spaCy/spacy/tests/pipeline/test_morphologizer.py

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Store activations in `Doc`s when `save_activations` is enabled (#11002) * Store activations in Doc when `store_activations` is enabled This change adds the new `activations` attribute to `Doc`. This attribute can be used by trainable pipes to store their activations, probabilities, and guesses for downstream users. As an example, this change modifies the `tagger` and `senter` pipes to add an `store_activations` option. When this option is enabled, the probabilities and guesses are stored in `set_annotations`. * Change type of `store_activations` to `Union[bool, List[str]]` When the value is: - A bool: all activations are stored when set to `True`. - A List[str]: the activations named in the list are stored * Formatting fixes in Tagger * Support store_activations in spancat and morphologizer * Make Doc.activations type visible to MyPy * textcat/textcat_multilabel: add store_activations option * trainable_lemmatizer/entity_linker: add store_activations option * parser/ner: do not currently support returning activations * Extend tagger and senter tests So that they, like the other tests, also check that we get no activations if no activations were requested. * Document `Doc.activations` and `store_activations` in the relevant pipes * Start errors/warnings at higher numbers to avoid merge conflicts Between the master and v4 branches. * Add `store_activations` to docstrings. * Replace store_activations setter by set_store_activations method Setters that take a different type than what the getter returns are still problematic for MyPy. Replace the setter by a method, so that type inference works everywhere. * Use dict comprehension suggested by @svlandeg * Revert "Use dict comprehension suggested by @svlandeg" This reverts commit 6e7b958f7060397965176c69649e5414f1f24988. * EntityLinker: add type annotations to _add_activations * _store_activations: make kwarg-only, remove doc_scores_lens arg * set_annotations: add type annotations * Apply suggestions from code review Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com> * TextCat.predict: return dict * Make the `TrainablePipe.store_activations` property a bool This means that we can also bring back `store_activations` setter. * Remove `TrainablePipe.activations` We do not need to enumerate the activations anymore since `store_activations` is `bool`. * Add type annotations for activations in predict/set_annotations * Rename `TrainablePipe.store_activations` to `save_activations` * Error E1400 is not used anymore This error was used when activations were still `Union[bool, List[str]]`. * Change wording in API docs after store -> save change * docs: tag (save_)activations as new in spaCy 4.0 * Fix copied line in morphologizer activations test * Don't train in any test_save_activations test * Rename activations - "probs" -> "probabilities" - "guesses" -> "label_ids", except in the edit tree lemmatizer, where "guesses" -> "tree_ids". * Remove unused W400 warning. This warning was used when we still allowed the user to specify which activations to save. * Formatting fixes Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com> * Replace "kb_ids" by a constant * spancat: replace a cast by an assertion * Fix EOF spacing * Fix comments in test_save_activations tests * Do not set RNG seed in activation saving tests * Revert "spancat: replace a cast by an assertion" This reverts commit 0bd5730d16432443a2b247316928d4f789ad8741. Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
2022-09-13 10:51:12 +03:00
from typing import cast
import pytest
from numpy.testing import assert_equal
from spacy import util
from spacy.training import Example
from spacy.lang.en import English
from spacy.language import Language
from spacy.tests.util import make_tempdir
from spacy.morphology import Morphology
Store activations in `Doc`s when `save_activations` is enabled (#11002) * Store activations in Doc when `store_activations` is enabled This change adds the new `activations` attribute to `Doc`. This attribute can be used by trainable pipes to store their activations, probabilities, and guesses for downstream users. As an example, this change modifies the `tagger` and `senter` pipes to add an `store_activations` option. When this option is enabled, the probabilities and guesses are stored in `set_annotations`. * Change type of `store_activations` to `Union[bool, List[str]]` When the value is: - A bool: all activations are stored when set to `True`. - A List[str]: the activations named in the list are stored * Formatting fixes in Tagger * Support store_activations in spancat and morphologizer * Make Doc.activations type visible to MyPy * textcat/textcat_multilabel: add store_activations option * trainable_lemmatizer/entity_linker: add store_activations option * parser/ner: do not currently support returning activations * Extend tagger and senter tests So that they, like the other tests, also check that we get no activations if no activations were requested. * Document `Doc.activations` and `store_activations` in the relevant pipes * Start errors/warnings at higher numbers to avoid merge conflicts Between the master and v4 branches. * Add `store_activations` to docstrings. * Replace store_activations setter by set_store_activations method Setters that take a different type than what the getter returns are still problematic for MyPy. Replace the setter by a method, so that type inference works everywhere. * Use dict comprehension suggested by @svlandeg * Revert "Use dict comprehension suggested by @svlandeg" This reverts commit 6e7b958f7060397965176c69649e5414f1f24988. * EntityLinker: add type annotations to _add_activations * _store_activations: make kwarg-only, remove doc_scores_lens arg * set_annotations: add type annotations * Apply suggestions from code review Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com> * TextCat.predict: return dict * Make the `TrainablePipe.store_activations` property a bool This means that we can also bring back `store_activations` setter. * Remove `TrainablePipe.activations` We do not need to enumerate the activations anymore since `store_activations` is `bool`. * Add type annotations for activations in predict/set_annotations * Rename `TrainablePipe.store_activations` to `save_activations` * Error E1400 is not used anymore This error was used when activations were still `Union[bool, List[str]]`. * Change wording in API docs after store -> save change * docs: tag (save_)activations as new in spaCy 4.0 * Fix copied line in morphologizer activations test * Don't train in any test_save_activations test * Rename activations - "probs" -> "probabilities" - "guesses" -> "label_ids", except in the edit tree lemmatizer, where "guesses" -> "tree_ids". * Remove unused W400 warning. This warning was used when we still allowed the user to specify which activations to save. * Formatting fixes Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com> * Replace "kb_ids" by a constant * spancat: replace a cast by an assertion * Fix EOF spacing * Fix comments in test_save_activations tests * Do not set RNG seed in activation saving tests * Revert "spancat: replace a cast by an assertion" This reverts commit 0bd5730d16432443a2b247316928d4f789ad8741. Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
2022-09-13 10:51:12 +03:00
from spacy.pipeline import TrainablePipe
from spacy.attrs import MORPH
from spacy.tokens import Doc
def test_label_types():
nlp = Language()
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>
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morphologizer = nlp.add_pipe("morphologizer")
morphologizer.add_label("Feat=A")
with pytest.raises(ValueError):
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 14:42:59 +03:00
morphologizer.add_label(9)
TRAIN_DATA = [
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(
"I like green eggs",
{
"morphs": ["Feat=N", "Feat=V", "Feat=J", "Feat=N"],
"pos": ["NOUN", "VERB", "ADJ", "NOUN"],
},
),
# test combinations of morph+POS
("Eat blue ham", {"morphs": ["Feat=V", "", ""], "pos": ["", "ADJ", ""]}),
]
def test_no_label():
nlp = Language()
nlp.add_pipe("morphologizer")
with pytest.raises(ValueError):
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nlp.initialize()
def test_implicit_label():
nlp = Language()
nlp.add_pipe("morphologizer")
train_examples = []
for t in TRAIN_DATA:
train_examples.append(Example.from_dict(nlp.make_doc(t[0]), t[1]))
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nlp.initialize(get_examples=lambda: train_examples)
def test_no_resize():
nlp = Language()
morphologizer = nlp.add_pipe("morphologizer")
morphologizer.add_label("POS" + Morphology.FIELD_SEP + "NOUN")
morphologizer.add_label("POS" + Morphology.FIELD_SEP + "VERB")
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nlp.initialize()
# this throws an error because the morphologizer can't be resized after initialization
with pytest.raises(ValueError):
morphologizer.add_label("POS" + Morphology.FIELD_SEP + "ADJ")
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def test_initialize_examples():
nlp = Language()
morphologizer = nlp.add_pipe("morphologizer")
morphologizer.add_label("POS" + Morphology.FIELD_SEP + "NOUN")
train_examples = []
for t in TRAIN_DATA:
train_examples.append(Example.from_dict(nlp.make_doc(t[0]), t[1]))
# you shouldn't really call this more than once, but for testing it should be fine
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nlp.initialize()
nlp.initialize(get_examples=lambda: train_examples)
with pytest.raises(TypeError):
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nlp.initialize(get_examples=lambda: None)
with pytest.raises(TypeError):
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nlp.initialize(get_examples=train_examples)
def test_overfitting_IO():
# Simple test to try and quickly overfit the morphologizer - ensuring the ML models work correctly
nlp = English()
nlp.add_pipe("morphologizer")
train_examples = []
for inst in TRAIN_DATA:
train_examples.append(Example.from_dict(nlp.make_doc(inst[0]), inst[1]))
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optimizer = nlp.initialize(get_examples=lambda: train_examples)
for i in range(50):
losses = {}
nlp.update(train_examples, sgd=optimizer, losses=losses)
assert losses["morphologizer"] < 0.00001
# test the trained model
test_text = "I like blue ham"
doc = nlp(test_text)
gold_morphs = ["Feat=N", "Feat=V", "", ""]
gold_pos_tags = ["NOUN", "VERB", "ADJ", ""]
assert [str(t.morph) for t in doc] == gold_morphs
assert [t.pos_ for t in doc] == gold_pos_tags
# Also test the results are still the same after IO
with make_tempdir() as tmp_dir:
nlp.to_disk(tmp_dir)
nlp2 = util.load_model_from_path(tmp_dir)
doc2 = nlp2(test_text)
assert [str(t.morph) for t in doc2] == gold_morphs
assert [t.pos_ for t in doc2] == gold_pos_tags
# Make sure that running pipe twice, or comparing to call, always amounts to the same predictions
texts = [
"Just a sentence.",
"Then one more sentence about London.",
"Here is another one.",
"I like London.",
]
batch_deps_1 = [doc.to_array([MORPH]) for doc in nlp.pipe(texts)]
batch_deps_2 = [doc.to_array([MORPH]) for doc in nlp.pipe(texts)]
no_batch_deps = [doc.to_array([MORPH]) for doc in [nlp(text) for text in texts]]
assert_equal(batch_deps_1, batch_deps_2)
assert_equal(batch_deps_1, no_batch_deps)
# Test without POS
nlp.remove_pipe("morphologizer")
nlp.add_pipe("morphologizer")
for example in train_examples:
for token in example.reference:
token.pos_ = ""
optimizer = nlp.initialize(get_examples=lambda: train_examples)
for i in range(50):
losses = {}
nlp.update(train_examples, sgd=optimizer, losses=losses)
assert losses["morphologizer"] < 0.00001
# Test the trained model
test_text = "I like blue ham"
doc = nlp(test_text)
gold_morphs = ["Feat=N", "Feat=V", "", ""]
gold_pos_tags = ["", "", "", ""]
assert [str(t.morph) for t in doc] == gold_morphs
assert [t.pos_ for t in doc] == gold_pos_tags
# Test overwrite+extend settings
# (note that "" is unset, "_" is set and empty)
morphs = ["Feat=V", "Feat=N", "_"]
doc = Doc(nlp.vocab, words=["blue", "ham", "like"], morphs=morphs)
orig_morphs = [str(t.morph) for t in doc]
orig_pos_tags = [t.pos_ for t in doc]
morphologizer = nlp.get_pipe("morphologizer")
# don't overwrite or extend
morphologizer.cfg["overwrite"] = False
doc = morphologizer(doc)
assert [str(t.morph) for t in doc] == orig_morphs
assert [t.pos_ for t in doc] == orig_pos_tags
# overwrite and extend
morphologizer.cfg["overwrite"] = True
morphologizer.cfg["extend"] = True
doc = Doc(nlp.vocab, words=["I", "like"], morphs=["Feat=A|That=A|This=A", ""])
doc = morphologizer(doc)
assert [str(t.morph) for t in doc] == ["Feat=N|That=A|This=A", "Feat=V"]
# extend without overwriting
morphologizer.cfg["overwrite"] = False
morphologizer.cfg["extend"] = True
doc = Doc(nlp.vocab, words=["I", "like"], morphs=["Feat=A|That=A|This=A", "That=B"])
doc = morphologizer(doc)
assert [str(t.morph) for t in doc] == ["Feat=A|That=A|This=A", "Feat=V|That=B"]
# overwrite without extending
morphologizer.cfg["overwrite"] = True
morphologizer.cfg["extend"] = False
doc = Doc(nlp.vocab, words=["I", "like"], morphs=["Feat=A|That=A|This=A", ""])
doc = morphologizer(doc)
assert [str(t.morph) for t in doc] == ["Feat=N", "Feat=V"]
# Test with unset morph and partial POS
nlp.remove_pipe("morphologizer")
nlp.add_pipe("morphologizer")
for example in train_examples:
for token in example.reference:
if token.text == "ham":
token.pos_ = "NOUN"
else:
token.pos_ = ""
token.set_morph(None)
optimizer = nlp.initialize(get_examples=lambda: train_examples)
assert nlp.get_pipe("morphologizer").labels is not None
for i in range(50):
losses = {}
nlp.update(train_examples, sgd=optimizer, losses=losses)
assert losses["morphologizer"] < 0.00001
# Test the trained model
test_text = "I like blue ham"
doc = nlp(test_text)
gold_morphs = ["", "", "", ""]
gold_pos_tags = ["NOUN", "NOUN", "NOUN", "NOUN"]
assert [str(t.morph) for t in doc] == gold_morphs
assert [t.pos_ for t in doc] == gold_pos_tags
Store activations in `Doc`s when `save_activations` is enabled (#11002) * Store activations in Doc when `store_activations` is enabled This change adds the new `activations` attribute to `Doc`. This attribute can be used by trainable pipes to store their activations, probabilities, and guesses for downstream users. As an example, this change modifies the `tagger` and `senter` pipes to add an `store_activations` option. When this option is enabled, the probabilities and guesses are stored in `set_annotations`. * Change type of `store_activations` to `Union[bool, List[str]]` When the value is: - A bool: all activations are stored when set to `True`. - A List[str]: the activations named in the list are stored * Formatting fixes in Tagger * Support store_activations in spancat and morphologizer * Make Doc.activations type visible to MyPy * textcat/textcat_multilabel: add store_activations option * trainable_lemmatizer/entity_linker: add store_activations option * parser/ner: do not currently support returning activations * Extend tagger and senter tests So that they, like the other tests, also check that we get no activations if no activations were requested. * Document `Doc.activations` and `store_activations` in the relevant pipes * Start errors/warnings at higher numbers to avoid merge conflicts Between the master and v4 branches. * Add `store_activations` to docstrings. * Replace store_activations setter by set_store_activations method Setters that take a different type than what the getter returns are still problematic for MyPy. Replace the setter by a method, so that type inference works everywhere. * Use dict comprehension suggested by @svlandeg * Revert "Use dict comprehension suggested by @svlandeg" This reverts commit 6e7b958f7060397965176c69649e5414f1f24988. * EntityLinker: add type annotations to _add_activations * _store_activations: make kwarg-only, remove doc_scores_lens arg * set_annotations: add type annotations * Apply suggestions from code review Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com> * TextCat.predict: return dict * Make the `TrainablePipe.store_activations` property a bool This means that we can also bring back `store_activations` setter. * Remove `TrainablePipe.activations` We do not need to enumerate the activations anymore since `store_activations` is `bool`. * Add type annotations for activations in predict/set_annotations * Rename `TrainablePipe.store_activations` to `save_activations` * Error E1400 is not used anymore This error was used when activations were still `Union[bool, List[str]]`. * Change wording in API docs after store -> save change * docs: tag (save_)activations as new in spaCy 4.0 * Fix copied line in morphologizer activations test * Don't train in any test_save_activations test * Rename activations - "probs" -> "probabilities" - "guesses" -> "label_ids", except in the edit tree lemmatizer, where "guesses" -> "tree_ids". * Remove unused W400 warning. This warning was used when we still allowed the user to specify which activations to save. * Formatting fixes Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com> * Replace "kb_ids" by a constant * spancat: replace a cast by an assertion * Fix EOF spacing * Fix comments in test_save_activations tests * Do not set RNG seed in activation saving tests * Revert "spancat: replace a cast by an assertion" This reverts commit 0bd5730d16432443a2b247316928d4f789ad8741. Co-authored-by: Sofie Van Landeghem <svlandeg@users.noreply.github.com>
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def test_save_activations():
nlp = English()
morphologizer = cast(TrainablePipe, nlp.add_pipe("morphologizer"))
train_examples = []
for inst in TRAIN_DATA:
train_examples.append(Example.from_dict(nlp.make_doc(inst[0]), inst[1]))
nlp.initialize(get_examples=lambda: train_examples)
doc = nlp("This is a test.")
assert "morphologizer" not in doc.activations
morphologizer.save_activations = True
doc = nlp("This is a test.")
assert "morphologizer" in doc.activations
assert set(doc.activations["morphologizer"].keys()) == {
"label_ids",
"probabilities",
}
assert doc.activations["morphologizer"]["probabilities"].shape == (5, 6)
assert doc.activations["morphologizer"]["label_ids"].shape == (5,)