inputs=[
labels(name='sentences',
reference='biomedicus-sentences/sentences'),
labels(name='umls_terms',
reference='biomedicus-concepts/umls_terms',
name_from_parameter='terms_index'),
labels("negation_triggers",
reference='biomedicus-negex-triggers')
],
outputs=[
labels(
name='dependencies',
description="The dependent words.",
properties=[
label_property('deprel',
description="The dependency relation",
data_type='str'),
label_property(
'head',
description=
"The head of this label or null if its the root.",
nullable=True,
data_type='ref:dependencies'),
label_property(
'dependents',
description="The dependents of ths dependent.",
data_type='list[ref:dependencies]')
]),
labels(name='upos_tags',
description="Universal Part-of-speech tags",
properties=[
from mtap.processing import DocumentProcessor, _runners
from mtap.processing.descriptions import parameter, labels, label_property
from mtap.processing._service import _ProcessorServicer
@processor('mtap-test-processor',
description='Processor desc.',
parameters=[
parameter('a_param',
required=True,
data_type='bool',
description="desc.")
],
inputs=[
labels('input_index',
properties=[label_property('bar', data_type='bool')])
],
outputs=[
labels('output_index',
description='desc.',
properties=[
label_property('foo',
data_type='str',
nullable=True,
description='A label property.')
])
])
class ExampleTestProcessor(DocumentProcessor):
def process_document(self, document: Document, params: Dict[str, Any]):
pass
)
],
inputs=[
label_index(name='sentences',
reference='biomedicus-sentences/sentences'),
label_index(name='umls_terms',
reference='biomedicus-concepts/umls_terms',
name_from_parameter='terms_index')
],
outputs=[
label_index("negation_trigger",
description="Spans of phrases that trigger negation.",
properties=[
label_property(
"tags",
data_type='List[str]',
description='The tags that apply to the trigger, '
'for example: POST PREN')
])
])
class NegexTriggersProcessor(DocumentProcessor):
def __init__(self):
self.negex = NegexTriggerTagger()
def process_document(self, document: Document, params: Dict[str, Any]):
label_trigger = document.get_labeler('negation_triggers')
with label_trigger:
for sentence in document.get_label_index('sentences'):
triggers = self.negex.detect_negex_triggers(sentence.text)
for start_index, end_index, tags in triggers:
label_trigger(sentence.start_index + start_index,
@mtap.processor(
'mtap-example-processor-python',
human_name="Python Example Processor",
description=
"counts the number of times the letters a and b occur in a document",
parameters=[
parameter('do_work',
required=True,
data_type='bool',
description="Whether the processor should do anything.")
],
outputs=[
label_index('mtap.examples.letter_counts',
properties=[
label_property('letter', data_type='str'),
label_property('count', data_type='int')
])
])
class ExampleProcessor(DocumentProcessor):
"""Does some labeling of the counts of the letter 'a' and 'b' in a document.
"""
def process_document(self, document: Document,
params: Dict[str, Any]) -> Optional[Dict[str, Any]]:
if params['do_work']:
with self.started_stopwatch('fetch_time'):
text = document.text
a_count = text.count('a')
b_count = text.count('b')