Commit Graph

15889 Commits

Author SHA1 Message Date
moxley01
070fa16545
add spacysee project (#12568) 2023-04-25 12:30:19 +02:00
Adriane Boyd
68da580a4c
CI: Disable Azure (#12560) 2023-04-21 15:05:53 +02:00
Victoria
e115408514
remove survey link (#12559) 2023-04-21 10:22:26 +02:00
Patrick J. Burns
ab4ba04c32
Update LatinDefaults for lang 'la' (#12538)
* Add noun chunking to la syntax iterators

* Expand list of numeral, ordinal words

* Expand abbreviations in la tokenizer_exceptions

* Add example sents

* Update spacy/lang/la/syntax_iterators.py

Reorganize la syntax iterators

Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>

* Minor updates based on review

* fix call

---------

Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
2023-04-20 16:55:40 +02:00
Adriane Boyd
b60b027927
Add default option to MorphAnalysis.get (#12545)
* Add default to MorphAnalysis.get

Similar to `dict`, allow a `default` option for `MorphAnalysis.get` for
the user to provide a default return value if the field is not found.
The default return value remains `[]`, which is not the same as
`dict.get`, but is already established as this method's default return
value with the return type `List[str]`. However the new `default` option
does not enforce that the user-provided default is actually `List[str]`.

* Restore test case
2023-04-20 14:06:32 +02:00
Adriane Boyd
dc0a1a9808
Load exceptions last in Tokenizer.from_bytes (#12553)
In `Tokenizer.from_bytes`, the exceptions should be loaded last so that
they are only processed once as part of loading the model.

The exceptions are tokenized as phrase matcher patterns in the
background and the internal tokenization needs to be synced with all the
remaining tokenizer settings. If the exceptions are not loaded last,
there are speed regressions for `Tokenizer.from_bytes/disk` vs.
`Tokenizer.add_special_case` as the caches are reloaded more than
necessary during deserialization.
2023-04-20 11:30:34 +02:00
Sofie Van Landeghem
8e6a3d58d8
fix typo (#12543) 2023-04-19 10:59:33 +02:00
TAN Long
923d24e885
perf(REL_OP): Replace some token.children with token.rights or token.lefts (#12528)
Co-authored-by: Tan Long <tanloong@foxmail.com>
2023-04-17 13:16:34 +02:00
TAN Long
119f959218
docs(REL_OP): modify docs for REL_OPs to match Semgrex's update on CoreNLP v4.5.2 (#12531)
Co-authored-by: Tan Long <tanloong@foxmail.com>
2023-04-17 13:14:01 +02:00
andyjessen
02259fa195
Add category to spaCy project (#12506)
ScispaCy fits within biomedical domain. Consider adding this category.
2023-04-07 15:31:04 +02:00
Madeesh Kannan
6db20b354f
Docs: Fix rule-based matching example that expands named entities (#12495) 2023-04-06 11:45:58 +02:00
Edward
c95d320d28
Add more information to custom code docs (#12491)
* Add info to sections

* Update website/docs/usage/training.mdx

---------

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
2023-04-06 11:45:19 +02:00
Will Frey
8d4129e177
Fix invalid ConsoleLogger.v3 example config (#12498)
Replace `progress_bar = "all_steps"` with `progress_bar = "eval"`, which is consistent with the default behavior for `spacy.ConsoleLogger.v1` and `spacy.ConsoleLogger.v2`.
2023-04-04 20:53:07 +02:00
Edward
de32011e4c
Add model-last saving mechanism to pretraining (#12459)
* Adjust pretrain command

* chane naming and add finally block

* Add unit test

* Add unit test assertions

* Update spacy/training/pretrain.py

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* change finally block

* Add to docs

* Update website/docs/usage/embeddings-transformers.mdx

* Add flag to skip saving model-last

---------

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
2023-04-03 15:24:03 +02:00
Adriane Boyd
4a1ec332de
Add Span.kb_id/Span.id strings to Doc/DocBin serialization if set (#12493)
* Add Span.kb_id/Span.id strings to Doc/DocBin serialization if set

* Format
2023-04-03 15:11:12 +02:00
Adriane Boyd
4538ceb507
Remove redundant strings.add for Doc.char_span (#12429) 2023-04-03 11:38:56 +02:00
Adriane Boyd
476a2e7a0a
Allow cupy 12.0 for extras (#12490) 2023-03-31 13:48:15 +02:00
Adriane Boyd
69e20ce03d
Fix pickle for ngram suggester (#12486) 2023-03-31 13:43:51 +02:00
Adriane Boyd
140d53649d
Convert values to numpy for label smoothing tests (#12472) 2023-03-31 13:41:41 +02:00
Ye Lei (叶磊)
ce258670b7
Allow passing a Span to displacy.parse_deps (#12477)
* Allow passing a Span to displacy.parse_deps

* Update docstring

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Update API docs

---------

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
2023-03-31 09:44:01 +02:00
Raphael Mitsch
d85df9d577
Fix Span.sents for edge case of Span being the only Span in the last sentence of a Doc. (#12484) 2023-03-29 18:54:47 +02:00
kadarakos
372a90885e
Fix spancat-singlelabel score (#12469)
* debug argmax sort and add span scores

* add missing tests for spanscores
2023-03-29 08:38:11 +02:00
Edward
dba4e7bece
Add info to stringstore and vocab (#12471) 2023-03-27 13:15:14 +02:00
Adriane Boyd
2fba21be63
Restrict github workflows to explosion (#12470) 2023-03-27 12:44:04 +02:00
sloev / Johannes Valbjørn
fd072533e7
add spacy_onnx_sentiment_english to universe (#12422)
* add spacy_onnx_sentiment_english to universe

* rename to sentimental-onix

* fix comma json error

* fix typo

* typo fix

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* mention need to download model before example works

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

---------

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
2023-03-27 11:35:14 +02:00
Prajakta Darade
ae7779e830
corrected example code (#12466) 2023-03-27 11:32:49 +02:00
kadarakos
d1474fdd91
add explanation about overwriting behaviour (#12464)
* add explanation about overwriting behaviour

* Update website/docs/api/spancategorizer.mdx

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Update website/docs/api/spancategorizer.mdx

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Update website/docs/api/spancategorizer.mdx

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* format

---------

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
2023-03-27 10:27:11 +02:00
Adriane Boyd
fac457a509
Support floret for PretrainVectors (#12435)
* Support floret for PretrainVectors

* Format
2023-03-24 16:28:51 +01:00
Adriane Boyd
d0bd3f5ee4
Update Serbian tokenization for UD Serbian SET (#12442) 2023-03-24 16:26:40 +01:00
Vinit Ravishankar
28de85737f
Tagger label smoothing (#12293)
* add label smoothing

* use True/False instead of floats

* add entropy to debug data

* formatting

* docs

* change test to check difference in distributions

* Update website/docs/api/tagger.mdx

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Update spacy/pipeline/tagger.pyx

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* bool -> float

* update docs

* fix seed

* black

* update tests to use label_smoothing = 0.0

* set default to 0.0, update quickstart

* Update spacy/pipeline/tagger.pyx

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* update morphologizer, tagger test

* fix morph docs

* add url to docs

---------

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
2023-03-22 12:17:56 +01:00
Ines Montani
b479f8bfa5
Add user survey alert to the top (#12452)
* Add user survey alert to the top

* Shorter

---------

Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
2023-03-22 11:09:37 +01:00
Adriane Boyd
54c614e116
CI: Separate spacy universe validation into a separate workflow (#12440)
* Separate spacy universe validation into a separate workflow

* Fix new workflow name
2023-03-17 10:59:53 +01:00
Adriane Boyd
5f72d6c836
CI: Switch PR back to paths-ignore (#12438)
Switch PR tests back to paths-ignore but include changes to `.github`
for all PRs rather than trying to figure out complicated
includes+excludes.  Changes to `.github` are relatively rare and should
not be a huge burden for the CI.
2023-03-17 10:01:49 +01:00
Adriane Boyd
4c5a3a2a7b
Remove autoblack workflow (#12437)
Now that all PRs have `black` formatting validation, we no longer need the
autoblack workflow.
2023-03-17 09:35:00 +01:00
Raphael Mitsch
96b61d0671
Fix EL failure with sentence-crossing entities (#12398)
* Add test reproducing EL failure in sentence-crossing entities.

* Format.

* Draft fix.

* Format.

* Fix case for len(ent.sents) == 1.

* Format.

* Format.

* Format.

* Fix mypy error.

* Merge EL sentence crossing tests.

* Remove unneeded sentencizer component.

* Fix or ignore mypy issues in test.

* Simplify ent.sents handling.

* Format. Update assert in ent.sents handling.

* Small rewrite

---------

Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
2023-03-14 22:02:49 +01:00
Adriane Boyd
2ce9a220db
Fix --verbose for spacy find-threshold (#12418) 2023-03-14 17:16:49 +01:00
Adriane Boyd
377f601bff
CI: Add all paths before excluding patterns (#12419) 2023-03-14 16:06:08 +01:00
Raphael Mitsch
e8cab4625c
Fix sentence indexing bug in Span.sents (#12405)
* Add test for partial sentences in ent.sents.

* Removed unneeded import.

* Format. Simplify code.
2023-03-14 10:21:53 +01:00
Adriane Boyd
ea6de64596
CI: Move CLI tests to ubuntu for speed (#12409) 2023-03-13 15:14:46 +01:00
Adriane Boyd
8f1280a514
Fix thinc-apple-ops test to run for python 3.11 (#12408) 2023-03-13 15:10:04 +01:00
Adriane Boyd
8ff9073161
CI: Move universe validation to validate job (#12406)
* CI: Move universe validation to validate job

* Fix indentation

* Update step name
2023-03-13 14:21:17 +01:00
Adriane Boyd
3c999f052e
Add GHA for CI tests (#12403)
* Add GHA for CI tests

* Reorder paths
2023-03-13 13:13:47 +01:00
Adriane Boyd
f27bce67fd
Skip project clone tests if git is not available (#12394) 2023-03-09 16:41:21 +01:00
Lj Miranda
913d74f509
Add spancat_singlelabel pipeline for multiclass and non-overlapping span labelling tasks (#11365)
* [wip] Update

* [wip] Update

* Add initial port

* [wip] Update

* Fix all imports

* Add spancat_exclusive to pipeline

* [WIP] Update

* [ci skip] Add breakpoint for debugging

* Use spacy.SpanCategorizer.v1 as default archi

* Update spacy/pipeline/spancat_exclusive.py

Co-authored-by: kadarakos <kadar.akos@gmail.com>

* [ci skip] Small updates

* Use Softmax v2 directly from thinc

* Cache the label map

* Fix mypy errors

However, I ignored line 370 because it opened up a bunch of type errors
that might be trickier to solve and might lead to a more complicated
codebase.

* avoid multiplication with 1.0

Co-authored-by: kadarakos <kadar.akos@gmail.com>

* Update spacy/pipeline/spancat_exclusive.py

Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>

* Update component versions to v2

* Add scorer to docstring

* Add _n_labels property to SpanCategorizer

Instead of using len(self.labels) in initialize() I am using a private
property self._n_labels. This achieves implementation parity and allows
me to delete the whole initialize() method for spancat_exclusive (since
it's now the same with spancat).

* Inherit from SpanCat instead of TrainablePipe

This commit changes the inheritance structure of Exclusive_Spancat,
now it's inheriting from SpanCategorizer than TrainablePipe. This
allows me to remove duplicate methods that are already present in
the parent function.

* Revert documentation link to spancat

* Fix init call for exclusive spancat

* Update spacy/pipeline/spancat_exclusive.py

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Import Suggester from spancat

* Include zero_init.v1 for spancat

* Implement _allow_extra_label to use _n_labels

To ensure that spancat / spancat_exclusive cannot be resized after
initialization, I inherited the _allow_extra_label() method from
spacy/pipeline/trainable_pipe.pyx and used self._n_labels instead
of len(self.labels) for checking.

I think that changing it locally is a better solution rather than
forcing each class that inherits TrainablePipe to use the self._n_labels
attribute.

Also note that I turned-off black formatting in this block of code
because it reads better without the overhang.

* Extend existing tests to spancat_exclusive

In this commit, I extended the existing tests for spancat to include
spancat_exclusive. I parametrized the test functions with 'name'
(similar var name with textcat and textcat_multilabel) for each
applicable test.

TODO: Add overfitting tests for spancat_exclusive

* Update documentation for spancat

* Turn on formatting for allow_extra_label

* Remove initializers in default config

* Use DEFAULT_EXCL_SPANCAT_MODEL

I also renamed spancat_exclusive_default_config into
spancat_excl_default_config because black does some not pretty
formatting changes.

* Update documentation

Update grammar and usage

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Clarify docstring for Exclusive_SpanCategorizer

* Remove mypy ignore and typecast labels to list

* Fix documentation API

* Use a single variable for tests

* Update defaults for number of rows

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Put back initializers in spancat config

Whenever I remove model.scorer.init_w and model.scorer.init_b,
I encounter an error in the test:

    SystemError: <method '__getitem__' of 'dict' objects> returned a result
    with an error set.

My Thinc version is 8.1.5, but I can't seem to check what's causing the
error.

* Update spancat_exclusive docstring

* Remove init_W and init_B parameters

This commit is expected to fail until the new Thinc release.

* Require thinc>=8.1.6 for serializable Softmax defaults

* Handle zero suggestions to make tests pass

I'm not sure if this is the most elegant solution. But what should
happen is that the _make_span_group function MUST return an empty
SpanGroup if there are no suggestions.

The error happens when the 'scores' variable is empty. We cannot
get the 'predicted' and other downstream vars.

* Better approach for handling zero suggestions

* Update website/docs/api/spancategorizer.md

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Update spancategorizer headers

* Apply suggestions from code review

Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>

* Add default value in negative_weight in docs

* Add default value in allow_overlap in docs

* Update how spancat_exclusive is constructed

In this commit, I added the following:
- Put the default values of negative_weight and allow_overlap
    in the default_config dictionary.
- Rename make_spancat -> make_exclusive_spancat

* Run prettier on spancategorizer.mdx

* Change exactly one -> at most one

* Add suggester documentation in Exclusive_SpanCategorizer

* Add suggester to spancat docstrings

* merge multilabel and singlelabel spancat

* rename spancat_exclusive to singlelable

* wire up different make_spangroups for single and multilabel

* black

* black

* add docstrings

* more docstring and fix negative_label

* don't rely on default arguments

* black

* remove spancat exclusive

* replace single_label with add_negative_label and adjust inference

* mypy

* logical bug in configuration check

* add spans.attrs[scores]

* single label make_spangroup test

* bugfix

* black

* tests for make_span_group with negative labels

* refactor make_span_group

* black

* Update spacy/tests/pipeline/test_spancat.py

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* remove duplicate declaration

* Update spacy/pipeline/spancat.py

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* raise error instead of just print

* make label mapper private

* update docs

* run prettier

* Update website/docs/api/spancategorizer.mdx

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Update website/docs/api/spancategorizer.mdx

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Update spacy/pipeline/spancat.py

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Update spacy/pipeline/spancat.py

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Update spacy/pipeline/spancat.py

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Update spacy/pipeline/spancat.py

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* don't keep recomputing self._label_map for each span

* typo in docs

* Intervals to private and document 'name' param

* Update spacy/pipeline/spancat.py

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Update spacy/pipeline/spancat.py

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* add Tag to new features

* replace tags

* revert

* revert

* revert

* revert

* Update website/docs/api/spancategorizer.mdx

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* Update website/docs/api/spancategorizer.mdx

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>

* prettier

* Fix merge

* Update website/docs/api/spancategorizer.mdx

* remove references to 'single_label'

* remove old paragraph

* Add spancat_singlelabel to config template

* Format

* Extend init config tests

---------

Co-authored-by: kadarakos <kadar.akos@gmail.com>
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
2023-03-09 10:30:59 +01:00
Victoria
4fdf356b29
Add links in website and readme for survey (#12385) 2023-03-09 10:01:18 +01:00
Marcus Blättermann
b309336712
Make sure to run Python setup before NPM dev mode (#12384) 2023-03-08 11:59:10 +01:00
Paul O'Leary McCann
e656189ec3
Change GPU efficient textcat to use CNN, not BOW in generated configs (#11900)
* Change GPU efficient textcat to use CNN, not BOW

If you generate a config with a textcat component using GPU
(transformers), the defaut option (efficiency) uses a BOW architecture,
which does not use tok2vec features. While that can make sense as part
of a larger pipeline, in the case of just a transformer and a textcat,
that means the transformer is doing a lot of work for no purpose.

This changes it so that the CNN architecture is used instead. It could
also be changed to be the same as the accuracy config, which uses the
ensemble architecture.

* Add the transformer when using a textcat with GPU

* Switch ubuntu-latest to ubuntu-20.04 in main tests (#11928)

* Switch ubuntu-latest to ubuntu-20.04 in main tests

* Only use 20.04 for 3.6

* Require thinc v8.1.7

* Require thinc v8.1.8

* Break up longer expression

---------

Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
2023-03-07 17:47:45 +01:00
Sofie Van Landeghem
3bf4539e31
fix types (#12365) 2023-03-07 13:29:08 +01:00
Adriane Boyd
260cb9c6fe
Raise error for non-default vectors with PretrainVectors (#12366) 2023-03-06 18:06:31 +01:00
Adriane Boyd
5ecb3babed
Update to use absolute imports in tests (#12372) 2023-03-06 17:30:17 +01:00