Commit Graph

461 Commits

Author SHA1 Message Date
Sofie Van Landeghem
64fac754fe
add spacy prefix to ngram_suggester.v1 (#8623) 2021-07-07 08:09:30 +02:00
Sofie Van Landeghem
733e8ceea9
fix spancat initialize with labels (#8620) 2021-07-06 19:08:25 +02:00
Sofie Van Landeghem
3daf57d70c
Small spancat fixes (#8614)
* two small fixes + additional tests

* rename
2021-07-06 14:15:41 +02:00
Adriane Boyd
29906884c5
Raise an error for textcat with <2 labels (#8584)
* Raise an error for textcat with <2 labels

Raise an error if initializing a `textcat` component without at least
two labels.

* Add similar note to docs

* Update positive_label description in API docs
2021-07-06 12:35:22 +02:00
Ines Montani
7f65902702
Merge pull request #8522 from adrianeboyd/chore/update-flake8
Update flake8 version in reqs and CI
2021-06-28 21:46:06 +10:00
Adriane Boyd
86d01e9229 Tidy up with flake8: imports, comparisons, etc. 2021-06-28 12:08:15 +02:00
Adriane Boyd
5eeb25f043 Tidy up code 2021-06-28 12:08:15 +02:00
Adriane Boyd
4b0ed73ed4 Update flake8 version in reqs and CI
* Update some unneeded forward refs related to flake8 checks
2021-06-28 11:29:36 +02:00
Santiago Castro
a2bc743e47
Fix typo in comment 2021-06-25 18:58:38 -07:00
Adrian Zuber
f5aee0bbdf
Raise custom error in EntityLinker when KB is not set (#8442)
* Raise custom error in EntityLinker when KB is not set

* add contributor agreement

* Update E1018 error message
2021-06-25 23:04:00 +02:00
Matthew Honnibal
f9946154d9
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 12:35:27 +02:00
Adriane Boyd
ec71a6b572
Filter W036 for entity ruler, etc. (#8424) 2021-06-21 09:34:29 +02:00
Matthew Honnibal
6f5e308d17
Support negative examples in partial NER annotations (#8106)
* Support a cfg field in transition system

* Make NER 'has gold' check use right alignment for span

* Pass 'negative_samples_key' property into NER transition system

* Add field for negative samples to NER transition system

* Check neg_key in NER has_gold

* Support negative examples in NER oracle

* Test for negative examples in NER

* Fix name of config variable in NER

* Remove vestiges of old-style partial annotation

* Remove obsolete tests

* Add comment noting lack of support for negative samples in parser

* Additions to "neg examples" PR (#8201)

* add custom error and test for deprecated format

* add test for unlearning an entity

* add break also for Begin's cost

* add negative_samples_key property on Parser

* rename

* extend docs & fix some older docs issues

* add subclass constructors, clean up tests, fix docs

* add flaky test with ValueError if gold parse was not found

* remove ValueError if n_gold == 0

* fix docstring

* Hack in environment variables to try out training

* Remove hack

* Remove NER hack, and support 'negative O' samples

* Fix O oracle

* Fix transition parser

* Remove 'not O' from oracle

* Fix NER oracle

* check for spans in both gold.ents and gold.spans and raise if so, to prevent memory access violation

* use set instead of list in consistency check

Co-authored-by: svlandeg <sofie.vanlandeghem@gmail.com>
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
2021-06-17 17:33:00 +10:00
Sofie Van Landeghem
e796aab4b3
Resizable textcat (#7862)
* implement textcat resizing for TextCatCNN

* resizing textcat in-place

* simplify code

* ensure predictions for old textcat labels remain the same after resizing (WIP)

* fix for softmax

* store softmax as attr

* fix ensemble weight copy and cleanup

* restructure slightly

* adjust documentation, update tests and quickstart templates to use latest versions

* extend unit test slightly

* revert unnecessary edits

* fix typo

* ensemble architecture won't be resizable for now

* use resizable layer (WIP)

* revert using resizable layer

* resizable container while avoid shape inference trouble

* cleanup

* ensure model continues training after resizing

* use fill_b parameter

* use fill_defaults

* resize_layer callback

* format

* bump thinc to 8.0.4

* bump spacy-legacy to 3.0.6
2021-06-16 11:45:00 +02:00
Adriane Boyd
5646fcbe46 Merge remote-tracking branch 'upstream/develop' into chore/develop-into-master-v3.1 2021-06-15 15:05:17 +02:00
graue70
f34dd0b98f
Fix typos in comments (#8279) 2021-06-07 10:43:54 +02:00
Adriane Boyd
9dfd3c9484 Use warnings.warn instead of logger.warning 2021-06-04 17:44:08 +02:00
Sofie Van Landeghem
f0277bdeab Show warning if entity_ruler runs without patterns (#7807)
* Show warning if entity_ruler runs without patterns

* Show warning if matcher runs without patterns

* fix wording

* unit test for warning once (WIP)

* warn W036 only once

* cleanup

* create filter_warning helper
2021-06-04 17:37:38 +02:00
Paul O'Leary McCann
d959603d51
Don't add duplicate patterns all the time in EntityRuler (fix #8216) (#8246)
* Don't add duplicate patterns (fix #8216)

* Refactor EntityRuler init

This simplifies the EntityRuler init code. This is helpful as prep for
allowing the EntityRuler to reset itself.

* Make EntityRuler.clear reset matchers

Includes a new test for this.

* Tidy PhraseMatcher instantiation

Since the attr can be None safely now, the guard if is no longer
required here.

Also renamed the `_validate` attr. Maybe it's not needed?

* Fix NER test

* Add test to make sure patterns aren't increasing

* Move test to regression tests
2021-06-03 09:05:26 +02:00
Paul O'Leary McCann
d54631f68b
Fix other open calls without context managers (#8245) 2021-05-31 19:04:29 +10:00
Dhruv Naik
283f64a98d
Fix bug from Entityruler: ent_ids returns None for phrases (#8169)
* bugfix for explosion/spaCy#8168

* add test for explosion/spaCy#8168
2021-05-31 18:38:53 +10:00
Sofie Van Landeghem
fff662e41f
Ensemble textcat with listener (#8012)
* add unit test for two listeners, with a textcat ensemble in the middle

* return zero gradients instead of None in accumulate_gradient
2021-05-31 18:21:06 +10:00
Sofie Van Landeghem
ff91e6dac7
Show warning if entity_ruler runs without patterns (#7807)
* Show warning if entity_ruler runs without patterns

* Show warning if matcher runs without patterns

* fix wording

* unit test for warning once (WIP)

* warn W036 only once

* cleanup

* create filter_warning helper
2021-05-31 18:20:27 +10:00
Paul O'Leary McCann
04239e94c7
Use a context manager when reading model (fix #7036) (#8244) 2021-05-31 17:36:17 +10:00
Sofie Van Landeghem
202943bc8c
KB & NEL to/from bytes (#8113)
* unit test for pickling KB

* add pickling test for NEL

* KB to_bytes and from_bytes

* NEL to_bytes and from_bytes

* xfail pickle tests for now

* fix docs

* cleanup
2021-05-20 18:11:30 +10:00
Adriane Boyd
6788d90f61
Preserve existing ENT_KB_ID annotation in NER (#7988)
* Preserve existing ENT_KB_ID annotation in NER

Preserve `ent_kb_id` annotation on existing entity spans, which is not
preserved by the transition system.

* Simplify kb_id assignment

* Simplify further
2021-05-06 18:49:55 +10:00
Adriane Boyd
d2bdaa7823
Replace negative rows with 0 in StaticVectors (#7674)
* Replace negative rows with 0 in StaticVectors

Replace negative row indices with 0-vectors in `StaticVectors`.

* Increase versions related to StaticVectors

* Increase versions of all architctures and layers related to
`StaticVectors`
* Improve efficiency of 0-vector operations

Parallel `spacy-legacy` PR: https://github.com/explosion/spacy-legacy/pull/5

* Update config defaults to new versions

* Update docs
2021-04-22 18:04:15 +10:00
Sofie Van Landeghem
27dbbb9903
Bugfix/nel crossing sentence (#7630)
* ensure each entity gets a KB ID, even when it's not within a sentence

* cleanup
2021-04-12 18:08:01 +10:00
Adriane Boyd
8008e2f75b
Use morph hash in lemmatizer cache key (#7690)
Use the morph hash rather than the `MorphAnalysis` object in the cache
key so that the `Lemmatizer` can be pickled.
2021-04-08 13:22:38 +02:00
Adriane Boyd
39153ef90f Update lexeme_norm checks
* Add util method for check
* Add new languages to list with lexeme norm tables
* Add check to all relevant components
* Add config details to warning message

Note that we're not actually inspecting the model config to see if
`NORM` is used as an attribute, so it may warn in cases where it's not
relevant.
2021-03-19 10:59:27 +01:00
Ines Montani
37fc495f5d
Merge pull request #7353 from jankrepl/fix_entity_rules_labels 2021-03-09 15:09:24 +01:00
Sofie Van Landeghem
932887b950
textcat scoring fix and multi_label docs (#6974)
* add multi-label textcat to menu

* add infobox on textcat API

* add info to v3 migration guide

* small edits

* further fixes in doc strings

* add infobox to textcat architectures

* add textcat_multilabel to overview of built-in components

* spelling

* fix unrelated warn msg

* Add textcat_multilabel to quickstart [ci skip]

* remove separate documentation page for multilabel_textcategorizer

* small edits

* positive label clarification

* avoid duplicating information in self.cfg and fix textcat.score

* fix multilabel textcat too

* revert threshold to storage in cfg

* revert threshold stuff for multi-textcat

Co-authored-by: Ines Montani <ines@ines.io>
2021-03-09 23:04:22 +11:00
Jan Krepl
f26b61e001 Make sure sorted 2021-03-09 10:49:53 +01:00
Adriane Boyd
10c930cc96
Re-refactor Sentencizer with Pipe API (#7176)
Reapply the refactoring (#4721) so that `Sentencizer` uses the faster
`predict` and `set_annotations` for both `__call__` and `pipe`.
2021-02-26 09:48:14 +01:00
Sofie Van Landeghem
b92f81d5da
fix NEL config and IO, and n_sents functionality (#7100)
* fix NEL config and IO, and n_sents functionality

* add docs

* fix test
2021-02-22 14:49:52 +11:00
Sofie Van Landeghem
ba5a50f62b
NEL docs & UX (#7129)
* EL set_kb docs fix

* custom warning for set_kb mistake
2021-02-22 11:04:22 +11:00
Matthew Honnibal
0fb8d437c0
Fix sentence fragments bug (#7056, #7035) (#7057)
* Add test for #7035

* Update test for issue 7056

* Fix test

* Fix transitions method used in testing

* Fix state eol detection when rebuffer

* Clean up redundant fix
2021-02-14 13:38:13 +11:00
Ines Montani
9ba715ed16 Tidy up and auto-format 2021-02-13 12:55:56 +11:00
svlandeg
aa3ad8825d loop instead of any 2021-02-12 13:14:30 +01:00
svlandeg
a52d466bfc any instead of all 2021-02-11 20:50:55 +01:00
Ines Montani
ad9ce3c8f6 Fix issue #6950: allow pickling Tok2Vec with listeners 2021-02-11 11:37:39 +11:00
Sofie Van Landeghem
a323ef90df
ensure the loss value is cast as float (#6928) 2021-02-07 07:51:56 +08:00
René Octavio Queiroz Dias
999ff03b19
fix: Fix textcat labels to expect a Optional[Iterable[str]] instead of Optional[Dict] (#6911)
* docs: Add agreement

* bug: Regression test

Issue #6908

* fix: Changed from Dict to Iterable[str]

Fix #6908

* Update test to use make_tempdir

* fix: Fix WindowsPath error

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
2021-02-04 23:37:13 +01:00
Sofie Van Landeghem
f638306598
remove link_components flag again (#6883) 2021-02-02 10:08:40 +08:00
Ines Montani
d0c3775712 Replace links to nightly docs [ci skip] 2021-01-30 20:09:38 +11:00
Ines Montani
e6accb3a9e Tidy up and auto-format 2021-01-30 12:52:33 +11:00
Ines Montani
2102082478 Make Tok2Vec.remove_listener return bool
Whether listener was removed
2021-01-29 21:41:38 +11:00
Ines Montani
0f3e3eedc2 Add Tok2vec.remove_listener 2021-01-29 19:36:38 +11:00
Sofie Van Landeghem
837a4f53c2
Error handling in nlp.pipe (#6817)
* add error handler for pipe methods

* add unit tests

* remove pipe method that are the same as their base class

* have Language keep track of a default error handler

* cleanup

* formatting

* small refactor

* add documentation
2021-01-29 08:51:21 +08:00
Sofie Van Landeghem
6b68ad027b
Fix beam NER resizing (#6834)
* move label check to sub methods

* add tests
2021-01-27 23:39:14 +11:00