* Added new convenience cython functions to SpanGroup to avoid unnecessary allocation/deallocation of objects
* Replaced sorting in has_overlap with C++ for efficiency. Also, added a test for has_overlap
* Added a method to efficiently merge SpanGroups
* Added __delitem__, __add__ and __iadd__. Also, allowed to pass span lists to merge function. Replaced extend() body with call to merge
* Renamed merge to concat and added missing things to documentation
* Added operator+ and operator += in the documentation
* Added a test for Doc deallocation
* Update spacy/tokens/span_group.pyx
* Updated SpanGroup tests to use new span list comparison function rather than assert_span_list_equal, eliminating the need to have a separate assert_not_equal fnction
* Fixed typos in SpanGroup documentation
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
* Minor changes requested by Sofie: rearranged import statements. Added new=3.2.1 tag to SpanGroup.__setitem__ documentation
* SpanGroup: moved repetitive list index check/adjustment in a separate function
* Turn off formatting that hurts readability spacy/tests/doc/test_span_group.py
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
* Remove formatting that hurts readability spacy/tests/doc/test_span_group.py
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
* Turn off formatting that hurts readability in spacy/tests/doc/test_span_group.py
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
* Support more internal methods for SpanGroup
Add support for:
* `__setitem__`
* `__delitem__`
* `__iadd__`: for `SpanGroup` or `Iterable[Span]`
* `__add__`: for `SpanGroup` only
Adapted from #9698 with the scope limited to the magic methods.
* Use v3.3 as new version in docs
* Add new tag to SpanGroup.copy in API docs
* Remove duplicate import
* Apply suggestions from code review
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
* Remaining suggestions and formatting
Co-authored-by: nrodnova <nrodnova@hotmail.com>
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
Co-authored-by: Natalia Rodnova <4512370+nrodnova@users.noreply.github.com>
* remove duplicate line
* add sent start/end token attributes to the docs
* let has_annotation work with IS_SENT_END
* elif instead of if
* add has_annotation test for sent attributes
* fix typo
* remove duplicate is_sent_start entry in docs
* Clarify Span.ents documentation
Ref: #10135
Retain current behaviour. Span.ents will only include entities within
said span. You can't get tokens outside of the original span.
* Reword docstrings
Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
* Update API docs in the website
Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
* Improve typing hints for Matcher.__call__
* Add typing hints for DependencyMatcher
* Add typing hints to underscore extensions
* Update Doc.tensor type (requires numpy 1.21)
* Fix typing hints for Language.component decorator
* Use generic np.ndarray type in Doc to avoid numpy version update
* Fix mypy errors
* Fix cyclic import caused by Underscore typing hints
* Use Literal type from spacy.compat
* Update matcher.pyi import format
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
* added iob to int
* added tests
* added iob strings
* added error
* blacked attrs
* Update spacy/tests/lang/test_attrs.py
Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
* Update spacy/attrs.pyx
Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
* added iob strings as global
* minor refinement with iob
* removed iob strings from token
* changed to uppercase
* cleaned and went back to master version
* imported iob from attrs
* Update and format errors
* Support and test both str and int ENT_IOB key
Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
* Use Vectors.shape rather than Vectors.data.shape
* Use Vectors.size rather than Vectors.data.size
* Add Vectors.to_ops to move data between different ops
* Add documentation for Vector.to_ops
* Corrected Span's __richcmp__ implementation to take end, label and kb_id in consideration
* Updated test
* Updated test
* Removed formatting from a test for readability sake
* Use same tuples for all comparisons
Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
* Added sents property to Span class that returns a generator of sentences the Span belongs to
* Added description to Span.sents property
* Update test_span to clarify the difference between span.sent and span.sents
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
* Update spacy/tests/doc/test_span.py
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
* Fix documentation typos in spacy/tokens/span.pyx
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
* Update Span.sents doc string in spacy/tokens/span.pyx
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
* Parametrized test_span_spans
* Corrected Span.sents to check for span-level hook first. Also, made Span.sent respect doc-level sents hook if no span-level hook is provided
* Corrected Span ocumentation copy/paste issue
* Put back accidentally deleted lines
* Fixed formatting in span.pyx
* Moved check for SENT_START annotation after user hooks in Span.sents
* add version where the property was introduced
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
* Clarify error when words are of wrong type
See #9437
* Update docs
* Use try/except
* Apply suggestions from code review
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
* Add support for fasttext-bloom hash-only vectors
Overview:
* Extend `Vectors` to have two modes: `default` and `ngram`
* `default` is the default mode and equivalent to the current
`Vectors`
* `ngram` supports the hash-only ngram tables from `fasttext-bloom`
* Extend `spacy.StaticVectors.v2` to handle both modes with no changes
for `default` vectors
* Extend `spacy init vectors` to support ngram tables
The `ngram` mode **only** supports vector tables produced by this
fork of fastText, which adds an option to represent all vectors using
only the ngram buckets table and which uses the exact same ngram
generation algorithm and hash function (`MurmurHash3_x64_128`).
`fasttext-bloom` produces an additional `.hashvec` table, which can be
loaded by `spacy init vectors --fasttext-bloom-vectors`.
https://github.com/adrianeboyd/fastText/tree/feature/bloom
Implementation details:
* `Vectors` now includes the `StringStore` as `Vectors.strings` so that
the API can stay consistent for both `default` (which can look up from
`str` or `int`) and `ngram` (which requires `str` to calculate the
ngrams).
* In ngram mode `Vectors` uses a default `Vectors` object as a cache
since the ngram vectors lookups are relatively expensive.
* The default cache size is the same size as the provided ngram vector
table.
* Once the cache is full, no more entries are added. The user is
responsible for managing the cache in cases where the initial
documents are not representative of the texts.
* The cache can be resized by setting `Vectors.ngram_cache_size` or
cleared with `vectors._ngram_cache.clear()`.
* The API ends up a bit split between methods for `default` and for
`ngram`, so functions that only make sense for `default` or `ngram`
include warnings with custom messages suggesting alternatives where
possible.
* `Vocab.vectors` becomes a property so that the string stores can be
synced when assigning vectors to a vocab.
* `Vectors` serializes its own config settings as `vectors.cfg`.
* The `Vectors` serialization methods have added support for `exclude`
so that the `Vocab` can exclude the `Vectors` strings while serializing.
Removed:
* The `minn` and `maxn` options and related code from
`Vocab.get_vector`, which does not work in a meaningful way for default
vector tables.
* The unused `GlobalRegistry` in `Vectors`.
* Refactor to use reduce_mean
Refactor to use reduce_mean and remove the ngram vectors cache.
* Rename to floret
* Rename to floret in error messages
* Use --vectors-mode in CLI, vector init
* Fix vectors mode in init
* Remove unused var
* Minor API and docstrings adjustments
* Rename `--vectors-mode` to `--mode` in `init vectors` CLI
* Rename `Vectors.get_floret_vectors` to `Vectors.get_batch` and support
both modes.
* Minor updates to Vectors docstrings.
* Update API docs for Vectors and init vectors CLI
* Update types for StaticVectors
* 🚨 Ignore all existing Mypy errors
* 🏗 Add Mypy check to CI
* Add types-mock and types-requests as dev requirements
* Add additional type ignore directives
* Add types packages to dev-only list in reqs test
* Add types-dataclasses for python 3.6
* Add ignore to pretrain
* 🏷 Improve type annotation on `run_command` helper
The `run_command` helper previously declared that it returned an
`Optional[subprocess.CompletedProcess]`, but it isn't actually possible
for the function to return `None`. These changes modify the type
annotation of the `run_command` helper and remove all now-unnecessary
`# type: ignore` directives.
* 🔧 Allow variable type redefinition in limited contexts
These changes modify how Mypy is configured to allow variables to have
their type automatically redefined under certain conditions. The Mypy
documentation contains the following example:
```python
def process(items: List[str]) -> None:
# 'items' has type List[str]
items = [item.split() for item in items]
# 'items' now has type List[List[str]]
...
```
This configuration change is especially helpful in reducing the number
of `# type: ignore` directives needed to handle the common pattern of:
* Accepting a filepath as a string
* Overwriting the variable using `filepath = ensure_path(filepath)`
These changes enable redefinition and remove all `# type: ignore`
directives rendered redundant by this change.
* 🏷 Add type annotation to converters mapping
* 🚨 Fix Mypy error in convert CLI argument verification
* 🏷 Improve type annotation on `resolve_dot_names` helper
* 🏷 Add type annotations for `Vocab` attributes `strings` and `vectors`
* 🏷 Add type annotations for more `Vocab` attributes
* 🏷 Add loose type annotation for gold data compilation
* 🏷 Improve `_format_labels` type annotation
* 🏷 Fix `get_lang_class` type annotation
* 🏷 Loosen return type of `Language.evaluate`
* 🏷 Don't accept `Scorer` in `handle_scores_per_type`
* 🏷 Add `string_to_list` overloads
* 🏷 Fix non-Optional command-line options
* 🙈 Ignore redefinition of `wandb_logger` in `loggers.py`
* ➕ Install `typing_extensions` in Python 3.8+
The `typing_extensions` package states that it should be used when
"writing code that must be compatible with multiple Python versions".
Since SpaCy needs to support multiple Python versions, it should be used
when newer `typing` module members are required. One example of this is
`Literal`, which is available starting with Python 3.8.
Previously SpaCy tried to import `Literal` from `typing`, falling back
to `typing_extensions` if the import failed. However, Mypy doesn't seem
to be able to understand what `Literal` means when the initial import
means. Therefore, these changes modify how `compat` imports `Literal` by
always importing it from `typing_extensions`.
These changes also modify how `typing_extensions` is installed, so that
it is a requirement for all Python versions, including those greater
than or equal to 3.8.
* 🏷 Improve type annotation for `Language.pipe`
These changes add a missing overload variant to the type signature of
`Language.pipe`. Additionally, the type signature is enhanced to allow
type checkers to differentiate between the two overload variants based
on the `as_tuple` parameter.
Fixes#8772
* ➖ Don't install `typing-extensions` in Python 3.8+
After more detailed analysis of how to implement Python version-specific
type annotations using SpaCy, it has been determined that by branching
on a comparison against `sys.version_info` can be statically analyzed by
Mypy well enough to enable us to conditionally use
`typing_extensions.Literal`. This means that we no longer need to
install `typing_extensions` for Python versions greater than or equal to
3.8! 🎉
These changes revert previous changes installing `typing-extensions`
regardless of Python version and modify how we import the `Literal` type
to ensure that Mypy treats it properly.
* resolve mypy errors for Strict pydantic types
* refactor code to avoid missing return statement
* fix types of convert CLI command
* avoid list-set confustion in debug_data
* fix typo and formatting
* small fixes to avoid type ignores
* fix types in profile CLI command and make it more efficient
* type fixes in projects CLI
* put one ignore back
* type fixes for render
* fix render types - the sequel
* fix BaseDefault in language definitions
* fix type of noun_chunks iterator - yields tuple instead of span
* fix types in language-specific modules
* 🏷 Expand accepted inputs of `get_string_id`
`get_string_id` accepts either a string (in which case it returns its
ID) or an ID (in which case it immediately returns the ID). These
changes extend the type annotation of `get_string_id` to indicate that
it can accept either strings or IDs.
* 🏷 Handle override types in `combine_score_weights`
The `combine_score_weights` function allows users to pass an `overrides`
mapping to override data extracted from the `weights` argument. Since it
allows `Optional` dictionary values, the return value may also include
`Optional` dictionary values.
These changes update the type annotations for `combine_score_weights` to
reflect this fact.
* 🏷 Fix tokenizer serialization method signatures in `DummyTokenizer`
* 🏷 Fix redefinition of `wandb_logger`
These changes fix the redefinition of `wandb_logger` by giving a
separate name to each `WandbLogger` version. For
backwards-compatibility, `spacy.train` still exports `wandb_logger_v3`
as `wandb_logger` for now.
* more fixes for typing in language
* type fixes in model definitions
* 🏷 Annotate `_RandomWords.probs` as `NDArray`
* 🏷 Annotate `tok2vec` layers to help Mypy
* 🐛 Fix `_RandomWords.probs` type annotations for Python 3.6
Also remove an import that I forgot to move to the top of the module 😅
* more fixes for matchers and other pipeline components
* quick fix for entity linker
* fixing types for spancat, textcat, etc
* bugfix for tok2vec
* type annotations for scorer
* add runtime_checkable for Protocol
* type and import fixes in tests
* mypy fixes for training utilities
* few fixes in util
* fix import
* 🐵 Remove unused `# type: ignore` directives
* 🏷 Annotate `Language._components`
* 🏷 Annotate `spacy.pipeline.Pipe`
* add doc as property to span.pyi
* small fixes and cleanup
* explicit type annotations instead of via comment
Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
Co-authored-by: svlandeg <sofie.vanlandeghem@gmail.com>
Co-authored-by: svlandeg <svlandeg@github.com>
* Validate pos values when creating Doc
* Add clear error when setting invalid pos
This also changes the error language slightly.
* Fix variable name
* Update spacy/tokens/doc.pyx
* Test that setting invalid pos raises an error
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
* Replace all basestring references with unicode
`basestring` was a compatability type introduced by Cython to make
dealing with utf-8 strings in Python2 easier. In Python3 it is
equivalent to the unicode (or str) type.
I replaced all references to basestring with unicode, since that was
used elsewhere, but we could also just replace them with str, which
shoudl also be equivalent.
All tests pass locally.
* Replace all references to unicode type with str
Since we only support python3 this is simpler.
* Remove all references to unicode type
This removes all references to the unicode type across the codebase and
replaces them with `str`, which makes it more drastic than the prior
commits. In order to make this work importing `unicode_literals` had to
be removed, and one explicit unicode literal also had to be removed (it
is unclear why this is necessary in Cython with language level 3, but
without doing it there were errors about implicit conversion).
When `unicode` is used as a type in comments it was also edited to be
`str`.
Additionally `coding: utf8` headers were removed from a few files.
* test for error after Doc has been garbage collected
* warn about using a SpanGroup when the Doc has been garbage collected
* add warning to the docs
* rephrase slightly
* raise error instead of warning
* update
* move warning to doc property
* Allow passing in array vars for speedup
This fixes#8845. Not sure about the docstring changes here...
* Update docs
Types maybe need more detail? Maybe not?
* Run prettier on docs
* Update spacy/tokens/span.pyx
Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
* Add stub files for main API classes
* Add contributor agreement for ezorita
* Update types for ndarray and hash()
* Fix __getitem__ and __iter__
* Add attributes of Doc and Token classes
* Overload type hints for Span.__getitem__
* Fix type hint overload for Span.__getitem__
Co-authored-by: Luca Dorigo <dorigoluca@gmail.com>
* Change span lemmas to use original whitespace (fix#8368)
This is a redo of #8371 based off master.
The test for this required some changes to existing tests. I don't think
the changes were significant but I'd like someone to check them.
* Remove mystery docstring
This sentence was uncompleted for years, and now we will never know how
it ends.
* Fill in deps if not provided with heads
Before this change, if heads were passed without deps they would be
silently ignored, which could be confusing. See #8334.
* Use "dep" instead of a blank string
This is the customary placeholder dep. It might be better to show an
error here instead though.
* Throw error on heads without deps
* Add a test
* Fix tests
* Formatting
* Fix all tests
* Fix a test I missed
* Revise error message
* Clean up whitespace
Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
* Fix range in Span.get_lca_matrix
Fix the adjusted token index / lca matrix index ranges for
`_get_lca_matrix` for spans.
* The range for `k` should correspond to the adjusted indices in
`lca_matrix` with the `start` indexed at `0`
* Update test for v3.x
* custom warning if the doc_bin is too large
* cleanup
* Update spacy/errors.py
Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
* fix numbering
* fixing numbering once more
* fixing this seems to be pretty hard
Co-authored-by: Adriane Boyd <adrianeboyd@gmail.com>
* Handle partial entities in Span.as_doc
In `Span.as_doc` replace partial entities at the beginning or end of the
span with missing entity annotation.
Fixes a bug where invalid entity annotation (no initial `B`) was
returned for an initial partial entity.
* Check for empty span in ents conversion
Note: `Span.as_doc()` will still fail on an empty span due to failures
in `Span.vector`.
