Index

_

__call__() (AgriNer method) (BioassaysSemantifier method) (CSNer method) (DeepResearch method) (PredicatesRecommender method) (ResearchFieldClassifier method) (TdmExtractor method) (TemplatesRecommender method)

A

AgriNer (class in orkgnlp.annotation.agriner.annotator)

AgriNerDecoder (class in orkgnlp.annotation.agriner.decoder)

B

BioassaysSemantifier (class in orkgnlp.clustering.bioassays.semantifier)

BioassaysSemantifierDecoder (class in orkgnlp.clustering.bioassays.decoder)

C

clear() (StrictDict method) copy() (StrictDict method)

CSNer (class in orkgnlp.annotation.csner.annotator) CSNerDecoder (class in orkgnlp.annotation.csner.decoder) CSNerEncoder (class in orkgnlp.annotation.csner.encoder)

D

decode() (AgriNerDecoder method) (BioassaysSemantifierDecoder method) (CSNerDecoder method) (ORKGNLPBaseDecoder method) (PredicatesRecommenderDecoder method) (ResearchFieldClassifierDecoder method) (TdmExtractorDecoder method) (TemplatesRecommenderDecoder method)

DeepResearch (class in orkgnlp.deepresearch.deepresearch) DeepResearchEncoder (class in orkgnlp.deepresearch.encoder) DeepResearchRunner (class in orkgnlp.deepresearch.runner) download() (in module orkgnlp.common.tools.downloader)

E

encode() (CSNerEncoder method) (DeepResearchEncoder method) (ORKGNLPBaseEncoder method) (ResearchFieldClassifierEncoder method) (TdmExtractorEncoder method) (TemplatesRecommenderEncoder method) (TfidfKmeansEncoder method) (TransformerKmeansEncoder method)

F

FirecrawlApp (class in orkgnlp.deepresearch.client)

fromkeys() (StrictDict class method)

G

generate_completion() (ModelConfig method)

get() (StrictDict method) get_model_config() (ModelConfig method)

I

items() (StrictDict method)

K

keys() (StrictDict method)

L

load() (in module orkgnlp.common.tools.loader)

load_torch_jit() (in module orkgnlp.common.util.io) load_transformers_pretrained() (in module orkgnlp.common.util.io)

M

ModelConfig (class in orkgnlp.deepresearch.config) module orkgnlp orkgnlp.annotation orkgnlp.annotation.agriner orkgnlp.annotation.agriner.annotator orkgnlp.annotation.agriner.decoder orkgnlp.annotation.csner orkgnlp.annotation.csner.annotator orkgnlp.annotation.csner.decoder orkgnlp.annotation.csner.encoder orkgnlp.annotation.rfclf orkgnlp.annotation.rfclf.classifier orkgnlp.annotation.rfclf.decoder orkgnlp.annotation.rfclf.encoder orkgnlp.annotation.tdm orkgnlp.annotation.tdm.decoder orkgnlp.annotation.tdm.encoder orkgnlp.annotation.tdm.extractor orkgnlp.clustering orkgnlp.clustering.bioassays orkgnlp.clustering.bioassays.decoder orkgnlp.clustering.bioassays.semantifier orkgnlp.clustering.encoders orkgnlp.clustering.predicates orkgnlp.clustering.predicates.decoder orkgnlp.clustering.predicates.recommender orkgnlp.common orkgnlp.common.config orkgnlp.common.config.context orkgnlp.common.service orkgnlp.common.service.base orkgnlp.common.service.runners orkgnlp.common.tools orkgnlp.common.tools.downloader orkgnlp.common.tools.loader orkgnlp.common.util orkgnlp.common.util.datastructure orkgnlp.common.util.decorators orkgnlp.common.util.exceptions orkgnlp.common.util.io orkgnlp.common.util.text orkgnlp.deepresearch orkgnlp.deepresearch.client orkgnlp.deepresearch.config orkgnlp.deepresearch.deepresearch orkgnlp.deepresearch.encoder orkgnlp.deepresearch.runner orkgnlp.deepresearch.textsplitter orkgnlp.nli orkgnlp.nli.templates orkgnlp.nli.templates.decoder orkgnlp.nli.templates.encoder orkgnlp.nli.templates.recommender

O

ORKGAskApp (class in orkgnlp.deepresearch.client) orkgnlp module orkgnlp.annotation module orkgnlp.annotation.agriner module orkgnlp.annotation.agriner.annotator module orkgnlp.annotation.agriner.decoder module orkgnlp.annotation.csner module orkgnlp.annotation.csner.annotator module orkgnlp.annotation.csner.decoder module orkgnlp.annotation.csner.encoder module orkgnlp.annotation.rfclf module orkgnlp.annotation.rfclf.classifier module orkgnlp.annotation.rfclf.decoder module orkgnlp.annotation.rfclf.encoder module orkgnlp.annotation.tdm module orkgnlp.annotation.tdm.decoder module orkgnlp.annotation.tdm.encoder module orkgnlp.annotation.tdm.extractor module orkgnlp.clustering module orkgnlp.clustering.bioassays module orkgnlp.clustering.bioassays.decoder module orkgnlp.clustering.bioassays.semantifier module orkgnlp.clustering.encoders module orkgnlp.clustering.predicates module orkgnlp.clustering.predicates.decoder module orkgnlp.clustering.predicates.recommender module orkgnlp.common module orkgnlp.common.config module orkgnlp.common.config.context module

orkgnlp.common.service module orkgnlp.common.service.base module orkgnlp.common.service.runners module orkgnlp.common.tools module orkgnlp.common.tools.downloader module orkgnlp.common.tools.loader module orkgnlp.common.util module orkgnlp.common.util.datastructure module orkgnlp.common.util.decorators module orkgnlp.common.util.exceptions module orkgnlp.common.util.io module orkgnlp.common.util.text module orkgnlp.deepresearch module orkgnlp.deepresearch.client module orkgnlp.deepresearch.config module orkgnlp.deepresearch.deepresearch module orkgnlp.deepresearch.encoder module orkgnlp.deepresearch.runner module orkgnlp.deepresearch.textsplitter module orkgnlp.nli module orkgnlp.nli.templates module orkgnlp.nli.templates.decoder module orkgnlp.nli.templates.encoder module orkgnlp.nli.templates.recommender module ORKGNLPBaseConfig (class in orkgnlp.common.service.base) ORKGNLPBaseDecoder (class in orkgnlp.common.service.base) ORKGNLPBaseEncoder (class in orkgnlp.common.service.base) ORKGNLPBaseRunner (class in orkgnlp.common.service.base) ORKGNLPBaseService (class in orkgnlp.common.service.base) ORKGNLPIllegalStateError ORKGNLPONNXRunner (class in orkgnlp.common.service.runners) ORKGNLPTorchRunner (class in orkgnlp.common.service.runners) ORKGNLPUnknownServiceError ORKGNLPValidationError

P

PipelineExecutor (class in orkgnlp.common.service.base) PipelineExecutorComponent (class in orkgnlp.common.service.base) pop() (StrictDict method)

popitem() (StrictDict method) PredicatesRecommender (class in orkgnlp.clustering.predicates.recommender) PredicatesRecommenderDecoder (class in orkgnlp.clustering.predicates.decoder)

R

read_csv() (in module orkgnlp.common.util.io) read_df_from_json() (in module orkgnlp.common.util.io) read_json() (in module orkgnlp.common.util.io) read_onnx() (in module orkgnlp.common.util.io) read_pickle() (in module orkgnlp.common.util.io) RecursiveCharacterTextSplitter (class in orkgnlp.deepresearch.textsplitter) release_memory() (AgriNer method) (AgriNerDecoder method) (BioassaysSemantifier method) (BioassaysSemantifierDecoder method) (CSNer method) (CSNerDecoder method) (CSNerEncoder method) (DeepResearch method) (DeepResearchEncoder method) (DeepResearchRunner method) (ORKGNLPBaseDecoder method) (ORKGNLPBaseEncoder method) (ORKGNLPBaseRunner method) (ORKGNLPBaseService method) (ORKGNLPONNXRunner method) (ORKGNLPTorchRunner method) (PipelineExecutor method) (PipelineExecutorComponent method) (PredicatesRecommender method) (PredicatesRecommenderDecoder method) (ResearchFieldClassifier method) (ResearchFieldClassifierDecoder method) (ResearchFieldClassifierEncoder method) (TdmExtractor method) (TdmExtractorDecoder method) (TdmExtractorEncoder method) (TemplatesRecommender method) (TemplatesRecommenderDecoder method) (TemplatesRecommenderEncoder method) (TfidfKmeansEncoder method) (TransformerKmeansEncoder method)

ResearchFieldClassifier (class in orkgnlp.annotation.rfclf.classifier) ResearchFieldClassifierDecoder (class in orkgnlp.annotation.rfclf.decoder) ResearchFieldClassifierEncoder (class in orkgnlp.annotation.rfclf.encoder) run() (DeepResearchRunner method) (ORKGNLPBaseRunner method) (ORKGNLPONNXRunner method) (ORKGNLPTorchRunner method) (PipelineExecutor method)

S

sanitize_text() (in module orkgnlp.common.util.decorators) set_data_cache_root() (in module orkgnlp.common.config.context) set_verbosity() (in module orkgnlp.common.config.context) setdefault() (StrictDict method)

singleton() (in module orkgnlp.common.util.decorators) split_text() (RecursiveCharacterTextSplitter method) (TextSplitter method) StrictDict (class in orkgnlp.common.util.datastructure) system_prompt() (in module orkgnlp.deepresearch.runner)

T

TdmDataset (class in orkgnlp.annotation.tdm.encoder) TdmExtractor (class in orkgnlp.annotation.tdm.extractor) TdmExtractorDecoder (class in orkgnlp.annotation.tdm.decoder) TdmExtractorEncoder (class in orkgnlp.annotation.tdm.encoder) TemplatesRecommender (class in orkgnlp.nli.templates.recommender)

TemplatesRecommenderDecoder (class in orkgnlp.nli.templates.decoder) TemplatesRecommenderEncoder (class in orkgnlp.nli.templates.encoder) TextSplitter (class in orkgnlp.deepresearch.textsplitter) TfidfKmeansEncoder (class in orkgnlp.clustering.encoders) TransformerKmeansEncoder (class in orkgnlp.clustering.encoders) trim_prompt() (in module orkgnlp.deepresearch.runner)

U

update() (StrictDict method)

V

values() (StrictDict method)

W

write_final_answer() (DeepResearchRunner method)

write_final_report() (DeepResearchRunner method)