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refactor: split backend into harness (deerflow.*) and app (app.*) (#1131)
* refactor: extract shared utils to break harness→app cross-layer imports Move _validate_skill_frontmatter to src/skills/validation.py and CONVERTIBLE_EXTENSIONS + convert_file_to_markdown to src/utils/file_conversion.py. This eliminates the two reverse dependencies from client.py (harness layer) into gateway/routers/ (app layer), preparing for the harness/app package split. Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com> * refactor: split backend/src into harness (deerflow.*) and app (app.*) Physically split the monolithic backend/src/ package into two layers: - **Harness** (`packages/harness/deerflow/`): publishable agent framework package with import prefix `deerflow.*`. Contains agents, sandbox, tools, models, MCP, skills, config, and all core infrastructure. - **App** (`app/`): unpublished application code with import prefix `app.*`. Contains gateway (FastAPI REST API) and channels (IM integrations). Key changes: - Move 13 harness modules to packages/harness/deerflow/ via git mv - Move gateway + channels to app/ via git mv - Rename all imports: src.* → deerflow.* (harness) / app.* (app layer) - Set up uv workspace with deerflow-harness as workspace member - Update langgraph.json, config.example.yaml, all scripts, Docker files - Add build-system (hatchling) to harness pyproject.toml - Add PYTHONPATH=. to gateway startup commands for app.* resolution - Update ruff.toml with known-first-party for import sorting - Update all documentation to reflect new directory structure Boundary rule enforced: harness code never imports from app. All 429 tests pass. Lint clean. Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com> * chore: add harness→app boundary check test and update docs Add test_harness_boundary.py that scans all Python files in packages/harness/deerflow/ and fails if any `from app.*` or `import app.*` statement is found. This enforces the architectural rule that the harness layer never depends on the app layer. Update CLAUDE.md to document the harness/app split architecture, import conventions, and the boundary enforcement test. Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com> * feat: add config versioning with auto-upgrade on startup When config.example.yaml schema changes, developers' local config.yaml files can silently become outdated. This adds a config_version field and auto-upgrade mechanism so breaking changes (like src.* → deerflow.* renames) are applied automatically before services start. - Add config_version: 1 to config.example.yaml - Add startup version check warning in AppConfig.from_file() - Add scripts/config-upgrade.sh with migration registry for value replacements - Add `make config-upgrade` target - Auto-run config-upgrade in serve.sh and start-daemon.sh before starting services - Add config error hints in service failure messages Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com> * fix comments * fix: update src.* import in test_sandbox_tools_security to deerflow.* Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com> * fix: handle empty config and search parent dirs for config.example.yaml Address Copilot review comments on PR #1131: - Guard against yaml.safe_load() returning None for empty config files - Search parent directories for config.example.yaml instead of only looking next to config.yaml, fixing detection in common setups Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com> * fix: correct skills root path depth and config_version type coercion - loader.py: fix get_skills_root_path() to use 5 parent levels (was 3) after harness split, file lives at packages/harness/deerflow/skills/ so parent×3 resolved to backend/packages/harness/ instead of backend/ - app_config.py: coerce config_version to int() before comparison in _check_config_version() to prevent TypeError when YAML stores value as string (e.g. config_version: "1") - tests: add regression tests for both fixes Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com> * fix: update test imports from src.* to deerflow.*/app.* after harness refactor Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com> --------- Co-authored-by: Claude Opus 4.6 <noreply@anthropic.com>
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import logging
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from langchain.agents import create_agent
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from langchain.agents.middleware import SummarizationMiddleware
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from langchain_core.runnables import RunnableConfig
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from deerflow.agents.lead_agent.prompt import apply_prompt_template
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from deerflow.agents.middlewares.clarification_middleware import ClarificationMiddleware
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from deerflow.agents.middlewares.loop_detection_middleware import LoopDetectionMiddleware
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from deerflow.agents.middlewares.memory_middleware import MemoryMiddleware
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from deerflow.agents.middlewares.subagent_limit_middleware import SubagentLimitMiddleware
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from deerflow.agents.middlewares.title_middleware import TitleMiddleware
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from deerflow.agents.middlewares.todo_middleware import TodoMiddleware
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from deerflow.agents.middlewares.tool_error_handling_middleware import build_lead_runtime_middlewares
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from deerflow.agents.middlewares.view_image_middleware import ViewImageMiddleware
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from deerflow.agents.thread_state import ThreadState
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from deerflow.config.agents_config import load_agent_config
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from deerflow.config.app_config import get_app_config
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from deerflow.config.summarization_config import get_summarization_config
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from deerflow.models import create_chat_model
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logger = logging.getLogger(__name__)
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def _resolve_model_name(requested_model_name: str | None = None) -> str:
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"""Resolve a runtime model name safely, falling back to default if invalid. Returns None if no models are configured."""
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app_config = get_app_config()
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default_model_name = app_config.models[0].name if app_config.models else None
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if default_model_name is None:
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raise ValueError("No chat models are configured. Please configure at least one model in config.yaml.")
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if requested_model_name and app_config.get_model_config(requested_model_name):
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return requested_model_name
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if requested_model_name and requested_model_name != default_model_name:
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logger.warning(f"Model '{requested_model_name}' not found in config; fallback to default model '{default_model_name}'.")
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return default_model_name
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def _create_summarization_middleware() -> SummarizationMiddleware | None:
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"""Create and configure the summarization middleware from config."""
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config = get_summarization_config()
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if not config.enabled:
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return None
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# Prepare trigger parameter
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trigger = None
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if config.trigger is not None:
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if isinstance(config.trigger, list):
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trigger = [t.to_tuple() for t in config.trigger]
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else:
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trigger = config.trigger.to_tuple()
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# Prepare keep parameter
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keep = config.keep.to_tuple()
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# Prepare model parameter
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if config.model_name:
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model = config.model_name
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else:
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# Use a lightweight model for summarization to save costs
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# Falls back to default model if not explicitly specified
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model = create_chat_model(thinking_enabled=False)
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# Prepare kwargs
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kwargs = {
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"model": model,
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"trigger": trigger,
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"keep": keep,
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}
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if config.trim_tokens_to_summarize is not None:
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kwargs["trim_tokens_to_summarize"] = config.trim_tokens_to_summarize
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if config.summary_prompt is not None:
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kwargs["summary_prompt"] = config.summary_prompt
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return SummarizationMiddleware(**kwargs)
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def _create_todo_list_middleware(is_plan_mode: bool) -> TodoMiddleware | None:
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"""Create and configure the TodoList middleware.
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Args:
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is_plan_mode: Whether to enable plan mode with TodoList middleware.
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Returns:
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TodoMiddleware instance if plan mode is enabled, None otherwise.
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"""
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if not is_plan_mode:
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return None
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# Custom prompts matching DeerFlow's style
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system_prompt = """
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<todo_list_system>
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You have access to the `write_todos` tool to help you manage and track complex multi-step objectives.
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**CRITICAL RULES:**
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- Mark todos as completed IMMEDIATELY after finishing each step - do NOT batch completions
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- Keep EXACTLY ONE task as `in_progress` at any time (unless tasks can run in parallel)
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- Update the todo list in REAL-TIME as you work - this gives users visibility into your progress
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- DO NOT use this tool for simple tasks (< 3 steps) - just complete them directly
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**When to Use:**
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This tool is designed for complex objectives that require systematic tracking:
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- Complex multi-step tasks requiring 3+ distinct steps
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- Non-trivial tasks needing careful planning and execution
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- User explicitly requests a todo list
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- User provides multiple tasks (numbered or comma-separated list)
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- The plan may need revisions based on intermediate results
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**When NOT to Use:**
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- Single, straightforward tasks
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- Trivial tasks (< 3 steps)
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- Purely conversational or informational requests
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- Simple tool calls where the approach is obvious
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**Best Practices:**
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- Break down complex tasks into smaller, actionable steps
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- Use clear, descriptive task names
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- Remove tasks that become irrelevant
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- Add new tasks discovered during implementation
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- Don't be afraid to revise the todo list as you learn more
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**Task Management:**
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Writing todos takes time and tokens - use it when helpful for managing complex problems, not for simple requests.
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</todo_list_system>
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"""
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tool_description = """Use this tool to create and manage a structured task list for complex work sessions.
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**IMPORTANT: Only use this tool for complex tasks (3+ steps). For simple requests, just do the work directly.**
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## When to Use
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Use this tool in these scenarios:
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1. **Complex multi-step tasks**: When a task requires 3 or more distinct steps or actions
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2. **Non-trivial tasks**: Tasks requiring careful planning or multiple operations
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3. **User explicitly requests todo list**: When the user directly asks you to track tasks
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4. **Multiple tasks**: When users provide a list of things to be done
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5. **Dynamic planning**: When the plan may need updates based on intermediate results
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## When NOT to Use
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Skip this tool when:
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1. The task is straightforward and takes less than 3 steps
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2. The task is trivial and tracking provides no benefit
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3. The task is purely conversational or informational
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4. It's clear what needs to be done and you can just do it
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## How to Use
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1. **Starting a task**: Mark it as `in_progress` BEFORE beginning work
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2. **Completing a task**: Mark it as `completed` IMMEDIATELY after finishing
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3. **Updating the list**: Add new tasks, remove irrelevant ones, or update descriptions as needed
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4. **Multiple updates**: You can make several updates at once (e.g., complete one task and start the next)
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## Task States
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- `pending`: Task not yet started
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- `in_progress`: Currently working on (can have multiple if tasks run in parallel)
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- `completed`: Task finished successfully
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## Task Completion Requirements
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**CRITICAL: Only mark a task as completed when you have FULLY accomplished it.**
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Never mark a task as completed if:
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- There are unresolved issues or errors
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- Work is partial or incomplete
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- You encountered blockers preventing completion
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- You couldn't find necessary resources or dependencies
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- Quality standards haven't been met
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If blocked, keep the task as `in_progress` and create a new task describing what needs to be resolved.
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## Best Practices
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- Create specific, actionable items
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- Break complex tasks into smaller, manageable steps
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- Use clear, descriptive task names
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- Update task status in real-time as you work
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- Mark tasks complete IMMEDIATELY after finishing (don't batch completions)
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- Remove tasks that are no longer relevant
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- **IMPORTANT**: When you write the todo list, mark your first task(s) as `in_progress` immediately
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- **IMPORTANT**: Unless all tasks are completed, always have at least one task `in_progress` to show progress
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Being proactive with task management demonstrates thoroughness and ensures all requirements are completed successfully.
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**Remember**: If you only need a few tool calls to complete a task and it's clear what to do, it's better to just do the task directly and NOT use this tool at all.
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"""
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return TodoMiddleware(system_prompt=system_prompt, tool_description=tool_description)
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# ThreadDataMiddleware must be before SandboxMiddleware to ensure thread_id is available
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# UploadsMiddleware should be after ThreadDataMiddleware to access thread_id
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# DanglingToolCallMiddleware patches missing ToolMessages before model sees the history
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# SummarizationMiddleware should be early to reduce context before other processing
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# TodoListMiddleware should be before ClarificationMiddleware to allow todo management
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# TitleMiddleware generates title after first exchange
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# MemoryMiddleware queues conversation for memory update (after TitleMiddleware)
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# ViewImageMiddleware should be before ClarificationMiddleware to inject image details before LLM
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# ToolErrorHandlingMiddleware should be before ClarificationMiddleware to convert tool exceptions to ToolMessages
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# ClarificationMiddleware should be last to intercept clarification requests after model calls
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def _build_middlewares(config: RunnableConfig, model_name: str | None, agent_name: str | None = None):
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"""Build middleware chain based on runtime configuration.
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Args:
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config: Runtime configuration containing configurable options like is_plan_mode.
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agent_name: If provided, MemoryMiddleware will use per-agent memory storage.
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Returns:
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List of middleware instances.
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"""
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middlewares = build_lead_runtime_middlewares(lazy_init=True)
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# Add summarization middleware if enabled
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summarization_middleware = _create_summarization_middleware()
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if summarization_middleware is not None:
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middlewares.append(summarization_middleware)
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# Add TodoList middleware if plan mode is enabled
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is_plan_mode = config.get("configurable", {}).get("is_plan_mode", False)
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todo_list_middleware = _create_todo_list_middleware(is_plan_mode)
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if todo_list_middleware is not None:
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middlewares.append(todo_list_middleware)
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# Add TitleMiddleware
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middlewares.append(TitleMiddleware())
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# Add MemoryMiddleware (after TitleMiddleware)
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middlewares.append(MemoryMiddleware(agent_name=agent_name))
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# Add ViewImageMiddleware only if the current model supports vision.
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# Use the resolved runtime model_name from make_lead_agent to avoid stale config values.
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app_config = get_app_config()
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model_config = app_config.get_model_config(model_name) if model_name else None
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if model_config is not None and model_config.supports_vision:
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middlewares.append(ViewImageMiddleware())
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# Add SubagentLimitMiddleware to truncate excess parallel task calls
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subagent_enabled = config.get("configurable", {}).get("subagent_enabled", False)
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if subagent_enabled:
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max_concurrent_subagents = config.get("configurable", {}).get("max_concurrent_subagents", 3)
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middlewares.append(SubagentLimitMiddleware(max_concurrent=max_concurrent_subagents))
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# LoopDetectionMiddleware — detect and break repetitive tool call loops
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middlewares.append(LoopDetectionMiddleware())
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# ClarificationMiddleware should always be last
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middlewares.append(ClarificationMiddleware())
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return middlewares
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def make_lead_agent(config: RunnableConfig):
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# Lazy import to avoid circular dependency
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from deerflow.tools import get_available_tools
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from deerflow.tools.builtins import setup_agent
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cfg = config.get("configurable", {})
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thinking_enabled = cfg.get("thinking_enabled", True)
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reasoning_effort = cfg.get("reasoning_effort", None)
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requested_model_name: str | None = cfg.get("model_name") or cfg.get("model")
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is_plan_mode = cfg.get("is_plan_mode", False)
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subagent_enabled = cfg.get("subagent_enabled", False)
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max_concurrent_subagents = cfg.get("max_concurrent_subagents", 3)
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is_bootstrap = cfg.get("is_bootstrap", False)
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agent_name = cfg.get("agent_name")
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agent_config = load_agent_config(agent_name) if not is_bootstrap else None
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# Custom agent model or fallback to global/default model resolution
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agent_model_name = agent_config.model if agent_config and agent_config.model else _resolve_model_name()
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# Final model name resolution with request override, then agent config, then global default
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model_name = requested_model_name or agent_model_name
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app_config = get_app_config()
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model_config = app_config.get_model_config(model_name) if model_name else None
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if model_config is None:
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raise ValueError("No chat model could be resolved. Please configure at least one model in config.yaml or provide a valid 'model_name'/'model' in the request.")
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if thinking_enabled and not model_config.supports_thinking:
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logger.warning(f"Thinking mode is enabled but model '{model_name}' does not support it; fallback to non-thinking mode.")
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thinking_enabled = False
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logger.info(
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"Create Agent(%s) -> thinking_enabled: %s, reasoning_effort: %s, model_name: %s, is_plan_mode: %s, subagent_enabled: %s, max_concurrent_subagents: %s",
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agent_name or "default",
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thinking_enabled,
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reasoning_effort,
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model_name,
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is_plan_mode,
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subagent_enabled,
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max_concurrent_subagents,
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)
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# Inject run metadata for LangSmith trace tagging
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if "metadata" not in config:
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config["metadata"] = {}
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config["metadata"].update(
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{
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"agent_name": agent_name or "default",
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"model_name": model_name or "default",
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"thinking_enabled": thinking_enabled,
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"reasoning_effort": reasoning_effort,
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"is_plan_mode": is_plan_mode,
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"subagent_enabled": subagent_enabled,
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}
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)
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if is_bootstrap:
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# Special bootstrap agent with minimal prompt for initial custom agent creation flow
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system_prompt = apply_prompt_template(subagent_enabled=subagent_enabled, max_concurrent_subagents=max_concurrent_subagents, available_skills=set(["bootstrap"]))
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return create_agent(
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model=create_chat_model(name=model_name, thinking_enabled=thinking_enabled),
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tools=get_available_tools(model_name=model_name, subagent_enabled=subagent_enabled) + [setup_agent],
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middleware=_build_middlewares(config, model_name=model_name),
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system_prompt=system_prompt,
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state_schema=ThreadState,
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)
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# Default lead agent (unchanged behavior)
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return create_agent(
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model=create_chat_model(name=model_name, thinking_enabled=thinking_enabled, reasoning_effort=reasoning_effort),
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tools=get_available_tools(model_name=model_name, groups=agent_config.tool_groups if agent_config else None, subagent_enabled=subagent_enabled),
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middleware=_build_middlewares(config, model_name=model_name, agent_name=agent_name),
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system_prompt=apply_prompt_template(subagent_enabled=subagent_enabled, max_concurrent_subagents=max_concurrent_subagents, agent_name=agent_name),
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state_schema=ThreadState,
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)
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