def test_open_close_labels(model_filename, yseq):
tagger = Tagger()
with pytest.raises(ValueError):
# tagger should be closed, so labels() method should fail here
labels = tagger.labels()
with tagger.open(model_filename):
labels = tagger.labels()
assert set(labels) == set(yseq)
with pytest.raises(ValueError):
# tagger should be closed, so labels() method should fail here
labels = tagger.labels()
def test_open_close_labels(model_filename, yseq):
tagger = Tagger()
with pytest.raises(ValueError):
# tagger should be closed, so labels() method should fail here
labels = tagger.labels()
with tagger.open(model_filename):
labels = tagger.labels()
assert set(labels) == set(yseq)
with pytest.raises(ValueError):
# tagger should be closed, so labels() method should fail here
labels = tagger.labels()
def crf_predict(
tagger: pycrfsuite.Tagger,
gp_data: list,
mode: str = 'raw',
exclude_labels: list = ['NOL', 'NAT', 'NEE']
) -> Union[list, Tuple[list, pd.DataFrame]]:
"""Return predictions for the test data, grouped by file. 3 modes for return:
* Return raw predictions (raw)
* Return predictions with only valid tags (exclude_ool)
* Return predictions (valid tags) and probabilities for each class (rt_proba)
Predictions are returned unflattened
https://python-crfsuite.readthedocs.io/en/latest/pycrfsuite.html
"""
if mode not in ['raw', 'exclude_ool', 'rt_proba']:
raise ValueError(
f"mode must be one of raw|exclude_ool|rt_proba; currently {mode}")
if mode == 'raw':
return [tagger.tag(xseq) for xseq in gp_data]
labels = tagger.labels()
res = []
y_pred = []
for fi, xseq in enumerate(gp_data):
tagger.set(xseq)
file_proba = pd.DataFrame({
label: [tagger.marginal(label, i) for i in range(len(xseq))]
for label in labels
})
y_pred.append(file_proba[[
col for col in file_proba.columns if col not in exclude_labels
]].idxmax(axis=1).tolist())
file_proba['file_id'] = fi
res.append(file_proba)
if mode == 'rt_proba':
return y_pred, pd.concat(res, axis=0)
return y_pred # else