from typing import List
from pytest import fixture, mark
from edsnlp.pipelines.qualifiers.hypothesis import Hypothesis
from edsnlp.utils.examples import parse_example
examples: List[str] = [
"Possible <ent hypothesis_=HYP>covid-19</ent>",
(
"Plusieurs <ent hypothesis_=HYP>diagnostics</ent> sont envisagés. "
"Le patient est informé."
),
"même si <ent hypothesis=False>le patient est jeune</ent>.",
"Suspicion de <ent hypothesis_=HYP>diabète</ent>.",
"Le ligament est <ent hypothesis_=CERT>rompu</ent>.",
"Probablement du diabète mais pas de <ent hypothesis_=CERT>cécité</ent>.",
]
@fixture
def hypothesis_factory(blank_nlp):
default_config = dict(
pseudo=None,
preceding=None,
following=None,
termination=None,
verbs_hyp=None,
verbs_eds=None,
attr="NORM",
within_ents=False,
explain=True,
)
def factory(on_ents_only, **kwargs):
config = dict(**default_config)
config.update(kwargs)
return Hypothesis(
nlp=blank_nlp,
on_ents_only=on_ents_only,
**config,
)
return factory
@mark.parametrize("on_ents_only", [True, False])
def test_hypothesis(blank_nlp, hypothesis_factory, on_ents_only):
hypothesis = hypothesis_factory(on_ents_only)
for example in examples:
text, entities = parse_example(example=example)
doc = blank_nlp(text)
doc.ents = [
doc.char_span(ent.start_char, ent.end_char, label="ent") for ent in entities
]
doc = hypothesis(doc)
for entity, ent in zip(entities, doc.ents):
for modifier in entity.modifiers:
assert bool(ent._.hypothesis_cues) == (modifier.value in {"HYP", True})
assert getattr(ent._, modifier.key) == modifier.value
if not on_ents_only:
for token in ent:
assert (
getattr(token._, modifier.key) == modifier.value
), f"{modifier.key} labels don't match."
def test_hypothesis_within_ents(blank_nlp, hypothesis_factory):
hypothesis = hypothesis_factory(True, within_ents=True)
examples = [
"<ent hypothesis_=HYP>Diabète, probablement de type 2</ent>.",
]
for example in examples:
text, entities = parse_example(example=example)
doc = blank_nlp(text)
doc.ents = [
doc.char_span(ent.start_char, ent.end_char, label="ent") for ent in entities
]
doc = hypothesis(doc)
for entity, ent in zip(entities, doc.ents):
for modifier in entity.modifiers:
assert bool(ent._.hypothesis_cues) == (modifier.value in {"HYP", True})