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run_python_analysis
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__version__
config
main
scripts
scripts.ai_assistant.agent_graph
scripts.ai_assistant.agent_prompts
scripts.ai_assistant.agent_tools
scripts.ai_assistant.analytical_engine
scripts.ai_assistant.cli
scripts.ai_assistant.file_access
scripts.ai_assistant.keystore
scripts.ai_assistant.phi_safe
scripts.ai_assistant.sandbox.limits
scripts.ai_assistant.sandbox.replicate
scripts.ai_assistant.sandbox.runner
scripts.ai_assistant.study_knowledge
scripts.ai_assistant.tool_cache
scripts.ai_assistant.ui.chat
scripts.ai_assistant.ui.conversations
scripts.ai_assistant.ui.model_policy
scripts.ai_assistant.ui.providers
scripts.ai_assistant.ui.shell
scripts.ai_assistant.ui.state
scripts.ai_assistant.ui.streaming
scripts.ai_assistant.ui.wizard
scripts.ai_assistant.web_ui
scripts.artifact_versions
scripts.extraction.build_variables_reference
scripts.extraction.cleanup_propagation
scripts.extraction.dataset_cleanup
scripts.extraction.dataset_pipeline
scripts.extraction.dedup
scripts.extraction.extract_pdf_data
scripts.extraction.io.clinical_dates
scripts.extraction.io.file_discovery
scripts.extraction.io.file_io
scripts.extraction.io.jsonl_reader
scripts.extraction.load_dictionary
scripts.extraction.pdf_pipeline
scripts.lint_doc_freshness
scripts.security.kanon_gate
scripts.security.phi_allowlist
scripts.security.phi_gate
scripts.security.phi_patterns
scripts.security.phi_scrub
scripts.security.secure_env
scripts.utils.errors
scripts.utils.integrity
scripts.utils.lineage
scripts.utils.llm_capabilities
scripts.utils.log_hygiene
scripts.utils.logging_system
scripts.utils.secure_staging
scripts.utils.snapshots
scripts.utils.step_cache
scripts.utils.telemetry