spaCy/spacy/ml/models/spancat.py

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Add SpanCategorizer component (#6747) * Draft spancat model * Add spancat model * Add test for extract_spans * Add extract_spans layer * Upd extract_spans * Add spancat model * Add test for spancat model * Upd spancat model * Update spancat component * Upd spancat * Update spancat model * Add quick spancat test * Import SpanCategorizer * Fix SpanCategorizer component * Import SpanGroup * Fix span extraction * Fix import * Fix import * Upd model * Update spancat models * Add scoring, update defaults * Update and add docs * Fix type * Update spacy/ml/extract_spans.py * Auto-format and fix import * Fix comment * Fix type * Fix type * Update website/docs/api/spancategorizer.md * Fix comment Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com> * Better defense Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com> * Fix labels list Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com> * Update spacy/ml/extract_spans.py Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com> * Update spacy/pipeline/spancat.py Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com> * Set annotations during update * Set annotations in spancat * fix imports in test * Update spacy/pipeline/spancat.py * replace MaxoutLogistic with LinearLogistic * fix config * various small fixes * remove set_annotations parameter in update * use our beloved tupley format with recent support for doc.spans * bugfix to allow renaming the default span_key (scores weren't showing up) * use different key in docs example * change defaults to better-working parameters from project (WIP) * register spacy.extract_spans.v1 for legacy purposes * Upd dev version so can build wheel * layers instead of architectures for smaller building blocks * Update website/docs/api/spancategorizer.md Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com> * Update website/docs/api/spancategorizer.md Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com> * Include additional scores from overrides in combined score weights * Parameterize spans key in scoring Parameterize the `SpanCategorizer` `spans_key` for scoring purposes so that it's possible to evaluate multiple `spancat` components in the same pipeline. * Use the (intentionally very short) default spans key `sc` in the `SpanCategorizer` * Adjust the default score weights to include the default key * Adjust the scorer to use `spans_{spans_key}` as the prefix for the returned score * Revert addition of `attr_name` argument to `score_spans` and adjust the key in the `getter` instead. Note that for `spancat` components with a custom `span_key`, the score weights currently need to be modified manually in `[training.score_weights]` for them to be available during training. To suppress the default score weights `spans_sc_p/r/f` during training, set them to `null` in `[training.score_weights]`. * Update website/docs/api/scorer.md * Fix scorer for spans key containing underscore * Increment version * Add Spans to Evaluate CLI (#8439) * Add Spans to Evaluate CLI * Change to spans_key * Add spans per_type output Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com> * Fix spancat GPU issues (#8455) * Fix GPU issues * Require thinc >=8.0.6 * Switch to glorot_uniform_init * Fix and test ngram suggester * Include final ngram in doc for all sizes * Fix ngrams for docs of the same length as ngram size * Handle batches of docs that result in no ngrams * Add tests Co-authored-by: Ines Montani <ines@ines.io> Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com> Co-authored-by: svlandeg <sofie.vanlandeghem@gmail.com> Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com> Co-authored-by: Nirant <NirantK@users.noreply.github.com>
2021-06-24 10:35:27 +00:00
from typing import List, Tuple
from thinc.api import Model, with_getitem, chain, list2ragged, Logistic
from thinc.api import Maxout, Linear, concatenate, glorot_uniform_init
from thinc.api import reduce_mean, reduce_max, reduce_first, reduce_last
from thinc.types import Ragged, Floats2d
from ...util import registry
from ...tokens import Doc
from ..extract_spans import extract_spans
@registry.layers.register("spacy.LinearLogistic.v1")
def build_linear_logistic(nO=None, nI=None) -> Model[Floats2d, Floats2d]:
"""An output layer for multi-label classification. It uses a linear layer
followed by a logistic activation.
"""
return chain(Linear(nO=nO, nI=nI, init_W=glorot_uniform_init), Logistic())
@registry.layers.register("spacy.mean_max_reducer.v1")
def build_mean_max_reducer(hidden_size: int) -> Model[Ragged, Floats2d]:
"""Reduce sequences by concatenating their mean and max pooled vectors,
and then combine the concatenated vectors with a hidden layer.
"""
return chain(
concatenate(reduce_last(), reduce_first(), reduce_mean(), reduce_max()),
Maxout(nO=hidden_size, normalize=True, dropout=0.0),
)
@registry.architectures.register("spacy.SpanCategorizer.v1")
def build_spancat_model(
tok2vec: Model[List[Doc], List[Floats2d]],
reducer: Model[Ragged, Floats2d],
scorer: Model[Floats2d, Floats2d],
) -> Model[Tuple[List[Doc], Ragged], Floats2d]:
"""Build a span categorizer model, given a token-to-vector model, a
reducer model to map the sequence of vectors for each span down to a single
vector, and a scorer model to map the vectors to probabilities.
tok2vec (Model[List[Doc], List[Floats2d]]): The tok2vec model.
reducer (Model[Ragged, Floats2d]): The reducer model.
scorer (Model[Floats2d, Floats2d]): The scorer model.
"""
model = chain(
with_getitem(0, chain(tok2vec, list2ragged())),
extract_spans(),
reducer,
scorer,
)
model.set_ref("tok2vec", tok2vec)
model.set_ref("reducer", reducer)
model.set_ref("scorer", scorer)
return model