-
Notifications
You must be signed in to change notification settings - Fork 7
/
.vulture_whitelist.py
156 lines (156 loc) · 11 KB
/
.vulture_whitelist.py
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
_.tasks_for_fp # unused method (kazu/annotation/acceptance_test.py:156)
_.tasks_for_fn # unused method (kazu/annotation/acceptance_test.py:164)
check_annotation_consistency # unused function (kazu/annotation/acceptance_test.py:307)
_.update_tasks # unused method (kazu/annotation/label_studio.py:585)
_.update_tasks # unused method (kazu/annotation/label_studio.py:589)
_.update_tasks # unused method (kazu/annotation/label_studio.py:593)
ENTITY_INSIDE_SYMBOL # unused variable (kazu/data/__init__.py:31)
_generate_next_value_ # unused function (kazu/data/__init__.py:78)
last_values # unused variable (kazu/data/__init__.py:78)
SYNONYM_IS_AMBIGUOUS # unused variable (kazu/data/__init__.py:136)
mapping_types # unused variable (kazu/data/__init__.py:224)
_.is_ambiguous # unused property (kazu/data/__init__.py:226)
bool_score # unused variable (kazu/data/__init__.py:245)
_.as_brat # unused method (kazu/data/__init__.py:385)
_.add_mapping # unused method (kazu/data/__init__.py:395)
autocuration_results # unused variable (kazu/data/__init__.py:849)
_.all_strings # unused method (kazu/data/__init__.py:913)
_.get_aug_examples # unused method (kazu/distillation/dataprocessor.py:61)
_.get_test_examples # unused method (kazu/distillation/dataprocessor.py:75)
_.get_aug_examples # unused method (kazu/distillation/dataprocessor.py:79)
StudentModelCheckpointIO # unused class (kazu/distillation/lightning_plugins.py:13)
_.save_checkpoint # unused method (kazu/distillation/lightning_plugins.py:20)
storage_options # unused variable (kazu/distillation/lightning_plugins.py:24)
_.load_checkpoint # unused method (kazu/distillation/lightning_plugins.py:58)
storage_options # unused variable (kazu/distillation/lightning_plugins.py:59)
_.remove_checkpoint # unused method (kazu/distillation/lightning_plugins.py:68)
accuracy # unused function (kazu/distillation/metrics.py:14)
_.configure_optimizers # unused method (kazu/distillation/models.py:267)
_.train_dataloader # unused method (kazu/distillation/models.py:362)
_.val_dataloader # unused method (kazu/distillation/models.py:386)
_.training_step # unused method (kazu/distillation/models.py:472)
batch_idx # unused variable (kazu/distillation/models.py:472)
_.validation_step # unused method (kazu/distillation/models.py:506)
batch_idx # unused variable (kazu/distillation/models.py:506)
_.validation_epoch_end # unused method (kazu/distillation/models.py:532)
_.training_step # unused method (kazu/distillation/models.py:684)
batch_idx # unused variable (kazu/distillation/models.py:684)
_.validation_step # unused method (kazu/distillation/models.py:704)
batch_idx # unused variable (kazu/distillation/models.py:704)
_.validation_epoch_end # unused method (kazu/distillation/models.py:716)
_.dropout # unused attribute (kazu/distillation/tiny_transformers.py:57)
_.forward # unused method (kazu/distillation/tiny_transformers.py:62)
topk # unused variable (kazu/linking/sapbert/train.py:111)
iri # unused variable (kazu/linking/sapbert/train.py:137)
gold_default_label # unused variable (kazu/linking/sapbert/train.py:142)
gold_iri # unused variable (kazu/linking/sapbert/train.py:143)
_.configure_optimizers # unused method (kazu/linking/sapbert/train.py:203)
_.forward # unused method (kazu/linking/sapbert/train.py:217)
_.training_step # unused method (kazu/linking/sapbert/train.py:226)
batch_idx # unused variable (kazu/linking/sapbert/train.py:226)
_.train_dataloader # unused method (kazu/linking/sapbert/train.py:243)
_.val_dataloader # unused method (kazu/linking/sapbert/train.py:269)
_.validation_step # unused method (kazu/linking/sapbert/train.py:292)
batch_idx # unused variable (kazu/linking/sapbert/train.py:293)
dataset_idx # unused variable (kazu/linking/sapbert/train.py:293)
_.predict_step # unused method (kazu/linking/sapbert/train.py:300)
batch_idx # unused variable (kazu/linking/sapbert/train.py:300)
dataloader_idx # unused variable (kazu/linking/sapbert/train.py:300)
_.validation_epoch_end # unused method (kazu/linking/sapbert/train.py:306)
outputs # unused variable (kazu/linking/sapbert/train.py:306)
_.log_results # unused method (kazu/linking/sapbert/train.py:317)
_.get_candidate_dict # unused method (kazu/linking/sapbert/train.py:323)
_.evaluate_topk_acc # unused method (kazu/linking/sapbert/train.py:342)
SymbolicToCaseSensitiveAction # unused class (kazu/ontology_preprocessing/autocuration.py:13)
IsCommmonWord # unused class (kazu/ontology_preprocessing/autocuration.py:38)
MinLength # unused class (kazu/ontology_preprocessing/autocuration.py:65)
MaxLength # unused class (kazu/ontology_preprocessing/autocuration.py:79)
is_upper_case_word_to_case_insensitive # unused function (kazu/ontology_preprocessing/autocuration.py:92)
initial_lowercase_then_upper_to_case_sensitive # unused function (kazu/ontology_preprocessing/autocuration.py:120)
OpenTargetsDiseaseOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:93)
OpenTargetsTargetOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:264)
OpenTargetsMoleculeOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:430)
SKOSXLGraphParser # unused class (kazu/ontology_preprocessing/parsers.py:637)
BiologicalProcessGeneOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:790)
MolecularFunctionGeneOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:832)
CellularComponentGeneOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:874)
UberonOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:916)
MondoOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:959)
HGNCGeneOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:1015)
ChemblOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:1119)
CLOOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:1148)
CellosaurusOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:1189)
MeddraOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:1278)
j # unused variable (kazu/ontology_preprocessing/parsers.py:1398)
CLOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:1437)
HGNCGeneFamilyParser # unused class (kazu/ontology_preprocessing/parsers.py:1484)
ATCDrugClassificationParser # unused class (kazu/ontology_preprocessing/parsers.py:1604)
StatoParser # unused class (kazu/ontology_preprocessing/parsers.py:1675)
HPOntologyParser # unused class (kazu/ontology_preprocessing/parsers.py:1723)
SuffixReplacement # unused class (kazu/ontology_preprocessing/synonym_generation.py:274)
SpellingVariationReplacement # unused class (kazu/ontology_preprocessing/synonym_generation.py:305)
NgramHyphenation # unused class (kazu/ontology_preprocessing/synonym_generation.py:324)
load_steps_and_log_memory_usage # unused function (kazu/pipeline/__init__.py:20)
FailedDocsLogHandler # unused class (kazu/pipeline/__init__.py:75)
relevant_text # unused variable (kazu/steps/linking/entity_class_disambiguation.py:27)
MappingStep # unused class (kazu/steps/linking/post_processing/mapping_step.py:13)
OxoCrossReferenceManager # unused class (kazu/steps/linking/post_processing/xref_manager.py:108)
token_ids # unused variable (kazu/steps/ner/tokenized_word_processor.py:20)
token_offsets # unused variable (kazu/steps/ner/tokenized_word_processor.py:26)
DropMappingsByConfidenceMappingFilter # unused class (kazu/steps/other/cleanup.py:54)
DropUnmappedEntityFilter # unused class (kazu/steps/other/cleanup.py:71)
LinkingCandidateRemovalCleanupAction # unused class (kazu/steps/other/cleanup.py:95)
mock_kazu_disk_cache_on_parsers # unused variable (kazu/tests/test_dictionary_entity_linking_step.py:6)
pytestmark # unused variable (kazu/tests/test_dictionary_index.py:5)
pytestmark # unused variable (kazu/tests/test_disambiguation_strategies.py:35)
mock_build_vectoriser_cache # unused variable (kazu/tests/test_disambiguation_strategies.py:168)
mock_build_gilda_vectoriser_cache # unused variable (kazu/tests/test_disambiguation_strategies.py:312)
mock_kazu_disk_cache_on_parsers # unused variable (kazu/tests/test_linking_strategy_runner.py:435)
pytestmark # unused variable (kazu/tests/test_mapping_strategies.py:29)
pytestmark # unused variable (kazu/tests/test_memory_efficient_string_matching.py:38)
pytestmark # unused variable (kazu/tests/test_ontology_matching.py:33)
pytestmark # unused variable (kazu/tests/test_ontology_parser.py:44)
pytestmark # unused variable (kazu/tests/test_server.py:30)
clean_underscore # unused function (kazu/tests/test_spacy_object_mapper.py:11)
_.doc_extensions # unused attribute (kazu/tests/test_spacy_object_mapper.py:15)
_.span_extensions # unused attribute (kazu/tests/test_spacy_object_mapper.py:16)
_.token_extensions # unused attribute (kazu/tests/test_spacy_object_mapper.py:17)
CONFIG_DIR # unused variable (kazu/tests/utils.py:34)
typed # unused variable (kazu/utils/caching.py:39)
expire # unused variable (kazu/utils/caching.py:40)
ignore # unused variable (kazu/utils/caching.py:42)
SupportsRichComparison # unused import (kazu/utils/grouping.py:9)
tokenizer_exceptions # unused variable (kazu/utils/spacy_pipeline.py:61)
infixes # unused variable (kazu/utils/spacy_pipeline.py:62)
KazuCustomEnglish # unused class (kazu/utils/spacy_pipeline.py:72)
lang # unused variable (kazu/utils/spacy_pipeline.py:74)
simple_stanza_init # unused function (kazu/utils/stanza_pipeline.py:15)
_.handle_lower_case_prefixes # unused method (kazu/utils/string_normalizer.py:160)
find_document_from_entity # unused function (kazu/utils/utils.py:53)
EntityClassFilter # unused class (kazu/utils/utils.py:126)
_.is_authenticated # unused property (kazu/web/jwtauth.py:73)
_.display_name # unused property (kazu/web/jwtauth.py:77)
JWTAuthenticationBackend # unused class (kazu/web/jwtauth.py:82)
_.authenticate # unused method (kazu/web/jwtauth.py:110)
on_auth_error # unused function (kazu/web/jwtauth.py:151)
AddRequestIdMiddleware # unused class (kazu/web/req_id_header.py:57)
_.dispatch # unused method (kazu/web/req_id_header.py:68)
docs_url # unused variable (kazu/web/routes.py:8)
openapi_url # unused variable (kazu/web/routes.py:9)
redoc_url # unused variable (kazu/web/routes.py:10)
KAZU_WEBSERVER_SPINUP_TIMEOUT # unused variable (kazu/web/server.py:10)
Config # unused class (kazu/web/server.py:212)
schema_extra # unused variable (kazu/web/server.py:213)
Config # unused class (kazu/web/server.py:222)
schema_extra # unused variable (kazu/web/server.py:223)
Config # unused class (kazu/web/server.py:244)
schema_extra # unused variable (kazu/web/server.py:245)
_.openapi # unused attribute (kazu/web/server.py:367)
_.ner_and_linking # unused method (kazu/web/server.py:429)
_.custom_pipeline_steps # unused method (kazu/web/server.py:449)
_.ner_only # unused method (kazu/web/server.py:473)
_.linking_only # unused method (kazu/web/server.py:492)
_.ner # unused method (kazu/web/server.py:524)
_.batch_ner # unused method (kazu/web/server.py:547)
_.ls_annotations # unused method (kazu/web/server.py:573)
stop # unused function (kazu/web/server.py:634)