Commit Graph

15 Commits

Author SHA1 Message Date
Sofie Van Landeghem
8e7557656f
Renaming gold & annotation_setter (#6042)
* version bump to 3.0.0a16

* rename "gold" folder to "training"

* rename 'annotation_setter' to 'set_extra_annotations'

* formatting
2020-09-09 10:31:03 +02:00
Ines Montani
8d2baa153d Update tokenizer docs and add test 2020-08-09 15:24:01 +02:00
Ines Montani
823e533dc1
Add config callbacks for modifying nlp object before and after init (#5866)
* WIP: Concept for modifying nlp object before and after init

* Make callbacks return nlp object

Co-authored-by: Matthew Honnibal <honnibal+gh@gmail.com>

* Raise if callbacks don't return correct type

* Rename, update types, add after_pipeline_creation

Co-authored-by: Matthew Honnibal <honnibal+gh@gmail.com>
2020-08-05 19:47:54 +02:00
Ines Montani
43b960c01b
Refactor pipeline components, config and language data (#5759)
* Update with WIP

* Update with WIP

* Update with pipeline serialization

* Update types and pipe factories

* Add deep merge, tidy up and add tests

* Fix pipe creation from config

* Don't validate default configs on load

* Update spacy/language.py

Co-authored-by: Ines Montani <ines@ines.io>

* Adjust factory/component meta error

* Clean up factory args and remove defaults

* Add test for failing empty dict defaults

* Update pipeline handling and methods

* provide KB as registry function instead of as object

* small change in test to make functionality more clear

* update example script for EL configuration

* Fix typo

* Simplify test

* Simplify test

* splitting pipes.pyx into separate files

* moving default configs to each component file

* fix batch_size type

* removing default values from component constructors where possible (TODO: test 4725)

* skip instead of xfail

* Add test for config -> nlp with multiple instances

* pipeline.pipes -> pipeline.pipe

* Tidy up, document, remove kwargs

* small cleanup/generalization for Tok2VecListener

* use DEFAULT_UPSTREAM field

* revert to avoid circular imports

* Fix tests

* Replace deprecated arg

* Make model dirs require config

* fix pickling of keyword-only arguments in constructor

* WIP: clean up and integrate full config

* Add helper to handle function args more reliably

Now also includes keyword-only args

* Fix config composition and serialization

* Improve config debugging and add visual diff

* Remove unused defaults and fix type

* Remove pipeline and factories from meta

* Update spacy/default_config.cfg

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

* Update spacy/default_config.cfg

* small UX edits

* avoid printing stack trace for debug CLI commands

* Add support for language-specific factories

* specify the section of the config which holds the model to debug

* WIP: add Language.from_config

* Update with language data refactor WIP

* Auto-format

* Add backwards-compat handling for Language.factories

* Update morphologizer.pyx

* Fix morphologizer

* Update and simplify lemmatizers

* Fix Japanese tests

* Port over tagger changes

* Fix Chinese and tests

* Update to latest Thinc

* WIP: xfail first Russian lemmatizer test

* Fix component-specific overrides

* fix nO for output layers in debug_model

* Fix default value

* Fix tests and don't pass objects in config

* Fix deep merging

* Fix lemma lookup data registry

Only load the lookups if an entry is available in the registry (and if spacy-lookups-data is installed)

* Add types

* Add Vocab.from_config

* Fix typo

* Fix tests

* Make config copying more elegant

* Fix pipe analysis

* Fix lemmatizers and is_base_form

* WIP: move language defaults to config

* Fix morphology type

* Fix vocab

* Remove comment

* Update to latest Thinc

* Add morph rules to config

* Tidy up

* Remove set_morphology option from tagger factory

* Hack use_gpu

* Move [pipeline] to top-level block and make [nlp.pipeline] list

Allows separating component blocks from component order – otherwise, ordering the config would mean a changed component order, which is bad. Also allows initial config to define more components and not use all of them

* Fix use_gpu and resume in CLI

* Auto-format

* Remove resume from config

* Fix formatting and error

* [pipeline] -> [components]

* Fix types

* Fix tagger test: requires set_morphology?

Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
Co-authored-by: svlandeg <sofie.vanlandeghem@gmail.com>
Co-authored-by: Matthew Honnibal <honnibal+gh@gmail.com>
2020-07-22 13:42:59 +02:00
Sofie Van Landeghem
fcbf899b08
Feature/example only (#5707)
* remove _convert_examples

* fix test_gold, raise TypeError if tuples are used instead of Example's

* throwing proper errors when the wrong type of objects are passed

* fix deprectated format in tests

* fix deprectated format in parser tests

* fix tests for NEL, morph, senter, tagger, textcat

* update regression tests with new Example format

* use make_doc

* more fixes to nlp.update calls

* few more small fixes for rehearse and evaluate

* only import ml_datasets if really necessary
2020-07-06 13:02:36 +02:00
Matthew Honnibal
8c29268749
Improve spacy.gold (no GoldParse, no json format!) (#5555)
* Update errors

* Remove beam for now (maybe)

Remove beam_utils

Update setup.py

Remove beam

* Remove GoldParse

WIP on removing goldparse

Get ArcEager compiling after GoldParse excise

Update setup.py

Get spacy.syntax compiling after removing GoldParse

Rename NewExample -> Example and clean up

Clean html files

Start updating tests

Update Morphologizer

* fix error numbers

* fix merge conflict

* informative error when calling to_array with wrong field

* fix error catching

* fixing language and scoring tests

* start testing get_aligned

* additional tests for new get_aligned function

* Draft create_gold_state for arc_eager oracle

* Fix import

* Fix import

* Remove TokenAnnotation code from nonproj

* fixing NER one-to-many alignment

* Fix many-to-one IOB codes

* fix test for misaligned

* attempt to fix cases with weird spaces

* fix spaces

* test_gold_biluo_different_tokenization works

* allow None as BILUO annotation

* fixed some tests + WIP roundtrip unit test

* add spaces to json output format

* minibatch utiltiy can deal with strings, docs or examples

* fix augment (needs further testing)

* various fixes in scripts - needs to be further tested

* fix test_cli

* cleanup

* correct silly typo

* add support for MORPH in to/from_array, fix morphologizer overfitting test

* fix tagger

* fix entity linker

* ensure test keeps working with non-linked entities

* pipe() takes docs, not examples

* small bug fix

* textcat bugfix

* throw informative error when running the components with the wrong type of objects

* fix parser tests to work with example (most still failing)

* fix BiluoPushDown parsing entities

* small fixes

* bugfix tok2vec

* fix renames and simple_ner labels

* various small fixes

* prevent writing dummy values like deps because that could interfer with sent_start values

* fix the fix

* implement split_sent with aligned SENT_START attribute

* test for split sentences with various alignment issues, works

* Return ArcEagerGoldParse from ArcEager

* Update parser and NER gold stuff

* Draft new GoldCorpus class

* add links to to_dict

* clean up

* fix test checking for variants

* Fix oracles

* Start updating converters

* Move converters under spacy.gold

* Move things around

* Fix naming

* Fix name

* Update converter to produce DocBin

* Update converters

* Allow DocBin to take list of Doc objects.

* Make spacy convert output docbin

* Fix import

* Fix docbin

* Fix compile in ArcEager

* Fix import

* Serialize all attrs by default

* Update converter

* Remove jsonl converter

* Add json2docs converter

* Draft Corpus class for DocBin

* Work on train script

* Update Corpus

* Update DocBin

* Allocate Doc before starting to add words

* Make doc.from_array several times faster

* Update train.py

* Fix Corpus

* Fix parser model

* Start debugging arc_eager oracle

* Update header

* Fix parser declaration

* Xfail some tests

* Skip tests that cause crashes

* Skip test causing segfault

* Remove GoldCorpus

* Update imports

* Update after removing GoldCorpus

* Fix module name of corpus

* Fix mimport

* Work on parser oracle

* Update arc_eager oracle

* Restore ArcEager.get_cost function

* Update transition system

* Update test_arc_eager_oracle

* Remove beam test

* Update test

* Unskip

* Unskip tests

* add links to to_dict

* clean up

* fix test checking for variants

* Allow DocBin to take list of Doc objects.

* Fix compile in ArcEager

* Serialize all attrs by default

Move converters under spacy.gold

Move things around

Fix naming

Fix name

Update converter to produce DocBin

Update converters

Make spacy convert output docbin

Fix import

Fix docbin

Fix import

Update converter

Remove jsonl converter

Add json2docs converter

* Allocate Doc before starting to add words

* Make doc.from_array several times faster

* Start updating converters

* Work on train script

* Draft Corpus class for DocBin

Update Corpus

Fix Corpus

* Update DocBin

Add missing strings when serializing

* Update train.py

* Fix parser model

* Start debugging arc_eager oracle

* Update header

* Fix parser declaration

* Xfail some tests

Skip tests that cause crashes

Skip test causing segfault

* Remove GoldCorpus

Update imports

Update after removing GoldCorpus

Fix module name of corpus

Fix mimport

* Work on parser oracle

Update arc_eager oracle

Restore ArcEager.get_cost function

Update transition system

* Update tests

Remove beam test

Update test

Unskip

Unskip tests

* Add get_aligned_parse method in Example

Fix Example.get_aligned_parse

* Add kwargs to Corpus.dev_dataset to match train_dataset

* Update nonproj

* Use get_aligned_parse in ArcEager

* Add another arc-eager oracle test

* Remove Example.doc property

Remove Example.doc

Remove Example.doc

Remove Example.doc

Remove Example.doc

* Update ArcEager oracle

Fix Break oracle

* Debugging

* Fix Corpus

* Fix eg.doc

* Format

* small fixes

* limit arg for Corpus

* fix test_roundtrip_docs_to_docbin

* fix test_make_orth_variants

* fix add_label test

* Update tests

* avoid writing temp dir in json2docs, fixing 4402 test

* Update test

* Add missing costs to NER oracle

* Update test

* Work on Example.get_aligned_ner method

* Clean up debugging

* Xfail tests

* Remove prints

* Remove print

* Xfail some tests

* Replace unseen labels for parser

* Update test

* Update test

* Xfail test

* Fix Corpus

* fix imports

* fix docs_to_json

* various small fixes

* cleanup

* Support gold_preproc in Corpus

* Support gold_preproc

* Pass gold_preproc setting into corpus

* Remove debugging

* Fix gold_preproc

* Fix json2docs converter

* Fix convert command

* Fix flake8

* Fix import

* fix output_dir (converted to Path by typer)

* fix var

* bugfix: update states after creating golds to avoid out of bounds indexing

* Improve efficiency of ArEager oracle

* pull merge_sent into iob2docs to avoid Doc creation for each line

* fix asserts

* bugfix excl Span.end in iob2docs

* Support max_length in Corpus

* Fix arc_eager oracle

* Filter out uannotated sentences in NER

* Remove debugging in parser

* Simplify NER alignment

* Fix conversion of NER data

* Fix NER init_gold_batch

* Tweak efficiency of precomputable affine

* Update onto-json default

* Update gold test for NER

* Fix parser test

* Update test

* Add NER data test

* Fix convert for single file

* Fix test

* Hack scorer to avoid evaluating non-nered data

* Fix handling of NER data in Example

* Output unlabelled spans from O biluo tags in iob_utils

* Fix unset variable

* Return kept examples from init_gold_batch

* Return examples from init_gold_batch

* Dont return Example from init_gold_batch

* Set spaces on gold doc after conversion

* Add test

* Fix spaces reading

* Improve NER alignment

* Improve handling of missing values in NER

* Restore the 'cutting' in parser training

* Add assertion

* Print epochs

* Restore random cuts in parser/ner training

* Implement Doc.copy

* Implement Example.copy

* Copy examples at the start of Language.update

* Don't unset example docs

* Tweak parser model slightly

* attempt to fix _guess_spaces

* _add_entities_to_doc first, so that links don't get overwritten

* fixing get_aligned_ner for one-to-many

* fix indexing into x_text

* small fix biluo_tags_from_offsets

* Add onto-ner config

* Simplify NER alignment

* Fix NER scoring for partially annotated documents

* fix indexing into x_text

* fix test_cli failing tests by ignoring spans in doc.ents with empty label

* Fix limit

* Improve NER alignment

* Fix count_train

* Remove print statement

* fix tests, we're not having nothing but None

* fix clumsy fingers

* Fix tests

* Fix doc.ents

* Remove empty docs in Corpus and improve limit

* Update config

Co-authored-by: svlandeg <sofie.vanlandeghem@gmail.com>
2020-06-26 19:34:12 +02:00
Ines Montani
db55577c45
Drop Python 2.7 and 3.5 (#4828)
* Remove unicode declarations

* Remove Python 3.5 and 2.7 from CI

* Don't require pathlib

* Replace compat helpers

* Remove OrderedDict

* Use f-strings

* Set Cython compiler language level

* Fix typo

* Re-add OrderedDict for Table

* Update setup.cfg

* Revert CONTRIBUTING.md

* Revert lookups.md

* Revert top-level.md

* Small adjustments and docs [ci skip]
2019-12-22 01:53:56 +01:00
Ines Montani
158b98a3ef Merge branch 'master' into develop 2019-12-21 18:55:03 +01:00
Ines Montani
3bd15055ce
Fix bug in Language.evaluate for components without .pipe (#4662) 2019-11-16 20:20:37 +01:00
Sofie Van Landeghem
e48a09df4e Example class for training data (#4543)
* OrigAnnot class instead of gold.orig_annot list of zipped tuples

* from_orig to replace from_annot_tuples

* rename to RawAnnot

* some unit tests for GoldParse creation and internal format

* removing orig_annot and switching to lists instead of tuple

* rewriting tuples to use RawAnnot (+ debug statements, WIP)

* fix pop() changing the data

* small fixes

* pop-append fixes

* return RawAnnot for existing GoldParse to have uniform interface

* clean up imports

* fix merge_sents

* add unit test for 4402 with new structure (not working yet)

* introduce DocAnnot

* typo fixes

* add unit test for merge_sents

* rename from_orig to from_raw

* fixing unit tests

* fix nn parser

* read_annots to produce text, doc_annot pairs

* _make_golds fix

* rename golds_to_gold_annots

* small fixes

* fix encoding

* have golds_to_gold_annots use DocAnnot

* missed a spot

* merge_sents as function in DocAnnot

* allow specifying only part of the token-level annotations

* refactor with Example class + underlying dicts

* pipeline components to work with Example objects (wip)

* input checking

* fix yielding

* fix calls to update

* small fixes

* fix scorer unit test with new format

* fix kwargs order

* fixes for ud and conllu scripts

* fix reading data for conllu script

* add in proper errors (not fixed numbering yet to avoid merge conflicts)

* fixing few more small bugs

* fix EL script
2019-11-11 17:35:27 +01:00
tamuhey
650cbfe82d multiprocessing pipe (#1303) (#4371)
* refactor: separate formatting docs and golds in Language.update

* fix return typo

* add pipe test

* unpickleable object cannot be assigned to p.map

* passed test pipe

* passed test!

* pipe terminate

* try pipe

* passed test

* fix ch

* add comments

* fix len(texts)

* add comment

* add comment

* fix: multiprocessing of pipe is not supported in 2

* test: use assert_docs_equal

* fix: is_python3 -> is_python2

* fix: change _pipe arg to use functools.partial

* test: add vector modification test

* test: add sample ner_pipe and user_data pipe

* add warnings test

* test: fix user warnings

* test: fix warnings capture

* fix: remove islice import

* test: remove warnings test

* test: add stream test

* test: rename

* fix: multiproc stream

* fix: stream pipe

* add comment

* mp.Pipe seems to be able to use with relative small data

* test: skip stream test in python2

* sort imports

* test: add reason to skiptest

* fix: use pipe for docs communucation

* add comments

* add comment
2019-10-08 12:20:55 +02:00
Ines Montani
3d8fd4b461 Revert #4334 2019-09-29 17:32:12 +02:00
Ines Montani
c9cd516d96 Move tests out of package (#4334)
* Move tests out of package

* Fix typo
2019-09-28 18:05:00 +02:00
Jeno
15be09ceb0 Raise error if annotation dict in simple training style has unexpected keys #4074 (#4079)
* adding enhancement #4074.

* modified behavior to strictly require top level dictionary keys - issue #4074

* pass expected keys to error message and add links as expected top level key
2019-08-06 11:01:25 +02:00
Ines Montani
fc69da0acb
💫 Support simple training format in nlp.evaluate and add tests (#4033)
* Support simple training format in nlp.evaluate and add tests

* Update docs [ci skip]
2019-07-27 17:30:18 +02:00