptor],
outputs: List[Descriptor],
model_settings: Dict[str, Any],
feature_importances: List[FeatureImportanceReport],
predictor_name: str,
predictor_uid: Optional[UUID] = None):
self.name = name
self.type_ = type_
self.inputs = inputs
self.outputs = outputs
self.model_settings = model_settings
self.feature_importances = feature_importances
self.predictor_name = predictor_name
self.predictor_uid = predictor_uid
def __str__(self):
return '<ModelSummary {!r}>'.format(self.name)
class ProductDesignSpace(Resource['ProductDesignSpace'], DesignSpace):
"""[ALPHA] An outer product of univariate dimensions, either continuous or enumerated.
Parameters
----------
name:str
the name of the design space
description:str
the description of the design space
dimensions: list[Dimension]
univariate dimensions that are factors of the design space; can be enumerated or continuous
"""
_response_key = None
uid = properties.Optional(properties.UUID, 'id', serializable=False)
name = properties.String('config.name')
description = properties.Optional(properties.String(), 'config.description')
dimensions = properties.List(properties.Object(Dimension), 'config.dimensions')
typ = properties.String('config.type', default='Univariate', deserializable=False)
status = properties.String('status', serializable=False)
status_info = properties.Optional(
properties.List(properties.String()),
'status_info',
serializable=False
)
archived = properties.Boolean('archived', default=False)
experimental = properties.Boolean("experimental", serializable=False, default=True)
experimental_reasons = properties.Optional(
properties.List(properties.String()),
'experimental_reasons',
serializable=False
)
# NOTE: These could go here or in _post_dump - it's unclear which is better right now
module_type = properties.String('module_type', default='DESIGN_SPACE')
schema_id = properties.UUID('schema_id', default=UUID('6c16d694-d015-42a7-b462-8ef299473c9a'))
def __init__(self,
name: str,
description: str,
dimensions: List[Dimension],
session: Session = Session()):
self.name: str = name
self.description: str = description
self.dimensions: List[Dimension] = dimensions
self.session: Session = session
def _post_dump(self, data: dict) -> dict:
data['display_name'] = data['config']['name']
return data
def __str__(self):
return '<ProductDesignSpace {!r}>'.format(self.name)
class EIScore(Serializable['EIScore'], Score):
"""
[ALPHA] Evaluates the expected magnitude of improvement beyond baselines for given objectives.
Parameters
----------
name: str
the name of the score
description: str
the description of the score
objectives: list[Objective]
objectives (e.g., maximize, minimize, tune, etc.)
baselines: list[float]
best-so-far values for the various objectives (there must be one for each objective)
constraints: list[Constraint]
constraints limiting the allowed values that material instances can have
"""
name = properties.String('name')
description = properties.String('description')
baselines = properties.List(properties.Float, 'baselines')
objectives = properties.List(properties.Object(Objective), 'objectives')
constraints = properties.List(properties.Object(Constraint), 'constraints')
typ = properties.String('type', default='MEI')
def __init__(self,
name: str,
description: str,
objectives: List[Objective],
baselines: List[float],
constraints: Optional[List[Constraint]] = None,
session: Optional[Session] = None):
self.name: str = name
self.description: str = description
self.objectives: List[Objective] = objectives
self.baselines: List[float] = baselines
self.constraints: List[Constraint] = constraints or []
self.session: Optional[Session] = session
def __str__(self):
return '<EIScore {!r}>'.format(self.name)
class IngredientIdentifierByProcessTemplateAndName(
Serializable['IngredientIdentifierByProcessAndName'], Variable):
"""[ALPHA] Ingredient identifier associated with a process template and a name.
Parameters
---------
name: str
a short human-readable name to use when referencing the variable
headers: list[str]
sequence of column headers
process_template: LinkByUID
process template associated with this ingredient identifier
ingredient_name: str
name of ingredient
scope: str
scope of the identifier (default: the Citrine scope)
type_selector: DataObjectTypeSelector
strategy for selecting data object types to consider when matching, defaults to PREFER_RUN
"""
name = properties.String('name')
headers = properties.List(properties.String, 'headers')
process_template = properties.Object(LinkByUID, 'process_template')
ingredient_name = properties.String('ingredient_name')
scope = properties.String('scope')
type_selector = properties.Enumeration(DataObjectTypeSelector,
"type_selector")
typ = properties.String('type',
default="ing_id_by_process_and_name",
deserializable=False)
def _attrs(self) -> List[str]:
return [
"name", "headers", "process_template", "ingredient_name", "scope",
"type_selector", "typ"
]
def __init__(
self,
*,
name: str,
headers: List[str],
process_template: LinkByUID,
ingredient_name: str,
scope: str,
type_selector: DataObjectTypeSelector = DataObjectTypeSelector.
PREFER_RUN):
self.name = name
self.headers = headers
self.process_template = process_template
self.ingredient_name = ingredient_name
self.scope = scope
self.type_selector = type_selector
class CrossValidationResult(Serializable["CrossValidationResult"],
PredictorEvaluationResult):
"""Result of performing a cross-validation evaluation on a predictor.
Results for a cross-validated response can be accessed via ``cvResult['response_name']``,
where ``cvResult`` is a
:class:`citrine.informatics.predictor_evaluation_result.CrossValidationResult`
and ``'response_name'`` is a response analyzed by a
:class:`citrine.informatics.predictor_evaluator.PredictorEvaluator`.
"""
_evaluator = properties.Object(PredictorEvaluator, "evaluator")
_response_results = properties.Mapping(properties.String,
properties.Object(ResponseMetrics),
"response_results")
typ = properties.String('type',
default='CrossValidationResult',
deserializable=False)
def __getitem__(self, item):
return self._response_results[item]
def __iter__(self):
return iter(self.responses)
@property
def evaluator(self) -> PredictorEvaluator:
""":PredictorEvaluator: Evaluator that produced this result."""
return self._evaluator
@property
def responses(self) -> Set[str]:
"""Responses for which results are present."""
return set(self._response_results.keys())
@property
def metrics(self) -> Set[PredictorEvaluationMetric]:
""":Set[PredictorEvaluationMetric]: Metrics for which results are present."""
return self._evaluator.metrics
class PredictorEvaluationWorkflow(Resource['PredictorEvaluationWorkflow'],
Workflow, AIResourceMetadata):
"""A workflow that evaluations a predictor.
Parameters
----------
name: str
name of the predictor evaluation workflow
description: str
the description of the predictor evaluation workflow
evaluators: List[PredictorEvaluator]
the list of evaluators to apply to the predictor
"""
name = properties.String('name')
description = properties.String('description')
evaluators = properties.List(properties.Object(PredictorEvaluator),
"evaluators")
status_description = properties.String('status_description',
serializable=False)
""":str: more detailed description of the workflow's status"""
typ = properties.String('type',
default='PredictorEvaluationWorkflow',
deserializable=False)
def __init__(self,
*,
name: str,
description: str = "",
evaluators: List[PredictorEvaluator]):
self.name: str = name
self.description: str = description
self.evaluators: List[PredictorEvaluator] = evaluators
self.session: Optional[Session] = None
self.project_id: Optional[UUID] = None
def __str__(self):
return '<PredictorEvaluationWorkflow {!r}>'.format(self.name)
@property
def executions(self) -> PredictorEvaluationExecutionCollection:
"""Return a resource representing all visible executions of this workflow."""
if getattr(self, 'project_id', None) is None:
raise AttributeError(
'Cannot initialize execution without project reference!')
return PredictorEvaluationExecutionCollection(
project_id=self.project_id,
session=self.session,
workflow_id=self.uid)
class EVScore(Serializable['EVScore'], Score):
"""
[ALPHA] Evaluates the expected value for given objectives.
Parameters
----------
name: str
the name of the score
description: str
the description of the score
objectives: list[Objective]
objectives (e.g., maximize, minimize, tune, etc.)
constraints: list[Constraint]
constraints limiting the allowed values that material instances can have
"""
name = properties.String('name')
description = properties.String('description')
objectives = properties.List(properties.Object(Objective), 'objectives')
constraints = properties.List(properties.Object(Constraint), 'constraints')
typ = properties.String('type', default='MEV')
def __init__(self,
name: str,
description: str,
objectives: List[Objective],
constraints: Optional[List[Constraint]] = None,
session: Optional[Session] = None):
self.name: str = name
self.description: str = description
self.objectives: List[Objective] = objectives
self.constraints: List[Constraint] = constraints or []
self.session: Optional[Session] = session
def __str__(self):
return '<EVScore {!r}>'.format(self.name)
class IngredientQuantityByProcessAndName(
Serializable['IngredientQuantityByProcessAndName'], Variable):
"""[ALPHA] Get the quantity of an ingredient associated with a process template and a name.
Parameters
---------
name: str
a short human-readable name to use when referencing the variable
headers: list[str]
sequence of column headers
process_template: LinkByUID
process template associated with this ingredient identifier
ingredient_name: str
name of ingredient
quantity_dimension: IngredientQuantityDimension
dimension of the ingredient quantity: absolute quantity, number, mass, or volume fraction.
valid options are defined by
:class:`~citrine.gemtables.variables.IngredientQuantityDimension`
type_selector: DataObjectTypeSelector
strategy for selecting data object types to consider when matching, defaults to PREFER_RUN
"""
name = properties.String('name')
headers = properties.List(properties.String, 'headers')
process_template = properties.Object(LinkByUID, 'process_template')
ingredient_name = properties.String('ingredient_name')
quantity_dimension = properties.Enumeration(IngredientQuantityDimension, 'quantity_dimension')
type_selector = properties.Enumeration(DataObjectTypeSelector, "type_selector")
typ = properties.String('type', default="ing_quantity_by_process_and_name",
deserializable=False)
def _attrs(self) -> List[str]:
return ["name", "headers", "process_template", "ingredient_name", "quantity_dimension",
"type_selector", "typ"]
def __init__(self, *,
name: str,
headers: List[str],
process_template: LinkByUID,
ingredient_name: str,
quantity_dimension: IngredientQuantityDimension,
type_selector: DataObjectTypeSelector = DataObjectTypeSelector.PREFER_RUN):
self.name = name
self.headers = headers
self.process_template = process_template
self.ingredient_name = ingredient_name
self.quantity_dimension = quantity_dimension
self.type_selector = type_selector
class LabelFractionConstraint(Serializable['LabelFractionConstraint'],
Constraint):
"""Represents a constraint on the total amount of ingredients with a given label.
Parameters
----------
formulation_descriptor: FormulationDescriptor
descriptor to constrain
label: str
ingredient label to constrain
min: float
minimum value
max: float
maximum value
is_required: bool, optional
whether this ingredient is required.
If ``True``, the label must be present and its value must be within the
specified range. if ``False``, the label must be within the specified range only if
it's present in the formulation, i.e., the value can be 0 or on the range ``[min, max]``.
"""
formulation_descriptor = properties.Object(FormulationDescriptor,
'formulation_descriptor')
label = properties.String('label')
min = properties.Optional(properties.Float, 'min')
max = properties.Optional(properties.Float, 'max')
is_required = properties.Boolean('is_required')
typ = properties.String('type', default='LabelFractionConstraint')
def __init__(self,
*,
formulation_descriptor: FormulationDescriptor,
label: str,
min: float,
max: float,
is_required: bool = True,
session: Optional[Session] = None):
self.formulation_descriptor: FormulationDescriptor = formulation_descriptor
self.label: str = label
self.min: float = min
self.max: float = max
self.is_required: bool = is_required
self.session: Optional[Session] = session
def __str__(self):
return '<LabelFractionConstraint {!r}::{!r}>'.format(
self.formulation_descriptor.key, self.label)