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import sys
from abc import ABC
from typing import Any
from typing import Callable
from typing import Dict
from typing import Iterable
from typing import Mapping
from typing import Optional
from typing import Sequence
from typing import Union
import numpy
import pandas
import scipy
import datatable
import xgboost
from apache_beam.io.filesystems import FileSystems
from apache_beam.ml.inference.base import ExampleT
from apache_beam.ml.inference.base import ModelHandler
from apache_beam.ml.inference.base import ModelT
from apache_beam.ml.inference.base import PredictionResult
from apache_beam.ml.inference.base import PredictionT
__all__ = [
'XGBoostModelHandler',
'XGBoostModelHandlerNumpy',
'XGBoostModelHandlerPandas',
'XGBoostModelHandlerSciPy',
'XGBoostModelHandlerDatatable'
]
XGBoostInferenceFn = Callable[[
Sequence[object],
Union[xgboost.Booster, xgboost.XGBModel],
Optional[Dict[str, Any]]
],
Iterable[PredictionResult]]
def default_xgboost_inference_fn(
batch: Sequence[object],
model: Union[xgboost.Booster, xgboost.XGBModel],
inference_args: Optional[Dict[str,
Any]] = None) -> Iterable[PredictionResult]:
inference_args = {} if not inference_args else inference_args
if type(model) == xgboost.Booster:
batch = [xgboost.DMatrix(array) for array in batch]
predictions = [model.predict(el, **inference_args) for el in batch]
return [PredictionResult(x, y) for x, y in zip(batch, predictions)]
[docs]class XGBoostModelHandler(ModelHandler[ExampleT, PredictionT, ModelT], ABC):
def __init__(
self,
model_class: Union[Callable[..., xgboost.Booster],
Callable[..., xgboost.XGBModel]],
model_state: str,
inference_fn: XGBoostInferenceFn = default_xgboost_inference_fn,
*,
min_batch_size: Optional[int] = None,
max_batch_size: Optional[int] = None,
max_batch_duration_secs: Optional[int] = None,
**kwargs):
"""Implementation of the ModelHandler interface for XGBoost.
Example Usage::
pcoll | RunInference(
XGBoostModelHandler(
model_class="XGBoost Model Class",
model_state="my_model_state.json")))
See https://xgboost.readthedocs.io/en/stable/tutorials/saving_model.html
for details
Args:
model_class: class of the XGBoost model that defines the model
structure.
model_state: path to a json file that contains the model's
configuration.
inference_fn: the inference function to use during RunInference.
default=default_xgboost_inference_fn
min_batch_size: optional. the minimum batch size to use when batching
inputs.
max_batch_size: optional. the maximum batch size to use when batching
inputs.
max_batch_duration_secs: optional. the maximum amount of time to buffer
a batch before emitting; used in streaming contexts.
kwargs: 'env_vars' can be used to set environment variables
before loading the model.
**Supported Versions:** RunInference APIs in Apache Beam have been tested
with XGBoost 1.6.0 and 1.7.0
XGBoost 1.0.0 introduced support for using JSON to save and load
XGBoost models. XGBoost 1.6.0, additional support for Universal Binary JSON.
It is recommended to use a model trained in XGBoost 1.6.0 or higher.
While you should be able to load models created in older versions, there
are no guarantees this will work as expected.
This class is the superclass of all the various XGBoostModelhandlers
and should not be instantiated directly. (See instead
XGBoostModelHandlerNumpy, XGBoostModelHandlerPandas, etc.)
"""
self._model_class = model_class
self._model_state = model_state
self._inference_fn = inference_fn
self._env_vars = kwargs.get('env_vars', {})
self._batching_kwargs = {}
if min_batch_size is not None:
self._batching_kwargs["min_batch_size"] = min_batch_size
if max_batch_size is not None:
self._batching_kwargs["max_batch_size"] = max_batch_size
if max_batch_duration_secs is not None:
self._batching_kwargs["max_batch_duration_secs"] = max_batch_duration_secs
[docs] def load_model(self) -> Union[xgboost.Booster, xgboost.XGBModel]:
model = self._model_class()
model_state_file_handler = FileSystems.open(self._model_state, 'rb')
model_state_bytes = model_state_file_handler.read()
# Convert into a bytearray so that the
# model state can be loaded in XGBoost
model_state_bytearray = bytearray(model_state_bytes)
model.load_model(model_state_bytearray)
return model
[docs] def get_metrics_namespace(self) -> str:
return 'BeamML_XGBoost'
[docs] def batch_elements_kwargs(self) -> Mapping[str, Any]:
return self._batching_kwargs
[docs]class XGBoostModelHandlerNumpy(XGBoostModelHandler[numpy.ndarray,
PredictionResult,
Union[xgboost.Booster,
xgboost.XGBModel]]):
"""Implementation of the ModelHandler interface for XGBoost
using numpy arrays as input.
Example Usage::
pcoll | RunInference(
XGBoostModelHandlerNumpy(
model_class="XGBoost Model Class",
model_state="my_model_state.json")))
Args:
model_class: class of the XGBoost model that defines the model
structure.
model_state: path to a json file that contains the model's
configuration.
inference_fn: the inference function to use during RunInference.
default=default_xgboost_inference_fn
"""
[docs] def run_inference(
self,
batch: Sequence[numpy.ndarray],
model: Union[xgboost.Booster, xgboost.XGBModel],
inference_args: Optional[Dict[str, Any]] = None
) -> Iterable[PredictionResult]:
"""Runs inferences on a batch of 2d numpy arrays.
Args:
batch: A sequence of examples as 2d numpy arrays. Each
row in an array is a single example. The dimensions
must match the dimensions of the data used to train
the model.
model: XGBoost booster or XBGModel (sklearn interface). Must
implement predict(X). Where the parameter X is a 2d numpy array.
inference_args: Any additional arguments for an inference.
Returns:
An Iterable of type PredictionResult.
"""
return self._inference_fn(batch, model, inference_args)
[docs] def get_num_bytes(self, batch: Sequence[numpy.ndarray]) -> int:
"""
Returns:
The number of bytes of data for a batch.
"""
return sum(sys.getsizeof(element) for element in batch)
[docs]class XGBoostModelHandlerPandas(XGBoostModelHandler[pandas.DataFrame,
PredictionResult,
Union[xgboost.Booster,
xgboost.XGBModel]]):
"""Implementation of the ModelHandler interface for XGBoost
using pandas dataframes as input.
Example Usage::
pcoll | RunInference(
XGBoostModelHandlerPandas(
model_class="XGBoost Model Class",
model_state="my_model_state.json")))
Args:
model_class: class of the XGBoost model that defines the model
structure.
model_state: path to a json file that contains the model's
configuration.
inference_fn: the inference function to use during RunInference.
default=default_xgboost_inference_fn
"""
[docs] def run_inference(
self,
batch: Sequence[pandas.DataFrame],
model: Union[xgboost.Booster, xgboost.XGBModel],
inference_args: Optional[Dict[str, Any]] = None
) -> Iterable[PredictionResult]:
"""Runs inferences on a batch of pandas dataframes.
Args:
batch: A sequence of examples as pandas dataframes. Each
row in a dataframe is a single example. The dimensions
must match the dimensions of the data used to train
the model.
model: XGBoost booster or XBGModel (sklearn interface). Must
implement predict(X). Where the parameter X is a pandas dataframe.
inference_args: Any additional arguments for an inference.
Returns:
An Iterable of type PredictionResult.
"""
return self._inference_fn(batch, model, inference_args)
[docs] def get_num_bytes(self, batch: Sequence[pandas.DataFrame]) -> int:
"""
Returns:
The number of bytes of data for a batch of Numpy arrays.
"""
return sum(df.memory_usage(deep=True).sum() for df in batch)
[docs]class XGBoostModelHandlerSciPy(XGBoostModelHandler[scipy.sparse.csr_matrix,
PredictionResult,
Union[xgboost.Booster,
xgboost.XGBModel]]):
""" Implementation of the ModelHandler interface for XGBoost
using scipy matrices as input.
Example Usage::
pcoll | RunInference(
XGBoostModelHandlerSciPy(
model_class="XGBoost Model Class",
model_state="my_model_state.json")))
Args:
model_class: class of the XGBoost model that defines the model
structure.
model_state: path to a json file that contains the model's
configuration.
inference_fn: the inference function to use during RunInference.
default=default_xgboost_inference_fn
"""
[docs] def run_inference(
self,
batch: Sequence[scipy.sparse.csr_matrix],
model: Union[xgboost.Booster, xgboost.XGBModel],
inference_args: Optional[Dict[str, Any]] = None
) -> Iterable[PredictionResult]:
"""Runs inferences on a batch of SciPy sparse matrices.
Args:
batch: A sequence of examples as Scipy sparse matrices.
The dimensions must match the dimensions of the data
used to train the model.
model: XGBoost booster or XBGModel (sklearn interface). Must implement
predict(X). Where the parameter X is a SciPy sparse matrix.
inference_args: Any additional arguments for an inference.
Returns:
An Iterable of type PredictionResult.
"""
return self._inference_fn(batch, model, inference_args)
[docs] def get_num_bytes(self, batch: Sequence[scipy.sparse.csr_matrix]) -> int:
"""
Returns:
The number of bytes of data for a batch.
"""
return sum(sys.getsizeof(element) for element in batch)
[docs]class XGBoostModelHandlerDatatable(XGBoostModelHandler[datatable.Frame,
PredictionResult,
Union[xgboost.Booster,
xgboost.XGBModel]]
):
"""Implementation of the ModelHandler interface for XGBoost
using datatable dataframes as input.
Example Usage::
pcoll | RunInference(
XGBoostModelHandlerDatatable(
model_class="XGBoost Model Class",
model_state="my_model_state.json")))
Args:
model_class: class of the XGBoost model that defines the model
structure.
model_state: path to a json file that contains the model's
configuration.
inference_fn: the inference function to use during RunInference.
default=default_xgboost_inference_fn
"""
[docs] def run_inference(
self,
batch: Sequence[datatable.Frame],
model: Union[xgboost.Booster, xgboost.XGBModel],
inference_args: Optional[Dict[str, Any]] = None
) -> Iterable[PredictionResult]:
"""Runs inferences on a batch of datatable dataframe.
Args:
batch: A sequence of examples as datatable dataframes. Each
row in a dataframe is a single example. The dimensions
must match the dimensions of the data used to train
the model.
model: XGBoost booster or XBGModel (sklearn interface). Must implement
predict(X). Where the parameter X is a datatable dataframe.
inference_args: Any additional arguments for an inference.
Returns:
An Iterable of type PredictionResult.
"""
return self._inference_fn(batch, model, inference_args)
[docs] def get_num_bytes(self, batch: Sequence[datatable.Frame]) -> int:
"""
Returns:
The number of bytes of data for a batch.
"""
return sum(sys.getsizeof(element) for element in batch)