* Use isort with Black profile
* isort all the things
* Fix import cycles as a result of import sorting
* Add DOCBIN_ALL_ATTRS type definition
* Add isort to requirements
* Remove isort from build dependencies check
* Typo
* account for NER labels with a hyphen in the name
* cleanup
* fix docstring
* add return type to helper method
* shorter method and few more occurrences
* user helper method across repo
* fix circular import
* partial revert to avoid circular import
* Alignment: use a simplified ragged type for performance
This introduces the AlignmentArray type, which is a simplified version
of Ragged that performs better on the simple(r) indexing performed for
alignment.
* AlignmentArray: raise an error when using unsupported index
* AlignmentArray: move error messages to Errors
* AlignmentArray: remove simlified ... with simplifications
* AlignmentArray: fix typo that broke a[n:n] indexing
* 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.
* clean up of ner tests
* beam_parser tests
* implement get_beam_parses and scored_parses for the dep parser
* we don't have to add the parse if there are no arcs
* small fixes and formatting
* bring test_issue4313 up-to-date, currently fails
* formatting
* add get_beam_parses method back
* add scored_ents function
* delete tag map
* Get basic beam tests working
* Get basic beam tests working
* Compile _beam_utils
* Remove prints
* Test beam density
* Beam parser seems to train
* Draft beam NER
* Upd beam
* Add hypothesis as dev dependency
* Implement missing is-gold-parse method
* Implement early update
* Fix state hashing
* Fix test
* Fix test
* Default to non-beam in parser constructor
* Improve oracle for beam
* Start refactoring beam
* Update test
* Refactor beam
* Update nn
* Refactor beam and weight by cost
* Update ner beam settings
* Update test
* Add __init__.pxd
* Upd test
* Fix test
* Upd test
* Fix test
* Remove ring buffer history from StateC
* WIP change arc-eager transitions
* Add state tests
* Support ternary sent start values
* Fix arc eager
* Fix NER
* Pass oracle cut size for beam
* Fix ner test
* Fix beam
* Improve StateC.clone
* Improve StateClass.borrow
* Work directly with StateC, not StateClass
* Remove print statements
* Fix state copy
* Improve state class
* Refactor parser oracles
* Fix arc eager oracle
* Fix arc eager oracle
* Use a vector to implement the stack
* Refactor state data structure
* Fix alignment of sent start
* Add get_aligned_sent_starts method
* Add test for ae oracle when bad sentence starts
* Fix sentence segment handling
* Avoid Reduce that inserts illegal sentence
* Update preset SBD test
* Fix test
* Remove prints
* Fix sent starts in Example
* Improve python API of StateClass
* Tweak comments and debug output of arc eager
* Upd test
* Fix state test
* Fix state test
* Refactor Docs.is_ flags
* Add derived `Doc.has_annotation` method
* `Doc.has_annotation(attr)` returns `True` for partial annotation
* `Doc.has_annotation(attr, require_complete=True)` returns `True` for
complete annotation
* Add deprecation warnings to `is_tagged`, `is_parsed`, `is_sentenced`
and `is_nered`
* Add `Doc._get_array_attrs()`, which returns a full list of `Doc` attrs
for use with `Doc.to_array`, `Doc.to_bytes` and `Doc.from_docs`. The
list is the `DocBin` attributes list plus `SPACY` and `LENGTH`.
Notes on `Doc.has_annotation`:
* `HEAD` is converted to `DEP` because heads don't have an unset state
* Accept `IS_SENT_START` as a synonym of `SENT_START`
Additional changes:
* Add `NORM`, `ENT_ID` and `SENT_START` to default attributes for
`DocBin`
* In `Doc.from_array()` the presence of `DEP` causes `HEAD` to override
`SENT_START`
* In `Doc.from_array()` using `attrs` other than
`Doc._get_array_attrs()` (i.e., a user's custom list rather than our
default internal list) with both `HEAD` and `SENT_START` shows a warning
that `HEAD` will override `SENT_START`
* `set_children_from_heads` does not require dependency labels to set
sentence boundaries and sets `sent_start` for all non-sentence starts to
`-1`
* Fix call to set_children_form_heads
Co-authored-by: Matthew Honnibal <honnibal+gh@gmail.com>
* Clean up spacy.tokens
* Update `set_children_from_heads`:
* Don't check `dep` when setting lr_* or sentence starts
* Set all non-sentence starts to `False`
* Use `set_children_from_heads` in `Token.head` setter
* Reduce similar/duplicate code (admittedly adds a bit of overhead)
* Update sentence starts consistently
* Remove unused `Doc.set_parse`
* Minor changes:
* Declare cython variables (to avoid cython warnings)
* Clean up imports
* Modify set_children_from_heads to set token range
Modify `set_children_from_heads` so that it adjust tokens within a
specified range rather then the whole document.
Modify the `Token.head` setter to adjust only the tokens affected by the
new head assignment.
* moving syntax folder to _parser_internals
* moving nn_parser and transition_system
* move nn_parser and transition_system out of internals folder
* moving nn_parser code into transition_system file
* rename transition_system to transition_parser
* moving parser_model and _state to ml
* move _state back to internals
* The Parser now inherits from Pipe!
* small code fixes
* removing unnecessary imports
* remove link_vectors_to_models
* transition_system to internals folder
* little bit more cleanup
* newlines
Adriane Boyd