tooluniverse¶
- tooluniverse package
ToolUniverseToolUniverse.all_toolsToolUniverse.all_tool_dictToolUniverse.tool_category_dictsToolUniverse.tool_filesToolUniverse.callable_functionsToolUniverse.__init__()ToolUniverse.register_custom_tool()ToolUniverse.force_full_discovery()ToolUniverse.get_lazy_loading_status()ToolUniverse.get_tool_types()ToolUniverse.generate_env_template()ToolUniverse.load_tools()ToolUniverse.select_tools()ToolUniverse.filter_tool_lists()ToolUniverse.return_all_loaded_tools()ToolUniverse.list_built_in_tools()ToolUniverse.refresh_tool_name_desc()ToolUniverse.prepare_one_tool_prompt()ToolUniverse.prepare_tool_prompts()ToolUniverse.remove_keys()ToolUniverse.prepare_tool_examples()ToolUniverse.get_tool_specification_by_names()ToolUniverse.get_tool_by_name()ToolUniverse.get_one_tool_by_one_name()ToolUniverse.tool_specification()ToolUniverse.get_tool_description()ToolUniverse.get_tool_type_by_name()ToolUniverse.tool_to_str()ToolUniverse.extract_function_call_json()ToolUniverse.call_id_gen()ToolUniverse.run()ToolUniverse.run_one_function()ToolUniverse.toggle_hooks()ToolUniverse.init_tool()ToolUniverse.check_function_call()ToolUniverse.export_tool_names()ToolUniverse.discover_mcp_tools()ToolUniverse.get_available_tools()ToolUniverse.list_mcp_connections()ToolUniverse.load_mcp_tools()ToolUniverse.find_tools_by_pattern()ToolUniverse.load_tools_from_names_list()
BaseToolregister_tool()get_tool_registry()MonarchToolMonarchDiseasesForMultiplePhenoToolClinicalTrialsSearchToolClinicalTrialsDetailsToolOpentargetToolOpentargetGeneticsToolOpentargetToolDrugNameMatchDiseaseTargetScoreToolFDADrugLabelToolFDADrugLabelSearchToolFDADrugLabelSearchIDToolFDADrugLabelGetDrugGenericNameToolFDADrugAdverseEventToolFDACountAdditiveReactionsToolChEMBLToolComposeToolEuropePMCToolSemanticScholarToolPubTatorToolEFOToolAgenticToolAgenticTool.has_any_api_keys()AgenticTool.__init__()AgenticTool.run()AgenticTool.get_prompt_preview()AgenticTool.get_model_info()AgenticTool.is_available()AgenticTool.get_availability_status()AgenticTool.retry_initialization()AgenticTool.get_prompt_template()AgenticTool.get_input_arguments()AgenticTool.validate_configuration()AgenticTool.estimate_token_usage()
DatasetToolSearchSPLToolGetSPLBySetIDToolHPAGetGeneJSONToolHPAGetGeneXMLToolReactomeRESTToolPubChemRESTToolMedlinePlusRESTToolUniProtRESTToolUniProtRESTTool.__init__()UniProtRESTTool.run()UniProtRESTTool.get_entry_by_accession()UniProtRESTTool.get_function_by_accession()UniProtRESTTool.get_names_taxonomy_by_accession()UniProtRESTTool.get_subcellular_location_by_accession()UniProtRESTTool.get_disease_variants_by_accession()UniProtRESTTool.get_ptm_processing_by_accession()UniProtRESTTool.get_sequence_isoforms_by_accession()
PackageToolSMCPcreate_smcp_server()USPTOOpenDataPortalToolXMLDatasetToolToolFinderKeywordToolFinderLLMURLHTMLTagToolURLToPDFTextToolRCSBToolGWASAssociationSearchGWASStudySearchGWASSNPSearchGWASAssociationByIDGWASStudyByIDGWASSNPByIDGWASVariantsForTraitGWASAssociationsForTraitGWASAssociationsForSNPGWASStudiesForTraitGWASSNPsForGeneGWASAssociationsForStudyMCPClientToolMCPAutoLoaderToolADMETAIToolEmbeddingDatabaseEmbeddingSyncToolFinderEmbeddingToolFinderEmbedding.rag_model_nameToolFinderEmbedding.rag_modelToolFinderEmbedding.tool_desc_embeddingToolFinderEmbedding.tool_nameToolFinderEmbedding.tool_embedding_pathToolFinderEmbedding.special_tools_nameToolFinderEmbedding.tooluniverseToolFinderEmbedding.__init__()ToolFinderEmbedding.load_rag_model()ToolFinderEmbedding.load_tool_desc_embedding()ToolFinderEmbedding.rag_infer()ToolFinderEmbedding.find_tools()ToolFinderEmbedding.run()
AlphaFoldRESTToolODPHPMyHealthfinderODPHPItemListODPHPTopicSearchODPHPOutlinkFetch- Subpackages
- tooluniverse.compose_scripts package
- Submodules
- tooluniverse.compose_scripts.biomarker_discovery module
- tooluniverse.compose_scripts.comprehensive_drug_discovery module
- tooluniverse.compose_scripts.drug_safety_analyzer module
- tooluniverse.compose_scripts.literature_tool module
- tooluniverse.compose_scripts.output_summarizer module
- tooluniverse.compose_scripts.tool_description_optimizer module
- tooluniverse.compose_scripts.tool_discover module
- tooluniverse.compose_scripts.tool_graph_composer module
- tooluniverse.compose_scripts.tool_graph_generation module
- tooluniverse.compose_scripts.tool_metadata_generator module
- Submodules
- tooluniverse.data package
- tooluniverse.compose_scripts package
- Submodules
- tooluniverse.admetai_tool module
- tooluniverse.agentic_tool module
datetimedatetime.hourdatetime.minutedatetime.seconddatetime.microseconddatetime.tzinfodatetime.folddatetime.fromtimestamp()datetime.utcfromtimestamp()datetime.now()datetime.utcnow()datetime.combine()datetime.fromisoformat()datetime.timetuple()datetime.timestamp()datetime.utctimetuple()datetime.date()datetime.time()datetime.timetz()datetime.replace()datetime.astimezone()datetime.ctime()datetime.isoformat()datetime.__repr__()datetime.__str__()datetime.strptime()datetime.utcoffset()datetime.tzname()datetime.dst()datetime.maxdatetime.mindatetime.resolution
BaseToolregister_tool()get_logger()AzureOpenAIClientGeminiClientAgenticToolAgenticTool.has_any_api_keys()AgenticTool.__init__()AgenticTool.run()AgenticTool.get_prompt_preview()AgenticTool.get_model_info()AgenticTool.is_available()AgenticTool.get_availability_status()AgenticTool.retry_initialization()AgenticTool.get_prompt_template()AgenticTool.get_input_arguments()AgenticTool.validate_configuration()AgenticTool.estimate_token_usage()
- tooluniverse.alphafold_tool module
- tooluniverse.base_tool module
extract_function_call_json()evaluate_function_call()PathPath.cwd()Path.home()Path.samefile()Path.iterdir()Path.glob()Path.rglob()Path.absolute()Path.resolve()Path.stat()Path.owner()Path.group()Path.open()Path.read_bytes()Path.read_text()Path.write_bytes()Path.write_text()Path.readlink()Path.touch()Path.mkdir()Path.chmod()Path.lchmod()Path.unlink()Path.rmdir()Path.lstat()Path.rename()Path.replace()Path.symlink_to()Path.hardlink_to()Path.link_to()Path.exists()Path.is_dir()Path.is_file()Path.is_mount()Path.is_symlink()Path.is_block_device()Path.is_char_device()Path.is_fifo()Path.is_socket()Path.expanduser()
no_type_check()ToolExecutionErrorValidationErrorAuthenticationErrorRateLimitErrorBaseTool
- tooluniverse.boltz_tool module
- tooluniverse.chem_tool module
quote()BaseToolregister_tool()IndigoIndigo.ABSIndigo.ORIndigo.ANDIndigo.EITHERIndigo.UPIndigo.DOWNIndigo.CISIndigo.TRANSIndigo.CHAINIndigo.RINGIndigo.ALLENEIndigo.SINGLETIndigo.DOUBLETIndigo.TRIPLETIndigo.RC_NOT_CENTERIndigo.RC_UNMARKEDIndigo.RC_CENTERIndigo.RC_UNCHANGEDIndigo.RC_MADE_OR_BROKENIndigo.RC_ORDER_CHANGEDIndigo.SG_TYPE_GENIndigo.SG_TYPE_DATIndigo.SG_TYPE_SUPIndigo.SG_TYPE_SRUIndigo.SG_TYPE_MULIndigo.SG_TYPE_MONIndigo.SG_TYPE_MERIndigo.SG_TYPE_COPIndigo.SG_TYPE_CROIndigo.SG_TYPE_MODIndigo.SG_TYPE_GRAIndigo.SG_TYPE_COMIndigo.SG_TYPE_MIXIndigo.SG_TYPE_FORIndigo.SG_TYPE_ANYIndigo.getSessionId()Indigo.__init__()Indigo.deserialize()Indigo.unserialize()Indigo.setOption()Indigo.getOption()Indigo.getOptionInt()Indigo.getOptionBool()Indigo.getOptionFloat()Indigo.getOptionType()Indigo.resetOptions()Indigo.convertToArray()Indigo.dbgBreakpoint()Indigo.version()Indigo.versionInfo()Indigo.countReferences()Indigo.writeFile()Indigo.writeBuffer()Indigo.createMolecule()Indigo.createQueryMolecule()Indigo.loadMolecule()Indigo.loadMoleculeFromFile()Indigo.loadMoleculeFromBuffer()Indigo.loadMoleculeWithLib()Indigo.loadMoleculeWithLibFromFile()Indigo.loadMoleculeWithLibFromBuffer()Indigo.loadQueryMolecule()Indigo.loadQueryMoleculeFromFile()Indigo.loadQueryMoleculeWithLib()Indigo.loadQueryMoleculeWithLibFromFile()Indigo.loadSmarts()Indigo.loadSmartsFromFile()Indigo.loadMonomerLibrary()Indigo.loadMonomerLibraryFromFile()Indigo.loadKetDocument()Indigo.loadKetDocumentFromFile()Indigo.loadSequence()Indigo.loadSequenceFromFile()Indigo.loadFasta()Indigo.loadFastaFromFile()Indigo.loadIdt()Indigo.loadIdtFromFile()Indigo.loadHelm()Indigo.loadHelmFromFile()Indigo.loadReaction()Indigo.loadReactionFromFile()Indigo.loadQueryReaction()Indigo.loadQueryReactionFromFile()Indigo.loadReactionWithLib()Indigo.loadReactionFromFileWithLib()Indigo.loadQueryReactionWithLib()Indigo.loadQueryReactionFromFileWithLib()Indigo.loadReactionSmarts()Indigo.loadReactionSmartsFromFile()Indigo.loadStructure()Indigo.loadStructureFromBuffer()Indigo.loadStructureFromFile()Indigo.checkStructure()Indigo.loadFingerprintFromBuffer()Indigo.loadFingerprintFromDescriptors()Indigo.createReaction()Indigo.createQueryReaction()Indigo.exactMatch()Indigo.setTautomerRule()Indigo.removeTautomerRule()Indigo.clearTautomerRules()Indigo.commonBits()Indigo.similarity()Indigo.iterateSDFile()Indigo.iterateRDFile()Indigo.iterateSmilesFile()Indigo.iterateCMLFile()Indigo.iterateCDXFile()Indigo.createFileSaver()Indigo.createSaver()Indigo.createArray()Indigo.substructureMatcher()Indigo.extractCommonScaffold()Indigo.decomposeMolecules()Indigo.rgroupComposition()Indigo.getFragmentedMolecule()Indigo.createDecomposer()Indigo.reactionProductEnumerate()Indigo.transform()Indigo.loadBuffer()Indigo.loadString()Indigo.iterateSDF()Indigo.iterateSmiles()Indigo.iterateCML()Indigo.iterateCDX()Indigo.iterateRDF()Indigo.iterateTautomers()Indigo.nameToStructure()Indigo.buildPkaModel()Indigo.transformHELMtoSCSR()Indigo.check()
ChEMBLTool
- tooluniverse.compose_tool module
- tooluniverse.ctg_tool module
- tooluniverse.custom_tool module
- tooluniverse.dailymed_tool module
- tooluniverse.dataset_tool module
- tooluniverse.default_config module
- tooluniverse.efo_tool module
- tooluniverse.embedding_database module
PathPath.cwd()Path.home()Path.samefile()Path.iterdir()Path.glob()Path.rglob()Path.absolute()Path.resolve()Path.stat()Path.owner()Path.group()Path.open()Path.read_bytes()Path.read_text()Path.write_bytes()Path.write_text()Path.readlink()Path.touch()Path.mkdir()Path.chmod()Path.lchmod()Path.unlink()Path.rmdir()Path.lstat()Path.rename()Path.replace()Path.symlink_to()Path.hardlink_to()Path.link_to()Path.exists()Path.is_dir()Path.is_file()Path.is_mount()Path.is_symlink()Path.is_block_device()Path.is_char_device()Path.is_fifo()Path.is_socket()Path.expanduser()
OpenAIOpenAI.__init__()OpenAI.audioOpenAI.auth_headersOpenAI.batchesOpenAI.betaOpenAI.chatOpenAI.completionsOpenAI.containersOpenAI.conversationsOpenAI.copy()OpenAI.default_headersOpenAI.embeddingsOpenAI.evalsOpenAI.filesOpenAI.fine_tuningOpenAI.imagesOpenAI.modelsOpenAI.moderationsOpenAI.qsOpenAI.realtimeOpenAI.responsesOpenAI.uploadsOpenAI.vector_storesOpenAI.webhooksOpenAI.with_options()OpenAI.with_raw_responseOpenAI.with_streaming_responseOpenAI.api_keyOpenAI.organizationOpenAI.projectOpenAI.webhook_secretOpenAI.websocket_base_url
AzureOpenAIBaseToolregister_tool()get_logger()EmbeddingDatabase
- tooluniverse.embedding_sync module
PathPath.cwd()Path.home()Path.samefile()Path.iterdir()Path.glob()Path.rglob()Path.absolute()Path.resolve()Path.stat()Path.owner()Path.group()Path.open()Path.read_bytes()Path.read_text()Path.write_bytes()Path.write_text()Path.readlink()Path.touch()Path.mkdir()Path.chmod()Path.lchmod()Path.unlink()Path.rmdir()Path.lstat()Path.rename()Path.replace()Path.symlink_to()Path.hardlink_to()Path.link_to()Path.exists()Path.is_dir()Path.is_file()Path.is_mount()Path.is_symlink()Path.is_block_device()Path.is_char_device()Path.is_fifo()Path.is_socket()Path.expanduser()
datetimedatetime.hourdatetime.minutedatetime.seconddatetime.microseconddatetime.tzinfodatetime.folddatetime.fromtimestamp()datetime.utcfromtimestamp()datetime.now()datetime.utcnow()datetime.combine()datetime.fromisoformat()datetime.timetuple()datetime.timestamp()datetime.utctimetuple()datetime.date()datetime.time()datetime.timetz()datetime.replace()datetime.astimezone()datetime.ctime()datetime.isoformat()datetime.__repr__()datetime.__str__()datetime.strptime()datetime.utcoffset()datetime.tzname()datetime.dst()datetime.maxdatetime.mindatetime.resolution
HfApiHfApi.__init__()HfApi.run_as_future()HfApi.whoami()HfApi.get_token_permission()HfApi.get_model_tags()HfApi.get_dataset_tags()HfApi.list_models()HfApi.list_datasets()HfApi.list_spaces()HfApi.unlike()HfApi.list_liked_repos()HfApi.list_repo_likers()HfApi.model_info()HfApi.dataset_info()HfApi.space_info()HfApi.repo_info()HfApi.repo_exists()HfApi.revision_exists()HfApi.file_exists()HfApi.list_repo_files()HfApi.list_repo_tree()HfApi.list_repo_refs()HfApi.list_repo_commits()HfApi.get_paths_info()HfApi.super_squash_history()HfApi.list_lfs_files()HfApi.permanently_delete_lfs_files()HfApi.create_repo()HfApi.delete_repo()HfApi.update_repo_visibility()HfApi.update_repo_settings()HfApi.move_repo()HfApi.create_commit()HfApi.preupload_lfs_files()HfApi.upload_file()HfApi.upload_folder()HfApi.delete_file()HfApi.delete_files()HfApi.delete_folder()HfApi.upload_large_folder()HfApi.get_hf_file_metadata()HfApi.hf_hub_download()HfApi.snapshot_download()HfApi.get_safetensors_metadata()HfApi.parse_safetensors_file_metadata()HfApi.create_branch()HfApi.delete_branch()HfApi.create_tag()HfApi.delete_tag()HfApi.get_full_repo_name()HfApi.get_repo_discussions()HfApi.get_discussion_details()HfApi.create_discussion()HfApi.create_pull_request()HfApi.comment_discussion()HfApi.rename_discussion()HfApi.change_discussion_status()HfApi.merge_pull_request()HfApi.edit_discussion_comment()HfApi.hide_discussion_comment()HfApi.add_space_secret()HfApi.delete_space_secret()HfApi.get_space_variables()HfApi.add_space_variable()HfApi.delete_space_variable()HfApi.get_space_runtime()HfApi.request_space_hardware()HfApi.set_space_sleep_time()HfApi.pause_space()HfApi.restart_space()HfApi.duplicate_space()HfApi.request_space_storage()HfApi.delete_space_storage()HfApi.list_inference_endpoints()HfApi.create_inference_endpoint()HfApi.create_inference_endpoint_from_catalog()HfApi.list_inference_catalog()HfApi.get_inference_endpoint()HfApi.update_inference_endpoint()HfApi.delete_inference_endpoint()HfApi.pause_inference_endpoint()HfApi.resume_inference_endpoint()HfApi.scale_to_zero_inference_endpoint()HfApi.list_collections()HfApi.get_collection()HfApi.create_collection()HfApi.update_collection_metadata()HfApi.delete_collection()HfApi.add_collection_item()HfApi.update_collection_item()HfApi.delete_collection_item()HfApi.list_pending_access_requests()HfApi.list_accepted_access_requests()HfApi.list_rejected_access_requests()HfApi.cancel_access_request()HfApi.accept_access_request()HfApi.reject_access_request()HfApi.grant_access()HfApi.get_webhook()HfApi.list_webhooks()HfApi.create_webhook()HfApi.update_webhook()HfApi.enable_webhook()HfApi.disable_webhook()HfApi.delete_webhook()HfApi.get_user_overview()HfApi.list_organization_members()HfApi.list_user_followers()HfApi.list_user_following()HfApi.list_papers()HfApi.paper_info()HfApi.auth_check()HfApi.run_job()HfApi.fetch_job_logs()HfApi.list_jobs()HfApi.inspect_job()HfApi.cancel_job()HfApi.run_uv_job()HfApi.create_scheduled_job()HfApi.list_scheduled_jobs()HfApi.inspect_scheduled_job()HfApi.delete_scheduled_job()HfApi.suspend_scheduled_job()HfApi.resume_scheduled_job()HfApi.create_scheduled_uv_job()
upload_folder()snapshot_download()HfHubHTTPErrorBaseToolregister_tool()get_logger()EmbeddingSync
- tooluniverse.enrichr_tool module
- tooluniverse.europe_pmc_tool module
- tooluniverse.execute_function module
read_json_list()evaluate_function_call()extract_function_call_json()auto_discover_tools()get_tool_registry()register_external_tool()get_tool_class_lazy()get_logger()debug()info()warning()error()set_log_level()HookManagerget_default_hook_config()ToolUniverseToolUniverse.all_toolsToolUniverse.all_tool_dictToolUniverse.tool_category_dictsToolUniverse.tool_filesToolUniverse.callable_functionsToolUniverse.__init__()ToolUniverse.register_custom_tool()ToolUniverse.force_full_discovery()ToolUniverse.get_lazy_loading_status()ToolUniverse.get_tool_types()ToolUniverse.generate_env_template()ToolUniverse.load_tools()ToolUniverse.select_tools()ToolUniverse.filter_tool_lists()ToolUniverse.return_all_loaded_tools()ToolUniverse.list_built_in_tools()ToolUniverse.refresh_tool_name_desc()ToolUniverse.prepare_one_tool_prompt()ToolUniverse.prepare_tool_prompts()ToolUniverse.remove_keys()ToolUniverse.prepare_tool_examples()ToolUniverse.get_tool_specification_by_names()ToolUniverse.get_tool_by_name()ToolUniverse.get_one_tool_by_one_name()ToolUniverse.tool_specification()ToolUniverse.get_tool_description()ToolUniverse.get_tool_type_by_name()ToolUniverse.tool_to_str()ToolUniverse.extract_function_call_json()ToolUniverse.call_id_gen()ToolUniverse.run()ToolUniverse.run_one_function()ToolUniverse.toggle_hooks()ToolUniverse.init_tool()ToolUniverse.check_function_call()ToolUniverse.export_tool_names()ToolUniverse.discover_mcp_tools()ToolUniverse.get_available_tools()ToolUniverse.list_mcp_connections()ToolUniverse.load_mcp_tools()ToolUniverse.find_tools_by_pattern()ToolUniverse.load_tools_from_names_list()
- tooluniverse.extended_hooks module
- tooluniverse.gene_ontology_tool module
- tooluniverse.graphql_tool module
- tooluniverse.gwas_tool module
- tooluniverse.hpa_tool module
BaseToolregister_tool()HPASearchApiToolHPAJsonApiToolHPAXmlApiToolHPAGetRnaExpressionBySourceToolHPAGetSubcellularLocationToolHPASearchGenesToolHPAGetComparativeExpressionToolHPAGetDiseaseExpressionToolHPAGetBiologicalProcessToolHPAGetCancerPrognosticsToolHPAGetProteinInteractionsToolHPAGetRnaExpressionByTissueToolHPAGetContextualBiologicalProcessToolHPAGetGenePageDetailsToolHPAGetGeneJSONToolHPAGetGeneXMLTool
- tooluniverse.humanbase_tool module
- tooluniverse.llm_clients module
- tooluniverse.logging_config module
- tooluniverse.mcp_client_tool module
- tooluniverse.mcp_integration module
- tooluniverse.mcp_tool_registry module
- tooluniverse.medlineplus_tool module
- tooluniverse.odphp_tool module
BaseToolregister_tool()BeautifulSoupBeautifulSoup.ROOT_TAG_NAMEBeautifulSoup.DEFAULT_BUILDER_FEATURESBeautifulSoup.ASCII_SPACESBeautifulSoup.original_encodingBeautifulSoup.declared_html_encodingBeautifulSoup.contains_replacement_charactersBeautifulSoup.__init__()BeautifulSoup.is_xmlBeautifulSoup.copy_self()BeautifulSoup.reset()BeautifulSoup.new_tag()BeautifulSoup.string_container()BeautifulSoup.new_string()BeautifulSoup.insert_before()BeautifulSoup.insert_after()BeautifulSoup.decode()
ODPHPRESTToolODPHPMyHealthfinderODPHPItemListODPHPTopicSearchODPHPOutlinkFetch
- tooluniverse.openalex_tool module
- tooluniverse.openfda_adv_tool module
- tooluniverse.openfda_tool module
- tooluniverse.output_hook module
PathPath.cwd()Path.home()Path.samefile()Path.iterdir()Path.glob()Path.rglob()Path.absolute()Path.resolve()Path.stat()Path.owner()Path.group()Path.open()Path.read_bytes()Path.read_text()Path.write_bytes()Path.write_text()Path.readlink()Path.touch()Path.mkdir()Path.chmod()Path.lchmod()Path.unlink()Path.rmdir()Path.lstat()Path.rename()Path.replace()Path.symlink_to()Path.hardlink_to()Path.link_to()Path.exists()Path.is_dir()Path.is_file()Path.is_mount()Path.is_symlink()Path.is_block_device()Path.is_char_device()Path.is_fifo()Path.is_socket()Path.expanduser()
HookRuleOutputHookSummarizationHookHookManagerFileSaveHook
- tooluniverse.package_tool module
- tooluniverse.pubchem_tool module
- tooluniverse.pubtator_tool module
PathPath.cwd()Path.home()Path.samefile()Path.iterdir()Path.glob()Path.rglob()Path.absolute()Path.resolve()Path.stat()Path.owner()Path.group()Path.open()Path.read_bytes()Path.read_text()Path.write_bytes()Path.write_text()Path.readlink()Path.touch()Path.mkdir()Path.chmod()Path.lchmod()Path.unlink()Path.rmdir()Path.lstat()Path.rename()Path.replace()Path.symlink_to()Path.hardlink_to()Path.link_to()Path.exists()Path.is_dir()Path.is_file()Path.is_mount()Path.is_symlink()Path.is_block_device()Path.is_char_device()Path.is_fifo()Path.is_socket()Path.expanduser()
BaseToolregister_tool()PubTatorTool
- tooluniverse.rcsb_pdb_tool module
- tooluniverse.reactome_tool module
- tooluniverse.remote_tool module
- tooluniverse.restful_tool module
- tooluniverse.semantic_scholar_tool module
- tooluniverse.smcp module
- Usage Patterns:
- Architecture:
- Integration Points:
ThreadPoolExecutorFastMCPFastMCP.__init__()FastMCP.__repr__()FastMCP.settingsFastMCP.nameFastMCP.instructionsFastMCP.versionFastMCP.run_async()FastMCP.run()FastMCP.add_middleware()FastMCP.get_tools()FastMCP.get_tool()FastMCP.get_resources()FastMCP.get_resource()FastMCP.get_resource_templates()FastMCP.get_resource_template()FastMCP.get_prompts()FastMCP.get_prompt()FastMCP.custom_route()FastMCP.add_tool()FastMCP.remove_tool()FastMCP.add_tool_transformation()FastMCP.remove_tool_transformation()FastMCP.tool()FastMCP.add_resource()FastMCP.add_template()FastMCP.add_resource_fn()FastMCP.resource()FastMCP.add_prompt()FastMCP.prompt()FastMCP.run_stdio_async()FastMCP.run_http_async()FastMCP.run_sse_async()FastMCP.sse_app()FastMCP.streamable_http_app()FastMCP.http_app()FastMCP.run_streamable_http_async()FastMCP.mount()FastMCP.import_server()FastMCP.from_openapi()FastMCP.from_fastapi()FastMCP.as_proxy()FastMCP.from_client()FastMCP.generate_name()
ToolUniverseToolUniverse.all_toolsToolUniverse.all_tool_dictToolUniverse.tool_category_dictsToolUniverse.tool_filesToolUniverse.callable_functionsToolUniverse.__init__()ToolUniverse.register_custom_tool()ToolUniverse.force_full_discovery()ToolUniverse.get_lazy_loading_status()ToolUniverse.get_tool_types()ToolUniverse.generate_env_template()ToolUniverse.load_tools()ToolUniverse.select_tools()ToolUniverse.filter_tool_lists()ToolUniverse.return_all_loaded_tools()ToolUniverse.list_built_in_tools()ToolUniverse.refresh_tool_name_desc()ToolUniverse.prepare_one_tool_prompt()ToolUniverse.prepare_tool_prompts()ToolUniverse.remove_keys()ToolUniverse.prepare_tool_examples()ToolUniverse.get_tool_specification_by_names()ToolUniverse.get_tool_by_name()ToolUniverse.get_one_tool_by_one_name()ToolUniverse.tool_specification()ToolUniverse.get_tool_description()ToolUniverse.get_tool_type_by_name()ToolUniverse.tool_to_str()ToolUniverse.extract_function_call_json()ToolUniverse.call_id_gen()ToolUniverse.run()ToolUniverse.run_one_function()ToolUniverse.toggle_hooks()ToolUniverse.init_tool()ToolUniverse.check_function_call()ToolUniverse.export_tool_names()ToolUniverse.discover_mcp_tools()ToolUniverse.get_available_tools()ToolUniverse.list_mcp_connections()ToolUniverse.load_mcp_tools()ToolUniverse.find_tools_by_pattern()ToolUniverse.load_tools_from_names_list()
get_logger()SMCPcreate_smcp_server()
- tooluniverse.smcp_server module
- tooluniverse.tool_finder_embedding module
SentenceTransformerSentenceTransformer.model_card_data_classSentenceTransformer.__init__()SentenceTransformer.get_backend()SentenceTransformer.get_model_kwargs()SentenceTransformer.encode_query()SentenceTransformer.encode_document()SentenceTransformer.encode()SentenceTransformer.forward()SentenceTransformer.similarity_fn_nameSentenceTransformer.similaritySentenceTransformer.similarity_pairwiseSentenceTransformer.start_multi_process_pool()SentenceTransformer.stop_multi_process_pool()SentenceTransformer.encode_multi_process()SentenceTransformer.set_pooling_include_prompt()SentenceTransformer.get_max_seq_length()SentenceTransformer.tokenize()SentenceTransformer.get_sentence_features()SentenceTransformer.get_sentence_embedding_dimension()SentenceTransformer.truncate_sentence_embeddings()SentenceTransformer.save()SentenceTransformer.save_pretrained()SentenceTransformer.save_to_hub()SentenceTransformer.push_to_hub()SentenceTransformer.evaluate()SentenceTransformer.load()SentenceTransformer.deviceSentenceTransformer.tokenizerSentenceTransformer.max_seq_lengthSentenceTransformer.transformers_modelSentenceTransformer.dtypeSentenceTransformer.gradient_checkpointing_enable()
get_md5()BaseToolregister_tool()ToolFinderEmbeddingToolFinderEmbedding.rag_model_nameToolFinderEmbedding.rag_modelToolFinderEmbedding.tool_desc_embeddingToolFinderEmbedding.tool_nameToolFinderEmbedding.tool_embedding_pathToolFinderEmbedding.special_tools_nameToolFinderEmbedding.tooluniverseToolFinderEmbedding.__init__()ToolFinderEmbedding.load_rag_model()ToolFinderEmbedding.load_tool_desc_embedding()ToolFinderEmbedding.rag_infer()ToolFinderEmbedding.find_tools()ToolFinderEmbedding.run()
- tooluniverse.tool_finder_keyword module
CounterCounter.__init__()Counter.__missing__()Counter.total()Counter.most_common()Counter.elements()Counter.fromkeys()Counter.update()Counter.subtract()Counter.copy()Counter.__delitem__()Counter.__eq__()Counter.__ne__()Counter.__le__()Counter.__lt__()Counter.__ge__()Counter.__gt__()Counter.__repr__()Counter.__add__()Counter.__sub__()Counter.__or__()Counter.__and__()Counter.__pos__()Counter.__neg__()Counter.__iadd__()Counter.__isub__()Counter.__ior__()Counter.__iand__()
defaultdictBaseToolregister_tool()ToolFinderKeyword
- tooluniverse.tool_finder_llm module
datetimedatetime.hourdatetime.minutedatetime.seconddatetime.microseconddatetime.tzinfodatetime.folddatetime.fromtimestamp()datetime.utcfromtimestamp()datetime.now()datetime.utcnow()datetime.combine()datetime.fromisoformat()datetime.timetuple()datetime.timestamp()datetime.utctimetuple()datetime.date()datetime.time()datetime.timetz()datetime.replace()datetime.astimezone()datetime.ctime()datetime.isoformat()datetime.__repr__()datetime.__str__()datetime.strptime()datetime.utcoffset()datetime.tzname()datetime.dst()datetime.maxdatetime.mindatetime.resolution
BaseToolregister_tool()AgenticToolAgenticTool.has_any_api_keys()AgenticTool.__init__()AgenticTool.run()AgenticTool.get_prompt_preview()AgenticTool.get_model_info()AgenticTool.is_available()AgenticTool.get_availability_status()AgenticTool.retry_initialization()AgenticTool.get_prompt_template()AgenticTool.get_input_arguments()AgenticTool.validate_configuration()AgenticTool.estimate_token_usage()
ToolFinderLLM
- tooluniverse.tool_graph_web_ui module
FlaskFlask.default_configFlask.request_classFlask.response_classFlask.session_interfaceFlask.__init__()Flask.cliFlask.get_send_file_max_age()Flask.send_static_file()Flask.open_resource()Flask.open_instance_resource()Flask.create_jinja_environment()Flask.create_url_adapter()Flask.update_template_context()Flask.make_shell_context()Flask.run()Flask.test_client()Flask.test_cli_runner()Flask.handle_http_exception()Flask.handle_user_exception()Flask.handle_exception()Flask.log_exception()Flask.dispatch_request()Flask.full_dispatch_request()Flask.finalize_request()Flask.make_default_options_response()Flask.ensure_sync()Flask.async_to_sync()Flask.url_for()Flask.make_response()Flask.preprocess_request()Flask.process_response()Flask.do_teardown_request()Flask.do_teardown_appcontext()Flask.app_context()Flask.request_context()Flask.test_request_context()Flask.wsgi_app()Flask.__call__()
render_template()jsonify()ToolGraphWebUIcreate_web_ui_files()
- tooluniverse.tool_registry module
- tooluniverse.uniprot_tool module
BaseToolregister_tool()UniProtRESTToolUniProtRESTTool.__init__()UniProtRESTTool.run()UniProtRESTTool.get_entry_by_accession()UniProtRESTTool.get_function_by_accession()UniProtRESTTool.get_names_taxonomy_by_accession()UniProtRESTTool.get_subcellular_location_by_accession()UniProtRESTTool.get_disease_variants_by_accession()UniProtRESTTool.get_ptm_processing_by_accession()UniProtRESTTool.get_sequence_isoforms_by_accession()
- tooluniverse.url_tool module
- tooluniverse.uspto_tool module
HTTPAdapterHTTPAdapter.__init__()HTTPAdapter.init_poolmanager()HTTPAdapter.proxy_manager_for()HTTPAdapter.cert_verify()HTTPAdapter.build_response()HTTPAdapter.build_connection_pool_key_attributes()HTTPAdapter.get_connection_with_tls_context()HTTPAdapter.get_connection()HTTPAdapter.close()HTTPAdapter.request_url()HTTPAdapter.add_headers()HTTPAdapter.proxy_headers()HTTPAdapter.send()
RetryRetry.DEFAULT_ALLOWED_METHODSRetry.RETRY_AFTER_STATUS_CODESRetry.DEFAULT_REMOVE_HEADERS_ON_REDIRECTRetry.DEFAULT_BACKOFF_MAXRetry.DEFAULTRetry.__init__()Retry.new()Retry.from_int()Retry.get_backoff_time()Retry.parse_retry_after()Retry.get_retry_after()Retry.sleep_for_retry()Retry.sleep()Retry.is_retry()Retry.is_exhausted()Retry.increment()Retry.__repr__()
BaseToolregister_tool()load_dotenv()find_dotenv()USPTOOpenDataPortalTool
- tooluniverse.utils module
hf_hub_download()ModelMetaclassdownload_from_hf()get_md5()yaml_to_dict()read_json_list()evaluate_function_call()evaluate_function_call_from_toolbox()compare_function_calls()extract_function_call_json()validate_query()normalize_gene_symbol()format_api_response()validate_hook_config()validate_hook_conditions()
- tooluniverse.xml_tool module