Index

_

____() (medcat.components.addons.meta_cat.meta_cat.MisconfiguredMetaCATException method) __abc_tpflags__ (medcat.components.linking.two_step_context_based_linker.PerEntityWeights attribute) __add__() (medcat.components.addons.relation_extraction.rel_cat.RelData method) (medcat.components.addons.relation_extraction.rel_dataset.RelData method) __all__ (in module medcat.cdb) (in module medcat.components.addons.meta_cat) (in module medcat.config) __call__ (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) __call__() (medcat.cat.AbstractCoreComponent method) (medcat.cat.AddonComponent method) (medcat.cat.CAT method) (medcat.components.addons.addons.AddonComponent method) (medcat.components.addons.addons.BaseComponent method) (medcat.components.addons.addons.BaseTokenizer method) (medcat.components.addons.meta_cat.data_utils.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBPE method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.meta_cat.AddonComponent method) (medcat.components.addons.meta_cat.meta_cat.BaseTokenizer method) (medcat.components.addons.meta_cat.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon method) (medcat.components.addons.meta_cat.meta_cat.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.MetaCATAddon method) (medcat.components.addons.meta_cat.ml_utils.TokenizerWrapperBase method) (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.base_component.Pad_Sequence method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.pad_seq.Pad_Sequence method) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent method) (medcat.components.addons.relation_extraction.rel_cat.BaseTokenizer method) (medcat.components.addons.relation_extraction.rel_cat.RelCAT method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) (medcat.components.linking.context_based_linker.AbstractCoreComponent method) (medcat.components.linking.context_based_linker.BaseTokenizer method) (medcat.components.linking.context_based_linker.Linker method) (medcat.components.linking.no_action_linker.AbstractCoreComponent method) (medcat.components.linking.no_action_linker.BaseTokenizer method) (medcat.components.linking.no_action_linker.NoActionLinker method) (medcat.components.linking.two_step_context_based_linker.AbstractCoreComponent method) (medcat.components.linking.two_step_context_based_linker.BaseTokenizer method) (medcat.components.linking.two_step_context_based_linker.NormalLinker method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker method) (medcat.components.linking.vector_context_model.DisambPreprocessor method) (medcat.components.ner.dict_based_ner.AbstractCoreComponent method) (medcat.components.ner.dict_based_ner.BaseTokenizer method) (medcat.components.ner.dict_based_ner.NER method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.deid.DeIdModel method) (medcat.components.ner.trf.deid.NerModel method) (medcat.components.ner.trf.deid.TransformersNER method) (medcat.components.ner.trf.model.CAT method) (medcat.components.ner.trf.model.NerModel method) (medcat.components.ner.trf.model.TransformersNER method) (medcat.components.ner.trf.transformers_ner.AbstractCoreComponent method) (medcat.components.ner.trf.transformers_ner.BaseTokenizer method) (medcat.components.ner.trf.transformers_ner.CollateAndPadNER method) (medcat.components.ner.trf.transformers_ner.TransformersNER method) (medcat.components.ner.trf.transformers_ner.TransformersNERComponent method) (medcat.components.ner.vocab_based_annotator.BaseTokenizer method) (medcat.components.ner.vocab_based_ner.AbstractCoreComponent method) (medcat.components.ner.vocab_based_ner.BaseTokenizer method) (medcat.components.ner.vocab_based_ner.NER method) (medcat.components.normalizing.normalizer.AbstractCoreComponent method) (medcat.components.normalizing.normalizer.BaseTokenizer method) (medcat.components.normalizing.normalizer.TokenNormalizer method) (medcat.components.tagging.tagger.AbstractCoreComponent method) (medcat.components.tagging.tagger.BaseTokenizer method) (medcat.components.tagging.tagger.TagAndSkipTagger method) (medcat.components.types.AbstractCoreComponent method) (medcat.components.types.BaseComponent method) (medcat.components.types.BaseTokenizer method) (medcat.components.types.CoreComponent method) (medcat.pipeline.pipeline.AbstractCoreComponent method) (medcat.pipeline.pipeline.AddonComponent method) (medcat.pipeline.pipeline.BaseComponent method) (medcat.pipeline.pipeline.BaseTokenizer method) (medcat.pipeline.pipeline.CoreComponent method) (medcat.pipeline.pipeline.DelegatingTokenizer method) (medcat.preprocessors.cleaners.BaseTokenizer method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.tokenizing.regex_impl.tokenizer.BaseTokenizer method) (medcat.tokenizing.regex_impl.tokenizer.RegexTokenizer method) (medcat.tokenizing.spacy_impl.tokenizers.BaseTokenizer method) (medcat.tokenizing.spacy_impl.tokenizers.SpacyTokenizer method) (medcat.tokenizing.tokenizers.BaseTokenizer method) (medcat.trainer.AddonComponent method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.conversion_all.NoActionLinker method) (medcat.utils.legacy.convert_deid.BaseTokenizer method) (medcat.utils.legacy.convert_deid.TransformersNER method) (medcat.utils.legacy.convert_meta_cat.BaseTokenizer method) (medcat.utils.legacy.convert_meta_cat.MetaCAT method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon method) (medcat.utils.legacy.convert_meta_cat.TokenizerWrapperBase method) (medcat.utils.legacy.convert_rel_cat.BaseTokenizer method) (medcat.utils.legacy.convert_rel_cat.RelCAT method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.ner.data_collator.CollateAndPadNER method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.checking.EditGetter method) (medcat.utils.regression.regression_checker.CAT method) (medcat.utils.regression.targeting.PhraseChanger method) (medcat.utils.regression.utils.EditGetter method) __class_getitem__ (medcat.components.linking.two_step_context_based_linker.PerEntityWeights attribute) __class_getitem__() (medcat.cat.AbstractCoreComponent class method) (medcat.cat.AddonComponent class method) (medcat.cat.Config class method) (medcat.cat.HashableComponet class method) (medcat.cat.MutableDocument class method) (medcat.cat.MutableEntity class method) (medcat.cat.SaveableTokenizer class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.AddonComponent class method) (medcat.components.addons.addons.BaseComponent class method) (medcat.components.addons.addons.BaseTokenizer class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.addons.MutableEntity class method) (medcat.components.addons.addons.Registry class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.AddonComponent class method) (medcat.components.addons.meta_cat.meta_cat.BaseTokenizer class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.meta_cat.MutableDocument class method) (medcat.components.addons.meta_cat.meta_cat.MutableEntity class method) (medcat.components.addons.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent class method) (medcat.components.addons.relation_extraction.rel_cat.BalancedBatchSampler class method) (medcat.components.addons.relation_extraction.rel_cat.BaseTokenizer class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.MutableDocument class method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon class method) (medcat.components.addons.relation_extraction.rel_cat.RelData class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.rel_dataset.MutableDocument class method) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity class method) (medcat.components.addons.relation_extraction.rel_dataset.RelData class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.AbstractCoreComponent class method) (medcat.components.linking.context_based_linker.BaseTokenizer class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.context_based_linker.Linker class method) (medcat.components.linking.context_based_linker.MutableDocument class method) (medcat.components.linking.context_based_linker.MutableEntity class method) (medcat.components.linking.no_action_linker.AbstractCoreComponent class method) (medcat.components.linking.no_action_linker.BaseTokenizer class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.no_action_linker.MutableDocument class method) (medcat.components.linking.no_action_linker.NoActionLinker class method) (medcat.components.linking.two_step_context_based_linker.AbstractCoreComponent class method) (medcat.components.linking.two_step_context_based_linker.BaseTokenizer class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.MutableDocument class method) (medcat.components.linking.two_step_context_based_linker.MutableEntity class method) (medcat.components.linking.two_step_context_based_linker.NormalLinker class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.vector_context_model.DisambPreprocessor class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.linking.vector_context_model.MutableDocument class method) (medcat.components.linking.vector_context_model.MutableEntity class method) (medcat.components.linking.vector_context_model.MutableToken class method) (medcat.components.ner.dict_based_ner.AbstractCoreComponent class method) (medcat.components.ner.dict_based_ner.BaseTokenizer class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.dict_based_ner.MutableDocument class method) (medcat.components.ner.dict_based_ner.NER class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.deid.TransformersNER class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.model.MutableDocument class method) (medcat.components.ner.trf.model.TransformersNER class method) (medcat.components.ner.trf.transformers_ner.AbstractCoreComponent class method) (medcat.components.ner.trf.transformers_ner.BaseTokenizer class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.trf.transformers_ner.MutableDocument class method) (medcat.components.ner.trf.transformers_ner.MutableEntity class method) (medcat.components.ner.trf.transformers_ner.TransformersNER class method) (medcat.components.ner.vocab_based_annotator.BaseTokenizer class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_annotator.MutableDocument class method) (medcat.components.ner.vocab_based_annotator.MutableEntity class method) (medcat.components.ner.vocab_based_annotator.MutableToken class method) (medcat.components.ner.vocab_based_ner.AbstractCoreComponent class method) (medcat.components.ner.vocab_based_ner.BaseTokenizer class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.ner.vocab_based_ner.MutableDocument class method) (medcat.components.ner.vocab_based_ner.NER class method) (medcat.components.normalizing.normalizer.AbstractCoreComponent class method) (medcat.components.normalizing.normalizer.BaseTokenizer class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.normalizing.normalizer.MutableDocument class method) (medcat.components.normalizing.normalizer.TokenNormalizer class method) (medcat.components.tagging.tagger.AbstractCoreComponent class method) (medcat.components.tagging.tagger.BaseTokenizer class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.MutableDocument class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.tagging.tagger.TagAndSkipTagger class method) (medcat.components.types.AbstractCoreComponent class method) (medcat.components.types.BaseComponent class method) (medcat.components.types.BaseTokenizer class method) (medcat.components.types.ComponentConfig class method) (medcat.components.types.CoreComponent class method) (medcat.components.types.HashableComponet class method) (medcat.components.types.MutableDocument class method) (medcat.components.types.MutableEntity class method) (medcat.components.types.Registry class method) (medcat.components.types.TrainableComponent class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.Environment class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.PotentiallyDirty class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.AbstractCoreComponent class method) (medcat.pipeline.pipeline.AddonComponent class method) (medcat.pipeline.pipeline.BaseComponent class method) (medcat.pipeline.pipeline.BaseTokenizer class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.pipeline.pipeline.CoreComponent class method) (medcat.pipeline.pipeline.DelegatingTokenizer class method) (medcat.pipeline.pipeline.MutableDocument class method) (medcat.pipeline.pipeline.MutableEntity class method) (medcat.pipeline.pipeline.MutableToken class method) (medcat.pipeline.pipeline.Serialisable class method) (medcat.preprocessors.cleaners.BaseTokenizer class method) (medcat.preprocessors.cleaners.LCDBMaker class method) (medcat.preprocessors.cleaners.LGeneral class method) (medcat.preprocessors.cleaners.LPreprocessing class method) (medcat.preprocessors.cleaners.MutableDocument class method) (medcat.stats.kfold.PerCUIMetrics class method) (medcat.stats.stats.LinkingFilters class method) (medcat.stats.stats.MutableDocument class method) (medcat.stats.stats.MutableEntity class method) (medcat.storage.jsonserialiser.DataClassHandler class method) (medcat.storage.jsonserialiser.DateTimeHandler class method) (medcat.storage.jsonserialiser.NumpyArrayHandler class method) (medcat.storage.jsonserialiser.SetHandler class method) (medcat.storage.jsonserialiser.TypeBasedHandler class method) (medcat.storage.jsonserialiser.TypeHandler class method) (medcat.storage.serialisables.ManualSerialisable class method) (medcat.storage.serialisables.Serialisable class method) (medcat.storage.serialisers.ManualSerialisable class method) (medcat.storage.serialisers.Serialisable class method) (medcat.tokenizing.regex_impl.tokenizer.BaseDocument class method) (medcat.tokenizing.regex_impl.tokenizer.BaseEntity class method) (medcat.tokenizing.regex_impl.tokenizer.BaseToken class method) (medcat.tokenizing.regex_impl.tokenizer.BaseTokenizer class method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.regex_impl.tokenizer.MutableDocument class method) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity class method) (medcat.tokenizing.regex_impl.tokenizer.MutableToken class method) (medcat.tokenizing.regex_impl.tokenizer.RegexTokenizer class method) (medcat.tokenizing.spacy_impl.tokenizers.BaseTokenizer class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.MutableDocument class method) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity class method) (medcat.tokenizing.spacy_impl.tokenizers.MutableToken class method) (medcat.tokenizing.spacy_impl.tokenizers.SpacyTokenizer class method) (medcat.tokenizing.spacy_impl.tokens.BaseDocument class method) (medcat.tokenizing.spacy_impl.tokens.BaseEntity class method) (medcat.tokenizing.spacy_impl.tokens.BaseToken class method) (medcat.tokenizing.spacy_impl.tokens.MutableEntity class method) (medcat.tokenizing.spacy_impl.tokens.MutableToken class method) (medcat.tokenizing.tokenizers.BaseTokenizer class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.tokenizing.tokenizers.MutableDocument class method) (medcat.tokenizing.tokenizers.MutableEntity class method) (medcat.tokenizing.tokenizers.MutableToken class method) (medcat.tokenizing.tokenizers.Registry class method) (medcat.tokenizing.tokenizers.SaveableTokenizer class method) (medcat.tokenizing.tokens.BaseDocument class method) (medcat.tokenizing.tokens.BaseEntity class method) (medcat.tokenizing.tokens.BaseToken class method) (medcat.tokenizing.tokens.MutableDocument class method) (medcat.tokenizing.tokens.MutableEntity class method) (medcat.tokenizing.tokens.MutableToken class method) (medcat.trainer.AddonComponent class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.MutableDocument class method) (medcat.trainer.MutableEntity class method) (medcat.trainer.MutableToken class method) (medcat.trainer.Preprocessing class method) (medcat.trainer.TrainableComponent class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.data_utils.MutableDocument class method) (medcat.utils.data_utils.MutableEntity class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.conversion_all.NoActionLinker class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.BaseTokenizer class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_deid.TransformersNER class method) (medcat.utils.legacy.convert_meta_cat.BaseTokenizer class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon class method) (medcat.utils.legacy.convert_rel_cat.BaseTokenizer class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon class method) (medcat.utils.postprocessing.MutableDocument class method) (medcat.utils.postprocessing.MutableEntity class method) (medcat.utils.registry.Registry class method) (medcat.utils.regression.checking.EditGetter class method) (medcat.utils.regression.checking.FinalTarget class method) (medcat.utils.regression.checking.MetaData class method) (medcat.utils.regression.checking.MultiDescriptor class method) (medcat.utils.regression.checking.OptionSet class method) (medcat.utils.regression.checking.RegressionCase class method) (medcat.utils.regression.checking.ResultDescriptor class method) (medcat.utils.regression.checking.TargetedPhraseChanger class method) (medcat.utils.regression.results.FinalTarget class method) (medcat.utils.regression.results.MultiDescriptor class method) (medcat.utils.regression.results.ResultDescriptor class method) (medcat.utils.regression.results.SingleResultDescriptor class method) (medcat.utils.regression.targeting.FinalTarget class method) (medcat.utils.regression.targeting.OptionSet class method) (medcat.utils.regression.targeting.PhraseChanger class method) (medcat.utils.regression.targeting.TargetedPhraseChanger class method) (medcat.utils.regression.targeting.TargetPlaceholder class method) (medcat.utils.regression.utils.EditGetter class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method) __class_vars__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) 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attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute), [1] (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute), [1] (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __contains__() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cat.Vocab method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.addons.Registry method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) 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(medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig method) (medcat.components.addons.relation_extraction.rel_cat.Config method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT method) (medcat.components.linking.context_based_linker.ComponentConfig method) (medcat.components.linking.context_based_linker.Config method) (medcat.components.linking.no_action_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.Config method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig method) (medcat.components.linking.vector_context_model.Linking method) (medcat.components.ner.dict_based_ner.ComponentConfig method) (medcat.components.ner.trf.deid.ConfigTransformersNER method) (medcat.components.ner.trf.helpers.Config method) (medcat.components.ner.trf.model.Config method) (medcat.components.ner.trf.transformers_ner.ComponentConfig method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER method) (medcat.components.ner.vocab_based_annotator.Config method) (medcat.components.ner.vocab_based_ner.ComponentConfig method) (medcat.components.normalizing.normalizer.ComponentConfig method) (medcat.components.normalizing.normalizer.Config method) (medcat.components.tagging.tagger.ComponentConfig method) (medcat.components.tagging.tagger.Preprocessing method) (medcat.components.types.ComponentConfig method) (medcat.config.Config method) (medcat.config.config.AnnotationOutput method) (medcat.config.config.CDBMaker method) (medcat.config.config.ComponentConfig method) (medcat.config.config.Components method) (medcat.config.config.Config method) (medcat.config.config.DirtiableBaseModel method) (medcat.config.config.Environment method) (medcat.config.config.General method) (medcat.config.config.Linking method) (medcat.config.config.LinkingFilters method) (medcat.config.config.ModelMeta method) (medcat.config.config.Ner method) (medcat.config.config.NLPConfig method) (medcat.config.config.Preprocessing method) (medcat.config.config.SerialisableBaseModel method) (medcat.config.config.TrainingDescriptor method) (medcat.config.config.UsageMonitor method) (medcat.config.config_meta_cat.ComponentConfig method) (medcat.config.config_meta_cat.ConfigMetaCAT method) (medcat.config.config_meta_cat.DirtiableBaseModel method) (medcat.config.config_meta_cat.General method) (medcat.config.config_meta_cat.Model method) (medcat.config.config_meta_cat.Train method) (medcat.config.config_rel_cat.ComponentConfig method) (medcat.config.config_rel_cat.ConfigRelCAT method) (medcat.config.config_rel_cat.General method) (medcat.config.config_rel_cat.Model method) (medcat.config.config_rel_cat.SerialisableBaseModel method) (medcat.config.config_rel_cat.Train method) (medcat.config.config_transformers_ner.ConfigTransformersNER method) (medcat.config.config_transformers_ner.General method) (medcat.config.config_transformers_ner.SerialisableBaseModel method) (medcat.model_creation.cdb_maker.Config method) (medcat.pipeline.pipeline.ComponentConfig method) (medcat.pipeline.pipeline.Config method) (medcat.pipeline.pipeline.ConfigMetaCAT method) (medcat.pipeline.pipeline.ConfigRelCAT method) (medcat.stats.kfold.PerCUIMetrics method) (medcat.stats.stats.LinkingFilters method) (medcat.tokenizing.regex_impl.tokenizer.Config method) 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(medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig method) (medcat.components.addons.relation_extraction.rel_cat.Config method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT method) (medcat.components.linking.context_based_linker.ComponentConfig method) (medcat.components.linking.context_based_linker.Config method) (medcat.components.linking.no_action_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.Config method) 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method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.IncorrectExtraComponent method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.import_utils.MissingDependenciesError method) (medcat.utils.legacy.conversion_all.AvailableSerialisers method) (medcat.utils.legacy.conversion_all.CoreComponentType method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.legacy_converter.AvailableSerialisers method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) (medcat.utils.registry.MedCATRegistryException method) (medcat.utils.regression.checking.Finding method) (medcat.utils.regression.checking.MalformedRegressionCaseException method) (medcat.utils.regression.regression_checker.Finding method) (medcat.utils.regression.regression_checker.Strictness method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.results.Finding method) (medcat.utils.regression.results.MalformedFinding method) 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method) (medcat.model_creation.cdb_maker.CDB method) (medcat.model_creation.cdb_maker.Config method) (medcat.model_creation.preprocess_snomed.UnkownSnomedReleaseException method) (medcat.pipeline.pipeline.CDB method) (medcat.pipeline.pipeline.ComponentConfig method) (medcat.pipeline.pipeline.Config method) (medcat.pipeline.pipeline.ConfigMetaCAT method) (medcat.pipeline.pipeline.ConfigRelCAT method) (medcat.pipeline.pipeline.IncorrectAddonLoaded method) (medcat.pipeline.pipeline.IncorrectArgumentsForComponent method) (medcat.pipeline.pipeline.IncorrectArgumentsForTokenizer method) (medcat.pipeline.pipeline.IncorrectCoreComponent method) (medcat.pipeline.pipeline.IncorrectFolderUponLoad method) (medcat.pipeline.pipeline.UnkownAddonConfig method) (medcat.pipeline.pipeline.Vocab method) (medcat.preprocessors.cleaners.UnknownTokenVersion method) (medcat.stats.kfold.CAT method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.kfold.PerCUIMetrics method) (medcat.stats.stats.CAT method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.LinkingFilters method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.storage.schema.IllegalSchemaException method) (medcat.storage.serialisables.AbstractSerialisable method) (medcat.storage.serialisers.IllegalSchemaException method) (medcat.storage.serialisers.RemappingUnpickler method) (medcat.tokenizing.regex_impl.tokenizer.Config method) (medcat.tokenizing.regex_impl.tokenizer.Token method) (medcat.tokenizing.regex_impl.tokenizer.UnregisteredDataPathException method) (medcat.tokenizing.spacy_impl.tokenizers.Config method) (medcat.tokenizing.spacy_impl.tokenizers.Token method) (medcat.tokenizing.spacy_impl.tokens.Token method) (medcat.tokenizing.spacy_impl.tokens.UnregisteredDataPathException method) (medcat.tokenizing.tokenizers.Config method) (medcat.tokenizing.tokens.UnregisteredDataPathException method) (medcat.trainer.CDB method) (medcat.trainer.CDBMaker method) (medcat.trainer.General method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.trainer.Preprocessing method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.ModelMeta method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.config_utils.IllegalConfigPathException method) (medcat.utils.data_utils.CDB method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.envsnapshot.AbstractSerialisable method) 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(medcat.utils.legacy.helpers.CDB method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) (medcat.utils.registry.MedCATRegistryException method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.checking.FinalTarget method) (medcat.utils.regression.checking.MalformedRegressionCaseException method) (medcat.utils.regression.checking.MetaData method) (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.checking.OptionSet method) (medcat.utils.regression.checking.RegressionCase method) (medcat.utils.regression.checking.RegressionSuite method) (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.checking.TargetedPhraseChanger method) (medcat.utils.regression.regression_checker.CAT method) (medcat.utils.regression.regression_checker.RegressionSuite method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.results.FinalTarget method) (medcat.utils.regression.results.MalformedFinding method) (medcat.utils.regression.results.MultiDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) (medcat.utils.regression.results.SingleResultDescriptor method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.FinalTarget method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.targeting.OptionSet method) (medcat.utils.regression.targeting.PhraseChanger method) (medcat.utils.regression.targeting.ProblematicOptionSetException method) (medcat.utils.regression.targeting.TargetedPhraseChanger method) (medcat.utils.regression.targeting.TargetPlaceholder method) (medcat.utils.regression.utils.IncompatiblePhraseException method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) (medcat.utils.usage_monitoring.UsageMonitorConfig method) (medcat.utils.vocab_utils.CDB method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.AbstractSerialisable method) (medcat.vocab.Vocab method) __fields__ (medcat.cat.Config property) (medcat.cdb.cdb.Config property) (medcat.components.addons.addons.ComponentConfig property) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT property) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig property) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT property) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT property) (medcat.components.addons.meta_cat.models.ConfigMetaCAT property) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT property) (medcat.components.addons.relation_extraction.models.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig property) (medcat.components.addons.relation_extraction.rel_cat.Config property) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT property) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT property) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig property) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT property) (medcat.components.linking.context_based_linker.ComponentConfig property) (medcat.components.linking.context_based_linker.Config property) (medcat.components.linking.no_action_linker.ComponentConfig property) (medcat.components.linking.two_step_context_based_linker.ComponentConfig property) (medcat.components.linking.two_step_context_based_linker.Config property) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel property) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig property) (medcat.components.linking.vector_context_model.Linking property) (medcat.components.ner.dict_based_ner.ComponentConfig property) (medcat.components.ner.trf.deid.ConfigTransformersNER property) (medcat.components.ner.trf.helpers.Config property) (medcat.components.ner.trf.model.Config property) (medcat.components.ner.trf.transformers_ner.ComponentConfig property) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER property) (medcat.components.ner.vocab_based_annotator.Config property) (medcat.components.ner.vocab_based_ner.ComponentConfig property) (medcat.components.normalizing.normalizer.ComponentConfig property) (medcat.components.normalizing.normalizer.Config property) (medcat.components.tagging.tagger.ComponentConfig property) (medcat.components.tagging.tagger.Preprocessing property) (medcat.components.types.ComponentConfig property) (medcat.config.Config property) (medcat.config.config.AnnotationOutput property) (medcat.config.config.CDBMaker property) (medcat.config.config.ComponentConfig property) (medcat.config.config.Components property) (medcat.config.config.Config property) (medcat.config.config.DirtiableBaseModel property) (medcat.config.config.Environment property) (medcat.config.config.General property) (medcat.config.config.Linking property) (medcat.config.config.LinkingFilters property) (medcat.config.config.ModelMeta property) (medcat.config.config.Ner property) (medcat.config.config.NLPConfig property) (medcat.config.config.Preprocessing property) (medcat.config.config.SerialisableBaseModel property) (medcat.config.config.TrainingDescriptor property) (medcat.config.config.UsageMonitor property) (medcat.config.config_meta_cat.ComponentConfig property) (medcat.config.config_meta_cat.ConfigMetaCAT property) (medcat.config.config_meta_cat.DirtiableBaseModel property) (medcat.config.config_meta_cat.General property) (medcat.config.config_meta_cat.Model property) (medcat.config.config_meta_cat.Train property) (medcat.config.config_rel_cat.ComponentConfig property) (medcat.config.config_rel_cat.ConfigRelCAT property) (medcat.config.config_rel_cat.General property) (medcat.config.config_rel_cat.Model property) (medcat.config.config_rel_cat.SerialisableBaseModel property) (medcat.config.config_rel_cat.Train property) (medcat.config.config_transformers_ner.ConfigTransformersNER property) (medcat.config.config_transformers_ner.General property) (medcat.config.config_transformers_ner.SerialisableBaseModel property) (medcat.model_creation.cdb_maker.Config property) (medcat.pipeline.pipeline.ComponentConfig property) (medcat.pipeline.pipeline.Config property) (medcat.pipeline.pipeline.ConfigMetaCAT property) (medcat.pipeline.pipeline.ConfigRelCAT property) (medcat.stats.kfold.PerCUIMetrics property) (medcat.stats.stats.LinkingFilters property) (medcat.tokenizing.regex_impl.tokenizer.Config property) (medcat.tokenizing.spacy_impl.tokenizers.Config property) (medcat.tokenizing.tokenizers.Config property) (medcat.trainer.CDBMaker property) (medcat.trainer.General property) (medcat.trainer.Preprocessing property) (medcat.utils.cdb_state.ModelMeta property) (medcat.utils.envsnapshot.Environment property) (medcat.utils.filters.LinkingFilters property) (medcat.utils.legacy.convert_cdb.Config property) (medcat.utils.legacy.convert_config.Config property) (medcat.utils.legacy.convert_deid.ConfigTransformersNER property) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT property) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT property) (medcat.utils.regression.checking.FinalTarget property) (medcat.utils.regression.checking.MetaData property) (medcat.utils.regression.checking.MultiDescriptor property) (medcat.utils.regression.checking.OptionSet property) (medcat.utils.regression.checking.RegressionCase property) (medcat.utils.regression.checking.ResultDescriptor property) (medcat.utils.regression.checking.TargetedPhraseChanger property) (medcat.utils.regression.results.FinalTarget property) (medcat.utils.regression.results.MultiDescriptor property) (medcat.utils.regression.results.ResultDescriptor property) (medcat.utils.regression.results.SingleResultDescriptor property) (medcat.utils.regression.targeting.FinalTarget property) (medcat.utils.regression.targeting.OptionSet property) (medcat.utils.regression.targeting.PhraseChanger property) (medcat.utils.regression.targeting.TargetedPhraseChanger property) (medcat.utils.regression.targeting.TargetPlaceholder property) (medcat.utils.usage_monitoring.UsageMonitorConfig property) __fields_set__ (medcat.cat.Config property) (medcat.cdb.cdb.Config property) (medcat.components.addons.addons.ComponentConfig property) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT property) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig property) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT property) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT property) (medcat.components.addons.meta_cat.models.ConfigMetaCAT property) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT property) (medcat.components.addons.relation_extraction.models.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig property) (medcat.components.addons.relation_extraction.rel_cat.Config property) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT property) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT property) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig property) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT property) (medcat.components.linking.context_based_linker.ComponentConfig property) (medcat.components.linking.context_based_linker.Config property) (medcat.components.linking.no_action_linker.ComponentConfig property) (medcat.components.linking.two_step_context_based_linker.ComponentConfig property) (medcat.components.linking.two_step_context_based_linker.Config property) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel property) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig property) (medcat.components.linking.vector_context_model.Linking property) (medcat.components.ner.dict_based_ner.ComponentConfig property) (medcat.components.ner.trf.deid.ConfigTransformersNER property) (medcat.components.ner.trf.helpers.Config property) (medcat.components.ner.trf.model.Config property) (medcat.components.ner.trf.transformers_ner.ComponentConfig property) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER property) (medcat.components.ner.vocab_based_annotator.Config property) (medcat.components.ner.vocab_based_ner.ComponentConfig property) (medcat.components.normalizing.normalizer.ComponentConfig property) (medcat.components.normalizing.normalizer.Config property) (medcat.components.tagging.tagger.ComponentConfig property) (medcat.components.tagging.tagger.Preprocessing property) (medcat.components.types.ComponentConfig property) (medcat.config.Config property) (medcat.config.config.AnnotationOutput property) (medcat.config.config.CDBMaker property) (medcat.config.config.ComponentConfig property) (medcat.config.config.Components property) (medcat.config.config.Config property) (medcat.config.config.DirtiableBaseModel property) (medcat.config.config.Environment property) (medcat.config.config.General property) (medcat.config.config.Linking property) (medcat.config.config.LinkingFilters property) (medcat.config.config.ModelMeta property) (medcat.config.config.Ner property) (medcat.config.config.NLPConfig property) (medcat.config.config.Preprocessing property) (medcat.config.config.SerialisableBaseModel property) (medcat.config.config.TrainingDescriptor property) (medcat.config.config.UsageMonitor property) (medcat.config.config_meta_cat.ComponentConfig property) (medcat.config.config_meta_cat.ConfigMetaCAT property) (medcat.config.config_meta_cat.DirtiableBaseModel property) (medcat.config.config_meta_cat.General property) (medcat.config.config_meta_cat.Model property) (medcat.config.config_meta_cat.Train property) (medcat.config.config_rel_cat.ComponentConfig property) (medcat.config.config_rel_cat.ConfigRelCAT property) (medcat.config.config_rel_cat.General property) (medcat.config.config_rel_cat.Model property) (medcat.config.config_rel_cat.SerialisableBaseModel property) (medcat.config.config_rel_cat.Train property) (medcat.config.config_transformers_ner.ConfigTransformersNER property) (medcat.config.config_transformers_ner.General property) (medcat.config.config_transformers_ner.SerialisableBaseModel property) (medcat.model_creation.cdb_maker.Config property) (medcat.pipeline.pipeline.ComponentConfig property) (medcat.pipeline.pipeline.Config property) (medcat.pipeline.pipeline.ConfigMetaCAT property) (medcat.pipeline.pipeline.ConfigRelCAT property) (medcat.stats.kfold.PerCUIMetrics property) (medcat.stats.stats.LinkingFilters property) (medcat.tokenizing.regex_impl.tokenizer.Config property) (medcat.tokenizing.spacy_impl.tokenizers.Config property) (medcat.tokenizing.tokenizers.Config property) (medcat.trainer.CDBMaker property) (medcat.trainer.General property) (medcat.trainer.Preprocessing property) (medcat.utils.cdb_state.ModelMeta property) (medcat.utils.envsnapshot.Environment property) (medcat.utils.filters.LinkingFilters property) (medcat.utils.legacy.convert_cdb.Config property) (medcat.utils.legacy.convert_config.Config property) (medcat.utils.legacy.convert_deid.ConfigTransformersNER property) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT property) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT property) (medcat.utils.regression.checking.FinalTarget property) (medcat.utils.regression.checking.MetaData property) (medcat.utils.regression.checking.MultiDescriptor property) (medcat.utils.regression.checking.OptionSet property) (medcat.utils.regression.checking.RegressionCase property) (medcat.utils.regression.checking.ResultDescriptor property) (medcat.utils.regression.checking.TargetedPhraseChanger property) (medcat.utils.regression.results.FinalTarget property) (medcat.utils.regression.results.MultiDescriptor property) (medcat.utils.regression.results.ResultDescriptor property) (medcat.utils.regression.results.SingleResultDescriptor property) (medcat.utils.regression.targeting.FinalTarget property) (medcat.utils.regression.targeting.OptionSet property) (medcat.utils.regression.targeting.PhraseChanger property) (medcat.utils.regression.targeting.TargetedPhraseChanger property) (medcat.utils.regression.targeting.TargetPlaceholder property) (medcat.utils.usage_monitoring.UsageMonitorConfig property) __format__() (medcat.cat.AvailableSerialisers method) (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.AvailableSerialisers method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.meta_cat.MisconfiguredMetaCATException method) 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(medcat.components.ner.dict_based_ner.CoreComponentType method) (medcat.components.ner.trf.deid.CoreComponentType method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.CoreComponentType method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.components.ner.trf.transformers_ner.AvailableSerialisers method) (medcat.components.ner.trf.transformers_ner.CoreComponentType method) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy method) (medcat.components.ner.vocab_based_ner.CoreComponentType method) (medcat.components.normalizing.normalizer.CoreComponentType method) (medcat.components.tagging.tagger.CoreComponentType method) (medcat.components.types.CoreComponentType method) (medcat.components.types.MedCATRegistryException method) (medcat.config.config.IncorrectConfigValues method) (medcat.config.config.SerialisingStrategy method) 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method) (medcat.utils.regression.checking.RegressionCase class method) (medcat.utils.regression.checking.ResultDescriptor class method) (medcat.utils.regression.checking.TargetedPhraseChanger class method) (medcat.utils.regression.results.FinalTarget class method) (medcat.utils.regression.results.MultiDescriptor class method) (medcat.utils.regression.results.ResultDescriptor class method) (medcat.utils.regression.results.SingleResultDescriptor class method) (medcat.utils.regression.targeting.FinalTarget class method) (medcat.utils.regression.targeting.OptionSet class method) (medcat.utils.regression.targeting.PhraseChanger class method) (medcat.utils.regression.targeting.TargetedPhraseChanger class method) (medcat.utils.regression.targeting.TargetPlaceholder class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method) __get_pydantic_json_schema__() (medcat.cat.Config class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.ComponentConfig 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(medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.FinalTarget method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.targeting.OptionSet method) (medcat.utils.regression.targeting.PhraseChanger method) (medcat.utils.regression.targeting.TargetedPhraseChanger method) (medcat.utils.regression.targeting.TargetPlaceholder method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) (medcat.utils.usage_monitoring.UsageMonitorConfig method) __le__() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) 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(medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute) (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General 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(medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __private_attributes__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) 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attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute), [1] (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) 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(medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __pydantic_complete__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) 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(medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute), [1] (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute), [1] (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __pydantic_core_schema__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute), [1] (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute), [1] (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute), [1] (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __pydantic_custom_init__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute), [1] (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute), [1] (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute), [1] (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __pydantic_decorators__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute), [1] (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute), [1] (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute), [1] (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __pydantic_extra__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute), [1] (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute), [1] (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute), [1] (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) 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(medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute), [1] (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute), [1] (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute), [1] (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __pydantic_post_init__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute), [1] (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute), [1] (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute), [1] (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute)

__pydantic_private__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute), [1] (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute), [1] (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute), [1] (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __pydantic_root_model__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute), [1] (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute), [1] (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute), [1] (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __pydantic_serializer__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute), [1] (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute), [1] (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute), [1] (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __pydantic_validator__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute), [1] (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute), [1] (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute), [1] (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __reduce__() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.meta_cat.MisconfiguredMetaCATException method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.components.types.MedCATRegistryException method) (medcat.config.config.IncorrectConfigValues method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.model_creation.preprocess_snomed.UnkownSnomedReleaseException method) (medcat.pipeline.pipeline.IncorrectAddonLoaded method) (medcat.pipeline.pipeline.IncorrectArgumentsForComponent method) (medcat.pipeline.pipeline.IncorrectArgumentsForTokenizer method) (medcat.pipeline.pipeline.IncorrectCoreComponent method) (medcat.pipeline.pipeline.IncorrectFolderUponLoad method) (medcat.pipeline.pipeline.UnkownAddonConfig method) (medcat.preprocessors.cleaners.UnknownTokenVersion method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.storage.schema.IllegalSchemaException method) (medcat.storage.serialisers.IllegalSchemaException method) (medcat.storage.serialisers.RemappingUnpickler method) (medcat.tokenizing.regex_impl.tokenizer.UnregisteredDataPathException method) (medcat.tokenizing.spacy_impl.tokens.UnregisteredDataPathException method) (medcat.tokenizing.tokens.UnregisteredDataPathException method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.config_utils.IllegalConfigPathException method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.IncorrectExtraComponent method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.import_utils.MissingDependenciesError method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) (medcat.utils.registry.MedCATRegistryException method) (medcat.utils.regression.checking.MalformedRegressionCaseException method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.results.MalformedFinding method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.targeting.ProblematicOptionSetException method) (medcat.utils.regression.utils.IncompatiblePhraseException method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) __reduce_ex__() (medcat.cat.AvailableSerialisers method) (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.AvailableSerialisers method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.meta_cat.MisconfiguredMetaCATException method) (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.CoreComponentType method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.no_action_linker.CoreComponentType method) (medcat.components.linking.two_step_context_based_linker.CoreComponentType method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.dict_based_ner.CoreComponentType method) (medcat.components.ner.trf.deid.CoreComponentType method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.CoreComponentType method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.components.ner.trf.transformers_ner.AvailableSerialisers method) (medcat.components.ner.trf.transformers_ner.CoreComponentType method) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy method) (medcat.components.ner.vocab_based_ner.CoreComponentType method) (medcat.components.normalizing.normalizer.CoreComponentType method) (medcat.components.tagging.tagger.CoreComponentType method) (medcat.components.types.CoreComponentType method) (medcat.components.types.MedCATRegistryException method) (medcat.config.config.IncorrectConfigValues method) (medcat.config.config.SerialisingStrategy method) (medcat.config.config_meta_cat.AvailableSerialisers method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.model_creation.preprocess_snomed.RefSetFileType method) (medcat.model_creation.preprocess_snomed.SupportedBundles method) (medcat.model_creation.preprocess_snomed.SupportedExtension method) (medcat.model_creation.preprocess_snomed.UnkownSnomedReleaseException method) (medcat.pipeline.pipeline.AvailableSerialisers method) (medcat.pipeline.pipeline.CoreComponentType method) (medcat.pipeline.pipeline.IncorrectAddonLoaded method) (medcat.pipeline.pipeline.IncorrectArgumentsForComponent method) (medcat.pipeline.pipeline.IncorrectArgumentsForTokenizer method) (medcat.pipeline.pipeline.IncorrectCoreComponent method) (medcat.pipeline.pipeline.IncorrectFolderUponLoad method) (medcat.pipeline.pipeline.UnkownAddonConfig method) (medcat.preprocessors.cleaners.UnknownTokenVersion method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.kfold.SplitType method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.storage.jsonserialiser.AvailableSerialisers method) (medcat.storage.schema.IllegalSchemaException method) (medcat.storage.serialisables.SerialisingStrategy method) (medcat.storage.serialisers.AvailableSerialisers method) (medcat.storage.serialisers.IllegalSchemaException method) (medcat.storage.serialisers.RemappingUnpickler method) (medcat.tokenizing.regex_impl.tokenizer.UnregisteredDataPathException method) (medcat.tokenizing.spacy_impl.tokens.UnregisteredDataPathException method) (medcat.tokenizing.tokens.UnregisteredDataPathException method) (medcat.trainer.CoreComponentType method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.config_utils.IllegalConfigPathException method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.IncorrectExtraComponent method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.import_utils.MissingDependenciesError method) (medcat.utils.legacy.conversion_all.AvailableSerialisers method) (medcat.utils.legacy.conversion_all.CoreComponentType method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.legacy_converter.AvailableSerialisers method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) (medcat.utils.registry.MedCATRegistryException method) (medcat.utils.regression.checking.Finding method) (medcat.utils.regression.checking.MalformedRegressionCaseException method) (medcat.utils.regression.regression_checker.Finding method) (medcat.utils.regression.regression_checker.Strictness method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.results.Finding method) (medcat.utils.regression.results.MalformedFinding method) (medcat.utils.regression.results.Strictness method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.targeting.ProblematicOptionSetException method) (medcat.utils.regression.utils.IncompatiblePhraseException method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) (medcat.vocab.AvailableSerialisers method) __repr__() (medcat.cat.AvailableSerialisers method) (medcat.cat.Config method) (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.AvailableSerialisers method) (medcat.cdb.cdb.Config method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.addons.ComponentConfig method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT method) 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(medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute) (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute) (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute) (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __repr_str__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute) (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute) (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute) (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __reversed__ (medcat.components.linking.two_step_context_based_linker.PerEntityWeights attribute) __reversed__() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) __rich_repr__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute) (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute) (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute) (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __ror__() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.regression.results.Entity method) 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method) (medcat.config.config.ComponentConfig method) (medcat.config.config.DirtiableBaseModel method) (medcat.config.config.IncorrectConfigValues method) (medcat.config.config.Linking method) (medcat.config.config.Ner method) (medcat.config.config_meta_cat.ComponentConfig method) (medcat.config.config_meta_cat.ConfigMetaCAT method) (medcat.config.config_meta_cat.DirtiableBaseModel method) (medcat.config.config_meta_cat.General method) (medcat.config.config_meta_cat.Model method) (medcat.config.config_meta_cat.Train method) (medcat.config.config_rel_cat.ComponentConfig method) (medcat.config.config_rel_cat.ConfigRelCAT method) (medcat.config.config_rel_cat.General method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.model_creation.preprocess_snomed.UnkownSnomedReleaseException method) (medcat.pipeline.pipeline.ComponentConfig method) (medcat.pipeline.pipeline.ConfigMetaCAT method) (medcat.pipeline.pipeline.ConfigRelCAT method) (medcat.pipeline.pipeline.IncorrectAddonLoaded method) (medcat.pipeline.pipeline.IncorrectArgumentsForComponent method) (medcat.pipeline.pipeline.IncorrectArgumentsForTokenizer method) (medcat.pipeline.pipeline.IncorrectCoreComponent method) (medcat.pipeline.pipeline.IncorrectFolderUponLoad method) (medcat.pipeline.pipeline.UnkownAddonConfig method) (medcat.preprocessors.cleaners.UnknownTokenVersion method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.storage.schema.IllegalSchemaException method) (medcat.storage.serialisers.IllegalSchemaException method) (medcat.storage.serialisers.RemappingUnpickler method) (medcat.tokenizing.regex_impl.tokenizer.UnregisteredDataPathException method) (medcat.tokenizing.spacy_impl.tokens.UnregisteredDataPathException method) (medcat.tokenizing.tokens.UnregisteredDataPathException method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.config_utils.IllegalConfigPathException method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.IncorrectExtraComponent method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.import_utils.MissingDependenciesError method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) (medcat.utils.registry.MedCATRegistryException method) (medcat.utils.regression.checking.MalformedRegressionCaseException method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.results.MalformedFinding method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.targeting.ProblematicOptionSetException method) (medcat.utils.regression.utils.IncompatiblePhraseException method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) __setitem__() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.PerEntityWeights method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) __setstate__() (medcat.cat.Config method) (medcat.cdb.cdb.Config method) (medcat.components.addons.addons.ComponentConfig method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.MisconfiguredMetaCATException method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT method) (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig method) (medcat.components.addons.relation_extraction.rel_cat.Config method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT method) (medcat.components.linking.context_based_linker.ComponentConfig method) (medcat.components.linking.context_based_linker.Config method) (medcat.components.linking.no_action_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.Config method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig method) (medcat.components.linking.vector_context_model.Linking method) (medcat.components.ner.dict_based_ner.ComponentConfig method) (medcat.components.ner.trf.deid.ConfigTransformersNER method) (medcat.components.ner.trf.helpers.Config method) (medcat.components.ner.trf.model.Config method) (medcat.components.ner.trf.transformers_ner.ComponentConfig method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER method) (medcat.components.ner.vocab_based_annotator.Config method) (medcat.components.ner.vocab_based_ner.ComponentConfig method) (medcat.components.normalizing.normalizer.ComponentConfig method) (medcat.components.normalizing.normalizer.Config method) (medcat.components.tagging.tagger.ComponentConfig method) (medcat.components.tagging.tagger.Preprocessing method) (medcat.components.types.ComponentConfig method) (medcat.components.types.MedCATRegistryException method) (medcat.config.Config method) (medcat.config.config.AnnotationOutput method) 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method) (medcat.utils.config_utils.IllegalConfigPathException method) (medcat.utils.envsnapshot.Environment method) (medcat.utils.filters.LinkingFilters method) (medcat.utils.import_utils.IncorrectExtraComponent method) (medcat.utils.import_utils.MissingDependenciesError method) (medcat.utils.legacy.convert_cdb.Config method) (medcat.utils.legacy.convert_config.Config method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT method) (medcat.utils.registry.MedCATRegistryException method) (medcat.utils.regression.checking.FinalTarget method) (medcat.utils.regression.checking.MalformedRegressionCaseException method) (medcat.utils.regression.checking.MetaData method) (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.checking.OptionSet method) (medcat.utils.regression.checking.RegressionCase method) (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.checking.TargetedPhraseChanger method) (medcat.utils.regression.results.FinalTarget method) (medcat.utils.regression.results.MalformedFinding method) (medcat.utils.regression.results.MultiDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) (medcat.utils.regression.results.SingleResultDescriptor method) (medcat.utils.regression.targeting.FinalTarget method) (medcat.utils.regression.targeting.OptionSet method) (medcat.utils.regression.targeting.PhraseChanger method) (medcat.utils.regression.targeting.ProblematicOptionSetException method) (medcat.utils.regression.targeting.TargetedPhraseChanger method) (medcat.utils.regression.targeting.TargetPlaceholder method) (medcat.utils.regression.utils.IncompatiblePhraseException method) (medcat.utils.usage_monitoring.UsageMonitorConfig method) __signature__ (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute), [1] (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute), [1] (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute), [1] (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __sizeof__() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.meta_cat.MisconfiguredMetaCATException method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.components.types.MedCATRegistryException method) (medcat.config.config.IncorrectConfigValues method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.model_creation.preprocess_snomed.UnkownSnomedReleaseException method) (medcat.pipeline.pipeline.IncorrectAddonLoaded method) (medcat.pipeline.pipeline.IncorrectArgumentsForComponent method) (medcat.pipeline.pipeline.IncorrectArgumentsForTokenizer method) (medcat.pipeline.pipeline.IncorrectCoreComponent method) (medcat.pipeline.pipeline.IncorrectFolderUponLoad method) (medcat.pipeline.pipeline.UnkownAddonConfig method) (medcat.preprocessors.cleaners.UnknownTokenVersion method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.storage.schema.IllegalSchemaException method) (medcat.storage.serialisers.IllegalSchemaException method) (medcat.storage.serialisers.RemappingUnpickler method) (medcat.tokenizing.regex_impl.tokenizer.UnregisteredDataPathException method) (medcat.tokenizing.spacy_impl.tokens.UnregisteredDataPathException method) (medcat.tokenizing.tokens.UnregisteredDataPathException method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.config_utils.IllegalConfigPathException method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.IncorrectExtraComponent method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.import_utils.MissingDependenciesError method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) (medcat.utils.registry.MedCATRegistryException method) (medcat.utils.regression.checking.MalformedRegressionCaseException method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.results.MalformedFinding method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.targeting.ProblematicOptionSetException method) (medcat.utils.regression.utils.IncompatiblePhraseException method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) __slots__ (medcat.cat.AbstractCoreComponent attribute) (medcat.cat.AddonComponent attribute) (medcat.cat.Config attribute) (medcat.cat.HashableComponet attribute) (medcat.cat.MutableDocument attribute) (medcat.cat.MutableEntity attribute) (medcat.cat.SaveableTokenizer attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.AddonComponent attribute) (medcat.components.addons.addons.BaseComponent attribute) (medcat.components.addons.addons.BaseTokenizer attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.addons.MutableEntity attribute) (medcat.components.addons.addons.Registry attribute) (medcat.components.addons.meta_cat.data_utils.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBPE attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.meta_cat.AddonComponent attribute) (medcat.components.addons.meta_cat.meta_cat.BaseTokenizer attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon attribute) (medcat.components.addons.meta_cat.meta_cat.MutableDocument attribute) (medcat.components.addons.meta_cat.meta_cat.MutableEntity attribute) (medcat.components.addons.meta_cat.meta_cat.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.MetaCATAddon attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent attribute) (medcat.components.addons.relation_extraction.rel_cat.BalancedBatchSampler attribute) (medcat.components.addons.relation_extraction.rel_cat.BaseTokenizer attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.MutableDocument attribute) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon attribute) (medcat.components.addons.relation_extraction.rel_cat.RelData attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.rel_dataset.MutableDocument attribute) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity attribute) (medcat.components.addons.relation_extraction.rel_dataset.RelData attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.AbstractCoreComponent attribute) (medcat.components.linking.context_based_linker.BaseTokenizer attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.context_based_linker.Linker attribute) (medcat.components.linking.context_based_linker.MutableDocument attribute) (medcat.components.linking.context_based_linker.MutableEntity attribute) (medcat.components.linking.no_action_linker.AbstractCoreComponent attribute) (medcat.components.linking.no_action_linker.BaseTokenizer attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.no_action_linker.MutableDocument attribute) (medcat.components.linking.no_action_linker.NoActionLinker attribute) (medcat.components.linking.two_step_context_based_linker.AbstractCoreComponent attribute) (medcat.components.linking.two_step_context_based_linker.BaseTokenizer attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.MutableDocument attribute) (medcat.components.linking.two_step_context_based_linker.MutableEntity attribute) (medcat.components.linking.two_step_context_based_linker.NormalLinker attribute) (medcat.components.linking.two_step_context_based_linker.PerEntityWeights attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.DisambPreprocessor attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.linking.vector_context_model.MutableDocument attribute) (medcat.components.linking.vector_context_model.MutableEntity attribute) (medcat.components.linking.vector_context_model.MutableToken attribute) (medcat.components.ner.dict_based_ner.AbstractCoreComponent attribute) (medcat.components.ner.dict_based_ner.BaseTokenizer attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.dict_based_ner.MutableDocument attribute) (medcat.components.ner.dict_based_ner.NER attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.deid.TransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.model.MutableDocument attribute) (medcat.components.ner.trf.model.TransformersNER attribute) (medcat.components.ner.trf.transformers_ner.AbstractCoreComponent attribute) (medcat.components.ner.trf.transformers_ner.BaseTokenizer attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.trf.transformers_ner.MutableDocument attribute) (medcat.components.ner.trf.transformers_ner.MutableEntity attribute) (medcat.components.ner.trf.transformers_ner.TransformersNER attribute) (medcat.components.ner.vocab_based_annotator.BaseTokenizer attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_annotator.MutableDocument attribute) (medcat.components.ner.vocab_based_annotator.MutableEntity attribute) (medcat.components.ner.vocab_based_annotator.MutableToken attribute) (medcat.components.ner.vocab_based_ner.AbstractCoreComponent attribute) (medcat.components.ner.vocab_based_ner.BaseTokenizer attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.ner.vocab_based_ner.MutableDocument attribute) (medcat.components.ner.vocab_based_ner.NER attribute) (medcat.components.normalizing.normalizer.AbstractCoreComponent attribute) (medcat.components.normalizing.normalizer.BaseTokenizer attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.normalizing.normalizer.MutableDocument attribute) (medcat.components.normalizing.normalizer.TokenNormalizer attribute) (medcat.components.tagging.tagger.AbstractCoreComponent attribute) (medcat.components.tagging.tagger.BaseTokenizer attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.MutableDocument attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.tagging.tagger.TagAndSkipTagger attribute) (medcat.components.types.AbstractCoreComponent attribute) (medcat.components.types.BaseComponent attribute) (medcat.components.types.BaseTokenizer attribute) (medcat.components.types.ComponentConfig attribute) (medcat.components.types.CoreComponent attribute) (medcat.components.types.HashableComponet attribute) (medcat.components.types.MutableDocument attribute) (medcat.components.types.MutableEntity attribute) (medcat.components.types.Registry attribute) (medcat.components.types.TrainableComponent attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute) (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.PotentiallyDirty attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.AbstractCoreComponent attribute) (medcat.pipeline.pipeline.AddonComponent attribute) (medcat.pipeline.pipeline.BaseComponent attribute) (medcat.pipeline.pipeline.BaseTokenizer attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.pipeline.pipeline.CoreComponent attribute) (medcat.pipeline.pipeline.DelegatingTokenizer attribute) (medcat.pipeline.pipeline.MutableDocument attribute) (medcat.pipeline.pipeline.MutableEntity attribute) (medcat.pipeline.pipeline.MutableToken attribute) (medcat.pipeline.pipeline.Serialisable attribute) (medcat.preprocessors.cleaners.BaseTokenizer attribute) (medcat.preprocessors.cleaners.LCDBMaker attribute) (medcat.preprocessors.cleaners.LGeneral attribute) (medcat.preprocessors.cleaners.LPreprocessing attribute) (medcat.preprocessors.cleaners.MutableDocument attribute) (medcat.stats.kfold.FoldCreator attribute) (medcat.stats.kfold.PerAnnsFoldCreator attribute) (medcat.stats.kfold.PerCUIMetrics attribute) (medcat.stats.kfold.PerDocsFoldCreator attribute) (medcat.stats.kfold.SimpleFoldCreator attribute) (medcat.stats.kfold.WeightedDocumentsCreator attribute) (medcat.stats.stats.LinkingFilters attribute) (medcat.stats.stats.MutableDocument attribute) (medcat.stats.stats.MutableEntity attribute) (medcat.storage.jsonserialiser.DataClassHandler attribute) (medcat.storage.jsonserialiser.DateTimeHandler attribute) (medcat.storage.jsonserialiser.JsonSerialiser attribute) (medcat.storage.jsonserialiser.NumpyArrayHandler attribute) (medcat.storage.jsonserialiser.Serialiser attribute) (medcat.storage.jsonserialiser.SetHandler attribute) (medcat.storage.jsonserialiser.TypeBasedHandler attribute) (medcat.storage.jsonserialiser.TypeHandler attribute) (medcat.storage.serialisables.ManualSerialisable attribute) (medcat.storage.serialisables.Serialisable attribute) (medcat.storage.serialisers.DillSerialiser attribute) (medcat.storage.serialisers.ManualSerialisable attribute) (medcat.storage.serialisers.Serialisable attribute) (medcat.storage.serialisers.Serialiser attribute) (medcat.tokenizing.regex_impl.tokenizer.BaseDocument attribute) (medcat.tokenizing.regex_impl.tokenizer.BaseEntity attribute) (medcat.tokenizing.regex_impl.tokenizer.BaseToken attribute) (medcat.tokenizing.regex_impl.tokenizer.BaseTokenizer attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableDocument attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableToken attribute) (medcat.tokenizing.regex_impl.tokenizer.RegexTokenizer attribute) (medcat.tokenizing.spacy_impl.tokenizers.BaseTokenizer attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableDocument attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableToken attribute) (medcat.tokenizing.spacy_impl.tokenizers.SpacyTokenizer attribute) (medcat.tokenizing.spacy_impl.tokens.BaseDocument attribute) (medcat.tokenizing.spacy_impl.tokens.BaseEntity attribute) (medcat.tokenizing.spacy_impl.tokens.BaseToken attribute) (medcat.tokenizing.spacy_impl.tokens.MutableEntity attribute) (medcat.tokenizing.spacy_impl.tokens.MutableToken attribute) (medcat.tokenizing.tokenizers.BaseTokenizer attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.MutableDocument attribute) (medcat.tokenizing.tokenizers.MutableEntity attribute) (medcat.tokenizing.tokenizers.MutableToken attribute) (medcat.tokenizing.tokenizers.Registry attribute) (medcat.tokenizing.tokenizers.SaveableTokenizer attribute) (medcat.tokenizing.tokens.BaseDocument attribute) (medcat.tokenizing.tokens.BaseEntity attribute) (medcat.tokenizing.tokens.BaseToken attribute) (medcat.tokenizing.tokens.MutableDocument attribute) (medcat.tokenizing.tokens.MutableEntity attribute) (medcat.tokenizing.tokens.MutableToken attribute) (medcat.trainer.AddonComponent attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.MutableDocument attribute) (medcat.trainer.MutableEntity attribute) (medcat.trainer.MutableToken attribute) (medcat.trainer.Preprocessing attribute) (medcat.trainer.TrainableComponent attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.data_utils.MutableDocument attribute) (medcat.utils.data_utils.MutableEntity attribute) (medcat.utils.envsnapshot.Environment attribute) (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.conversion_all.NoActionLinker attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.BaseTokenizer attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_deid.TransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.BaseTokenizer attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon attribute) (medcat.utils.legacy.convert_meta_cat.TokenizerWrapperBase attribute) (medcat.utils.legacy.convert_rel_cat.BaseTokenizer attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.legacy.convert_rel_cat.RelCATAddon attribute) (medcat.utils.postprocessing.MutableDocument attribute) (medcat.utils.postprocessing.MutableEntity attribute) (medcat.utils.registry.Registry attribute) (medcat.utils.regression.checking.EditGetter attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.regression.utils.EditGetter attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) __str__() (medcat.cat.AvailableSerialisers method) (medcat.cat.Config method) (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.AvailableSerialisers method) (medcat.cdb.cdb.Config method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.addons.ComponentConfig method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.meta_cat.MisconfiguredMetaCATException method) (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig method) (medcat.components.addons.relation_extraction.rel_cat.Config method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT method) (medcat.components.linking.context_based_linker.ComponentConfig method) (medcat.components.linking.context_based_linker.Config method) (medcat.components.linking.context_based_linker.CoreComponentType method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.no_action_linker.ComponentConfig method) (medcat.components.linking.no_action_linker.CoreComponentType method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.Config method) (medcat.components.linking.two_step_context_based_linker.CoreComponentType method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.Linking method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.dict_based_ner.ComponentConfig method) (medcat.components.ner.dict_based_ner.CoreComponentType method) (medcat.components.ner.trf.deid.ConfigTransformersNER method) (medcat.components.ner.trf.deid.CoreComponentType method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.helpers.Config method) (medcat.components.ner.trf.model.Config method) (medcat.components.ner.trf.model.CoreComponentType method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.components.ner.trf.transformers_ner.AvailableSerialisers method) (medcat.components.ner.trf.transformers_ner.ComponentConfig method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER method) (medcat.components.ner.trf.transformers_ner.CoreComponentType method) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy method) (medcat.components.ner.vocab_based_annotator.Config method) (medcat.components.ner.vocab_based_ner.ComponentConfig method) (medcat.components.ner.vocab_based_ner.CoreComponentType method) (medcat.components.normalizing.normalizer.ComponentConfig method) (medcat.components.normalizing.normalizer.Config method) (medcat.components.normalizing.normalizer.CoreComponentType method) (medcat.components.tagging.tagger.ComponentConfig method) (medcat.components.tagging.tagger.CoreComponentType method) (medcat.components.tagging.tagger.Preprocessing method) (medcat.components.types.ComponentConfig method) (medcat.components.types.CoreComponentType method) (medcat.components.types.MedCATRegistryException method) (medcat.config.Config method) (medcat.config.config.AnnotationOutput method) (medcat.config.config.CDBMaker method) (medcat.config.config.ComponentConfig method) (medcat.config.config.Components method) (medcat.config.config.Config method) (medcat.config.config.DirtiableBaseModel method) (medcat.config.config.Environment method) (medcat.config.config.General method) (medcat.config.config.IncorrectConfigValues method) (medcat.config.config.Linking method) (medcat.config.config.LinkingFilters method) (medcat.config.config.ModelMeta method) (medcat.config.config.Ner method) (medcat.config.config.NLPConfig method) (medcat.config.config.Preprocessing method) (medcat.config.config.SerialisableBaseModel method) (medcat.config.config.SerialisingStrategy method) (medcat.config.config.TrainingDescriptor method) (medcat.config.config.UsageMonitor method) (medcat.config.config_meta_cat.AvailableSerialisers method) (medcat.config.config_meta_cat.ComponentConfig method) (medcat.config.config_meta_cat.ConfigMetaCAT method) (medcat.config.config_meta_cat.DirtiableBaseModel method) (medcat.config.config_meta_cat.General method) (medcat.config.config_meta_cat.Model method) (medcat.config.config_meta_cat.Train method) (medcat.config.config_rel_cat.ComponentConfig method) (medcat.config.config_rel_cat.ConfigRelCAT method) (medcat.config.config_rel_cat.General method) (medcat.config.config_rel_cat.Model method) (medcat.config.config_rel_cat.SerialisableBaseModel method) (medcat.config.config_rel_cat.Train method) (medcat.config.config_transformers_ner.ConfigTransformersNER method) (medcat.config.config_transformers_ner.General method) (medcat.config.config_transformers_ner.SerialisableBaseModel method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.model_creation.cdb_maker.Config method) (medcat.model_creation.preprocess_snomed.RefSetFileType method) (medcat.model_creation.preprocess_snomed.SupportedBundles method) (medcat.model_creation.preprocess_snomed.SupportedExtension method) (medcat.model_creation.preprocess_snomed.UnkownSnomedReleaseException method) (medcat.pipeline.pipeline.AvailableSerialisers method) (medcat.pipeline.pipeline.ComponentConfig method) (medcat.pipeline.pipeline.Config method) (medcat.pipeline.pipeline.ConfigMetaCAT method) (medcat.pipeline.pipeline.ConfigRelCAT method) (medcat.pipeline.pipeline.CoreComponentType method) (medcat.pipeline.pipeline.IncorrectAddonLoaded method) (medcat.pipeline.pipeline.IncorrectArgumentsForComponent method) (medcat.pipeline.pipeline.IncorrectArgumentsForTokenizer method) (medcat.pipeline.pipeline.IncorrectCoreComponent method) (medcat.pipeline.pipeline.IncorrectFolderUponLoad method) (medcat.pipeline.pipeline.UnkownAddonConfig method) (medcat.preprocessors.cleaners.UnknownTokenVersion method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.kfold.PerCUIMetrics method) (medcat.stats.kfold.SplitType method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.LinkingFilters method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.storage.jsonserialiser.AvailableSerialisers method) (medcat.storage.schema.IllegalSchemaException method) (medcat.storage.serialisables.SerialisingStrategy method) (medcat.storage.serialisers.AvailableSerialisers method) (medcat.storage.serialisers.IllegalSchemaException method) (medcat.storage.serialisers.RemappingUnpickler method) (medcat.tokenizing.regex_impl.tokenizer.Config method) (medcat.tokenizing.regex_impl.tokenizer.Document method) (medcat.tokenizing.regex_impl.tokenizer.Entity method) (medcat.tokenizing.regex_impl.tokenizer.Token method) (medcat.tokenizing.regex_impl.tokenizer.UnregisteredDataPathException method) (medcat.tokenizing.spacy_impl.tokenizers.Config method) (medcat.tokenizing.spacy_impl.tokenizers.Document method) (medcat.tokenizing.spacy_impl.tokenizers.Entity method) (medcat.tokenizing.spacy_impl.tokenizers.Token method) (medcat.tokenizing.spacy_impl.tokens.Document method) (medcat.tokenizing.spacy_impl.tokens.Entity method) (medcat.tokenizing.spacy_impl.tokens.Token method) (medcat.tokenizing.spacy_impl.tokens.UnregisteredDataPathException method) (medcat.tokenizing.tokenizers.Config method) (medcat.tokenizing.tokens.UnregisteredDataPathException method) (medcat.trainer.CDBMaker method) (medcat.trainer.CoreComponentType method) (medcat.trainer.General method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.trainer.Preprocessing method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.ModelMeta method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.config_utils.IllegalConfigPathException method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.envsnapshot.Environment method) (medcat.utils.filters.LinkingFilters method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.IncorrectExtraComponent method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.import_utils.MissingDependenciesError method) (medcat.utils.legacy.conversion_all.AvailableSerialisers method) (medcat.utils.legacy.conversion_all.CoreComponentType method) (medcat.utils.legacy.convert_cdb.Config method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.convert_config.Config method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT method) (medcat.utils.legacy.legacy_converter.AvailableSerialisers method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) (medcat.utils.registry.MedCATRegistryException method) (medcat.utils.regression.checking.FinalTarget method) (medcat.utils.regression.checking.Finding method) (medcat.utils.regression.checking.MalformedRegressionCaseException method) (medcat.utils.regression.checking.MetaData method) (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.checking.OptionSet method) (medcat.utils.regression.checking.RegressionCase method) (medcat.utils.regression.checking.RegressionSuite method) (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.checking.TargetedPhraseChanger method) (medcat.utils.regression.regression_checker.Finding method) (medcat.utils.regression.regression_checker.RegressionSuite method) (medcat.utils.regression.regression_checker.Strictness method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.results.FinalTarget method) (medcat.utils.regression.results.Finding method) (medcat.utils.regression.results.MalformedFinding method) (medcat.utils.regression.results.MultiDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) (medcat.utils.regression.results.SingleResultDescriptor method) (medcat.utils.regression.results.Strictness method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.FinalTarget method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.targeting.OptionSet method) (medcat.utils.regression.targeting.PhraseChanger method) (medcat.utils.regression.targeting.ProblematicOptionSetException method) (medcat.utils.regression.targeting.TargetedPhraseChanger method) (medcat.utils.regression.targeting.TargetPlaceholder method) (medcat.utils.regression.utils.IncompatiblePhraseException method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) (medcat.utils.usage_monitoring.UsageMonitorConfig method) (medcat.vocab.AvailableSerialisers method) __subclasshook__() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.meta_cat.MisconfiguredMetaCATException method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.PerEntityWeights class method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.components.types.MedCATRegistryException method) (medcat.config.config.IncorrectConfigValues method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.model_creation.preprocess_snomed.UnkownSnomedReleaseException method) (medcat.pipeline.pipeline.IncorrectAddonLoaded method) (medcat.pipeline.pipeline.IncorrectArgumentsForComponent method) (medcat.pipeline.pipeline.IncorrectArgumentsForTokenizer method) (medcat.pipeline.pipeline.IncorrectCoreComponent method) (medcat.pipeline.pipeline.IncorrectFolderUponLoad method) (medcat.pipeline.pipeline.UnkownAddonConfig method) (medcat.preprocessors.cleaners.UnknownTokenVersion method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.storage.schema.IllegalSchemaException method) (medcat.storage.serialisers.IllegalSchemaException method) (medcat.tokenizing.regex_impl.tokenizer.UnregisteredDataPathException method) (medcat.tokenizing.spacy_impl.tokens.UnregisteredDataPathException method) (medcat.tokenizing.tokens.UnregisteredDataPathException method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.config_utils.IllegalConfigPathException method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.IncorrectExtraComponent method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.import_utils.MissingDependenciesError method) (medcat.utils.registry.MedCATRegistryException method) (medcat.utils.regression.checking.MalformedRegressionCaseException method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.results.MalformedFinding method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.targeting.ProblematicOptionSetException method) (medcat.utils.regression.utils.IncompatiblePhraseException method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) __version__ (in module medcat) _add_concept() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) _add_concept_names() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) _add_cui_info() (in module medcat.utils.legacy.convert_cdb) _add_full_build() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) _add_helper() (in module medcat.stats.kfold) _add_name_info() (in module medcat.utils.legacy.convert_cdb) _add_special_tokens (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) _add_target_ann() (medcat.stats.kfold.PerAnnsFoldCreator method) _add_tokens() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _add_weighted_helper() (in module medcat.stats.kfold) _addon_extension_paths (medcat.tokenizing.regex_impl.tokenizer.Document attribute) (medcat.tokenizing.regex_impl.tokenizer.Entity attribute) (medcat.tokenizing.spacy_impl.tokenizers.Document attribute) (medcat.tokenizing.spacy_impl.tokenizers.Entity attribute) (medcat.tokenizing.spacy_impl.tokens.Document attribute) (medcat.tokenizing.spacy_impl.tokens.Entity attribute) _ADDON_REGISTRY (in module medcat.components.addons.addons) _addons (medcat.cat.Pipeline attribute) (medcat.model_creation.cdb_maker.Pipeline attribute) (medcat.pipeline.pipeline.Pipeline attribute) (medcat.trainer.Pipeline attribute) _all_docs (medcat.stats.kfold.PerDocsFoldCreator attribute) _anno_within_pred_list() (in module medcat.utils.ner.metrics) _apply() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) _attn_implementation (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig property) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig property) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig property) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig property) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig property) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig property) _attn_implementation_autoset (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) _attn_implementation_internal (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) _auto_class (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) _backends (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) _backward_hooks (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _backward_pre_hooks (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _batch_encode_plus() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _buffers (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) (medcat.storage.serialisers.RemappingUnpickler attribute) (medcat.utils.legacy.convert_cdb.CustomUnpickler attribute) (medcat.utils.legacy.v2_beta.RemappingUnpickler attribute) _calculate_keys() (medcat.cat.Config method) (medcat.cdb.cdb.Config method) (medcat.components.addons.addons.ComponentConfig method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig method) (medcat.components.addons.relation_extraction.rel_cat.Config method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT method) (medcat.components.linking.context_based_linker.ComponentConfig method) (medcat.components.linking.context_based_linker.Config method) (medcat.components.linking.no_action_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.Config method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig method) (medcat.components.linking.vector_context_model.Linking method) (medcat.components.ner.dict_based_ner.ComponentConfig method) (medcat.components.ner.trf.deid.ConfigTransformersNER method) (medcat.components.ner.trf.helpers.Config method) (medcat.components.ner.trf.model.Config method) (medcat.components.ner.trf.transformers_ner.ComponentConfig method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER method) (medcat.components.ner.vocab_based_annotator.Config method) (medcat.components.ner.vocab_based_ner.ComponentConfig method) (medcat.components.normalizing.normalizer.ComponentConfig method) (medcat.components.normalizing.normalizer.Config method) (medcat.components.tagging.tagger.ComponentConfig method) (medcat.components.tagging.tagger.Preprocessing method) (medcat.components.types.ComponentConfig method) (medcat.config.Config method) (medcat.config.config.AnnotationOutput method) (medcat.config.config.CDBMaker method) (medcat.config.config.ComponentConfig method) (medcat.config.config.Components method) (medcat.config.config.Config method) (medcat.config.config.DirtiableBaseModel method) (medcat.config.config.Environment method) (medcat.config.config.General method) (medcat.config.config.Linking method) (medcat.config.config.LinkingFilters method) (medcat.config.config.ModelMeta method) (medcat.config.config.Ner method) (medcat.config.config.NLPConfig method) (medcat.config.config.Preprocessing method) (medcat.config.config.SerialisableBaseModel method) (medcat.config.config.TrainingDescriptor method) (medcat.config.config.UsageMonitor method) (medcat.config.config_meta_cat.ComponentConfig method) (medcat.config.config_meta_cat.ConfigMetaCAT method) (medcat.config.config_meta_cat.DirtiableBaseModel method) (medcat.config.config_meta_cat.General method) (medcat.config.config_meta_cat.Model method) (medcat.config.config_meta_cat.Train method) (medcat.config.config_rel_cat.ComponentConfig method) (medcat.config.config_rel_cat.ConfigRelCAT method) (medcat.config.config_rel_cat.General method) (medcat.config.config_rel_cat.Model method) (medcat.config.config_rel_cat.SerialisableBaseModel method) (medcat.config.config_rel_cat.Train method) (medcat.config.config_transformers_ner.ConfigTransformersNER method) (medcat.config.config_transformers_ner.General method) (medcat.config.config_transformers_ner.SerialisableBaseModel method) (medcat.model_creation.cdb_maker.Config method) (medcat.pipeline.pipeline.ComponentConfig method) (medcat.pipeline.pipeline.Config method) (medcat.pipeline.pipeline.ConfigMetaCAT method) (medcat.pipeline.pipeline.ConfigRelCAT method) (medcat.stats.kfold.PerCUIMetrics method) (medcat.stats.stats.LinkingFilters method) (medcat.tokenizing.regex_impl.tokenizer.Config method) (medcat.tokenizing.spacy_impl.tokenizers.Config method) (medcat.tokenizing.tokenizers.Config method) (medcat.trainer.CDBMaker method) (medcat.trainer.General method) (medcat.trainer.Preprocessing method) (medcat.utils.cdb_state.ModelMeta method) (medcat.utils.envsnapshot.Environment method) (medcat.utils.filters.LinkingFilters method) (medcat.utils.legacy.convert_cdb.Config method) (medcat.utils.legacy.convert_config.Config method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT method) (medcat.utils.regression.checking.FinalTarget method) (medcat.utils.regression.checking.MetaData method) (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.checking.OptionSet method) (medcat.utils.regression.checking.RegressionCase method) (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.checking.TargetedPhraseChanger method) (medcat.utils.regression.results.FinalTarget method) (medcat.utils.regression.results.MultiDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) (medcat.utils.regression.results.SingleResultDescriptor method) (medcat.utils.regression.targeting.FinalTarget method) (medcat.utils.regression.targeting.OptionSet method) (medcat.utils.regression.targeting.PhraseChanger method) (medcat.utils.regression.targeting.TargetedPhraseChanger method) (medcat.utils.regression.targeting.TargetPlaceholder method) (medcat.utils.usage_monitoring.UsageMonitorConfig method) _call_impl() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) _call_one() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _callback_iterator_iterable() (in module medcat.utils.iterutils) _check_children() (medcat.utils.regression.results.FindingDeterminer method) _check_frozen() (medcat.cat.Config method) (medcat.cdb.cdb.Config method) (medcat.components.addons.addons.ComponentConfig method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig method) (medcat.components.addons.relation_extraction.rel_cat.Config method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT method) (medcat.components.linking.context_based_linker.ComponentConfig method) (medcat.components.linking.context_based_linker.Config method) (medcat.components.linking.no_action_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.Config method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig method) (medcat.components.linking.vector_context_model.Linking method) (medcat.components.ner.dict_based_ner.ComponentConfig method) (medcat.components.ner.trf.deid.ConfigTransformersNER method) (medcat.components.ner.trf.helpers.Config method) (medcat.components.ner.trf.model.Config method) (medcat.components.ner.trf.transformers_ner.ComponentConfig method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER method) (medcat.components.ner.vocab_based_annotator.Config method) (medcat.components.ner.vocab_based_ner.ComponentConfig method) (medcat.components.normalizing.normalizer.ComponentConfig method) (medcat.components.normalizing.normalizer.Config method) (medcat.components.tagging.tagger.ComponentConfig method) (medcat.components.tagging.tagger.Preprocessing method) (medcat.components.types.ComponentConfig method) (medcat.config.Config method) (medcat.config.config.AnnotationOutput method) (medcat.config.config.CDBMaker method) (medcat.config.config.ComponentConfig method) (medcat.config.config.Components method) (medcat.config.config.Config method) (medcat.config.config.DirtiableBaseModel method) (medcat.config.config.Environment method) (medcat.config.config.General method) (medcat.config.config.Linking method) (medcat.config.config.LinkingFilters method) (medcat.config.config.ModelMeta method) (medcat.config.config.Ner method) (medcat.config.config.NLPConfig method) (medcat.config.config.Preprocessing method) (medcat.config.config.SerialisableBaseModel method) (medcat.config.config.TrainingDescriptor method) (medcat.config.config.UsageMonitor method) (medcat.config.config_meta_cat.ComponentConfig method) (medcat.config.config_meta_cat.ConfigMetaCAT method) (medcat.config.config_meta_cat.DirtiableBaseModel method) (medcat.config.config_meta_cat.General method) (medcat.config.config_meta_cat.Model method) (medcat.config.config_meta_cat.Train method) (medcat.config.config_rel_cat.ComponentConfig method) (medcat.config.config_rel_cat.ConfigRelCAT method) (medcat.config.config_rel_cat.General method) (medcat.config.config_rel_cat.Model method) (medcat.config.config_rel_cat.SerialisableBaseModel method) (medcat.config.config_rel_cat.Train method) (medcat.config.config_transformers_ner.ConfigTransformersNER method) (medcat.config.config_transformers_ner.General method) (medcat.config.config_transformers_ner.SerialisableBaseModel method) (medcat.model_creation.cdb_maker.Config method) (medcat.pipeline.pipeline.ComponentConfig method) (medcat.pipeline.pipeline.Config method) (medcat.pipeline.pipeline.ConfigMetaCAT method) (medcat.pipeline.pipeline.ConfigRelCAT method) (medcat.stats.kfold.PerCUIMetrics method) (medcat.stats.stats.LinkingFilters method) (medcat.tokenizing.regex_impl.tokenizer.Config method) (medcat.tokenizing.spacy_impl.tokenizers.Config method) (medcat.tokenizing.tokenizers.Config method) (medcat.trainer.CDBMaker method) (medcat.trainer.General method) (medcat.trainer.Preprocessing method) (medcat.utils.cdb_state.ModelMeta method) (medcat.utils.envsnapshot.Environment method) (medcat.utils.filters.LinkingFilters method) (medcat.utils.legacy.convert_cdb.Config method) (medcat.utils.legacy.convert_config.Config method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT method) (medcat.utils.regression.checking.FinalTarget method) (medcat.utils.regression.checking.MetaData method) (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.checking.OptionSet method) (medcat.utils.regression.checking.RegressionCase method) (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.checking.TargetedPhraseChanger method) (medcat.utils.regression.results.FinalTarget method) (medcat.utils.regression.results.MultiDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) (medcat.utils.regression.results.SingleResultDescriptor method) (medcat.utils.regression.targeting.FinalTarget method) (medcat.utils.regression.targeting.OptionSet method) (medcat.utils.regression.targeting.PhraseChanger method) (medcat.utils.regression.targeting.TargetedPhraseChanger method) (medcat.utils.regression.targeting.TargetPlaceholder method) (medcat.utils.usage_monitoring.UsageMonitorConfig method) _check_parents() (medcat.utils.regression.results.FindingDeterminer method) _check_path_and_release() (medcat.model_creation.preprocess_snomed.Snomed method) _check_similarity() (medcat.components.linking.context_based_linker.Linker method) (medcat.components.linking.two_step_context_based_linker.NormalLinker method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker method) _checked_children (medcat.utils.regression.results.FindingDeterminer attribute) _CITATION (in module medcat.utils.ner.transformers_ner) _CLASS_PATH (in module medcat.storage.schema) _clear_state() (in module medcat.utils.cdb_state) _cls2path() (in module medcat.storage.schema) _cls_key (medcat.storage.jsonserialiser.DataClassHandler attribute) _commit_hash (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) _compiled_call_impl (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _component (medcat.components.ner.trf.deid.TransformersNER attribute) (medcat.components.ner.trf.model.TransformersNER attribute) (medcat.components.ner.trf.transformers_ner.TransformersNER attribute) (medcat.utils.legacy.convert_deid.TransformersNER attribute) _component_lock (medcat.components.addons.meta_cat.meta_cat.MetaCAT attribute) (medcat.components.addons.meta_cat.MetaCAT attribute) (medcat.utils.legacy.convert_meta_cat.MetaCAT attribute) _components (medcat.cat.Pipeline attribute) (medcat.components.addons.addons.Registry attribute) (medcat.components.types.Registry attribute) (medcat.model_creation.cdb_maker.Pipeline attribute) (medcat.pipeline.pipeline.Pipeline attribute) (medcat.tokenizing.tokenizers.Registry attribute) (medcat.trainer.Pipeline attribute) (medcat.utils.registry.Registry attribute) _convert_encoding() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _convert_id_to_token() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _convert_token_to_id_with_added_voc() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _copy_and_set_values() (medcat.cat.Config method) (medcat.cdb.cdb.Config method) (medcat.components.addons.addons.ComponentConfig method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig method) (medcat.components.addons.relation_extraction.rel_cat.Config method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT method) (medcat.components.linking.context_based_linker.ComponentConfig method) (medcat.components.linking.context_based_linker.Config method) (medcat.components.linking.no_action_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.Config method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig method) (medcat.components.linking.vector_context_model.Linking method) (medcat.components.ner.dict_based_ner.ComponentConfig method) (medcat.components.ner.trf.deid.ConfigTransformersNER method) (medcat.components.ner.trf.helpers.Config method) (medcat.components.ner.trf.model.Config method) (medcat.components.ner.trf.transformers_ner.ComponentConfig method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER method) (medcat.components.ner.vocab_based_annotator.Config method) (medcat.components.ner.vocab_based_ner.ComponentConfig method) (medcat.components.normalizing.normalizer.ComponentConfig method) (medcat.components.normalizing.normalizer.Config method) (medcat.components.tagging.tagger.ComponentConfig method) (medcat.components.tagging.tagger.Preprocessing method) (medcat.components.types.ComponentConfig method) (medcat.config.Config method) (medcat.config.config.AnnotationOutput method) (medcat.config.config.CDBMaker method) (medcat.config.config.ComponentConfig method) (medcat.config.config.Components method) (medcat.config.config.Config method) (medcat.config.config.DirtiableBaseModel method) (medcat.config.config.Environment method) (medcat.config.config.General method) (medcat.config.config.Linking method) (medcat.config.config.LinkingFilters method) (medcat.config.config.ModelMeta method) (medcat.config.config.Ner method) (medcat.config.config.NLPConfig method) (medcat.config.config.Preprocessing method) (medcat.config.config.SerialisableBaseModel method) (medcat.config.config.TrainingDescriptor method) (medcat.config.config.UsageMonitor method) (medcat.config.config_meta_cat.ComponentConfig method) (medcat.config.config_meta_cat.ConfigMetaCAT method) (medcat.config.config_meta_cat.DirtiableBaseModel method) (medcat.config.config_meta_cat.General method) (medcat.config.config_meta_cat.Model method) (medcat.config.config_meta_cat.Train method) (medcat.config.config_rel_cat.ComponentConfig method) (medcat.config.config_rel_cat.ConfigRelCAT method) (medcat.config.config_rel_cat.General method) (medcat.config.config_rel_cat.Model method) (medcat.config.config_rel_cat.SerialisableBaseModel method) (medcat.config.config_rel_cat.Train method) (medcat.config.config_transformers_ner.ConfigTransformersNER method) (medcat.config.config_transformers_ner.General method) (medcat.config.config_transformers_ner.SerialisableBaseModel method) (medcat.model_creation.cdb_maker.Config method) (medcat.pipeline.pipeline.ComponentConfig method) (medcat.pipeline.pipeline.Config method) (medcat.pipeline.pipeline.ConfigMetaCAT method) (medcat.pipeline.pipeline.ConfigRelCAT method) (medcat.stats.kfold.PerCUIMetrics method) (medcat.stats.stats.LinkingFilters method) (medcat.tokenizing.regex_impl.tokenizer.Config method) (medcat.tokenizing.spacy_impl.tokenizers.Config method) (medcat.tokenizing.tokenizers.Config method) (medcat.trainer.CDBMaker method) (medcat.trainer.General method) (medcat.trainer.Preprocessing method) (medcat.utils.cdb_state.ModelMeta method) (medcat.utils.envsnapshot.Environment method) (medcat.utils.filters.LinkingFilters method) (medcat.utils.legacy.convert_cdb.Config method) (medcat.utils.legacy.convert_config.Config method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT method) (medcat.utils.regression.checking.FinalTarget method) (medcat.utils.regression.checking.MetaData method) (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.checking.OptionSet method) (medcat.utils.regression.checking.RegressionCase method) (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.checking.TargetedPhraseChanger method) (medcat.utils.regression.results.FinalTarget method) (medcat.utils.regression.results.MultiDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) (medcat.utils.regression.results.SingleResultDescriptor method) (medcat.utils.regression.targeting.FinalTarget method) (medcat.utils.regression.targeting.OptionSet method) (medcat.utils.regression.targeting.PhraseChanger method) (medcat.utils.regression.targeting.TargetedPhraseChanger method) (medcat.utils.regression.targeting.TargetPlaceholder method) (medcat.utils.usage_monitoring.UsageMonitorConfig method) _CORE_REGISTRIES (in module medcat.components.types) _count_p_anns_norm() (medcat.stats.stats.StatsBuilder method) _count_project() (medcat.utils.data_utils.TestTrainSplitter method) _counter (medcat.stats.kfold.PerAnnsFoldCreator attribute) (medcat.stats.kfold.SimpleFoldCreator attribute) _create_annotation() (medcat.stats.stats.StatsBuilder method) _create_annotation_2() (medcat.stats.stats.StatsBuilder method) _create_base_relation_for_ents() (medcat.components.addons.relation_extraction.rel_cat.RelData method) (medcat.components.addons.relation_extraction.rel_dataset.RelData method) _create_base_relations_from_mutable_doc() (medcat.components.addons.relation_extraction.rel_cat.RelData method) (medcat.components.addons.relation_extraction.rel_dataset.RelData method) _create_export_with_documents() (medcat.stats.kfold.FoldCreator method) (medcat.stats.kfold.PerAnnsFoldCreator method) (medcat.stats.kfold.PerDocsFoldCreator method) (medcat.stats.kfold.SimpleFoldCreator method) (medcat.stats.kfold.WeightedDocumentsCreator method) _create_fold() (medcat.stats.kfold.PerAnnsFoldCreator method) (medcat.stats.kfold.PerDocsFoldCreator method) (medcat.stats.kfold.SimpleFoldCreator method) _create_new_project() (medcat.stats.kfold.FoldCreator method) (medcat.stats.kfold.PerAnnsFoldCreator method) (medcat.stats.kfold.PerDocsFoldCreator method) (medcat.stats.kfold.SimpleFoldCreator method) (medcat.stats.kfold.WeightedDocumentsCreator method) _create_relation_validation() (medcat.components.addons.relation_extraction.rel_cat.RelData method) (medcat.components.addons.relation_extraction.rel_dataset.RelData method) _create_relations_for_doc() (medcat.components.addons.relation_extraction.rel_cat.RelData method) (medcat.components.addons.relation_extraction.rel_dataset.RelData method) _create_repo() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _create_test_train_datasets() (medcat.components.addons.relation_extraction.rel_cat.RelCAT method) (medcat.utils.legacy.convert_rel_cat.RelCAT method) _cui_weights (medcat.components.linking.two_step_context_based_linker.PerEntityWeights attribute) _data_key (medcat.storage.jsonserialiser.DataClassHandler attribute) (medcat.storage.jsonserialiser.NumpyArrayHandler attribute) (medcat.storage.jsonserialiser.TypeRegistry attribute) _DEBUG_CNT (medcat.components.linking.two_step_context_based_linker.TwoStepLinker attribute) _decode() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _decode_string() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) _decode_use_source_tokenizer (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) _def_registry (in module medcat.storage.jsonserialiser) _DEF_SER (in module medcat.storage.serialisers) _def_serialiser (medcat.components.ner.trf.deid.TransformersNER attribute) (medcat.components.ner.trf.model.TransformersNER attribute) (medcat.components.ner.trf.transformers_ner.TransformersNER attribute) (medcat.utils.legacy.convert_deid.TransformersNER attribute) _DEFAULT_ADDONS (in module medcat.components.addons.addons) _DEFAULT_COLUMNS (in module medcat.model_creation.preprocess_umls) _DEFAULT_LINKING (in module medcat.components.types) _DEFAULT_MRHIER_COLUMNS (in module medcat.model_creation.preprocess_umls) _DEFAULT_NER (in module medcat.components.types) _DEFAULT_NORMALIZERS (in module medcat.components.types) _DEFAULT_SEM_TYPE_COLUMNS (in module medcat.model_creation.preprocess_umls) _DEFAULT_SNOMED_TYPE_ID2NAME (in module medcat.utils.legacy.convert_cdb) _DEFAULT_TAGGERS (in module medcat.components.types) _DEFAULT_TOKENIZING (in module medcat.tokenizing.tokenizers) _delegate (medcat.tokenizing.spacy_impl.tokenizers.Document attribute) (medcat.tokenizing.spacy_impl.tokenizers.Entity attribute) (medcat.tokenizing.spacy_impl.tokenizers.Token attribute) (medcat.tokenizing.spacy_impl.tokens.Document attribute) (medcat.tokenizing.spacy_impl.tokens.Entity attribute) (medcat.tokenizing.spacy_impl.tokens.Token attribute) _DEP_NAME_MAPPER (in module medcat.utils.import_utils) _DEP_PATTERN (in module medcat.utils.import_utils) _descr_cui() (medcat.utils.regression.results.FindingDeterminer method) _DESCRIPTION (in module medcat.utils.ner.transformers_ner) _determine() (medcat.utils.regression.results.FindingDeterminer method) _determine_bundle() (medcat.model_creation.preprocess_snomed.Snomed class method) _determine_extension() (medcat.model_creation.preprocess_snomed.Snomed class method) _determine_raw() (medcat.utils.regression.results.FindingDeterminer method) _determine_release() (medcat.model_creation.preprocess_snomed.Snomed class method) _dict_from_json_file() (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig class method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig class method) _disamb_preprocessors (medcat.components.linking.context_based_linker.ContextModel attribute) (medcat.components.linking.two_step_context_based_linker.ContextModel attribute) (medcat.components.linking.vector_context_model.ContextModel attribute) _do_training() (medcat.components.linking.two_step_context_based_linker.TwoStepLinker method) _doc (medcat.components.linking.two_step_context_based_linker.PerEntityWeights attribute) (medcat.tokenizing.regex_impl.tokenizer.Entity attribute) (medcat.tokenizing.regex_impl.tokenizer.Token attribute) _doc_to_out() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) _doc_to_out_entity() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) _dtype_key (medcat.storage.jsonserialiser.NumpyArrayHandler attribute) _dumper (medcat.cat.Hasher attribute) (medcat.cdb.cdb.Hasher attribute) (medcat.components.addons.meta_cat.meta_cat.Hasher attribute) (medcat.components.ner.trf.transformers_ner.Hasher attribute) (medcat.config.config_transformers_ner.Hasher attribute) (medcat.utils.hasher.Hasher attribute) _empty() (medcat.stats.stats.StatsBuilder method) _encode_plus() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _end_char_index (medcat.tokenizing.regex_impl.tokenizer.Entity attribute) _end_index (medcat.tokenizing.regex_impl.tokenizer.Entity attribute) _ensure_lazy_default() (medcat.components.addons.addons.Registry method) (medcat.components.types.Registry method) (medcat.tokenizing.tokenizers.Registry method) (medcat.utils.registry.Registry method) _ensure_not_training() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) _entity_from_tokens() (in module medcat.tokenizing.regex_impl.tokenizer) _eventual_warn_about_too_long_sequence() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _eventually_correct_t5_max_length() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper static method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper static method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT static method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper static method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama static method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper static method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper static method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT static method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper static method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper static method) _EXTRA_NAME (in module medcat.components.addons.meta_cat) (in module medcat.components.addons.relation_extraction) (in module medcat.components.ner.dict_based_ner) (in module medcat.components.ner.trf) (in module medcat.tokenizing.spacy_impl) (in module medcat.utils.ner) _file_read (medcat.storage.serialisers.RemappingUnpickler attribute) (medcat.utils.legacy.convert_cdb.CustomUnpickler attribute) (medcat.utils.legacy.v2_beta.RemappingUnpickler attribute) _file_readline (medcat.storage.serialisers.RemappingUnpickler attribute) (medcat.utils.legacy.convert_cdb.CustomUnpickler attribute) (medcat.utils.legacy.v2_beta.RemappingUnpickler attribute) _find_diff_cui() (medcat.utils.regression.results.FindingDeterminer method) _find_or_add_doc() (medcat.stats.kfold.FoldCreator method) (medcat.stats.kfold.PerAnnsFoldCreator method) (medcat.stats.kfold.PerDocsFoldCreator method) (medcat.stats.kfold.SimpleFoldCreator method) (medcat.stats.kfold.WeightedDocumentsCreator method) _fix_subnames() (in module medcat.utils.legacy.helpers) _flush_logs() (medcat.cat.UsageMonitor method) (medcat.utils.usage_monitoring.UsageMonitor method) _forward_hooks (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _forward_hooks_always_called (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _forward_hooks_with_kwargs (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _forward_pre_hooks (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _forward_pre_hooks_with_kwargs (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _from_key() (medcat.components.linking.two_step_context_based_linker.PerEntityWeights method) _from_pretrained() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama class method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT class method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper class method) _generate_batches() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) _generate_batches_by_char_length() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) _generate_examples() (medcat.utils.ner.transformers_ner.TransformersDatasetNER method) _generate_next_value_() (medcat.cat.AvailableSerialisers method) (medcat.cdb.cdb.AvailableSerialisers method) (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy method) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy method) (medcat.components.linking.context_based_linker.CoreComponentType method) (medcat.components.linking.no_action_linker.CoreComponentType method) (medcat.components.linking.two_step_context_based_linker.CoreComponentType method) (medcat.components.ner.dict_based_ner.CoreComponentType method) (medcat.components.ner.trf.deid.CoreComponentType method) (medcat.components.ner.trf.model.CoreComponentType method) (medcat.components.ner.trf.transformers_ner.AvailableSerialisers method) (medcat.components.ner.trf.transformers_ner.CoreComponentType method) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy method) (medcat.components.ner.vocab_based_ner.CoreComponentType method) (medcat.components.normalizing.normalizer.CoreComponentType method) (medcat.components.tagging.tagger.CoreComponentType method) (medcat.components.types.CoreComponentType method) (medcat.config.config.SerialisingStrategy method) (medcat.config.config_meta_cat.AvailableSerialisers method) (medcat.model_creation.preprocess_snomed.RefSetFileType method) (medcat.model_creation.preprocess_snomed.SupportedBundles method) (medcat.model_creation.preprocess_snomed.SupportedExtension method) (medcat.pipeline.pipeline.AvailableSerialisers method) (medcat.pipeline.pipeline.CoreComponentType method) (medcat.stats.kfold.SplitType method) (medcat.storage.jsonserialiser.AvailableSerialisers method) (medcat.storage.serialisables.SerialisingStrategy method) (medcat.storage.serialisers.AvailableSerialisers method) (medcat.trainer.CoreComponentType method) (medcat.utils.legacy.conversion_all.AvailableSerialisers method) (medcat.utils.legacy.conversion_all.CoreComponentType method) (medcat.utils.legacy.legacy_converter.AvailableSerialisers method) (medcat.utils.regression.checking.Finding method) (medcat.utils.regression.regression_checker.Finding method) (medcat.utils.regression.regression_checker.Strictness method) (medcat.utils.regression.results.Finding method) (medcat.utils.regression.results.Strictness method) (medcat.vocab.AvailableSerialisers method) _generate_simple_batches() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) _get_all_combinations() (medcat.utils.regression.checking.OptionSet method) (medcat.utils.regression.targeting.OptionSet method) _get_attr() (in module medcat.utils.cdb_state) _get_auto_logs_location() (medcat.cat.UsageMonitor method) (medcat.utils.usage_monitoring.UsageMonitor method) _get_backward_hooks() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) _get_backward_pre_hooks() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) _get_config_dict() (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig class method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig class method) _get_entity() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) _get_files_timestamps() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _get_global_generation_defaults() (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig static method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig static method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig static method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig static method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig static method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig static method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig static method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig static method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig static method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig static method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig static method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig static method) _get_hash() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) _get_loaded_addon_path() (medcat.cat.Pipeline method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.Pipeline method) (medcat.trainer.Pipeline method) _get_loaded_components_paths() (medcat.cat.Pipeline method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.Pipeline method) (medcat.trainer.Pipeline method) _get_meta_cat_and_tokenizer_paths() (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.MetaCATAddon class method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon class method) _get_name() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) _get_non_default_generation_parameters() (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig method) _get_or_empty() (medcat.stats.stats.StatsBuilder method) _get_padding_truncation_strategies() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _get_part_report() (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.results.MultiDescriptor method) _get_placeholder() (medcat.utils.regression.checking.MedCATTrainerExportConverter method) (medcat.utils.regression.utils.MedCATTrainerExportConverter method) _get_pref_name() (medcat.stats.stats.StatsBuilder method) _get_raw() (medcat.model_creation.preprocess_snomed.FileFormatDescriptor method) _get_reason_not_deid() (medcat.components.ner.trf.deid.DeIdModel class method) _get_strict() (medcat.utils.regression.results.FindingDeterminer method) _get_subcases() (medcat.utils.regression.checking.RegressionCase method) _get_token_type_and_start_end() (medcat.components.addons.relation_extraction.rel_cat.RelData method) (medcat.components.addons.relation_extraction.rel_dataset.RelData method) _get_tokens() (in module medcat.preprocessors.cleaners) _get_value() (medcat.cat.Config class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.types.ComponentConfig class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.Environment class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.stats.kfold.PerCUIMetrics class method) (medcat.stats.stats.LinkingFilters class method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.regression.checking.FinalTarget class method) (medcat.utils.regression.checking.MetaData class method) (medcat.utils.regression.checking.MultiDescriptor class method) (medcat.utils.regression.checking.OptionSet class method) (medcat.utils.regression.checking.RegressionCase class method) (medcat.utils.regression.checking.ResultDescriptor class method) (medcat.utils.regression.checking.TargetedPhraseChanger class method) (medcat.utils.regression.results.FinalTarget class method) (medcat.utils.regression.results.MultiDescriptor class method) (medcat.utils.regression.results.ResultDescriptor class method) (medcat.utils.regression.results.SingleResultDescriptor class method) (medcat.utils.regression.targeting.FinalTarget class method) (medcat.utils.regression.targeting.OptionSet class method) (medcat.utils.regression.targeting.PhraseChanger class method) (medcat.utils.regression.targeting.TargetedPhraseChanger class method) (medcat.utils.regression.targeting.TargetPlaceholder class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method) _ignore (medcat.storage.serialisers.RemappingUnpickler attribute) (medcat.utils.legacy.convert_cdb.CustomUnpickler attribute) (medcat.utils.legacy.v2_beta.RemappingUnpickler attribute) _IGNORE_TAG (in module medcat.model_creation.preprocess_snomed) _in_target_context_manager (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) _in_test() (in module medcat.utils.usage_monitoring) _inference() (medcat.components.linking.context_based_linker.Linker method) (medcat.components.linking.two_step_context_based_linker.NormalLinker method) _info() (medcat.utils.ner.transformers_ner.TransformersDatasetNER method) _init_addon() (medcat.cat.Pipeline method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.Pipeline method) (medcat.trainer.Pipeline method) _init_cnf() (medcat.components.linking.two_step_context_based_linker.TwoStepLinker method) _init_component() (medcat.cat.Pipeline method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.Pipeline method) (medcat.trainer.Pipeline method) _init_components() (medcat.cat.Pipeline method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.Pipeline method) (medcat.trainer.Pipeline method) _init_data_paths() (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon method) (medcat.components.addons.meta_cat.MetaCATAddon method) (medcat.components.addons.relation_extraction.rel_cat.RelCAT method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon method) (medcat.utils.legacy.convert_rel_cat.RelCAT method) _INIT_PARTS_PATH (in module medcat.storage.schema) _init_per_fold() (medcat.stats.kfold.PerAnnsFoldCreator method) (medcat.stats.kfold.SimpleFoldCreator method) _init_tokenizer() (medcat.cat.Pipeline method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.Pipeline method) (medcat.trainer.Pipeline method) _instantiate() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) _is_deid_model() (medcat.components.ner.trf.deid.DeIdModel class method) _is_dirty (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Linking attribute) (medcat.config.config.Ner attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) _is_full_backward_hook (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _is_protocol (medcat.cat.AbstractCoreComponent attribute) (medcat.cat.AddonComponent attribute) (medcat.cat.HashableComponet attribute) (medcat.cat.MutableDocument attribute) (medcat.cat.MutableEntity attribute) (medcat.cat.SaveableTokenizer attribute) (medcat.components.addons.addons.AddonComponent attribute) (medcat.components.addons.addons.BaseComponent attribute) (medcat.components.addons.addons.BaseTokenizer attribute) (medcat.components.addons.addons.MutableEntity attribute) (medcat.components.addons.addons.Registry attribute) (medcat.components.addons.meta_cat.meta_cat.AddonComponent attribute) (medcat.components.addons.meta_cat.meta_cat.BaseTokenizer attribute) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon attribute) (medcat.components.addons.meta_cat.meta_cat.MutableDocument attribute) (medcat.components.addons.meta_cat.meta_cat.MutableEntity attribute) (medcat.components.addons.meta_cat.MetaCATAddon attribute) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent attribute) (medcat.components.addons.relation_extraction.rel_cat.BalancedBatchSampler attribute) (medcat.components.addons.relation_extraction.rel_cat.BaseTokenizer attribute) (medcat.components.addons.relation_extraction.rel_cat.MutableDocument attribute) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon attribute) (medcat.components.addons.relation_extraction.rel_cat.RelData attribute) (medcat.components.addons.relation_extraction.rel_dataset.MutableDocument attribute) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity attribute) (medcat.components.addons.relation_extraction.rel_dataset.RelData attribute) (medcat.components.linking.context_based_linker.AbstractCoreComponent attribute) (medcat.components.linking.context_based_linker.BaseTokenizer attribute) (medcat.components.linking.context_based_linker.Linker attribute) (medcat.components.linking.context_based_linker.MutableDocument attribute) (medcat.components.linking.context_based_linker.MutableEntity attribute) (medcat.components.linking.no_action_linker.AbstractCoreComponent attribute) (medcat.components.linking.no_action_linker.BaseTokenizer attribute) (medcat.components.linking.no_action_linker.MutableDocument attribute) (medcat.components.linking.no_action_linker.NoActionLinker attribute) (medcat.components.linking.two_step_context_based_linker.AbstractCoreComponent attribute) (medcat.components.linking.two_step_context_based_linker.BaseTokenizer attribute) (medcat.components.linking.two_step_context_based_linker.MutableDocument attribute) (medcat.components.linking.two_step_context_based_linker.MutableEntity attribute) (medcat.components.linking.two_step_context_based_linker.NormalLinker attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker attribute) (medcat.components.linking.vector_context_model.DisambPreprocessor attribute) (medcat.components.linking.vector_context_model.MutableDocument attribute) (medcat.components.linking.vector_context_model.MutableEntity attribute) (medcat.components.linking.vector_context_model.MutableToken attribute) (medcat.components.ner.dict_based_ner.AbstractCoreComponent attribute) (medcat.components.ner.dict_based_ner.BaseTokenizer attribute) (medcat.components.ner.dict_based_ner.MutableDocument attribute) (medcat.components.ner.dict_based_ner.NER attribute) (medcat.components.ner.trf.deid.TransformersNER attribute) (medcat.components.ner.trf.model.MutableDocument attribute) (medcat.components.ner.trf.model.TransformersNER attribute) (medcat.components.ner.trf.transformers_ner.AbstractCoreComponent attribute) (medcat.components.ner.trf.transformers_ner.BaseTokenizer attribute) (medcat.components.ner.trf.transformers_ner.MutableDocument attribute) (medcat.components.ner.trf.transformers_ner.MutableEntity attribute) (medcat.components.ner.trf.transformers_ner.TransformersNER attribute) (medcat.components.ner.vocab_based_annotator.BaseTokenizer attribute) (medcat.components.ner.vocab_based_annotator.MutableDocument attribute) (medcat.components.ner.vocab_based_annotator.MutableEntity attribute) (medcat.components.ner.vocab_based_annotator.MutableToken attribute) (medcat.components.ner.vocab_based_ner.AbstractCoreComponent attribute) (medcat.components.ner.vocab_based_ner.BaseTokenizer attribute) (medcat.components.ner.vocab_based_ner.MutableDocument attribute) (medcat.components.ner.vocab_based_ner.NER attribute) (medcat.components.normalizing.normalizer.AbstractCoreComponent attribute) (medcat.components.normalizing.normalizer.BaseTokenizer attribute) (medcat.components.normalizing.normalizer.MutableDocument attribute) (medcat.components.normalizing.normalizer.TokenNormalizer attribute) (medcat.components.tagging.tagger.AbstractCoreComponent attribute) (medcat.components.tagging.tagger.BaseTokenizer attribute) (medcat.components.tagging.tagger.MutableDocument attribute) (medcat.components.tagging.tagger.TagAndSkipTagger attribute) (medcat.components.types.AbstractCoreComponent attribute) (medcat.components.types.BaseComponent attribute) (medcat.components.types.BaseTokenizer attribute) (medcat.components.types.CoreComponent attribute) (medcat.components.types.HashableComponet attribute) (medcat.components.types.MutableDocument attribute) (medcat.components.types.MutableEntity attribute) (medcat.components.types.Registry attribute) (medcat.components.types.TrainableComponent attribute) (medcat.config.config.PotentiallyDirty attribute) (medcat.pipeline.pipeline.AbstractCoreComponent attribute) (medcat.pipeline.pipeline.AddonComponent attribute) (medcat.pipeline.pipeline.BaseComponent attribute) (medcat.pipeline.pipeline.BaseTokenizer attribute) (medcat.pipeline.pipeline.CoreComponent attribute) (medcat.pipeline.pipeline.DelegatingTokenizer attribute) (medcat.pipeline.pipeline.MutableDocument attribute) (medcat.pipeline.pipeline.MutableEntity attribute) (medcat.pipeline.pipeline.MutableToken attribute) (medcat.pipeline.pipeline.Serialisable attribute) (medcat.preprocessors.cleaners.BaseTokenizer attribute) (medcat.preprocessors.cleaners.LCDBMaker attribute) (medcat.preprocessors.cleaners.LGeneral attribute) (medcat.preprocessors.cleaners.LPreprocessing attribute) (medcat.preprocessors.cleaners.MutableDocument attribute) (medcat.stats.stats.MutableDocument attribute) (medcat.stats.stats.MutableEntity attribute) (medcat.storage.jsonserialiser.DataClassHandler attribute) (medcat.storage.jsonserialiser.DateTimeHandler attribute) (medcat.storage.jsonserialiser.NumpyArrayHandler attribute) (medcat.storage.jsonserialiser.SetHandler attribute) (medcat.storage.jsonserialiser.TypeBasedHandler attribute) (medcat.storage.jsonserialiser.TypeHandler attribute) (medcat.storage.serialisables.ManualSerialisable attribute) (medcat.storage.serialisables.Serialisable attribute) (medcat.storage.serialisers.ManualSerialisable attribute) (medcat.storage.serialisers.Serialisable attribute) (medcat.tokenizing.regex_impl.tokenizer.BaseDocument attribute) (medcat.tokenizing.regex_impl.tokenizer.BaseEntity attribute) (medcat.tokenizing.regex_impl.tokenizer.BaseToken attribute) (medcat.tokenizing.regex_impl.tokenizer.BaseTokenizer attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableDocument attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableToken attribute) (medcat.tokenizing.regex_impl.tokenizer.RegexTokenizer attribute) (medcat.tokenizing.spacy_impl.tokenizers.BaseTokenizer attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableDocument attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableToken attribute) (medcat.tokenizing.spacy_impl.tokenizers.SpacyTokenizer attribute) (medcat.tokenizing.spacy_impl.tokens.BaseDocument attribute) (medcat.tokenizing.spacy_impl.tokens.BaseEntity attribute) (medcat.tokenizing.spacy_impl.tokens.BaseToken attribute) (medcat.tokenizing.spacy_impl.tokens.MutableEntity attribute) (medcat.tokenizing.spacy_impl.tokens.MutableToken attribute) (medcat.tokenizing.tokenizers.BaseTokenizer attribute) (medcat.tokenizing.tokenizers.MutableDocument attribute) (medcat.tokenizing.tokenizers.MutableEntity attribute) (medcat.tokenizing.tokenizers.MutableToken attribute) (medcat.tokenizing.tokenizers.Registry attribute) (medcat.tokenizing.tokenizers.SaveableTokenizer attribute) (medcat.tokenizing.tokens.BaseDocument attribute) (medcat.tokenizing.tokens.BaseEntity attribute) (medcat.tokenizing.tokens.BaseToken attribute) (medcat.tokenizing.tokens.MutableDocument attribute) (medcat.tokenizing.tokens.MutableEntity attribute) (medcat.tokenizing.tokens.MutableToken attribute) (medcat.trainer.AddonComponent attribute) (medcat.trainer.MutableDocument attribute) (medcat.trainer.MutableEntity attribute) (medcat.trainer.MutableToken attribute) (medcat.trainer.TrainableComponent attribute) (medcat.utils.data_utils.MutableDocument attribute) (medcat.utils.data_utils.MutableEntity attribute) (medcat.utils.legacy.conversion_all.NoActionLinker attribute) (medcat.utils.legacy.convert_deid.BaseTokenizer attribute) (medcat.utils.legacy.convert_deid.TransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.BaseTokenizer attribute) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon attribute) (medcat.utils.legacy.convert_rel_cat.BaseTokenizer attribute) (medcat.utils.legacy.convert_rel_cat.RelCATAddon attribute) (medcat.utils.postprocessing.MutableDocument attribute) (medcat.utils.postprocessing.MutableEntity attribute) (medcat.utils.registry.Registry attribute) (medcat.utils.regression.checking.EditGetter attribute) (medcat.utils.regression.utils.EditGetter attribute) _is_punct (medcat.tokenizing.regex_impl.tokenizer.Token attribute) _is_runtime_protocol (medcat.cat.AbstractCoreComponent attribute) (medcat.cat.AddonComponent attribute) (medcat.cat.HashableComponet attribute) (medcat.cat.MutableDocument attribute) (medcat.cat.MutableEntity attribute) (medcat.cat.SaveableTokenizer attribute) (medcat.components.addons.addons.AddonComponent attribute) (medcat.components.addons.addons.BaseComponent attribute) (medcat.components.addons.addons.BaseTokenizer attribute) (medcat.components.addons.addons.MutableEntity attribute) (medcat.components.addons.meta_cat.meta_cat.AddonComponent attribute) (medcat.components.addons.meta_cat.meta_cat.BaseTokenizer attribute) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon attribute) (medcat.components.addons.meta_cat.meta_cat.MutableDocument attribute) (medcat.components.addons.meta_cat.meta_cat.MutableEntity attribute) (medcat.components.addons.meta_cat.MetaCATAddon attribute) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent attribute) (medcat.components.addons.relation_extraction.rel_cat.BaseTokenizer attribute) (medcat.components.addons.relation_extraction.rel_cat.MutableDocument attribute) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon attribute) (medcat.components.addons.relation_extraction.rel_dataset.MutableDocument attribute) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity attribute) (medcat.components.linking.context_based_linker.AbstractCoreComponent attribute) (medcat.components.linking.context_based_linker.BaseTokenizer attribute) (medcat.components.linking.context_based_linker.Linker attribute) (medcat.components.linking.context_based_linker.MutableDocument attribute) (medcat.components.linking.context_based_linker.MutableEntity attribute) (medcat.components.linking.no_action_linker.AbstractCoreComponent attribute) (medcat.components.linking.no_action_linker.BaseTokenizer attribute) (medcat.components.linking.no_action_linker.MutableDocument attribute) (medcat.components.linking.no_action_linker.NoActionLinker attribute) (medcat.components.linking.two_step_context_based_linker.AbstractCoreComponent attribute) (medcat.components.linking.two_step_context_based_linker.BaseTokenizer attribute) (medcat.components.linking.two_step_context_based_linker.MutableDocument attribute) (medcat.components.linking.two_step_context_based_linker.MutableEntity attribute) (medcat.components.linking.two_step_context_based_linker.NormalLinker attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker attribute) (medcat.components.linking.vector_context_model.DisambPreprocessor attribute) (medcat.components.linking.vector_context_model.MutableDocument attribute) (medcat.components.linking.vector_context_model.MutableEntity attribute) (medcat.components.linking.vector_context_model.MutableToken attribute) (medcat.components.ner.dict_based_ner.AbstractCoreComponent attribute) (medcat.components.ner.dict_based_ner.BaseTokenizer attribute) (medcat.components.ner.dict_based_ner.MutableDocument attribute) (medcat.components.ner.dict_based_ner.NER attribute) (medcat.components.ner.trf.deid.TransformersNER attribute) (medcat.components.ner.trf.model.MutableDocument attribute) (medcat.components.ner.trf.model.TransformersNER attribute) (medcat.components.ner.trf.transformers_ner.AbstractCoreComponent attribute) (medcat.components.ner.trf.transformers_ner.BaseTokenizer attribute) (medcat.components.ner.trf.transformers_ner.MutableDocument attribute) (medcat.components.ner.trf.transformers_ner.MutableEntity attribute) (medcat.components.ner.trf.transformers_ner.TransformersNER attribute) (medcat.components.ner.vocab_based_annotator.BaseTokenizer attribute) (medcat.components.ner.vocab_based_annotator.MutableDocument attribute) (medcat.components.ner.vocab_based_annotator.MutableEntity attribute) (medcat.components.ner.vocab_based_annotator.MutableToken attribute) (medcat.components.ner.vocab_based_ner.AbstractCoreComponent attribute) (medcat.components.ner.vocab_based_ner.BaseTokenizer attribute) (medcat.components.ner.vocab_based_ner.MutableDocument attribute) (medcat.components.ner.vocab_based_ner.NER attribute) (medcat.components.normalizing.normalizer.AbstractCoreComponent attribute) (medcat.components.normalizing.normalizer.BaseTokenizer attribute) (medcat.components.normalizing.normalizer.MutableDocument attribute) (medcat.components.normalizing.normalizer.TokenNormalizer attribute) (medcat.components.tagging.tagger.AbstractCoreComponent attribute) (medcat.components.tagging.tagger.BaseTokenizer attribute) (medcat.components.tagging.tagger.MutableDocument attribute) (medcat.components.tagging.tagger.TagAndSkipTagger attribute) (medcat.components.types.AbstractCoreComponent attribute) (medcat.components.types.BaseComponent attribute) (medcat.components.types.BaseTokenizer attribute) (medcat.components.types.CoreComponent attribute) (medcat.components.types.HashableComponet attribute) (medcat.components.types.MutableDocument attribute) (medcat.components.types.MutableEntity attribute) (medcat.components.types.TrainableComponent attribute) (medcat.config.config.PotentiallyDirty attribute) (medcat.pipeline.pipeline.AbstractCoreComponent attribute) (medcat.pipeline.pipeline.AddonComponent attribute) (medcat.pipeline.pipeline.BaseComponent attribute) (medcat.pipeline.pipeline.BaseTokenizer attribute) (medcat.pipeline.pipeline.CoreComponent attribute) (medcat.pipeline.pipeline.DelegatingTokenizer attribute) (medcat.pipeline.pipeline.MutableDocument attribute) (medcat.pipeline.pipeline.MutableEntity attribute) (medcat.pipeline.pipeline.MutableToken attribute) (medcat.pipeline.pipeline.Serialisable attribute) (medcat.preprocessors.cleaners.BaseTokenizer attribute) (medcat.preprocessors.cleaners.LCDBMaker attribute) (medcat.preprocessors.cleaners.LGeneral attribute) (medcat.preprocessors.cleaners.LPreprocessing attribute) (medcat.preprocessors.cleaners.MutableDocument attribute) (medcat.stats.stats.MutableDocument attribute) (medcat.stats.stats.MutableEntity attribute) (medcat.storage.jsonserialiser.DataClassHandler attribute) (medcat.storage.jsonserialiser.DateTimeHandler attribute) (medcat.storage.jsonserialiser.NumpyArrayHandler attribute) (medcat.storage.jsonserialiser.SetHandler attribute) (medcat.storage.jsonserialiser.TypeBasedHandler attribute) (medcat.storage.jsonserialiser.TypeHandler attribute) (medcat.storage.serialisables.ManualSerialisable attribute) (medcat.storage.serialisables.Serialisable attribute) (medcat.storage.serialisers.ManualSerialisable attribute) (medcat.storage.serialisers.Serialisable attribute) (medcat.tokenizing.regex_impl.tokenizer.BaseDocument attribute) (medcat.tokenizing.regex_impl.tokenizer.BaseEntity attribute) (medcat.tokenizing.regex_impl.tokenizer.BaseToken attribute) (medcat.tokenizing.regex_impl.tokenizer.BaseTokenizer attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableDocument attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableToken attribute) (medcat.tokenizing.regex_impl.tokenizer.RegexTokenizer attribute) (medcat.tokenizing.spacy_impl.tokenizers.BaseTokenizer attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableDocument attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableToken attribute) (medcat.tokenizing.spacy_impl.tokenizers.SpacyTokenizer attribute) (medcat.tokenizing.spacy_impl.tokens.BaseDocument attribute) (medcat.tokenizing.spacy_impl.tokens.BaseEntity attribute) (medcat.tokenizing.spacy_impl.tokens.BaseToken attribute) (medcat.tokenizing.spacy_impl.tokens.MutableEntity attribute) (medcat.tokenizing.spacy_impl.tokens.MutableToken attribute) (medcat.tokenizing.tokenizers.BaseTokenizer attribute) (medcat.tokenizing.tokenizers.MutableDocument attribute) (medcat.tokenizing.tokenizers.MutableEntity attribute) (medcat.tokenizing.tokenizers.MutableToken attribute) (medcat.tokenizing.tokenizers.SaveableTokenizer attribute) (medcat.tokenizing.tokens.BaseDocument attribute) (medcat.tokenizing.tokens.BaseEntity attribute) (medcat.tokenizing.tokens.BaseToken attribute) (medcat.tokenizing.tokens.MutableDocument attribute) (medcat.tokenizing.tokens.MutableEntity attribute) (medcat.tokenizing.tokens.MutableToken attribute) (medcat.trainer.AddonComponent attribute) (medcat.trainer.MutableDocument attribute) (medcat.trainer.MutableEntity attribute) (medcat.trainer.MutableToken attribute) (medcat.trainer.TrainableComponent attribute) (medcat.utils.data_utils.MutableDocument attribute) (medcat.utils.data_utils.MutableEntity attribute) (medcat.utils.legacy.conversion_all.NoActionLinker attribute) (medcat.utils.legacy.convert_deid.BaseTokenizer attribute) (medcat.utils.legacy.convert_deid.TransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.BaseTokenizer attribute) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon attribute) (medcat.utils.legacy.convert_rel_cat.BaseTokenizer attribute) (medcat.utils.legacy.convert_rel_cat.RelCATAddon attribute) (medcat.utils.postprocessing.MutableDocument attribute) (medcat.utils.postprocessing.MutableEntity attribute) (medcat.utils.regression.checking.EditGetter attribute) (medcat.utils.regression.utils.EditGetter attribute) _is_suitable_in_dict() (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy method) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy method) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy method) (medcat.config.config.SerialisingStrategy method) (medcat.storage.serialisables.SerialisingStrategy method) _is_suitable_part() (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy method) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy method) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy method) (medcat.config.config.SerialisingStrategy method) (medcat.storage.serialisables.SerialisingStrategy method) _iter() (medcat.cat.Config method) (medcat.cdb.cdb.Config method) (medcat.components.addons.addons.ComponentConfig method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig method) (medcat.components.addons.relation_extraction.rel_cat.Config method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT method) (medcat.components.linking.context_based_linker.ComponentConfig method) (medcat.components.linking.context_based_linker.Config method) (medcat.components.linking.no_action_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.Config method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig method) (medcat.components.linking.vector_context_model.Linking method) (medcat.components.ner.dict_based_ner.ComponentConfig method) (medcat.components.ner.trf.deid.ConfigTransformersNER method) (medcat.components.ner.trf.helpers.Config method) (medcat.components.ner.trf.model.Config method) (medcat.components.ner.trf.transformers_ner.ComponentConfig method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER method) (medcat.components.ner.vocab_based_annotator.Config method) (medcat.components.ner.vocab_based_ner.ComponentConfig method) (medcat.components.normalizing.normalizer.ComponentConfig method) (medcat.components.normalizing.normalizer.Config method) (medcat.components.tagging.tagger.ComponentConfig method) (medcat.components.tagging.tagger.Preprocessing method) (medcat.components.types.ComponentConfig method) (medcat.config.Config method) (medcat.config.config.AnnotationOutput method) (medcat.config.config.CDBMaker method) (medcat.config.config.ComponentConfig method) (medcat.config.config.Components method) (medcat.config.config.Config method) (medcat.config.config.DirtiableBaseModel method) (medcat.config.config.Environment method) (medcat.config.config.General method) (medcat.config.config.Linking method) (medcat.config.config.LinkingFilters method) (medcat.config.config.ModelMeta method) (medcat.config.config.Ner method) (medcat.config.config.NLPConfig method) (medcat.config.config.Preprocessing method) (medcat.config.config.SerialisableBaseModel method) (medcat.config.config.TrainingDescriptor method) (medcat.config.config.UsageMonitor method) (medcat.config.config_meta_cat.ComponentConfig method) (medcat.config.config_meta_cat.ConfigMetaCAT method) (medcat.config.config_meta_cat.DirtiableBaseModel method) (medcat.config.config_meta_cat.General method) (medcat.config.config_meta_cat.Model method) (medcat.config.config_meta_cat.Train method) (medcat.config.config_rel_cat.ComponentConfig method) (medcat.config.config_rel_cat.ConfigRelCAT method) (medcat.config.config_rel_cat.General method) (medcat.config.config_rel_cat.Model method) (medcat.config.config_rel_cat.SerialisableBaseModel method) (medcat.config.config_rel_cat.Train method) (medcat.config.config_transformers_ner.ConfigTransformersNER method) (medcat.config.config_transformers_ner.General method) (medcat.config.config_transformers_ner.SerialisableBaseModel method) (medcat.model_creation.cdb_maker.Config method) (medcat.pipeline.pipeline.ComponentConfig method) (medcat.pipeline.pipeline.Config method) (medcat.pipeline.pipeline.ConfigMetaCAT method) (medcat.pipeline.pipeline.ConfigRelCAT method) (medcat.stats.kfold.PerCUIMetrics method) (medcat.stats.stats.LinkingFilters method) (medcat.tokenizing.regex_impl.tokenizer.Config method) (medcat.tokenizing.spacy_impl.tokenizers.Config method) (medcat.tokenizing.tokenizers.Config method) (medcat.trainer.CDBMaker method) (medcat.trainer.General method) (medcat.trainer.Preprocessing method) (medcat.utils.cdb_state.ModelMeta method) (medcat.utils.envsnapshot.Environment method) (medcat.utils.filters.LinkingFilters method) (medcat.utils.legacy.convert_cdb.Config method) (medcat.utils.legacy.convert_config.Config method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT method) (medcat.utils.regression.checking.FinalTarget method) (medcat.utils.regression.checking.MetaData method) (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.checking.OptionSet method) (medcat.utils.regression.checking.RegressionCase method) (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.checking.TargetedPhraseChanger method) (medcat.utils.regression.results.FinalTarget method) (medcat.utils.regression.results.MultiDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) (medcat.utils.regression.results.SingleResultDescriptor method) (medcat.utils.regression.targeting.FinalTarget method) (medcat.utils.regression.targeting.OptionSet method) (medcat.utils.regression.targeting.PhraseChanger method) (medcat.utils.regression.targeting.TargetedPhraseChanger method) (medcat.utils.regression.targeting.TargetPlaceholder method) (medcat.utils.usage_monitoring.UsageMonitorConfig method) _iter_anns_backwards() (medcat.utils.regression.checking.MedCATTrainerExportConverter method) (medcat.utils.regression.utils.MedCATTrainerExportConverter method) _iter_docs() (medcat.utils.regression.checking.MedCATTrainerExportConverter method) (medcat.utils.regression.utils.MedCATTrainerExportConverter method) _iter_obj_items() (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy method) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy method) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy method) (medcat.config.config.SerialisingStrategy method) (medcat.storage.serialisables.SerialisingStrategy method) _iter_obj_values() (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy method) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy method) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy method) (medcat.config.config.SerialisingStrategy method) (medcat.storage.serialisables.SerialisingStrategy method) _keys_to_ignore_on_load_unexpected (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) _lazy_defaults (medcat.components.addons.addons.Registry attribute) (medcat.components.types.Registry attribute) (medcat.tokenizing.tokenizers.Registry attribute) (medcat.utils.registry.Registry attribute) _linker (medcat.components.linking.two_step_context_based_linker.TwoStepLinker attribute) _load_addon() (medcat.cat.Pipeline method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.Pipeline method) (medcat.trainer.Pipeline method) _load_component() (in module medcat.components.ner.trf.transformers_ner) _load_from_state_dict() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) _load_legacy() (in module medcat.utils.legacy.convert_meta_cat) (in module medcat.utils.legacy.convert_rel_cat) _load_saved_core_component() (medcat.cat.Pipeline method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.Pipeline method) (medcat.trainer.Pipeline method) _load_state_dict_post_hooks (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _load_state_dict_pre_hooks (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _load_tokenizer() (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.MetaCATAddon class method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon class method) _main (medcat.storage.serialisers.RemappingUnpickler attribute) (medcat.utils.legacy.convert_cdb.CustomUnpickler attribute) (medcat.utils.legacy.v2_beta.RemappingUnpickler attribute) _make_changes() (in module medcat.utils.legacy.convert_config) _map_snomed2refset() (medcat.model_creation.preprocess_snomed.Snomed method) _maybe_warn_non_full_backward_hook() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) _mc (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon attribute) (medcat.components.addons.meta_cat.MetaCATAddon attribute) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon attribute) _merge_examples() (in module medcat.stats.kfold) _META_ANNS_PATH (in module medcat.components.addons.meta_cat.meta_cat) _missing_() (medcat.cat.AvailableSerialisers class method) (medcat.cdb.cdb.AvailableSerialisers class method) (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy class method) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy class method) (medcat.components.linking.context_based_linker.CoreComponentType class method) (medcat.components.linking.no_action_linker.CoreComponentType class method) (medcat.components.linking.two_step_context_based_linker.CoreComponentType class method) (medcat.components.ner.dict_based_ner.CoreComponentType class method) (medcat.components.ner.trf.deid.CoreComponentType class method) (medcat.components.ner.trf.model.CoreComponentType class method) (medcat.components.ner.trf.transformers_ner.AvailableSerialisers class method) (medcat.components.ner.trf.transformers_ner.CoreComponentType class method) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy class method) (medcat.components.ner.vocab_based_ner.CoreComponentType class method) (medcat.components.normalizing.normalizer.CoreComponentType class method) (medcat.components.tagging.tagger.CoreComponentType class method) (medcat.components.types.CoreComponentType class method) (medcat.config.config.SerialisingStrategy class method) (medcat.config.config_meta_cat.AvailableSerialisers class method) (medcat.model_creation.preprocess_snomed.RefSetFileType class method) (medcat.model_creation.preprocess_snomed.SupportedBundles class method) (medcat.model_creation.preprocess_snomed.SupportedExtension class method) (medcat.pipeline.pipeline.AvailableSerialisers class method) (medcat.pipeline.pipeline.CoreComponentType class method) (medcat.stats.kfold.SplitType class method) (medcat.storage.jsonserialiser.AvailableSerialisers class method) (medcat.storage.serialisables.SerialisingStrategy class method) (medcat.storage.serialisers.AvailableSerialisers class method) (medcat.trainer.CoreComponentType class method) (medcat.utils.legacy.conversion_all.AvailableSerialisers class method) (medcat.utils.legacy.conversion_all.CoreComponentType class method) (medcat.utils.legacy.legacy_converter.AvailableSerialisers class method) (medcat.utils.regression.checking.Finding class method) (medcat.utils.regression.regression_checker.Finding class method) (medcat.utils.regression.regression_checker.Strictness class method) (medcat.utils.regression.results.Finding class method) (medcat.utils.regression.results.Strictness class method) (medcat.vocab.AvailableSerialisers class method) _model_hash (medcat.cat.UsageMonitor attribute) (medcat.utils.usage_monitoring.UsageMonitor attribute) _model_state_dict (medcat.components.addons.meta_cat.meta_cat.MetaCAT property) (medcat.components.addons.meta_cat.MetaCAT property) (medcat.utils.legacy.convert_meta_cat.MetaCAT property) _modules (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _move_identicals() (in module medcat.utils.legacy.convert_config) _move_partials() (in module medcat.utils.legacy.convert_config) _mp_one_batch_per_process() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) _mp_worker_func() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) _name (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon attribute) (medcat.components.addons.meta_cat.MetaCATAddon attribute) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon attribute) _name_or_path (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) _named_members() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) _nlp (medcat.tokenizing.spacy_impl.tokenizers.SpacyTokenizer attribute) _non_persistent_buffers_set (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _pad() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _pad_token_type_id (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) _parameters (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _perform_epoch() (medcat.cat.Trainer method) (medcat.trainer.Trainer method) _pipeline (medcat.cat.CAT attribute) (medcat.cat.Trainer attribute) (medcat.components.ner.trf.deid.CAT attribute) (medcat.components.ner.trf.model.CAT attribute) (medcat.stats.kfold.CAT attribute) (medcat.stats.stats.CAT attribute) (medcat.trainer.Trainer attribute) (medcat.utils.legacy.conversion_all.CAT attribute) (medcat.utils.legacy.helpers.CAT attribute) (medcat.utils.regression.checking.CAT attribute) (medcat.utils.regression.regression_checker.CAT attribute) _pn_configs (medcat.cat.Trainer property) (medcat.trainer.Trainer property) _prepare_dataset() (medcat.components.ner.trf.transformers_ner.TransformersNERComponent method) _preprocess_annotations() (medcat.stats.stats.StatsBuilder method) _preprocess_center_tokens() (medcat.components.linking.context_based_linker.ContextModel method) (medcat.components.linking.two_step_context_based_linker.ContextModel method) (medcat.components.linking.vector_context_model.ContextModel method) _preprocess_disamb() (medcat.components.linking.two_step_context_based_linker.TwoStepLinker method) _preprocess_disamb_similarities() (medcat.components.linking.context_based_linker.ContextModel method) (medcat.components.linking.two_step_context_based_linker.ContextModel method) (medcat.components.linking.vector_context_model.ContextModel method) _process() (medcat.components.ner.trf.transformers_ner.TransformersNERComponent method) _process_anns_norm() (medcat.stats.stats.StatsBuilder method) _process_doc() (medcat.components.ner.trf.transformers_ner.TransformersNERComponent method) _process_entity_inference() (medcat.components.linking.context_based_linker.Linker method) (medcat.components.linking.two_step_context_based_linker.NormalLinker method) _process_entity_nt_w_name() (medcat.components.linking.context_based_linker.Linker method) (medcat.components.linking.two_step_context_based_linker.NormalLinker method) _process_entity_train() (medcat.components.linking.context_based_linker.Linker method) (medcat.components.linking.two_step_context_based_linker.NormalLinker method) _process_entity_train_tuis() (medcat.components.linking.two_step_context_based_linker.TwoStepLinker method) _process_p_anns() (medcat.stats.stats.StatsBuilder method) _processor_class (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) _reapply_state() (in module medcat.utils.cdb_state) _rebuild_automaton() (medcat.components.ner.dict_based_ner.NER method) _rebuild_index() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) _recreate_pipe() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) _refset_df2dict() (medcat.model_creation.preprocess_snomed.Snomed method) _register_load_state_dict_pre_hook() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) _register_state_dict_hook() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) _reinitialize_dense_and_frozen_layers() (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) _rel_cat (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon attribute) (medcat.utils.legacy.convert_rel_cat.RelCATAddon attribute) _relocate() (in module medcat.utils.legacy.convert_config) _remove_names() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) _replicate_for_data_parallel() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) _reset() (medcat.utils.data_utils.TestTrainSplitter method) _reset_cui_counts() (medcat.cat.Trainer method) (medcat.trainer.Trainer method) _reset_stats() (medcat.stats.stats.StatsBuilder method) _reset_subnames() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) _reset_tokenizer_info() (medcat.components.addons.meta_cat.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.MetaCAT method) (medcat.utils.legacy.convert_meta_cat.MetaCAT method) _reweigh_candidates() (medcat.components.linking.two_step_context_based_linker.TwoStepLinker method) _safe_setattr() (in module medcat.utils.legacy.convert_config) _sanitise_sets() (in module medcat.utils.legacy.convert_config) _save_component() (in module medcat.components.ner.trf.transformers_ner) _save_pretrained() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _save_to_state_dict() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) _says_open_not_available() (in module medcat.utils.usage_monitoring) _session (medcat.storage.serialisers.RemappingUnpickler attribute) (medcat.utils.legacy.convert_cdb.CustomUnpickler attribute) (medcat.utils.legacy.v2_beta.RemappingUnpickler attribute) _set_attr() (in module medcat.utils.cdb_state) _set_extension() (medcat.model_creation.preprocess_snomed.Snomed method) _set_meta_anns() (medcat.components.addons.meta_cat.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.MetaCAT method) (medcat.utils.legacy.convert_meta_cat.MetaCAT method) _set_model_specific_special_tokens() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _set_processor_class() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _set_token_in_kwargs() (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig static method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig static method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig static method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig static method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig static method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig static method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig static method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig static method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig static method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig static method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig static method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig static method) _setup_auto_logs() (medcat.cat.UsageMonitor method) (medcat.utils.usage_monitoring.UsageMonitor method) _shape_key (medcat.storage.jsonserialiser.NumpyArrayHandler attribute) _SHARE_TOKENS_PATH (in module medcat.components.addons.meta_cat.meta_cat) _should_add_to_test() (medcat.utils.data_utils.TestTrainSplitter method) _should_change_name() (medcat.components.linking.context_based_linker.ContextModel method) (medcat.components.linking.two_step_context_based_linker.ContextModel method) (medcat.components.linking.vector_context_model.ContextModel method) _should_log() (medcat.cat.UsageMonitor method) (medcat.utils.usage_monitoring.UsageMonitor method) _similarity() (medcat.components.linking.context_based_linker.ContextModel method) (medcat.components.linking.two_step_context_based_linker.ContextModel method) (medcat.components.linking.vector_context_model.ContextModel method) _slow_forward() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) _spacy_model_name (medcat.tokenizing.spacy_impl.tokenizers.SpacyTokenizer attribute) _special_tokens_map (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) _split_doc_train_test() (medcat.utils.data_utils.TestTrainSplitter method) _split_generators() (medcat.utils.ner.transformers_ner.TransformersDatasetNER method) _start_char_index (medcat.tokenizing.regex_impl.tokenizer.Entity attribute) _start_index (medcat.tokenizing.regex_impl.tokenizer.Entity attribute) (medcat.tokenizing.regex_impl.tokenizer.Token attribute) _state_dict_hooks (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _state_dict_pre_hooks (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _subnames (medcat.cat.CDB attribute) (medcat.cdb.CDB attribute) (medcat.cdb.cdb.CDB attribute) (medcat.components.addons.addons.CDB attribute) (medcat.components.addons.meta_cat.meta_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_dataset.CDB attribute) (medcat.components.linking.context_based_linker.CDB attribute) (medcat.components.linking.no_action_linker.CDB attribute) (medcat.components.linking.two_step_context_based_linker.CDB attribute) (medcat.components.ner.dict_based_ner.CDB attribute) (medcat.components.ner.trf.deid.CDB attribute) (medcat.components.ner.trf.helpers.CDB attribute) (medcat.components.ner.trf.model.CDB attribute) (medcat.components.ner.trf.transformers_ner.CDB attribute) (medcat.components.ner.vocab_based_annotator.CDB attribute) (medcat.components.ner.vocab_based_ner.CDB attribute) (medcat.components.normalizing.normalizer.CDB attribute) (medcat.components.tagging.tagger.CDB attribute) (medcat.components.types.CDB attribute) (medcat.model_creation.cdb_maker.CDB attribute) (medcat.pipeline.pipeline.CDB attribute) (medcat.trainer.CDB attribute) (medcat.utils.data_utils.CDB attribute) (medcat.utils.legacy.convert_cdb.CDB attribute) (medcat.utils.legacy.convert_deid.CDB attribute) (medcat.utils.legacy.convert_rel_cat.CDB attribute) (medcat.utils.legacy.helpers.CDB attribute) (medcat.utils.regression.targeting.CDB attribute) (medcat.utils.vocab_utils.CDB attribute) _switch_to_input_mode() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _switch_to_target_mode() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _targets() (medcat.stats.kfold.PerAnnsFoldCreator method) _TEMP_MULTI_PLACEHOLDER (in module medcat.utils.regression.utils) _text (medcat.tokenizing.regex_impl.tokenizer.Entity attribute) (medcat.tokenizing.regex_impl.tokenizer.Token attribute) _text_with_ws (medcat.tokenizing.regex_impl.tokenizer.Token attribute) _to_key() (medcat.components.linking.two_step_context_based_linker.PerEntityWeights method) _to_skip (medcat.tokenizing.regex_impl.tokenizer.Token attribute) _token_index (medcat.tokenizing.regex_impl.tokenizer.Token attribute) _tokenizer (medcat.cat.Pipeline attribute) (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) (medcat.model_creation.cdb_maker.Pipeline attribute) (medcat.pipeline.pipeline.Pipeline attribute) (medcat.trainer.Pipeline attribute) _TOKENIZERS_REGISTRY (in module medcat.tokenizing.tokenizers) _tokens (medcat.tokenizing.regex_impl.tokenizer.Document attribute) _tokens2vecs() (medcat.components.linking.context_based_linker.ContextModel method) (medcat.components.linking.two_step_context_based_linker.ContextModel method) (medcat.components.linking.vector_context_model.ContextModel method) _train() (medcat.components.linking.context_based_linker.Linker method) (medcat.components.linking.two_step_context_based_linker.NormalLinker method) _train_addons() (medcat.cat.Trainer method) (medcat.trainer.Trainer method) _train_epoch() (medcat.components.addons.relation_extraction.rel_cat.RelCAT method) (medcat.utils.legacy.convert_rel_cat.RelCAT method) _train_for_tuis() (medcat.components.linking.two_step_context_based_linker.TwoStepLinker method) _train_meta_cat() (medcat.cat.Trainer method) (medcat.trainer.Trainer method) _train_on_doc() (medcat.components.linking.context_based_linker.Linker method) (medcat.components.linking.two_step_context_based_linker.NormalLinker method) _train_supervised_for_project() (medcat.cat.Trainer method) (medcat.trainer.Trainer method) _train_supervised_for_project2() (medcat.cat.Trainer method) (medcat.trainer.Trainer method) _train_tuis() (medcat.components.linking.two_step_context_based_linker.TwoStepLinker method) _train_unsupervised() (medcat.cat.Trainer method) (medcat.trainer.Trainer method) _trainer (medcat.cat.CAT attribute) (medcat.components.ner.trf.deid.CAT attribute) (medcat.components.ner.trf.model.CAT attribute) (medcat.stats.kfold.CAT attribute) (medcat.stats.stats.CAT attribute) (medcat.utils.legacy.conversion_all.CAT attribute) (medcat.utils.legacy.helpers.CAT attribute) (medcat.utils.regression.checking.CAT attribute) (medcat.utils.regression.regression_checker.CAT attribute) _tui_context_model (medcat.components.linking.two_step_context_based_linker.TwoStepLinker attribute) _type (medcat.components.addons.addons.Registry attribute) (medcat.components.types.Registry attribute) (medcat.tokenizing.tokenizers.Registry attribute) (medcat.utils.registry.Registry attribute) _type_key (medcat.storage.jsonserialiser.TypeRegistry attribute) _update_dict() (in module medcat.preprocessors.cleaners) _upload_modified_files() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) _validate() (medcat.utils.legacy.conversion_all.Converter method) (medcat.utils.legacy.legacy_converter.Converter method) _version (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) _versioning() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) _weigh_on_inference() (medcat.components.linking.two_step_context_based_linker.TwoStepLinker method) _weight_calculator (medcat.stats.kfold.WeightedDocumentsCreator attribute) _weighted_docs (medcat.stats.kfold.WeightedDocumentsCreator attribute) _wrapped_call_impl() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method)

A

AbstractCoreComponent (class in medcat.cat) (class in medcat.components.linking.context_based_linker) (class in medcat.components.linking.no_action_linker) (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.components.ner.dict_based_ner) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.components.ner.vocab_based_ner) (class in medcat.components.normalizing.normalizer) (class in medcat.components.tagging.tagger) (class in medcat.components.types) (class in medcat.pipeline.pipeline) AbstractManualSerialisable (class in medcat.storage.serialisables) AbstractSerialisable (class in medcat.cat) (class in medcat.cdb.cdb) (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.components.linking.vector_context_model) (class in medcat.storage.serialisables) (class in medcat.utils.envsnapshot) (class in medcat.vocab) acc (medcat.cat.Entity attribute) (medcat.components.ner.trf.deid.Entity attribute) (medcat.data.entities.Entity attribute) (medcat.utils.regression.results.Entity attribute) activation (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) adam_betas (medcat.config.config_rel_cat.Train attribute) adam_epsilon (medcat.config.config_rel_cat.Train attribute) adam_weight_decay (medcat.config.config_rel_cat.Train attribute) add() (medcat.stats.kfold.PerCUIMetrics method) add_addon() (medcat.cat.CAT method) (medcat.cat.Pipeline method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.Pipeline method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.trainer.Pipeline method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) add_and_train_concept() (medcat.cat.Trainer method) (medcat.trainer.Trainer method) add_cross_attention (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) add_doc_strings_to_enum() (in module medcat.utils.regression.results) (in module medcat.utils.regression.utils) add_module() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) add_names() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) add_new_concepts() (medcat.components.ner.trf.deid.DeIdModel method) (medcat.components.ner.trf.deid.NerModel method) (medcat.components.ner.trf.model.NerModel method) add_prefix_space (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) add_special_tokens() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) add_sup_training() (medcat.config.config.ModelMeta method) (medcat.utils.cdb_state.ModelMeta method) add_tokens() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) add_tuis_to_cui_info() (in module medcat.components.linking.two_step_context_based_linker) add_types() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) add_unsup_training() (medcat.config.config.ModelMeta method) (medcat.utils.cdb_state.ModelMeta method) add_vec() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) add_word() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) add_words() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) added_tokens_decoder (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama property) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT property) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper property) added_tokens_encoder (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama property) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT property) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper property)

additional (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) addl_info (medcat.cat.CDB attribute) (medcat.cdb.CDB attribute) (medcat.cdb.cdb.CDB attribute) (medcat.components.addons.addons.CDB attribute) (medcat.components.addons.meta_cat.meta_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_dataset.CDB attribute) (medcat.components.linking.context_based_linker.CDB attribute) (medcat.components.linking.no_action_linker.CDB attribute) (medcat.components.linking.two_step_context_based_linker.CDB attribute) (medcat.components.ner.dict_based_ner.CDB attribute) (medcat.components.ner.trf.deid.CDB attribute) (medcat.components.ner.trf.helpers.CDB attribute) (medcat.components.ner.trf.model.CDB attribute) (medcat.components.ner.trf.transformers_ner.CDB attribute) (medcat.components.ner.vocab_based_annotator.CDB attribute) (medcat.components.ner.vocab_based_ner.CDB attribute) (medcat.components.normalizing.normalizer.CDB attribute) (medcat.components.tagging.tagger.CDB attribute) (medcat.components.types.CDB attribute) (medcat.model_creation.cdb_maker.CDB attribute) (medcat.pipeline.pipeline.CDB attribute) (medcat.stats.stats.StatsBuilder attribute) (medcat.trainer.CDB attribute) (medcat.utils.data_utils.CDB attribute) (medcat.utils.legacy.convert_cdb.CDB attribute) (medcat.utils.legacy.convert_deid.CDB attribute) (medcat.utils.legacy.convert_rel_cat.CDB attribute) (medcat.utils.legacy.helpers.CDB attribute) (medcat.utils.regression.targeting.CDB attribute) (medcat.utils.vocab_utils.CDB attribute) addl_rels_max_sample_size (medcat.config.config_rel_cat.General attribute) addon_type (medcat.cat.AddonComponent property) (medcat.components.addons.addons.AddonComponent property) (medcat.components.addons.meta_cat.meta_cat.AddonComponent property) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon 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(medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama property) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT property) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper property) allow_any_combinations (medcat.utils.regression.checking.OptionSet 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annotate_name() (in module medcat.components.ner.vocab_based_annotator) annotation_output (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.config.Config attribute) (medcat.config.config.Config attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config 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medcat.utils.cdb_state) apply_chat_template() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) architectures (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) args (medcat.utils.legacy.convert_cdb.LegacyClassNotFound attribute) as_target_tokenizer() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) attempt_unpack() (medcat.cat.CAT class method) (medcat.components.ner.trf.deid.CAT class method) (medcat.components.ner.trf.model.CAT class method) (medcat.stats.kfold.CAT class method) (medcat.stats.stats.CAT class method) (medcat.utils.legacy.conversion_all.CAT class method) (medcat.utils.legacy.helpers.CAT class method) (medcat.utils.regression.checking.CAT class method) (medcat.utils.regression.regression_checker.CAT class method) attribute_map (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) AU (medcat.model_creation.preprocess_snomed.SupportedExtension attribute) au_ext (medcat.model_creation.preprocess_snomed.Snomed attribute) auto_save_model (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.Train attribute) AUTOMATIC (medcat.cdb.cdb.ST attribute) (medcat.components.linking.context_based_linker.ST attribute) (medcat.components.linking.two_step_context_based_linker.ST attribute) (medcat.components.linking.vector_context_model.ST attribute) (medcat.utils.defaults.StatusTypes attribute) automaton (medcat.components.ner.dict_based_ner.NER attribute) AvailableSerialisers (class in medcat.cat) (class in medcat.cdb.cdb) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.config.config_meta_cat) (class in medcat.pipeline.pipeline) (class in medcat.storage.jsonserialiser) (class in medcat.storage.serialisers) (class in medcat.utils.legacy.conversion_all) (class in medcat.utils.legacy.legacy_converter) (class in medcat.vocab) average_confidence (medcat.cdb.cdb.CUIInfo attribute) (medcat.cdb.concepts.CUIInfo attribute) (medcat.components.linking.two_step_context_based_linker.CUIInfo attribute) (medcat.components.linking.vector_context_model.CUIInfo attribute) (medcat.stats.stats.CUIInfo attribute) (medcat.utils.cdb_state.CUIInfo attribute) (medcat.utils.regression.targeting.CUIInfo attribute) AVOID_LEGACY_CONVERSION_ENVIRON (in module medcat.cat) (in module medcat.utils.defaults)

B

backend_tokenizer (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama property) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT property) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper property) BalancedBatchSampler (class in medcat.components.addons.relation_extraction.rel_cat) base (medcat.cat.MutableDocument property) (medcat.cat.MutableEntity property) (medcat.components.addons.addons.MutableEntity property) (medcat.components.addons.meta_cat.meta_cat.MutableDocument property) (medcat.components.addons.meta_cat.meta_cat.MutableEntity property) (medcat.components.addons.relation_extraction.rel_cat.MutableDocument property) (medcat.components.addons.relation_extraction.rel_dataset.MutableDocument property) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity property) (medcat.components.linking.context_based_linker.MutableDocument property) (medcat.components.linking.context_based_linker.MutableEntity property) (medcat.components.linking.no_action_linker.MutableDocument property) (medcat.components.linking.two_step_context_based_linker.MutableDocument property) (medcat.components.linking.two_step_context_based_linker.MutableEntity property) (medcat.components.linking.vector_context_model.MutableDocument property) (medcat.components.linking.vector_context_model.MutableEntity property) (medcat.components.linking.vector_context_model.MutableToken property) (medcat.components.ner.dict_based_ner.MutableDocument property) (medcat.components.ner.trf.model.MutableDocument property) (medcat.components.ner.trf.transformers_ner.MutableDocument property) (medcat.components.ner.trf.transformers_ner.MutableEntity property) (medcat.components.ner.vocab_based_annotator.MutableDocument property) (medcat.components.ner.vocab_based_annotator.MutableEntity property) (medcat.components.ner.vocab_based_annotator.MutableToken property) (medcat.components.ner.vocab_based_ner.MutableDocument property) (medcat.components.normalizing.normalizer.MutableDocument property) (medcat.components.tagging.tagger.MutableDocument property) (medcat.components.types.MutableDocument property) (medcat.components.types.MutableEntity property) (medcat.pipeline.pipeline.MutableDocument property) (medcat.pipeline.pipeline.MutableEntity property) (medcat.pipeline.pipeline.MutableToken property) (medcat.preprocessors.cleaners.MutableDocument property) (medcat.stats.stats.MutableDocument property) (medcat.stats.stats.MutableEntity property) (medcat.tokenizing.regex_impl.tokenizer.Document property) (medcat.tokenizing.regex_impl.tokenizer.Entity property) (medcat.tokenizing.regex_impl.tokenizer.MutableDocument property) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity property) (medcat.tokenizing.regex_impl.tokenizer.MutableToken property) (medcat.tokenizing.regex_impl.tokenizer.Token property) (medcat.tokenizing.spacy_impl.tokenizers.Document property) (medcat.tokenizing.spacy_impl.tokenizers.Entity property) (medcat.tokenizing.spacy_impl.tokenizers.MutableDocument property) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity property) (medcat.tokenizing.spacy_impl.tokenizers.MutableToken property) (medcat.tokenizing.spacy_impl.tokenizers.Token property) (medcat.tokenizing.spacy_impl.tokens.Document property) (medcat.tokenizing.spacy_impl.tokens.Entity property) (medcat.tokenizing.spacy_impl.tokens.MutableEntity property) (medcat.tokenizing.spacy_impl.tokens.MutableToken property) (medcat.tokenizing.spacy_impl.tokens.Token property) (medcat.tokenizing.tokenizers.MutableDocument property) (medcat.tokenizing.tokenizers.MutableEntity property) (medcat.tokenizing.tokenizers.MutableToken property) (medcat.tokenizing.tokens.MutableDocument property) (medcat.tokenizing.tokens.MutableEntity property) (medcat.tokenizing.tokens.MutableToken property) (medcat.trainer.MutableDocument property) (medcat.trainer.MutableEntity property) (medcat.trainer.MutableToken property) (medcat.utils.data_utils.MutableDocument property) (medcat.utils.data_utils.MutableEntity property) (medcat.utils.postprocessing.MutableDocument property) (medcat.utils.postprocessing.MutableEntity property) base_config_key (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) base_model_tp_plan (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) base_tokenizer (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon attribute) (medcat.components.addons.meta_cat.MetaCATAddon attribute) (medcat.components.addons.relation_extraction.rel_cat.RelCAT attribute) (medcat.components.ner.trf.transformers_ner.TransformersNERComponent attribute) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon attribute) (medcat.utils.legacy.convert_rel_cat.RelCAT attribute) BaseComponent (class in medcat.components.addons.addons) (class in medcat.components.types) (class in medcat.pipeline.pipeline) BaseDocument (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokens) (class in medcat.tokenizing.tokens) BaseEntity (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokens) (class in medcat.tokenizing.tokens) BaseModelBluePrint (class in medcat.components.addons.relation_extraction.models) BaseToken (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokens) (class in medcat.tokenizing.tokens) BaseTokenizer (class in medcat.components.addons.addons) (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.components.addons.relation_extraction.rel_cat) (class in medcat.components.linking.context_based_linker) (class in medcat.components.linking.no_action_linker) (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.components.ner.dict_based_ner) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.components.ner.vocab_based_annotator) (class in medcat.components.ner.vocab_based_ner) (class in medcat.components.normalizing.normalizer) (class in medcat.components.tagging.tagger) (class in medcat.components.types) (class in medcat.pipeline.pipeline) (class in medcat.preprocessors.cleaners) (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokenizers) (class in medcat.tokenizing.tokenizers) (class in medcat.utils.legacy.convert_deid) (class in medcat.utils.legacy.convert_meta_cat) (class in medcat.utils.legacy.convert_rel_cat)

BaseTokenizerWrapper (class in medcat.components.addons.relation_extraction.base_component) (class in medcat.components.addons.relation_extraction.bert.tokenizer) (class in medcat.components.addons.relation_extraction.llama.tokenizer) (class in medcat.components.addons.relation_extraction.ml_utils) (class in medcat.components.addons.relation_extraction.modernbert.tokenizer) (class in medcat.components.addons.relation_extraction.rel_dataset) (class in medcat.components.addons.relation_extraction.tokenizer) BasicSpellChecker (class in medcat.components.normalizing.normalizer) (class in medcat.utils.regression.checking) batch_decode() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) batch_encode_plus() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) batch_generator() (medcat.components.addons.meta_cat.meta_cat.MetaCAT static method) (medcat.components.addons.meta_cat.MetaCAT static method) (medcat.components.ner.trf.transformers_ner.TransformersNERComponent static method) (medcat.utils.legacy.convert_meta_cat.MetaCAT static method) batch_size (medcat.components.addons.relation_extraction.rel_cat.BalancedBatchSampler attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) batch_size_eval (medcat.config.config_meta_cat.General attribute) batching_minority_limit (medcat.config.config_rel_cat.Train attribute) batching_samples_per_class (medcat.config.config_rel_cat.Train attribute) bert (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) BertForMetaAnnotation (class in medcat.components.addons.meta_cat.models) best_f1 (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent attribute) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent attribute) bfloat16() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) BIGGER_SPAN_BOTH (medcat.utils.regression.checking.Finding attribute) (medcat.utils.regression.regression_checker.Finding attribute) (medcat.utils.regression.results.Finding attribute) BIGGER_SPAN_LEFT (medcat.utils.regression.checking.Finding attribute) (medcat.utils.regression.regression_checker.Finding attribute) (medcat.utils.regression.results.Finding attribute) BIGGER_SPAN_RIGHT (medcat.utils.regression.checking.Finding attribute) (medcat.utils.regression.regression_checker.Finding attribute) (medcat.utils.regression.results.Finding attribute) bos_token_id (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) buffers() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) build_inputs_with_special_tokens() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) BUILDER_CONFIGS (medcat.utils.ner.transformers_ner.TransformersDatasetNER attribute) bundle (medcat.model_creation.preprocess_snomed.Snomed attribute) BundleDescriptor (class in medcat.model_creation.preprocess_snomed)

C

C (in module medcat.config.config) calc_matrix() (in module medcat.utils.vocab_utils) calculate_dynamic_threshold (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) calculate_label_map() (medcat.components.ner.trf.tokenizer.TransformersTokenizer method) (medcat.components.ner.trf.transformers_ner.TransformersTokenizer method) calculate_report() (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.results.MultiDescriptor method) call_super_init (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) callback_iterator() (in module medcat.config.config) (in module medcat.utils.iterutils) caller (medcat.cat.Trainer attribute) (medcat.trainer.Trainer attribute) can_save_slow_tokenizer (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama property) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT property) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper property) candidates() (medcat.components.normalizing.normalizer.BasicSpellChecker method) (medcat.utils.regression.checking.BasicSpellChecker method) captured_state_cdb() (in module medcat.stats.kfold) (in module medcat.utils.cdb_state) cases (medcat.utils.regression.checking.RegressionSuite attribute) (medcat.utils.regression.regression_checker.RegressionSuite attribute) CAT (class in medcat.cat) (class in medcat.components.ner.trf.deid) (class in medcat.components.ner.trf.model) (class in medcat.stats.kfold) (class in medcat.stats.stats) (class in medcat.utils.legacy.conversion_all) (class in medcat.utils.legacy.helpers) (class in medcat.utils.regression.checking) (class in medcat.utils.regression.regression_checker) cat (medcat.components.ner.trf.deid.DeIdModel attribute) (medcat.components.ner.trf.deid.NerModel attribute) (medcat.components.ner.trf.model.NerModel attribute) category_name (medcat.config.config_meta_cat.General attribute) category_undersample (medcat.config.config_meta_cat.Model attribute) category_value2id (medcat.config.config_meta_cat.General attribute) CDB (class in medcat.cat) (class in medcat.cdb) (class in medcat.cdb.cdb) (class in medcat.components.addons.addons) (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.components.addons.relation_extraction.rel_cat) (class in medcat.components.addons.relation_extraction.rel_dataset) (class in medcat.components.linking.context_based_linker) (class in medcat.components.linking.no_action_linker) (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.components.ner.dict_based_ner) (class in medcat.components.ner.trf.deid) (class in medcat.components.ner.trf.helpers) (class in medcat.components.ner.trf.model) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.components.ner.vocab_based_annotator) (class in medcat.components.ner.vocab_based_ner) (class in medcat.components.normalizing.normalizer) (class in medcat.components.tagging.tagger) (class in medcat.components.types) (class in medcat.model_creation.cdb_maker) (class in medcat.pipeline.pipeline) (class in medcat.trainer) (class in medcat.utils.data_utils) (class in medcat.utils.legacy.convert_cdb) (class in medcat.utils.legacy.convert_deid) (class in medcat.utils.legacy.convert_rel_cat) (class in medcat.utils.legacy.helpers) (class in medcat.utils.regression.targeting) (class in medcat.utils.vocab_utils) cdb (in module medcat.utils.legacy.convert_rel_cat) (medcat.cat.CAT attribute) (medcat.cat.Pipeline attribute) (medcat.cat.Trainer attribute) (medcat.components.addons.relation_extraction.rel_cat.RelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.RelData attribute) (medcat.components.addons.relation_extraction.rel_dataset.RelData attribute) (medcat.components.linking.context_based_linker.Linker attribute) (medcat.components.linking.two_step_context_based_linker.NormalLinker attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker attribute) (medcat.components.ner.dict_based_ner.NER attribute) (medcat.components.ner.trf.deid.CAT attribute) (medcat.components.ner.trf.deid.DeIdModel property) (medcat.components.ner.trf.deid.NerModel property) (medcat.components.ner.trf.model.CAT attribute) (medcat.components.ner.trf.model.NerModel property) (medcat.components.ner.trf.transformers_ner.TransformersNERComponent attribute) (medcat.components.ner.vocab_based_ner.NER attribute) (medcat.model_creation.cdb_maker.Pipeline attribute) (medcat.pipeline.pipeline.Pipeline attribute) (medcat.stats.kfold.CAT attribute) (medcat.stats.stats.CAT attribute) (medcat.trainer.Pipeline attribute) (medcat.trainer.Trainer attribute) (medcat.utils.data_utils.TestTrainSplitter attribute) (medcat.utils.legacy.conversion_all.CAT attribute) (medcat.utils.legacy.convert_rel_cat.RelCAT attribute) (medcat.utils.legacy.helpers.CAT attribute) (medcat.utils.regression.checking.CAT attribute) (medcat.utils.regression.regression_checker.CAT attribute) cdb_maker (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.config.Config attribute) (medcat.config.config.Config attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) cdb_name (medcat.utils.legacy.conversion_all.Converter attribute) (medcat.utils.legacy.legacy_converter.Converter attribute) CDBInfo (in module medcat.cdb.cdb) (in module medcat.data.model_card) CDBMaker (class in medcat.config.config) (class in medcat.model_creation.cdb_maker) (class in medcat.trainer) CDBState (in module medcat.utils.cdb_state) changed_learning_rate() (in module medcat.components.linking.two_step_context_based_linker) changer (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) char_index (medcat.tokenizing.regex_impl.tokenizer.BaseToken property) (medcat.tokenizing.regex_impl.tokenizer.Token property) (medcat.tokenizing.spacy_impl.tokenizers.Token property) (medcat.tokenizing.spacy_impl.tokens.BaseToken property) (medcat.tokenizing.spacy_impl.tokens.Token property) (medcat.tokenizing.tokens.BaseToken property) chat_template (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) check_children (medcat.utils.regression.results.FindingDeterminer attribute) check_filters() (medcat.config.config.LinkingFilters method) (medcat.stats.stats.LinkingFilters method) (medcat.utils.filters.LinkingFilters method) check_grandparent (medcat.utils.regression.results.FindingDeterminer attribute) check_model() (medcat.utils.regression.checking.RegressionSuite method) (medcat.utils.regression.regression_checker.RegressionSuite method) check_parent (medcat.utils.regression.results.FindingDeterminer attribute) check_ser_type() (medcat.storage.jsonserialiser.JsonSerialiser method) (medcat.storage.jsonserialiser.Serialiser method) (medcat.storage.serialisers.DillSerialiser method) (medcat.storage.serialisers.Serialiser method) check_specific_for_phrase() (medcat.utils.regression.checking.RegressionCase method) check_upper_case_names (medcat.config.config.Ner attribute) checkpoint_path (medcat.components.addons.relation_extraction.rel_cat.RelCAT attribute) (medcat.utils.legacy.convert_rel_cat.RelCAT attribute) children() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) chunk_size_feed_forward (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) chunking_overlap_window (medcat.config.config_transformers_ner.General attribute) class_weights (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.Train attribute) classes (medcat.components.addons.relation_extraction.rel_cat.BalancedBatchSampler attribute) clean_up_tokenization() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper static method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper static method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT static method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper static method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama static method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper static method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper static method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT static method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper static method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper static method) clean_up_tokenization_spaces (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) clear() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.PerEntityWeights method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) clogger (in module medcat.utils.legacy.legacy_converter) cls (medcat.tokenizing.regex_impl.tokenizer.UnregisteredDataPathException attribute) (medcat.tokenizing.spacy_impl.tokens.UnregisteredDataPathException attribute) (medcat.tokenizing.tokens.UnregisteredDataPathException attribute) cnf_cm (medcat.model_creation.cdb_maker.CDBMaker attribute) cnf_p (medcat.components.tagging.tagger.TagAndSkipTagger attribute) cntx_left (medcat.config.config_meta_cat.General attribute) (medcat.config.config_rel_cat.General attribute) cntx_right (medcat.config.config_meta_cat.General attribute) (medcat.config.config_rel_cat.General attribute) CollateAndPadNER (class in medcat.components.ner.trf.transformers_ner) (class in medcat.utils.ner.data_collator) common_prefix (medcat.model_creation.preprocess_snomed.FileFormatDescriptor attribute) comp_name (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Linking attribute) (medcat.config.config.Ner attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) comp_order (medcat.config.config.Components attribute) CompClass (in module medcat.components.types) compile() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) component (medcat.components.addons.relation_extraction.rel_cat.RelCAT attribute) (medcat.utils.legacy.convert_rel_cat.RelCAT attribute) ComponentConfig (class in medcat.components.addons.addons) (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.components.addons.relation_extraction.rel_cat) (class in medcat.components.linking.context_based_linker) (class in medcat.components.linking.no_action_linker) (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.components.ner.dict_based_ner) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.components.ner.vocab_based_ner) (class in medcat.components.normalizing.normalizer) (class in medcat.components.tagging.tagger) (class in medcat.components.types) (class in medcat.config.config) (class in medcat.config.config_meta_cat) (class in medcat.config.config_rel_cat) (class in medcat.pipeline.pipeline) Components (class in medcat.config.config) components (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.config.Config attribute) (medcat.config.config.Config attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.DelegatingTokenizer attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) COMPONENTS_FOLDER (in module medcat.cat) (in module medcat.components.addons.meta_cat.meta_cat) (in module medcat.components.addons.relation_extraction.rel_cat) (in module medcat.components.ner.trf.transformers_ner) (in module medcat.pipeline.pipeline) (in module medcat.utils.defaults) compute_class_weights (medcat.config.config_meta_cat.Train attribute) concept (medcat.model_creation.preprocess_snomed.FileFormatDescriptor attribute) (medcat.model_creation.preprocess_snomed.RefSetFileType attribute) confidence (medcat.cat.MutableEntity property) (medcat.components.addons.addons.MutableEntity property) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument attribute) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue attribute) (medcat.components.addons.meta_cat.meta_cat.MutableEntity property) (medcat.components.addons.meta_cat.MetaAnnotationValue attribute) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity property) (medcat.components.linking.context_based_linker.MutableEntity property) (medcat.components.linking.two_step_context_based_linker.MutableEntity property) (medcat.components.linking.vector_context_model.MutableEntity property) (medcat.components.ner.trf.transformers_ner.MutableEntity property) (medcat.components.ner.vocab_based_annotator.MutableEntity property) (medcat.components.types.MutableEntity property) (medcat.data.entities.MetaAnnotation attribute) (medcat.pipeline.pipeline.MutableEntity property) (medcat.stats.stats.MutableEntity property) (medcat.tokenizing.regex_impl.tokenizer.Entity attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity property) (medcat.tokenizing.spacy_impl.tokenizers.Entity attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity property) (medcat.tokenizing.spacy_impl.tokens.Entity attribute) (medcat.tokenizing.spacy_impl.tokens.MutableEntity property) (medcat.tokenizing.tokenizers.MutableEntity property) (medcat.tokenizing.tokens.MutableEntity property) (medcat.trainer.MutableEntity property) (medcat.utils.data_utils.MutableEntity property) (medcat.utils.postprocessing.MutableEntity property) Config (class in medcat.cat) (class in medcat.cdb.cdb) (class in medcat.components.addons.relation_extraction.rel_cat) (class in medcat.components.linking.context_based_linker) (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.components.ner.trf.helpers) (class in medcat.components.ner.trf.model) (class in medcat.components.ner.vocab_based_annotator) (class in medcat.components.normalizing.normalizer) (class in medcat.config) (class in medcat.config.config) (class in medcat.model_creation.cdb_maker) (class in medcat.pipeline.pipeline) (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokenizers) (class in medcat.tokenizing.tokenizers) (class in medcat.utils.legacy.convert_cdb) (class in medcat.utils.legacy.convert_config) config (medcat.cat.AddonComponent attribute) (medcat.cat.CAT attribute) (medcat.cat.CDB attribute) (medcat.cat.Pipeline attribute) (medcat.cat.Trainer attribute) (medcat.cat.UsageMonitor attribute) (medcat.cdb.CDB attribute) (medcat.cdb.cdb.CDB attribute) (medcat.components.addons.addons.AddonComponent attribute) (medcat.components.addons.addons.CDB attribute) (medcat.components.addons.meta_cat.meta_cat.AddonComponent attribute) (medcat.components.addons.meta_cat.meta_cat.CDB attribute) (medcat.components.addons.meta_cat.meta_cat.MetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon attribute) (medcat.components.addons.meta_cat.MetaCAT attribute) (medcat.components.addons.meta_cat.MetaCATAddon attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent attribute) (medcat.components.addons.relation_extraction.rel_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon attribute) (medcat.components.addons.relation_extraction.rel_cat.RelData attribute) (medcat.components.addons.relation_extraction.rel_dataset.CDB attribute) (medcat.components.addons.relation_extraction.rel_dataset.RelData attribute) (medcat.components.linking.context_based_linker.CDB attribute) (medcat.components.linking.context_based_linker.ContextModel attribute) (medcat.components.linking.context_based_linker.Linker attribute) (medcat.components.linking.no_action_linker.CDB attribute) (medcat.components.linking.two_step_context_based_linker.CDB attribute) (medcat.components.linking.two_step_context_based_linker.ContextModel attribute) (medcat.components.linking.two_step_context_based_linker.NormalLinker attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker attribute) (medcat.components.linking.vector_context_model.ContextModel attribute) (medcat.components.ner.dict_based_ner.CDB attribute) (medcat.components.ner.dict_based_ner.NER attribute) (medcat.components.ner.trf.deid.CAT attribute) (medcat.components.ner.trf.deid.CDB attribute) (medcat.components.ner.trf.deid.DeIdModel property) (medcat.components.ner.trf.deid.NerModel property) (medcat.components.ner.trf.helpers.CDB attribute) (medcat.components.ner.trf.model.CAT attribute) (medcat.components.ner.trf.model.CDB attribute) (medcat.components.ner.trf.model.NerModel property) (medcat.components.ner.trf.transformers_ner.CDB attribute) (medcat.components.ner.trf.transformers_ner.TransformersNERComponent attribute) (medcat.components.ner.vocab_based_annotator.CDB attribute) (medcat.components.ner.vocab_based_ner.CDB attribute) (medcat.components.ner.vocab_based_ner.NER attribute) (medcat.components.normalizing.normalizer.BasicSpellChecker attribute) (medcat.components.normalizing.normalizer.CDB attribute) (medcat.components.normalizing.normalizer.TokenNormalizer attribute) (medcat.components.tagging.tagger.CDB attribute) (medcat.components.types.CDB attribute) (medcat.model_creation.cdb_maker.CDB attribute) (medcat.model_creation.cdb_maker.CDBMaker attribute) (medcat.model_creation.cdb_maker.Pipeline attribute) (medcat.pipeline.pipeline.AddonComponent attribute) (medcat.pipeline.pipeline.CDB attribute) (medcat.pipeline.pipeline.Pipeline attribute) (medcat.stats.kfold.CAT attribute) (medcat.stats.stats.CAT attribute) (medcat.trainer.AddonComponent attribute) (medcat.trainer.CDB attribute) (medcat.trainer.Pipeline attribute) (medcat.trainer.Trainer attribute) (medcat.utils.data_utils.CDB attribute) (medcat.utils.legacy.conversion_all.CAT attribute) (medcat.utils.legacy.convert_cdb.CDB attribute) (medcat.utils.legacy.convert_deid.CDB attribute) (medcat.utils.legacy.convert_meta_cat.MetaCAT attribute) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon attribute) (medcat.utils.legacy.convert_rel_cat.CDB attribute) (medcat.utils.legacy.convert_rel_cat.RelCATAddon attribute) (medcat.utils.legacy.helpers.CAT attribute) (medcat.utils.legacy.helpers.CDB attribute) (medcat.utils.regression.checking.BasicSpellChecker attribute) (medcat.utils.regression.checking.CAT attribute) (medcat.utils.regression.regression_checker.CAT attribute) (medcat.utils.regression.targeting.CDB attribute) (medcat.utils.usage_monitoring.UsageMonitor attribute) (medcat.utils.vocab_utils.CDB attribute) CONFIG_KEEP_IDENTICAL (in module medcat.utils.legacy.convert_config) CONFIG_MOVE (in module medcat.utils.legacy.convert_config) CONFIG_MOVE_OPTIONAL (in module medcat.utils.legacy.convert_config) config_name (medcat.utils.legacy.conversion_all.Converter attribute) (medcat.utils.legacy.legacy_converter.Converter attribute) ConfigMetaCAT (class in medcat.components.addons.meta_cat.mctokenizers.tokenizers) (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.components.addons.meta_cat.ml_utils) (class in medcat.components.addons.meta_cat.models) (class in medcat.config.config_meta_cat) (class in medcat.pipeline.pipeline) (class in medcat.utils.legacy.convert_meta_cat) ConfigMetaCAT.Config (class in medcat.components.addons.meta_cat.mctokenizers.tokenizers) (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.components.addons.meta_cat.ml_utils) (class in medcat.components.addons.meta_cat.models) (class in medcat.config.config_meta_cat) (class in medcat.pipeline.pipeline) (class in medcat.utils.legacy.convert_meta_cat) ConfigRelCAT (class in medcat.components.addons.relation_extraction.base_component) (class in medcat.components.addons.relation_extraction.bert.config) (class in medcat.components.addons.relation_extraction.bert.model) (class in medcat.components.addons.relation_extraction.bert.tokenizer) (class in medcat.components.addons.relation_extraction.config) (class in medcat.components.addons.relation_extraction.llama.config) (class in medcat.components.addons.relation_extraction.llama.model) (class in medcat.components.addons.relation_extraction.llama.tokenizer) (class in medcat.components.addons.relation_extraction.ml_utils) (class in medcat.components.addons.relation_extraction.models) (class in medcat.components.addons.relation_extraction.modernbert.config) (class in medcat.components.addons.relation_extraction.modernbert.model) (class in medcat.components.addons.relation_extraction.modernbert.tokenizer) (class in medcat.components.addons.relation_extraction.rel_cat) (class in medcat.components.addons.relation_extraction.rel_dataset) (class in medcat.components.addons.relation_extraction.tokenizer) (class in medcat.config.config_rel_cat) (class in medcat.pipeline.pipeline) (class in medcat.utils.legacy.convert_rel_cat) ConfigRelCAT.Config (class in medcat.components.addons.relation_extraction.base_component) (class in medcat.components.addons.relation_extraction.bert.config) (class in medcat.components.addons.relation_extraction.bert.model) (class in medcat.components.addons.relation_extraction.bert.tokenizer) (class in medcat.components.addons.relation_extraction.config) (class in medcat.components.addons.relation_extraction.llama.config) (class in medcat.components.addons.relation_extraction.llama.model) (class in medcat.components.addons.relation_extraction.llama.tokenizer) (class in medcat.components.addons.relation_extraction.ml_utils) (class in medcat.components.addons.relation_extraction.models) (class in medcat.components.addons.relation_extraction.modernbert.config) (class in medcat.components.addons.relation_extraction.modernbert.model) (class in medcat.components.addons.relation_extraction.modernbert.tokenizer) (class in medcat.components.addons.relation_extraction.rel_cat) (class in medcat.components.addons.relation_extraction.rel_dataset) (class in medcat.components.addons.relation_extraction.tokenizer) (class in medcat.config.config_rel_cat) (class in medcat.pipeline.pipeline) (class in medcat.utils.legacy.convert_rel_cat) ConfigTransformersNER (class in medcat.components.ner.trf.deid) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.config.config_transformers_ner) (class in medcat.utils.legacy.convert_deid) ConfigTransformersNER.Config (class in medcat.components.ner.trf.deid) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.config.config_transformers_ner) (class in medcat.utils.legacy.convert_deid) construct() (medcat.cat.Config class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.types.ComponentConfig class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.Environment class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.stats.kfold.PerCUIMetrics class method) (medcat.stats.stats.LinkingFilters class method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.regression.checking.FinalTarget class method) (medcat.utils.regression.checking.MetaData class method) (medcat.utils.regression.checking.MultiDescriptor class method) (medcat.utils.regression.checking.OptionSet class method) (medcat.utils.regression.checking.RegressionCase class method) (medcat.utils.regression.checking.ResultDescriptor class method) (medcat.utils.regression.checking.TargetedPhraseChanger class method) (medcat.utils.regression.results.FinalTarget class method) (medcat.utils.regression.results.MultiDescriptor class method) (medcat.utils.regression.results.ResultDescriptor class method) (medcat.utils.regression.results.SingleResultDescriptor class method) (medcat.utils.regression.targeting.FinalTarget class method) (medcat.utils.regression.targeting.OptionSet class method) (medcat.utils.regression.targeting.PhraseChanger class method) (medcat.utils.regression.targeting.TargetedPhraseChanger class method) (medcat.utils.regression.targeting.TargetPlaceholder class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method)

CONTAINS_NUMBER (in module medcat.components.normalizing.normalizer) context_center (medcat.cat.Entity attribute) (medcat.components.ner.trf.deid.Entity attribute) (medcat.data.entities.Entity attribute) (medcat.utils.regression.results.Entity attribute) context_ignore_center_tokens (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) context_left (medcat.cat.Entity attribute) (medcat.components.ner.trf.deid.Entity attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.data.entities.Entity attribute) (medcat.utils.regression.results.Entity attribute) context_model (medcat.components.linking.context_based_linker.Linker attribute) (medcat.components.linking.two_step_context_based_linker.NormalLinker attribute) context_right (medcat.cat.Entity attribute) (medcat.components.ner.trf.deid.Entity attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.data.entities.Entity attribute) (medcat.utils.regression.results.Entity attribute) context_similarity (medcat.cat.Entity attribute) (medcat.cat.MutableEntity property) (medcat.components.addons.addons.MutableEntity property) (medcat.components.addons.meta_cat.meta_cat.MutableEntity property) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity property) (medcat.components.linking.context_based_linker.MutableEntity property) (medcat.components.linking.two_step_context_based_linker.MutableEntity property) (medcat.components.linking.vector_context_model.MutableEntity property) (medcat.components.ner.trf.deid.Entity attribute) (medcat.components.ner.trf.transformers_ner.MutableEntity property) (medcat.components.ner.vocab_based_annotator.MutableEntity property) (medcat.components.types.MutableEntity property) (medcat.data.entities.Entity attribute) (medcat.pipeline.pipeline.MutableEntity property) (medcat.stats.stats.MutableEntity property) (medcat.tokenizing.regex_impl.tokenizer.Entity attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity property) (medcat.tokenizing.spacy_impl.tokenizers.Entity attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity property) (medcat.tokenizing.spacy_impl.tokens.Entity attribute) (medcat.tokenizing.spacy_impl.tokens.MutableEntity property) (medcat.tokenizing.tokenizers.MutableEntity property) (medcat.tokenizing.tokens.MutableEntity property) (medcat.trainer.MutableEntity property) (medcat.utils.data_utils.MutableEntity property) (medcat.utils.postprocessing.MutableEntity property) (medcat.utils.regression.results.Entity attribute) context_vector_sizes (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) context_vector_weights (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) context_vectors (medcat.cdb.cdb.CUIInfo attribute) (medcat.cdb.concepts.CUIInfo attribute) (medcat.components.linking.two_step_context_based_linker.CUIInfo attribute) (medcat.components.linking.vector_context_model.CUIInfo attribute) (medcat.stats.stats.CUIInfo attribute) (medcat.utils.cdb_state.CUIInfo attribute) (medcat.utils.regression.targeting.CUIInfo attribute) ContextModel (class in medcat.components.linking.context_based_linker) (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.components.linking.vector_context_model) convert() (medcat.utils.legacy.conversion_all.Converter method) (medcat.utils.legacy.legacy_converter.Converter method) (medcat.utils.regression.checking.MedCATTrainerExportConverter method) (medcat.utils.regression.utils.MedCATTrainerExportConverter method) convert_added_tokens() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama class method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT class method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper class method) convert_context_vectors() (in module medcat.utils.vocab_utils) convert_data() (in module medcat.utils.legacy.convert_cdb) convert_ids_to_tokens() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) convert_keys_to_int() (medcat.config.config_rel_cat.General class method) convert_tokens_to_ids() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) convert_tokens_to_string() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) convert_vec() (in module medcat.utils.vocab_utils) convert_vocab() (in module medcat.utils.vocab_utils) convert_vocab_vector_size() (in module medcat.utils.vocab_utils) Converter (class in medcat.utils.legacy.conversion_all) (class in medcat.utils.legacy.legacy_converter) copy() (medcat.cat.Config method) (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.Config method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.addons.ComponentConfig method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig method) (medcat.components.addons.relation_extraction.rel_cat.Config method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT method) (medcat.components.linking.context_based_linker.ComponentConfig method) (medcat.components.linking.context_based_linker.Config method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.no_action_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.Config method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.Linking method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.dict_based_ner.ComponentConfig method) (medcat.components.ner.trf.deid.ConfigTransformersNER method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.helpers.Config method) (medcat.components.ner.trf.model.Config method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.components.ner.trf.transformers_ner.ComponentConfig method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER method) (medcat.components.ner.vocab_based_annotator.Config method) (medcat.components.ner.vocab_based_ner.ComponentConfig method) (medcat.components.normalizing.normalizer.ComponentConfig method) (medcat.components.normalizing.normalizer.Config method) (medcat.components.tagging.tagger.ComponentConfig method) (medcat.components.tagging.tagger.Preprocessing method) (medcat.components.types.ComponentConfig method) (medcat.config.Config method) (medcat.config.config.AnnotationOutput method) (medcat.config.config.CDBMaker method) (medcat.config.config.ComponentConfig method) (medcat.config.config.Components method) (medcat.config.config.Config method) (medcat.config.config.DirtiableBaseModel method) (medcat.config.config.Environment method) (medcat.config.config.General method) (medcat.config.config.Linking method) (medcat.config.config.LinkingFilters method) (medcat.config.config.ModelMeta method) (medcat.config.config.Ner method) (medcat.config.config.NLPConfig method) (medcat.config.config.Preprocessing method) (medcat.config.config.SerialisableBaseModel method) (medcat.config.config.TrainingDescriptor method) (medcat.config.config.UsageMonitor method) (medcat.config.config_meta_cat.ComponentConfig method) (medcat.config.config_meta_cat.ConfigMetaCAT method) (medcat.config.config_meta_cat.DirtiableBaseModel method) (medcat.config.config_meta_cat.General method) (medcat.config.config_meta_cat.Model method) (medcat.config.config_meta_cat.Train method) (medcat.config.config_rel_cat.ComponentConfig method) (medcat.config.config_rel_cat.ConfigRelCAT method) (medcat.config.config_rel_cat.General method) (medcat.config.config_rel_cat.Model method) (medcat.config.config_rel_cat.SerialisableBaseModel method) (medcat.config.config_rel_cat.Train method) (medcat.config.config_transformers_ner.ConfigTransformersNER method) (medcat.config.config_transformers_ner.General method) (medcat.config.config_transformers_ner.SerialisableBaseModel method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.model_creation.cdb_maker.Config method) (medcat.pipeline.pipeline.ComponentConfig method) (medcat.pipeline.pipeline.Config method) (medcat.pipeline.pipeline.ConfigMetaCAT method) (medcat.pipeline.pipeline.ConfigRelCAT method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.kfold.PerCUIMetrics method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.LinkingFilters method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.tokenizing.regex_impl.tokenizer.Config method) (medcat.tokenizing.spacy_impl.tokenizers.Config method) (medcat.tokenizing.tokenizers.Config method) (medcat.trainer.CDBMaker method) (medcat.trainer.General method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.trainer.Preprocessing method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.ModelMeta method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.envsnapshot.Environment method) (medcat.utils.filters.LinkingFilters method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.legacy.convert_cdb.Config method) (medcat.utils.legacy.convert_config.Config method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT method) (medcat.utils.regression.checking.FinalTarget method) (medcat.utils.regression.checking.MetaData method) (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.checking.OptionSet method) (medcat.utils.regression.checking.RegressionCase method) (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.checking.TargetedPhraseChanger method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.results.FinalTarget method) (medcat.utils.regression.results.MultiDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) (medcat.utils.regression.results.SingleResultDescriptor method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.FinalTarget method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.targeting.OptionSet method) (medcat.utils.regression.targeting.PhraseChanger method) (medcat.utils.regression.targeting.TargetedPhraseChanger method) (medcat.utils.regression.targeting.TargetPlaceholder method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) (medcat.utils.usage_monitoring.UsageMonitorConfig method) copy_cdb_state() (in module medcat.utils.cdb_state) CoreComponent (class in medcat.components.types) (class in medcat.pipeline.pipeline) CoreComponentType (class in medcat.components.linking.context_based_linker) (class in medcat.components.linking.no_action_linker) (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.components.ner.dict_based_ner) (class in medcat.components.ner.trf.deid) (class in medcat.components.ner.trf.model) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.components.ner.vocab_based_ner) (class in medcat.components.normalizing.normalizer) (class in medcat.components.tagging.tagger) (class in medcat.components.types) (class in medcat.pipeline.pipeline) (class in medcat.trainer) (class in medcat.utils.legacy.conversion_all) CoreConfig (class in medcat.components.addons.relation_extraction.rel_dataset) count() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) count_all_annotations() (in module medcat.data.mctexport) (in module medcat.stats.kfold) (in module medcat.trainer) count_all_docs() (in module medcat.data.mctexport) (in module medcat.stats.kfold) count_anns_per_concept() (in module medcat.components.ner.trf.helpers) (in module medcat.data.mctexport) count_train (medcat.cdb.cdb.CUIInfo attribute) (medcat.cdb.cdb.NameInfo attribute) (medcat.cdb.concepts.CUIInfo attribute) (medcat.cdb.concepts.NameInfo attribute) (medcat.components.linking.two_step_context_based_linker.CUIInfo attribute) (medcat.components.linking.vector_context_model.CUIInfo attribute) (medcat.components.linking.vector_context_model.NameInfo attribute) (medcat.stats.stats.CUIInfo attribute) (medcat.utils.cdb_state.CUIInfo attribute) (medcat.utils.cdb_state.NameInfo attribute) (medcat.utils.regression.targeting.CUIInfo attribute) (medcat.utils.regression.targeting.NameInfo attribute) cpu() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) cpu_arcitecture (medcat.config.config.Environment attribute) (medcat.utils.envsnapshot.Environment attribute) create() (medcat.components.ner.trf.deid.DeIdModel class method) create_addl_rels (medcat.config.config_rel_cat.General attribute) create_addl_rels_by_type (medcat.config.config_rel_cat.General attribute) create_addon() (in module medcat.components.addons.addons) (in module medcat.pipeline.pipeline) create_base_relations_from_csv() (medcat.components.addons.relation_extraction.rel_cat.RelData method) (medcat.components.addons.relation_extraction.rel_dataset.RelData method) create_base_relations_from_doc() (medcat.components.addons.relation_extraction.rel_cat.RelData method) (medcat.components.addons.relation_extraction.rel_dataset.RelData method) create_batch_piped_data() (in module medcat.components.addons.meta_cat.ml_utils) create_core_component() (in module medcat.components.types) (in module medcat.pipeline.pipeline) create_dense_layers() (in module medcat.components.addons.relation_extraction.bert.model) (in module medcat.components.addons.relation_extraction.llama.model) (in module medcat.components.addons.relation_extraction.ml_utils) (in module medcat.components.addons.relation_extraction.models) (in module medcat.components.addons.relation_extraction.modernbert.model) create_entity() (medcat.components.addons.addons.BaseTokenizer method) (medcat.components.addons.meta_cat.meta_cat.BaseTokenizer method) (medcat.components.addons.relation_extraction.rel_cat.BaseTokenizer method) (medcat.components.linking.context_based_linker.BaseTokenizer method) (medcat.components.linking.no_action_linker.BaseTokenizer method) (medcat.components.linking.two_step_context_based_linker.BaseTokenizer method) (medcat.components.ner.dict_based_ner.BaseTokenizer method) (medcat.components.ner.trf.transformers_ner.BaseTokenizer method) (medcat.components.ner.vocab_based_annotator.BaseTokenizer method) (medcat.components.ner.vocab_based_ner.BaseTokenizer method) (medcat.components.normalizing.normalizer.BaseTokenizer method) (medcat.components.tagging.tagger.BaseTokenizer method) (medcat.components.types.BaseTokenizer method) (medcat.pipeline.pipeline.BaseTokenizer method) (medcat.pipeline.pipeline.DelegatingTokenizer method) (medcat.preprocessors.cleaners.BaseTokenizer method) (medcat.tokenizing.regex_impl.tokenizer.BaseTokenizer method) (medcat.tokenizing.regex_impl.tokenizer.RegexTokenizer method) (medcat.tokenizing.spacy_impl.tokenizers.BaseTokenizer method) (medcat.tokenizing.spacy_impl.tokenizers.SpacyTokenizer method) (medcat.tokenizing.tokenizers.BaseTokenizer method) (medcat.utils.legacy.convert_deid.BaseTokenizer method) (medcat.utils.legacy.convert_meta_cat.BaseTokenizer method) (medcat.utils.legacy.convert_rel_cat.BaseTokenizer method) create_eval_pipeline() (medcat.components.ner.trf.transformers_ner.TransformersNERComponent method) create_folds() (medcat.stats.kfold.FoldCreator method) (medcat.stats.kfold.PerAnnsFoldCreator method) (medcat.stats.kfold.PerDocsFoldCreator method) (medcat.stats.kfold.SimpleFoldCreator method) (medcat.stats.kfold.WeightedDocumentsCreator method) create_main_ann() (in module medcat.components.linking.context_based_linker) (in module medcat.components.ner.trf.transformers_ner) (in module medcat.utils.postprocessing) create_new() (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBERT class method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBPE class method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.MetaCATAddon class method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon class method) (medcat.components.ner.trf.deid.TransformersNER class method) (medcat.components.ner.trf.model.TransformersNER class method) (medcat.components.ner.trf.transformers_ner.TransformersNER class method) (medcat.utils.legacy.convert_deid.TransformersNER class method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon class method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon class method) create_new_component() (medcat.cat.AbstractCoreComponent class method) (medcat.cat.AddonComponent class method) (medcat.components.addons.addons.AddonComponent class method) (medcat.components.addons.addons.BaseComponent class method) (medcat.components.addons.meta_cat.meta_cat.AddonComponent class method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.MetaCATAddon class method) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent class method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon class method) (medcat.components.linking.context_based_linker.AbstractCoreComponent class method) (medcat.components.linking.context_based_linker.Linker class method) (medcat.components.linking.no_action_linker.AbstractCoreComponent class method) (medcat.components.linking.no_action_linker.NoActionLinker class method) (medcat.components.linking.two_step_context_based_linker.AbstractCoreComponent class method) (medcat.components.linking.two_step_context_based_linker.NormalLinker class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker class method) (medcat.components.ner.dict_based_ner.AbstractCoreComponent class method) (medcat.components.ner.dict_based_ner.NER class method) (medcat.components.ner.trf.deid.TransformersNER class method) (medcat.components.ner.trf.model.TransformersNER class method) (medcat.components.ner.trf.transformers_ner.AbstractCoreComponent class method) (medcat.components.ner.trf.transformers_ner.TransformersNER class method) (medcat.components.ner.vocab_based_ner.AbstractCoreComponent class method) (medcat.components.ner.vocab_based_ner.NER class method) (medcat.components.normalizing.normalizer.AbstractCoreComponent class method) (medcat.components.normalizing.normalizer.TokenNormalizer class method) (medcat.components.tagging.tagger.AbstractCoreComponent class method) (medcat.components.tagging.tagger.TagAndSkipTagger class method) (medcat.components.types.AbstractCoreComponent class method) (medcat.components.types.BaseComponent class method) (medcat.components.types.CoreComponent class method) (medcat.pipeline.pipeline.AbstractCoreComponent class method) (medcat.pipeline.pipeline.AddonComponent class method) (medcat.pipeline.pipeline.BaseComponent class method) (medcat.pipeline.pipeline.CoreComponent class method) (medcat.trainer.AddonComponent class method) (medcat.utils.legacy.conversion_all.NoActionLinker class method) (medcat.utils.legacy.convert_deid.TransformersNER class method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon class method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon class method) create_new_tokenizer() (medcat.components.addons.addons.BaseTokenizer class method) (medcat.components.addons.meta_cat.meta_cat.BaseTokenizer class method) (medcat.components.addons.relation_extraction.rel_cat.BaseTokenizer class method) (medcat.components.linking.context_based_linker.BaseTokenizer class method) (medcat.components.linking.no_action_linker.BaseTokenizer class method) (medcat.components.linking.two_step_context_based_linker.BaseTokenizer class method) (medcat.components.ner.dict_based_ner.BaseTokenizer class method) (medcat.components.ner.trf.transformers_ner.BaseTokenizer class method) (medcat.components.ner.vocab_based_annotator.BaseTokenizer class method) (medcat.components.ner.vocab_based_ner.BaseTokenizer class method) (medcat.components.normalizing.normalizer.BaseTokenizer class method) (medcat.components.tagging.tagger.BaseTokenizer class method) (medcat.components.types.BaseTokenizer class method) (medcat.pipeline.pipeline.BaseTokenizer class method) (medcat.pipeline.pipeline.DelegatingTokenizer class method) (medcat.preprocessors.cleaners.BaseTokenizer class method) (medcat.tokenizing.regex_impl.tokenizer.BaseTokenizer class method) (medcat.tokenizing.regex_impl.tokenizer.RegexTokenizer class method) (medcat.tokenizing.spacy_impl.tokenizers.BaseTokenizer class method) (medcat.tokenizing.spacy_impl.tokenizers.SpacyTokenizer class method) (medcat.tokenizing.tokenizers.BaseTokenizer class method) (medcat.utils.legacy.convert_deid.BaseTokenizer class method) (medcat.utils.legacy.convert_meta_cat.BaseTokenizer class method) (medcat.utils.legacy.convert_rel_cat.BaseTokenizer class method) create_relations_from_export() (medcat.components.addons.relation_extraction.rel_cat.RelData method) (medcat.components.addons.relation_extraction.rel_dataset.RelData method) create_token_type_ids_from_sequences() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) create_tokenizer() (in module medcat.components.addons.relation_extraction.rel_cat) (in module medcat.pipeline.pipeline) (in module medcat.tokenizing.tokenizers) (in module medcat.utils.legacy.convert_rel_cat) create_tokenizer_pretrain() (in module medcat.components.addons.relation_extraction.ml_utils) cross_attention_hidden_size (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) cuda() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) cui (medcat.cat.Entity attribute) (medcat.cat.MutableEntity property) (medcat.cdb.cdb.CUIInfo attribute) (medcat.cdb.concepts.CUIInfo attribute) (medcat.components.addons.addons.MutableEntity property) (medcat.components.addons.meta_cat.meta_cat.MutableEntity property) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity property) (medcat.components.linking.context_based_linker.MutableEntity property) (medcat.components.linking.two_step_context_based_linker.CUIInfo attribute) (medcat.components.linking.two_step_context_based_linker.MutableEntity property) (medcat.components.linking.vector_context_model.CUIInfo attribute) (medcat.components.linking.vector_context_model.MutableEntity property) (medcat.components.ner.trf.deid.Entity attribute) (medcat.components.ner.trf.transformers_ner.MutableEntity property) (medcat.components.ner.vocab_based_annotator.MutableEntity property) (medcat.components.types.MutableEntity property) (medcat.data.entities.Entity attribute) (medcat.data.mctexport.MedCATTrainerExportAnnotation attribute) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired attribute) (medcat.pipeline.pipeline.MutableEntity property) (medcat.stats.kfold.MedCATTrainerExportAnnotation attribute) (medcat.stats.stats.CUIInfo attribute) (medcat.stats.stats.MedCATTrainerExportAnnotation attribute) (medcat.stats.stats.MutableEntity property) (medcat.tokenizing.regex_impl.tokenizer.Entity attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity property) (medcat.tokenizing.spacy_impl.tokenizers.Entity attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity property) (medcat.tokenizing.spacy_impl.tokens.Entity attribute) (medcat.tokenizing.spacy_impl.tokens.MutableEntity property) (medcat.tokenizing.tokenizers.MutableEntity property) (medcat.tokenizing.tokens.MutableEntity property) (medcat.trainer.MutableEntity property) (medcat.utils.cdb_state.CUIInfo attribute) (medcat.utils.data_utils.MutableEntity property) (medcat.utils.postprocessing.MutableEntity property) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.Entity attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.targeting.CUIInfo attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) cui2children (medcat.utils.regression.checking.TranslationLayer attribute) (medcat.utils.regression.regression_checker.TranslationLayer attribute) (medcat.utils.regression.results.TranslationLayer attribute) (medcat.utils.regression.targeting.TranslationLayer attribute) cui2info (medcat.cat.CDB attribute) (medcat.cdb.CDB attribute) (medcat.cdb.cdb.CDB attribute) (medcat.components.addons.addons.CDB attribute) (medcat.components.addons.meta_cat.meta_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_dataset.CDB attribute) (medcat.components.linking.context_based_linker.CDB attribute) (medcat.components.linking.context_based_linker.ContextModel attribute) (medcat.components.linking.no_action_linker.CDB attribute) (medcat.components.linking.two_step_context_based_linker.CDB attribute) (medcat.components.linking.two_step_context_based_linker.ContextModel attribute) (medcat.components.linking.vector_context_model.ContextModel attribute) (medcat.components.ner.dict_based_ner.CDB attribute) (medcat.components.ner.trf.deid.CDB attribute) (medcat.components.ner.trf.helpers.CDB attribute) (medcat.components.ner.trf.model.CDB attribute) (medcat.components.ner.trf.transformers_ner.CDB attribute) (medcat.components.ner.vocab_based_annotator.CDB attribute) (medcat.components.ner.vocab_based_ner.CDB attribute) (medcat.components.normalizing.normalizer.CDB attribute) (medcat.components.tagging.tagger.CDB attribute) (medcat.components.types.CDB attribute) (medcat.model_creation.cdb_maker.CDB attribute) (medcat.pipeline.pipeline.CDB attribute) (medcat.stats.stats.StatsBuilder attribute) (medcat.trainer.CDB attribute) (medcat.utils.data_utils.CDB attribute) (medcat.utils.legacy.convert_cdb.CDB attribute) (medcat.utils.legacy.convert_deid.CDB attribute) (medcat.utils.legacy.convert_rel_cat.CDB attribute) (medcat.utils.legacy.helpers.CDB attribute) (medcat.utils.regression.checking.TranslationLayer attribute) (medcat.utils.regression.regression_checker.TranslationLayer attribute) (medcat.utils.regression.results.TranslationLayer attribute) (medcat.utils.regression.targeting.CDB attribute) (medcat.utils.regression.targeting.TranslationLayer attribute) (medcat.utils.vocab_utils.CDB attribute) CUI2KEYS (in module medcat.utils.legacy.convert_cdb) CUI2KEYS_OPTIONAL (in module medcat.utils.legacy.convert_cdb) cui2name (medcat.components.ner.trf.tokenizer.TransformersTokenizer attribute) (medcat.components.ner.trf.transformers_ner.TransformersTokenizer attribute) cui_filter (medcat.config.config_meta_cat.Train attribute) CUIInfo (class in medcat.cdb.cdb) (class in medcat.cdb.concepts) (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.components.linking.vector_context_model) (class in medcat.stats.stats) (class in medcat.utils.cdb_state) (class in medcat.utils.regression.targeting) cuis (medcat.cdb.cdb.TypeInfo attribute) (medcat.cdb.concepts.TypeInfo attribute) (medcat.components.linking.two_step_context_based_linker.TypeInfo attribute) (medcat.config.config.LinkingFilters attribute) (medcat.data.mctexport.MedCATTrainerExportProject attribute) (medcat.stats.kfold.MedCATTrainerExportProject attribute) (medcat.stats.stats.LinkingFilters attribute) (medcat.stats.stats.MedCATTrainerExportProject attribute) (medcat.trainer.MedCATTrainerExportProject attribute) (medcat.utils.data_utils.MedCATTrainerExportProject attribute) (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.filters.MedCATTrainerExportProject attribute) (medcat.utils.legacy.convert_cdb.TypeInfo attribute) cuis_exclude (medcat.config.config.LinkingFilters attribute) (medcat.stats.stats.LinkingFilters attribute) (medcat.utils.filters.LinkingFilters attribute) cum_probs (medcat.cat.Vocab attribute) (medcat.components.addons.addons.Vocab attribute) (medcat.components.addons.meta_cat.meta_cat.Vocab attribute) (medcat.components.addons.relation_extraction.rel_cat.Vocab attribute) (medcat.components.linking.context_based_linker.Vocab attribute) (medcat.components.linking.no_action_linker.Vocab attribute) (medcat.components.linking.two_step_context_based_linker.Vocab attribute) (medcat.components.linking.vector_context_model.Vocab attribute) (medcat.components.ner.dict_based_ner.Vocab attribute) (medcat.components.ner.trf.transformers_ner.Vocab attribute) (medcat.components.ner.vocab_based_ner.Vocab attribute) (medcat.components.normalizing.normalizer.Vocab attribute) (medcat.components.tagging.tagger.Vocab attribute) (medcat.components.types.Vocab attribute) (medcat.pipeline.pipeline.Vocab attribute) (medcat.utils.legacy.convert_vocab.Vocab attribute) (medcat.utils.vocab_utils.Vocab attribute) (medcat.vocab.Vocab attribute) custom_cnf (medcat.config.config.Ner attribute) CustomUnpickler (class in medcat.utils.legacy.convert_cdb) CustomUnpickler.memo (class in medcat.utils.legacy.convert_cdb) CustomUnpickler.persistent_load (class in medcat.utils.legacy.convert_cdb)

D

d1 (medcat.components.addons.meta_cat.models.LSTM attribute) data (medcat.utils.data_utils.TestTrainSplitter attribute) data_path (medcat.model_creation.preprocess_snomed.Snomed attribute), [1] data_vocab (medcat.components.normalizing.normalizer.BasicSpellChecker attribute) (medcat.utils.regression.checking.BasicSpellChecker attribute) DataClassHandler (class in medcat.storage.jsonserialiser) dataset (medcat.components.addons.relation_extraction.rel_cat.BalancedBatchSampler attribute) (medcat.components.addons.relation_extraction.rel_cat.RelData attribute) (medcat.components.addons.relation_extraction.rel_dataset.RelData attribute) DateTimeHandler (class in medcat.storage.jsonserialiser) decode() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) (medcat.storage.jsonserialiser.DataClassHandler method) (medcat.storage.jsonserialiser.DateTimeHandler method) (medcat.storage.jsonserialiser.NumpyArrayHandler method) (medcat.storage.jsonserialiser.SetHandler method) (medcat.storage.jsonserialiser.TypeBasedHandler method) (medcat.storage.jsonserialiser.TypeHandler method) (medcat.storage.jsonserialiser.TypeRegistry method) decoder (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama property) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT property) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper property) decoder_start_token_id (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) DEFAULT_LOGS_LINUX (in module medcat.utils.usage_monitoring) DEFAULT_LOGS_MACOS (in module medcat.utils.usage_monitoring) DEFAULT_LOGS_WINDOWS (in module medcat.utils.usage_monitoring) DEFAULT_PACK_NAME (in module medcat.cat) (in module medcat.utils.defaults) DEFAULT_SCHEMA_FILE (in module medcat.storage.schema) (in module medcat.storage.serialisers) DEFAULT_SPACY_MODEL (in module medcat.utils.defaults) DEFAULT_TEST_SUITE_PATH (in module medcat.utils.regression.regression_checker) default_weighted_average() (in module medcat.cdb.cdb) (in module medcat.utils.defaults) deid_text() (medcat.components.ner.trf.deid.DeIdModel method) DeIdModel (class in medcat.components.ner.trf.deid) DelegatingTokenizer (class in medcat.pipeline.pipeline) dense (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) DEP_NAME_PATTERN (in module medcat.utils.envsnapshot) dependencies (medcat.config.config.Environment attribute) (medcat.utils.envsnapshot.Environment attribute) deprecation_warnings (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) description (medcat.cdb.cdb.CUIInfo attribute) (medcat.cdb.concepts.CUIInfo attribute) (medcat.components.linking.two_step_context_based_linker.CUIInfo attribute) (medcat.components.linking.vector_context_model.CUIInfo attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.model_creation.preprocess_snomed.FileFormatDescriptor attribute) (medcat.model_creation.preprocess_snomed.RefSetFileType attribute) (medcat.stats.stats.CUIInfo attribute) (medcat.utils.cdb_state.CUIInfo attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.regression.targeting.CUIInfo attribute) deserialise() (in module medcat.cat) (in module medcat.cdb.cdb) (in module medcat.components.addons.meta_cat.meta_cat) (in module medcat.components.addons.relation_extraction.rel_cat) (in module medcat.components.ner.trf.transformers_ner) (in module medcat.config.config) (in module medcat.config.config_rel_cat) (in module medcat.pipeline.pipeline) (in module medcat.storage.serialisers) (in module medcat.vocab) (medcat.storage.jsonserialiser.JsonSerialiser method) (medcat.storage.jsonserialiser.Serialiser method) (medcat.storage.serialisers.DillSerialiser method) (medcat.storage.serialisers.Serialiser method) deserialise_all() (medcat.storage.jsonserialiser.JsonSerialiser method) (medcat.storage.jsonserialiser.Serialiser method) (medcat.storage.serialisers.DillSerialiser method) (medcat.storage.serialisers.Serialiser method) deserialise_from() (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.MetaCATAddon class method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon class method) (medcat.components.ner.trf.deid.TransformersNER class method) (medcat.components.ner.trf.model.TransformersNER class method) (medcat.components.ner.trf.transformers_ner.TransformersNER class method) (medcat.storage.serialisables.ManualSerialisable class method) (medcat.storage.serialisers.ManualSerialisable class method) (medcat.utils.legacy.convert_deid.TransformersNER class method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon class method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon class method) deserialise_manually() (medcat.storage.jsonserialiser.JsonSerialiser class method) (medcat.storage.jsonserialiser.Serialiser class method) (medcat.storage.serialisers.DillSerialiser class method) (medcat.storage.serialisers.Serialiser class method) detected_name (medcat.cat.Entity attribute) (medcat.cat.MutableEntity property) (medcat.components.addons.addons.MutableEntity property) (medcat.components.addons.meta_cat.meta_cat.MutableEntity property) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity property) (medcat.components.linking.context_based_linker.MutableEntity property) (medcat.components.linking.two_step_context_based_linker.MutableEntity property) (medcat.components.linking.vector_context_model.MutableEntity property) (medcat.components.ner.trf.deid.Entity attribute) (medcat.components.ner.trf.transformers_ner.MutableEntity property) (medcat.components.ner.vocab_based_annotator.MutableEntity property) (medcat.components.types.MutableEntity property) (medcat.data.entities.Entity attribute) (medcat.pipeline.pipeline.MutableEntity property) (medcat.stats.stats.MutableEntity property) (medcat.tokenizing.regex_impl.tokenizer.Entity attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity property) (medcat.tokenizing.spacy_impl.tokenizers.Entity attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity property) (medcat.tokenizing.spacy_impl.tokens.Entity attribute) (medcat.tokenizing.spacy_impl.tokens.MutableEntity property) (medcat.tokenizing.tokenizers.MutableEntity property) (medcat.tokenizing.tokens.MutableEntity property) (medcat.trainer.MutableEntity property) (medcat.utils.data_utils.MutableEntity property) (medcat.utils.postprocessing.MutableEntity property) (medcat.utils.regression.results.Entity attribute) determine() (medcat.utils.regression.checking.Finding class method) (medcat.utils.regression.regression_checker.Finding class method) (medcat.utils.regression.results.Finding class method) (medcat.utils.regression.results.FindingDeterminer method) devalue_linked_concepts (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) device (medcat.components.addons.relation_extraction.rel_cat.RelCAT attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_rel_cat.General attribute) (medcat.utils.legacy.convert_rel_cat.RelCAT attribute) diacritics (medcat.config.config.General attribute) (medcat.trainer.General attribute) dict() (medcat.cat.Config method) (medcat.cdb.cdb.Config method) (medcat.components.addons.addons.ComponentConfig method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig method) (medcat.components.addons.relation_extraction.rel_cat.Config method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT method) (medcat.components.linking.context_based_linker.ComponentConfig method) (medcat.components.linking.context_based_linker.Config method) (medcat.components.linking.no_action_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.Config method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig method) (medcat.components.linking.vector_context_model.Linking method) (medcat.components.ner.dict_based_ner.ComponentConfig method) (medcat.components.ner.trf.deid.ConfigTransformersNER method) (medcat.components.ner.trf.helpers.Config method) (medcat.components.ner.trf.model.Config method) (medcat.components.ner.trf.transformers_ner.ComponentConfig method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER method) (medcat.components.ner.vocab_based_annotator.Config method) (medcat.components.ner.vocab_based_ner.ComponentConfig method) (medcat.components.normalizing.normalizer.ComponentConfig method) (medcat.components.normalizing.normalizer.Config method) (medcat.components.tagging.tagger.ComponentConfig method) (medcat.components.tagging.tagger.Preprocessing method) (medcat.components.types.ComponentConfig method) (medcat.config.Config method) (medcat.config.config.AnnotationOutput method) (medcat.config.config.CDBMaker method) (medcat.config.config.ComponentConfig method) (medcat.config.config.Components method) (medcat.config.config.Config method) (medcat.config.config.DirtiableBaseModel method) (medcat.config.config.Environment method) (medcat.config.config.General method) (medcat.config.config.Linking method) (medcat.config.config.LinkingFilters method) (medcat.config.config.ModelMeta method) (medcat.config.config.Ner method) (medcat.config.config.NLPConfig method) (medcat.config.config.Preprocessing method) (medcat.config.config.SerialisableBaseModel method) (medcat.config.config.TrainingDescriptor method) (medcat.config.config.UsageMonitor method) (medcat.config.config_meta_cat.ComponentConfig method) (medcat.config.config_meta_cat.ConfigMetaCAT method) (medcat.config.config_meta_cat.DirtiableBaseModel method) (medcat.config.config_meta_cat.General method) (medcat.config.config_meta_cat.Model method) (medcat.config.config_meta_cat.Train method) (medcat.config.config_rel_cat.ComponentConfig method) (medcat.config.config_rel_cat.ConfigRelCAT method) (medcat.config.config_rel_cat.General method) (medcat.config.config_rel_cat.Model method) (medcat.config.config_rel_cat.SerialisableBaseModel method) (medcat.config.config_rel_cat.Train method) (medcat.config.config_transformers_ner.ConfigTransformersNER method) (medcat.config.config_transformers_ner.General method) (medcat.config.config_transformers_ner.SerialisableBaseModel method) (medcat.model_creation.cdb_maker.Config method) (medcat.pipeline.pipeline.ComponentConfig method) (medcat.pipeline.pipeline.Config method) (medcat.pipeline.pipeline.ConfigMetaCAT method) (medcat.pipeline.pipeline.ConfigRelCAT method) (medcat.stats.kfold.PerCUIMetrics method) (medcat.stats.stats.LinkingFilters method) (medcat.tokenizing.regex_impl.tokenizer.Config method) (medcat.tokenizing.spacy_impl.tokenizers.Config method) (medcat.tokenizing.tokenizers.Config method) (medcat.trainer.CDBMaker method) (medcat.trainer.General method) (medcat.trainer.Preprocessing method) (medcat.utils.cdb_state.ModelMeta method) (medcat.utils.envsnapshot.Environment method) (medcat.utils.filters.LinkingFilters method) (medcat.utils.legacy.convert_cdb.Config method) (medcat.utils.legacy.convert_config.Config method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT method) (medcat.utils.regression.checking.FinalTarget method) (medcat.utils.regression.checking.MetaData method) (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.checking.OptionSet method) (medcat.utils.regression.checking.RegressionCase method) (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.checking.TargetedPhraseChanger method) (medcat.utils.regression.results.FinalTarget method) (medcat.utils.regression.results.MultiDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) (medcat.utils.regression.results.SingleResultDescriptor method) (medcat.utils.regression.targeting.FinalTarget method) (medcat.utils.regression.targeting.OptionSet method) (medcat.utils.regression.targeting.PhraseChanger method) (medcat.utils.regression.targeting.TargetedPhraseChanger method) (medcat.utils.regression.targeting.TargetPlaceholder method) (medcat.utils.usage_monitoring.UsageMonitorConfig method)

DICT_ONLY (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy attribute) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy attribute) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy attribute) (medcat.config.config.SerialisingStrategy attribute) (medcat.storage.serialisables.SerialisingStrategy attribute) dict_torch_dtype_to_str() (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig method) dill (medcat.cat.AvailableSerialisers attribute) (medcat.cdb.cdb.AvailableSerialisers attribute) (medcat.components.ner.trf.transformers_ner.AvailableSerialisers attribute) (medcat.config.config_meta_cat.AvailableSerialisers attribute) (medcat.pipeline.pipeline.AvailableSerialisers attribute) (medcat.storage.jsonserialiser.AvailableSerialisers attribute) (medcat.storage.serialisers.AvailableSerialisers attribute) (medcat.utils.legacy.conversion_all.AvailableSerialisers attribute) (medcat.utils.legacy.legacy_converter.AvailableSerialisers attribute) (medcat.vocab.AvailableSerialisers attribute) DillSerialiser (class in medcat.storage.serialisers) DirtiableBaseModel (class in medcat.config.config) (class in medcat.config.config_meta_cat) disable_component_lock (medcat.config.config_meta_cat.General attribute) disabled_components (medcat.config.config.NLPConfig attribute) disamb_length_limit (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) disambiguate() (medcat.components.linking.context_based_linker.ContextModel method) (medcat.components.linking.two_step_context_based_linker.ContextModel method) (medcat.components.linking.vector_context_model.ContextModel method) DisambPreprocessor (class in medcat.components.linking.vector_context_model) dispatch (medcat.storage.serialisers.RemappingUnpickler attribute) (medcat.utils.legacy.convert_cdb.CustomUnpickler attribute) (medcat.utils.legacy.v2_beta.RemappingUnpickler attribute) do_conversion() (in module medcat.utils.legacy.legacy_converter) DO_DISAMBUGATION (medcat.cdb.cdb.ST attribute) (medcat.components.linking.context_based_linker.ST attribute) (medcat.components.linking.two_step_context_based_linker.ST attribute) (medcat.components.linking.vector_context_model.ST attribute) (medcat.utils.defaults.StatusTypes attribute) do_not_normalize (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.config.config.Preprocessing attribute) (medcat.preprocessors.cleaners.LPreprocessing attribute) (medcat.trainer.Preprocessing attribute) doc_getter (medcat.stats.stats.StatsBuilder attribute) Document (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokenizers) (class in medcat.tokenizing.spacy_impl.tokens) documents (medcat.data.mctexport.MedCATTrainerExportProject attribute) (medcat.stats.kfold.MedCATTrainerExportProject attribute) DOCUMENTS (medcat.stats.kfold.SplitType attribute) documents (medcat.stats.stats.MedCATTrainerExportProject attribute) (medcat.trainer.MedCATTrainerExportProject attribute) (medcat.utils.data_utils.MedCATTrainerExportProject attribute) (medcat.utils.filters.MedCATTrainerExportProject attribute) DOCUMENTS_WEIGHTED (medcat.stats.kfold.SplitType attribute) double() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) drop_out (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) dropout (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_rel_cat.Model attribute) dump_patches (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) dumps() (in module medcat.utils.hasher)

E

EditGetter (class in medcat.utils.regression.checking) (class in medcat.utils.regression.utils) edits1() (medcat.components.normalizing.normalizer.BasicSpellChecker method) (medcat.utils.regression.checking.BasicSpellChecker method) edits2() (medcat.components.normalizing.normalizer.BasicSpellChecker method) (medcat.utils.regression.checking.BasicSpellChecker method) edits3() (medcat.components.normalizing.normalizer.BasicSpellChecker method) (medcat.utils.regression.checking.BasicSpellChecker method) emb_grad (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_rel_cat.Model attribute) embeddings (medcat.components.addons.meta_cat.meta_cat.MetaCAT attribute) (medcat.components.addons.meta_cat.MetaCAT attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.utils.legacy.convert_meta_cat.MetaCAT attribute) empty() (medcat.utils.regression.targeting.PhraseChanger class method) enable_class_weights (medcat.config.config_rel_cat.Train attribute) enabled (medcat.config.config.UsageMonitor attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) encode() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) (medcat.components.ner.trf.tokenizer.TransformersTokenizer method) (medcat.components.ner.trf.transformers_ner.TransformersTokenizer method) (medcat.storage.jsonserialiser.DataClassHandler method) (medcat.storage.jsonserialiser.DateTimeHandler method) (medcat.storage.jsonserialiser.NumpyArrayHandler method) (medcat.storage.jsonserialiser.SetHandler method) (medcat.storage.jsonserialiser.TypeBasedHandler method) (medcat.storage.jsonserialiser.TypeHandler method) (medcat.storage.jsonserialiser.TypeRegistry method) encode_category_values() (in module medcat.components.addons.meta_cat.data_utils) (in module medcat.components.addons.meta_cat.meta_cat) encode_plus() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) encoding (medcat.storage.serialisers.RemappingUnpickler attribute) (medcat.utils.legacy.convert_cdb.CustomUnpickler attribute) (medcat.utils.legacy.v2_beta.RemappingUnpickler attribute) end (medcat.cat.Entity attribute) (medcat.components.ner.trf.deid.Entity attribute) (medcat.data.entities.Entity attribute) (medcat.data.mctexport.MedCATTrainerExportAnnotation attribute) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired attribute) (medcat.stats.kfold.MedCATTrainerExportAnnotation attribute) (medcat.stats.stats.MedCATTrainerExportAnnotation attribute) (medcat.utils.regression.results.Entity attribute) end_char_index (medcat.tokenizing.regex_impl.tokenizer.BaseEntity property) (medcat.tokenizing.regex_impl.tokenizer.Entity property) (medcat.tokenizing.spacy_impl.tokenizers.Entity property) (medcat.tokenizing.spacy_impl.tokens.BaseEntity property) (medcat.tokenizing.spacy_impl.tokens.Entity property) (medcat.tokenizing.tokens.BaseEntity property) end_index (medcat.tokenizing.regex_impl.tokenizer.BaseEntity property) (medcat.tokenizing.regex_impl.tokenizer.Entity property) (medcat.tokenizing.spacy_impl.tokenizers.Entity property) (medcat.tokenizing.spacy_impl.tokens.BaseEntity property) (medcat.tokenizing.spacy_impl.tokens.Entity property) (medcat.tokenizing.tokens.BaseEntity property) ensure_folder_if_parent() (in module medcat.cat) (in module medcat.utils.fileutils) ensure_optional_extras_installed() (in module medcat.components.addons.meta_cat) (in module medcat.components.addons.relation_extraction) (in module medcat.components.ner.dict_based_ner) (in module medcat.components.ner.trf) (in module medcat.tokenizing.spacy_impl) (in module medcat.utils.import_utils) (in module medcat.utils.ner) ensure_spacy_model() (in module medcat.tokenizing.spacy_impl.tokenizers) (in module medcat.tokenizing.spacy_impl.utils) ensure_tokenizer() (medcat.components.addons.meta_cat.data_utils.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBPE method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.meta_cat.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.ml_utils.TokenizerWrapperBase method) (medcat.components.ner.trf.tokenizer.TransformersTokenizer method) (medcat.components.ner.trf.transformers_ner.TransformersTokenizer method) (medcat.utils.legacy.convert_meta_cat.TokenizerWrapperBase method) Entities (class in medcat.cat) (class in medcat.components.ner.trf.model) (class in medcat.data.entities) entities (medcat.cat.Entities attribute) (medcat.cat.OnlyCUIEntities attribute) (medcat.components.ner.trf.model.Entities attribute) (medcat.components.ner.trf.model.OnlyCUIEntities attribute) (medcat.data.entities.Entities attribute) (medcat.data.entities.OnlyCUIEntities attribute) Entity (class in medcat.cat) (class in medcat.components.ner.trf.deid) (class in medcat.data.entities) (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokenizers) (class in medcat.tokenizing.spacy_impl.tokens) (class in medcat.utils.regression.results) entity_from_tokens() (medcat.cat.Pipeline method) (medcat.components.addons.addons.BaseTokenizer method) (medcat.components.addons.meta_cat.meta_cat.BaseTokenizer method) (medcat.components.addons.relation_extraction.rel_cat.BaseTokenizer method) (medcat.components.linking.context_based_linker.BaseTokenizer method) (medcat.components.linking.no_action_linker.BaseTokenizer method) (medcat.components.linking.two_step_context_based_linker.BaseTokenizer method) (medcat.components.ner.dict_based_ner.BaseTokenizer method) (medcat.components.ner.trf.transformers_ner.BaseTokenizer method) (medcat.components.ner.vocab_based_annotator.BaseTokenizer method) (medcat.components.ner.vocab_based_ner.BaseTokenizer method) (medcat.components.normalizing.normalizer.BaseTokenizer method) (medcat.components.tagging.tagger.BaseTokenizer method) (medcat.components.types.BaseTokenizer method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.BaseTokenizer method) (medcat.pipeline.pipeline.DelegatingTokenizer method) (medcat.pipeline.pipeline.Pipeline method) (medcat.preprocessors.cleaners.BaseTokenizer method) (medcat.tokenizing.regex_impl.tokenizer.BaseTokenizer method) (medcat.tokenizing.regex_impl.tokenizer.RegexTokenizer method) (medcat.tokenizing.spacy_impl.tokenizers.BaseTokenizer method) (medcat.tokenizing.spacy_impl.tokenizers.SpacyTokenizer method) (medcat.tokenizing.tokenizers.BaseTokenizer method) (medcat.trainer.Pipeline method) (medcat.utils.legacy.convert_deid.BaseTokenizer method) (medcat.utils.legacy.convert_meta_cat.BaseTokenizer method) (medcat.utils.legacy.convert_rel_cat.BaseTokenizer method)

ENTITY_INFO_PREFIX (medcat.tokenizing.regex_impl.tokenizer.Entity attribute) Environment (class in medcat.config.config) (class in medcat.utils.envsnapshot) eos_token_id (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) epoch (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent attribute) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent attribute) errors (medcat.storage.serialisers.RemappingUnpickler attribute) (medcat.utils.legacy.convert_cdb.CustomUnpickler attribute) (medcat.utils.legacy.v2_beta.RemappingUnpickler attribute) estimate_num_of_diff_subcases() (medcat.utils.regression.checking.RegressionCase method) estimate_num_of_subcases() (medcat.utils.regression.checking.OptionSet method) (medcat.utils.regression.targeting.OptionSet method) estimate_num_variants() (in module medcat.utils.regression.utils) estimate_total_distinct_cases() (medcat.utils.regression.checking.RegressionSuite method) (medcat.utils.regression.regression_checker.RegressionSuite method) ESTIMATION_MATRIX (in module medcat.utils.regression.utils) eval() (medcat.components.addons.meta_cat.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) (medcat.components.ner.trf.deid.DeIdModel method) (medcat.components.ner.trf.deid.NerModel method) (medcat.components.ner.trf.model.NerModel method) (medcat.components.ner.trf.transformers_ner.TransformersNERComponent method) (medcat.utils.legacy.convert_meta_cat.MetaCAT method) eval_model() (in module medcat.components.addons.meta_cat.meta_cat) (in module medcat.components.addons.meta_cat.ml_utils) evaluate_() (medcat.components.addons.relation_extraction.rel_cat.RelCAT method) (medcat.utils.legacy.convert_rel_cat.RelCAT method) evaluate_predictions() (in module medcat.utils.ner.metrics) evaluate_results() (medcat.components.addons.relation_extraction.rel_cat.RelCAT method) (medcat.utils.legacy.convert_rel_cat.RelCAT method) examples (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) exp_2nd_part_in_folder (medcat.model_creation.preprocess_snomed.ExtensionDescription attribute) exp_cat_config_name (in module medcat.utils.legacy.convert_deid) exp_cdb_name (in module medcat.utils.legacy.convert_deid) exp_cui (medcat.utils.regression.results.FindingDeterminer attribute) exp_end (medcat.utils.regression.results.FindingDeterminer attribute) exp_files (medcat.model_creation.preprocess_snomed.ExtensionDescription attribute) exp_name_in_folder (medcat.model_creation.preprocess_snomed.ExtensionDescription attribute) exp_start (medcat.utils.regression.results.FindingDeterminer attribute) exp_trf_ner_config_name (in module medcat.utils.legacy.convert_deid) expand_model_with_concepts() (medcat.components.ner.trf.transformers_ner.TransformersNERComponent method) expected_files_in_folder (medcat.utils.legacy.conversion_all.Converter property) (medcat.utils.legacy.legacy_converter.Converter property) EXPECTED_USEFUL_KEYS (in module medcat.utils.legacy.convert_cdb) EXPECTED_V1_CDB_FILE_NAME (in module medcat.utils.legacy.identifier) EXPECTED_V2_CDB_FOLDER_NAME (in module medcat.utils.legacy.identifier) ExtensionDescription (class in medcat.model_creation.preprocess_snomed) extensions (medcat.model_creation.preprocess_snomed.BundleDescriptor attribute) extra (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT.Config attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT.Config attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT.Config attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT.Config attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT.Config attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER.Config attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER.Config attribute) (medcat.config.config.NLPConfig.Config attribute) (medcat.config.config_meta_cat.ConfigMetaCAT.Config attribute) (medcat.config.config_meta_cat.General.Config attribute) (medcat.config.config_meta_cat.Model.Config attribute) (medcat.config.config_meta_cat.Train.Config attribute) (medcat.config.config_rel_cat.ConfigRelCAT.Config attribute) (medcat.config.config_rel_cat.Model.Config attribute) (medcat.config.config_rel_cat.Train.Config attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER.Config attribute) (medcat.config.config_transformers_ner.General.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT.Config attribute) (medcat.pipeline.pipeline.ConfigRelCAT.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER.Config attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT.Config attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT.Config attribute) (medcat.utils.regression.checking.MetaData attribute) extra_cui_filter (medcat.stats.stats.StatsBuilder attribute) extra_name (medcat.utils.import_utils.IncorrectExtraComponent attribute) (medcat.utils.import_utils.MissingDependenciesError attribute) extra_repr() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) extra_special_tokens (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute)

F

FAIL (medcat.utils.regression.checking.Finding attribute) (medcat.utils.regression.regression_checker.Finding attribute) (medcat.utils.regression.results.Finding attribute) FAIL_AFTER_MULT (in module medcat.utils.regression.utils) FAKE_TOKENIZER_PATH (in module medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer) (in module medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer) (in module medcat.components.addons.meta_cat.mctokenizers.tokenizers) fc1 (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) fc2 (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) fc3 (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) file_prefix (medcat.config.config.UsageMonitor attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) FileFormatDescriptor (class in medcat.model_creation.preprocess_snomed) filter_before_disamb (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) filter_by_cui() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) filters (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) (medcat.stats.stats.StatsBuilder attribute) final_phrase (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.targeting.FinalTarget attribute) finalise_report() (medcat.stats.stats.StatsBuilder method) FinalTarget (class in medcat.utils.regression.checking) (class in medcat.utils.regression.results) (class in medcat.utils.regression.targeting) find_class() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) Finding (class in medcat.utils.regression.checking) (class in medcat.utils.regression.regression_checker) (class in medcat.utils.regression.results) FindingDeterminer (class in medcat.utils.regression.results) findings (medcat.utils.regression.checking.MultiDescriptor property) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.results.MultiDescriptor property) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) finetuning_task (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) fix() (medcat.components.normalizing.normalizer.BasicSpellChecker method) (medcat.utils.regression.checking.BasicSpellChecker method) fix_imports (medcat.storage.serialisers.RemappingUnpickler attribute) (medcat.utils.legacy.convert_cdb.CustomUnpickler attribute) (medcat.utils.legacy.v2_beta.RemappingUnpickler attribute) fix_module_and_cls_name() (in module medcat.storage.serialisers) (in module medcat.utils.legacy.v2_beta) fix_np_float64() (in module medcat.utils.regression.checking) fix_old_style_cnf() (in module medcat.utils.legacy.convert_config) (in module medcat.utils.legacy.convert_meta_cat) (in module medcat.utils.legacy.convert_rel_cat) (in module medcat.utils.legacy.helpers) fix_subnames() (in module medcat.utils.legacy.conversion_all) (in module medcat.utils.legacy.helpers) float() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) FloatValuedMetric (in module medcat.stats.kfold) FocalLoss (class in medcat.components.addons.meta_cat.ml_utils) FoldCreator (class in medcat.stats.kfold) forward() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) FOUND_ANY_CHILD (medcat.utils.regression.checking.Finding attribute) (medcat.utils.regression.regression_checker.Finding attribute) (medcat.utils.regression.results.Finding attribute) FOUND_CHILD_PARTIAL (medcat.utils.regression.checking.Finding attribute) (medcat.utils.regression.regression_checker.Finding attribute) (medcat.utils.regression.results.Finding attribute) FOUND_DIR_GRANDPARENT (medcat.utils.regression.checking.Finding attribute) (medcat.utils.regression.regression_checker.Finding attribute) (medcat.utils.regression.results.Finding attribute) FOUND_DIR_PARENT (medcat.utils.regression.checking.Finding attribute) (medcat.utils.regression.regression_checker.Finding attribute) (medcat.utils.regression.results.Finding attribute) found_entities (medcat.utils.regression.results.FindingDeterminer attribute) FOUND_OTHER (medcat.utils.regression.checking.Finding attribute) (medcat.utils.regression.regression_checker.Finding attribute) (medcat.utils.regression.results.Finding attribute) freeze_layers (medcat.config.config_rel_cat.Model attribute) from_cat() (medcat.stats.stats.StatsBuilder class method) from_CDB() (medcat.utils.regression.checking.TranslationLayer class method) (medcat.utils.regression.regression_checker.TranslationLayer class method) (medcat.utils.regression.results.TranslationLayer class method) (medcat.utils.regression.targeting.TranslationLayer class method) from_dict() (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig class method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig class method) (medcat.utils.regression.checking.OptionSet class method) (medcat.utils.regression.checking.RegressionCase class method) (medcat.utils.regression.checking.RegressionSuite class method) (medcat.utils.regression.regression_checker.RegressionSuite class method) (medcat.utils.regression.targeting.OptionSet class method) from_file() (medcat.cat.AvailableSerialisers class method) (medcat.cdb.cdb.AvailableSerialisers class method) (medcat.components.ner.trf.transformers_ner.AvailableSerialisers class method) (medcat.config.config_meta_cat.AvailableSerialisers class method) (medcat.pipeline.pipeline.AvailableSerialisers class method) (medcat.storage.jsonserialiser.AvailableSerialisers class method) (medcat.storage.serialisers.AvailableSerialisers class method) (medcat.utils.legacy.conversion_all.AvailableSerialisers class method) (medcat.utils.legacy.legacy_converter.AvailableSerialisers class method) (medcat.vocab.AvailableSerialisers class method) from_json_file() (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig class method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig class method)

from_mct_export() (medcat.utils.regression.checking.RegressionSuite class method) (medcat.utils.regression.regression_checker.RegressionSuite class method) from_modelcard() (medcat.utils.regression.checking.MetaData class method) from_orm() (medcat.cat.Config class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.types.ComponentConfig class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.Environment class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.stats.kfold.PerCUIMetrics class method) (medcat.stats.stats.LinkingFilters class method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.regression.checking.FinalTarget class method) (medcat.utils.regression.checking.MetaData class method) (medcat.utils.regression.checking.MultiDescriptor class method) (medcat.utils.regression.checking.OptionSet class method) (medcat.utils.regression.checking.RegressionCase class method) (medcat.utils.regression.checking.ResultDescriptor class method) (medcat.utils.regression.checking.TargetedPhraseChanger class method) (medcat.utils.regression.results.FinalTarget class method) (medcat.utils.regression.results.MultiDescriptor class method) (medcat.utils.regression.results.ResultDescriptor class method) (medcat.utils.regression.results.SingleResultDescriptor class method) (medcat.utils.regression.targeting.FinalTarget class method) (medcat.utils.regression.targeting.OptionSet class method) (medcat.utils.regression.targeting.PhraseChanger class method) (medcat.utils.regression.targeting.TargetedPhraseChanger class method) (medcat.utils.regression.targeting.TargetPlaceholder class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method) from_pretrained() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT class method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama class method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig class method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT class method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper class method) from_relcat_config() (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent class method) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent class method) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent class method) from_yaml() (medcat.utils.regression.checking.RegressionSuite class method) (medcat.utils.regression.regression_checker.RegressionSuite class method) full_name (medcat.cat.AbstractCoreComponent property) (medcat.cat.AddonComponent property) (medcat.components.addons.addons.AddonComponent property) (medcat.components.addons.addons.BaseComponent property) (medcat.components.addons.meta_cat.meta_cat.AddonComponent property) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon property) (medcat.components.addons.meta_cat.MetaCATAddon property) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent property) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon property) (medcat.components.linking.context_based_linker.AbstractCoreComponent property) (medcat.components.linking.context_based_linker.Linker property) (medcat.components.linking.no_action_linker.AbstractCoreComponent property) (medcat.components.linking.no_action_linker.NoActionLinker property) (medcat.components.linking.two_step_context_based_linker.AbstractCoreComponent property) (medcat.components.linking.two_step_context_based_linker.NormalLinker property) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker property) (medcat.components.ner.dict_based_ner.AbstractCoreComponent property) (medcat.components.ner.dict_based_ner.NER property) (medcat.components.ner.trf.deid.TransformersNER property) (medcat.components.ner.trf.model.TransformersNER property) (medcat.components.ner.trf.transformers_ner.AbstractCoreComponent property) (medcat.components.ner.trf.transformers_ner.TransformersNER property) (medcat.components.ner.vocab_based_ner.AbstractCoreComponent property) (medcat.components.ner.vocab_based_ner.NER property) (medcat.components.normalizing.normalizer.AbstractCoreComponent property) (medcat.components.normalizing.normalizer.TokenNormalizer property) (medcat.components.tagging.tagger.AbstractCoreComponent property) (medcat.components.tagging.tagger.TagAndSkipTagger property) (medcat.components.types.AbstractCoreComponent property) (medcat.components.types.BaseComponent property) (medcat.components.types.CoreComponent property) (medcat.pipeline.pipeline.AbstractCoreComponent property) (medcat.pipeline.pipeline.AddonComponent property) (medcat.pipeline.pipeline.BaseComponent property) (medcat.pipeline.pipeline.CoreComponent property) (medcat.trainer.AddonComponent property) (medcat.utils.legacy.conversion_all.NoActionLinker property) (medcat.utils.legacy.convert_deid.TransformersNER property) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon property) (medcat.utils.legacy.convert_rel_cat.RelCATAddon property) full_unlink (medcat.config.config.General attribute) (medcat.trainer.General attribute) func_has_kwarg() (in module medcat.components.ner.trf.transformers_ner)

G

gamma (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.config.config_meta_cat.Train attribute) General (class in medcat.config.config) (class in medcat.config.config_meta_cat) (class in medcat.config.config_rel_cat) (class in medcat.config.config_transformers_ner) (class in medcat.trainer) general (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.config.Config attribute) (medcat.config.config.Config attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) General.Config (class in medcat.config.config_meta_cat) (class in medcat.config.config_rel_cat) (class in medcat.config.config_transformers_ner) generate_base_relations() (medcat.components.addons.relation_extraction.rel_cat.RelData method) (medcat.components.addons.relation_extraction.rel_dataset.RelData method) get() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.PerEntityWeights method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) get_added_vocab() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) get_addon_creator() (in module medcat.components.addons.addons) get_addon_data() (medcat.cat.MutableDocument method) (medcat.cat.MutableEntity method) (medcat.components.addons.addons.MutableEntity method) (medcat.components.addons.meta_cat.meta_cat.MutableDocument method) (medcat.components.addons.meta_cat.meta_cat.MutableEntity method) (medcat.components.addons.relation_extraction.rel_cat.MutableDocument method) (medcat.components.addons.relation_extraction.rel_dataset.MutableDocument method) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity method) (medcat.components.linking.context_based_linker.MutableDocument method) (medcat.components.linking.context_based_linker.MutableEntity method) (medcat.components.linking.no_action_linker.MutableDocument method) (medcat.components.linking.two_step_context_based_linker.MutableDocument method) (medcat.components.linking.two_step_context_based_linker.MutableEntity method) (medcat.components.linking.vector_context_model.MutableDocument method) (medcat.components.linking.vector_context_model.MutableEntity method) (medcat.components.ner.dict_based_ner.MutableDocument method) (medcat.components.ner.trf.model.MutableDocument method) (medcat.components.ner.trf.transformers_ner.MutableDocument method) (medcat.components.ner.trf.transformers_ner.MutableEntity method) (medcat.components.ner.vocab_based_annotator.MutableDocument method) (medcat.components.ner.vocab_based_annotator.MutableEntity method) (medcat.components.ner.vocab_based_ner.MutableDocument method) (medcat.components.normalizing.normalizer.MutableDocument method) (medcat.components.tagging.tagger.MutableDocument method) (medcat.components.types.MutableDocument method) (medcat.components.types.MutableEntity method) (medcat.pipeline.pipeline.MutableDocument method) (medcat.pipeline.pipeline.MutableEntity method) (medcat.preprocessors.cleaners.MutableDocument method) (medcat.stats.stats.MutableDocument method) (medcat.stats.stats.MutableEntity method) (medcat.tokenizing.regex_impl.tokenizer.Document method) (medcat.tokenizing.regex_impl.tokenizer.Entity method) (medcat.tokenizing.regex_impl.tokenizer.MutableDocument method) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity method) (medcat.tokenizing.spacy_impl.tokenizers.Document method) (medcat.tokenizing.spacy_impl.tokenizers.Entity method) (medcat.tokenizing.spacy_impl.tokenizers.MutableDocument method) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity method) (medcat.tokenizing.spacy_impl.tokens.Document method) (medcat.tokenizing.spacy_impl.tokens.Entity method) (medcat.tokenizing.spacy_impl.tokens.MutableEntity method) (medcat.tokenizing.tokenizers.MutableDocument method) (medcat.tokenizing.tokenizers.MutableEntity method) (medcat.tokenizing.tokens.MutableDocument method) (medcat.tokenizing.tokens.MutableEntity method) (medcat.trainer.MutableDocument method) (medcat.trainer.MutableEntity method) (medcat.utils.data_utils.MutableDocument method) (medcat.utils.data_utils.MutableEntity method) (medcat.utils.postprocessing.MutableDocument method) (medcat.utils.postprocessing.MutableEntity method) get_addon_output() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) get_all_children() (in module medcat.model_creation.preprocess_snomed) get_all_distinct_cases() (medcat.utils.regression.checking.RegressionSuite method) (medcat.utils.regression.regression_checker.RegressionSuite method) get_all_extra_deps_raw() (in module medcat.utils.import_utils) get_all_serialisable_members() (in module medcat.storage.serialisables) (in module medcat.storage.serialisers) get_all_similarities() (medcat.components.linking.context_based_linker.ContextModel method) (medcat.components.linking.two_step_context_based_linker.ContextModel method) (medcat.components.linking.vector_context_model.ContextModel method) get_annotation_schema_tag() (in module medcat.components.addons.relation_extraction.llama.model) (in module medcat.components.addons.relation_extraction.ml_utils) (in module medcat.components.addons.relation_extraction.models) get_applicable_category_name() (medcat.config.config_meta_cat.General method) get_available_addon_paths() (medcat.cat.MutableDocument method) (medcat.cat.MutableEntity method) (medcat.components.addons.addons.MutableEntity method) (medcat.components.addons.meta_cat.meta_cat.MutableDocument method) (medcat.components.addons.meta_cat.meta_cat.MutableEntity method) (medcat.components.addons.relation_extraction.rel_cat.MutableDocument method) (medcat.components.addons.relation_extraction.rel_dataset.MutableDocument method) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity method) (medcat.components.linking.context_based_linker.MutableDocument method) (medcat.components.linking.context_based_linker.MutableEntity method) (medcat.components.linking.no_action_linker.MutableDocument method) (medcat.components.linking.two_step_context_based_linker.MutableDocument method) (medcat.components.linking.two_step_context_based_linker.MutableEntity method) (medcat.components.linking.vector_context_model.MutableDocument method) (medcat.components.linking.vector_context_model.MutableEntity method) (medcat.components.ner.dict_based_ner.MutableDocument method) (medcat.components.ner.trf.model.MutableDocument method) (medcat.components.ner.trf.transformers_ner.MutableDocument method) (medcat.components.ner.trf.transformers_ner.MutableEntity method) (medcat.components.ner.vocab_based_annotator.MutableDocument method) (medcat.components.ner.vocab_based_annotator.MutableEntity method) (medcat.components.ner.vocab_based_ner.MutableDocument method) (medcat.components.normalizing.normalizer.MutableDocument method) (medcat.components.tagging.tagger.MutableDocument method) (medcat.components.types.MutableDocument method) (medcat.components.types.MutableEntity method) (medcat.pipeline.pipeline.MutableDocument method) (medcat.pipeline.pipeline.MutableEntity method) (medcat.preprocessors.cleaners.MutableDocument method) (medcat.stats.stats.MutableDocument method) (medcat.stats.stats.MutableEntity method) (medcat.tokenizing.regex_impl.tokenizer.Document method) (medcat.tokenizing.regex_impl.tokenizer.Entity method) (medcat.tokenizing.regex_impl.tokenizer.MutableDocument method) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity method) (medcat.tokenizing.spacy_impl.tokenizers.Document method) (medcat.tokenizing.spacy_impl.tokenizers.Entity method) (medcat.tokenizing.spacy_impl.tokenizers.MutableDocument method) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity method) (medcat.tokenizing.spacy_impl.tokens.Document method) (medcat.tokenizing.spacy_impl.tokens.Entity method) (medcat.tokenizing.spacy_impl.tokens.MutableEntity method) (medcat.tokenizing.tokenizers.MutableDocument method) (medcat.tokenizing.tokenizers.MutableEntity method) (medcat.tokenizing.tokens.MutableDocument method) (medcat.tokenizing.tokens.MutableEntity method) (medcat.trainer.MutableDocument method) (medcat.trainer.MutableEntity method) (medcat.utils.data_utils.MutableDocument method) (medcat.utils.data_utils.MutableEntity method) (medcat.utils.postprocessing.MutableDocument method) (medcat.utils.postprocessing.MutableEntity method) get_basic_info() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) get_buffer() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) get_cdb_from_old() (in module medcat.utils.legacy.conversion_all) (in module medcat.utils.legacy.convert_cdb) (in module medcat.utils.legacy.convert_deid) get_chat_template() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) get_children_of() (medcat.utils.regression.checking.TranslationLayer method) (medcat.utils.regression.regression_checker.TranslationLayer method) (medcat.utils.regression.results.TranslationLayer method) (medcat.utils.regression.targeting.TranslationLayer method) get_class_level_docstrings() (in module medcat.utils.regression.utils) get_cnf() (in module medcat.utils.legacy.convert_deid) get_component() (medcat.cat.Pipeline method) (medcat.components.addons.addons.Registry method) (medcat.components.types.Registry method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.Pipeline method) (medcat.tokenizing.tokenizers.Registry method) (medcat.trainer.Pipeline method) (medcat.utils.registry.Registry method) get_component_creator() (in module medcat.components.types) get_concept() (medcat.model_creation.preprocess_snomed.FileFormatDescriptor method) get_config_dict() (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig class method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig class method) get_config_from_nested_dict() (in module medcat.utils.legacy.convert_cdb) (in module medcat.utils.legacy.convert_config) get_config_from_old() (in module medcat.utils.legacy.conversion_all) (in module medcat.utils.legacy.convert_config) get_context_tokens() (medcat.components.linking.context_based_linker.ContextModel method) (medcat.components.linking.two_step_context_based_linker.ContextModel method) (medcat.components.linking.vector_context_model.ContextModel method) get_context_vectors() (medcat.components.linking.context_based_linker.ContextModel method) (medcat.components.linking.two_step_context_based_linker.ContextModel method) (medcat.components.linking.vector_context_model.ContextModel method) get_core_registry() (in module medcat.components.types) get_cui2count_train() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) get_description() (medcat.model_creation.preprocess_snomed.FileFormatDescriptor method) get_dict() (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy method) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy method) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy method) (medcat.config.config.SerialisingStrategy method) (medcat.storage.serialisables.SerialisingStrategy method) get_direct_children() (medcat.utils.regression.checking.TranslationLayer method) (medcat.utils.regression.regression_checker.TranslationLayer method) (medcat.utils.regression.results.TranslationLayer method) (medcat.utils.regression.targeting.TranslationLayer method) get_direct_dependencies() (in module medcat.utils.envsnapshot) get_direct_parents() (medcat.utils.regression.checking.TranslationLayer method) (medcat.utils.regression.regression_checker.TranslationLayer method) (medcat.utils.regression.results.TranslationLayer method) (medcat.utils.regression.targeting.TranslationLayer method) get_direct_refset_mapping() (in module medcat.model_creation.preprocess_snomed) get_distinct_cases() (medcat.utils.regression.checking.RegressionCase method) get_doc() (medcat.cat.Pipeline method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.Pipeline method) (medcat.trainer.Pipeline method) get_doc_class() (medcat.components.addons.addons.BaseTokenizer method) (medcat.components.addons.meta_cat.meta_cat.BaseTokenizer method) (medcat.components.addons.relation_extraction.rel_cat.BaseTokenizer method) (medcat.components.linking.context_based_linker.BaseTokenizer method) (medcat.components.linking.no_action_linker.BaseTokenizer method) (medcat.components.linking.two_step_context_based_linker.BaseTokenizer method) (medcat.components.ner.dict_based_ner.BaseTokenizer method) (medcat.components.ner.trf.transformers_ner.BaseTokenizer method) (medcat.components.ner.vocab_based_annotator.BaseTokenizer method) (medcat.components.ner.vocab_based_ner.BaseTokenizer method) (medcat.components.normalizing.normalizer.BaseTokenizer method) (medcat.components.tagging.tagger.BaseTokenizer method) (medcat.components.types.BaseTokenizer method) (medcat.pipeline.pipeline.BaseTokenizer method) (medcat.pipeline.pipeline.DelegatingTokenizer method) (medcat.preprocessors.cleaners.BaseTokenizer method) (medcat.tokenizing.regex_impl.tokenizer.BaseTokenizer method) (medcat.tokenizing.regex_impl.tokenizer.RegexTokenizer method) (medcat.tokenizing.spacy_impl.tokenizers.BaseTokenizer method) (medcat.tokenizing.spacy_impl.tokenizers.SpacyTokenizer method) (medcat.tokenizing.tokenizers.BaseTokenizer method) (medcat.utils.legacy.convert_deid.BaseTokenizer method) (medcat.utils.legacy.convert_meta_cat.BaseTokenizer method) (medcat.utils.legacy.convert_rel_cat.BaseTokenizer method) get_entities() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.deid.DeIdModel method) (medcat.components.ner.trf.deid.NerModel method) (medcat.components.ner.trf.model.CAT method) (medcat.components.ner.trf.model.NerModel method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) get_entities_multi_texts() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) get_entity_class() (medcat.components.addons.addons.BaseTokenizer method) (medcat.components.addons.meta_cat.meta_cat.BaseTokenizer method) (medcat.components.addons.relation_extraction.rel_cat.BaseTokenizer method) (medcat.components.linking.context_based_linker.BaseTokenizer method) (medcat.components.linking.no_action_linker.BaseTokenizer method) (medcat.components.linking.two_step_context_based_linker.BaseTokenizer method) (medcat.components.ner.dict_based_ner.BaseTokenizer method) (medcat.components.ner.trf.transformers_ner.BaseTokenizer method) (medcat.components.ner.vocab_based_annotator.BaseTokenizer method) (medcat.components.ner.vocab_based_ner.BaseTokenizer method) (medcat.components.normalizing.normalizer.BaseTokenizer method) (medcat.components.tagging.tagger.BaseTokenizer method) (medcat.components.types.BaseTokenizer method) (medcat.pipeline.pipeline.BaseTokenizer method) (medcat.pipeline.pipeline.DelegatingTokenizer method) (medcat.preprocessors.cleaners.BaseTokenizer method) (medcat.tokenizing.regex_impl.tokenizer.BaseTokenizer method) (medcat.tokenizing.regex_impl.tokenizer.RegexTokenizer method) (medcat.tokenizing.spacy_impl.tokenizers.BaseTokenizer method) (medcat.tokenizing.spacy_impl.tokenizers.SpacyTokenizer method) (medcat.tokenizing.tokenizers.BaseTokenizer method) (medcat.utils.legacy.convert_deid.BaseTokenizer method) (medcat.utils.legacy.convert_meta_cat.BaseTokenizer method) (medcat.utils.legacy.convert_rel_cat.BaseTokenizer method) get_ents() (medcat.components.addons.meta_cat.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.MetaCAT method) (medcat.utils.legacy.convert_meta_cat.MetaCAT method) get_environment_info() (in module medcat.config.config) (in module medcat.utils.envsnapshot) get_extension() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) get_extra_state() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) get_false_positives() (in module medcat.trainer) (in module medcat.utils.data_utils) get_file_per_type() (medcat.model_creation.preprocess_snomed.FileFormatDescriptor method) get_first_name() (medcat.utils.regression.checking.TranslationLayer method) (medcat.utils.regression.regression_checker.TranslationLayer method) (medcat.utils.regression.results.TranslationLayer method) (medcat.utils.regression.targeting.TranslationLayer method) get_fold_creator() (in module medcat.stats.kfold) get_folder_name() (medcat.cat.AddonComponent method) (medcat.components.addons.addons.AddonComponent method) (medcat.components.addons.meta_cat.meta_cat.AddonComponent method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon method) (medcat.components.addons.meta_cat.MetaCATAddon method) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon method) (medcat.components.ner.trf.deid.TransformersNER method) (medcat.components.ner.trf.model.TransformersNER method) (medcat.components.ner.trf.transformers_ner.TransformersNER method) (medcat.pipeline.pipeline.AddonComponent method) (medcat.trainer.AddonComponent method) (medcat.utils.legacy.convert_deid.TransformersNER method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon method) get_folder_name_for_addon_and_name() (medcat.cat.AddonComponent class method) (medcat.components.addons.addons.AddonComponent class method) (medcat.components.addons.meta_cat.meta_cat.AddonComponent class method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.MetaCATAddon class method) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent class method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon class method) (medcat.pipeline.pipeline.AddonComponent class method) (medcat.trainer.AddonComponent class method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon class method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon class method) get_hash() (medcat.cat.CDB method) (medcat.cat.HashableComponet method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.meta_cat.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon method) (medcat.components.addons.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.MetaCATAddon method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.deid.ConfigTransformersNER method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER method) (medcat.components.ner.trf.transformers_ner.TransformersNERComponent method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.components.types.HashableComponet method) (medcat.config.config_transformers_ner.ConfigTransformersNER method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER method) (medcat.utils.legacy.convert_meta_cat.MetaCAT method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) get_important_config_parameters() (in module medcat.cat) (in module medcat.config.config) get_init_attrs() (medcat.cat.AbstractSerialisable class method) (medcat.cat.CAT class method) (medcat.cat.CDB class method) (medcat.cat.Config class method) (medcat.cat.Vocab class method) (medcat.cdb.CDB class method) (medcat.cdb.cdb.AbstractSerialisable class method) (medcat.cdb.cdb.CDB class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.CDB class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.addons.Vocab class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.AbstractSerialisable class method) (medcat.components.addons.meta_cat.meta_cat.CDB class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.MetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.meta_cat.Vocab class method) (medcat.components.addons.meta_cat.MetaCAT class method) (medcat.components.addons.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.CDB class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon class method) (medcat.components.addons.relation_extraction.rel_cat.Vocab class method) (medcat.components.addons.relation_extraction.rel_dataset.CDB class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.CDB class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.context_based_linker.ContextModel class method) (medcat.components.linking.context_based_linker.Vocab class method) (medcat.components.linking.no_action_linker.CDB class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.no_action_linker.Vocab class method) (medcat.components.linking.two_step_context_based_linker.CDB class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.ContextModel class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.two_step_context_based_linker.Vocab class method) (medcat.components.linking.vector_context_model.AbstractSerialisable class method) (medcat.components.linking.vector_context_model.ContextModel class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.linking.vector_context_model.Vocab class method) (medcat.components.ner.dict_based_ner.CDB class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.dict_based_ner.Vocab class method) (medcat.components.ner.trf.deid.CAT class method) (medcat.components.ner.trf.deid.CDB class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.deid.TransformersNER class method) (medcat.components.ner.trf.helpers.CDB class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.CAT class method) (medcat.components.ner.trf.model.CDB class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.model.TransformersNER class method) (medcat.components.ner.trf.transformers_ner.CDB class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.trf.transformers_ner.TransformersNER class method) (medcat.components.ner.trf.transformers_ner.Vocab class method) (medcat.components.ner.vocab_based_annotator.CDB class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_ner.CDB class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.ner.vocab_based_ner.Vocab class method) (medcat.components.normalizing.normalizer.CDB class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.normalizing.normalizer.Vocab class method) (medcat.components.tagging.tagger.CDB class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.tagging.tagger.Vocab class method) (medcat.components.types.CDB class method) (medcat.components.types.ComponentConfig class method) (medcat.components.types.Vocab class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.Environment class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.CDB class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.CDB class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.pipeline.pipeline.Serialisable class method) (medcat.pipeline.pipeline.Vocab class method) (medcat.stats.kfold.CAT class method) (medcat.stats.stats.CAT class method) (medcat.stats.stats.LinkingFilters class method) (medcat.storage.serialisables.AbstractManualSerialisable class method) (medcat.storage.serialisables.AbstractSerialisable class method) (medcat.storage.serialisables.ManualSerialisable class method) (medcat.storage.serialisables.Serialisable class method) (medcat.storage.serialisers.ManualSerialisable class method) (medcat.storage.serialisers.Serialisable class method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.trainer.CDB class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.data_utils.CDB class method) (medcat.utils.envsnapshot.AbstractSerialisable class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.conversion_all.CAT class method) (medcat.utils.legacy.convert_cdb.CDB class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.CDB class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_deid.TransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_meta_cat.MetaCAT class method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon class method) (medcat.utils.legacy.convert_rel_cat.CDB class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon class method) (medcat.utils.legacy.convert_vocab.Vocab class method) (medcat.utils.legacy.helpers.CAT class method) (medcat.utils.legacy.helpers.CDB class method) (medcat.utils.regression.checking.CAT class method) (medcat.utils.regression.regression_checker.CAT class method) (medcat.utils.regression.targeting.CDB class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method) (medcat.utils.vocab_utils.CDB class method) (medcat.utils.vocab_utils.Vocab class method) (medcat.vocab.AbstractSerialisable class method) (medcat.vocab.Vocab class method)

get_installed_dependencies() (in module medcat.utils.envsnapshot) get_installed_extra_dependencies() (in module medcat.utils.import_utils) get_k_fold_stats() (in module medcat.stats.kfold) get_labels() (medcat.components.addons.relation_extraction.rel_cat.RelData class method) (medcat.components.addons.relation_extraction.rel_dataset.RelData class method) get_lr_linking() (in module medcat.components.linking.vector_context_model) get_manually_serialised_path() (medcat.storage.jsonserialiser.JsonSerialiser class method) (medcat.storage.jsonserialiser.Serialiser class method) (medcat.storage.serialisers.DillSerialiser class method) (medcat.storage.serialisers.Serialiser class method) get_mean() (medcat.stats.kfold.PerCUIMetrics method) get_meta_annotations() (in module medcat.components.addons.meta_cat) (in module medcat.components.addons.meta_cat.meta_cat) get_meta_cat_from_old() (in module medcat.utils.legacy.conversion_all) (in module medcat.utils.legacy.convert_meta_cat) get_metrics_mean() (in module medcat.stats.kfold) get_model() (medcat.components.addons.meta_cat.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.MetaCAT method) (medcat.utils.legacy.convert_meta_cat.MetaCAT method) get_model_card() (medcat.cat.CAT method) (medcat.components.addons.meta_cat.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.MetaCAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.convert_meta_cat.MetaCAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) get_name() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) get_name2count_train() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) get_names_of() (medcat.utils.regression.checking.TranslationLayer method) (medcat.utils.regression.regression_checker.TranslationLayer method) (medcat.utils.regression.results.TranslationLayer method) (medcat.utils.regression.targeting.TranslationLayer method) get_negative_samples() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) get_new_cui_info() (in module medcat.cdb.cdb) (in module medcat.cdb.concepts) (in module medcat.components.linking.two_step_context_based_linker) (in module medcat.components.ner.trf.helpers) (in module medcat.stats.stats) (in module medcat.utils.legacy.convert_cdb) get_new_name_info() (in module medcat.cdb.cdb) (in module medcat.cdb.concepts) (in module medcat.utils.legacy.convert_cdb) get_nr_of_annotations() (in module medcat.data.mctexport) (in module medcat.stats.kfold) get_ontology_and_version() (in module medcat.utils.regression.checking) get_output_key_val() (medcat.cat.AddonComponent method) (medcat.components.addons.addons.AddonComponent method) (medcat.components.addons.meta_cat.meta_cat.AddonComponent method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon method) (medcat.components.addons.meta_cat.MetaCATAddon method) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon method) (medcat.pipeline.pipeline.AddonComponent method) (medcat.trainer.AddonComponent method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon method) get_pad_id() (medcat.components.addons.meta_cat.data_utils.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBPE method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.meta_cat.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.ml_utils.TokenizerWrapperBase method) (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) (medcat.utils.legacy.convert_meta_cat.TokenizerWrapperBase method) get_parameter() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) get_parts() (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy method) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy method) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy method) (medcat.config.config.SerialisingStrategy method) (medcat.storage.serialisables.SerialisingStrategy method) get_per_fold_metrics() (in module medcat.stats.kfold) get_preferred_name() (medcat.utils.regression.checking.TranslationLayer method) (medcat.utils.regression.regression_checker.TranslationLayer method) (medcat.utils.regression.results.TranslationLayer method) (medcat.utils.regression.targeting.TranslationLayer method) get_preprocessors_and_targets() (medcat.utils.regression.checking.OptionSet method) (medcat.utils.regression.targeting.OptionSet method) get_pt2ch() (medcat.model_creation.preprocess_umls.UMLS method) get_refset() (medcat.model_creation.preprocess_snomed.FileFormatDescriptor method) get_registered_components() (in module medcat.components.types) get_rel_cat_from_old() (in module medcat.utils.legacy.conversion_all) (in module medcat.utils.legacy.convert_rel_cat) get_relationship() (medcat.model_creation.preprocess_snomed.FileFormatDescriptor method) get_report() (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.results.MultiDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) (medcat.utils.regression.results.SingleResultDescriptor method) get_required_extra_deps() (in module medcat.utils.import_utils) get_rng() (in module medcat.utils.regression.utils) get_ser_type_file() (medcat.storage.jsonserialiser.JsonSerialiser class method) (medcat.storage.jsonserialiser.Serialiser class method) (medcat.storage.serialisers.DillSerialiser class method) (medcat.storage.serialisers.Serialiser class method) get_serialiser() (in module medcat.storage.serialisers) get_serialiser_from_folder() (in module medcat.storage.serialisers) get_serialiser_type_from_folder() (in module medcat.storage.serialisers) get_similarity() (in module medcat.components.linking.vector_context_model) get_size() (medcat.components.addons.meta_cat.data_utils.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBPE method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.meta_cat.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.ml_utils.TokenizerWrapperBase method) (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) (medcat.utils.legacy.convert_meta_cat.TokenizerWrapperBase method) get_special_tokens_mask() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) get_stats() (in module medcat.stats.kfold) (in module medcat.stats.stats) get_std() (medcat.stats.kfold.PerCUIMetrics method) get_strategy() (medcat.cat.AbstractSerialisable method) (medcat.cat.CAT method) (medcat.cat.CDB method) (medcat.cat.Config method) (medcat.cat.Vocab method) (medcat.cdb.CDB method) (medcat.cdb.cdb.AbstractSerialisable method) (medcat.cdb.cdb.CDB method) (medcat.cdb.cdb.Config method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.addons.ComponentConfig method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.AbstractSerialisable method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.MetaCATAddon method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig method) (medcat.components.addons.relation_extraction.rel_cat.Config method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.context_based_linker.ComponentConfig method) (medcat.components.linking.context_based_linker.Config method) (medcat.components.linking.context_based_linker.ContextModel method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.no_action_linker.ComponentConfig method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.Config method) (medcat.components.linking.two_step_context_based_linker.ContextModel method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.AbstractSerialisable method) (medcat.components.linking.vector_context_model.ContextModel method) (medcat.components.linking.vector_context_model.Linking method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.dict_based_ner.ComponentConfig method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.deid.ConfigTransformersNER method) (medcat.components.ner.trf.deid.TransformersNER method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.helpers.Config method) (medcat.components.ner.trf.model.CAT method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.model.Config method) (medcat.components.ner.trf.model.TransformersNER method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.trf.transformers_ner.ComponentConfig method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER method) (medcat.components.ner.trf.transformers_ner.TransformersNER method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_annotator.Config method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.ner.vocab_based_ner.ComponentConfig method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.normalizing.normalizer.ComponentConfig method) (medcat.components.normalizing.normalizer.Config method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.CDB method) (medcat.components.tagging.tagger.ComponentConfig method) (medcat.components.tagging.tagger.Preprocessing method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.CDB method) (medcat.components.types.ComponentConfig method) (medcat.components.types.Vocab method) (medcat.config.Config method) (medcat.config.config.AnnotationOutput method) (medcat.config.config.CDBMaker method) (medcat.config.config.ComponentConfig method) (medcat.config.config.Components method) (medcat.config.config.Config method) (medcat.config.config.DirtiableBaseModel method) (medcat.config.config.Environment method) (medcat.config.config.General method) (medcat.config.config.Linking method) (medcat.config.config.LinkingFilters method) (medcat.config.config.ModelMeta method) (medcat.config.config.Ner method) (medcat.config.config.NLPConfig method) (medcat.config.config.Preprocessing method) (medcat.config.config.SerialisableBaseModel method) (medcat.config.config.TrainingDescriptor method) (medcat.config.config.UsageMonitor method) (medcat.config.config_meta_cat.ComponentConfig method) (medcat.config.config_meta_cat.ConfigMetaCAT method) (medcat.config.config_meta_cat.DirtiableBaseModel method) (medcat.config.config_meta_cat.General method) (medcat.config.config_meta_cat.Model method) (medcat.config.config_meta_cat.Train method) (medcat.config.config_rel_cat.ComponentConfig method) (medcat.config.config_rel_cat.ConfigRelCAT method) (medcat.config.config_rel_cat.General method) (medcat.config.config_rel_cat.Model method) (medcat.config.config_rel_cat.SerialisableBaseModel method) (medcat.config.config_rel_cat.Train method) (medcat.config.config_transformers_ner.ConfigTransformersNER method) (medcat.config.config_transformers_ner.General method) (medcat.config.config_transformers_ner.SerialisableBaseModel method) (medcat.model_creation.cdb_maker.CDB method) (medcat.model_creation.cdb_maker.Config method) (medcat.pipeline.pipeline.CDB method) (medcat.pipeline.pipeline.ComponentConfig method) (medcat.pipeline.pipeline.Config method) (medcat.pipeline.pipeline.ConfigMetaCAT method) (medcat.pipeline.pipeline.ConfigRelCAT method) (medcat.pipeline.pipeline.Serialisable method) (medcat.pipeline.pipeline.Vocab method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.stats.stats.LinkingFilters method) (medcat.storage.serialisables.AbstractManualSerialisable method) (medcat.storage.serialisables.AbstractSerialisable method) (medcat.storage.serialisables.ManualSerialisable method) (medcat.storage.serialisables.Serialisable method) (medcat.storage.serialisers.ManualSerialisable method) (medcat.storage.serialisers.Serialisable method) (medcat.tokenizing.regex_impl.tokenizer.Config method) (medcat.tokenizing.spacy_impl.tokenizers.Config method) (medcat.tokenizing.tokenizers.Config method) (medcat.trainer.CDB method) (medcat.trainer.CDBMaker method) (medcat.trainer.General method) (medcat.trainer.Preprocessing method) (medcat.utils.cdb_state.ModelMeta method) (medcat.utils.data_utils.CDB method) (medcat.utils.envsnapshot.AbstractSerialisable method) (medcat.utils.envsnapshot.Environment method) (medcat.utils.filters.LinkingFilters method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_cdb.Config method) (medcat.utils.legacy.convert_config.Config method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER method) (medcat.utils.legacy.convert_deid.TransformersNER method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT method) (medcat.utils.legacy.convert_meta_cat.MetaCAT method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.usage_monitoring.UsageMonitorConfig method) (medcat.utils.vocab_utils.CDB method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.AbstractSerialisable method) (medcat.vocab.Vocab method) get_submodule() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) get_text_config() (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig method) get_tokenizer_creator() (in module medcat.tokenizing.tokenizers) get_tokens() (medcat.cat.MutableDocument method) (medcat.components.addons.meta_cat.meta_cat.MutableDocument method) (medcat.components.addons.relation_extraction.rel_cat.MutableDocument method) (medcat.components.addons.relation_extraction.rel_dataset.MutableDocument method) (medcat.components.linking.context_based_linker.MutableDocument method) (medcat.components.linking.no_action_linker.MutableDocument method) (medcat.components.linking.two_step_context_based_linker.MutableDocument method) (medcat.components.linking.vector_context_model.MutableDocument method) (medcat.components.ner.dict_based_ner.MutableDocument method) (medcat.components.ner.trf.model.MutableDocument method) (medcat.components.ner.trf.transformers_ner.MutableDocument method) (medcat.components.ner.vocab_based_annotator.MutableDocument method) (medcat.components.ner.vocab_based_ner.MutableDocument method) (medcat.components.normalizing.normalizer.MutableDocument method) (medcat.components.tagging.tagger.MutableDocument method) (medcat.components.types.MutableDocument method) (medcat.pipeline.pipeline.MutableDocument method) (medcat.preprocessors.cleaners.MutableDocument method) (medcat.stats.stats.MutableDocument method) (medcat.tokenizing.regex_impl.tokenizer.Document method) (medcat.tokenizing.regex_impl.tokenizer.MutableDocument method) (medcat.tokenizing.spacy_impl.tokenizers.Document method) (medcat.tokenizing.spacy_impl.tokenizers.MutableDocument method) (medcat.tokenizing.spacy_impl.tokens.Document method) (medcat.tokenizing.tokenizers.MutableDocument method) (medcat.tokenizing.tokens.MutableDocument method) (medcat.trainer.MutableDocument method) (medcat.utils.data_utils.MutableDocument method) (medcat.utils.postprocessing.MutableDocument method) get_transitive_deps() (in module medcat.utils.envsnapshot) get_trf_ner_from_old() (in module medcat.utils.legacy.conversion_all) (in module medcat.utils.legacy.convert_deid) get_type() (medcat.cat.AbstractCoreComponent method) (medcat.components.linking.context_based_linker.AbstractCoreComponent method) (medcat.components.linking.context_based_linker.Linker method) (medcat.components.linking.no_action_linker.AbstractCoreComponent method) (medcat.components.linking.no_action_linker.NoActionLinker method) (medcat.components.linking.two_step_context_based_linker.AbstractCoreComponent method) (medcat.components.linking.two_step_context_based_linker.NormalLinker method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker method) (medcat.components.ner.dict_based_ner.AbstractCoreComponent method) (medcat.components.ner.dict_based_ner.NER method) (medcat.components.ner.trf.deid.TransformersNER method) (medcat.components.ner.trf.model.TransformersNER method) (medcat.components.ner.trf.transformers_ner.AbstractCoreComponent method) (medcat.components.ner.trf.transformers_ner.TransformersNER method) (medcat.components.ner.vocab_based_ner.AbstractCoreComponent method) (medcat.components.ner.vocab_based_ner.NER method) (medcat.components.normalizing.normalizer.AbstractCoreComponent method) (medcat.components.normalizing.normalizer.TokenNormalizer method) (medcat.components.tagging.tagger.AbstractCoreComponent method) (medcat.components.tagging.tagger.TagAndSkipTagger method) (medcat.components.types.AbstractCoreComponent method) (medcat.components.types.CoreComponent method) (medcat.pipeline.pipeline.AbstractCoreComponent method) (medcat.pipeline.pipeline.CoreComponent method) (medcat.utils.legacy.conversion_all.NoActionLinker method) (medcat.utils.legacy.convert_deid.TransformersNER method) get_updated_average_confidence() (in module medcat.components.linking.vector_context_model) get_val_and_parent_model() (in module medcat.utils.legacy.convert_config) get_vectors() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) get_vocab() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) get_vocab_from_old() (in module medcat.utils.legacy.conversion_all) (in module medcat.utils.legacy.convert_vocab) gradient_acc_steps (medcat.config.config_rel_cat.Train attribute) group (medcat.cdb.cdb.CUIInfo attribute) (medcat.cdb.concepts.CUIInfo attribute) (medcat.components.linking.two_step_context_based_linker.CUIInfo attribute) (medcat.components.linking.vector_context_model.CUIInfo attribute) (medcat.stats.stats.CUIInfo attribute) (medcat.utils.cdb_state.CUIInfo attribute) (medcat.utils.regression.targeting.CUIInfo attribute)

H

half() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) handlers (medcat.storage.jsonserialiser.TypeRegistry attribute) has_addon_data() (medcat.cat.MutableDocument method) (medcat.cat.MutableEntity method) (medcat.components.addons.addons.MutableEntity method) (medcat.components.addons.meta_cat.meta_cat.MutableDocument method) (medcat.components.addons.meta_cat.meta_cat.MutableEntity method) (medcat.components.addons.relation_extraction.rel_cat.MutableDocument method) (medcat.components.addons.relation_extraction.rel_dataset.MutableDocument method) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity method) (medcat.components.linking.context_based_linker.MutableDocument method) (medcat.components.linking.context_based_linker.MutableEntity method) (medcat.components.linking.no_action_linker.MutableDocument method) (medcat.components.linking.two_step_context_based_linker.MutableDocument method) (medcat.components.linking.two_step_context_based_linker.MutableEntity method) (medcat.components.linking.vector_context_model.MutableDocument method) (medcat.components.linking.vector_context_model.MutableEntity method) (medcat.components.ner.dict_based_ner.MutableDocument method) (medcat.components.ner.trf.model.MutableDocument method) (medcat.components.ner.trf.transformers_ner.MutableDocument method) (medcat.components.ner.trf.transformers_ner.MutableEntity method) (medcat.components.ner.vocab_based_annotator.MutableDocument method) (medcat.components.ner.vocab_based_annotator.MutableEntity method) (medcat.components.ner.vocab_based_ner.MutableDocument method) (medcat.components.normalizing.normalizer.MutableDocument method) (medcat.components.tagging.tagger.MutableDocument method) (medcat.components.types.MutableDocument method) (medcat.components.types.MutableEntity method) (medcat.pipeline.pipeline.MutableDocument method) (medcat.pipeline.pipeline.MutableEntity method) (medcat.preprocessors.cleaners.MutableDocument method) (medcat.stats.stats.MutableDocument method) (medcat.stats.stats.MutableEntity method) (medcat.tokenizing.regex_impl.tokenizer.Document method) (medcat.tokenizing.regex_impl.tokenizer.Entity method) (medcat.tokenizing.regex_impl.tokenizer.MutableDocument method) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity method) (medcat.tokenizing.spacy_impl.tokenizers.Document method) (medcat.tokenizing.spacy_impl.tokenizers.Entity method) (medcat.tokenizing.spacy_impl.tokenizers.MutableDocument method) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity method) (medcat.tokenizing.spacy_impl.tokens.Document method) (medcat.tokenizing.spacy_impl.tokens.Entity method) (medcat.tokenizing.spacy_impl.tokens.MutableEntity method) (medcat.tokenizing.tokenizers.MutableDocument method) (medcat.tokenizing.tokenizers.MutableEntity method) (medcat.tokenizing.tokens.MutableDocument method) (medcat.tokenizing.tokens.MutableEntity method) (medcat.trainer.MutableDocument method) (medcat.trainer.MutableEntity method) (medcat.utils.data_utils.MutableDocument method) (medcat.utils.data_utils.MutableEntity method) (medcat.utils.postprocessing.MutableDocument method) (medcat.utils.postprocessing.MutableEntity method) has_changed_names (medcat.cat.CDB attribute) (medcat.cdb.CDB attribute) (medcat.cdb.cdb.CDB attribute) (medcat.components.addons.addons.CDB attribute) (medcat.components.addons.meta_cat.meta_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_dataset.CDB attribute) (medcat.components.linking.context_based_linker.CDB attribute) (medcat.components.linking.no_action_linker.CDB attribute) (medcat.components.linking.two_step_context_based_linker.CDB attribute) (medcat.components.ner.dict_based_ner.CDB attribute) (medcat.components.ner.trf.deid.CDB attribute) (medcat.components.ner.trf.helpers.CDB attribute) (medcat.components.ner.trf.model.CDB attribute) (medcat.components.ner.trf.transformers_ner.CDB attribute) (medcat.components.ner.vocab_based_annotator.CDB attribute) (medcat.components.ner.vocab_based_ner.CDB attribute) (medcat.components.normalizing.normalizer.CDB attribute) (medcat.components.tagging.tagger.CDB attribute) (medcat.components.types.CDB attribute) (medcat.model_creation.cdb_maker.CDB attribute) (medcat.pipeline.pipeline.CDB attribute) (medcat.trainer.CDB attribute) (medcat.utils.data_utils.CDB attribute) (medcat.utils.legacy.convert_cdb.CDB attribute) (medcat.utils.legacy.convert_deid.CDB attribute) (medcat.utils.legacy.convert_rel_cat.CDB attribute) (medcat.utils.legacy.helpers.CDB attribute) (medcat.utils.regression.targeting.CDB attribute) (medcat.utils.vocab_utils.CDB attribute) has_correct_cui() (medcat.utils.regression.checking.Finding method) (medcat.utils.regression.regression_checker.Finding method) (medcat.utils.regression.results.Finding method)

has_invalid() (medcat.model_creation.preprocess_snomed.BundleDescriptor method) has_per_concept_subnames() (in module medcat.utils.legacy.helpers) has_spacy_model() (in module medcat.tokenizing.spacy_impl.utils) has_subname() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) hash (medcat.config.config.ModelMeta attribute) (medcat.utils.cdb_state.ModelMeta attribute) HashableComponet (class in medcat.cat) (class in medcat.components.types) Hasher (class in medcat.cat) (class in medcat.cdb.cdb) (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.config.config_transformers_ner) (class in medcat.utils.hasher) hexdigest() (medcat.cat.Hasher method) (medcat.cdb.cdb.Hasher method) (medcat.components.addons.meta_cat.meta_cat.Hasher method) (medcat.components.ner.trf.transformers_ner.Hasher method) (medcat.config.config_transformers_ner.Hasher method) (medcat.utils.hasher.Hasher method) hf_model (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) hf_model_config (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) hf_tokenizer (medcat.components.ner.trf.tokenizer.TransformersTokenizer attribute) (medcat.components.ner.trf.transformers_ner.TransformersTokenizer attribute) hf_tokenizers (medcat.components.addons.meta_cat.data_utils.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBPE attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.meta_cat.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.ml_utils.TokenizerWrapperBase attribute) (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) (medcat.utils.legacy.convert_meta_cat.TokenizerWrapperBase attribute) hidden_layers (medcat.config.config_rel_cat.Model attribute) hidden_size (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_rel_cat.Model attribute) history (medcat.config.config.ModelMeta attribute) (medcat.utils.cdb_state.ModelMeta attribute) hlogger (in module medcat.utils.legacy.legacy_converter)

I

id (medcat.cat.Entity attribute) (medcat.cat.MutableEntity property) (medcat.components.addons.addons.MutableEntity property) (medcat.components.addons.meta_cat.meta_cat.MutableEntity property) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument attribute) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity property) (medcat.components.linking.context_based_linker.MutableEntity property) (medcat.components.linking.two_step_context_based_linker.MutableEntity property) (medcat.components.linking.vector_context_model.MutableEntity property) (medcat.components.ner.trf.deid.Entity attribute) (medcat.components.ner.trf.transformers_ner.MutableEntity property) (medcat.components.ner.vocab_based_annotator.MutableEntity property) (medcat.components.types.MutableEntity property) (medcat.data.entities.Entity attribute) (medcat.data.mctexport.MedCATTrainerExportAnnotation attribute) (medcat.data.mctexport.MedCATTrainerExportDocument attribute) (medcat.data.mctexport.MedCATTrainerExportProject attribute) (medcat.pipeline.pipeline.MutableEntity property) (medcat.stats.kfold.MedCATTrainerExportAnnotation attribute) (medcat.stats.kfold.MedCATTrainerExportDocument attribute) (medcat.stats.kfold.MedCATTrainerExportProject attribute) (medcat.stats.stats.MedCATTrainerExportAnnotation attribute) (medcat.stats.stats.MedCATTrainerExportDocument attribute) (medcat.stats.stats.MedCATTrainerExportProject attribute) (medcat.stats.stats.MutableEntity property) (medcat.tokenizing.regex_impl.tokenizer.Entity attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity property) (medcat.tokenizing.spacy_impl.tokenizers.Entity attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity property) (medcat.tokenizing.spacy_impl.tokens.Entity attribute) (medcat.tokenizing.spacy_impl.tokens.MutableEntity property) (medcat.tokenizing.tokenizers.MutableEntity property) (medcat.tokenizing.tokens.MutableEntity property) (medcat.trainer.MedCATTrainerExportDocument attribute) (medcat.trainer.MedCATTrainerExportProject attribute) (medcat.trainer.MutableEntity property) (medcat.utils.data_utils.MedCATTrainerExportDocument attribute) (medcat.utils.data_utils.MedCATTrainerExportProject attribute) (medcat.utils.data_utils.MutableEntity property) (medcat.utils.filters.MedCATTrainerExportProject attribute) (medcat.utils.postprocessing.MutableEntity property) (medcat.utils.regression.results.Entity attribute) (medcat.utils.regression.utils.MedCATTrainerExportDocument attribute) id2label (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) id2type (medcat.components.ner.trf.tokenizer.TransformersTokenizer attribute) (medcat.components.ner.trf.transformers_ner.TransformersTokenizer attribute) IDENTICAL (medcat.utils.regression.checking.Finding attribute) (medcat.utils.regression.regression_checker.Finding attribute) (medcat.utils.regression.results.Finding attribute) idx2labels (medcat.config.config_rel_cat.General attribute) ignore_all() (medcat.model_creation.preprocess_snomed.FileFormatDescriptor class method) ignore_attrs() (medcat.cat.AbstractSerialisable class method) (medcat.cat.CAT class method) (medcat.cat.CDB class method) (medcat.cat.Config class method) (medcat.cat.Vocab class method) (medcat.cdb.CDB class method) (medcat.cdb.cdb.AbstractSerialisable class method) (medcat.cdb.cdb.CDB class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.CDB class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.addons.Vocab class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.AbstractSerialisable class method) (medcat.components.addons.meta_cat.meta_cat.CDB class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.MetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.meta_cat.Vocab class method) (medcat.components.addons.meta_cat.MetaCAT class method) (medcat.components.addons.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.CDB class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon class method) (medcat.components.addons.relation_extraction.rel_cat.Vocab class method) (medcat.components.addons.relation_extraction.rel_dataset.CDB class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.CDB class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.context_based_linker.ContextModel class method) (medcat.components.linking.context_based_linker.Vocab class method) (medcat.components.linking.no_action_linker.CDB class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.no_action_linker.Vocab class method) (medcat.components.linking.two_step_context_based_linker.CDB class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.ContextModel class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.two_step_context_based_linker.Vocab class method) (medcat.components.linking.vector_context_model.AbstractSerialisable class method) (medcat.components.linking.vector_context_model.ContextModel class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.linking.vector_context_model.Vocab class method) (medcat.components.ner.dict_based_ner.CDB class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.dict_based_ner.Vocab class method) (medcat.components.ner.trf.deid.CAT class method) (medcat.components.ner.trf.deid.CDB class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.deid.TransformersNER class method) (medcat.components.ner.trf.helpers.CDB class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.CAT class method) (medcat.components.ner.trf.model.CDB class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.model.TransformersNER class method) (medcat.components.ner.trf.transformers_ner.CDB class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.trf.transformers_ner.TransformersNER class method) (medcat.components.ner.trf.transformers_ner.Vocab class method) (medcat.components.ner.vocab_based_annotator.CDB class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_ner.CDB class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.ner.vocab_based_ner.Vocab class method) (medcat.components.normalizing.normalizer.CDB class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.normalizing.normalizer.Vocab class method) (medcat.components.tagging.tagger.CDB class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.tagging.tagger.Vocab class method) (medcat.components.types.CDB class method) (medcat.components.types.ComponentConfig class method) (medcat.components.types.Vocab class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.Environment class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.CDB class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.CDB class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.pipeline.pipeline.Serialisable class method) (medcat.pipeline.pipeline.Vocab class method) (medcat.stats.kfold.CAT class method) (medcat.stats.stats.CAT class method) (medcat.stats.stats.LinkingFilters class method) (medcat.storage.serialisables.AbstractManualSerialisable class method) (medcat.storage.serialisables.AbstractSerialisable class method) (medcat.storage.serialisables.ManualSerialisable class method) (medcat.storage.serialisables.Serialisable class method) (medcat.storage.serialisers.ManualSerialisable class method) (medcat.storage.serialisers.Serialisable class method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.trainer.CDB class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.data_utils.CDB class method) (medcat.utils.envsnapshot.AbstractSerialisable class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.conversion_all.CAT class method) (medcat.utils.legacy.convert_cdb.CDB class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.CDB class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_deid.TransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_meta_cat.MetaCAT class method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon class method) (medcat.utils.legacy.convert_rel_cat.CDB class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon class method) (medcat.utils.legacy.convert_vocab.Vocab class method) (medcat.utils.legacy.helpers.CAT class method) (medcat.utils.legacy.helpers.CDB class method) (medcat.utils.regression.checking.CAT class method) (medcat.utils.regression.regression_checker.CAT class method) (medcat.utils.regression.targeting.CDB class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method) (medcat.utils.vocab_utils.CDB class method) (medcat.utils.vocab_utils.Vocab class method) (medcat.vocab.AbstractSerialisable class method) (medcat.vocab.Vocab class method) ignore_cpos (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_rel_cat.Model attribute) ignores (medcat.model_creation.preprocess_snomed.BundleDescriptor attribute) IllegalConfigPathException IllegalConfigPathException.__cause__ (class in medcat.utils.config_utils) IllegalConfigPathException.__context__ (class in medcat.utils.config_utils) IllegalConfigPathException.__suppress_context__ (class in medcat.utils.config_utils) IllegalConfigPathException.__traceback__ (class in medcat.utils.config_utils) IllegalConfigPathException.args (class in medcat.utils.config_utils) IllegalSchemaException, [1] IllegalSchemaException.__cause__ (class in medcat.storage.schema) (class in medcat.storage.serialisers) IllegalSchemaException.__context__ (class in medcat.storage.schema) (class in medcat.storage.serialisers) IllegalSchemaException.__suppress_context__ (class in medcat.storage.schema) (class in medcat.storage.serialisers) IllegalSchemaException.__traceback__ (class in medcat.storage.schema) (class in medcat.storage.serialisers) IllegalSchemaException.args (class in medcat.storage.schema) (class in medcat.storage.serialisers) in_memory_state_capture() (in module medcat.utils.cdb_state) in_other_ontology (medcat.cdb.cdb.CUIInfo attribute) (medcat.cdb.concepts.CUIInfo attribute) (medcat.components.linking.two_step_context_based_linker.CUIInfo attribute) (medcat.components.linking.vector_context_model.CUIInfo attribute) (medcat.stats.stats.CUIInfo attribute) (medcat.utils.cdb_state.CUIInfo attribute) (medcat.utils.regression.targeting.CUIInfo attribute) inc_or_add() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) inc_wc() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) include_in_output (medcat.cat.AddonComponent property) (medcat.components.addons.addons.AddonComponent property) (medcat.components.addons.meta_cat.meta_cat.AddonComponent property) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon property) (medcat.components.addons.meta_cat.MetaCATAddon property) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent property) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon property) (medcat.pipeline.pipeline.AddonComponent property) (medcat.trainer.AddonComponent property) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon property) (medcat.utils.legacy.convert_rel_cat.RelCATAddon property) include_properties() (medcat.cat.AbstractSerialisable class method) (medcat.cat.CAT class method) (medcat.cat.CDB class method) (medcat.cat.Config class method) (medcat.cat.Vocab class method) (medcat.cdb.CDB class method) (medcat.cdb.cdb.AbstractSerialisable class method) (medcat.cdb.cdb.CDB class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.CDB class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.addons.Vocab class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.AbstractSerialisable class method) (medcat.components.addons.meta_cat.meta_cat.CDB class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.MetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.meta_cat.Vocab class method) (medcat.components.addons.meta_cat.MetaCAT class method) (medcat.components.addons.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.CDB class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon class method) (medcat.components.addons.relation_extraction.rel_cat.Vocab class method) (medcat.components.addons.relation_extraction.rel_dataset.CDB class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.CDB class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.context_based_linker.ContextModel class method) (medcat.components.linking.context_based_linker.Vocab class method) (medcat.components.linking.no_action_linker.CDB class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.no_action_linker.Vocab class method) (medcat.components.linking.two_step_context_based_linker.CDB class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.ContextModel class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.two_step_context_based_linker.Vocab class method) (medcat.components.linking.vector_context_model.AbstractSerialisable class method) (medcat.components.linking.vector_context_model.ContextModel class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.linking.vector_context_model.Vocab class method) (medcat.components.ner.dict_based_ner.CDB class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.dict_based_ner.Vocab class method) (medcat.components.ner.trf.deid.CAT class method) (medcat.components.ner.trf.deid.CDB class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.deid.TransformersNER class method) (medcat.components.ner.trf.helpers.CDB class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.CAT class method) (medcat.components.ner.trf.model.CDB class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.model.TransformersNER class method) (medcat.components.ner.trf.transformers_ner.CDB class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.trf.transformers_ner.TransformersNER class method) (medcat.components.ner.trf.transformers_ner.Vocab class method) (medcat.components.ner.vocab_based_annotator.CDB class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_ner.CDB class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.ner.vocab_based_ner.Vocab class method) (medcat.components.normalizing.normalizer.CDB class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.normalizing.normalizer.Vocab class method) (medcat.components.tagging.tagger.CDB class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.tagging.tagger.Vocab class method) (medcat.components.types.CDB class method) (medcat.components.types.ComponentConfig class method) (medcat.components.types.Vocab class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.Environment class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.CDB class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.CDB class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.pipeline.pipeline.Serialisable class method) (medcat.pipeline.pipeline.Vocab class method) (medcat.stats.kfold.CAT class method) (medcat.stats.stats.CAT class method) (medcat.stats.stats.LinkingFilters class method) (medcat.storage.serialisables.AbstractManualSerialisable class method) (medcat.storage.serialisables.AbstractSerialisable class method) (medcat.storage.serialisables.ManualSerialisable class method) (medcat.storage.serialisables.Serialisable class method) (medcat.storage.serialisers.ManualSerialisable class method) (medcat.storage.serialisers.Serialisable class method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.trainer.CDB class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.data_utils.CDB class method) (medcat.utils.envsnapshot.AbstractSerialisable class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.conversion_all.CAT class method) (medcat.utils.legacy.convert_cdb.CDB class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.CDB class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_deid.TransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_meta_cat.MetaCAT class method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon class method) (medcat.utils.legacy.convert_rel_cat.CDB class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon class method) (medcat.utils.legacy.convert_vocab.Vocab class method) (medcat.utils.legacy.helpers.CAT class method) (medcat.utils.legacy.helpers.CDB class method) (medcat.utils.regression.checking.CAT class method) (medcat.utils.regression.regression_checker.CAT class method) (medcat.utils.regression.targeting.CDB class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method) (medcat.utils.vocab_utils.CDB class method) (medcat.utils.vocab_utils.Vocab class method) (medcat.vocab.AbstractSerialisable class method) (medcat.vocab.Vocab class method)

include_text_in_output (medcat.config.config.AnnotationOutput attribute) IncompatiblePhraseException IncompatiblePhraseException.__cause__ (class in medcat.utils.regression.utils) IncompatiblePhraseException.__context__ (class in medcat.utils.regression.utils) IncompatiblePhraseException.__suppress_context__ (class in medcat.utils.regression.utils) IncompatiblePhraseException.__traceback__ (class in medcat.utils.regression.utils) IncompatiblePhraseException.args (class in medcat.utils.regression.utils) IncorrectAddonLoaded IncorrectAddonLoaded.__cause__ (class in medcat.pipeline.pipeline) IncorrectAddonLoaded.__context__ (class in medcat.pipeline.pipeline) IncorrectAddonLoaded.__suppress_context__ (class in medcat.pipeline.pipeline) IncorrectAddonLoaded.__traceback__ (class in medcat.pipeline.pipeline) IncorrectAddonLoaded.args (class in medcat.pipeline.pipeline) IncorrectArgumentsForComponent IncorrectArgumentsForComponent.__cause__ (class in medcat.pipeline.pipeline) IncorrectArgumentsForComponent.__context__ (class in medcat.pipeline.pipeline) IncorrectArgumentsForComponent.__suppress_context__ (class in medcat.pipeline.pipeline) IncorrectArgumentsForComponent.__traceback__ (class in medcat.pipeline.pipeline) IncorrectArgumentsForComponent.args (class in medcat.pipeline.pipeline) IncorrectArgumentsForTokenizer IncorrectArgumentsForTokenizer.__cause__ (class in medcat.pipeline.pipeline) IncorrectArgumentsForTokenizer.__context__ (class in medcat.pipeline.pipeline) IncorrectArgumentsForTokenizer.__suppress_context__ (class in medcat.pipeline.pipeline) IncorrectArgumentsForTokenizer.__traceback__ (class in medcat.pipeline.pipeline) IncorrectArgumentsForTokenizer.args (class in medcat.pipeline.pipeline) IncorrectConfigValues IncorrectConfigValues.__cause__ (class in medcat.config.config) IncorrectConfigValues.__context__ (class in medcat.config.config) IncorrectConfigValues.__suppress_context__ (class in medcat.config.config) IncorrectConfigValues.__traceback__ (class in medcat.config.config) IncorrectConfigValues.args (class in medcat.config.config) IncorrectCoreComponent IncorrectCoreComponent.__cause__ (class in medcat.pipeline.pipeline) IncorrectCoreComponent.__context__ (class in medcat.pipeline.pipeline) IncorrectCoreComponent.__suppress_context__ (class in medcat.pipeline.pipeline) IncorrectCoreComponent.__traceback__ (class in medcat.pipeline.pipeline) IncorrectCoreComponent.args (class in medcat.pipeline.pipeline) IncorrectExtraComponent IncorrectExtraComponent.__cause__ (class in medcat.utils.import_utils) IncorrectExtraComponent.__context__ (class in medcat.utils.import_utils) IncorrectExtraComponent.__suppress_context__ (class in medcat.utils.import_utils) IncorrectExtraComponent.__traceback__ (class in medcat.utils.import_utils) IncorrectExtraComponent.args (class in medcat.utils.import_utils) IncorrectFolderUponLoad IncorrectFolderUponLoad.__cause__ (class in medcat.pipeline.pipeline) IncorrectFolderUponLoad.__context__ (class in medcat.pipeline.pipeline) IncorrectFolderUponLoad.__suppress_context__ (class in medcat.pipeline.pipeline) IncorrectFolderUponLoad.__traceback__ (class in medcat.pipeline.pipeline) IncorrectFolderUponLoad.args (class in medcat.pipeline.pipeline) index (medcat.tokenizing.regex_impl.tokenizer.BaseToken property) (medcat.tokenizing.regex_impl.tokenizer.Token property) (medcat.tokenizing.spacy_impl.tokenizers.Token property) (medcat.tokenizing.spacy_impl.tokens.BaseToken property) (medcat.tokenizing.spacy_impl.tokens.Token property) (medcat.tokenizing.tokens.BaseToken property) index2word (medcat.cat.Vocab attribute) (medcat.components.addons.addons.Vocab attribute) (medcat.components.addons.meta_cat.meta_cat.Vocab attribute) (medcat.components.addons.relation_extraction.rel_cat.Vocab attribute) (medcat.components.linking.context_based_linker.Vocab attribute) (medcat.components.linking.no_action_linker.Vocab attribute) (medcat.components.linking.two_step_context_based_linker.Vocab attribute) (medcat.components.linking.vector_context_model.Vocab attribute) (medcat.components.ner.dict_based_ner.Vocab attribute) (medcat.components.ner.trf.transformers_ner.Vocab attribute) (medcat.components.ner.vocab_based_ner.Vocab attribute) (medcat.components.normalizing.normalizer.Vocab attribute) (medcat.components.tagging.tagger.Vocab attribute) (medcat.components.types.Vocab attribute) (medcat.pipeline.pipeline.Vocab attribute) (medcat.utils.legacy.convert_vocab.Vocab attribute) (medcat.utils.vocab_utils.Vocab attribute) (medcat.vocab.Vocab attribute) indices (medcat.components.addons.relation_extraction.rel_cat.BalancedBatchSampler attribute) init_cumsums() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) init_inputs (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) init_kwargs (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) init_tokenizer() (in module medcat.components.addons.meta_cat.mctokenizers.tokenizers) (in module medcat.components.addons.meta_cat.meta_cat) input_size (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_rel_cat.Model attribute) INTERNATIONAL (medcat.model_creation.preprocess_snomed.SupportedExtension attribute) IntValuedMetric (in module medcat.stats.kfold) ipu() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) is_composition (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) is_core() (medcat.cat.AbstractCoreComponent method) (medcat.cat.AddonComponent method) (medcat.components.addons.addons.AddonComponent method) (medcat.components.addons.addons.BaseComponent method) (medcat.components.addons.meta_cat.meta_cat.AddonComponent method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon method) (medcat.components.addons.meta_cat.MetaCATAddon method) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon method) (medcat.components.linking.context_based_linker.AbstractCoreComponent method) (medcat.components.linking.context_based_linker.Linker method) (medcat.components.linking.no_action_linker.AbstractCoreComponent method) (medcat.components.linking.no_action_linker.NoActionLinker method) (medcat.components.linking.two_step_context_based_linker.AbstractCoreComponent method) (medcat.components.linking.two_step_context_based_linker.NormalLinker method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker method) (medcat.components.ner.dict_based_ner.AbstractCoreComponent method) (medcat.components.ner.dict_based_ner.NER method) (medcat.components.ner.trf.deid.TransformersNER method) (medcat.components.ner.trf.model.TransformersNER method) (medcat.components.ner.trf.transformers_ner.AbstractCoreComponent method) (medcat.components.ner.trf.transformers_ner.TransformersNER method) (medcat.components.ner.vocab_based_ner.AbstractCoreComponent method) (medcat.components.ner.vocab_based_ner.NER method) (medcat.components.normalizing.normalizer.AbstractCoreComponent method) (medcat.components.normalizing.normalizer.TokenNormalizer method) (medcat.components.tagging.tagger.AbstractCoreComponent method) (medcat.components.tagging.tagger.TagAndSkipTagger method) (medcat.components.types.AbstractCoreComponent method) (medcat.components.types.BaseComponent method) (medcat.components.types.CoreComponent method) (medcat.pipeline.pipeline.AbstractCoreComponent method) (medcat.pipeline.pipeline.AddonComponent method) (medcat.pipeline.pipeline.BaseComponent method) (medcat.pipeline.pipeline.CoreComponent method) (medcat.trainer.AddonComponent method) (medcat.utils.legacy.conversion_all.NoActionLinker method) (medcat.utils.legacy.convert_deid.TransformersNER method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon method) is_cuda_available (medcat.components.addons.relation_extraction.rel_cat.RelCAT attribute) (medcat.utils.legacy.convert_rel_cat.RelCAT attribute) is_decoder (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) is_dependency_installed() (in module medcat.utils.envsnapshot) is_digit (medcat.tokenizing.regex_impl.tokenizer.BaseToken property) (medcat.tokenizing.regex_impl.tokenizer.Token property) (medcat.tokenizing.spacy_impl.tokenizers.Token property) (medcat.tokenizing.spacy_impl.tokens.BaseToken property) (medcat.tokenizing.spacy_impl.tokens.Token property) (medcat.tokenizing.tokens.BaseToken property) is_dirty (medcat.cat.CDB attribute) (medcat.cdb.CDB attribute) (medcat.cdb.cdb.CDB attribute) (medcat.components.addons.addons.CDB attribute) (medcat.components.addons.addons.ComponentConfig property) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT property) (medcat.components.addons.meta_cat.meta_cat.CDB attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig property) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT property) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT property) (medcat.components.addons.meta_cat.models.ConfigMetaCAT property) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT property) (medcat.components.addons.relation_extraction.models.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.rel_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig property) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT property) (medcat.components.addons.relation_extraction.rel_dataset.CDB attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT property) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT property) (medcat.components.linking.context_based_linker.CDB attribute) (medcat.components.linking.context_based_linker.ComponentConfig property) (medcat.components.linking.no_action_linker.CDB attribute) (medcat.components.linking.no_action_linker.ComponentConfig property) (medcat.components.linking.two_step_context_based_linker.CDB attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig property) (medcat.components.linking.vector_context_model.Linking property) (medcat.components.ner.dict_based_ner.CDB attribute) (medcat.components.ner.dict_based_ner.ComponentConfig property) (medcat.components.ner.trf.deid.CDB attribute) (medcat.components.ner.trf.helpers.CDB attribute) (medcat.components.ner.trf.model.CDB attribute) (medcat.components.ner.trf.transformers_ner.CDB attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig property) (medcat.components.ner.vocab_based_annotator.CDB attribute) (medcat.components.ner.vocab_based_ner.CDB attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig property) (medcat.components.normalizing.normalizer.CDB attribute) (medcat.components.normalizing.normalizer.ComponentConfig property) (medcat.components.tagging.tagger.CDB attribute) (medcat.components.tagging.tagger.ComponentConfig property) (medcat.components.types.CDB attribute) (medcat.components.types.ComponentConfig property) (medcat.config.config.ComponentConfig property) (medcat.config.config.DirtiableBaseModel property) (medcat.config.config.Linking property) (medcat.config.config.Ner property) (medcat.config.config.PotentiallyDirty property) (medcat.config.config_meta_cat.ComponentConfig property) (medcat.config.config_meta_cat.ConfigMetaCAT property) (medcat.config.config_meta_cat.DirtiableBaseModel property) (medcat.config.config_meta_cat.General property) (medcat.config.config_meta_cat.Model property) (medcat.config.config_meta_cat.Train property) (medcat.config.config_rel_cat.ComponentConfig property) (medcat.config.config_rel_cat.ConfigRelCAT property) (medcat.model_creation.cdb_maker.CDB attribute) (medcat.pipeline.pipeline.CDB attribute) (medcat.pipeline.pipeline.ComponentConfig property) (medcat.pipeline.pipeline.ConfigMetaCAT property) (medcat.pipeline.pipeline.ConfigRelCAT property) (medcat.trainer.CDB attribute) (medcat.utils.data_utils.CDB attribute) (medcat.utils.legacy.convert_cdb.CDB attribute) (medcat.utils.legacy.convert_deid.CDB attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT property) (medcat.utils.legacy.convert_rel_cat.CDB attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT property) (medcat.utils.legacy.helpers.CDB attribute) (medcat.utils.regression.targeting.CDB attribute) (medcat.utils.vocab_utils.CDB attribute) is_encoder_decoder (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) is_fast (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama property) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT property) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper property) is_legacy_model_pack() (in module medcat.cat) (in module medcat.utils.legacy.identifier) is_punctuation (medcat.components.linking.vector_context_model.MutableToken property) (medcat.components.ner.vocab_based_annotator.MutableToken property) (medcat.pipeline.pipeline.MutableToken property) (medcat.tokenizing.regex_impl.tokenizer.MutableToken property) (medcat.tokenizing.regex_impl.tokenizer.Token property) (medcat.tokenizing.spacy_impl.tokenizers.MutableToken property) (medcat.tokenizing.spacy_impl.tokenizers.Token property) (medcat.tokenizing.spacy_impl.tokens.MutableToken property) (medcat.tokenizing.spacy_impl.tokens.Token property) (medcat.tokenizing.tokenizers.MutableToken property) (medcat.tokenizing.tokens.MutableToken property) (medcat.trainer.MutableToken property) is_stop (medcat.tokenizing.regex_impl.tokenizer.BaseToken property) (medcat.tokenizing.regex_impl.tokenizer.Token property) (medcat.tokenizing.spacy_impl.tokenizers.Token property) (medcat.tokenizing.spacy_impl.tokens.BaseToken property) (medcat.tokenizing.spacy_impl.tokens.Token property) (medcat.tokenizing.tokens.BaseToken property) is_upper (medcat.cdb.cdb.NameDescriptor attribute) (medcat.cdb.cdb.NameInfo attribute) (medcat.cdb.concepts.NameInfo attribute) (medcat.components.linking.vector_context_model.NameInfo attribute) (medcat.components.ner.trf.transformers_ner.NameDescriptor attribute) (medcat.preprocessors.cleaners.NameDescriptor attribute) (medcat.tokenizing.regex_impl.tokenizer.BaseToken property) (medcat.tokenizing.regex_impl.tokenizer.Token property) (medcat.tokenizing.spacy_impl.tokenizers.Token property) (medcat.tokenizing.spacy_impl.tokens.BaseToken property) (medcat.tokenizing.spacy_impl.tokens.Token property) (medcat.tokenizing.tokens.BaseToken property) (medcat.trainer.NameDescriptor attribute) (medcat.utils.cdb_state.NameInfo attribute) (medcat.utils.legacy.helpers.NameDescriptor attribute) (medcat.utils.regression.targeting.NameInfo attribute) isupper() (medcat.tokenizing.regex_impl.tokenizer.BaseDocument method) (medcat.tokenizing.regex_impl.tokenizer.Document method) (medcat.tokenizing.spacy_impl.tokenizers.Document method) (medcat.tokenizing.spacy_impl.tokens.BaseDocument method) (medcat.tokenizing.spacy_impl.tokens.Document method) (medcat.tokenizing.tokens.BaseDocument method) item() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) items() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.PerEntityWeights method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) iter_addons() (medcat.cat.Pipeline method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.Pipeline method) (medcat.trainer.Pipeline method) iter_all_components() (medcat.cat.Pipeline method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.Pipeline method) (medcat.trainer.Pipeline method) iter_anns() (in module medcat.data.mctexport) (in module medcat.stats.kfold) (in module medcat.trainer) iter_docs() (in module medcat.data.mctexport) (in module medcat.stats.kfold) iter_examples() (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.results.MultiDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) iter_projects() (in module medcat.data.mctexport) iter_subcases() (medcat.utils.regression.checking.RegressionSuite method) (medcat.utils.regression.regression_checker.RegressionSuite method)

J

json (medcat.cat.AvailableSerialisers attribute) (medcat.cdb.cdb.AvailableSerialisers attribute) (medcat.components.ner.trf.transformers_ner.AvailableSerialisers attribute) (medcat.config.config_meta_cat.AvailableSerialisers attribute) (medcat.pipeline.pipeline.AvailableSerialisers attribute) (medcat.storage.jsonserialiser.AvailableSerialisers attribute) (medcat.storage.serialisers.AvailableSerialisers attribute) (medcat.utils.legacy.conversion_all.AvailableSerialisers attribute) (medcat.utils.legacy.legacy_converter.AvailableSerialisers attribute) (medcat.vocab.AvailableSerialisers attribute) json() (medcat.cat.Config method) (medcat.cdb.cdb.Config method) (medcat.components.addons.addons.ComponentConfig method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig method) (medcat.components.addons.relation_extraction.rel_cat.Config method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT method) (medcat.components.linking.context_based_linker.ComponentConfig method) (medcat.components.linking.context_based_linker.Config method) (medcat.components.linking.no_action_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.Config method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig method) (medcat.components.linking.vector_context_model.Linking method) (medcat.components.ner.dict_based_ner.ComponentConfig method) (medcat.components.ner.trf.deid.ConfigTransformersNER method) (medcat.components.ner.trf.helpers.Config method) (medcat.components.ner.trf.model.Config method) (medcat.components.ner.trf.transformers_ner.ComponentConfig method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER method) (medcat.components.ner.vocab_based_annotator.Config method) (medcat.components.ner.vocab_based_ner.ComponentConfig method) (medcat.components.normalizing.normalizer.ComponentConfig method) (medcat.components.normalizing.normalizer.Config method) (medcat.components.tagging.tagger.ComponentConfig method) (medcat.components.tagging.tagger.Preprocessing method) (medcat.components.types.ComponentConfig method) (medcat.config.Config method) (medcat.config.config.AnnotationOutput method) (medcat.config.config.CDBMaker method) (medcat.config.config.ComponentConfig method) (medcat.config.config.Components method) (medcat.config.config.Config method) (medcat.config.config.DirtiableBaseModel method) (medcat.config.config.Environment method) (medcat.config.config.General method) (medcat.config.config.Linking method) (medcat.config.config.LinkingFilters method) (medcat.config.config.ModelMeta method) (medcat.config.config.Ner method) (medcat.config.config.NLPConfig method) (medcat.config.config.Preprocessing method) (medcat.config.config.SerialisableBaseModel method) (medcat.config.config.TrainingDescriptor method) (medcat.config.config.UsageMonitor method) (medcat.config.config_meta_cat.ComponentConfig method) (medcat.config.config_meta_cat.ConfigMetaCAT method) (medcat.config.config_meta_cat.DirtiableBaseModel method) (medcat.config.config_meta_cat.General method) (medcat.config.config_meta_cat.Model method) (medcat.config.config_meta_cat.Train method) (medcat.config.config_rel_cat.ComponentConfig method) (medcat.config.config_rel_cat.ConfigRelCAT method) (medcat.config.config_rel_cat.General method) (medcat.config.config_rel_cat.Model method) (medcat.config.config_rel_cat.SerialisableBaseModel method) (medcat.config.config_rel_cat.Train method) (medcat.config.config_transformers_ner.ConfigTransformersNER method) (medcat.config.config_transformers_ner.General method) (medcat.config.config_transformers_ner.SerialisableBaseModel method) (medcat.model_creation.cdb_maker.Config method) (medcat.pipeline.pipeline.ComponentConfig method) (medcat.pipeline.pipeline.Config method) (medcat.pipeline.pipeline.ConfigMetaCAT method) (medcat.pipeline.pipeline.ConfigRelCAT method) (medcat.stats.kfold.PerCUIMetrics method) (medcat.stats.stats.LinkingFilters method) (medcat.tokenizing.regex_impl.tokenizer.Config method) (medcat.tokenizing.spacy_impl.tokenizers.Config method) (medcat.tokenizing.tokenizers.Config method) (medcat.trainer.CDBMaker method) (medcat.trainer.General method) (medcat.trainer.Preprocessing method) (medcat.utils.cdb_state.ModelMeta method) (medcat.utils.envsnapshot.Environment method) (medcat.utils.filters.LinkingFilters method) (medcat.utils.legacy.convert_cdb.Config method) (medcat.utils.legacy.convert_config.Config method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT method) (medcat.utils.regression.checking.FinalTarget method) (medcat.utils.regression.checking.MetaData method) (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.checking.OptionSet method) (medcat.utils.regression.checking.RegressionCase method) (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.checking.TargetedPhraseChanger method) (medcat.utils.regression.results.FinalTarget method) (medcat.utils.regression.results.MultiDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) (medcat.utils.regression.results.SingleResultDescriptor method) (medcat.utils.regression.targeting.FinalTarget method) (medcat.utils.regression.targeting.OptionSet method) (medcat.utils.regression.targeting.PhraseChanger method) (medcat.utils.regression.targeting.TargetedPhraseChanger method) (medcat.utils.regression.targeting.TargetPlaceholder method) (medcat.utils.usage_monitoring.UsageMonitorConfig method)

JsonSerialiser (class in medcat.storage.jsonserialiser)

K

keep_punct (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.config.config.Preprocessing attribute) (medcat.trainer.Preprocessing attribute) KeyDefaultDict (class in medcat.utils.import_utils) keys() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.PerEntityWeights method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method)

known() (medcat.components.normalizing.normalizer.BasicSpellChecker method) (medcat.utils.regression.checking.BasicSpellChecker method) kwargs (medcat.utils.legacy.convert_cdb.LegacyClassNotFound attribute)

L

label (medcat.tokenizing.regex_impl.tokenizer.BaseEntity property) (medcat.tokenizing.regex_impl.tokenizer.Entity property) (medcat.tokenizing.spacy_impl.tokenizers.Entity property) (medcat.tokenizing.spacy_impl.tokens.BaseEntity property) (medcat.tokenizing.spacy_impl.tokens.Entity property) (medcat.tokenizing.tokens.BaseEntity property) label2id (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) label_map (medcat.components.ner.trf.tokenizer.TransformersTokenizer attribute) (medcat.components.ner.trf.transformers_ner.TransformersTokenizer attribute) label_pad_value (medcat.components.addons.relation_extraction.base_component.Pad_Sequence attribute) (medcat.components.addons.relation_extraction.pad_seq.Pad_Sequence attribute) labels2idx (medcat.config.config_rel_cat.General attribute) language (medcat.config.config_rel_cat.General attribute) last_modified (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument attribute) (medcat.data.mctexport.MedCATTrainerExportDocument attribute) (medcat.stats.kfold.MedCATTrainerExportDocument attribute) (medcat.stats.stats.MedCATTrainerExportDocument attribute) (medcat.trainer.MedCATTrainerExportDocument attribute) (medcat.utils.data_utils.MedCATTrainerExportDocument attribute) (medcat.utils.regression.utils.MedCATTrainerExportDocument attribute) last_saved (medcat.config.config.ModelMeta attribute) (medcat.utils.cdb_state.ModelMeta attribute) last_train_on (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_transformers_ner.General attribute) LCDBMaker (class in medcat.preprocessors.cleaners) LegacyClassNotFound (class in medcat.utils.legacy.convert_cdb) lemma (medcat.components.linking.vector_context_model.MutableToken property) (medcat.components.ner.vocab_based_annotator.MutableToken property) (medcat.pipeline.pipeline.MutableToken property) (medcat.tokenizing.regex_impl.tokenizer.MutableToken property) (medcat.tokenizing.regex_impl.tokenizer.Token property) (medcat.tokenizing.spacy_impl.tokenizers.MutableToken property) (medcat.tokenizing.spacy_impl.tokenizers.Token property) (medcat.tokenizing.spacy_impl.tokens.MutableToken property) (medcat.tokenizing.spacy_impl.tokens.Token property) (medcat.tokenizing.tokenizers.MutableToken property) (medcat.tokenizing.tokens.MutableToken property) (medcat.trainer.MutableToken property) LENIENT (medcat.utils.regression.regression_checker.Strictness attribute) (medcat.utils.regression.results.Strictness attribute) LGeneral (class in medcat.preprocessors.cleaners) limit_samples_per_class (medcat.config.config_rel_cat.General attribute) limit_str_len() (in module medcat.utils.regression.results) (in module medcat.utils.regression.utils) link_candidates (medcat.cat.MutableEntity property) (medcat.components.addons.addons.MutableEntity property) (medcat.components.addons.meta_cat.meta_cat.MutableEntity property) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity property) (medcat.components.linking.context_based_linker.MutableEntity property) (medcat.components.linking.two_step_context_based_linker.MutableEntity property) (medcat.components.linking.vector_context_model.MutableEntity property) (medcat.components.ner.trf.transformers_ner.MutableEntity property) (medcat.components.ner.vocab_based_annotator.MutableEntity property) (medcat.components.types.MutableEntity property) (medcat.pipeline.pipeline.MutableEntity property) (medcat.stats.stats.MutableEntity property) (medcat.tokenizing.regex_impl.tokenizer.Entity attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity property) (medcat.tokenizing.spacy_impl.tokenizers.Entity attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity property) (medcat.tokenizing.spacy_impl.tokens.Entity attribute) (medcat.tokenizing.spacy_impl.tokens.MutableEntity property) (medcat.tokenizing.tokenizers.MutableEntity property) (medcat.tokenizing.tokens.MutableEntity property) (medcat.trainer.MutableEntity property) (medcat.utils.data_utils.MutableEntity property) (medcat.utils.postprocessing.MutableEntity property) linked_ents (medcat.cat.MutableDocument property) (medcat.components.addons.meta_cat.meta_cat.MutableDocument property) (medcat.components.addons.relation_extraction.rel_cat.MutableDocument property) (medcat.components.addons.relation_extraction.rel_dataset.MutableDocument property) (medcat.components.linking.context_based_linker.MutableDocument property) (medcat.components.linking.no_action_linker.MutableDocument property) (medcat.components.linking.two_step_context_based_linker.MutableDocument property) (medcat.components.linking.vector_context_model.MutableDocument property) (medcat.components.ner.dict_based_ner.MutableDocument property) (medcat.components.ner.trf.model.MutableDocument property) (medcat.components.ner.trf.transformers_ner.MutableDocument property) (medcat.components.ner.vocab_based_annotator.MutableDocument property) (medcat.components.ner.vocab_based_ner.MutableDocument property) (medcat.components.normalizing.normalizer.MutableDocument property) (medcat.components.tagging.tagger.MutableDocument property) (medcat.components.types.MutableDocument property) (medcat.pipeline.pipeline.MutableDocument property) (medcat.preprocessors.cleaners.MutableDocument property) (medcat.stats.stats.MutableDocument property) (medcat.tokenizing.regex_impl.tokenizer.Document attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableDocument property) (medcat.tokenizing.spacy_impl.tokenizers.Document attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableDocument property) (medcat.tokenizing.spacy_impl.tokens.Document attribute) (medcat.tokenizing.tokenizers.MutableDocument property) (medcat.tokenizing.tokens.MutableDocument property) (medcat.trainer.MutableDocument property) (medcat.utils.data_utils.MutableDocument property) (medcat.utils.postprocessing.MutableDocument property) Linker (class in medcat.components.linking.context_based_linker) Linking (class in medcat.components.linking.vector_context_model) (class in medcat.config.config) linking (medcat.components.linking.context_based_linker.CoreComponentType attribute) (medcat.components.linking.no_action_linker.CoreComponentType attribute) (medcat.components.linking.two_step_context_based_linker.CoreComponentType attribute) (medcat.components.ner.dict_based_ner.CoreComponentType attribute) (medcat.components.ner.trf.deid.CoreComponentType attribute) (medcat.components.ner.trf.model.CoreComponentType attribute) (medcat.components.ner.trf.transformers_ner.CoreComponentType attribute) (medcat.components.ner.vocab_based_ner.CoreComponentType attribute) (medcat.components.normalizing.normalizer.CoreComponentType attribute) (medcat.components.tagging.tagger.CoreComponentType attribute) (medcat.components.types.CoreComponentType attribute) (medcat.config.config.Components attribute) (medcat.pipeline.pipeline.CoreComponentType attribute) (medcat.trainer.CoreComponentType attribute) (medcat.utils.legacy.conversion_all.CoreComponentType attribute) LinkingFilters (class in medcat.config.config) (class in medcat.stats.stats) (class in medcat.utils.filters) list_all_relationships() (medcat.model_creation.preprocess_snomed.Snomed method) list_available_tokenizers() (in module medcat.tokenizing.tokenizers) list_components() (medcat.components.addons.addons.Registry method) (medcat.components.types.Registry method) (medcat.tokenizing.tokenizers.Registry method) (medcat.utils.registry.Registry method) llama_pooler (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) llama_use_pooled_output (medcat.config.config_rel_cat.Model attribute) LlamaPooler (class in medcat.components.addons.relation_extraction.llama.model) load() (medcat.cat.CDB class method) (medcat.cat.Config class method) (medcat.cat.Vocab class method) (medcat.cdb.CDB class method) (medcat.cdb.cdb.CDB class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.CDB class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.addons.Vocab class method) (medcat.components.addons.meta_cat.data_utils.TokenizerWrapperBase class method) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBase class method) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBERT class method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBase class method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBPE class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.TokenizerWrapperBase class method) (medcat.components.addons.meta_cat.meta_cat.CDB class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon method) (medcat.components.addons.meta_cat.meta_cat.TokenizerWrapperBase class method) (medcat.components.addons.meta_cat.meta_cat.Vocab class method) (medcat.components.addons.meta_cat.MetaCATAddon method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.ml_utils.TokenizerWrapperBase class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent class method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel class method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel class method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel class method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel class method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama class method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel class method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig class method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT class method) (medcat.components.addons.relation_extraction.rel_cat.CDB class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.RelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent class method) (medcat.components.addons.relation_extraction.rel_cat.Vocab class method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.rel_dataset.CDB class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.CDB class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.context_based_linker.Vocab class method) (medcat.components.linking.no_action_linker.CDB class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.no_action_linker.Vocab class method) (medcat.components.linking.two_step_context_based_linker.CDB class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.two_step_context_based_linker.Vocab class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.linking.vector_context_model.Vocab class method) (medcat.components.ner.dict_based_ner.CDB class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.dict_based_ner.Vocab class method) (medcat.components.ner.trf.deid.CDB class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.helpers.CDB class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.CDB class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.tokenizer.TransformersTokenizer class method) (medcat.components.ner.trf.transformers_ner.CDB class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.trf.transformers_ner.TransformersTokenizer class method) (medcat.components.ner.trf.transformers_ner.Vocab class method) (medcat.components.ner.vocab_based_annotator.CDB class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_ner.CDB class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.ner.vocab_based_ner.Vocab class method) (medcat.components.normalizing.normalizer.CDB class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.normalizing.normalizer.Vocab class method) (medcat.components.tagging.tagger.CDB class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.tagging.tagger.Vocab class method) (medcat.components.types.CDB class method) (medcat.components.types.ComponentConfig class method) (medcat.components.types.Vocab class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.CDB class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.CDB class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.pipeline.pipeline.Vocab class method) (medcat.stats.stats.LinkingFilters class method) (medcat.storage.serialisers.RemappingUnpickler method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.trainer.CDB class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.data_utils.CDB class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.convert_cdb.CDB class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.CDB class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon method) (medcat.utils.legacy.convert_meta_cat.TokenizerWrapperBase class method) (medcat.utils.legacy.convert_rel_cat.CDB class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.legacy.convert_rel_cat.RelCAT class method) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent class method) (medcat.utils.legacy.convert_vocab.Vocab class method) (medcat.utils.legacy.helpers.CDB class method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) (medcat.utils.regression.targeting.CDB class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method) (medcat.utils.vocab_utils.CDB class method) (medcat.utils.vocab_utils.Vocab class method) (medcat.vocab.Vocab class method) load_additems() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_and_apply_cdb_state() (in module medcat.utils.cdb_state) load_append() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_appends() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_bin_file() (in module medcat.components.addons.relation_extraction.ml_utils)

load_binbytes() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_binbytes8() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_binfloat() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_binget() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_binint() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_binint1() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_binint2() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_binpersid() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_binput() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_binstring() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_binunicode() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_binunicode8() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_build() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_bytearray8() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_cdb() (medcat.cat.CAT class method) (medcat.components.ner.trf.deid.CAT class method) (medcat.components.ner.trf.model.CAT class method) (medcat.stats.kfold.CAT class method) (medcat.stats.stats.CAT class method) (medcat.utils.legacy.conversion_all.CAT class method) (medcat.utils.legacy.helpers.CAT class method) (medcat.utils.regression.checking.CAT class method) (medcat.utils.regression.regression_checker.CAT class method) load_cnf() (in module medcat.utils.legacy.convert_meta_cat) (in module medcat.utils.legacy.convert_rel_cat) load_dict() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_dup() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_empty_dictionary() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_empty_list() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_empty_set() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_empty_tuple() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_existing() (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon class method) (medcat.components.addons.meta_cat.MetaCATAddon class method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon class method) (medcat.components.ner.trf.deid.TransformersNER class method) (medcat.components.ner.trf.model.TransformersNER class method) (medcat.components.ner.trf.transformers_ner.TransformersNER class method) (medcat.utils.legacy.convert_deid.TransformersNER class method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon class method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon class method) load_ext1() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_ext2() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_ext4() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_false() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_float() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_frame() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_frozenset() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_get() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_global() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_inst() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_int() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_internals_from() (medcat.cat.SaveableTokenizer method) (medcat.tokenizing.spacy_impl.tokenizers.SpacyTokenizer method) (medcat.tokenizing.tokenizers.SaveableTokenizer method) load_list() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_long() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_long1() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_long4() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_long_binget() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_long_binput() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_mark() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_memoize() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_model_pack() (medcat.cat.CAT class method) (medcat.components.ner.trf.deid.CAT class method) (medcat.components.ner.trf.deid.DeIdModel class method) (medcat.components.ner.trf.deid.NerModel class method) (medcat.components.ner.trf.model.CAT class method) (medcat.components.ner.trf.model.NerModel class method) (medcat.stats.kfold.CAT class method) (medcat.stats.stats.CAT class method) (medcat.utils.legacy.conversion_all.CAT class method) (medcat.utils.legacy.helpers.CAT class method) (medcat.utils.regression.checking.CAT class method) (medcat.utils.regression.regression_checker.CAT class method) load_newobj() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_newobj_ex() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_next_buffer() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_none() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_obj() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_old_raw_data() (in module medcat.utils.legacy.convert_cdb) load_persid() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_pop() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_pop_mark() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_proto() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_put() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_readonly_buffer() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_reduce() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_results() (in module medcat.components.addons.relation_extraction.ml_utils) (in module medcat.components.addons.relation_extraction.rel_cat) load_schema() (in module medcat.storage.schema) (in module medcat.storage.serialisers) load_setitem() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_setitems() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_short_binbytes() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_short_binstring() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_short_binunicode() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_specific() (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel class method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel class method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel class method) load_stack_global() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_state() (in module medcat.components.addons.relation_extraction.base_component) (in module medcat.components.addons.relation_extraction.ml_utils) (in module medcat.components.addons.relation_extraction.rel_cat) load_state_dict() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) load_stop() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_string() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_tokenizer() (in module medcat.components.addons.meta_cat.mctokenizers.tokenizers) (in module medcat.components.addons.meta_cat.meta_cat) (in module medcat.utils.legacy.convert_meta_cat) load_true() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_tuple() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_tuple1() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_tuple2() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_tuple3() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) load_unicode() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) location (medcat.config.config.ModelMeta attribute) (medcat.utils.cdb_state.ModelMeta attribute) log_buffer (medcat.cat.UsageMonitor attribute) (medcat.utils.usage_monitoring.UsageMonitor attribute) log_file (medcat.cat.UsageMonitor property) (medcat.utils.usage_monitoring.UsageMonitor property) log_folder (medcat.config.config.UsageMonitor attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) log_format (medcat.config.config.General attribute) (medcat.trainer.General attribute) log_inference() (medcat.cat.UsageMonitor method) (medcat.utils.usage_monitoring.UsageMonitor method) log_level (medcat.config.config.General attribute) (medcat.config.config_rel_cat.General attribute) (medcat.trainer.General attribute) log_path (medcat.config.config.General attribute) (medcat.trainer.General attribute) logger (in module medcat.cat) (in module medcat.cdb.cdb) (in module medcat.components.addons.meta_cat.data_utils) (in module medcat.components.addons.meta_cat.meta_cat) (in module medcat.components.addons.meta_cat.ml_utils) (in module medcat.components.addons.meta_cat.models) (in module medcat.components.addons.relation_extraction.base_component) (in module medcat.components.addons.relation_extraction.bert.config) (in module medcat.components.addons.relation_extraction.bert.model) (in module medcat.components.addons.relation_extraction.bert.tokenizer) (in module medcat.components.addons.relation_extraction.config) (in module medcat.components.addons.relation_extraction.llama.config) (in module medcat.components.addons.relation_extraction.llama.model) (in module medcat.components.addons.relation_extraction.llama.tokenizer) (in module medcat.components.addons.relation_extraction.ml_utils) (in module medcat.components.addons.relation_extraction.models) (in module medcat.components.addons.relation_extraction.modernbert.config) (in module medcat.components.addons.relation_extraction.modernbert.model) (in module medcat.components.addons.relation_extraction.modernbert.tokenizer) (in module medcat.components.addons.relation_extraction.rel_cat) (in module medcat.components.addons.relation_extraction.rel_dataset) (in module medcat.components.addons.relation_extraction.tokenizer) (in module medcat.components.linking.context_based_linker) (in module medcat.components.linking.two_step_context_based_linker) (in module medcat.components.linking.vector_context_model) (in module medcat.components.ner.dict_based_ner) (in module medcat.components.ner.trf.deid) (in module medcat.components.ner.trf.tokenizer) (in module medcat.components.ner.trf.transformers_ner) (in module medcat.components.ner.vocab_based_annotator) (in module medcat.components.ner.vocab_based_ner) (in module medcat.config.config) (in module medcat.config.config_meta_cat) (in module medcat.model_creation.cdb_maker) (in module medcat.pipeline.pipeline) (in module medcat.storage.schema) (in module medcat.storage.serialisers) (in module medcat.tokenizing.spacy_impl.tokenizers) (in module medcat.tokenizing.spacy_impl.tokens) (in module medcat.tokenizing.spacy_impl.utils) (in module medcat.tokenizing.tokenizers) (in module medcat.trainer) (in module medcat.utils.cdb_state) (in module medcat.utils.envsnapshot) (in module medcat.utils.legacy.conversion_all) (in module medcat.utils.legacy.convert_cdb) (in module medcat.utils.legacy.convert_config) (in module medcat.utils.legacy.convert_meta_cat) (in module medcat.utils.legacy.convert_rel_cat) (in module medcat.utils.legacy.helpers) (in module medcat.utils.ner.metrics) (in module medcat.utils.registry) (in module medcat.utils.regression) (in module medcat.utils.regression.checking) (in module medcat.utils.regression.regression_checker) (in module medcat.utils.regression.targeting) (in module medcat.utils.usage_monitoring) (in module medcat.utils.vocab_utils) LOGS_ENV (in module medcat.utils.usage_monitoring) LOGS_LOC_ENV (in module medcat.utils.usage_monitoring) loss_funct (medcat.config.config_meta_cat.Train attribute) lower (medcat.tokenizing.regex_impl.tokenizer.BaseToken property) (medcat.tokenizing.regex_impl.tokenizer.Token property) (medcat.tokenizing.spacy_impl.tokenizers.Token property) (medcat.tokenizing.spacy_impl.tokens.BaseToken property) (medcat.tokenizing.spacy_impl.tokens.Token property) (medcat.tokenizing.tokens.BaseToken property) lowercase (medcat.config.config_meta_cat.General attribute) (medcat.config.config_rel_cat.General attribute) lowercase_context (medcat.config.config.AnnotationOutput attribute) LPreprocessing (class in medcat.preprocessors.cleaners) lr (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.Train attribute) LSTM (class in medcat.components.addons.meta_cat.models)

M

m (medcat.cat.Hasher attribute) (medcat.cdb.cdb.Hasher attribute) (medcat.components.addons.meta_cat.meta_cat.Hasher attribute) (medcat.components.ner.trf.transformers_ner.Hasher attribute) (medcat.config.config_transformers_ner.Hasher attribute) (medcat.utils.hasher.Hasher attribute) main() (in module medcat.utils.legacy.legacy_converter) (in module medcat.utils.regression.regression_checker) main_columns (medcat.model_creation.preprocess_umls.UMLS attribute) main_file_name (medcat.model_creation.preprocess_umls.UMLS attribute) make_mc_train_test() (in module medcat.trainer) (in module medcat.utils.data_utils) make_or_update_cdb() (in module medcat.components.ner.trf.helpers) make_pretty_labels (medcat.config.config.General attribute) (medcat.trainer.General attribute) MalformedFinding MalformedFinding.__cause__ (class in medcat.utils.regression.results) MalformedFinding.__context__ (class in medcat.utils.regression.results) MalformedFinding.__suppress_context__ (class in medcat.utils.regression.results) MalformedFinding.__traceback__ (class in medcat.utils.regression.results) MalformedFinding.args (class in medcat.utils.regression.results) MalformedRegressionCaseException MalformedRegressionCaseException.__cause__ (class in medcat.utils.regression.checking) MalformedRegressionCaseException.__context__ (class in medcat.utils.regression.checking) MalformedRegressionCaseException.__suppress_context__ (class in medcat.utils.regression.checking) MalformedRegressionCaseException.__traceback__ (class in medcat.utils.regression.checking) MalformedRegressionCaseException.args (class in medcat.utils.regression.checking) MANUAL (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy attribute) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy attribute) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy attribute) (medcat.config.config.SerialisingStrategy attribute) (medcat.storage.serialisables.SerialisingStrategy attribute) MANUAL_SERIALISED_RE (in module medcat.storage.serialisers) MANUAL_SERIALISED_TAG (in module medcat.storage.serialisers) ManualSerialisable (class in medcat.storage.serialisables) (class in medcat.storage.serialisers) map_cui_to_group (medcat.config.config.General attribute) (medcat.trainer.General attribute) map_snomed2icd10() (medcat.model_creation.preprocess_snomed.Snomed method) map_snomed2opcs4() (medcat.model_creation.preprocess_snomed.Snomed method) map_umls2icd10() (medcat.model_creation.preprocess_umls.UMLS method) map_umls2snomed() (medcat.model_creation.preprocess_umls.UMLS method) map_umls2source() (medcat.model_creation.preprocess_umls.UMLS method) mark_clean() (medcat.components.addons.addons.ComponentConfig method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT method) (medcat.components.linking.context_based_linker.ComponentConfig method) (medcat.components.linking.no_action_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig method) (medcat.components.linking.vector_context_model.Linking method) (medcat.components.ner.dict_based_ner.ComponentConfig method) (medcat.components.ner.trf.transformers_ner.ComponentConfig method) (medcat.components.ner.vocab_based_ner.ComponentConfig method) (medcat.components.normalizing.normalizer.ComponentConfig method) (medcat.components.tagging.tagger.ComponentConfig method) (medcat.components.types.ComponentConfig method) (medcat.config.config.ComponentConfig method) (medcat.config.config.DirtiableBaseModel method) (medcat.config.config.Linking method) (medcat.config.config.Ner method) (medcat.config.config.PotentiallyDirty method) (medcat.config.config_meta_cat.ComponentConfig method) (medcat.config.config_meta_cat.ConfigMetaCAT method) (medcat.config.config_meta_cat.DirtiableBaseModel method) (medcat.config.config_meta_cat.General method) (medcat.config.config_meta_cat.Model method) (medcat.config.config_meta_cat.Train method) (medcat.config.config_rel_cat.ComponentConfig method) (medcat.config.config_rel_cat.ConfigRelCAT method) (medcat.pipeline.pipeline.ComponentConfig method) (medcat.pipeline.pipeline.ConfigMetaCAT method) (medcat.pipeline.pipeline.ConfigRelCAT method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT method) mark_saved_now() (medcat.config.config.ModelMeta method) (medcat.utils.cdb_state.ModelMeta method) match_partials_with_folders() (in module medcat.model_creation.preprocess_snomed) match_rules() (in module medcat.components.ner.trf.deid) max_document_length (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.config.config.Preprocessing attribute) (medcat.trainer.Preprocessing attribute) max_grad_norm (medcat.config.config_rel_cat.Train attribute) max_len (medcat.components.ner.trf.tokenizer.TransformersTokenizer attribute) (medcat.components.ner.trf.transformers_ner.TransformersTokenizer attribute) max_len_sentences_pair (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama property) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT property) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper property) max_len_single_sentence (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama property) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT property) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper property) max_minority (medcat.components.addons.relation_extraction.rel_cat.BalancedBatchSampler attribute) max_samples_per_class (medcat.components.addons.relation_extraction.rel_cat.BalancedBatchSampler attribute) max_seq_length (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) (medcat.config.config_rel_cat.General attribute) max_skip_tokens (medcat.config.config.Ner attribute) MAX_TEST_FRACTION (medcat.utils.data_utils.TestTrainSplitter attribute) maybe_annotate_name() (in module medcat.components.ner.dict_based_ner) (in module medcat.components.ner.vocab_based_annotator) (in module medcat.components.ner.vocab_based_ner) mc (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon property) (medcat.components.addons.meta_cat.MetaCATAddon property) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon property) mct_export (medcat.stats.kfold.FoldCreator attribute) (medcat.stats.kfold.PerAnnsFoldCreator attribute) (medcat.stats.kfold.PerDocsFoldCreator attribute) (medcat.stats.kfold.SimpleFoldCreator attribute) (medcat.stats.kfold.WeightedDocumentsCreator attribute) (medcat.utils.regression.checking.MedCATTrainerExportConverter attribute) (medcat.utils.regression.utils.MedCATTrainerExportConverter attribute) medcat module medcat.cat module medcat.cdb module medcat.cdb.cdb module medcat.cdb.concepts module medcat.components module medcat.components.addons module medcat.components.addons.addons module medcat.components.addons.meta_cat module medcat.components.addons.meta_cat.data_utils module medcat.components.addons.meta_cat.mctokenizers module medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer module medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer module medcat.components.addons.meta_cat.mctokenizers.tokenizers module medcat.components.addons.meta_cat.meta_cat module medcat.components.addons.meta_cat.ml_utils module medcat.components.addons.meta_cat.models module medcat.components.addons.relation_extraction module medcat.components.addons.relation_extraction.base_component module medcat.components.addons.relation_extraction.bert module medcat.components.addons.relation_extraction.bert.config module medcat.components.addons.relation_extraction.bert.model module medcat.components.addons.relation_extraction.bert.tokenizer module medcat.components.addons.relation_extraction.config module medcat.components.addons.relation_extraction.llama module medcat.components.addons.relation_extraction.llama.config module medcat.components.addons.relation_extraction.llama.model module medcat.components.addons.relation_extraction.llama.tokenizer module medcat.components.addons.relation_extraction.ml_utils module medcat.components.addons.relation_extraction.models module medcat.components.addons.relation_extraction.modernbert module medcat.components.addons.relation_extraction.modernbert.config module medcat.components.addons.relation_extraction.modernbert.model module medcat.components.addons.relation_extraction.modernbert.tokenizer module medcat.components.addons.relation_extraction.pad_seq module medcat.components.addons.relation_extraction.rel_cat module medcat.components.addons.relation_extraction.rel_dataset module medcat.components.addons.relation_extraction.tokenizer module medcat.components.linking module medcat.components.linking.context_based_linker module medcat.components.linking.no_action_linker module medcat.components.linking.two_step_context_based_linker module medcat.components.linking.vector_context_model module medcat.components.ner module medcat.components.ner.dict_based_ner module medcat.components.ner.trf module medcat.components.ner.trf.deid module medcat.components.ner.trf.helpers module medcat.components.ner.trf.model module medcat.components.ner.trf.tokenizer module medcat.components.ner.trf.transformers_ner module medcat.components.ner.vocab_based_annotator module medcat.components.ner.vocab_based_ner module medcat.components.normalizing module medcat.components.normalizing.normalizer module medcat.components.tagging module medcat.components.tagging.tagger module medcat.components.types module medcat.config module medcat.config.config module medcat.config.config_meta_cat module medcat.config.config_rel_cat module medcat.config.config_transformers_ner module medcat.data module medcat.data.entities module medcat.data.mctexport module medcat.data.model_card module medcat.model_creation module medcat.model_creation.cdb_maker module medcat.model_creation.preprocess_snomed module medcat.model_creation.preprocess_umls module medcat.pipeline module medcat.pipeline.pipeline module medcat.preprocessors module medcat.preprocessors.cleaners module medcat.stats module medcat.stats.kfold module medcat.stats.stats module medcat.storage module medcat.storage.jsonserialiser module medcat.storage.schema module medcat.storage.serialisables module medcat.storage.serialisers module medcat.tokenizing module medcat.tokenizing.regex_impl module medcat.tokenizing.regex_impl.tokenizer module medcat.tokenizing.spacy_impl module medcat.tokenizing.spacy_impl.tokenizers module medcat.tokenizing.spacy_impl.tokens module medcat.tokenizing.spacy_impl.utils module medcat.tokenizing.tokenizers module medcat.tokenizing.tokens module medcat.trainer module medcat.utils module medcat.utils.cdb_state module medcat.utils.config_utils module medcat.utils.data_utils module medcat.utils.defaults module medcat.utils.envsnapshot module medcat.utils.fileutils module medcat.utils.filters module medcat.utils.hasher module medcat.utils.import_utils module medcat.utils.iterutils module medcat.utils.legacy module medcat.utils.legacy.conversion_all module medcat.utils.legacy.convert_cdb module medcat.utils.legacy.convert_config module medcat.utils.legacy.convert_deid module medcat.utils.legacy.convert_meta_cat module medcat.utils.legacy.convert_rel_cat module medcat.utils.legacy.convert_vocab module medcat.utils.legacy.helpers module medcat.utils.legacy.identifier module medcat.utils.legacy.legacy_converter module medcat.utils.legacy.v2_beta module medcat.utils.matutils module medcat.utils.ner module medcat.utils.ner.data_collator module medcat.utils.ner.metrics module medcat.utils.ner.transformers_ner module medcat.utils.postprocessing module medcat.utils.registry module medcat.utils.regression module medcat.utils.regression.checking module medcat.utils.regression.regression_checker module medcat.utils.regression.results module medcat.utils.regression.targeting module medcat.utils.regression.utils module medcat.utils.usage_monitoring module medcat.utils.vocab_utils module medcat.vocab module medcat_csv_mapper (in module medcat.model_creation.preprocess_umls) medcat_version (in module medcat.config.config) (medcat.config.config.ModelMeta attribute) (medcat.utils.cdb_state.ModelMeta attribute) MedCATAnnotationsConfig (class in medcat.utils.ner.transformers_ner) MedCATRegistryException, [1] MedCATRegistryException.__cause__ (class in medcat.components.types) (class in medcat.utils.registry) MedCATRegistryException.__context__ (class in medcat.components.types) (class in medcat.utils.registry) MedCATRegistryException.__suppress_context__ (class in medcat.components.types) (class in medcat.utils.registry) MedCATRegistryException.__traceback__ (class in medcat.components.types) (class in medcat.utils.registry) MedCATRegistryException.args (class in medcat.components.types) (class in medcat.utils.registry) MedCATTrainerExport (class in medcat.data.mctexport) (class in medcat.stats.kfold) (class in medcat.stats.stats) (class in medcat.trainer) (class in medcat.utils.data_utils) (class in medcat.utils.regression.utils) MedCATTrainerExportAnnotation (class in medcat.data.mctexport) (class in medcat.stats.kfold) (class in medcat.stats.stats) MedCATTrainerExportAnnotationRequired (class in medcat.data.mctexport) MedCATTrainerExportConverter (class in medcat.utils.regression.checking) (class in medcat.utils.regression.utils) MedCATTrainerExportDocument (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.components.addons.relation_extraction.rel_dataset) (class in medcat.data.mctexport) (class in medcat.stats.kfold) (class in medcat.stats.stats) (class in medcat.trainer) (class in medcat.utils.data_utils) (class in medcat.utils.regression.utils) MedCATTrainerExportProject (class in medcat.data.mctexport) (class in medcat.stats.kfold) (class in medcat.stats.stats) (class in medcat.trainer) (class in medcat.utils.data_utils) (class in medcat.utils.filters) MedCATTrainerExportProjectInfo (in module medcat.data.mctexport) (in module medcat.stats.kfold) merge_all_preds() (in module medcat.components.ner.trf.deid) merge_config() (medcat.cat.Config method) (medcat.cdb.cdb.Config method) (medcat.components.addons.addons.ComponentConfig method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig method) (medcat.components.addons.relation_extraction.rel_cat.Config method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT method) (medcat.components.linking.context_based_linker.ComponentConfig method) (medcat.components.linking.context_based_linker.Config method) (medcat.components.linking.no_action_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig method) (medcat.components.linking.two_step_context_based_linker.Config method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig method) (medcat.components.linking.vector_context_model.Linking method) (medcat.components.ner.dict_based_ner.ComponentConfig method) (medcat.components.ner.trf.deid.ConfigTransformersNER method) (medcat.components.ner.trf.helpers.Config method) (medcat.components.ner.trf.model.Config method) (medcat.components.ner.trf.transformers_ner.ComponentConfig method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER method) (medcat.components.ner.vocab_based_annotator.Config method) (medcat.components.ner.vocab_based_ner.ComponentConfig method) (medcat.components.normalizing.normalizer.ComponentConfig method) (medcat.components.normalizing.normalizer.Config method) (medcat.components.tagging.tagger.ComponentConfig method) (medcat.components.tagging.tagger.Preprocessing method) (medcat.components.types.ComponentConfig method) (medcat.config.Config method) (medcat.config.config.AnnotationOutput method) (medcat.config.config.CDBMaker method) (medcat.config.config.ComponentConfig method) (medcat.config.config.Components method) (medcat.config.config.Config method) (medcat.config.config.DirtiableBaseModel method) (medcat.config.config.General method) (medcat.config.config.Linking method) (medcat.config.config.LinkingFilters method) (medcat.config.config.ModelMeta method) (medcat.config.config.Ner method) (medcat.config.config.NLPConfig method) (medcat.config.config.Preprocessing method) (medcat.config.config.SerialisableBaseModel method) (medcat.config.config.TrainingDescriptor method) (medcat.config.config.UsageMonitor method) (medcat.config.config_meta_cat.ComponentConfig method) (medcat.config.config_meta_cat.ConfigMetaCAT method) (medcat.config.config_meta_cat.DirtiableBaseModel method) (medcat.config.config_meta_cat.General method) (medcat.config.config_meta_cat.Model method) (medcat.config.config_meta_cat.Train method) (medcat.config.config_rel_cat.ComponentConfig method) (medcat.config.config_rel_cat.ConfigRelCAT method) (medcat.config.config_rel_cat.General method) (medcat.config.config_rel_cat.Model method) (medcat.config.config_rel_cat.SerialisableBaseModel method) (medcat.config.config_rel_cat.Train method) (medcat.config.config_transformers_ner.ConfigTransformersNER method) (medcat.config.config_transformers_ner.General method) (medcat.config.config_transformers_ner.SerialisableBaseModel method) (medcat.model_creation.cdb_maker.Config method) (medcat.pipeline.pipeline.ComponentConfig method) (medcat.pipeline.pipeline.Config method) (medcat.pipeline.pipeline.ConfigMetaCAT method) (medcat.pipeline.pipeline.ConfigRelCAT method) (medcat.stats.stats.LinkingFilters method) (medcat.tokenizing.regex_impl.tokenizer.Config method) (medcat.tokenizing.spacy_impl.tokenizers.Config method) (medcat.tokenizing.tokenizers.Config method) (medcat.trainer.CDBMaker method) (medcat.trainer.General method) (medcat.trainer.Preprocessing method) (medcat.utils.cdb_state.ModelMeta method) (medcat.utils.filters.LinkingFilters method) (medcat.utils.legacy.convert_cdb.Config method) (medcat.utils.legacy.convert_config.Config method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT method) (medcat.utils.usage_monitoring.UsageMonitorConfig method) merge_preds() (in module medcat.components.ner.trf.deid) meta (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.config.Config attribute) (medcat.config.config.Config attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) meta_anns (medcat.cat.Entity attribute) (medcat.components.ner.trf.deid.Entity attribute) (medcat.data.entities.Entity attribute) (medcat.utils.regression.results.Entity attribute) MetaAnnotation (class in medcat.data.entities) MetaAnnotationValue (class in medcat.components.addons.meta_cat) (class in medcat.components.addons.meta_cat.meta_cat) MetaCAT (class in medcat.components.addons.meta_cat) (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.utils.legacy.convert_meta_cat) MetaCATAddon (class in medcat.components.addons.meta_cat) (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.utils.legacy.convert_meta_cat) MetaData (class in medcat.utils.regression.checking) metadata (medcat.utils.regression.checking.RegressionSuite attribute) (medcat.utils.regression.regression_checker.RegressionSuite attribute) metric (medcat.config.config_meta_cat.Train attribute) metrics() (in module medcat.components.ner.trf.transformers_ner) (in module medcat.utils.ner.metrics) MIN_CNT_FOR_TEST (medcat.utils.data_utils.TestTrainSplitter attribute) min_len_normalize (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.config.config.Preprocessing attribute) (medcat.preprocessors.cleaners.LPreprocessing attribute) (medcat.trainer.Preprocessing attribute) min_letters_required (medcat.config.config.CDBMaker attribute) (medcat.preprocessors.cleaners.LCDBMaker attribute) (medcat.trainer.CDBMaker attribute) min_name_len (medcat.config.config.Ner attribute) MisconfiguredMetaCATException MisconfiguredMetaCATException.__cause__ (class in medcat.components.addons.meta_cat.meta_cat) MisconfiguredMetaCATException.__context__ (class in medcat.components.addons.meta_cat.meta_cat) MisconfiguredMetaCATException.__suppress_context__ (class in medcat.components.addons.meta_cat.meta_cat) MisconfiguredMetaCATException.__traceback__ (class in medcat.components.addons.meta_cat.meta_cat) MisconfiguredMetaCATException.args (class in medcat.components.addons.meta_cat.meta_cat) missing (medcat.utils.import_utils.MissingDependenciesError attribute) MissingDependenciesError MissingDependenciesError.__cause__ (class in medcat.utils.import_utils) MissingDependenciesError.__context__ (class in medcat.utils.import_utils) MissingDependenciesError.__suppress_context__ (class in medcat.utils.import_utils) MissingDependenciesError.__traceback__ (class in medcat.utils.import_utils) MissingDependenciesError.args (class in medcat.utils.import_utils) Model (class in medcat.config.config_meta_cat) (class in medcat.config.config_rel_cat) model (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.MetaCAT attribute) (medcat.components.addons.meta_cat.MetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.ner.trf.transformers_ner.TransformersNERComponent attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_meta_cat.MetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent attribute) Model.Config (class in medcat.config.config_meta_cat) (class in medcat.config.config_rel_cat) model_architecture_config (medcat.config.config_meta_cat.Model attribute) model_computed_fields (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute) (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute) (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute) (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) model_config (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute) (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute) (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute) (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MetaData attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) model_construct() (medcat.cat.Config class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) 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(medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT method) (medcat.utils.regression.checking.FinalTarget method) (medcat.utils.regression.checking.MetaData method) (medcat.utils.regression.checking.MultiDescriptor method) (medcat.utils.regression.checking.OptionSet method) (medcat.utils.regression.checking.RegressionCase method) (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.checking.TargetedPhraseChanger method) (medcat.utils.regression.results.FinalTarget method) (medcat.utils.regression.results.MultiDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) (medcat.utils.regression.results.SingleResultDescriptor method) (medcat.utils.regression.targeting.FinalTarget method) (medcat.utils.regression.targeting.OptionSet method) (medcat.utils.regression.targeting.PhraseChanger method) (medcat.utils.regression.targeting.TargetedPhraseChanger method) (medcat.utils.regression.targeting.TargetPlaceholder method) (medcat.utils.usage_monitoring.UsageMonitorConfig method) model_extra (medcat.cat.Config property) (medcat.cdb.cdb.Config property) (medcat.components.addons.addons.ComponentConfig property) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT property) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig property) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT property) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT property) (medcat.components.addons.meta_cat.models.ConfigMetaCAT property) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT property) (medcat.components.addons.relation_extraction.models.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig property) (medcat.components.addons.relation_extraction.rel_cat.Config property) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT property) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT property) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig property) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT property) (medcat.components.linking.context_based_linker.ComponentConfig property) (medcat.components.linking.context_based_linker.Config property) (medcat.components.linking.no_action_linker.ComponentConfig property) (medcat.components.linking.two_step_context_based_linker.ComponentConfig property) (medcat.components.linking.two_step_context_based_linker.Config property) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel property) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig property) (medcat.components.linking.vector_context_model.Linking property) (medcat.components.ner.dict_based_ner.ComponentConfig property) (medcat.components.ner.trf.deid.ConfigTransformersNER property) (medcat.components.ner.trf.helpers.Config property) (medcat.components.ner.trf.model.Config property) (medcat.components.ner.trf.transformers_ner.ComponentConfig property) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER property) (medcat.components.ner.vocab_based_annotator.Config property) (medcat.components.ner.vocab_based_ner.ComponentConfig property) (medcat.components.normalizing.normalizer.ComponentConfig property) (medcat.components.normalizing.normalizer.Config property) (medcat.components.tagging.tagger.ComponentConfig property) (medcat.components.tagging.tagger.Preprocessing property) (medcat.components.types.ComponentConfig property) (medcat.config.Config property) (medcat.config.config.AnnotationOutput property) (medcat.config.config.CDBMaker property) (medcat.config.config.ComponentConfig property) (medcat.config.config.Components property) (medcat.config.config.Config property) (medcat.config.config.DirtiableBaseModel property) (medcat.config.config.Environment property) (medcat.config.config.General property) (medcat.config.config.Linking property) (medcat.config.config.LinkingFilters property) (medcat.config.config.ModelMeta property) (medcat.config.config.Ner property) (medcat.config.config.NLPConfig property) (medcat.config.config.Preprocessing property) (medcat.config.config.SerialisableBaseModel property) (medcat.config.config.TrainingDescriptor property) (medcat.config.config.UsageMonitor property) (medcat.config.config_meta_cat.ComponentConfig property) (medcat.config.config_meta_cat.ConfigMetaCAT property) (medcat.config.config_meta_cat.DirtiableBaseModel property) (medcat.config.config_meta_cat.General property) (medcat.config.config_meta_cat.Model property) (medcat.config.config_meta_cat.Train property) (medcat.config.config_rel_cat.ComponentConfig property) (medcat.config.config_rel_cat.ConfigRelCAT property) (medcat.config.config_rel_cat.General property) (medcat.config.config_rel_cat.Model property) (medcat.config.config_rel_cat.SerialisableBaseModel property) (medcat.config.config_rel_cat.Train property) (medcat.config.config_transformers_ner.ConfigTransformersNER property) (medcat.config.config_transformers_ner.General property) (medcat.config.config_transformers_ner.SerialisableBaseModel property) (medcat.model_creation.cdb_maker.Config property) (medcat.pipeline.pipeline.ComponentConfig property) (medcat.pipeline.pipeline.Config property) (medcat.pipeline.pipeline.ConfigMetaCAT property) (medcat.pipeline.pipeline.ConfigRelCAT property) (medcat.stats.kfold.PerCUIMetrics property) (medcat.stats.stats.LinkingFilters property) (medcat.tokenizing.regex_impl.tokenizer.Config property) (medcat.tokenizing.spacy_impl.tokenizers.Config property) (medcat.tokenizing.tokenizers.Config property) (medcat.trainer.CDBMaker property) (medcat.trainer.General property) (medcat.trainer.Preprocessing property) (medcat.utils.cdb_state.ModelMeta property) (medcat.utils.envsnapshot.Environment property) (medcat.utils.filters.LinkingFilters property) (medcat.utils.legacy.convert_cdb.Config property) (medcat.utils.legacy.convert_config.Config property) (medcat.utils.legacy.convert_deid.ConfigTransformersNER property) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT property) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT property) (medcat.utils.regression.checking.FinalTarget property) (medcat.utils.regression.checking.MetaData property) (medcat.utils.regression.checking.MultiDescriptor property) (medcat.utils.regression.checking.OptionSet property) (medcat.utils.regression.checking.RegressionCase property) (medcat.utils.regression.checking.ResultDescriptor property) (medcat.utils.regression.checking.TargetedPhraseChanger property) (medcat.utils.regression.results.FinalTarget property) (medcat.utils.regression.results.MultiDescriptor property) (medcat.utils.regression.results.ResultDescriptor property) (medcat.utils.regression.results.SingleResultDescriptor property) (medcat.utils.regression.targeting.FinalTarget property) (medcat.utils.regression.targeting.OptionSet property) (medcat.utils.regression.targeting.PhraseChanger property) (medcat.utils.regression.targeting.TargetedPhraseChanger property) (medcat.utils.regression.targeting.TargetPlaceholder property) (medcat.utils.usage_monitoring.UsageMonitorConfig property)

model_fields (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.addons.ComponentConfig attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.context_based_linker.ComponentConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.no_action_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.ComponentConfig attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.components.ner.dict_based_ner.ComponentConfig attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.trf.transformers_ner.ComponentConfig attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.ner.vocab_based_ner.ComponentConfig attribute) (medcat.components.normalizing.normalizer.ComponentConfig attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.components.tagging.tagger.ComponentConfig attribute) (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.components.types.ComponentConfig attribute) (medcat.config.Config attribute) (medcat.config.config.AnnotationOutput attribute) (medcat.config.config.CDBMaker attribute) (medcat.config.config.ComponentConfig attribute) (medcat.config.config.Components attribute) (medcat.config.config.Config attribute) (medcat.config.config.DirtiableBaseModel attribute) (medcat.config.config.Environment attribute) (medcat.config.config.General attribute) (medcat.config.config.Linking attribute) (medcat.config.config.LinkingFilters attribute) (medcat.config.config.ModelMeta attribute) (medcat.config.config.Ner attribute) (medcat.config.config.NLPConfig attribute) (medcat.config.config.Preprocessing attribute) (medcat.config.config.SerialisableBaseModel attribute) (medcat.config.config.TrainingDescriptor attribute) (medcat.config.config.UsageMonitor attribute) (medcat.config.config_meta_cat.ComponentConfig attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_meta_cat.DirtiableBaseModel attribute) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.ComponentConfig attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_rel_cat.Model attribute) (medcat.config.config_rel_cat.SerialisableBaseModel attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.config.config_transformers_ner.SerialisableBaseModel attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.ComponentConfig attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.stats.kfold.PerCUIMetrics attribute) (medcat.stats.stats.LinkingFilters attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.trainer.CDBMaker attribute) (medcat.trainer.General attribute) (medcat.trainer.Preprocessing attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.envsnapshot.Environment attribute) (medcat.utils.filters.LinkingFilters attribute) (medcat.utils.legacy.convert_cdb.Config 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(medcat.utils.regression.targeting.OptionSet attribute) (medcat.utils.regression.targeting.PhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) (medcat.utils.usage_monitoring.UsageMonitorConfig attribute) model_fields_set (medcat.cat.Config property) (medcat.cdb.cdb.Config property) (medcat.components.addons.addons.ComponentConfig property) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT property) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig property) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT property) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT property) (medcat.components.addons.meta_cat.models.ConfigMetaCAT property) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT property) (medcat.components.addons.relation_extraction.models.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT property) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig property) (medcat.components.addons.relation_extraction.rel_cat.Config property) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT property) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT property) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig property) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT property) (medcat.components.linking.context_based_linker.ComponentConfig property) (medcat.components.linking.context_based_linker.Config property) (medcat.components.linking.no_action_linker.ComponentConfig property) (medcat.components.linking.two_step_context_based_linker.ComponentConfig property) (medcat.components.linking.two_step_context_based_linker.Config property) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel property) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig property) (medcat.components.linking.vector_context_model.Linking property) (medcat.components.ner.dict_based_ner.ComponentConfig property) (medcat.components.ner.trf.deid.ConfigTransformersNER property) (medcat.components.ner.trf.helpers.Config property) (medcat.components.ner.trf.model.Config property) (medcat.components.ner.trf.transformers_ner.ComponentConfig property) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER property) (medcat.components.ner.vocab_based_annotator.Config property) (medcat.components.ner.vocab_based_ner.ComponentConfig property) (medcat.components.normalizing.normalizer.ComponentConfig property) (medcat.components.normalizing.normalizer.Config property) (medcat.components.tagging.tagger.ComponentConfig property) (medcat.components.tagging.tagger.Preprocessing property) (medcat.components.types.ComponentConfig property) (medcat.config.Config property) (medcat.config.config.AnnotationOutput property) (medcat.config.config.CDBMaker property) (medcat.config.config.ComponentConfig property) (medcat.config.config.Components property) (medcat.config.config.Config property) (medcat.config.config.DirtiableBaseModel property) (medcat.config.config.Environment property) (medcat.config.config.General property) (medcat.config.config.Linking property) (medcat.config.config.LinkingFilters property) (medcat.config.config.ModelMeta property) (medcat.config.config.Ner property) (medcat.config.config.NLPConfig property) (medcat.config.config.Preprocessing property) (medcat.config.config.SerialisableBaseModel property) (medcat.config.config.TrainingDescriptor property) (medcat.config.config.UsageMonitor property) (medcat.config.config_meta_cat.ComponentConfig property) (medcat.config.config_meta_cat.ConfigMetaCAT property) (medcat.config.config_meta_cat.DirtiableBaseModel property) (medcat.config.config_meta_cat.General property) (medcat.config.config_meta_cat.Model property) (medcat.config.config_meta_cat.Train property) (medcat.config.config_rel_cat.ComponentConfig property) (medcat.config.config_rel_cat.ConfigRelCAT property) (medcat.config.config_rel_cat.General property) (medcat.config.config_rel_cat.Model property) (medcat.config.config_rel_cat.SerialisableBaseModel property) (medcat.config.config_rel_cat.Train property) (medcat.config.config_transformers_ner.ConfigTransformersNER property) (medcat.config.config_transformers_ner.General property) (medcat.config.config_transformers_ner.SerialisableBaseModel property) (medcat.model_creation.cdb_maker.Config property) (medcat.pipeline.pipeline.ComponentConfig property) (medcat.pipeline.pipeline.Config property) (medcat.pipeline.pipeline.ConfigMetaCAT property) (medcat.pipeline.pipeline.ConfigRelCAT property) (medcat.stats.kfold.PerCUIMetrics property) (medcat.stats.stats.LinkingFilters property) (medcat.tokenizing.regex_impl.tokenizer.Config property) (medcat.tokenizing.spacy_impl.tokenizers.Config property) (medcat.tokenizing.tokenizers.Config property) (medcat.trainer.CDBMaker property) (medcat.trainer.General property) (medcat.trainer.Preprocessing property) (medcat.utils.cdb_state.ModelMeta property) (medcat.utils.envsnapshot.Environment property) (medcat.utils.filters.LinkingFilters property) (medcat.utils.legacy.convert_cdb.Config property) (medcat.utils.legacy.convert_config.Config property) (medcat.utils.legacy.convert_deid.ConfigTransformersNER property) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT property) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT property) (medcat.utils.regression.checking.FinalTarget property) (medcat.utils.regression.checking.MetaData property) (medcat.utils.regression.checking.MultiDescriptor property) (medcat.utils.regression.checking.OptionSet property) (medcat.utils.regression.checking.RegressionCase property) (medcat.utils.regression.checking.ResultDescriptor property) (medcat.utils.regression.checking.TargetedPhraseChanger property) (medcat.utils.regression.results.FinalTarget property) (medcat.utils.regression.results.MultiDescriptor property) (medcat.utils.regression.results.ResultDescriptor property) (medcat.utils.regression.results.SingleResultDescriptor property) (medcat.utils.regression.targeting.FinalTarget property) (medcat.utils.regression.targeting.OptionSet property) (medcat.utils.regression.targeting.PhraseChanger property) (medcat.utils.regression.targeting.TargetedPhraseChanger property) (medcat.utils.regression.targeting.TargetPlaceholder property) (medcat.utils.usage_monitoring.UsageMonitorConfig property) model_freeze_layers (medcat.config.config_meta_cat.Model attribute) model_hash (medcat.cat.UsageMonitor property) (medcat.utils.usage_monitoring.UsageMonitor property) model_input_names (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) model_json_schema() (medcat.cat.Config class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) 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(medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.regression.checking.FinalTarget class method) (medcat.utils.regression.checking.MetaData class method) (medcat.utils.regression.checking.MultiDescriptor class method) (medcat.utils.regression.checking.OptionSet class method) (medcat.utils.regression.checking.RegressionCase class method) (medcat.utils.regression.checking.ResultDescriptor class method) (medcat.utils.regression.checking.TargetedPhraseChanger class method) (medcat.utils.regression.results.FinalTarget class method) (medcat.utils.regression.results.MultiDescriptor class method) (medcat.utils.regression.results.ResultDescriptor class method) (medcat.utils.regression.results.SingleResultDescriptor class method) (medcat.utils.regression.targeting.FinalTarget class method) (medcat.utils.regression.targeting.OptionSet class method) (medcat.utils.regression.targeting.PhraseChanger class method) (medcat.utils.regression.targeting.TargetedPhraseChanger class method) (medcat.utils.regression.targeting.TargetPlaceholder class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method) model_variant (medcat.config.config_meta_cat.Model attribute) ModelCard (in module medcat.cat) (in module medcat.data.model_card) ModelMeta (class in medcat.config.config) (class in medcat.utils.cdb_state) modelname (medcat.config.config.NLPConfig attribute) module medcat medcat.cat medcat.cdb medcat.cdb.cdb medcat.cdb.concepts medcat.components medcat.components.addons medcat.components.addons.addons medcat.components.addons.meta_cat medcat.components.addons.meta_cat.data_utils medcat.components.addons.meta_cat.mctokenizers medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer medcat.components.addons.meta_cat.mctokenizers.tokenizers medcat.components.addons.meta_cat.meta_cat medcat.components.addons.meta_cat.ml_utils medcat.components.addons.meta_cat.models medcat.components.addons.relation_extraction medcat.components.addons.relation_extraction.base_component medcat.components.addons.relation_extraction.bert medcat.components.addons.relation_extraction.bert.config medcat.components.addons.relation_extraction.bert.model medcat.components.addons.relation_extraction.bert.tokenizer medcat.components.addons.relation_extraction.config medcat.components.addons.relation_extraction.llama medcat.components.addons.relation_extraction.llama.config medcat.components.addons.relation_extraction.llama.model medcat.components.addons.relation_extraction.llama.tokenizer medcat.components.addons.relation_extraction.ml_utils medcat.components.addons.relation_extraction.models medcat.components.addons.relation_extraction.modernbert medcat.components.addons.relation_extraction.modernbert.config medcat.components.addons.relation_extraction.modernbert.model medcat.components.addons.relation_extraction.modernbert.tokenizer medcat.components.addons.relation_extraction.pad_seq medcat.components.addons.relation_extraction.rel_cat medcat.components.addons.relation_extraction.rel_dataset medcat.components.addons.relation_extraction.tokenizer medcat.components.linking medcat.components.linking.context_based_linker medcat.components.linking.no_action_linker medcat.components.linking.two_step_context_based_linker medcat.components.linking.vector_context_model medcat.components.ner medcat.components.ner.dict_based_ner medcat.components.ner.trf medcat.components.ner.trf.deid medcat.components.ner.trf.helpers medcat.components.ner.trf.model medcat.components.ner.trf.tokenizer medcat.components.ner.trf.transformers_ner medcat.components.ner.vocab_based_annotator medcat.components.ner.vocab_based_ner medcat.components.normalizing medcat.components.normalizing.normalizer medcat.components.tagging medcat.components.tagging.tagger medcat.components.types medcat.config medcat.config.config medcat.config.config_meta_cat medcat.config.config_rel_cat medcat.config.config_transformers_ner medcat.data medcat.data.entities medcat.data.mctexport medcat.data.model_card medcat.model_creation medcat.model_creation.cdb_maker medcat.model_creation.preprocess_snomed medcat.model_creation.preprocess_umls medcat.pipeline medcat.pipeline.pipeline medcat.preprocessors medcat.preprocessors.cleaners medcat.stats medcat.stats.kfold medcat.stats.stats medcat.storage medcat.storage.jsonserialiser medcat.storage.schema medcat.storage.serialisables medcat.storage.serialisers medcat.tokenizing medcat.tokenizing.regex_impl medcat.tokenizing.regex_impl.tokenizer medcat.tokenizing.spacy_impl medcat.tokenizing.spacy_impl.tokenizers medcat.tokenizing.spacy_impl.tokens medcat.tokenizing.spacy_impl.utils medcat.tokenizing.tokenizers medcat.tokenizing.tokens medcat.trainer medcat.utils medcat.utils.cdb_state medcat.utils.config_utils medcat.utils.data_utils medcat.utils.defaults medcat.utils.envsnapshot medcat.utils.fileutils medcat.utils.filters medcat.utils.hasher medcat.utils.import_utils medcat.utils.iterutils medcat.utils.legacy medcat.utils.legacy.conversion_all medcat.utils.legacy.convert_cdb medcat.utils.legacy.convert_config medcat.utils.legacy.convert_deid medcat.utils.legacy.convert_meta_cat medcat.utils.legacy.convert_rel_cat medcat.utils.legacy.convert_vocab medcat.utils.legacy.helpers medcat.utils.legacy.identifier medcat.utils.legacy.legacy_converter medcat.utils.legacy.v2_beta medcat.utils.matutils medcat.utils.ner medcat.utils.ner.data_collator medcat.utils.ner.metrics medcat.utils.ner.transformers_ner medcat.utils.postprocessing medcat.utils.registry medcat.utils.regression medcat.utils.regression.checking medcat.utils.regression.regression_checker medcat.utils.regression.results medcat.utils.regression.targeting medcat.utils.regression.utils medcat.utils.usage_monitoring medcat.utils.vocab_utils medcat.vocab modules() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) MOVE_WITH_REMOVES (in module medcat.utils.legacy.convert_config) mrhier_columns (medcat.model_creation.preprocess_umls.UMLS attribute) mtia() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) multi_separator (medcat.config.config.CDBMaker attribute) (medcat.trainer.CDBMaker attribute) MultiDescriptor (class in medcat.utils.regression.checking) (class in medcat.utils.regression.results) multistep_lr_gamma (medcat.config.config_rel_cat.Train attribute) multistep_milestones (medcat.config.config_rel_cat.Train attribute) MUST_DISAMBIGATE (medcat.cdb.cdb.ST attribute) (medcat.components.linking.context_based_linker.ST attribute) (medcat.components.linking.two_step_context_based_linker.ST attribute) (medcat.components.linking.vector_context_model.ST attribute) (medcat.utils.defaults.StatusTypes attribute) MutableDocument (class in medcat.cat) (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.components.addons.relation_extraction.rel_cat) (class in medcat.components.addons.relation_extraction.rel_dataset) (class in medcat.components.linking.context_based_linker) (class in medcat.components.linking.no_action_linker) (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.components.linking.vector_context_model) (class in medcat.components.ner.dict_based_ner) (class in medcat.components.ner.trf.model) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.components.ner.vocab_based_annotator) (class in medcat.components.ner.vocab_based_ner) (class in medcat.components.normalizing.normalizer) (class in medcat.components.tagging.tagger) (class in medcat.components.types) (class in medcat.pipeline.pipeline) (class in medcat.preprocessors.cleaners) (class in medcat.stats.stats) (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokenizers) (class in medcat.tokenizing.tokenizers) (class in medcat.tokenizing.tokens) (class in medcat.trainer) (class in medcat.utils.data_utils) (class in medcat.utils.postprocessing) MutableEntity (class in medcat.cat) (class in medcat.components.addons.addons) (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.components.addons.relation_extraction.rel_dataset) (class in medcat.components.linking.context_based_linker) (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.components.linking.vector_context_model) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.components.ner.vocab_based_annotator) (class in medcat.components.types) (class in medcat.pipeline.pipeline) (class in medcat.stats.stats) (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokenizers) (class in medcat.tokenizing.spacy_impl.tokens) (class in medcat.tokenizing.tokenizers) (class in medcat.tokenizing.tokens) (class in medcat.trainer) (class in medcat.utils.data_utils) (class in medcat.utils.postprocessing) MutableToken (class in medcat.components.linking.vector_context_model) (class in medcat.components.ner.vocab_based_annotator) (class in medcat.pipeline.pipeline) (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokenizers) (class in medcat.tokenizing.spacy_impl.tokens) (class in medcat.tokenizing.tokenizers) (class in medcat.tokenizing.tokens) (class in medcat.trainer)

N

name (medcat.cat.AbstractCoreComponent property) (medcat.cat.AddonComponent property) (medcat.cdb.cdb.NameInfo attribute) (medcat.cdb.cdb.TypeInfo attribute) (medcat.cdb.concepts.NameInfo attribute) (medcat.cdb.concepts.TypeInfo attribute) (medcat.components.addons.addons.AddonComponent property) (medcat.components.addons.addons.BaseComponent property) (medcat.components.addons.meta_cat.data_utils.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBPE attribute) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.meta_cat.AddonComponent property) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument attribute) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue attribute) (medcat.components.addons.meta_cat.meta_cat.MetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon property) (medcat.components.addons.meta_cat.meta_cat.TokenizerWrapperBase attribute) (medcat.components.addons.meta_cat.MetaAnnotationValue attribute) (medcat.components.addons.meta_cat.MetaCAT attribute) (medcat.components.addons.meta_cat.MetaCATAddon property) (medcat.components.addons.meta_cat.ml_utils.TokenizerWrapperBase attribute) (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent property) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon property) (medcat.components.addons.relation_extraction.rel_cat.RelData attribute) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument attribute) (medcat.components.addons.relation_extraction.rel_dataset.RelData attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.linking.context_based_linker.AbstractCoreComponent property) (medcat.components.linking.context_based_linker.Linker attribute) (medcat.components.linking.no_action_linker.AbstractCoreComponent property) (medcat.components.linking.no_action_linker.NoActionLinker attribute) (medcat.components.linking.two_step_context_based_linker.AbstractCoreComponent property) (medcat.components.linking.two_step_context_based_linker.NormalLinker attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker attribute) (medcat.components.linking.two_step_context_based_linker.TypeInfo attribute) (medcat.components.linking.vector_context_model.NameInfo attribute) (medcat.components.ner.dict_based_ner.AbstractCoreComponent property) (medcat.components.ner.dict_based_ner.NER attribute) (medcat.components.ner.trf.deid.TransformersNER attribute) (medcat.components.ner.trf.model.TransformersNER attribute) (medcat.components.ner.trf.transformers_ner.AbstractCoreComponent property) (medcat.components.ner.trf.transformers_ner.TransformersNER attribute) (medcat.components.ner.vocab_based_ner.AbstractCoreComponent property) (medcat.components.ner.vocab_based_ner.NER attribute) (medcat.components.normalizing.normalizer.AbstractCoreComponent property) (medcat.components.normalizing.normalizer.TokenNormalizer attribute) (medcat.components.tagging.tagger.AbstractCoreComponent property) (medcat.components.tagging.tagger.TagAndSkipTagger attribute) (medcat.components.types.AbstractCoreComponent property) (medcat.components.types.BaseComponent property) (medcat.components.types.CoreComponent property) (medcat.config.config_transformers_ner.General attribute) (medcat.data.entities.MetaAnnotation attribute) (medcat.data.mctexport.MedCATTrainerExportDocument attribute) (medcat.data.mctexport.MedCATTrainerExportProject attribute) (medcat.pipeline.pipeline.AbstractCoreComponent property) (medcat.pipeline.pipeline.AddonComponent property) (medcat.pipeline.pipeline.BaseComponent property) (medcat.pipeline.pipeline.CoreComponent property) (medcat.stats.kfold.MedCATTrainerExportDocument attribute) (medcat.stats.kfold.MedCATTrainerExportProject attribute) (medcat.stats.stats.MedCATTrainerExportDocument attribute) (medcat.stats.stats.MedCATTrainerExportProject attribute) (medcat.trainer.AddonComponent property) (medcat.trainer.MedCATTrainerExportDocument attribute) (medcat.trainer.MedCATTrainerExportProject attribute) (medcat.utils.cdb_state.NameInfo attribute) (medcat.utils.data_utils.MedCATTrainerExportDocument attribute) (medcat.utils.data_utils.MedCATTrainerExportProject attribute) (medcat.utils.filters.MedCATTrainerExportProject attribute) (medcat.utils.legacy.conversion_all.NoActionLinker attribute) (medcat.utils.legacy.convert_cdb.TypeInfo attribute) (medcat.utils.legacy.convert_deid.TransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.MetaCAT attribute) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon property) (medcat.utils.legacy.convert_meta_cat.TokenizerWrapperBase attribute) (medcat.utils.legacy.convert_rel_cat.RelCATAddon property) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent attribute) (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.results.MultiDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) (medcat.utils.regression.results.SingleResultDescriptor attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.NameInfo attribute) (medcat.utils.regression.utils.MedCATTrainerExportDocument attribute) name() (medcat.cat.AvailableSerialisers method) (medcat.cdb.cdb.AvailableSerialisers method) (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy method) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy method) (medcat.components.linking.context_based_linker.CoreComponentType method) (medcat.components.linking.no_action_linker.CoreComponentType method) (medcat.components.linking.two_step_context_based_linker.CoreComponentType method) (medcat.components.ner.dict_based_ner.CoreComponentType method) (medcat.components.ner.trf.deid.CoreComponentType method) (medcat.components.ner.trf.model.CoreComponentType method) (medcat.components.ner.trf.transformers_ner.AvailableSerialisers method) (medcat.components.ner.trf.transformers_ner.CoreComponentType method) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy method) (medcat.components.ner.vocab_based_ner.CoreComponentType method) (medcat.components.normalizing.normalizer.CoreComponentType method) (medcat.components.tagging.tagger.CoreComponentType method) (medcat.components.types.CoreComponentType method) (medcat.config.config.SerialisingStrategy method) (medcat.config.config_meta_cat.AvailableSerialisers method) (medcat.model_creation.preprocess_snomed.RefSetFileType method) (medcat.model_creation.preprocess_snomed.SupportedBundles method) (medcat.model_creation.preprocess_snomed.SupportedExtension method) (medcat.pipeline.pipeline.AvailableSerialisers method) (medcat.pipeline.pipeline.CoreComponentType method) (medcat.stats.kfold.SplitType method) (medcat.storage.jsonserialiser.AvailableSerialisers method) (medcat.storage.serialisables.SerialisingStrategy method) (medcat.storage.serialisers.AvailableSerialisers method) (medcat.trainer.CoreComponentType method) (medcat.utils.legacy.conversion_all.AvailableSerialisers method) (medcat.utils.legacy.conversion_all.CoreComponentType method) (medcat.utils.legacy.legacy_converter.AvailableSerialisers method) (medcat.utils.regression.checking.Finding method) (medcat.utils.regression.regression_checker.Finding method) (medcat.utils.regression.regression_checker.Strictness method) (medcat.utils.regression.results.Finding method) (medcat.utils.regression.results.Strictness method) (medcat.vocab.AvailableSerialisers method) name2info (medcat.cat.CDB attribute) (medcat.cdb.CDB attribute) (medcat.cdb.cdb.CDB attribute) (medcat.components.addons.addons.CDB attribute) (medcat.components.addons.meta_cat.meta_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_dataset.CDB attribute) (medcat.components.linking.context_based_linker.CDB attribute) (medcat.components.linking.context_based_linker.ContextModel attribute) (medcat.components.linking.no_action_linker.CDB attribute) (medcat.components.linking.two_step_context_based_linker.CDB attribute) (medcat.components.linking.two_step_context_based_linker.ContextModel attribute) (medcat.components.linking.vector_context_model.ContextModel attribute) (medcat.components.ner.dict_based_ner.CDB attribute) (medcat.components.ner.trf.deid.CDB attribute) (medcat.components.ner.trf.helpers.CDB attribute) (medcat.components.ner.trf.model.CDB attribute) (medcat.components.ner.trf.transformers_ner.CDB attribute) (medcat.components.ner.vocab_based_annotator.CDB attribute) (medcat.components.ner.vocab_based_ner.CDB attribute) (medcat.components.normalizing.normalizer.CDB attribute) (medcat.components.tagging.tagger.CDB attribute) (medcat.components.types.CDB attribute) (medcat.model_creation.cdb_maker.CDB attribute) (medcat.pipeline.pipeline.CDB attribute) (medcat.trainer.CDB attribute) (medcat.utils.data_utils.CDB attribute) (medcat.utils.legacy.convert_cdb.CDB attribute) (medcat.utils.legacy.convert_deid.CDB attribute) (medcat.utils.legacy.convert_rel_cat.CDB attribute) (medcat.utils.legacy.helpers.CDB attribute) (medcat.utils.regression.checking.TranslationLayer attribute) (medcat.utils.regression.regression_checker.TranslationLayer attribute) (medcat.utils.regression.results.TranslationLayer attribute) (medcat.utils.regression.targeting.CDB attribute) (medcat.utils.regression.targeting.TranslationLayer attribute) (medcat.utils.vocab_utils.CDB attribute) NAME2KEYS (in module medcat.utils.legacy.convert_cdb) name_all_serialisable_elements() (in module medcat.storage.serialisables) name_or_path (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig property) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig property) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig property) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) NAME_PREFIX (medcat.cat.AbstractCoreComponent attribute) (medcat.cat.AddonComponent attribute) (medcat.components.addons.addons.AddonComponent attribute) (medcat.components.addons.meta_cat.meta_cat.AddonComponent attribute) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon attribute) (medcat.components.addons.meta_cat.MetaCATAddon attribute) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent attribute) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon attribute) (medcat.components.linking.context_based_linker.AbstractCoreComponent attribute) (medcat.components.linking.context_based_linker.Linker attribute) (medcat.components.linking.no_action_linker.AbstractCoreComponent attribute) (medcat.components.linking.no_action_linker.NoActionLinker attribute) (medcat.components.linking.two_step_context_based_linker.AbstractCoreComponent attribute) (medcat.components.linking.two_step_context_based_linker.NormalLinker attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker attribute) (medcat.components.ner.dict_based_ner.AbstractCoreComponent attribute) (medcat.components.ner.dict_based_ner.NER attribute) (medcat.components.ner.trf.deid.TransformersNER attribute) (medcat.components.ner.trf.model.TransformersNER attribute) (medcat.components.ner.trf.transformers_ner.AbstractCoreComponent attribute) (medcat.components.ner.trf.transformers_ner.TransformersNER attribute) (medcat.components.ner.vocab_based_ner.AbstractCoreComponent attribute) (medcat.components.ner.vocab_based_ner.NER attribute) (medcat.components.normalizing.normalizer.AbstractCoreComponent attribute) (medcat.components.normalizing.normalizer.TokenNormalizer attribute) (medcat.components.tagging.tagger.AbstractCoreComponent attribute) (medcat.components.tagging.tagger.TagAndSkipTagger attribute) (medcat.components.types.AbstractCoreComponent attribute) (medcat.pipeline.pipeline.AbstractCoreComponent attribute) (medcat.pipeline.pipeline.AddonComponent attribute) (medcat.trainer.AddonComponent attribute) (medcat.utils.legacy.conversion_all.NoActionLinker attribute) (medcat.utils.legacy.convert_deid.TransformersNER attribute) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon attribute) (medcat.utils.legacy.convert_rel_cat.RelCATAddon attribute)

name_separator (medcat.components.linking.context_based_linker.ContextModel attribute) (medcat.components.linking.two_step_context_based_linker.ContextModel attribute) (medcat.components.linking.vector_context_model.ContextModel attribute) NAME_SPLITTER (medcat.cat.AddonComponent attribute) (medcat.components.addons.addons.AddonComponent attribute) (medcat.components.addons.meta_cat.meta_cat.AddonComponent attribute) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon attribute) (medcat.components.addons.meta_cat.MetaCATAddon attribute) (medcat.components.addons.relation_extraction.rel_cat.AddonComponent attribute) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon attribute) (medcat.pipeline.pipeline.AddonComponent attribute) (medcat.trainer.AddonComponent attribute) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon attribute) (medcat.utils.legacy.convert_rel_cat.RelCATAddon attribute) name_versions (medcat.config.config.CDBMaker attribute) (medcat.preprocessors.cleaners.LCDBMaker attribute) (medcat.trainer.CDBMaker attribute) named_buffers() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) named_children() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) named_modules() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) named_parameters() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) NameDescriptor (class in medcat.cdb.cdb) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.preprocessors.cleaners) (class in medcat.trainer) (class in medcat.utils.legacy.helpers) NameInfo (class in medcat.cdb.cdb) (class in medcat.cdb.concepts) (class in medcat.components.linking.vector_context_model) (class in medcat.utils.cdb_state) (class in medcat.utils.regression.targeting) names (medcat.cdb.cdb.CUIInfo attribute) (medcat.cdb.concepts.CUIInfo attribute) (medcat.components.linking.two_step_context_based_linker.CUIInfo attribute) (medcat.components.linking.vector_context_model.CUIInfo attribute) (medcat.stats.stats.CUIInfo attribute) (medcat.utils.cdb_state.CUIInfo attribute) (medcat.utils.regression.targeting.CUIInfo attribute) nclasses (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_rel_cat.Train attribute) negative_ignore_punct_and_num (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) negative_probability (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) nepochs (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.Train attribute) NER (class in medcat.components.ner.dict_based_ner) (class in medcat.components.ner.vocab_based_ner) Ner (class in medcat.config.config) ner (medcat.components.linking.context_based_linker.CoreComponentType attribute) (medcat.components.linking.no_action_linker.CoreComponentType attribute) (medcat.components.linking.two_step_context_based_linker.CoreComponentType attribute) (medcat.components.ner.dict_based_ner.CoreComponentType attribute) (medcat.components.ner.trf.deid.CoreComponentType attribute) (medcat.components.ner.trf.model.CoreComponentType attribute) (medcat.components.ner.trf.transformers_ner.CoreComponentType attribute) (medcat.components.ner.vocab_based_ner.CoreComponentType attribute) (medcat.components.normalizing.normalizer.CoreComponentType attribute) (medcat.components.tagging.tagger.CoreComponentType attribute) (medcat.components.types.CoreComponentType attribute) (medcat.config.config.Components attribute) (medcat.pipeline.pipeline.CoreComponentType attribute) (medcat.trainer.CoreComponentType attribute) (medcat.utils.legacy.conversion_all.CoreComponentType attribute) ner_aggregation_strategy (medcat.config.config_transformers_ner.General attribute) ner_ents (medcat.cat.MutableDocument property) (medcat.components.addons.meta_cat.meta_cat.MutableDocument property) (medcat.components.addons.relation_extraction.rel_cat.MutableDocument property) (medcat.components.addons.relation_extraction.rel_dataset.MutableDocument property) (medcat.components.linking.context_based_linker.MutableDocument property) (medcat.components.linking.no_action_linker.MutableDocument property) (medcat.components.linking.two_step_context_based_linker.MutableDocument property) (medcat.components.linking.vector_context_model.MutableDocument property) (medcat.components.ner.dict_based_ner.MutableDocument property) (medcat.components.ner.trf.model.MutableDocument property) (medcat.components.ner.trf.transformers_ner.MutableDocument property) (medcat.components.ner.vocab_based_annotator.MutableDocument property) (medcat.components.ner.vocab_based_ner.MutableDocument property) (medcat.components.normalizing.normalizer.MutableDocument property) (medcat.components.tagging.tagger.MutableDocument property) (medcat.components.types.MutableDocument property) (medcat.pipeline.pipeline.MutableDocument property) (medcat.preprocessors.cleaners.MutableDocument property) (medcat.stats.stats.MutableDocument property) (medcat.tokenizing.regex_impl.tokenizer.Document attribute) (medcat.tokenizing.regex_impl.tokenizer.MutableDocument property) (medcat.tokenizing.spacy_impl.tokenizers.Document attribute) (medcat.tokenizing.spacy_impl.tokenizers.MutableDocument property) (medcat.tokenizing.spacy_impl.tokens.Document attribute) (medcat.tokenizing.tokenizers.MutableDocument property) (medcat.tokenizing.tokens.MutableDocument property) (medcat.trainer.MutableDocument property) (medcat.utils.data_utils.MutableDocument property) (medcat.utils.postprocessing.MutableDocument property) NerModel (class in medcat.components.ner.trf.deid) (class in medcat.components.ner.trf.model) new_model_folder (medcat.utils.legacy.conversion_all.Converter attribute) (medcat.utils.legacy.legacy_converter.Converter attribute) nlp (medcat.components.normalizing.normalizer.TokenNormalizer attribute) (medcat.config.config.General attribute) (medcat.trainer.General attribute) NLPConfig (class in medcat.config.config) NLPConfig.Config (class in medcat.config.config) NO_VERSION_DETECTED (medcat.model_creation.preprocess_snomed.Snomed attribute) NoActionLinker (class in medcat.components.linking.no_action_linker) (class in medcat.utils.legacy.conversion_all) norm (medcat.components.linking.vector_context_model.MutableToken property) (medcat.components.ner.vocab_based_annotator.MutableToken property) (medcat.pipeline.pipeline.MutableToken property) (medcat.tokenizing.regex_impl.tokenizer.MutableToken property) (medcat.tokenizing.regex_impl.tokenizer.Token property) (medcat.tokenizing.spacy_impl.tokenizers.MutableToken property) (medcat.tokenizing.spacy_impl.tokenizers.Token property) (medcat.tokenizing.spacy_impl.tokens.MutableToken property) (medcat.tokenizing.spacy_impl.tokens.Token property) (medcat.tokenizing.tokenizers.MutableToken property) (medcat.tokenizing.tokens.MutableToken property) (medcat.trainer.MutableToken property) NORMAL (medcat.utils.regression.regression_checker.Strictness attribute) (medcat.utils.regression.results.Strictness attribute) NormalLinker (class in medcat.components.linking.two_step_context_based_linker) nr_of_docs (medcat.stats.kfold.PerDocsFoldCreator attribute) nr_of_folds (medcat.stats.kfold.FoldCreator attribute) (medcat.stats.kfold.PerAnnsFoldCreator attribute) (medcat.stats.kfold.PerDocsFoldCreator attribute) (medcat.stats.kfold.SimpleFoldCreator attribute) (medcat.stats.kfold.WeightedDocumentsCreator attribute) num_classes (medcat.components.addons.relation_extraction.rel_cat.BalancedBatchSampler attribute) num_directions (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_rel_cat.Model attribute) num_docs (medcat.config.config.TrainingDescriptor attribute) num_epochs (medcat.config.config.TrainingDescriptor attribute) num_labels (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig property) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig property) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig property) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig property) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig property) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig property) num_layers (medcat.config.config_meta_cat.Model attribute) num_special_tokens_to_add() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) NumpyArrayHandler (class in medcat.storage.jsonserialiser)

O

old_model_folder (medcat.utils.legacy.conversion_all.Converter attribute) (medcat.utils.legacy.legacy_converter.Converter attribute) on_disk_memory_capture() (in module medcat.utils.cdb_state) OnlyCUIEntities (class in medcat.cat) (class in medcat.components.ner.trf.model) (class in medcat.data.entities) onlyprefnames (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) ontology (medcat.config.config.ModelMeta attribute) (medcat.utils.cdb_state.ModelMeta attribute) (medcat.utils.regression.checking.MetaData attribute) ontology_version (medcat.utils.regression.checking.MetaData attribute) optim (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) optimizer (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent attribute) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent attribute) options (medcat.utils.regression.checking.OptionSet attribute) (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.targeting.OptionSet attribute) OptionSet (class in medcat.utils.regression.checking) (class in medcat.utils.regression.targeting) original_names (medcat.cdb.cdb.CUIInfo attribute) (medcat.cdb.concepts.CUIInfo attribute) (medcat.components.linking.two_step_context_based_linker.CUIInfo attribute) (medcat.components.linking.vector_context_model.CUIInfo attribute) (medcat.stats.stats.CUIInfo attribute) (medcat.utils.cdb_state.CUIInfo attribute) (medcat.utils.regression.targeting.CUIInfo attribute) os (medcat.config.config.Environment attribute) (medcat.utils.envsnapshot.Environment attribute) output2logits() (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method)

output_attentions (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) output_hidden_states (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) output_key (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon attribute) (medcat.components.addons.meta_cat.MetaCATAddon attribute) (medcat.components.addons.relation_extraction.rel_cat.RelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon attribute) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon attribute) (medcat.utils.legacy.convert_rel_cat.RelCAT attribute) (medcat.utils.legacy.convert_rel_cat.RelCATAddon attribute)

P

P (in module medcat.utils.registry) P() (medcat.components.normalizing.normalizer.BasicSpellChecker method) (medcat.utils.regression.checking.BasicSpellChecker method) package_name (medcat.utils.import_utils.IncorrectExtraComponent attribute) (medcat.utils.import_utils.MissingDependenciesError attribute) pad() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) pad_id (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent attribute) (medcat.components.ner.trf.transformers_ner.CollateAndPadNER attribute) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent attribute) (medcat.utils.ner.data_collator.CollateAndPadNER attribute) Pad_Sequence (class in medcat.components.addons.relation_extraction.base_component) (class in medcat.components.addons.relation_extraction.pad_seq) pad_token_id (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) pad_token_type_id (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama property) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT property) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper property) padding_idx (medcat.config.config_meta_cat.Model attribute) (medcat.config.config_rel_cat.Model attribute) padding_seq (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent attribute) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent attribute) padding_side (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) parameters() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) parse_file() (in module medcat.model_creation.preprocess_snomed) (medcat.cat.Config class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.types.ComponentConfig class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.Environment class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.stats.kfold.PerCUIMetrics class method) (medcat.stats.stats.LinkingFilters class method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.regression.checking.FinalTarget class method) (medcat.utils.regression.checking.MetaData class method) (medcat.utils.regression.checking.MultiDescriptor class method) (medcat.utils.regression.checking.OptionSet class method) (medcat.utils.regression.checking.RegressionCase class method) (medcat.utils.regression.checking.ResultDescriptor class method) (medcat.utils.regression.checking.TargetedPhraseChanger class method) (medcat.utils.regression.results.FinalTarget class method) (medcat.utils.regression.results.MultiDescriptor class method) (medcat.utils.regression.results.ResultDescriptor class method) (medcat.utils.regression.results.SingleResultDescriptor class method) (medcat.utils.regression.targeting.FinalTarget class method) (medcat.utils.regression.targeting.OptionSet class method) (medcat.utils.regression.targeting.PhraseChanger class method) (medcat.utils.regression.targeting.TargetedPhraseChanger class method) (medcat.utils.regression.targeting.TargetPlaceholder class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method) parse_obj() (medcat.cat.Config class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.types.ComponentConfig class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.Environment class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.stats.kfold.PerCUIMetrics class method) (medcat.stats.stats.LinkingFilters class method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.regression.checking.FinalTarget class method) (medcat.utils.regression.checking.MetaData class method) (medcat.utils.regression.checking.MultiDescriptor class method) (medcat.utils.regression.checking.OptionSet class method) (medcat.utils.regression.checking.RegressionCase class method) (medcat.utils.regression.checking.ResultDescriptor class method) (medcat.utils.regression.checking.TargetedPhraseChanger class method) (medcat.utils.regression.results.FinalTarget class method) (medcat.utils.regression.results.MultiDescriptor class method) (medcat.utils.regression.results.ResultDescriptor class method) (medcat.utils.regression.results.SingleResultDescriptor class method) (medcat.utils.regression.targeting.FinalTarget class method) (medcat.utils.regression.targeting.OptionSet class method) (medcat.utils.regression.targeting.PhraseChanger class method) (medcat.utils.regression.targeting.TargetedPhraseChanger class method) (medcat.utils.regression.targeting.TargetPlaceholder class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method) parse_raw() (medcat.cat.Config class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.types.ComponentConfig class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.Environment class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.stats.kfold.PerCUIMetrics class method) (medcat.stats.stats.LinkingFilters class method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.regression.checking.FinalTarget class method) (medcat.utils.regression.checking.MetaData class method) (medcat.utils.regression.checking.MultiDescriptor class method) (medcat.utils.regression.checking.OptionSet class method) (medcat.utils.regression.checking.RegressionCase class method) (medcat.utils.regression.checking.ResultDescriptor class method) (medcat.utils.regression.checking.TargetedPhraseChanger class method) (medcat.utils.regression.results.FinalTarget class method) (medcat.utils.regression.results.MultiDescriptor class method) (medcat.utils.regression.results.ResultDescriptor class method) (medcat.utils.regression.results.SingleResultDescriptor class method) (medcat.utils.regression.targeting.FinalTarget class method) (medcat.utils.regression.targeting.OptionSet class method) (medcat.utils.regression.targeting.PhraseChanger class method) (medcat.utils.regression.targeting.TargetedPhraseChanger class method) (medcat.utils.regression.targeting.TargetPlaceholder class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method)

parser (in module medcat.utils.regression.regression_checker) PARTIAL_OVERLAP (medcat.utils.regression.checking.Finding attribute) (medcat.utils.regression.regression_checker.Finding attribute) (medcat.utils.regression.results.Finding attribute) partial_substitute() (in module medcat.utils.regression.checking) (in module medcat.utils.regression.utils) parts (medcat.utils.regression.checking.MultiDescriptor attribute) (medcat.utils.regression.results.MultiDescriptor attribute) path (medcat.tokenizing.regex_impl.tokenizer.UnregisteredDataPathException attribute) (medcat.tokenizing.spacy_impl.tokens.UnregisteredDataPathException attribute) (medcat.tokenizing.tokens.UnregisteredDataPathException attribute) per_cui_status (medcat.cdb.cdb.NameInfo attribute) (medcat.cdb.concepts.NameInfo attribute) (medcat.components.linking.vector_context_model.NameInfo attribute) (medcat.utils.cdb_state.NameInfo attribute) (medcat.utils.regression.targeting.NameInfo attribute) per_doc_simple (medcat.stats.kfold.PerDocsFoldCreator attribute) PER_FILE_TYPE_PATHS (in module medcat.model_creation.preprocess_snomed) per_fold (medcat.stats.kfold.PerAnnsFoldCreator attribute) (medcat.stats.kfold.SimpleFoldCreator attribute) per_phrase_results (medcat.utils.regression.checking.ResultDescriptor attribute) (medcat.utils.regression.results.ResultDescriptor attribute) PerAnnsFoldCreator (class in medcat.stats.kfold) PerCUIMetrics (class in medcat.stats.kfold) PerDocsFoldCreator (class in medcat.stats.kfold) PerDocumentTokenCache (class in medcat.components.linking.context_based_linker) (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.components.linking.vector_context_model) PerEntityWeights (class in medcat.components.linking.two_step_context_based_linker) PH_REMOVE (in module medcat.model_creation.cdb_maker) phase_number (medcat.config.config_meta_cat.Model attribute) PhraseChanger (class in medcat.utils.regression.targeting) phrases (medcat.utils.regression.checking.RegressionCase attribute) pick_random_edits() (in module medcat.utils.regression.checking) (in module medcat.utils.regression.utils) pin_memory (medcat.config.config_rel_cat.General attribute) pipe() (medcat.components.addons.relation_extraction.rel_cat.RelCAT method) (medcat.components.ner.trf.transformers_ner.TransformersNERComponent method) (medcat.utils.legacy.convert_rel_cat.RelCAT method) pipe_batch_size_in_chars (medcat.config.config_meta_cat.General attribute) (medcat.config.config_transformers_ner.General attribute) Pipeline (class in medcat.cat) (class in medcat.model_creation.cdb_maker) (class in medcat.pipeline.pipeline) (class in medcat.trainer) pipeline (medcat.model_creation.cdb_maker.CDBMaker attribute) placeholder (medcat.utils.regression.checking.FinalTarget attribute) (medcat.utils.regression.checking.TargetedPhraseChanger attribute) (medcat.utils.regression.results.FinalTarget attribute) (medcat.utils.regression.targeting.FinalTarget attribute) (medcat.utils.regression.targeting.TargetedPhraseChanger attribute) (medcat.utils.regression.targeting.TargetPlaceholder attribute) pop() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.PerEntityWeights method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) pop_mark() (medcat.storage.serialisers.RemappingUnpickler method) (medcat.utils.legacy.convert_cdb.CustomUnpickler method) (medcat.utils.legacy.v2_beta.RemappingUnpickler method) popitem() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.PerEntityWeights method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) PotentiallyDirty (class in medcat.config.config) predict() (in module medcat.components.addons.meta_cat.meta_cat) (in module medcat.components.addons.meta_cat.ml_utils) predict_text_with_anns() (medcat.components.addons.relation_extraction.rel_cat.RelCAT method) (medcat.utils.legacy.convert_rel_cat.RelCAT method) prefer_frequent_concepts (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) prefer_primary_name (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) preferred_name (medcat.cdb.cdb.CUIInfo attribute) (medcat.cdb.concepts.CUIInfo attribute) (medcat.components.linking.two_step_context_based_linker.CUIInfo attribute) (medcat.components.linking.vector_context_model.CUIInfo attribute) (medcat.stats.stats.CUIInfo attribute) (medcat.utils.cdb_state.CUIInfo attribute) (medcat.utils.regression.targeting.CUIInfo attribute) prefix (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) prepare_and_report_training() (medcat.config.config.ModelMeta method) (medcat.utils.cdb_state.ModelMeta method) prepare_csvs() (medcat.model_creation.cdb_maker.CDBMaker method) prepare_document() (medcat.components.addons.meta_cat.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.MetaCAT method) (medcat.utils.legacy.convert_meta_cat.MetaCAT method) prepare_for_model() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) prepare_for_oversampled_data() (in module medcat.components.addons.meta_cat.data_utils) (in module medcat.components.addons.meta_cat.meta_cat) prepare_from_json() (in module medcat.components.addons.meta_cat.data_utils) (in module medcat.components.addons.meta_cat.meta_cat) prepare_name() (in module medcat.model_creation.cdb_maker) (in module medcat.preprocessors.cleaners) (in module medcat.trainer) (in module medcat.utils.legacy.helpers) prepare_seq2seq_batch() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) preprocess_placeholders (medcat.utils.regression.targeting.PhraseChanger attribute) Preprocessing (class in medcat.components.tagging.tagger) (class in medcat.config.config) (class in medcat.trainer) preprocessing (medcat.cat.Config attribute) (medcat.cdb.cdb.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.Config attribute) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig attribute) (medcat.components.linking.context_based_linker.Config attribute) (medcat.components.linking.two_step_context_based_linker.Config attribute) (medcat.components.ner.trf.helpers.Config attribute) (medcat.components.ner.trf.model.Config attribute) (medcat.components.ner.vocab_based_annotator.Config attribute) (medcat.components.normalizing.normalizer.Config attribute) (medcat.config.Config attribute) (medcat.config.config.Config attribute) (medcat.model_creation.cdb_maker.Config attribute) (medcat.pipeline.pipeline.Config attribute) (medcat.tokenizing.regex_impl.tokenizer.Config attribute) (medcat.tokenizing.spacy_impl.tokenizers.Config attribute) (medcat.tokenizing.tokenizers.Config attribute) (medcat.utils.legacy.convert_cdb.Config attribute) (medcat.utils.legacy.convert_config.Config attribute) prerequisites (medcat.config.config_meta_cat.Train attribute) pretrained_model_name_or_path (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) pretrained_vocab_files_map (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) pretty_name (medcat.cat.Entity attribute) (medcat.components.ner.trf.deid.Entity attribute) (medcat.data.entities.Entity attribute) (medcat.utils.regression.results.Entity attribute) PRIMARY_STATUS (medcat.cdb.cdb.ST attribute) (medcat.components.linking.context_based_linker.ST attribute) (medcat.components.linking.two_step_context_based_linker.ST attribute) (medcat.components.linking.vector_context_model.ST attribute) (medcat.utils.defaults.StatusTypes attribute) PRIMARY_STATUS_NO_DISAMB (medcat.cdb.cdb.ST attribute) (medcat.components.linking.context_based_linker.ST attribute) (medcat.components.linking.two_step_context_based_linker.ST attribute) (medcat.components.linking.vector_context_model.ST attribute) (medcat.utils.defaults.StatusTypes attribute) PRIMARY_STATUS_W_DISAMB (medcat.cdb.cdb.ST attribute) (medcat.components.linking.context_based_linker.ST attribute) (medcat.components.linking.two_step_context_based_linker.ST attribute) (medcat.components.linking.vector_context_model.ST attribute) (medcat.utils.defaults.StatusTypes attribute) print_report() (in module medcat.components.addons.meta_cat.ml_utils) problem_type (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) ProblematicOptionSetException ProblematicOptionSetException.__cause__ (class in medcat.utils.regression.targeting) ProblematicOptionSetException.__context__ (class in medcat.utils.regression.targeting) ProblematicOptionSetException.__suppress_context__ (class in medcat.utils.regression.targeting) ProblematicOptionSetException.__traceback__ (class in medcat.utils.regression.targeting) ProblematicOptionSetException.args (class in medcat.utils.regression.targeting) process_document() (medcat.stats.stats.StatsBuilder method) process_project() (medcat.stats.stats.StatsBuilder method) project_filters() (in module medcat.stats.stats) (in module medcat.trainer) (in module medcat.utils.filters) project_name (medcat.config.config.TrainingDescriptor attribute) projects (medcat.data.mctexport.MedCATTrainerExport attribute) (medcat.stats.kfold.MedCATTrainerExport attribute) (medcat.stats.stats.MedCATTrainerExport attribute) (medcat.trainer.MedCATTrainerExport attribute) (medcat.utils.data_utils.MedCATTrainerExport attribute) (medcat.utils.regression.utils.MedCATTrainerExport attribute) protected_namespaces (medcat.config.config_meta_cat.Model.Config attribute) (medcat.config.config_rel_cat.General.Config attribute) (medcat.config.config_rel_cat.Model.Config attribute) (medcat.config.config_transformers_ner.General.Config attribute) proto (medcat.storage.serialisers.RemappingUnpickler attribute) (medcat.utils.legacy.convert_cdb.CustomUnpickler attribute) (medcat.utils.legacy.v2_beta.RemappingUnpickler attribute) provider (medcat.config.config.NLPConfig attribute) pruned_heads (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) punct_checker (medcat.components.tagging.tagger.TagAndSkipTagger attribute) push_to_hub() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) python_version (medcat.config.config.Environment attribute) (medcat.utils.envsnapshot.Environment attribute)

R

random_replacement_unsupervised (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) raw_edits1() (medcat.components.normalizing.normalizer.BasicSpellChecker class method) (medcat.utils.regression.checking.BasicSpellChecker class method) raw_edits2() (medcat.components.normalizing.normalizer.BasicSpellChecker class method) (medcat.utils.regression.checking.BasicSpellChecker class method) RAW_FILE (medcat.storage.jsonserialiser.JsonSerialiser attribute) (medcat.storage.jsonserialiser.Serialiser attribute) (medcat.storage.serialisers.DillSerialiser attribute) (medcat.storage.serialisers.Serialiser attribute) raw_name (medcat.cdb.cdb.NameDescriptor attribute) (medcat.components.ner.trf.transformers_ner.NameDescriptor attribute) (medcat.preprocessors.cleaners.NameDescriptor attribute) (medcat.trainer.NameDescriptor attribute) (medcat.utils.legacy.helpers.NameDescriptor attribute) refset (medcat.model_creation.preprocess_snomed.FileFormatDescriptor attribute) (medcat.model_creation.preprocess_snomed.RefSetFileType attribute) RefSetFileType (class in medcat.model_creation.preprocess_snomed) REGEX (medcat.tokenizing.regex_impl.tokenizer.RegexTokenizer attribute) RegexTokenizer (class in medcat.tokenizing.regex_impl.tokenizer) register() (medcat.components.addons.addons.Registry method) (medcat.components.types.Registry method) (medcat.storage.jsonserialiser.TypeRegistry method) (medcat.tokenizing.tokenizers.Registry method) (medcat.utils.registry.Registry method) register_addon() (in module medcat.components.addons.addons) register_addon_path() (medcat.cat.MutableDocument class method) (medcat.cat.MutableEntity class method) (medcat.components.addons.addons.MutableEntity class method) (medcat.components.addons.meta_cat.meta_cat.MutableDocument class method) (medcat.components.addons.meta_cat.meta_cat.MutableEntity class method) (medcat.components.addons.relation_extraction.rel_cat.MutableDocument class method) (medcat.components.addons.relation_extraction.rel_dataset.MutableDocument class method) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity class method) (medcat.components.linking.context_based_linker.MutableDocument class method) (medcat.components.linking.context_based_linker.MutableEntity class method) (medcat.components.linking.no_action_linker.MutableDocument class method) (medcat.components.linking.two_step_context_based_linker.MutableDocument class method) (medcat.components.linking.two_step_context_based_linker.MutableEntity class method) (medcat.components.linking.vector_context_model.MutableDocument class method) (medcat.components.linking.vector_context_model.MutableEntity class method) (medcat.components.ner.dict_based_ner.MutableDocument class method) (medcat.components.ner.trf.model.MutableDocument class method) (medcat.components.ner.trf.transformers_ner.MutableDocument class method) (medcat.components.ner.trf.transformers_ner.MutableEntity class method) (medcat.components.ner.vocab_based_annotator.MutableDocument class method) (medcat.components.ner.vocab_based_annotator.MutableEntity class method) (medcat.components.ner.vocab_based_ner.MutableDocument class method) (medcat.components.normalizing.normalizer.MutableDocument class method) (medcat.components.tagging.tagger.MutableDocument class method) (medcat.components.types.MutableDocument class method) (medcat.components.types.MutableEntity class method) (medcat.pipeline.pipeline.MutableDocument class method) (medcat.pipeline.pipeline.MutableEntity class method) (medcat.preprocessors.cleaners.MutableDocument class method) (medcat.stats.stats.MutableDocument class method) (medcat.stats.stats.MutableEntity class method) (medcat.tokenizing.regex_impl.tokenizer.Document class method) (medcat.tokenizing.regex_impl.tokenizer.Entity class method) (medcat.tokenizing.regex_impl.tokenizer.MutableDocument class method) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity class method) (medcat.tokenizing.spacy_impl.tokenizers.Document class method) (medcat.tokenizing.spacy_impl.tokenizers.Entity class method) (medcat.tokenizing.spacy_impl.tokenizers.MutableDocument class method) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity class method) (medcat.tokenizing.spacy_impl.tokens.Document class method) (medcat.tokenizing.spacy_impl.tokens.Entity class method) (medcat.tokenizing.spacy_impl.tokens.MutableEntity class method) (medcat.tokenizing.tokenizers.MutableDocument class method) (medcat.tokenizing.tokenizers.MutableEntity class method) (medcat.tokenizing.tokens.MutableDocument class method) (medcat.tokenizing.tokens.MutableEntity class method) (medcat.trainer.MutableDocument class method) (medcat.trainer.MutableEntity class method) (medcat.utils.data_utils.MutableDocument class method) (medcat.utils.data_utils.MutableEntity class method) (medcat.utils.postprocessing.MutableDocument class method) (medcat.utils.postprocessing.MutableEntity class method) register_all_defaults() (medcat.components.addons.addons.Registry method) (medcat.components.types.Registry method) (medcat.tokenizing.tokenizers.Registry method) (medcat.utils.registry.Registry method) register_backward_hook() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) register_buffer() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) register_core_component() (in module medcat.components.types) register_for_auto_class() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig class method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT class method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig class method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama class method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig class method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig class method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT class method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper class method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper class method) register_forward_hook() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) register_forward_pre_hook() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) register_full_backward_hook() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) register_full_backward_pre_hook() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) register_load_state_dict_post_hook() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) register_load_state_dict_pre_hook() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) register_module() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) register_parameter() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) register_state_dict_post_hook() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method)

register_state_dict_pre_hook() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) register_tokenizer() (in module medcat.tokenizing.tokenizers) Registry (class in medcat.components.addons.addons) (class in medcat.components.types) (class in medcat.tokenizing.tokenizers) (class in medcat.utils.registry) regr_suite_creation_date (medcat.utils.regression.checking.MetaData attribute) RegressionCase (class in medcat.utils.regression.checking) RegressionSuite (class in medcat.utils.regression.checking) (class in medcat.utils.regression.regression_checker) relation_type_filter_pairs (medcat.config.config_rel_cat.General attribute) relationship (medcat.model_creation.preprocess_snomed.FileFormatDescriptor attribute) (medcat.model_creation.preprocess_snomed.RefSetFileType attribute) relationship2json() (medcat.model_creation.preprocess_snomed.Snomed method) RelCAT (class in medcat.components.addons.relation_extraction.rel_cat) (class in medcat.utils.legacy.convert_rel_cat) relcat_config (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent attribute) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent attribute) RelCATAddon (class in medcat.components.addons.relation_extraction.rel_cat) (class in medcat.utils.legacy.convert_rel_cat) RelData (class in medcat.components.addons.relation_extraction.rel_cat) (class in medcat.components.addons.relation_extraction.rel_dataset) release (medcat.model_creation.preprocess_snomed.Snomed attribute) RelExtrBaseComponent (class in medcat.components.addons.relation_extraction.base_component) (class in medcat.components.addons.relation_extraction.rel_cat) (class in medcat.utils.legacy.convert_rel_cat) RelExtrBaseConfig (class in medcat.components.addons.relation_extraction.base_component) (class in medcat.components.addons.relation_extraction.bert.config) (class in medcat.components.addons.relation_extraction.config) (class in medcat.components.addons.relation_extraction.llama.config) (class in medcat.components.addons.relation_extraction.models) (class in medcat.components.addons.relation_extraction.modernbert.config) RelExtrBaseModel (class in medcat.components.addons.relation_extraction.base_component) (class in medcat.components.addons.relation_extraction.bert.model) (class in medcat.components.addons.relation_extraction.llama.model) (class in medcat.components.addons.relation_extraction.models) (class in medcat.components.addons.relation_extraction.modernbert.model) RelExtrBertConfig (class in medcat.components.addons.relation_extraction.bert.config) (class in medcat.components.addons.relation_extraction.bert.model) RelExtrBertModel (class in medcat.components.addons.relation_extraction.bert.model) RelExtrLlamaConfig (class in medcat.components.addons.relation_extraction.llama.config) (class in medcat.components.addons.relation_extraction.llama.model) RelExtrLlamaModel (class in medcat.components.addons.relation_extraction.llama.model) RelExtrModernBertConfig (class in medcat.components.addons.relation_extraction.modernbert.config) (class in medcat.components.addons.relation_extraction.modernbert.model) RelExtrModernBertModel (class in medcat.components.addons.relation_extraction.modernbert.model) relu (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) RemappingUnpickler (class in medcat.storage.serialisers) (class in medcat.utils.legacy.v2_beta) RemappingUnpickler.memo (class in medcat.storage.serialisers) (class in medcat.utils.legacy.v2_beta) RemappingUnpickler.persistent_load (class in medcat.storage.serialisers) (class in medcat.utils.legacy.v2_beta) remove_all_vectors() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) remove_cui() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) remove_parenthesis (medcat.config.config.CDBMaker attribute) (medcat.trainer.CDBMaker attribute) remove_words_below_cnt() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) replace_center (medcat.config.config_meta_cat.General attribute) replace_entities_in_text() (in module medcat.components.ner.trf.deid) (in module medcat.components.ner.trf.helpers) report (medcat.utils.regression.checking.RegressionCase attribute) (medcat.utils.regression.checking.RegressionSuite attribute) (medcat.utils.regression.regression_checker.RegressionSuite attribute) report() (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) report_success() (medcat.utils.regression.checking.ResultDescriptor method) (medcat.utils.regression.results.ResultDescriptor method) (medcat.utils.regression.results.SingleResultDescriptor method) requires_grad_() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) reset_cdb() (medcat.model_creation.cdb_maker.CDBMaker method) reset_counts() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) reset_cui_training() (in module medcat.cdb.cdb) (in module medcat.cdb.concepts) reset_training() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) ResultDescriptor (class in medcat.utils.regression.checking) (class in medcat.utils.regression.results) return_dict (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) rnn (medcat.components.addons.meta_cat.models.LSTM attribute)

S

sanitize_special_tokens() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) save() (medcat.cat.CDB method) (medcat.cat.Vocab method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.data_utils.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBPE method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon method) (medcat.components.addons.meta_cat.meta_cat.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.meta_cat.MetaCATAddon method) (medcat.components.addons.meta_cat.ml_utils.TokenizerWrapperBase method) (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.RelCAT method) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.deid.TransformersNER method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.model.TransformersNER method) (medcat.components.ner.trf.tokenizer.TransformersTokenizer method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.trf.transformers_ner.TransformersNER method) (medcat.components.ner.trf.transformers_ner.TransformersTokenizer method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.CDB method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.CDB method) (medcat.components.types.Vocab method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.pipeline.pipeline.Vocab method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_deid.TransformersNER method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon method) (medcat.utils.legacy.convert_meta_cat.TokenizerWrapperBase method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.convert_rel_cat.RelCAT method) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) save_and_reuse_tokens (medcat.config.config_meta_cat.General attribute) save_bin_file() (in module medcat.components.addons.relation_extraction.ml_utils) save_cdb_state() (in module medcat.utils.cdb_state) save_components() (medcat.cat.Pipeline method) (medcat.model_creation.cdb_maker.Pipeline method) (medcat.pipeline.pipeline.Pipeline method) (medcat.trainer.Pipeline method) save_internals_to() (medcat.cat.SaveableTokenizer method) (medcat.tokenizing.spacy_impl.tokenizers.SpacyTokenizer method) (medcat.tokenizing.tokenizers.SaveableTokenizer method) save_model_pack() (medcat.cat.CAT method) (medcat.components.ner.trf.deid.CAT method) (medcat.components.ner.trf.model.CAT method) (medcat.stats.kfold.CAT method) (medcat.stats.stats.CAT method) (medcat.utils.legacy.conversion_all.CAT method) (medcat.utils.legacy.helpers.CAT method) (medcat.utils.regression.checking.CAT method) (medcat.utils.regression.regression_checker.CAT method) save_pretrained() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) save_results() (in module medcat.components.addons.relation_extraction.ml_utils) (in module medcat.components.addons.relation_extraction.rel_cat) save_schema() (in module medcat.storage.schema) (in module medcat.storage.serialisers) save_ser_type_file() (medcat.storage.jsonserialiser.JsonSerialiser method) (medcat.storage.jsonserialiser.Serialiser method) (medcat.storage.serialisers.DillSerialiser method) (medcat.storage.serialisers.Serialiser method) save_state() (in module medcat.components.addons.relation_extraction.base_component) (in module medcat.components.addons.relation_extraction.ml_utils) (in module medcat.components.addons.relation_extraction.rel_cat) save_vocabulary() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) SaveableTokenizer (class in medcat.cat) (class in medcat.tokenizing.tokenizers) saved_environ (medcat.config.config.ModelMeta attribute) (medcat.utils.cdb_state.ModelMeta attribute) scheduler (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent attribute) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent attribute) schema() (medcat.cat.Config class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.types.ComponentConfig class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.Environment class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.stats.kfold.PerCUIMetrics class method) (medcat.stats.stats.LinkingFilters class method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.regression.checking.FinalTarget class method) (medcat.utils.regression.checking.MetaData class method) (medcat.utils.regression.checking.MultiDescriptor class method) (medcat.utils.regression.checking.OptionSet class method) (medcat.utils.regression.checking.RegressionCase class method) (medcat.utils.regression.checking.ResultDescriptor class method) (medcat.utils.regression.checking.TargetedPhraseChanger class method) (medcat.utils.regression.results.FinalTarget class method) (medcat.utils.regression.results.MultiDescriptor class method) (medcat.utils.regression.results.ResultDescriptor class method) (medcat.utils.regression.results.SingleResultDescriptor class method) (medcat.utils.regression.targeting.FinalTarget class method) (medcat.utils.regression.targeting.OptionSet class method) (medcat.utils.regression.targeting.PhraseChanger class method) (medcat.utils.regression.targeting.TargetedPhraseChanger class method) (medcat.utils.regression.targeting.TargetPlaceholder class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method) schema_json() (medcat.cat.Config class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.types.ComponentConfig class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.Environment class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.stats.kfold.PerCUIMetrics class method) (medcat.stats.stats.LinkingFilters class method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.regression.checking.FinalTarget class method) (medcat.utils.regression.checking.MetaData class method) (medcat.utils.regression.checking.MultiDescriptor class method) (medcat.utils.regression.checking.OptionSet class method) (medcat.utils.regression.checking.RegressionCase class method) (medcat.utils.regression.checking.ResultDescriptor class method) (medcat.utils.regression.checking.TargetedPhraseChanger class method) (medcat.utils.regression.results.FinalTarget class method) (medcat.utils.regression.results.MultiDescriptor class method) (medcat.utils.regression.results.ResultDescriptor class method) (medcat.utils.regression.results.SingleResultDescriptor class method) (medcat.utils.regression.targeting.FinalTarget class method) (medcat.utils.regression.targeting.OptionSet class method) (medcat.utils.regression.targeting.PhraseChanger class method) (medcat.utils.regression.targeting.TargetedPhraseChanger class method) (medcat.utils.regression.targeting.TargetPlaceholder class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method) score_average (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.Train attribute) seed (medcat.config.config_meta_cat.General attribute) (medcat.config.config_rel_cat.General attribute) (medcat.config.config_transformers_ner.General attribute) sem_types_columns (medcat.model_creation.preprocess_umls.UMLS attribute) sem_types_file (medcat.model_creation.preprocess_umls.UMLS attribute) sep (medcat.model_creation.preprocess_umls.UMLS attribute) sep_token_id (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute)

separator (medcat.config.config.General attribute) (medcat.preprocessors.cleaners.LGeneral attribute) (medcat.trainer.General attribute) (medcat.utils.regression.checking.TranslationLayer attribute) (medcat.utils.regression.regression_checker.TranslationLayer attribute) (medcat.utils.regression.results.TranslationLayer attribute) (medcat.utils.regression.targeting.TranslationLayer attribute) seq_pad_value (medcat.components.addons.relation_extraction.base_component.Pad_Sequence attribute) (medcat.components.addons.relation_extraction.pad_seq.Pad_Sequence attribute) ser_type (medcat.storage.jsonserialiser.JsonSerialiser attribute) (medcat.storage.jsonserialiser.Serialiser property) (medcat.storage.serialisers.DillSerialiser attribute) (medcat.storage.serialisers.Serialiser property) (medcat.utils.legacy.conversion_all.Converter attribute) (medcat.utils.legacy.legacy_converter.Converter attribute) SER_TYPE_FILE (in module medcat.storage.serialisers) Serialisable (class in medcat.pipeline.pipeline) (class in medcat.storage.serialisables) (class in medcat.storage.serialisers) SERIALISABLE_ONLY (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy attribute) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy attribute) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy attribute) (medcat.config.config.SerialisingStrategy attribute) (medcat.storage.serialisables.SerialisingStrategy attribute) SerialisableBaseModel (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.config.config) (class in medcat.config.config_rel_cat) (class in medcat.config.config_transformers_ner) SERIALISABLES_AND_DICT (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy attribute) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy attribute) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy attribute) (medcat.config.config.SerialisingStrategy attribute) (medcat.storage.serialisables.SerialisingStrategy attribute) serialise() (in module medcat.cat) (in module medcat.cdb.cdb) (in module medcat.components.addons.meta_cat.meta_cat) (in module medcat.components.addons.relation_extraction.base_component) (in module medcat.components.ner.trf.transformers_ner) (in module medcat.pipeline.pipeline) (in module medcat.storage.serialisers) (in module medcat.vocab) (medcat.storage.jsonserialiser.JsonSerialiser method) (medcat.storage.jsonserialiser.Serialiser method) (medcat.storage.serialisers.DillSerialiser method) (medcat.storage.serialisers.Serialiser method) serialise_all() (medcat.storage.jsonserialiser.JsonSerialiser method) (medcat.storage.jsonserialiser.Serialiser method) (medcat.storage.serialisers.DillSerialiser method) (medcat.storage.serialisers.Serialiser method) serialise_to() (medcat.components.addons.meta_cat.meta_cat.MetaCATAddon method) (medcat.components.addons.meta_cat.MetaCATAddon method) (medcat.components.addons.relation_extraction.rel_cat.RelCATAddon method) (medcat.components.ner.trf.deid.TransformersNER method) (medcat.components.ner.trf.model.TransformersNER method) (medcat.components.ner.trf.transformers_ner.TransformersNER method) (medcat.storage.serialisables.ManualSerialisable method) (medcat.storage.serialisers.ManualSerialisable method) (medcat.utils.legacy.convert_deid.TransformersNER method) (medcat.utils.legacy.convert_meta_cat.MetaCATAddon method) (medcat.utils.legacy.convert_rel_cat.RelCATAddon method) Serialiser (class in medcat.storage.jsonserialiser) (class in medcat.storage.serialisers) serialiser (medcat.config.config_meta_cat.General attribute) SerialisingStrategy (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.components.addons.relation_extraction.rel_cat) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.config.config) (class in medcat.storage.serialisables) set_addon_data() (medcat.cat.MutableDocument method) (medcat.cat.MutableEntity method) (medcat.components.addons.addons.MutableEntity method) (medcat.components.addons.meta_cat.meta_cat.MutableDocument method) (medcat.components.addons.meta_cat.meta_cat.MutableEntity method) (medcat.components.addons.relation_extraction.rel_cat.MutableDocument method) (medcat.components.addons.relation_extraction.rel_dataset.MutableDocument method) (medcat.components.addons.relation_extraction.rel_dataset.MutableEntity method) (medcat.components.linking.context_based_linker.MutableDocument method) (medcat.components.linking.context_based_linker.MutableEntity method) (medcat.components.linking.no_action_linker.MutableDocument method) (medcat.components.linking.two_step_context_based_linker.MutableDocument method) (medcat.components.linking.two_step_context_based_linker.MutableEntity method) (medcat.components.linking.vector_context_model.MutableDocument method) (medcat.components.linking.vector_context_model.MutableEntity method) (medcat.components.ner.dict_based_ner.MutableDocument method) (medcat.components.ner.trf.model.MutableDocument method) (medcat.components.ner.trf.transformers_ner.MutableDocument method) (medcat.components.ner.trf.transformers_ner.MutableEntity method) (medcat.components.ner.vocab_based_annotator.MutableDocument method) (medcat.components.ner.vocab_based_annotator.MutableEntity method) (medcat.components.ner.vocab_based_ner.MutableDocument method) (medcat.components.normalizing.normalizer.MutableDocument method) (medcat.components.tagging.tagger.MutableDocument method) (medcat.components.types.MutableDocument method) (medcat.components.types.MutableEntity method) (medcat.pipeline.pipeline.MutableDocument method) (medcat.pipeline.pipeline.MutableEntity method) (medcat.preprocessors.cleaners.MutableDocument method) (medcat.stats.stats.MutableDocument method) (medcat.stats.stats.MutableEntity method) (medcat.tokenizing.regex_impl.tokenizer.Document method) (medcat.tokenizing.regex_impl.tokenizer.Entity method) (medcat.tokenizing.regex_impl.tokenizer.MutableDocument method) (medcat.tokenizing.regex_impl.tokenizer.MutableEntity method) (medcat.tokenizing.spacy_impl.tokenizers.Document method) (medcat.tokenizing.spacy_impl.tokenizers.Entity method) (medcat.tokenizing.spacy_impl.tokenizers.MutableDocument method) (medcat.tokenizing.spacy_impl.tokenizers.MutableEntity method) (medcat.tokenizing.spacy_impl.tokens.Document method) (medcat.tokenizing.spacy_impl.tokens.Entity method) (medcat.tokenizing.spacy_impl.tokens.MutableEntity method) (medcat.tokenizing.tokenizers.MutableDocument method) (medcat.tokenizing.tokenizers.MutableEntity method) (medcat.tokenizing.tokens.MutableDocument method) (medcat.tokenizing.tokens.MutableEntity method) (medcat.trainer.MutableDocument method) (medcat.trainer.MutableEntity method) (medcat.utils.data_utils.MutableDocument method) (medcat.utils.data_utils.MutableEntity method) (medcat.utils.postprocessing.MutableDocument method) (medcat.utils.postprocessing.MutableEntity method) set_all_seeds() (in module medcat.components.addons.meta_cat.meta_cat) (in module medcat.components.addons.meta_cat.ml_utils) (in module medcat.components.addons.relation_extraction.rel_cat) (in module medcat.components.ner.trf.transformers_ner) set_extra_state() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) SET_IDENTIFIER (in module medcat.utils.legacy.convert_config) set_submodule() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) set_truncation_and_padding() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) setdefault() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.PerEntityWeights method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) SetHandler (class in medcat.storage.jsonserialiser) share_memory() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) should_encode() (medcat.storage.jsonserialiser.DataClassHandler method) (medcat.storage.jsonserialiser.DateTimeHandler method) (medcat.storage.jsonserialiser.NumpyArrayHandler method) (medcat.storage.jsonserialiser.SetHandler method) (medcat.storage.jsonserialiser.TypeBasedHandler method) (medcat.storage.jsonserialiser.TypeHandler method) should_monitor (medcat.cat.UsageMonitor property) (medcat.utils.usage_monitoring.UsageMonitor property) should_save (medcat.components.ner.trf.deid.TransformersNER property) (medcat.components.ner.trf.model.TransformersNER property) (medcat.components.ner.trf.transformers_ner.TransformersNER property) (medcat.utils.legacy.convert_deid.TransformersNER property) show_description() (in module medcat.utils.regression.regression_checker) show_nested_entities (medcat.config.config.General attribute) (medcat.trainer.General attribute) shuffle_data (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.Train attribute) sigmoid() (in module medcat.components.linking.two_step_context_based_linker) (in module medcat.utils.matutils) similarity() (medcat.components.linking.context_based_linker.ContextModel method) (medcat.components.linking.two_step_context_based_linker.ContextModel method) (medcat.components.linking.vector_context_model.ContextModel method) similarity_threshold (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) similarity_threshold_type (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) simple_hash (medcat.config.config.General attribute) (medcat.trainer.General attribute) SimpleFoldCreator (class in medcat.stats.kfold) SingleResultDescriptor (class in medcat.utils.regression.results) skip_stopwords (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.config.config.Preprocessing attribute) (medcat.trainer.Preprocessing attribute) slow_tokenizer_class (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) SMALLER_SPAN (medcat.utils.regression.checking.Finding attribute) (medcat.utils.regression.regression_checker.Finding attribute) (medcat.utils.regression.results.Finding attribute) snames (medcat.cdb.cdb.NameDescriptor attribute) (medcat.components.ner.trf.transformers_ner.NameDescriptor attribute) (medcat.preprocessors.cleaners.NameDescriptor attribute) (medcat.trainer.NameDescriptor attribute) (medcat.utils.legacy.helpers.NameDescriptor attribute) Snomed (class in medcat.model_creation.preprocess_snomed) SNOMED_FOLDER_NAME_PATTERN (in module medcat.model_creation.preprocess_snomed) softmax (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) source_value (medcat.cat.Entity attribute) (medcat.components.ner.trf.deid.Entity attribute) (medcat.data.entities.Entity attribute) (medcat.utils.regression.results.Entity attribute) spacy_split_all() (in module medcat.tokenizing.spacy_impl.tokenizers) SpacyTokenizer (class in medcat.tokenizing.spacy_impl.tokenizers) span_group (medcat.config.config_meta_cat.General attribute) SPECIAL_TOKENS_ATTRIBUTES (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) special_tokens_map (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama property) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT property) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper property) special_tokens_map_extended (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama property) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT property) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper property) spell_check (medcat.config.config.General attribute) (medcat.trainer.General attribute) spell_check_deep (medcat.config.config.General attribute) (medcat.trainer.General attribute) spell_check_len_limit (medcat.config.config.General attribute) (medcat.trainer.General attribute) spell_checker (medcat.components.normalizing.normalizer.TokenNormalizer attribute) split() (medcat.utils.data_utils.TestTrainSplitter method) split_list_train_test() (in module medcat.components.addons.meta_cat.ml_utils) split_list_train_test_by_class() (in module medcat.components.addons.relation_extraction.ml_utils) (in module medcat.components.addons.relation_extraction.rel_cat) split_special_tokens (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) SplitType (class in medcat.stats.kfold) ST (class in medcat.cdb.cdb) (class in medcat.components.linking.context_based_linker) (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.components.linking.vector_context_model) start (medcat.cat.Entity attribute) (medcat.components.ner.trf.deid.Entity attribute) (medcat.data.entities.Entity attribute) (medcat.data.mctexport.MedCATTrainerExportAnnotation attribute) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired attribute) (medcat.stats.kfold.MedCATTrainerExportAnnotation attribute) (medcat.stats.stats.MedCATTrainerExportAnnotation attribute) (medcat.utils.regression.results.Entity attribute) start_char_index (medcat.tokenizing.regex_impl.tokenizer.BaseEntity property) (medcat.tokenizing.regex_impl.tokenizer.Entity property) (medcat.tokenizing.spacy_impl.tokenizers.Entity property) (medcat.tokenizing.spacy_impl.tokens.BaseEntity property) (medcat.tokenizing.spacy_impl.tokens.Entity property) (medcat.tokenizing.tokens.BaseEntity property) start_index (medcat.tokenizing.regex_impl.tokenizer.BaseEntity property) (medcat.tokenizing.regex_impl.tokenizer.Entity property) (medcat.tokenizing.spacy_impl.tokenizers.Entity property) (medcat.tokenizing.spacy_impl.tokens.BaseEntity property) (medcat.tokenizing.spacy_impl.tokens.Entity property) (medcat.tokenizing.tokens.BaseEntity property) state_dict() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) StatsBuilder (class in medcat.stats.stats) StatusTypes (class in medcat.utils.defaults) stopwords (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.config.config.Preprocessing attribute) (medcat.trainer.Preprocessing attribute) stratified_batching (medcat.config.config_rel_cat.Train attribute) STRICT (medcat.utils.regression.regression_checker.Strictness attribute) (medcat.utils.regression.results.Strictness attribute) strict_only (medcat.utils.regression.results.FindingDeterminer attribute) STRICTEST (medcat.utils.regression.regression_checker.Strictness attribute) (medcat.utils.regression.results.Strictness attribute) Strictness (class in medcat.utils.regression.regression_checker) (class in medcat.utils.regression.results) STRICTNESS_MATRIX (in module medcat.utils.regression.regression_checker) (in module medcat.utils.regression.results) sub_configs (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) subnames (medcat.cdb.cdb.CUIInfo attribute) (medcat.cdb.concepts.CUIInfo attribute) (medcat.components.linking.two_step_context_based_linker.CUIInfo attribute) (medcat.components.linking.vector_context_model.CUIInfo attribute) (medcat.stats.stats.CUIInfo attribute) (medcat.utils.cdb_state.CUIInfo attribute) (medcat.utils.regression.targeting.CUIInfo attribute) subsample_after (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) sup_trained (medcat.config.config.ModelMeta attribute) (medcat.utils.cdb_state.ModelMeta attribute) SupportedBundles (class in medcat.model_creation.preprocess_snomed) SupportedExtension (class in medcat.model_creation.preprocess_snomed)

T

T (in module medcat.config.config) (in module medcat.storage.jsonserialiser) (in module medcat.utils.iterutils) T_destination (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) tag (medcat.components.linking.vector_context_model.MutableToken property) (medcat.components.ner.vocab_based_annotator.MutableToken property) (medcat.pipeline.pipeline.MutableToken property) (medcat.tokenizing.regex_impl.tokenizer.MutableToken property) (medcat.tokenizing.regex_impl.tokenizer.Token property) (medcat.tokenizing.spacy_impl.tokenizers.MutableToken property) (medcat.tokenizing.spacy_impl.tokenizers.Token property) (medcat.tokenizing.spacy_impl.tokens.MutableToken property) (medcat.tokenizing.spacy_impl.tokens.Token property) (medcat.tokenizing.tokenizers.MutableToken property) (medcat.tokenizing.tokens.MutableToken property) (medcat.trainer.MutableToken property) TagAndSkipTagger (class in medcat.components.tagging.tagger) tagging (medcat.components.linking.context_based_linker.CoreComponentType attribute) (medcat.components.linking.no_action_linker.CoreComponentType attribute) (medcat.components.linking.two_step_context_based_linker.CoreComponentType attribute) (medcat.components.ner.dict_based_ner.CoreComponentType attribute) (medcat.components.ner.trf.deid.CoreComponentType attribute) (medcat.components.ner.trf.model.CoreComponentType attribute) (medcat.components.ner.trf.transformers_ner.CoreComponentType attribute) (medcat.components.ner.vocab_based_ner.CoreComponentType attribute) (medcat.components.normalizing.normalizer.CoreComponentType attribute) (medcat.components.tagging.tagger.CoreComponentType attribute) (medcat.components.types.CoreComponentType attribute) (medcat.config.config.Components attribute) (medcat.pipeline.pipeline.CoreComponentType attribute) (medcat.trainer.CoreComponentType attribute) (medcat.utils.legacy.conversion_all.CoreComponentType attribute) tags (medcat.cdb.cdb.CUIInfo attribute) (medcat.cdb.concepts.CUIInfo attribute) (medcat.components.linking.two_step_context_based_linker.CUIInfo attribute) (medcat.components.linking.vector_context_model.CUIInfo attribute) (medcat.stats.stats.CUIInfo attribute) (medcat.utils.cdb_state.CUIInfo attribute) (medcat.utils.regression.targeting.CUIInfo attribute) target_cuis (medcat.utils.regression.targeting.TargetPlaceholder attribute) TargetedPhraseChanger (class in medcat.utils.regression.checking) (class in medcat.utils.regression.targeting) TargetPlaceholder (class in medcat.utils.regression.targeting) task (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.rel_cat.RelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent attribute) (medcat.config.config_rel_cat.General attribute) (medcat.utils.legacy.convert_rel_cat.RelCAT attribute) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent attribute) task_specific_params (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) temp_attribute() (in module medcat.components.linking.two_step_context_based_linker) temp_changed_config() (in module medcat.components.linking.two_step_context_based_linker) (in module medcat.trainer) (in module medcat.utils.config_utils) (in module medcat.utils.filters) TEMP_PLACEHOLDER (medcat.utils.regression.checking.MedCATTrainerExportConverter attribute) (medcat.utils.regression.utils.MedCATTrainerExportConverter attribute) test_size (medcat.config.config_meta_cat.Train attribute) (medcat.config.config_rel_cat.Train attribute) (medcat.config.config_transformers_ner.General attribute) (medcat.utils.data_utils.TestTrainSplitter attribute) TestTrainSplitter (class in medcat.utils.data_utils) text (medcat.cat.Entities attribute) (medcat.cat.OnlyCUIEntities attribute) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument attribute) (medcat.components.ner.trf.model.Entities attribute) (medcat.components.ner.trf.model.OnlyCUIEntities attribute) (medcat.data.entities.Entities attribute) (medcat.data.entities.OnlyCUIEntities attribute) (medcat.data.mctexport.MedCATTrainerExportDocument attribute) (medcat.stats.kfold.MedCATTrainerExportDocument attribute) (medcat.stats.stats.MedCATTrainerExportDocument attribute) (medcat.tokenizing.regex_impl.tokenizer.BaseDocument property) (medcat.tokenizing.regex_impl.tokenizer.BaseEntity property) (medcat.tokenizing.regex_impl.tokenizer.BaseToken property) (medcat.tokenizing.regex_impl.tokenizer.Document attribute) (medcat.tokenizing.regex_impl.tokenizer.Entity property) (medcat.tokenizing.regex_impl.tokenizer.Token property) (medcat.tokenizing.spacy_impl.tokenizers.Document property) (medcat.tokenizing.spacy_impl.tokenizers.Entity property) (medcat.tokenizing.spacy_impl.tokenizers.Token property) (medcat.tokenizing.spacy_impl.tokens.BaseDocument property) (medcat.tokenizing.spacy_impl.tokens.BaseEntity property) (medcat.tokenizing.spacy_impl.tokens.BaseToken property) (medcat.tokenizing.spacy_impl.tokens.Document property) (medcat.tokenizing.spacy_impl.tokens.Entity property) (medcat.tokenizing.spacy_impl.tokens.Token property) (medcat.tokenizing.tokens.BaseDocument property) (medcat.tokenizing.tokens.BaseEntity property) (medcat.tokenizing.tokens.BaseToken property) (medcat.trainer.MedCATTrainerExportDocument attribute) (medcat.utils.data_utils.MedCATTrainerExportDocument attribute) (medcat.utils.regression.utils.MedCATTrainerExportDocument attribute) text_versions (medcat.tokenizing.regex_impl.tokenizer.BaseToken property) (medcat.tokenizing.regex_impl.tokenizer.Token property) (medcat.tokenizing.spacy_impl.tokenizers.Token property) (medcat.tokenizing.spacy_impl.tokens.BaseToken property) (medcat.tokenizing.spacy_impl.tokens.Token property) (medcat.tokenizing.tokens.BaseToken property) text_with_ws 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(medcat.tokenizing.spacy_impl.tokenizers.Token property) (medcat.tokenizing.spacy_impl.tokens.MutableToken property) (medcat.tokenizing.spacy_impl.tokens.Token property) (medcat.tokenizing.tokenizers.MutableToken property) (medcat.tokenizing.tokens.MutableToken property) (medcat.trainer.MutableToken property) to_yaml() (medcat.utils.regression.checking.RegressionSuite method) (medcat.utils.regression.regression_checker.RegressionSuite method) Token (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokenizers) (class in medcat.tokenizing.spacy_impl.tokens) token_counts (medcat.cat.CDB attribute) (medcat.cdb.CDB attribute) (medcat.cdb.cdb.CDB attribute) (medcat.components.addons.addons.CDB attribute) (medcat.components.addons.meta_cat.meta_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_dataset.CDB attribute) (medcat.components.linking.context_based_linker.CDB attribute) (medcat.components.linking.no_action_linker.CDB attribute) (medcat.components.linking.two_step_context_based_linker.CDB attribute) (medcat.components.ner.dict_based_ner.CDB attribute) (medcat.components.ner.trf.deid.CDB attribute) (medcat.components.ner.trf.helpers.CDB attribute) (medcat.components.ner.trf.model.CDB attribute) (medcat.components.ner.trf.transformers_ner.CDB attribute) (medcat.components.ner.vocab_based_annotator.CDB attribute) (medcat.components.ner.vocab_based_ner.CDB attribute) (medcat.components.normalizing.normalizer.CDB attribute) (medcat.components.tagging.tagger.CDB attribute) (medcat.components.types.CDB attribute) (medcat.model_creation.cdb_maker.CDB attribute) (medcat.pipeline.pipeline.CDB attribute) (medcat.trainer.CDB attribute) (medcat.utils.data_utils.CDB attribute) (medcat.utils.legacy.convert_cdb.CDB attribute) (medcat.utils.legacy.convert_deid.CDB attribute) (medcat.utils.legacy.convert_rel_cat.CDB attribute) (medcat.utils.legacy.helpers.CDB attribute) (medcat.utils.regression.targeting.CDB attribute) (medcat.utils.vocab_utils.CDB attribute) token_normalizing (medcat.components.linking.context_based_linker.CoreComponentType attribute) (medcat.components.linking.no_action_linker.CoreComponentType attribute) (medcat.components.linking.two_step_context_based_linker.CoreComponentType attribute) (medcat.components.ner.dict_based_ner.CoreComponentType attribute) (medcat.components.ner.trf.deid.CoreComponentType attribute) (medcat.components.ner.trf.model.CoreComponentType attribute) (medcat.components.ner.trf.transformers_ner.CoreComponentType attribute) (medcat.components.ner.vocab_based_ner.CoreComponentType attribute) (medcat.components.normalizing.normalizer.CoreComponentType attribute) (medcat.components.tagging.tagger.CoreComponentType attribute) (medcat.components.types.CoreComponentType attribute) (medcat.config.config.Components attribute) (medcat.pipeline.pipeline.CoreComponentType attribute) (medcat.trainer.CoreComponentType attribute) (medcat.utils.legacy.conversion_all.CoreComponentType attribute) token_to_id() (medcat.components.addons.meta_cat.data_utils.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer.TokenizerWrapperBPE method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.meta_cat.TokenizerWrapperBase method) (medcat.components.addons.meta_cat.ml_utils.TokenizerWrapperBase method) (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) (medcat.utils.legacy.convert_meta_cat.TokenizerWrapperBase method) tokenize() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) tokenizer (medcat.cat.Pipeline property) (medcat.components.addons.meta_cat.meta_cat.MetaCAT attribute) (medcat.components.addons.meta_cat.MetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.rel_cat.RelData attribute) (medcat.components.addons.relation_extraction.rel_cat.RelExtrBaseComponent attribute) (medcat.components.addons.relation_extraction.rel_dataset.RelData attribute) (medcat.components.ner.dict_based_ner.NER attribute) (medcat.components.ner.vocab_based_ner.NER attribute) (medcat.model_creation.cdb_maker.Pipeline property) (medcat.pipeline.pipeline.DelegatingTokenizer attribute) (medcat.pipeline.pipeline.Pipeline property) (medcat.trainer.Pipeline property) (medcat.utils.legacy.convert_meta_cat.MetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.RelExtrBaseComponent attribute)

tokenizer_class (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) tokenizer_name (medcat.config.config_meta_cat.General attribute) (medcat.config.config_rel_cat.General attribute) tokenizer_other_special_tokens (medcat.config.config_rel_cat.General attribute) TOKENIZER_PREFIX (in module medcat.cat) (in module medcat.tokenizing.spacy_impl.tokenizers) (in module medcat.tokenizing.tokenizers) tokenizer_relation_annotation_special_tokens_tags (medcat.config.config_rel_cat.General attribute) tokenizer_special_tokens (medcat.config.config_rel_cat.General attribute) tokenizer_with_tag (medcat.cat.Pipeline property) (medcat.model_creation.cdb_maker.Pipeline property) (medcat.pipeline.pipeline.Pipeline property) (medcat.trainer.Pipeline property) TokenizerPreprocessor (in module medcat.components.addons.meta_cat.meta_cat) TokenizerWrapperBase (class in medcat.components.addons.meta_cat.data_utils) (class in medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer) (class in medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer) (class in medcat.components.addons.meta_cat.mctokenizers.tokenizers) (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.components.addons.meta_cat.ml_utils) (class in medcat.utils.legacy.convert_meta_cat) TokenizerWrapperBERT (class in medcat.components.addons.meta_cat.mctokenizers.bert_tokenizer) (class in medcat.components.addons.relation_extraction.bert.tokenizer) TokenizerWrapperBPE (class in medcat.components.addons.meta_cat.mctokenizers.bpe_tokenizer) TokenizerWrapperLlama (class in medcat.components.addons.relation_extraction.llama.tokenizer) TokenizerWrapperModernBERT (class in medcat.components.addons.relation_extraction.modernbert.tokenizer) TokenNormalizer (class in medcat.components.normalizing.normalizer) tokens (medcat.cat.Entities attribute) (medcat.cat.OnlyCUIEntities attribute) (medcat.cdb.cdb.NameDescriptor attribute) (medcat.components.ner.trf.model.Entities attribute) (medcat.components.ner.trf.model.OnlyCUIEntities attribute) (medcat.components.ner.trf.transformers_ner.NameDescriptor attribute) (medcat.data.entities.Entities attribute) (medcat.data.entities.OnlyCUIEntities attribute) (medcat.preprocessors.cleaners.NameDescriptor attribute) (medcat.trainer.NameDescriptor attribute) (medcat.utils.legacy.helpers.NameDescriptor attribute) torch_dtype (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) torchscript (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) total (medcat.stats.kfold.PerAnnsFoldCreator attribute) (medcat.stats.kfold.SimpleFoldCreator attribute) Train (class in medcat.config.config_meta_cat) (class in medcat.config.config_rel_cat) train (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT attribute) (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) (medcat.config.config_meta_cat.ConfigMetaCAT attribute) (medcat.config.config_rel_cat.ConfigRelCAT attribute) (medcat.pipeline.pipeline.ConfigMetaCAT attribute) (medcat.pipeline.pipeline.ConfigRelCAT attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT attribute) train() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) (medcat.components.addons.relation_extraction.rel_cat.RelCAT method) (medcat.components.linking.context_based_linker.ContextModel method) (medcat.components.linking.context_based_linker.Linker method) (medcat.components.linking.two_step_context_based_linker.ContextModel method) (medcat.components.linking.two_step_context_based_linker.NormalLinker method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker method) (medcat.components.linking.vector_context_model.ContextModel method) (medcat.components.ner.trf.deid.DeIdModel method) (medcat.components.ner.trf.deid.NerModel method) (medcat.components.ner.trf.model.NerModel method) (medcat.components.ner.trf.transformers_ner.TransformersNERComponent method) (medcat.components.types.TrainableComponent method) (medcat.trainer.TrainableComponent method) (medcat.utils.legacy.convert_rel_cat.RelCAT method) Train.Config (class in medcat.config.config_meta_cat) (class in medcat.config.config_rel_cat) train_count_threshold (medcat.components.linking.vector_context_model.Linking attribute) (medcat.config.config.Linking attribute) train_counter (medcat.components.linking.context_based_linker.Linker attribute) (medcat.components.linking.two_step_context_based_linker.NormalLinker attribute) train_from_json() (medcat.components.addons.meta_cat.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.MetaCAT method) (medcat.utils.legacy.convert_meta_cat.MetaCAT method) train_model() (in module medcat.components.addons.meta_cat.meta_cat) (in module medcat.components.addons.meta_cat.ml_utils) train_new_from_iterator() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) train_raw() (medcat.components.addons.meta_cat.meta_cat.MetaCAT method) (medcat.components.addons.meta_cat.MetaCAT method) (medcat.utils.legacy.convert_meta_cat.MetaCAT method) train_supervised_raw() (medcat.cat.Trainer method) (medcat.trainer.Trainer method) train_time_end (medcat.config.config.TrainingDescriptor attribute) train_time_start (medcat.config.config.TrainingDescriptor attribute) train_unsupervised() (medcat.cat.Trainer method) (medcat.trainer.Trainer method) train_using_negative_sampling() (medcat.components.linking.context_based_linker.ContextModel method) (medcat.components.linking.two_step_context_based_linker.ContextModel method) (medcat.components.linking.vector_context_model.ContextModel method) TrainableComponent (class in medcat.components.types) (class in medcat.trainer) Trainer (class in medcat.cat) (class in medcat.trainer) trainer (medcat.cat.CAT property) (medcat.components.ner.trf.deid.CAT property) (medcat.components.ner.trf.model.CAT property) (medcat.stats.kfold.CAT property) (medcat.stats.stats.CAT property) (medcat.utils.legacy.conversion_all.CAT property) (medcat.utils.legacy.helpers.CAT property) (medcat.utils.regression.checking.CAT property) (medcat.utils.regression.regression_checker.CAT property) training (medcat.components.addons.meta_cat.ml_utils.FocalLoss attribute) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation attribute) (medcat.components.addons.meta_cat.models.LSTM attribute) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel attribute) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel attribute) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel attribute) TrainingDescriptor (class in medcat.config.config) transformers_version (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) TransformersDatasetNER (class in medcat.utils.ner.transformers_ner) TransformersNER (class in medcat.components.ner.trf.deid) (class in medcat.components.ner.trf.model) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.utils.legacy.convert_deid) TransformersNERComponent (class in medcat.components.ner.trf.transformers_ner) TransformersTokenizer (class in medcat.components.ner.trf.tokenizer) (class in medcat.components.ner.trf.transformers_ner) transitive_deps (medcat.config.config.Environment attribute) (medcat.utils.envsnapshot.Environment attribute) TranslationLayer (class in medcat.utils.regression.checking) (class in medcat.utils.regression.regression_checker) (class in medcat.utils.regression.results) (class in medcat.utils.regression.targeting) TrCBCreator (in module medcat.components.ner.trf.transformers_ner) trf_ner (medcat.components.ner.trf.deid.DeIdModel property) (medcat.components.ner.trf.deid.NerModel property) (medcat.components.ner.trf.model.NerModel property) truncate_sequences() (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT method) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama method) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT method) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper method) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper method) truncation_side (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) try_reverse_word_order (medcat.config.config.Ner attribute) tuis (medcat.data.mctexport.MedCATTrainerExportProject attribute) (medcat.stats.kfold.MedCATTrainerExportProject attribute) (medcat.stats.stats.MedCATTrainerExportProject attribute) (medcat.trainer.MedCATTrainerExportProject attribute) (medcat.utils.data_utils.MedCATTrainerExportProject attribute) (medcat.utils.filters.MedCATTrainerExportProject attribute) tuple3_parser() (in module medcat.utils.regression.regression_checker) two_step_config (medcat.components.linking.two_step_context_based_linker.TwoStepLinker property) TwoStepLinker (class in medcat.components.linking.two_step_context_based_linker) TwoStepLinkerConfig (class in medcat.components.linking.two_step_context_based_linker) type() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method) type_cls (medcat.storage.jsonserialiser.DataClassHandler attribute) (medcat.storage.jsonserialiser.DateTimeHandler attribute) (medcat.storage.jsonserialiser.NumpyArrayHandler attribute) (medcat.storage.jsonserialiser.SetHandler attribute) (medcat.storage.jsonserialiser.TypeBasedHandler attribute) (medcat.storage.jsonserialiser.TypeHandler attribute) type_id (medcat.cdb.cdb.TypeInfo attribute) (medcat.cdb.concepts.TypeInfo attribute) (medcat.components.linking.two_step_context_based_linker.TypeInfo attribute) (medcat.utils.legacy.convert_cdb.TypeInfo attribute) type_id2cuis (medcat.utils.regression.checking.TranslationLayer attribute) (medcat.utils.regression.regression_checker.TranslationLayer attribute) (medcat.utils.regression.results.TranslationLayer attribute) (medcat.utils.regression.targeting.TranslationLayer attribute) type_id2info (medcat.cat.CDB attribute) (medcat.cdb.CDB attribute) (medcat.cdb.cdb.CDB attribute) (medcat.components.addons.addons.CDB attribute) (medcat.components.addons.meta_cat.meta_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_cat.CDB attribute) (medcat.components.addons.relation_extraction.rel_dataset.CDB attribute) (medcat.components.linking.context_based_linker.CDB attribute) (medcat.components.linking.no_action_linker.CDB attribute) (medcat.components.linking.two_step_context_based_linker.CDB attribute) (medcat.components.ner.dict_based_ner.CDB attribute) (medcat.components.ner.trf.deid.CDB attribute) (medcat.components.ner.trf.helpers.CDB attribute) (medcat.components.ner.trf.model.CDB attribute) (medcat.components.ner.trf.transformers_ner.CDB attribute) (medcat.components.ner.vocab_based_annotator.CDB attribute) (medcat.components.ner.vocab_based_ner.CDB attribute) (medcat.components.normalizing.normalizer.CDB attribute) (medcat.components.tagging.tagger.CDB attribute) (medcat.components.types.CDB attribute) (medcat.model_creation.cdb_maker.CDB attribute) (medcat.pipeline.pipeline.CDB attribute) (medcat.trainer.CDB attribute) (medcat.utils.data_utils.CDB attribute) (medcat.utils.legacy.convert_cdb.CDB attribute) (medcat.utils.legacy.convert_deid.CDB attribute) (medcat.utils.legacy.convert_rel_cat.CDB attribute) (medcat.utils.legacy.helpers.CDB attribute) (medcat.utils.regression.targeting.CDB attribute) (medcat.utils.vocab_utils.CDB attribute) TYPE_ID_PREFIX (in module medcat.components.linking.two_step_context_based_linker) type_ids (medcat.cat.Entity attribute) (medcat.cdb.cdb.CUIInfo attribute) (medcat.cdb.concepts.CUIInfo attribute) (medcat.components.linking.two_step_context_based_linker.CUIInfo attribute) (medcat.components.linking.vector_context_model.CUIInfo attribute) (medcat.components.ner.trf.deid.Entity attribute) (medcat.data.entities.Entity attribute) (medcat.stats.stats.CUIInfo attribute) (medcat.utils.cdb_state.CUIInfo attribute) (medcat.utils.regression.results.Entity attribute) (medcat.utils.regression.targeting.CUIInfo attribute) type_learning_rate_coefficient (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig attribute) type_name (medcat.storage.jsonserialiser.DataClassHandler attribute) (medcat.storage.jsonserialiser.DateTimeHandler attribute) (medcat.storage.jsonserialiser.NumpyArrayHandler attribute) (medcat.storage.jsonserialiser.SetHandler attribute) (medcat.storage.jsonserialiser.TypeBasedHandler attribute) (medcat.storage.jsonserialiser.TypeHandler attribute) TypeBasedHandler (class in medcat.storage.jsonserialiser) TypeHandler (class in medcat.storage.jsonserialiser) TypeInfo (class in medcat.cdb.cdb) (class in medcat.cdb.concepts) (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.utils.legacy.convert_cdb) TypeRegistry (class in medcat.storage.jsonserialiser)

U

UK_CLIN (medcat.model_creation.preprocess_snomed.SupportedBundles attribute) UK_CLINICAL (medcat.model_creation.preprocess_snomed.SupportedExtension attribute) UK_CLINICAL_REFSET (medcat.model_creation.preprocess_snomed.SupportedExtension attribute) UK_DRUG (medcat.model_creation.preprocess_snomed.SupportedExtension attribute) uk_drug_ext (medcat.model_creation.preprocess_snomed.Snomed attribute) UK_DRUG_EXT (medcat.model_creation.preprocess_snomed.SupportedBundles attribute) UK_EDITION (medcat.model_creation.preprocess_snomed.SupportedExtension attribute) uk_ext (medcat.model_creation.preprocess_snomed.Snomed attribute) UMLS (class in medcat.model_creation.preprocess_umls) umls (in module medcat.model_creation.preprocess_umls) unitvec() (in module medcat.components.linking.vector_context_model) (in module medcat.utils.matutils) unknown() (medcat.utils.regression.checking.MetaData class method) UNKNOWN_METADATA (in module medcat.utils.regression.checking) UnknownTokenVersion UnknownTokenVersion.__cause__ (class in medcat.preprocessors.cleaners) UnknownTokenVersion.__context__ (class in medcat.preprocessors.cleaners) UnknownTokenVersion.__suppress_context__ (class in medcat.preprocessors.cleaners) UnknownTokenVersion.__traceback__ (class in medcat.preprocessors.cleaners) UnknownTokenVersion.args (class in medcat.preprocessors.cleaners) UnkownAddonConfig UnkownAddonConfig.__cause__ (class in medcat.pipeline.pipeline) UnkownAddonConfig.__context__ (class in medcat.pipeline.pipeline) UnkownAddonConfig.__suppress_context__ (class in medcat.pipeline.pipeline) UnkownAddonConfig.__traceback__ (class in medcat.pipeline.pipeline) UnkownAddonConfig.args (class in medcat.pipeline.pipeline) UnkownSnomedReleaseException UnkownSnomedReleaseException.__cause__ (class in medcat.model_creation.preprocess_snomed) UnkownSnomedReleaseException.__context__ (class in medcat.model_creation.preprocess_snomed) UnkownSnomedReleaseException.__suppress_context__ (class in medcat.model_creation.preprocess_snomed) UnkownSnomedReleaseException.__traceback__ (class in medcat.model_creation.preprocess_snomed) UnkownSnomedReleaseException.args (class in medcat.model_creation.preprocess_snomed) unlink_concept_name() (medcat.cat.Trainer method) (medcat.trainer.Trainer method) unpack() (in module medcat.utils.legacy.conversion_all) unregister_all_components() (medcat.components.addons.addons.Registry method) (medcat.components.types.Registry method) (medcat.tokenizing.tokenizers.Registry method) (medcat.utils.registry.Registry method) unregister_component() (medcat.components.addons.addons.Registry method) (medcat.components.types.Registry method) (medcat.tokenizing.tokenizers.Registry method) (medcat.utils.registry.Registry method) UnregisteredDataPathException, [1], [2] UnregisteredDataPathException.__cause__ (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokens) (class in medcat.tokenizing.tokens) UnregisteredDataPathException.__context__ (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokens) (class in medcat.tokenizing.tokens) UnregisteredDataPathException.__suppress_context__ (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokens) (class in medcat.tokenizing.tokens) UnregisteredDataPathException.__traceback__ (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokens) (class in medcat.tokenizing.tokens) UnregisteredDataPathException.args (class in medcat.tokenizing.regex_impl.tokenizer) (class in medcat.tokenizing.spacy_impl.tokens) (class in medcat.tokenizing.tokens) unsup_trained (medcat.config.config.ModelMeta attribute) (medcat.utils.cdb_state.ModelMeta attribute) unwrap() (medcat.stats.stats.StatsBuilder method) update() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.Hasher method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.Hasher method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.Hasher method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.PerEntityWeights method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.components.ner.trf.transformers_ner.Hasher method) (medcat.config.config_transformers_ner.Hasher method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.hasher.Hasher method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) update_bytes() (medcat.cat.Hasher method) (medcat.cdb.cdb.Hasher method) (medcat.components.addons.meta_cat.meta_cat.Hasher method) (medcat.components.ner.trf.transformers_ner.Hasher method) (medcat.config.config_transformers_ner.Hasher method) (medcat.utils.hasher.Hasher method) update_context_vectors() (in module medcat.components.linking.vector_context_model) update_counts() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) update_forward_refs() (medcat.cat.Config class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.types.ComponentConfig class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.Environment class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.stats.kfold.PerCUIMetrics class method) (medcat.stats.stats.LinkingFilters class method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.regression.checking.FinalTarget class method) (medcat.utils.regression.checking.MetaData class method) (medcat.utils.regression.checking.MultiDescriptor class method) (medcat.utils.regression.checking.OptionSet class method) (medcat.utils.regression.checking.RegressionCase class method) (medcat.utils.regression.checking.ResultDescriptor class method) (medcat.utils.regression.checking.TargetedPhraseChanger class method) (medcat.utils.regression.results.FinalTarget class method) (medcat.utils.regression.results.MultiDescriptor class method) (medcat.utils.regression.results.ResultDescriptor class method) (medcat.utils.regression.results.SingleResultDescriptor class method) (medcat.utils.regression.targeting.FinalTarget class method) (medcat.utils.regression.targeting.OptionSet class method) (medcat.utils.regression.targeting.PhraseChanger class method) (medcat.utils.regression.targeting.TargetedPhraseChanger class method) (medcat.utils.regression.targeting.TargetPlaceholder class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method)

update_from_string() (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig method) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig method) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig method) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig method) update_names() (in module medcat.utils.legacy.convert_cdb) upper_case_limit_len (medcat.config.config.Ner attribute) usage_monitor (medcat.cat.CAT attribute) (medcat.components.ner.trf.deid.CAT attribute) (medcat.components.ner.trf.model.CAT attribute) (medcat.config.config.General attribute) (medcat.stats.kfold.CAT attribute) (medcat.stats.stats.CAT attribute) (medcat.trainer.General attribute) (medcat.utils.legacy.conversion_all.CAT attribute) (medcat.utils.legacy.helpers.CAT attribute) (medcat.utils.regression.checking.CAT attribute) (medcat.utils.regression.regression_checker.CAT attribute) UsageMonitor (class in medcat.cat) (class in medcat.config.config) (class in medcat.utils.usage_monitoring) UsageMonitorConfig (class in medcat.utils.usage_monitoring) use_bfloat16 (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig attribute) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig attribute) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig attribute) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig attribute) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig attribute) use_only_existing_name (medcat.utils.regression.checking.MedCATTrainerExportConverter attribute) (medcat.utils.regression.utils.MedCATTrainerExportConverter attribute) use_overlaps (medcat.stats.stats.StatsBuilder attribute) use_project_filters (medcat.stats.stats.StatsBuilder attribute) use_return_dict (medcat.components.addons.relation_extraction.base_component.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.bert.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.bert.config.RelExtrBertConfig property) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertConfig property) (medcat.components.addons.relation_extraction.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.llama.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.llama.config.RelExtrLlamaConfig property) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaConfig property) (medcat.components.addons.relation_extraction.models.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrBaseConfig property) (medcat.components.addons.relation_extraction.modernbert.config.RelExtrModernBertConfig property) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertConfig property)

V

validate() (medcat.cat.Config class method) (medcat.cdb.cdb.Config class method) (medcat.components.addons.addons.ComponentConfig class method) (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.meta_cat.ComponentConfig class method) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT class method) (medcat.components.addons.meta_cat.models.ConfigMetaCAT class method) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.models.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_cat.ComponentConfig class method) (medcat.components.addons.relation_extraction.rel_cat.Config class method) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT class method) (medcat.components.addons.relation_extraction.rel_dataset.CoreConfig class method) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT class method) (medcat.components.linking.context_based_linker.ComponentConfig class method) (medcat.components.linking.context_based_linker.Config class method) (medcat.components.linking.no_action_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.ComponentConfig class method) (medcat.components.linking.two_step_context_based_linker.Config class method) (medcat.components.linking.two_step_context_based_linker.SerialisableBaseModel class method) (medcat.components.linking.two_step_context_based_linker.TwoStepLinkerConfig class method) (medcat.components.linking.vector_context_model.Linking class method) (medcat.components.ner.dict_based_ner.ComponentConfig class method) (medcat.components.ner.trf.deid.ConfigTransformersNER class method) (medcat.components.ner.trf.helpers.Config class method) (medcat.components.ner.trf.model.Config class method) (medcat.components.ner.trf.transformers_ner.ComponentConfig class method) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER class method) (medcat.components.ner.vocab_based_annotator.Config class method) (medcat.components.ner.vocab_based_ner.ComponentConfig class method) (medcat.components.normalizing.normalizer.ComponentConfig class method) (medcat.components.normalizing.normalizer.Config class method) (medcat.components.tagging.tagger.ComponentConfig class method) (medcat.components.tagging.tagger.Preprocessing class method) (medcat.components.types.ComponentConfig class method) (medcat.config.Config class method) (medcat.config.config.AnnotationOutput class method) (medcat.config.config.CDBMaker class method) (medcat.config.config.ComponentConfig class method) (medcat.config.config.Components class method) (medcat.config.config.Config class method) (medcat.config.config.DirtiableBaseModel class method) (medcat.config.config.Environment class method) (medcat.config.config.General class method) (medcat.config.config.Linking class method) (medcat.config.config.LinkingFilters class method) (medcat.config.config.ModelMeta class method) (medcat.config.config.Ner class method) (medcat.config.config.NLPConfig class method) (medcat.config.config.Preprocessing class method) (medcat.config.config.SerialisableBaseModel class method) (medcat.config.config.TrainingDescriptor class method) (medcat.config.config.UsageMonitor class method) (medcat.config.config_meta_cat.ComponentConfig class method) (medcat.config.config_meta_cat.ConfigMetaCAT class method) (medcat.config.config_meta_cat.DirtiableBaseModel class method) (medcat.config.config_meta_cat.General class method) (medcat.config.config_meta_cat.Model class method) (medcat.config.config_meta_cat.Train class method) (medcat.config.config_rel_cat.ComponentConfig class method) (medcat.config.config_rel_cat.ConfigRelCAT class method) (medcat.config.config_rel_cat.General class method) (medcat.config.config_rel_cat.Model class method) (medcat.config.config_rel_cat.SerialisableBaseModel class method) (medcat.config.config_rel_cat.Train class method) (medcat.config.config_transformers_ner.ConfigTransformersNER class method) (medcat.config.config_transformers_ner.General class method) (medcat.config.config_transformers_ner.SerialisableBaseModel class method) (medcat.model_creation.cdb_maker.Config class method) (medcat.pipeline.pipeline.ComponentConfig class method) (medcat.pipeline.pipeline.Config class method) (medcat.pipeline.pipeline.ConfigMetaCAT class method) (medcat.pipeline.pipeline.ConfigRelCAT class method) (medcat.stats.kfold.PerCUIMetrics class method) (medcat.stats.stats.LinkingFilters class method) (medcat.tokenizing.regex_impl.tokenizer.Config class method) (medcat.tokenizing.spacy_impl.tokenizers.Config class method) (medcat.tokenizing.tokenizers.Config class method) (medcat.trainer.CDBMaker class method) (medcat.trainer.General class method) (medcat.trainer.Preprocessing class method) (medcat.utils.cdb_state.ModelMeta class method) (medcat.utils.envsnapshot.Environment class method) (medcat.utils.filters.LinkingFilters class method) (medcat.utils.legacy.convert_cdb.Config class method) (medcat.utils.legacy.convert_config.Config class method) (medcat.utils.legacy.convert_deid.ConfigTransformersNER class method) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT class method) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT class method) (medcat.utils.regression.checking.FinalTarget class method) (medcat.utils.regression.checking.MetaData class method) (medcat.utils.regression.checking.MultiDescriptor class method) (medcat.utils.regression.checking.OptionSet class method) (medcat.utils.regression.checking.RegressionCase class method) (medcat.utils.regression.checking.ResultDescriptor class method) (medcat.utils.regression.checking.TargetedPhraseChanger class method) (medcat.utils.regression.results.FinalTarget class method) (medcat.utils.regression.results.MultiDescriptor class method) (medcat.utils.regression.results.ResultDescriptor class method) (medcat.utils.regression.results.SingleResultDescriptor class method) (medcat.utils.regression.targeting.FinalTarget class method) (medcat.utils.regression.targeting.OptionSet class method) (medcat.utils.regression.targeting.PhraseChanger class method) (medcat.utils.regression.targeting.TargetedPhraseChanger class method) (medcat.utils.regression.targeting.TargetPlaceholder class method) (medcat.utils.usage_monitoring.UsageMonitorConfig class method) validate_assignment (medcat.components.addons.meta_cat.mctokenizers.tokenizers.ConfigMetaCAT.Config attribute) (medcat.components.addons.meta_cat.meta_cat.ConfigMetaCAT.Config attribute) (medcat.components.addons.meta_cat.ml_utils.ConfigMetaCAT.Config attribute) (medcat.components.addons.meta_cat.models.ConfigMetaCAT.Config attribute) (medcat.components.addons.relation_extraction.base_component.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.bert.config.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.bert.model.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.config.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.llama.config.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.llama.model.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.ml_utils.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.models.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.modernbert.config.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.modernbert.model.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.rel_cat.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.rel_dataset.ConfigRelCAT.Config attribute) (medcat.components.addons.relation_extraction.tokenizer.ConfigRelCAT.Config attribute) (medcat.components.ner.trf.deid.ConfigTransformersNER.Config attribute) (medcat.components.ner.trf.transformers_ner.ConfigTransformersNER.Config attribute) (medcat.config.config.NLPConfig.Config attribute) (medcat.config.config_meta_cat.ConfigMetaCAT.Config attribute) (medcat.config.config_meta_cat.General.Config attribute) (medcat.config.config_meta_cat.Model.Config attribute) (medcat.config.config_meta_cat.Train.Config attribute) (medcat.config.config_rel_cat.ConfigRelCAT.Config attribute) (medcat.config.config_rel_cat.Model.Config attribute) (medcat.config.config_rel_cat.Train.Config attribute) (medcat.config.config_transformers_ner.ConfigTransformersNER.Config attribute) (medcat.config.config_transformers_ner.General.Config attribute) (medcat.pipeline.pipeline.ConfigMetaCAT.Config attribute) (medcat.pipeline.pipeline.ConfigRelCAT.Config attribute) (medcat.utils.legacy.convert_deid.ConfigTransformersNER.Config attribute) (medcat.utils.legacy.convert_meta_cat.ConfigMetaCAT.Config attribute) (medcat.utils.legacy.convert_rel_cat.ConfigRelCAT.Config attribute) validated (medcat.data.mctexport.MedCATTrainerExportAnnotation attribute) (medcat.stats.kfold.MedCATTrainerExportAnnotation attribute) (medcat.stats.stats.MedCATTrainerExportAnnotation attribute) vals (medcat.stats.kfold.PerCUIMetrics attribute) value (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument attribute) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue attribute) (medcat.components.addons.meta_cat.MetaAnnotationValue attribute) (medcat.data.entities.MetaAnnotation attribute) (medcat.data.mctexport.MedCATTrainerExportAnnotation attribute) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired attribute) (medcat.stats.kfold.MedCATTrainerExportAnnotation attribute) (medcat.stats.stats.MedCATTrainerExportAnnotation attribute) value() (medcat.cat.AvailableSerialisers method) (medcat.cdb.cdb.AvailableSerialisers method) (medcat.components.addons.meta_cat.meta_cat.SerialisingStrategy method) (medcat.components.addons.relation_extraction.rel_cat.SerialisingStrategy method) (medcat.components.linking.context_based_linker.CoreComponentType method) (medcat.components.linking.no_action_linker.CoreComponentType method) (medcat.components.linking.two_step_context_based_linker.CoreComponentType method) (medcat.components.ner.dict_based_ner.CoreComponentType method) (medcat.components.ner.trf.deid.CoreComponentType method) (medcat.components.ner.trf.model.CoreComponentType method) (medcat.components.ner.trf.transformers_ner.AvailableSerialisers method) (medcat.components.ner.trf.transformers_ner.CoreComponentType method) (medcat.components.ner.trf.transformers_ner.SerialisingStrategy method) (medcat.components.ner.vocab_based_ner.CoreComponentType method) (medcat.components.normalizing.normalizer.CoreComponentType method) (medcat.components.tagging.tagger.CoreComponentType method) (medcat.components.types.CoreComponentType method) (medcat.config.config.SerialisingStrategy method) (medcat.config.config_meta_cat.AvailableSerialisers method) (medcat.model_creation.preprocess_snomed.RefSetFileType method) (medcat.model_creation.preprocess_snomed.SupportedBundles method) (medcat.model_creation.preprocess_snomed.SupportedExtension method) (medcat.pipeline.pipeline.AvailableSerialisers method) (medcat.pipeline.pipeline.CoreComponentType method) (medcat.stats.kfold.SplitType method) (medcat.storage.jsonserialiser.AvailableSerialisers method) (medcat.storage.serialisables.SerialisingStrategy method) (medcat.storage.serialisers.AvailableSerialisers method) (medcat.trainer.CoreComponentType method) (medcat.utils.legacy.conversion_all.AvailableSerialisers method) (medcat.utils.legacy.conversion_all.CoreComponentType method) (medcat.utils.legacy.legacy_converter.AvailableSerialisers method) (medcat.utils.regression.checking.Finding method) (medcat.utils.regression.regression_checker.Finding method) (medcat.utils.regression.regression_checker.Strictness method) (medcat.utils.regression.results.Finding method) (medcat.utils.regression.results.Strictness method) (medcat.vocab.AvailableSerialisers method)

values() (medcat.cat.Entities method) (medcat.cat.Entity method) (medcat.cat.OnlyCUIEntities method) (medcat.cdb.cdb.CUIInfo method) (medcat.cdb.cdb.NameInfo method) (medcat.cdb.concepts.CUIInfo method) (medcat.cdb.concepts.NameInfo method) (medcat.components.addons.meta_cat.meta_cat.MedCATTrainerExportDocument method) (medcat.components.addons.meta_cat.meta_cat.MetaAnnotationValue method) (medcat.components.addons.meta_cat.MetaAnnotationValue method) (medcat.components.addons.relation_extraction.rel_dataset.MedCATTrainerExportDocument method) (medcat.components.linking.context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.CUIInfo method) (medcat.components.linking.two_step_context_based_linker.PerDocumentTokenCache method) (medcat.components.linking.two_step_context_based_linker.PerEntityWeights method) (medcat.components.linking.vector_context_model.CUIInfo method) (medcat.components.linking.vector_context_model.NameInfo method) (medcat.components.linking.vector_context_model.PerDocumentTokenCache method) (medcat.components.ner.trf.deid.Entity method) (medcat.components.ner.trf.model.Entities method) (medcat.components.ner.trf.model.OnlyCUIEntities method) (medcat.data.entities.Entities method) (medcat.data.entities.Entity method) (medcat.data.entities.MetaAnnotation method) (medcat.data.entities.OnlyCUIEntities method) (medcat.data.mctexport.MedCATTrainerExport method) (medcat.data.mctexport.MedCATTrainerExportAnnotation method) (medcat.data.mctexport.MedCATTrainerExportAnnotationRequired method) (medcat.data.mctexport.MedCATTrainerExportDocument method) (medcat.data.mctexport.MedCATTrainerExportProject method) (medcat.stats.kfold.MedCATTrainerExport method) (medcat.stats.kfold.MedCATTrainerExportAnnotation method) (medcat.stats.kfold.MedCATTrainerExportDocument method) (medcat.stats.kfold.MedCATTrainerExportProject method) (medcat.stats.stats.CUIInfo method) (medcat.stats.stats.MedCATTrainerExport method) (medcat.stats.stats.MedCATTrainerExportAnnotation method) (medcat.stats.stats.MedCATTrainerExportDocument method) (medcat.stats.stats.MedCATTrainerExportProject method) (medcat.trainer.MedCATTrainerExport method) (medcat.trainer.MedCATTrainerExportDocument method) (medcat.trainer.MedCATTrainerExportProject method) (medcat.utils.cdb_state.CUIInfo method) (medcat.utils.cdb_state.NameInfo method) (medcat.utils.data_utils.MedCATTrainerExport method) (medcat.utils.data_utils.MedCATTrainerExportDocument method) (medcat.utils.data_utils.MedCATTrainerExportProject method) (medcat.utils.filters.MedCATTrainerExportProject method) (medcat.utils.import_utils.KeyDefaultDict method) (medcat.utils.regression.results.Entity method) (medcat.utils.regression.targeting.CUIInfo method) (medcat.utils.regression.targeting.NameInfo method) (medcat.utils.regression.utils.MedCATTrainerExport method) (medcat.utils.regression.utils.MedCATTrainerExportDocument method) vec() (medcat.cat.Vocab method) (medcat.components.addons.addons.Vocab method) (medcat.components.addons.meta_cat.meta_cat.Vocab method) (medcat.components.addons.relation_extraction.rel_cat.Vocab method) (medcat.components.linking.context_based_linker.Vocab method) (medcat.components.linking.no_action_linker.Vocab method) (medcat.components.linking.two_step_context_based_linker.Vocab method) (medcat.components.linking.vector_context_model.Vocab method) (medcat.components.ner.dict_based_ner.Vocab method) (medcat.components.ner.trf.transformers_ner.Vocab method) (medcat.components.ner.vocab_based_ner.Vocab method) (medcat.components.normalizing.normalizer.Vocab method) (medcat.components.tagging.tagger.Vocab method) (medcat.components.types.Vocab method) (medcat.pipeline.pipeline.Vocab method) (medcat.utils.legacy.convert_vocab.Vocab method) (medcat.utils.vocab_utils.Vocab method) (medcat.vocab.Vocab method) vec_index2word (medcat.cat.Vocab attribute) (medcat.components.addons.addons.Vocab attribute) (medcat.components.addons.meta_cat.meta_cat.Vocab attribute) (medcat.components.addons.relation_extraction.rel_cat.Vocab attribute) (medcat.components.linking.context_based_linker.Vocab attribute) (medcat.components.linking.no_action_linker.Vocab attribute) (medcat.components.linking.two_step_context_based_linker.Vocab attribute) (medcat.components.linking.vector_context_model.Vocab attribute) (medcat.components.ner.dict_based_ner.Vocab attribute) (medcat.components.ner.trf.transformers_ner.Vocab attribute) (medcat.components.ner.vocab_based_ner.Vocab attribute) (medcat.components.normalizing.normalizer.Vocab attribute) (medcat.components.tagging.tagger.Vocab attribute) (medcat.components.types.Vocab attribute) (medcat.pipeline.pipeline.Vocab attribute) (medcat.utils.legacy.convert_vocab.Vocab attribute) (medcat.utils.vocab_utils.Vocab attribute) (medcat.vocab.Vocab attribute) verbose (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) verbose_metrics (medcat.config.config_transformers_ner.General attribute) Vocab (class in medcat.cat) (class in medcat.components.addons.addons) (class in medcat.components.addons.meta_cat.meta_cat) (class in medcat.components.addons.relation_extraction.rel_cat) (class in medcat.components.linking.context_based_linker) (class in medcat.components.linking.no_action_linker) (class in medcat.components.linking.two_step_context_based_linker) (class in medcat.components.linking.vector_context_model) (class in medcat.components.ner.dict_based_ner) (class in medcat.components.ner.trf.transformers_ner) (class in medcat.components.ner.vocab_based_ner) (class in medcat.components.normalizing.normalizer) (class in medcat.components.tagging.tagger) (class in medcat.components.types) (class in medcat.pipeline.pipeline) (class in medcat.utils.legacy.convert_vocab) (class in medcat.utils.vocab_utils) (class in medcat.vocab) vocab (medcat.cat.CAT attribute) (medcat.cat.Pipeline attribute) (medcat.cat.Vocab attribute) (medcat.components.addons.addons.Vocab attribute) (medcat.components.addons.meta_cat.meta_cat.Vocab attribute) (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama property) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT property) (medcat.components.addons.relation_extraction.rel_cat.Vocab attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper property) (medcat.components.linking.context_based_linker.ContextModel attribute) (medcat.components.linking.context_based_linker.Linker attribute) (medcat.components.linking.context_based_linker.Vocab attribute) (medcat.components.linking.no_action_linker.Vocab attribute) (medcat.components.linking.two_step_context_based_linker.ContextModel attribute) (medcat.components.linking.two_step_context_based_linker.NormalLinker attribute) (medcat.components.linking.two_step_context_based_linker.TwoStepLinker attribute) (medcat.components.linking.two_step_context_based_linker.Vocab attribute) (medcat.components.linking.vector_context_model.ContextModel attribute) (medcat.components.linking.vector_context_model.Vocab attribute) (medcat.components.ner.dict_based_ner.Vocab attribute) (medcat.components.ner.trf.deid.CAT attribute) (medcat.components.ner.trf.model.CAT attribute) (medcat.components.ner.trf.transformers_ner.Vocab attribute) (medcat.components.ner.vocab_based_ner.Vocab attribute) (medcat.components.normalizing.normalizer.BasicSpellChecker attribute) (medcat.components.normalizing.normalizer.Vocab attribute) (medcat.components.tagging.tagger.Vocab attribute) (medcat.components.types.Vocab attribute) (medcat.model_creation.cdb_maker.Pipeline attribute) (medcat.pipeline.pipeline.Pipeline attribute) (medcat.pipeline.pipeline.Vocab attribute) (medcat.stats.kfold.CAT attribute) (medcat.stats.stats.CAT attribute) (medcat.trainer.Pipeline attribute) (medcat.utils.legacy.conversion_all.CAT attribute) (medcat.utils.legacy.convert_vocab.Vocab attribute) (medcat.utils.legacy.helpers.CAT attribute) (medcat.utils.regression.checking.BasicSpellChecker attribute) (medcat.utils.regression.checking.CAT attribute) (medcat.utils.regression.regression_checker.CAT attribute) (medcat.utils.vocab_utils.Vocab attribute) (medcat.vocab.Vocab attribute) vocab_files_names (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama attribute) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT attribute) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper attribute) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper attribute) vocab_name (medcat.utils.legacy.conversion_all.Converter attribute) (medcat.utils.legacy.legacy_converter.Converter attribute) vocab_size (medcat.components.addons.relation_extraction.base_component.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.bert.tokenizer.TokenizerWrapperBERT property) (medcat.components.addons.relation_extraction.llama.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.llama.tokenizer.TokenizerWrapperLlama property) (medcat.components.addons.relation_extraction.ml_utils.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.modernbert.tokenizer.TokenizerWrapperModernBERT property) (medcat.components.addons.relation_extraction.rel_dataset.BaseTokenizerWrapper property) (medcat.components.addons.relation_extraction.tokenizer.BaseTokenizerWrapper property) (medcat.config.config_meta_cat.General attribute) (medcat.config.config_rel_cat.General attribute)

W

weighted_average_function (medcat.components.linking.context_based_linker.ContextModel attribute) (medcat.components.linking.two_step_context_based_linker.ContextModel attribute) (medcat.components.linking.vector_context_model.ContextModel attribute) weighted_average_function() (medcat.cat.CDB method) (medcat.cdb.CDB method) (medcat.cdb.cdb.CDB method) (medcat.components.addons.addons.CDB method) (medcat.components.addons.meta_cat.meta_cat.CDB method) (medcat.components.addons.relation_extraction.rel_cat.CDB method) (medcat.components.addons.relation_extraction.rel_dataset.CDB method) (medcat.components.linking.context_based_linker.CDB method) (medcat.components.linking.no_action_linker.CDB method) (medcat.components.linking.two_step_context_based_linker.CDB method) (medcat.components.ner.dict_based_ner.CDB method) (medcat.components.ner.trf.deid.CDB method) (medcat.components.ner.trf.helpers.CDB method) (medcat.components.ner.trf.model.CDB method) (medcat.components.ner.trf.transformers_ner.CDB method) (medcat.components.ner.vocab_based_annotator.CDB method) (medcat.components.ner.vocab_based_ner.CDB method) (medcat.components.normalizing.normalizer.CDB method) (medcat.components.tagging.tagger.CDB method) (medcat.components.types.CDB method) (medcat.model_creation.cdb_maker.CDB method) (medcat.pipeline.pipeline.CDB method) (medcat.trainer.CDB method) (medcat.utils.data_utils.CDB method) (medcat.utils.legacy.convert_cdb.CDB method) (medcat.utils.legacy.convert_deid.CDB method) (medcat.utils.legacy.convert_rel_cat.CDB method) (medcat.utils.legacy.helpers.CDB method) (medcat.utils.regression.targeting.CDB method) (medcat.utils.vocab_utils.CDB method) WeightedDocumentsCreator (class in medcat.stats.kfold) weights (medcat.stats.kfold.PerCUIMetrics attribute) whitespace (medcat.utils.regression.checking.TranslationLayer attribute) (medcat.utils.regression.regression_checker.TranslationLayer attribute) (medcat.utils.regression.results.TranslationLayer attribute) (medcat.utils.regression.targeting.TranslationLayer attribute) window_size (medcat.config.config_rel_cat.General attribute) with_traceback() (medcat.components.addons.meta_cat.meta_cat.MisconfiguredMetaCATException method) (medcat.components.types.MedCATRegistryException method) (medcat.config.config.IncorrectConfigValues method) (medcat.model_creation.preprocess_snomed.UnkownSnomedReleaseException method) (medcat.pipeline.pipeline.IncorrectAddonLoaded method) (medcat.pipeline.pipeline.IncorrectArgumentsForComponent method) (medcat.pipeline.pipeline.IncorrectArgumentsForTokenizer method) (medcat.pipeline.pipeline.IncorrectCoreComponent method) (medcat.pipeline.pipeline.IncorrectFolderUponLoad method) (medcat.pipeline.pipeline.UnkownAddonConfig method) (medcat.preprocessors.cleaners.UnknownTokenVersion method) (medcat.storage.schema.IllegalSchemaException method) (medcat.storage.serialisers.IllegalSchemaException method) (medcat.tokenizing.regex_impl.tokenizer.UnregisteredDataPathException method) (medcat.tokenizing.spacy_impl.tokens.UnregisteredDataPathException method) (medcat.tokenizing.tokens.UnregisteredDataPathException method) (medcat.utils.config_utils.IllegalConfigPathException method) (medcat.utils.import_utils.IncorrectExtraComponent method) (medcat.utils.import_utils.MissingDependenciesError method) (medcat.utils.registry.MedCATRegistryException method) (medcat.utils.regression.checking.MalformedRegressionCaseException method) (medcat.utils.regression.results.MalformedFinding method) (medcat.utils.regression.targeting.ProblematicOptionSetException method) (medcat.utils.regression.utils.IncompatiblePhraseException method)

word_skipper (medcat.components.tagging.tagger.TagAndSkipTagger attribute) WordDescriptor (in module medcat.vocab) words_to_skip (medcat.components.tagging.tagger.Preprocessing attribute) (medcat.config.config.Preprocessing attribute) (medcat.trainer.Preprocessing attribute) workers (medcat.config.config.General attribute) (medcat.trainer.General attribute) workers() (in module medcat.config.config) (in module medcat.utils.defaults) write_to() (medcat.cat.AvailableSerialisers method) (medcat.cdb.cdb.AvailableSerialisers method) (medcat.components.ner.trf.transformers_ner.AvailableSerialisers method) (medcat.config.config_meta_cat.AvailableSerialisers method) (medcat.pipeline.pipeline.AvailableSerialisers method) (medcat.storage.jsonserialiser.AvailableSerialisers method) (medcat.storage.serialisers.AvailableSerialisers method) (medcat.utils.legacy.conversion_all.AvailableSerialisers method) (medcat.utils.legacy.legacy_converter.AvailableSerialisers method) (medcat.vocab.AvailableSerialisers method)

X

xpu() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method)

Z

zero_grad() (medcat.components.addons.meta_cat.ml_utils.FocalLoss method) (medcat.components.addons.meta_cat.models.BertForMetaAnnotation method) (medcat.components.addons.meta_cat.models.LSTM method) (medcat.components.addons.relation_extraction.base_component.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.bert.model.RelExtrBertModel method) (medcat.components.addons.relation_extraction.llama.model.LlamaPooler method) (medcat.components.addons.relation_extraction.llama.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.llama.model.RelExtrLlamaModel method) (medcat.components.addons.relation_extraction.models.BaseModelBluePrint method) (medcat.components.addons.relation_extraction.models.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrBaseModel method) (medcat.components.addons.relation_extraction.modernbert.model.RelExtrModernBertModel method)