LICENSE
README.md
pyproject.toml
src/tooluniverse/__init__.py
src/tooluniverse/admetai_tool.py
src/tooluniverse/agentic_tool.py
src/tooluniverse/alphafold_tool.py
src/tooluniverse/base_tool.py
src/tooluniverse/boltz_tool.py
src/tooluniverse/chem_tool.py
src/tooluniverse/compose_tool.py
src/tooluniverse/ctg_tool.py
src/tooluniverse/custom_tool.py
src/tooluniverse/dailymed_tool.py
src/tooluniverse/dataset_tool.py
src/tooluniverse/default_config.py
src/tooluniverse/efo_tool.py
src/tooluniverse/embedding_database.py
src/tooluniverse/embedding_sync.py
src/tooluniverse/enrichr_tool.py
src/tooluniverse/europe_pmc_tool.py
src/tooluniverse/execute_function.py
src/tooluniverse/extended_hooks.py
src/tooluniverse/gene_ontology_tool.py
src/tooluniverse/graphql_tool.py
src/tooluniverse/gwas_tool.py
src/tooluniverse/hpa_tool.py
src/tooluniverse/humanbase_tool.py
src/tooluniverse/llm_clients.py
src/tooluniverse/logging_config.py
src/tooluniverse/mcp_client_tool.py
src/tooluniverse/mcp_integration.py
src/tooluniverse/mcp_tool_registry.py
src/tooluniverse/medlineplus_tool.py
src/tooluniverse/openalex_tool.py
src/tooluniverse/openfda_adv_tool.py
src/tooluniverse/openfda_tool.py
src/tooluniverse/output_hook.py
src/tooluniverse/package_tool.py
src/tooluniverse/pubchem_tool.py
src/tooluniverse/pubtator_tool.py
src/tooluniverse/rcsb_pdb_tool.py
src/tooluniverse/reactome_tool.py
src/tooluniverse/remote_tool.py
src/tooluniverse/restful_tool.py
src/tooluniverse/semantic_scholar_tool.py
src/tooluniverse/smcp.py
src/tooluniverse/smcp_server.py
src/tooluniverse/tool_finder_embedding.py
src/tooluniverse/tool_finder_keyword.py
src/tooluniverse/tool_finder_llm.py
src/tooluniverse/tool_graph_web_ui.py
src/tooluniverse/tool_registry.py
src/tooluniverse/uniprot_tool.py
src/tooluniverse/url_tool.py
src/tooluniverse/uspto_tool.py
src/tooluniverse/utils.py
src/tooluniverse/xml_tool.py
src/tooluniverse.egg-info/PKG-INFO
src/tooluniverse.egg-info/SOURCES.txt
src/tooluniverse.egg-info/dependency_links.txt
src/tooluniverse.egg-info/entry_points.txt
src/tooluniverse.egg-info/requires.txt
src/tooluniverse.egg-info/top_level.txt
src/tooluniverse/compose_scripts/__init__.py
src/tooluniverse/compose_scripts/biomarker_discovery.py
src/tooluniverse/compose_scripts/comprehensive_drug_discovery.py
src/tooluniverse/compose_scripts/drug_safety_analyzer.py
src/tooluniverse/compose_scripts/literature_tool.py
src/tooluniverse/compose_scripts/output_summarizer.py
src/tooluniverse/compose_scripts/tool_description_optimizer.py
src/tooluniverse/compose_scripts/tool_discover.py
src/tooluniverse/compose_scripts/tool_graph_composer.py
src/tooluniverse/compose_scripts/tool_graph_generation.py
src/tooluniverse/compose_scripts/tool_metadata_generator.py
src/tooluniverse/data/__init__.py
src/tooluniverse/data/admetai_tools.json
src/tooluniverse/data/adverse_event_tools.json
src/tooluniverse/data/agentic_tools.json
src/tooluniverse/data/alphafold_tools.json
src/tooluniverse/data/boltz_tools.json
src/tooluniverse/data/chembl_tools.json
src/tooluniverse/data/clinicaltrials_gov_tools.json
src/tooluniverse/data/compose_tools.json
src/tooluniverse/data/dailymed_tools.json
src/tooluniverse/data/dataset_tools.json
src/tooluniverse/data/disease_target_score_tools.json
src/tooluniverse/data/efo_tools.json
src/tooluniverse/data/embedding_tools.json
src/tooluniverse/data/enrichr_tools.json
src/tooluniverse/data/europe_pmc_tools.json
src/tooluniverse/data/expert_feedback_tools.json
src/tooluniverse/data/fda_drug_adverse_event_tools.json
src/tooluniverse/data/fda_drug_labeling_tools.json
src/tooluniverse/data/fda_drugs_with_brand_generic_names_for_tool.py
src/tooluniverse/data/finder_tools.json
src/tooluniverse/data/gene_ontology_tools.json
src/tooluniverse/data/gwas_tools.json
src/tooluniverse/data/hpa_tools.json
src/tooluniverse/data/humanbase_tools.json
src/tooluniverse/data/idmap_tools.json
src/tooluniverse/data/mcp_client_tools_example.json
src/tooluniverse/data/mcpautoloadertool_defaults.json
src/tooluniverse/data/medlineplus_tools.json
src/tooluniverse/data/monarch_tools.json
src/tooluniverse/data/openalex_tools.json
src/tooluniverse/data/opentarget_tools.json
src/tooluniverse/data/output_summarization_tools.json
src/tooluniverse/data/pubchem_tools.json
src/tooluniverse/data/pubtator_tools.json
src/tooluniverse/data/rcsb_pdb_tools.json
src/tooluniverse/data/reactome_tools.json
src/tooluniverse/data/semantic_scholar_tools.json
src/tooluniverse/data/special_tools.json
src/tooluniverse/data/tool_composition_tools.json
src/tooluniverse/data/toolfinderkeyword_defaults.json
src/tooluniverse/data/txagent_client_tools.json
src/tooluniverse/data/uniprot_tools.json
src/tooluniverse/data/url_fetch_tools.json
src/tooluniverse/data/uspto_downloader_tools.json
src/tooluniverse/data/uspto_tools.json
src/tooluniverse/data/xml_tools.json
src/tooluniverse/data/packages/bioinformatics_core_tools.json
src/tooluniverse/data/packages/categorized_tools.txt
src/tooluniverse/data/packages/cheminformatics_tools.json
src/tooluniverse/data/packages/earth_sciences_tools.json
src/tooluniverse/data/packages/genomics_tools.json
src/tooluniverse/data/packages/image_processing_tools.json
src/tooluniverse/data/packages/machine_learning_tools.json
src/tooluniverse/data/packages/neuroscience_tools.json
src/tooluniverse/data/packages/original_tools.txt
src/tooluniverse/data/packages/physics_astronomy_tools.json
src/tooluniverse/data/packages/scientific_computing_tools.json
src/tooluniverse/data/packages/single_cell_tools.json
src/tooluniverse/data/packages/structural_biology_tools.json
src/tooluniverse/data/packages/visualization_tools.json
src/tooluniverse/remote/boltz/boltz_mcp_server.py
src/tooluniverse/remote/depmap_24q2/depmap_24q2_mcp_tool.py
src/tooluniverse/remote/expert_feedback/human_expert_mcp_tools.py
src/tooluniverse/remote/expert_feedback/simple_test.py
src/tooluniverse/remote/expert_feedback/start_web_interface.py
src/tooluniverse/remote/expert_feedback/web_only_interface.py
src/tooluniverse/remote/immune_compass/compass_tool.py
src/tooluniverse/remote/pinnacle/pinnacle_tool.py
src/tooluniverse/remote/transcriptformer/transcriptformer_tool.py
src/tooluniverse/remote/uspto_downloader/uspto_downloader_mcp_server.py
src/tooluniverse/remote/uspto_downloader/uspto_downloader_tool.py
src/tooluniverse/scripts/filter_tool_files.py
src/tooluniverse/scripts/generate_tool_graph.py
src/tooluniverse/scripts/visualize_tool_graph.py
src/tooluniverse/test/list_azure_openai_models.py
src/tooluniverse/test/mcp_server_test.py
src/tooluniverse/test/test_admetai_tool.py
src/tooluniverse/test/test_agentic_tool.py
src/tooluniverse/test/test_agentic_tool_azure_models.py
src/tooluniverse/test/test_alphafold_tool.py
src/tooluniverse/test/test_api_key_validation_min.py
src/tooluniverse/test/test_chem_tool.py
src/tooluniverse/test/test_compose_lieraturereview.py
src/tooluniverse/test/test_compose_tool.py
src/tooluniverse/test/test_dailymed.py
src/tooluniverse/test/test_dataset_tool.py
src/tooluniverse/test/test_disease_target_score.py
src/tooluniverse/test/test_drugbank_filter_examples.py
src/tooluniverse/test/test_efo.py
src/tooluniverse/test/test_enrichr_tool.py
src/tooluniverse/test/test_europe_pmc_tool.py
src/tooluniverse/test/test_fda_adv.py
src/tooluniverse/test/test_fda_drug_labeling.py
src/tooluniverse/test/test_gene_ontology_tools.py
src/tooluniverse/test/test_global_fallback.py
src/tooluniverse/test/test_gwas_tool.py
src/tooluniverse/test/test_hooks_direct.py
src/tooluniverse/test/test_hpa.py
src/tooluniverse/test/test_humanbase_tool.py
src/tooluniverse/test/test_idmap_tools.py
src/tooluniverse/test/test_list_built_in_tools.py
src/tooluniverse/test/test_mcp_server.py
src/tooluniverse/test/test_mcp_tool.py
src/tooluniverse/test/test_medlineplus.py
src/tooluniverse/test/test_openalex_tool.py
src/tooluniverse/test/test_opentargets.py
src/tooluniverse/test/test_pubchem_tool.py
src/tooluniverse/test/test_pubtator_tool.py
src/tooluniverse/test/test_rcsb_pdb_tool.py
src/tooluniverse/test/test_reactome.py
src/tooluniverse/test/test_semantic_scholar_tool.py
src/tooluniverse/test/test_software_tools.py
src/tooluniverse/test/test_stdio_hooks.py
src/tooluniverse/test/test_tool_description_optimizer.py
src/tooluniverse/test/test_tool_finder.py
src/tooluniverse/test/test_tool_finder_llm.py
src/tooluniverse/test/test_tools_find.py
src/tooluniverse/test/test_uniprot_tools.py
src/tooluniverse/test/test_uspto_tool.py
src/tooluniverse/test/test_xml_tool.py