sparknlp_jsl.annotator.MedicalDistilBertForSequenceClassification#

class sparknlp_jsl.annotator.MedicalDistilBertForSequenceClassification(classname='com.johnsnowlabs.nlp.annotators.classification.MedicalDistilBertForSequenceClassification', java_model=None)[source]#

Bases: AnnotatorModel, HasCaseSensitiveProperties, HasBatchedAnnotate

MedicalDistilBertForSequenceClassification can load DistilBERT Models with sequence classification/regression head on top (a linear layer on top of the pooled output) e.g. for multi-class document classification tasks.

Pretrained models can be loaded with pretrained() of the companion object:

>>> sequenceClassifier = MedicalDistilBertForSequenceClassification.pretrained() \
...     .setInputCols(["token", "document"]) \
...     .setOutputCol("label")

Models from the HuggingFace 🤗 Transformers library are also compatible with Spark NLP 🚀. To see which models are compatible and how to import them see Import Transformers into Spark NLP 🚀.

Input Annotation types	Output Annotation type
`DOCUMENT, TOKEN`	`CATEGORY`

Parameters:

batchSize: Batch size. Large values allows faster processing but requires more memory, by default 8
caseSensitive: Whether to ignore case in tokens for embeddings matching, by default True
configProtoBytes: ConfigProto from tensorflow, serialized into byte array.
maxSentenceLength: Max sentence length to process, by default 128
coalesceSentences: Instead of 1 class per sentence (if inputCols is sentence) output 1 class per document by averaging probabilities in all sentences.

Examples

>>> import sparknlp
>>> from sparknlp.base import *
>>> from sparknlp.annotator import *
>>> from pyspark.ml import Pipeline
>>> documentAssembler = DocumentAssembler() \
...     .setInputCol("text") \
...     .setOutputCol("document")
>>> tokenizer = Tokenizer() \
...     .setInputCols(["document"]) \
...     .setOutputCol("token")
>>> sequenceClassifier = MedicalDistilBertForSequenceClassification.pretrained() \
...     .setInputCols(["token", "document"]) \
...     .setOutputCol("label") \
...     .setCaseSensitive(True)
>>> pipeline = Pipeline().setStages([
...     documentAssembler,
...     tokenizer,
...     sequenceClassifier
... ])
>>> data = spark.createDataFrame([["I felt a bit drowsy and had blurred vision after taking Aspirin."]]).toDF("text")
>>> result = pipeline.fit(data).transform(data)
>>> result.select("label.result").show(truncate=False)

Methods

`__init__`([classname, java_model])	Initialize this instance with a Java model object.
`clear`(param)	Clears a param from the param map if it has been explicitly set.
`copy`([extra])	Creates a copy of this instance with the same uid and some extra params.
`explainParam`(param)	Explains a single param and returns its name, doc, and optional default value and user-supplied value in a string.
`explainParams`()	Returns the documentation of all params with their optionally default values and user-supplied values.
`extractParamMap`([extra])	Extracts the embedded default param values and user-supplied values, and then merges them with extra values from input into a flat param map, where the latter value is used if there exist conflicts, i.e., with ordering: default param values < user-supplied values < extra.
`getBatchSize`()	Gets current batch size.
`getCaseSensitive`()	Gets whether to ignore case in tokens for embeddings matching.
`getClasses`()	Returns labels used to train this model
`getInputCols`()	Gets current column names of input annotations.
`getLazyAnnotator`()	Gets whether Annotator should be evaluated lazily in a RecursivePipeline.
`getOrDefault`(param)	Gets the value of a param in the user-supplied param map or its default value.
`getOutputCol`()	Gets output column name of annotations.
`getParam`(paramName)	Gets a param by its name.
`getParamValue`(paramName)	Gets the value of a parameter.
`hasDefault`(param)	Checks whether a param has a default value.
`hasParam`(paramName)	Tests whether this instance contains a param with a given (string) name.
`isDefined`(param)	Checks whether a param is explicitly set by user or has a default value.
`isSet`(param)	Checks whether a param is explicitly set by user.
`load`(path)	Reads an ML instance from the input path, a shortcut of read().load(path).
`loadSavedModel`(folder, spark_session)	Loads a locally saved model.
`loadSavedModelOpenSource`(...)	Loads a locally saved model.
`pretrained`([name, lang, remote_loc])	Downloads and loads a pretrained model.
`read`()	Returns an MLReader instance for this class.
`save`(path)	Save this ML instance to the given path, a shortcut of 'write().save(path)'.
`set`(param, value)	Sets a parameter in the embedded param map.
`setBatchSize`(v)	Sets batch size.
`setCaseSensitive`(value)	Sets whether to ignore case in tokens for embeddings matching.
`setCoalesceSentences`(value)	Instead of 1 class per sentence (if inputCols is '''sentence''') output 1 class per document by averaging probabilities in all sentences.
`setConfigProtoBytes`(b)	Sets configProto from tensorflow, serialized into byte array.
`setInputCols`(*value)	Sets column names of input annotations.
`setLazyAnnotator`(value)	Sets whether Annotator should be evaluated lazily in a RecursivePipeline.
`setMaxSentenceLength`(value)	Sets max sentence length to process, by default 128.
`setOutputCol`(value)	Sets output column name of annotations.
`setParamValue`(paramName)	Sets the value of a parameter.
`setParams`()
`transform`(dataset[, params])	Transforms the input dataset with optional parameters.
`write`()	Returns an MLWriter instance for this ML instance.

Attributes

`batchSize`
`caseSensitive`
`coalesceSentences`
`configProtoBytes`
`getter_attrs`
`inputCols`
`lazyAnnotator`
`maxSentenceLength`
`name`
`outputCol`
`params`	Returns all params ordered by name.

clear(param)#: Clears a param from the param map if it has been explicitly set.

copy(extra=None)#

Creates a copy of this instance with the same uid and some extra params. This implementation first calls Params.copy and then make a copy of the companion Java pipeline component with extra params. So both the Python wrapper and the Java pipeline component get copied.

Parameters:: extra – Extra parameters to copy to the new instance
Returns:: Copy of this instance

explainParam(param)#: Explains a single param and returns its name, doc, and optional default value and user-supplied value in a string.

explainParams()#: Returns the documentation of all params with their optionally default values and user-supplied values.

extractParamMap(extra=None)#

Extracts the embedded default param values and user-supplied values, and then merges them with extra values from input into a flat param map, where the latter value is used if there exist conflicts, i.e., with ordering: default param values < user-supplied values < extra.

Parameters:: extra – extra param values
Returns:: merged param map

getBatchSize()#

Gets current batch size.

Returns:

int: Current batch size

getCaseSensitive()#

Gets whether to ignore case in tokens for embeddings matching.

Returns:

bool: Whether to ignore case in tokens for embeddings matching

getClasses()[source]#: Returns labels used to train this model

getInputCols()#: Gets current column names of input annotations.

getLazyAnnotator()#: Gets whether Annotator should be evaluated lazily in a RecursivePipeline.

getOrDefault(param)#: Gets the value of a param in the user-supplied param map or its default value. Raises an error if neither is set.

getOutputCol()#: Gets output column name of annotations.

getParam(paramName)#: Gets a param by its name.

getParamValue(paramName)#

Gets the value of a parameter.

Parameters:

paramNamestr: Name of the parameter

hasDefault(param)#: Checks whether a param has a default value.

hasParam(paramName)#: Tests whether this instance contains a param with a given (string) name.

isDefined(param)#: Checks whether a param is explicitly set by user or has a default value.

isSet(param)#: Checks whether a param is explicitly set by user.

classmethod load(path)#: Reads an ML instance from the input path, a shortcut of read().load(path).

static loadSavedModel(folder, spark_session)[source]#

Loads a locally saved model.

Parameters:

folderstr: Folder of the saved model
spark_sessionpyspark.sql.SparkSession: The current SparkSession

Returns:

DistilBertForSequenceClassification: The restored model

static loadSavedModelOpenSource(destilBertForTokenClassifierPath, tfModelPath, spark_session)[source]#

Loads a locally saved model.

Parameters:

bertForTokenClassifierPathstr: Folder of the bertForTokenClassifier
tfModelPathstr: Folder taht contains the tf model
spark_sessionpyspark.sql.SparkSession: The current SparkSession
Returns
——-
MedicalBertForSequenceClassification: The restored model

property params#: Returns all params ordered by name. The default implementation uses dir() to get all attributes of type Param.

static pretrained(name='distilbert_sequence_classifier_ade', lang='en', remote_loc='clinical/models')[source]#

Downloads and loads a pretrained model.

Parameters:

namestr, optional: Name of the pretrained model, by default
langstr, optional: Language of the pretrained model, by default “en”
remote_locstr, optional: Optional remote address of the resource, by default None. Will use Spark NLPs repositories otherwise.

Returns:

MedicalBertForTokenClassifier: The restored model

classmethod read()#: Returns an MLReader instance for this class.

save(path)#: Save this ML instance to the given path, a shortcut of ‘write().save(path)’.

set(param, value)#: Sets a parameter in the embedded param map.

setBatchSize(v)#

Sets batch size.

Parameters:

vint: Batch size

setCaseSensitive(value)#

Sets whether to ignore case in tokens for embeddings matching.

Parameters:

valuebool: Whether to ignore case in tokens for embeddings matching

setCoalesceSentences(value)[source]#

Instead of 1 class per sentence (if inputCols is ‘’’sentence’’’) output 1 class per document by averaging probabilities in all sentences. Due to max sequence length limit in almost all transformer models such as BERT (512 tokens), this parameter helps feeding all the sentences into the model and averaging all the probabilities for the entire document instead of probabilities per sentence. (Default: true)

Parameters:

valuebool: If the output of all sentences will be averaged to one output

setConfigProtoBytes(b)[source]#

Sets configProto from tensorflow, serialized into byte array.

Parameters:

bList[int]: ConfigProto from tensorflow, serialized into byte array

setInputCols(*value)#

Sets column names of input annotations.

Parameters:

*valuestr: Input columns for the annotator

setLazyAnnotator(value)#

Sets whether Annotator should be evaluated lazily in a RecursivePipeline.

Parameters:

valuebool: Whether Annotator should be evaluated lazily in a RecursivePipeline

setMaxSentenceLength(value)[source]#

Sets max sentence length to process, by default 128.

Parameters:

valueint: Max sentence length to process

setOutputCol(value)#

Sets output column name of annotations.

Parameters:

valuestr: Name of output column

setParamValue(paramName)#

Sets the value of a parameter.

Parameters:

paramNamestr: Name of the parameter

transform(dataset, params=None)#

Transforms the input dataset with optional parameters.

Parameters:

dataset – input dataset, which is an instance of pyspark.sql.DataFrame
params – an optional param map that overrides embedded params.

Returns:

transformed dataset

New in version 1.3.0.

uid#: A unique id for the object.

write()#: Returns an MLWriter instance for this ML instance.